Citrus Sinensis ID: 045113

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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-
Protein Sequence
QQGSDRGDMDINFRLFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMDEINCFTYESEKVIDTFISSITQQKSQSGCREDICDALQGLQSKIIDIKQRMQQLEHIDSRIINELKSIKAQAGNFPASLSFKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTVTLFQFENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSISLEENKREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQPELRQKLREFEDKEQCGIQLYPYGI
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccEEEcHHHHHHHHHHHHccccccEEEEEEccccccHHHHHHHHcccccccccccEEEEEEEcccccHHHHHHHHHHHccccHHHHHHHHHcccccEEEEEEccccHHHHHHHHHHcccccccEEEEEccccHHHHHHccccccccccccHHHHHHHHHHHccccHHHHHHHHHHcccccccHHHHHHHHHHHccccccccccHHHHHccccccccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccEEEEEcccccEEcEEEEcccHHHHHHHHHHHcccEEEccccccccccccEEEEEEEEccccccccccccccEEEEEEEccccccccHHHHHHHHccccEEEEEEccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccccHHHcccccccEEEEccccccccccccccccccccEEccccccccHHHHHcccccccEEEEEccccccccHHHHHHcccccccEEEEEcccccccccEEccccccccccccEEEEEcccccccccccccccccccEEEEEEcEEcccEEEEcccccccccEEEEcccccccEEEEEccccccccEEEEEEccccccccccccccccccEEEEEcccHHHHHHHHHHcccccccEEEEEccc
Secondary Structure Prediction (SSPRO)
ccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHEccccccHHHHHHHHHccccccEEEEEEccccccHHHHHHHHcccHHHHHcccEEEEEEEcccccHHHHHHHHHHHccHHHHHHHHHHHHccccEEEEEEccccHHHHHHHHHHccccccccEEEEEEccHHHHHHHcccccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHcccccccHHHHHHHHHccHHHcccccccHEEEEEEccccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHccEEEEEEEcccccEEEEEHHHHHHHHHHHHHHHcccEEEEcccccccccccEEEEEEEEccccEEccccccccEEEEEEEccccccccHHHHHHHHHHccEEEEEEccccccccccHHHHHHHHHHHEcccccccccccHHHHHHHHHHcEEcccccccccccHHHHHHHHHHEEEEcccccccccccccccHHHHHHccccccccHHHHHHHHHHHHHEEEEEcccccccHHHHHHHHHcccccEEEEEccccccccccccccccccccccEEEEEEccccccccHHHHHHccccEEEEEEcccccccEEEEccccccccEEEEEcccccccEEEEccccccccEEEEEcccHHHHcccccHHHHHHHcEEEEccccHHHHHHHcHccccccEEEEEEcccc
Coil and Loop (DISEMBL)
qqgsdrgdmdINFRLFSERLRRVLAgeevalpdaakqpiQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAedendnpdlrtVMDEINCFTYESEKVIDTFISSITqqksqsgcrEDICDALQGLQSKIIDIKQRMQQLEHIDSRIINELKSIKaqagnfpaslsfknrdtvglDDRMEELLDLLiegppqlsaVTILDSIGLDKTAFAAEAYSGNYvkhyfdchawvqepytcyADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTvtlfqfengqnirldlvptggplrvtyqgwpfhilYHGSISLEENKREAIAKPIFLQSVAycmlpfplklcclylpvfpahlEISTRQLYQLWIAegfipdnseATAEKYLEQLINRGFVEvkkrraggtintcsirsrcwpsLLVVTLNAefvfspildpkgesrkNVKRFFALEqqsdfaylddyyphlhsllyftsesdhldhIDWQKICEMYKLLRVLDLGSLvlnqypseieNLSLLRYLKLnipslkslplSFFNYLLNLytldmpfsyidHTADEFWKMKklrhlnfgsitlpahpgnycgslenlnfisalypccctkdllgrlpnlrnlriqgDLSYNQSLLSKSLCRLSCLESLKlaneskmprlSKIILAeyvfphslthlsfsntdlmddpmpaleklplLQVLKLKqnsysgrkltcgsdgfprlkVLHLKSMLWLEewtmgtgampklecliinpcaylkkMPEQLWCIKSlnnfncwwpqpelRQKLREFEdkeqcgiqlypygi
Flexible Loop (DISEMBL)
qqgsdrgdmdiNFRLFSERLRRVLAGEEVALpdaakqpiqnlHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMDEINCFTYESEKVIDTFISSITQQKSQSGCREDICDALQGLQSKIIDIKQRMQQLEHIDSRIINELKSIKAQagnfpaslsfknrdTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSIEVWDIIREilpdnqngsRVLITLAKIDTVTLFQFENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSISLEENKREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINrgfvevkkrraggtintcsirsrcWPSLLVVTLNAEFVFspildpkgesrKNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKlaneskmprlSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSysgrkltcgsdgfprlKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQPELRQKLREfedkeqcgiqlypygi
Low Complexity Region (SEG)
QQGSDRGDMDINFRLFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMDEINCFTYESEKVIDTFISSITQQKSQSGCREDICDALQGLQSKIIDIKQRMQQLEHIDSRIINELKSIKAQAGNFPASLSFKNRDTVGlddrmeelldllieGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTVTLFQFENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSISLEENKREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKllrvldlgslvlNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDllgrlpnlrnlrIQGDLSYNQsllskslcrlscleslklANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAleklpllqvlklkQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQPELRQKLREFEDKEQCGIQLYPYGI
Disordered region (IsUnstruct)
**********INFRLFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMDEINCFTYESEKVIDTFISSITQQK*QSGCREDICDALQGLQSKIIDIKQRMQQLEHIDSRIINELKSIKAQAGNFPASLSFKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTVTLFQFENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSISLEENKREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQPELRQKLREFEDKEQCGIQLYP***
Disordered Region (DISOPRED)
******G***INFRLFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAE*ENDNPDLRTVMDEINCFTYESEKVIDTFISSITQ****SGCREDICDALQGLQSKIIDIKQRMQQL*************************SFKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTVTLFQFENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSISLEENKREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPIL*********VKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITL*********SLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQP*************QCGIQLYPYGI
Disordered Region (DISEMBL)
********MDINFRLFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMDEINCFTYESEKVIDTFISSI*********REDICDALQGLQSKIIDIKQRMQQLEHIDSRIINELKSIKAQAGNFPASLSFKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTVTLFQFENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSISLEENKREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQPELRQKLREFEDKEQCGIQLYPYGI
Disordered Region (DISPRO)
*****RGDMDINFRLFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMDEINCFTYESEKVIDTFISSITQQKSQSGCREDICDALQGLQSKIIDIKQRMQQLEH********************ASLSFKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTVTLFQFENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSISLEENKREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQPELRQKLREFEDKEQCGIQLYPYGI
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
QQGSDRGDMDINFRLFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMDEINCFTYESEKVIDTFISSITQQKSQSGCREDICDAxxxxxxxxxxxxxxxxxxxxxDSRIINELKSIKAQAGNFPASLSFKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTVTLFQFENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSISLEENKREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQPELRQKLREFEDKEQCGIQLYPYGI
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	821	2.2.26 [Sep-21-2011]
Q9M667	835	Disease resistance protei	yes	no	0.844	0.829	0.273	1e-45
Q9FJB5	901	Disease resistance RPP8-l	no	no	0.881	0.803	0.250	5e-45
Q9FJK8	908	Probable disease resistan	no	no	0.873	0.789	0.248	1e-41
Q8W474	907	Probable disease resistan	no	no	0.903	0.818	0.266	1e-41
P0C8S1	906	Probable disease resistan	no	no	0.850	0.770	0.243	2e-41
P59584	910	Disease resistance protei	no	no	0.876	0.791	0.240	4e-40
Q8W4J9	908	Disease resistance protei	no	no	0.904	0.818	0.238	1e-39
P0DI18	1049	Probable disease resistan	no	no	0.886	0.693	0.250	3e-39
P0DI17	1049	Probable disease resistan	no	no	0.886	0.693	0.250	3e-39
Q9XIF0	906	Putative disease resistan	no	no	0.835	0.757	0.267	1e-38

>sp|Q9M667|RPP13_ARATH Disease resistance protein RPP13 OS=Arabidopsis thaliana GN=RPP13 PE=2 SV=2

 Score =  185 bits (469), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 228/833 (27%), Positives = 354/833 (42%), Gaps = 140/833 (16%)

Query: 27  EEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMDEIN 86
           EE ++  A K+ ++ L  E+  +  +L+D E         +  EDE      + V+D   
Sbjct: 19  EEASMFMAVKEDLEELKTELTCIHGYLKDVE--------AREREDEVSKEWSKLVLD--- 67

Query: 87  CFTYESEKVIDTFISSITQQKSQSGCRE------------DICDALQGLQSKIIDIKQRM 134
            F Y+ E V+DT+   + ++  + G R              I D ++ L+ +I+DI ++ 
Sbjct: 68  -FAYDVEDVLDTYHLKLEERSQRRGLRRLTNKIGRKMDAYSIVDDIRILKRRILDITRKR 126

Query: 135 QQLEHIDSRIINELKSIKAQAGNFPASLSFKN----------RDTVGLDDRMEELLDLLI 184
           +         I  LK  + Q G   +SL  +              VGL+D  + LL+ L+
Sbjct: 127 ETYG------IGGLK--EPQGGGNTSSLRVRQLRRARSVDQEEVVVGLEDDAKILLEKLL 178

Query: 185 EGPPQLS-AVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAW--VQEPYTCYADQILDII 241
           +   +    ++I    GL KTA A + Y+   VK  F+  AW  V + Y    D ++ II
Sbjct: 179 DYEEKNRFIISIFGMGGLGKTALARKLYNSRDVKERFEYRAWTYVSQEYKT-GDILMRII 237

Query: 242 IKFLMPSSRL-------------IILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQN 288
               M S                + L+  L  K+YL+V+DD+W  E WD ++  LP N  
Sbjct: 238 RSLGMTSGEELEKIRKFAEEELEVYLYGLLEGKKYLVVVDDIWEREAWDSLKRALPCNHE 297

Query: 289 GSRVLITLAKIDTVT----------------------LFQ---FENGQNIRLDLVPTGGP 323
           GSRV+IT  +I  V                       LF+   F N Q    DL+ TG  
Sbjct: 298 GSRVIIT-TRIKAVAEGVDGRFYAHKLRFLTFEESWELFEQRAFRNIQRKDEDLLKTGKE 356

Query: 324 LRVTYQGWPFHILYHGSISLEEN---------------KREAIAKPIFLQSVAYCMLPFP 368
           +    +G P  I+    +   +                K ++I     +  +++  L   
Sbjct: 357 MVQKCRGLPLCIVVLAGLLSRKTPSEWNDVCNSLWRRLKDDSIHVAPIVFDLSFKELRHE 416

Query: 369 LKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEK----YLEQLINRGFVEVK 424
            KLC LYL +FP   EI   +L  L +AEGFI  + E   E     Y+E+LI+R  +E  
Sbjct: 417 SKLCFLYLSIFPEDYEIDLEKLIHLLVAEGFIQGDEEMMMEDVARYYIEELIDRSLLEA- 475

Query: 425 KRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAY 484
            RR  G + +C I        +  +    FV          S    +R     Q   ++ 
Sbjct: 476 VRRERGKVMSCRIHDLLRDVAIKKSKELNFVNVYNDHVAQHSSTTCRREVVHHQFKRYSS 535

Query: 485 LDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIE-NLSLL 543
                  + S LYF  E DHL  +D+    E  KLLRVLD GSL L   P +I  +L  L
Sbjct: 536 EKRKNKRMRSFLYF-GEFDHLVGLDF----ETLKLLRVLDFGSLWL---PFKINGDLIHL 587

Query: 544 RYLKLNIPSLKSLP----LSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHL--NFGS 597
           RYL ++  S+        +S   +L  L+  D  F  I+ T D   K+  LRH+  NF  
Sbjct: 588 RYLGIDGNSINDFDIAAIISKLRFLQTLFVSDNYF--IEETID-LRKLTSLRHVIGNF-- 642

Query: 598 ITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQS----LLS 653
                  G   G + NL  ++++      K     L NLR+L I  ++S ++     +  
Sbjct: 643 -----FGGLLIGDVANLQTLTSISFDSWNKLKPELLINLRDLGI-SEMSRSKERRVHVSW 696

Query: 654 KSLCRLSCLESLKLANESKMP---RLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEK 710
            SL +L  L  LKLA  +++       + + +  V   SL  ++       +DPMP L+K
Sbjct: 697 ASLTKLESLRVLKLATPTEVHLSLESEEAVRSMDVISRSLESVTLVGITFEEDPMPFLQK 756

Query: 711 LPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKL 763
           +P L+ L L   +YSG K++    GF RL+ L L  M  L+E  +   AMP L
Sbjct: 757 MPRLEDLILLSCNYSG-KMSVSEQGFGRLRKLDL-LMRSLDELQIEEEAMPNL 807

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. In contrast to other resistance proteins, it works independently of ESD1 and NSD1 proteins and does not require the accumulation of salicylic acid, suggesting the existence of an independent signaling pathway. The specificity to avirulence proteins differs in the different cultivars.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJB5|RP8L3_ARATH Disease resistance RPP8-like protein 3 OS=Arabidopsis thaliana GN=RPP8L3 PE=2 SV=1

 Score =  183 bits (464), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 213/849 (25%), Positives = 354/849 (41%), Gaps = 125/849 (14%)

Query: 64  LLQKIAEDENDNPDLRTVMDEINCFTYESEKVIDTFI--------SSITQQKSQSGC--- 112
           LL+     ++ +  +R  ++++    +++E +I++++          +     +  C   
Sbjct: 44  LLKDADAKKHGSDRVRNFLEDVKDLVFDAEDIIESYVLNKLRGEGKGVKNHVRRLACFLT 103

Query: 113 -REDICDALQGLQSKIIDIKQRMQQLEHIDSRIINELKSIKAQAGNFPASLSFKNR---D 168
            R  +   ++G+  +I  +   MQ L  I  +II+  +S+  Q        +F N    D
Sbjct: 104 DRHKVASDIEGITKRISKVIGEMQSL-GIQQQIIDGGRSLSLQDIQREIRQTFPNSSESD 162

Query: 169 TVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQE 228
            VG++  +EEL+  ++E    +  V+I    G+ KT  A + +  + V+ +FD  AWV  
Sbjct: 163 LVGVEQSVEELVGPMVE-IDNIQVVSISGMGGIGKTTLARQIFHHDLVRRHFDGFAWVCV 221

Query: 229 PYTCYADQILDIIIKFLMPSSRLII----------LHEYLMTKRYLIVIDDVWSIEVWDI 278
                   +   I++ L P    I+          L + L T RYL+V+DDVW  E WD 
Sbjct: 222 SQQFTQKHVWQRILQELRPHDGEILQMDEYTIQGKLFQLLETGRYLVVLDDVWKEEDWDR 281

Query: 279 IREILPDNQNGSRVLIT-----------------LAKI----DTVTLFQ----------F 307
           I+E+ P  + G ++L+T                  A+I    ++  LF+          +
Sbjct: 282 IKEVFP-RKRGWKMLLTSRNEGVGLHADPTCLSFRARILNPKESWKLFERIVPRRNETEY 340

Query: 308 ENGQNIRLDLVP--TGGPLRVTYQG-----------WP-----FHILYHGSISLEENKRE 349
           E  + I  ++V    G PL V   G           W            G   L++N   
Sbjct: 341 EEMEAIGKEMVTYCGGLPLAVKVLGGLLANKHTASEWKRVSENIGAQIVGKSCLDDNSLN 400

Query: 350 AIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEA--T 407
           ++ + +   S++Y  LP  LK C LYL  FP   +I TR LY  W AEG I D      +
Sbjct: 401 SVYRIL---SLSYEDLPTDLKHCFLYLAHFPEDYKIKTRTLYSYWAAEG-IYDGLTILDS 456

Query: 408 AEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESR 467
            E YLE+L+ R  V  +K      +  C +       + +     E     I  P   S 
Sbjct: 457 GEDYLEELVRRNLVIAEKSNLSWRLKLCQMHD-MMREVCISKAKVENFLQIIKVPTSTST 515

Query: 468 ---KNVKRFFALEQQSDFAY-LDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYK---LL 520
              ++  R   L   S  A+ +  +   + SLL    + D      W +    ++   LL
Sbjct: 516 IIAQSPSRSRRLTVHSGKAFHILGHKKKVRSLLVLGLKEDL-----WIQSASRFQSLPLL 570

Query: 521 RVLDLGSLVL--NQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLY-TLDMPFSYI 577
           RVLDL S+     + PS I  L  LR+L L+   +  LP +  N  L LY  L +     
Sbjct: 571 RVLDLSSVKFEGGKLPSSIGGLIHLRFLSLHQAVVSHLPSTIRNLKLMLYLNLHVAIGVP 630

Query: 578 DHTADEFWKMKKLRHLNFGSITLPAHPGNYC--GSLENLNFISALYPCCCTKDLLGRLPN 635
            H  +   +M +LR+L   S+ L  H       G L NL ++        +   L R+  
Sbjct: 631 VHVPNVLKEMLELRYL---SLPLDMHDKTKLELGDLVNLEYLWCFSTQHSSVTDLLRMTK 687

Query: 636 LRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESK-------------MPRLSKIILA 682
           LR   +          LS SL +   LE+L      K                L K+ L 
Sbjct: 688 LRFFGVSFSERCTFENLSSSLRQFRKLETLSFIYSRKTYMVDYVGEFVLDFIHLKKLSLG 747

Query: 683 --------EYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSD 734
                   ++  P  + H+      + +DPMP LEKL  L+ ++L++ ++ GR++ C   
Sbjct: 748 VHLSKIPDQHQLPPHIAHIYLLFCHMEEDPMPILEKLLHLKSVELRRKAFIGRRMVCSKG 807

Query: 735 GFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWW 794
           GFP+L+ L +     LEEW +  G+MP L  LII+ C  L+++P+ L  + SL       
Sbjct: 808 GFPQLRALQISEQSELEEWIVEEGSMPCLRDLIIHSCEKLEELPDGLKYVTSLKELKIEG 867

Query: 795 PQPELRQKL 803
            + E ++KL
Sbjct: 868 MKREWKEKL 876

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJK8|RP8L4_ARATH Probable disease resistance RPP8-like protein 4 OS=Arabidopsis thaliana GN=RPP8L4 PE=2 SV=1

 Score =  172 bits (435), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 215/865 (24%), Positives = 347/865 (40%), Gaps = 148/865 (17%)

Query: 64  LLQKIAEDENDNPDLRTVMDEINCFTYESEKVIDTFISSITQQKSQS------------G 111
           LL+     ++ +  +R  ++++    +++E +I++++ +  + + +              
Sbjct: 44  LLKDADAKKHGSDRVRNFLEDVKDLVFDAEDIIESYVLNKLRGEGKGVKKHVRRLARFLT 103

Query: 112 CREDICDALQGLQSKIIDIKQRMQQLEHIDSRIINELKSIKAQA---------GNFPASL 162
            R  +   ++G+  +I D+   MQ       +II+ ++S+  Q            +P S 
Sbjct: 104 DRHKVASDIEGITKRISDVIGEMQSFG--IQQIIDGVRSLSLQERQRVQREIRQTYPDS- 160

Query: 163 SFKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDC 222
                D VG++  +EEL+  L+E       V+I    G+ KT  A + +  + V+ +FD 
Sbjct: 161 --SESDLVGVEQSVEELVGHLVENDI-YQVVSIAGMGGIGKTTLARQVFHHDLVRRHFDG 217

Query: 223 HAWVQEPYTCYADQILDIIIKFLMPSSRLII----------LHEYLMTKRYLIVIDDVWS 272
            AWV          +   I++ L P    I+          L + L T RYL+V+DDVW 
Sbjct: 218 FAWVCVSQQFTLKHVWQRILQELQPHDGNILQMDESALQPKLFQLLETGRYLLVLDDVWK 277

Query: 273 IEVWDIIREILPDNQNGSRVLITLA--------------------------KIDTVTLFQ 306
            E WD I+ + P  + G ++L+T                            K+    +F 
Sbjct: 278 KEDWDRIKAVFP-RKRGWKMLLTSRNEGVGIHADPTCLTFRASILNPEESWKLCERIVFP 336

Query: 307 FENGQNIRLD--LVPTGGPLRVTYQGWPFHILYHGSI-----SLEENKR--EAIAKPIF- 356
             +   +RLD  +   G  +     G P  +   G +     ++ E KR  + I   I  
Sbjct: 337 RRDETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKRVSDNIGSQIVG 396

Query: 357 --------------LQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPD 402
                         + S++Y  LP  LK   LYL  FP   +I T+ L+  W AEG    
Sbjct: 397 GSCLDDNSLNSVNRILSLSYEDLPTHLKHRFLYLAHFPEDSKIYTQDLFNYWAAEGIYDG 456

Query: 403 NS-EATAEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILD 461
           ++ + + E YLE+L+ R  V    R      N C +        L       F+   I D
Sbjct: 457 STIQDSGEYYLEELVRRNLVIADNRYLSLEFNFCQMHDMMREVCLSKAKEENFL-QIIKD 515

Query: 462 PKGESRKNVK-----RFFALEQQSDFAYLDDYY-PHLHSLLYFTSESDHLDHIDWQKICE 515
           P   S  N +     R F++     F  L     P + SL+    E D      W +   
Sbjct: 516 PTSTSTINAQSPSRSRRFSIHSGKAFHILGHRNNPKVRSLIVSRFEEDF-----WIRSAS 570

Query: 516 MYK---LLRVLDLGSLVL--NQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTL 570
           ++    LLRVLDL  +     + PS I  L  LRYL L    +  LP    + + NL  L
Sbjct: 571 VFHNLTLLRVLDLSRVKFEGGKLPSSIGGLIHLRYLSLYGAVVSHLP----STMRNLKLL 626

Query: 571 DMPFSYID-----HTADEFWKMKKLRHLNFGSITLPAHPGNYC----GSLENLNFISALY 621
                 +D     H  +   +M +LR+L     +LP    +      G L NL ++    
Sbjct: 627 LFLNLRVDNKEPIHVPNVLKEMLELRYL-----SLPQEMDDKTKLELGDLVNLEYLWYFS 681

Query: 622 PCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLK--------------- 666
               +   L R+  LRNL +      N   LS SL  L  LE L                
Sbjct: 682 TQHSSVTDLLRMTKLRNLGVSLSERCNFETLSSSLRELRNLEMLNVLFSPEIVMVDHMGE 741

Query: 667 --------LANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLK 718
                   L       R+SKI   ++ FP  L H+   +  + +DPMP LEKL  L+ + 
Sbjct: 742 FVLDHFIHLKQLGLAVRMSKIP-DQHQFPPHLAHIHLVHCVMKEDPMPILEKLLHLKSVA 800

Query: 719 LKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMP 778
           L   ++ GR++ C   GFP+L  L +     LEEW +  G+MP L  L I+ C  LK++P
Sbjct: 801 LSYGAFIGRRVVCSKGGFPQLCALGISGESELEEWIVEEGSMPCLRTLTIHDCEKLKELP 860

Query: 779 EQLWCIKSLNNFNCWWPQPELRQKL 803
           + L  I SL        + E ++KL
Sbjct: 861 DGLKYITSLKELKIREMKREWKEKL 885

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 =  172 bits (435), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 238/892 (26%), Positives = 378/892 (42%), Gaps = 150/892 (16%)

Query: 24  LAGEEVA-----LPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDL 78
           +AGE V+     L D   Q  +      + VT   RD     S+L  +     ++    +
Sbjct: 1   MAGELVSFGIKKLWDLLSQECEQFQGVEDQVTGLKRDLNLLSSFL--KDADAKKHTTAVV 58

Query: 79  RTVMDEINCFTYESEKVIDTFI--------SSITQQKSQSGC-----REDICDALQGLQS 125
           R V++EI    Y++E +I+T++        S I  +  +  C     R +  D + G+++
Sbjct: 59  RNVVEEIKEIVYDAEDIIETYLLKEKLWKTSGIKMRIRRHACIISDRRRNALD-VGGIRT 117

Query: 126 KIIDIKQRMQQLEHIDSRIIN----ELKSIKAQAGNFPASLSFKNRDTVGLDDRMEELLD 181
           +I D+ + MQ    +   I++    + +  + +      S  +++ D VGL+  +++L+ 
Sbjct: 118 RISDVIRDMQSF-GVQQAIVDGGYMQPQGDRQREMRQTFSKDYES-DFVGLEVNVKKLVG 175

Query: 182 LLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDII 241
            L++    +  V+I    GL KT  A + ++   VKH FD  AWV          +  +I
Sbjct: 176 YLVD-EENVQVVSITGMGGLGKTTLARQVFNHEDVKHQFDRLAWVCVSQEFTRKNVWQMI 234

Query: 242 IKFLMPSSRL--------IILHEYLM----TKRYLIVIDDVWSIEVWDIIREILPDNQNG 289
           ++ L    +           LH+ L     T + LIV DD+W  E WD+I+ I P N+ G
Sbjct: 235 LQNLTSREKKDEILQMEEAELHDKLFQLLETSKSLIVFDDIWKDEDWDLIKPIFPPNK-G 293

Query: 290 SRVLIT---------------------LAKIDTVTLFQF-----ENGQNIRLD------- 316
            +VL+T                     LA  D+ TLFQ      ++    ++D       
Sbjct: 294 WKVLLTSQNESVAVRGDIKYLNFKPECLAIEDSWTLFQRIAFPKKDASESKVDEEMEDMG 353

Query: 317 ---LVPTGG-PLRVTYQG------WPFHILYHGSISLEEN---KREAIAKPIF-LQSVAY 362
              L   GG PL +   G      +  H     S+++  +   +  +    I+ + S+++
Sbjct: 354 KQMLKHCGGLPLAIKVLGGLLAAKYTMHDWERLSVNIGSDIVGRTSSNNSSIYHVLSMSF 413

Query: 363 CMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIP----DNSEA---TAEKYLEQL 415
             LP  LK C LYL  FP   +I+  +L   W AEG        N E      + YLE+L
Sbjct: 414 EELPSYLKHCFLYLAHFPEDHKINVEKLSYCWAAEGISTAEDYHNGETIQDVGQSYLEEL 473

Query: 416 INRGFVEVKKRRAGGTINTCSI----RSRCW-----PSLLVVTLNAEFVFSPILDPKGES 466
           + R  +  ++        TC +    R  C       + L + + +  V S      G S
Sbjct: 474 VRRNMIIWERDATASRFGTCHLHDMMREVCLFKAKEENFLQIAVKSVGVTSS---STGNS 530

Query: 467 RKNVKRFFALEQQSDFAYL--DDYYPHLHSLLYFTSESDHLDHIDWQKICEMY---KLLR 521
           +   +    + Q     ++  D   P L SL+    +   L   +W+ +   +   KLLR
Sbjct: 531 QSPCRSRRLVYQCPTTLHVERDINNPKLRSLVVLWHD---LWVENWKLLGTSFTRLKLLR 587

Query: 522 VLDLGSLVLN--QYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLY-TLDMPFSYID 578
           VLDL  +     + P  I NL  LRYL L    +  LP S  N +L +Y  LD+   +I 
Sbjct: 588 VLDLFYVDFEGMKLPFGIGNLIHLRYLSLQDAKVSHLPSSLGNLMLLIYLNLDVDTEFI- 646

Query: 579 HTADEFWKMKKLRHLNFGSITLPAHPGNYCG-------SLENLNFISALYPCCCTKDLLG 631
              D F +M +LR+L      LP H              LE L + S  +    +KDL G
Sbjct: 647 FVPDVFMRMHELRYLK-----LPLHMHKKTRLSLRNLVKLETLVYFSTWHSS--SKDLCG 699

Query: 632 RLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKL-ANESKMPRLSKIIL--------- 681
            +  L  L I+     +   LS S+  L  LE L +    SK  R   I+L         
Sbjct: 700 -MTRLMTLAIRLTRVTSTETLSASISGLRNLEYLYIVGTHSKKMREEGIVLDFIHLKHLL 758

Query: 682 ------AEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDG 735
                  +  FP  LT +  S   L +DPMP LEKL  L+ + L + SY GR++ C   G
Sbjct: 759 LDLYMPRQQHFPSRLTFVKLSECGLEEDPMPILEKLLHLKGVILLKGSYCGRRMVCSGGG 818

Query: 736 FPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSL 787
           FP+LK L +  +   EEW +  G+MP LE L I  C  LK++P+ L  I SL
Sbjct: 819 FPQLKKLEIVGLNKWEEWLVEEGSMPLLETLSILDCEELKEIPDGLRFIYSL 870

Possible disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8S1|RP8L2_ARATH Probable disease resistance RPP8-like protein 2 OS=Arabidopsis thaliana GN=RPP8L2 PE=1 SV=1

 Score =  171 bits (434), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 208/855 (24%), Positives = 342/855 (40%), Gaps = 157/855 (18%)

Query: 64  LLQKIAEDENDNPDLRTVMDEINCFTYESEKVIDTFI--------SSITQQKSQSGC--- 112
           LL+     +N+   +R  ++++    Y+++ +I++F+          I +Q     C   
Sbjct: 44  LLKDADAKKNETERVRNFLEDVKDIVYDADDIIESFLLNELRGKEKGIKKQVRTLACFLV 103

Query: 113 -REDICDALQGLQSKIIDIKQRMQQL--EHIDSRIINELKSIKAQAGNFPASLSFKNR-- 167
            R      ++G+  +I ++   MQ L  +HI            A  G    SL  + R  
Sbjct: 104 DRRKFASDIEGITKRISEVIVGMQSLGIQHI------------ADGGGRSLSLQERQREI 151

Query: 168 ----------DTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK 217
                     D VGLD  +EEL+D L+E    +  V++    G+ KT  A + +  + V+
Sbjct: 152 RQTFSRNSESDLVGLDQSVEELVDHLVEND-SVQVVSVSGMGGIGKTTLARQVFHHDIVR 210

Query: 218 HYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLII----------LHEYLMTKRYLIVI 267
            +FD  +WV          +   I++ L P    II          L E L + RYL+V+
Sbjct: 211 RHFDGFSWVCVSQQFTRKDVWQRILQDLRPYDEGIIQMDEYTLQGELFELLESGRYLLVL 270

Query: 268 DDVWSIEVWDIIREILPDNQNGSRVLIT-------------------------------- 295
           DDVW  E WD I+ + P ++ G ++L+T                                
Sbjct: 271 DDVWKEEDWDRIKAVFP-HKRGWKMLLTSRNEGLGLHADPTCFAFRPRILTPEQSWKLFE 329

Query: 296 --LAKIDTVTLFQFENGQNIRLDLVPTGGPLRVTYQG-----------WP---FHILYH- 338
             ++     T F+ +      +     G PL V   G           W     +I+ H 
Sbjct: 330 RIVSSRRDKTEFKVDEAMGKEMVTYCGGLPLAVKVLGGLLAKKHTVLEWKRVHSNIVTHI 389

Query: 339 -GSISLEENKREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAE 397
            G   L ++   ++ + +   S++Y  LP  LK C  YL  FP   +I  + L+  W+AE
Sbjct: 390 VGKSGLSDDNSNSVYRVL---SLSYEDLPMQLKHCFFYLAHFPEDYKIDVKILFNYWVAE 446

Query: 398 GFIP---DNS--EATAEKYLEQLINRGFVEVKKRRAGGTINTCSIR--------SRCWPS 444
           G I    D S  + T E YLE+L+ R  V V++      I  C +         S+    
Sbjct: 447 GIITPFHDGSTIQDTGESYLEELVRRNMVVVEESYLTSRIEYCQMHDMMREVCLSKAKEE 506

Query: 445 LLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDH 504
             +  +      S  ++ +   R       +        + D+      S+L F  E   
Sbjct: 507 NFIRVVKVPTTTSTTINAQSPCRSRRLVLHSGNALHMLGHKDN--KKARSVLIFGVEEKF 564

Query: 505 LDHIDWQ-KICEMYKLLRVLDLGSLVL--NQYPSEIENLSLLRYLKLNIPSLKSLPLSFF 561
                W+ +  +   LLRVLDL  +     + PS I +L  LR+L L    +  LP S  
Sbjct: 565 -----WKPRGFQCLPLLRVLDLSYVQFEGGKLPSSIGDLIHLRFLSLYEAGVSHLPSSLG 619

Query: 562 NYLLNLYTLD-MPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISAL 620
           N  L L     +    + H  +   +M++LR+L     ++PA      G L NL  ++  
Sbjct: 620 NLKLLLCLNLGVADRLLVHVPNVLKEMQELRYLRLPR-SMPAKTKLELGDLVNLESLTNF 678

Query: 621 YPCCCTKDLLGRLPNLR--NLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMP---- 674
                +   L R+  L   N+   G+ ++   LLS  L  L  LE+L   +  K+     
Sbjct: 679 STKHGSVTDLLRMTKLSVLNVIFSGECTFETLLLS--LRELRNLETLSFHDFQKVSVANH 736

Query: 675 ----------RLSKIILA--------EYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQV 716
                      L  + L+        +Y FP  L H+      + +DPMP LEKL  L+ 
Sbjct: 737 GGELLVLDFIHLKDLTLSMHLPRFPDQYRFPPHLAHIWLIGCRMEEDPMPILEKLLHLKS 796

Query: 717 LKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKK 776
           + L   ++ GR++ C   GFP+L  L +     L EW +  G+MP L  L I+ C  LK+
Sbjct: 797 VYLSSGAFLGRRMVCSKGGFPQLLALKMSYKKELVEWRVEEGSMPCLRTLTIDNCKKLKQ 856

Query: 777 MPEQL---WCIKSLN 788
           +P+ L    C+K L 
Sbjct: 857 LPDGLKYVTCLKELK 871

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P59584|RP8HA_ARATH Disease resistance protein RPH8A OS=Arabidopsis thaliana GN=RPH8A PE=3 SV=1

 Score =  167 bits (422), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 208/864 (24%), Positives = 349/864 (40%), Gaps = 144/864 (16%)

Query: 64  LLQKIAEDENDNPDLRTVMDEINCFTYESEKVIDTFISSITQQKSQSGCREDICDALQGL 123
           LL+     ++ +  +R  ++++    +++E +I++++ +  + + +      +   ++ L
Sbjct: 44  LLKDADAKKHGSDRVRNFLEDVKDLVFDAEDIIESYVLNKLRGEGKG-----VKKHVRRL 98

Query: 124 QSKIIDIKQRMQQLEHIDSRI---INELKSIKAQA---GNFPASLSFKNR---------- 167
              + D  +    +E I  RI   I E++S   Q    G    SL  + R          
Sbjct: 99  ARFLTDRHKVASDIEGITKRISEVIGEMQSFGIQQIIDGGRSLSLQERQRVQREIRQTYP 158

Query: 168 -----DTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDC 222
                D VG++  + EL+  L+E       V+I    G+ KT  A + +  + V+ +FD 
Sbjct: 159 DSSESDLVGVEQSVTELVCHLVENDVH-QVVSIAGMGGIGKTTLARQVFHHDLVRRHFDG 217

Query: 223 HAWVQEPYTCYADQILDIIIKFLMPSSRLII----------LHEYLMTKRYLIVIDDVWS 272
            AWV          +   I++ L P    I+          L + L T RYL+V+DDVW 
Sbjct: 218 FAWVCVSQQFTQKHVWQRILQELQPHDGEILQMDEYTIQGKLFQLLETGRYLVVLDDVWK 277

Query: 273 IEVWDIIREILPDNQNGSRVLITLA--------------------------KIDTVTLFQ 306
            E WD I+ + P  + G ++L+T                            K+    +F 
Sbjct: 278 KEDWDRIKAVFP-RKRGWKMLLTSRNEGVGIHADPTCLTFRASILNPEESWKLCERIVFP 336

Query: 307 FENGQNIRLD--LVPTGGPLRVTYQGWPFHILYHGSI-----SLEENKR--EAIAKPIF- 356
             +   +RLD  +   G  +     G P  +   G +     ++ E KR  + I   I  
Sbjct: 337 RRDETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKRVSDNIGSQIVG 396

Query: 357 --------------LQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPD 402
                         + S++Y  LP  LK C L+L  +P   +I T+ L+  W AEG    
Sbjct: 397 GSCLDDNSLNSVYRILSLSYEDLPTHLKHCFLHLAHYPEDSKIYTQDLFNYWAAEGIYDG 456

Query: 403 NS-EATAEKYLEQLINRGFVEVKKRR--AGGTINTCSIRSRCWPSLLVVTLNAEFVFSPI 459
           ++ + + E YLE+L+ R  V    R   +   I  C +        L       F+   I
Sbjct: 457 STIQDSGEYYLEELVRRNLVIADNRYLISEFKIKNCQMHDMMREVCLSKAKEENFL-QII 515

Query: 460 LDPKGESRKNVK-----RFFALEQQSDFAYLDDYY-PHLHSLLYFTSESDHLDHIDWQKI 513
            DP   S  N +     R  ++     F  L       + SL+    E D      W + 
Sbjct: 516 KDPTCTSTINAQSPSRSRRLSIHSGKAFHILGHKRNAKVRSLIVSRFEEDF-----WIRS 570

Query: 514 CEMYK---LLRVLDLGSLVL--NQYPSEIENLSLLRYLKL------NIPSLKSLPLSFFN 562
             ++    LLRVLDL  +     + P  I  L  LRYL+L      ++PS          
Sbjct: 571 ASVFHNLTLLRVLDLSWVKFEGGKLPCSIGGLIHLRYLRLYGAVVSHLPSTMRNLKLLLY 630

Query: 563 YLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP 622
             L+++  D+      H  +   +M +LR+L+   + +        G L NL ++     
Sbjct: 631 LNLSVHNEDLI-----HVPNVLKEMIELRYLSI-PVKMDDKTKLELGDLVNLEYLYGFST 684

Query: 623 CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESK---------- 672
              +   L R+  LRNL +     YN   LS SL  L  LE+L +    K          
Sbjct: 685 QHTSVTDLLRMTKLRNLTVSLSERYNFKTLSSSLRELRNLETLYVLFSRKTYMVDHMGEF 744

Query: 673 -------------MPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKL 719
                        + R+SKI   ++ FP  L H+      + +DPMP LEKL  L+ ++L
Sbjct: 745 VLDHFIHLKELGLVVRMSKIP-DQHQFPPHLVHIFLFYCGMEEDPMPILEKLHHLKSVQL 803

Query: 720 KQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPE 779
           +  ++ GR++ C  DGF +L  L +     LE+W +  G+MP L  L I+ C  LK++P+
Sbjct: 804 RYKAFVGRRMVCSKDGFTQLCALDISKQSELEDWIVEEGSMPCLRTLTIHDCEKLKELPD 863

Query: 780 QLWCIKSLNNFNCWWPQPELRQKL 803
            L  I SL        + E ++KL
Sbjct: 864 GLKYITSLKELKIEGMKREWKEKL 887

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. In contrast to RPP8, it does not specifically recognize the Emco5 avirulence protein from Hyaloperonospora parasitica.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8W4J9|RPP8_ARATH Disease resistance protein RPP8 OS=Arabidopsis thaliana GN=RPP8 PE=1 SV=2

 Score =  166 bits (419), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 212/888 (23%), Positives = 359/888 (40%), Gaps = 145/888 (16%)

Query: 37  QPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMDEINCFTYESEKVI 96
           + +Q +  +++ +   LR  +      LL+     ++ +  +R  ++++    +++E +I
Sbjct: 22  ERLQGIDGQLDGLKRQLRSLQS-----LLKDADAKKHGSDRVRNFLEDVKDLVFDAEDII 76

Query: 97  DTFI--------SSITQQKSQSGC----REDICDALQGLQSKIIDIKQRMQQLEHIDSRI 144
           ++++          + +   +  C    R  +   ++G+  +I ++   MQ       +I
Sbjct: 77  ESYVLNKLSGKGKGVKKHVRRLACFLTDRHKVASDIEGITKRISEVIGEMQSFG--IQQI 134

Query: 145 INELKSIKAQA---------GNFPASLSFKNRDTVGLDDRMEELLDLLIEGPPQLSAVTI 195
           I+  +S+  Q            +P S      D VG++  ++EL+  L+E       V+I
Sbjct: 135 IDGGRSLSLQERQRVQREIRQTYPDS---SESDLVGVEQSVKELVGHLVENDVH-QVVSI 190

Query: 196 LDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLII-L 254
               G+ KT  A + +  + V+ +FD  AWV          +   I++ L P    I+ +
Sbjct: 191 AGMGGIGKTTLARQVFHHDLVRRHFDGFAWVCVSQQFTQKHVWQRILQELQPHDGDILQM 250

Query: 255 HEYLMTK---------RYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLA-------- 297
            EY + +         RYL+V+DDVW  E WD+I+ + P  + G ++L+T          
Sbjct: 251 DEYALQRKLFQLLEAGRYLVVLDDVWKKEDWDVIKAVFP-RKRGWKMLLTSRNEGVGIHA 309

Query: 298 ------------------KIDTVTLFQFENGQNIRLD--LVPTGGPLRVTYQGWPFHILY 337
                             K+    +F   +   +RLD  +   G  +     G P  +  
Sbjct: 310 DPTCLTFRASILNPEESWKLCERIVFPRRDETEVRLDEEMEAMGKEMVTHCGGLPLAVKA 369

Query: 338 HGSI-----SLEENKR--EAIAKPIF---------------LQSVAYCMLPFPLKLCCLY 375
            G +     ++ E KR  + I   I                + S++Y  LP  LK C L 
Sbjct: 370 LGGLLANKHTVPEWKRVFDNIGSQIVGGSWLDDNSLNSVYRILSLSYEDLPTHLKHCFLN 429

Query: 376 LPVFPAHLEISTRQLYQLWIAEGFIPDNS-EATAEKYLEQLINRGFVEVKKRRAGGTINT 434
           L  FP   EIST  L+  W AEG    ++ E + E YLE+L+ R  V             
Sbjct: 430 LAHFPEDSEISTYSLFYYWAAEGIYDGSTIEDSGEYYLEELVRRNLVIADDNYLSWQSKY 489

Query: 435 CSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVK-----RFFALEQQSDFAYLDDY- 488
           C +        L       F+   I+DP   S  N +     R  ++     F  L    
Sbjct: 490 CQMHDMMREVCLSKAKEENFL-QIIIDPTCTSTINAQSPSRSRRLSIHSGKAFHILGHKN 548

Query: 489 YPHLHSLLYFTSESDHLDHIDWQKICEMYK---LLRVLDLGSLVL--NQYPSEIENLSLL 543
              + SL+    E D+     W +   ++    LLRVLDL  +     + P  I  L  L
Sbjct: 549 KTKVRSLIVPRFEEDY-----WIRSASVFHNLTLLRVLDLSWVKFEGGKLPCSIGGLIHL 603

Query: 544 RYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYID-----HTADEFWKMKKLRHLNFGSI 598
           RYL L    +  LP    + + NL  L      +D     H  +   +M +LR+L+   +
Sbjct: 604 RYLSLYEAKVSHLP----STMRNLKLLLYLNLRVDTEEPIHVPNVLKEMIQLRYLSL-PL 658

Query: 599 TLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCR 658
            +        G L NL ++        +   L R+  LR L +      N   LS SL  
Sbjct: 659 KMDDKTKLELGDLVNLEYLYGFSTQHSSVTDLLRMTKLRYLAVSLSERCNFETLSSSLRE 718

Query: 659 LSCLESLK--LANESKM---------------------PRLSKIILAEYVFPHSLTHLSF 695
           L  LE+L    + E+ M                      R+SKI   ++ FP  L HL  
Sbjct: 719 LRNLETLNFLFSLETYMVDYMGEFVLDHFIHLKQLGLAVRMSKIP-DQHQFPPHLVHLFL 777

Query: 696 SNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTM 755
               + +DPMP LEKL  L+ ++L + ++ G ++ C   GFP+L V+ +     LEEW +
Sbjct: 778 IYCGMEEDPMPILEKLLHLKSVRLARKAFLGSRMVCSKGGFPQLCVIEISKESELEEWIV 837

Query: 756 GTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQPELRQKL 803
             G+MP L  L I+ C  LK++P+ L  I SL        + E ++KL
Sbjct: 838 EEGSMPCLRTLTIDDCKKLKELPDGLKYITSLKELKIEGMKREWKEKL 885

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. The interaction with TIP (TCV-interacting protein) may be essential for the recognition of the avirulence proteins, and the triggering of the defense response.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  164 bits (415), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 221/883 (25%), Positives = 359/883 (40%), Gaps = 155/883 (17%)

Query: 24  LAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMD 83
           L  +E  L    +  +  L  ++ +++S+L+D +              ++ +  ++  ++
Sbjct: 16  LLSQECELFQGVEDQVTELKRDLNLLSSFLKDAD------------AKKHTSAVVKNCVE 63

Query: 84  EINCFTYESEKVIDTFI--------SSITQQKSQSGC----REDICDALQGLQSKIIDIK 131
           EI    Y+ E  I+TF+        S I +   +  C    R      + GL ++I  + 
Sbjct: 64  EIKEIIYDGEDTIETFVLEQNLGKTSGIKKSIRRLACIIPDRRRYALGIGGLSNRISKVI 123

Query: 132 QRMQQLEHIDSRIINELKSIKA--QAGNFPASLSFKNRDTVGLDDRMEELLDLLIEGPPQ 189
           + MQ      + +    K  +   Q    P      + D VGL+  +++L+  L++    
Sbjct: 124 RDMQSFGVQQAIVDGGYKQPQGDKQREMRPRFSKDDDSDFVGLEANVKKLVGYLVD-EAN 182

Query: 190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS 249
           +  V+I    GL KT  A + ++   VKH FD  +WV          +   I++ L P  
Sbjct: 183 VQVVSITGMGGLGKTTLAKQVFNHEDVKHQFDGLSWVCVSQDFTRMNVWQKILRDLKPKE 242

Query: 250 RLIILHEY------------LMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLIT-- 295
               + E             L T + LIV+DD+W  E W++I+ I P  + G +VL+T  
Sbjct: 243 EEKKIMEMTQDTLQGELIRLLETSKSLIVLDDIWEKEDWELIKPIFPPTK-GWKVLLTSR 301

Query: 296 -------------------LAKIDTVTLFQ-----FENGQNIRLD----------LVPTG 321
                              L   D+ TLFQ      ++    ++D          +   G
Sbjct: 302 NESVAMRRNTSYINFKPECLTTEDSWTLFQRIALPMKDAAEFKIDEEKEELGKLMIKHCG 361

Query: 322 G-PLRVTYQGWPFHILY--HGSISLEENKREAIAKP------------IFLQSVAYCMLP 366
           G PL +   G      Y  H    L EN    +                ++ S+++  LP
Sbjct: 362 GLPLAIRVLGGMLAEKYTSHDWRRLSENIGSHLVGGRTNFNDDNNNTCNYVLSLSFEELP 421

Query: 367 FPLKLCCLYLPVFPAHLEISTRQLYQLWIAEG-FIPDNSEA-----TAEKYLEQLINRGF 420
             LK C LYL  FP   EI+ + L   W AEG F P + +        + Y+E+L+ R  
Sbjct: 422 SYLKHCFLYLAHFPDDYEINVKNLSYYWAAEGIFQPRHYDGEIIRDVGDVYIEELVRRNM 481

Query: 421 VEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFV-FSPILDPKGES------RKNVKRF 473
           V  ++        TC +        L+      F+  +      G S      R+ V ++
Sbjct: 482 VISERDVKTSRFETCHLHDMMREVCLLKAKEENFLQITSSRTSTGNSLSIVTSRRLVYQY 541

Query: 474 -FALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMY---KLLRVLDL--GS 527
              L+ + D   ++D  P L SL+   +         W  +   +   +LLRVLD+    
Sbjct: 542 PITLDVEKD---IND--PKLRSLVVVANTYMFWGGWSWMLLGSSFIRLELLRVLDIHRAK 596

Query: 528 LVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLY-TLDMPFSYIDHTADEFWK 586
           L   +  S I  L  LRYL L    +  +P S  N  L +Y  L +  S      +   +
Sbjct: 597 LKGGKLASSIGQLIHLRYLNLKHAEVTHIPYSLGNLKLLIYLNLVILVSGSTLVPNVLKE 656

Query: 587 MKKLRHLNFGSITLPAHPGNYCG-SLENLNFISAL----YPCCCTKDLLGRLPNLRNLRI 641
           M++LR+L      LP   G      L NL  +  L       C  +DL G +  LR L I
Sbjct: 657 MQQLRYL-----ALPKDMGRKTKLELSNLVKLETLKNFSTKNCSLEDLRG-MVRLRTLTI 710

Query: 642 QGDLSYNQSLLSKSLCRLSCLESLK---LANESK---------------------MPRLS 677
           +     +   L+ S+  L  LESL    L +E +                     MPRLS
Sbjct: 711 ELRKETSLETLAASIGGLKYLESLTITDLGSEMRTKEAGIVFDFVYLKTLTLKLYMPRLS 770

Query: 678 KIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFP 737
           K    E  FP  LT L   +  L +DPMP LEKL  L+ L+L++ S+SG+++ C S GFP
Sbjct: 771 K----EQHFPSHLTTLYLQHCRLEEDPMPILEKLHQLKELELRRKSFSGKEMVCSSGGFP 826

Query: 738 RLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQ 780
           +L+ L +K +   E+W +   +MP L  L I  C  LK++P++
Sbjct: 827 QLQKLSIKGLEEWEDWKVEESSMPVLHTLDIRDCRKLKQLPDE 869

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 =  164 bits (415), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 221/883 (25%), Positives = 359/883 (40%), Gaps = 155/883 (17%)

Query: 24  LAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMD 83
           L  +E  L    +  +  L  ++ +++S+L+D +              ++ +  ++  ++
Sbjct: 16  LLSQECELFQGVEDQVTELKRDLNLLSSFLKDAD------------AKKHTSAVVKNCVE 63

Query: 84  EINCFTYESEKVIDTFI--------SSITQQKSQSGC----REDICDALQGLQSKIIDIK 131
           EI    Y+ E  I+TF+        S I +   +  C    R      + GL ++I  + 
Sbjct: 64  EIKEIIYDGEDTIETFVLEQNLGKTSGIKKSIRRLACIIPDRRRYALGIGGLSNRISKVI 123

Query: 132 QRMQQLEHIDSRIINELKSIKA--QAGNFPASLSFKNRDTVGLDDRMEELLDLLIEGPPQ 189
           + MQ      + +    K  +   Q    P      + D VGL+  +++L+  L++    
Sbjct: 124 RDMQSFGVQQAIVDGGYKQPQGDKQREMRPRFSKDDDSDFVGLEANVKKLVGYLVD-EAN 182

Query: 190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS 249
           +  V+I    GL KT  A + ++   VKH FD  +WV          +   I++ L P  
Sbjct: 183 VQVVSITGMGGLGKTTLAKQVFNHEDVKHQFDGLSWVCVSQDFTRMNVWQKILRDLKPKE 242

Query: 250 RLIILHEY------------LMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLIT-- 295
               + E             L T + LIV+DD+W  E W++I+ I P  + G +VL+T  
Sbjct: 243 EEKKIMEMTQDTLQGELIRLLETSKSLIVLDDIWEKEDWELIKPIFPPTK-GWKVLLTSR 301

Query: 296 -------------------LAKIDTVTLFQ-----FENGQNIRLD----------LVPTG 321
                              L   D+ TLFQ      ++    ++D          +   G
Sbjct: 302 NESVAMRRNTSYINFKPECLTTEDSWTLFQRIALPMKDAAEFKIDEEKEELGKLMIKHCG 361

Query: 322 G-PLRVTYQGWPFHILY--HGSISLEENKREAIAKP------------IFLQSVAYCMLP 366
           G PL +   G      Y  H    L EN    +                ++ S+++  LP
Sbjct: 362 GLPLAIRVLGGMLAEKYTSHDWRRLSENIGSHLVGGRTNFNDDNNNTCNYVLSLSFEELP 421

Query: 367 FPLKLCCLYLPVFPAHLEISTRQLYQLWIAEG-FIPDNSEA-----TAEKYLEQLINRGF 420
             LK C LYL  FP   EI+ + L   W AEG F P + +        + Y+E+L+ R  
Sbjct: 422 SYLKHCFLYLAHFPDDYEINVKNLSYYWAAEGIFQPRHYDGEIIRDVGDVYIEELVRRNM 481

Query: 421 VEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFV-FSPILDPKGES------RKNVKRF 473
           V  ++        TC +        L+      F+  +      G S      R+ V ++
Sbjct: 482 VISERDVKTSRFETCHLHDMMREVCLLKAKEENFLQITSSRTSTGNSLSIVTSRRLVYQY 541

Query: 474 -FALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMY---KLLRVLDL--GS 527
              L+ + D   ++D  P L SL+   +         W  +   +   +LLRVLD+    
Sbjct: 542 PITLDVEKD---IND--PKLRSLVVVANTYMFWGGWSWMLLGSSFIRLELLRVLDIHRAK 596

Query: 528 LVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLY-TLDMPFSYIDHTADEFWK 586
           L   +  S I  L  LRYL L    +  +P S  N  L +Y  L +  S      +   +
Sbjct: 597 LKGGKLASSIGQLIHLRYLNLKHAEVTHIPYSLGNLKLLIYLNLVILVSGSTLVPNVLKE 656

Query: 587 MKKLRHLNFGSITLPAHPGNYCG-SLENLNFISAL----YPCCCTKDLLGRLPNLRNLRI 641
           M++LR+L      LP   G      L NL  +  L       C  +DL G +  LR L I
Sbjct: 657 MQQLRYL-----ALPKDMGRKTKLELSNLVKLETLKNFSTKNCSLEDLRG-MVRLRTLTI 710

Query: 642 QGDLSYNQSLLSKSLCRLSCLESLK---LANESK---------------------MPRLS 677
           +     +   L+ S+  L  LESL    L +E +                     MPRLS
Sbjct: 711 ELRKETSLETLAASIGGLKYLESLTITDLGSEMRTKEAGIVFDFVYLKTLTLKLYMPRLS 770

Query: 678 KIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFP 737
           K    E  FP  LT L   +  L +DPMP LEKL  L+ L+L++ S+SG+++ C S GFP
Sbjct: 771 K----EQHFPSHLTTLYLQHCRLEEDPMPILEKLHQLKELELRRKSFSGKEMVCSSGGFP 826

Query: 738 RLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQ 780
           +L+ L +K +   E+W +   +MP L  L I  C  LK++P++
Sbjct: 827 QLQKLSIKGLEEWEDWKVEESSMPVLHTLDIRDCRKLKQLPDE 869

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9XIF0|DRL13_ARATH Putative disease resistance protein At1g59780 OS=Arabidopsis thaliana GN=At1g59780 PE=2 SV=1

 Score =  162 bits (410), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 219/818 (26%), Positives = 337/818 (41%), Gaps = 132/818 (16%)

Query: 79  RTVMDEINCFTYESEKVIDTFISSITQQKSQSGC----REDICDALQGLQSKIIDIKQRM 134
           R  ++EI   TY++E +I+ F+   +       C    R +I   +  +  +I  + Q M
Sbjct: 64  RNCLEEIKEITYDAEDIIEIFLLKGSVNMRSLACFPGGRREIALQITSISKRISKVIQVM 123

Query: 135 QQLEHIDSRIINELKSIKAQAGNFPASLSFKNR---DTVGLDDRMEELLDLLIEGPPQLS 191
           Q L  I S I++ + S            +F +    + VGL+  +E+L++ L+ G     
Sbjct: 124 QNL-GIKSDIMDGVDSHAQLERKRELRHTFSSESESNLVGLEKNVEKLVEELV-GNDSSH 181

Query: 192 AVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR- 250
            V+I    GL KT  A + +  + VK +FD  AWV          +   I+  L P  + 
Sbjct: 182 GVSITGLGGLGKTTLARQIFDHDKVKSHFDGLAWVCVSQEFTRKDVWKTILGNLSPKYKD 241

Query: 251 --------LIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLIT------- 295
                      L + L TK+ LIV DD+W  E W  I  + P+ + G +VL+T       
Sbjct: 242 SDLPEDDIQKKLFQLLETKKALIVFDDLWKREDWYRIAPMFPERKAGWKVLLTSRNDAIH 301

Query: 296 ------------------------LAKIDTVTLFQFENG------------QNIRLDLVP 319
                                    +K  T+T +  +              + + L +  
Sbjct: 302 PHCVTFKPELLTHDECWKLLQRIAFSKQKTITGYIIDKEMVKMAKEMTKHCKRLPLAVKL 361

Query: 320 TGGPL--RVTYQGWPF---HILYH---GSISLEENKREAIAKPIFLQSVAYCMLPFPLKL 371
            GG L  + T + W     +I+ H   G  S  EN   ++   +   S+++  LP  LK 
Sbjct: 362 LGGLLDAKHTLRQWKLISENIISHIVVGGTSSNENDSSSVNHVL---SLSFEGLPGYLKH 418

Query: 372 CCLYLPVFPAHLEISTRQLYQLWIAEGFI-PDNSEAT-----AEKYLEQLINRGFVEVKK 425
           C LYL  +P   EI   +L  +W AEG   P N E       A+ Y+E+L+ R  V  ++
Sbjct: 419 CLLYLASYPEDHEIEIERLSYVWAAEGITYPGNYEGATIRDVADLYIEELVKRNMVISER 478

Query: 426 RRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNV-----KRFFALEQQS 480
                    C +       + ++    E     + DP   S  +       R   +   S
Sbjct: 479 DALTSRFEKCQLHD-LMREICLLKAKEENFLQIVTDPTSSSSVHSLASSRSRRLVVYNTS 537

Query: 481 DFAYLDDYY-PHLHSLLY-------FTSESDHLDHIDWQKICEMYKLLRVLDLGSLVL-- 530
            F+  +D     L SLL+       F+  S+ ++            LLRVLDL       
Sbjct: 538 IFSGENDMKNSKLRSLLFIPVGYSRFSMGSNFIE----------LPLLRVLDLDGAKFKG 587

Query: 531 NQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLY-TLDMPFSYIDHTADEFWKMKK 589
            + PS I  L  L+YL L   S+  LP S  N    LY  L +    + +  + F +M +
Sbjct: 588 GKLPSSIGKLIHLKYLSLYQASVTYLPSSLRNLKSLLYLNLRINSGQLINVPNVFKEMLE 647

Query: 590 LRHLNF----GSITLPAHPGNYCGSLENLNFISALYPCCCTKDL----LGRLPNLRNLRI 641
           LR+L+      S+T     GN       +NF         TKD     L R+  LR L+I
Sbjct: 648 LRYLSLPWERSSLT-KLELGNLLKLETLINF--------STKDSSVTDLHRMTKLRTLQI 698

Query: 642 --QGDLSYNQSLLSKSLCRLSCLESLKL-----ANESKMPRLSKIILAEYV--FPHSLTH 692
              G+   +   LS +L  L  LE L +     + + K P+L    +   V  FP  LT 
Sbjct: 699 LISGE-GLHMETLSSALSMLGHLEDLTVTPSENSVQFKHPKLIYRPMLPDVQHFPSHLTT 757

Query: 693 LSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEE 752
           +S     L +DPMP LEKL  L+V+ L  N+Y GR++ C   GFP L  L +  +  LEE
Sbjct: 758 ISLVYCFLEEDPMPTLEKLLQLKVVSLWYNAYVGRRMVCTGGGFPPLHRLEIWGLDALEE 817

Query: 753 WTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNF 790
           W +  G+MP L  L I  C  LK++P+ L  I SL   
Sbjct: 818 WIVEEGSMPLLHTLHIVDCKKLKEIPDGLRFISSLKEL 855

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	821
147766035	902	hypothetical protein VITISV_038742 [Viti	0.755	0.687	0.308	3e-69
359491404	922	PREDICTED: probable disease resistance R	0.889	0.791	0.290	6e-61
359489792	916	PREDICTED: probable disease resistance p	0.904	0.811	0.272	5e-60
225454212	936	PREDICTED: putative disease resistance p	0.924	0.810	0.266	2e-57
224096480	910	nbs-lrr resistance protein [Populus tric	0.878	0.792	0.260	4e-57
359489790	944	PREDICTED: probable disease resistance p	0.919	0.799	0.274	2e-56
224075299	896	nbs-lrr resistance protein [Populus tric	0.898	0.823	0.260	5e-56
356496703	910	PREDICTED: disease resistance RPP8-like	0.919	0.829	0.270	7e-56
297745275	1136	unnamed protein product [Vitis vinifera]	0.896	0.647	0.278	9e-56
255582947	935	Disease resistance protein RPM1, putativ	0.950	0.834	0.253	2e-55

>gi|147766035|emb|CAN70214.1| hypothetical protein VITISV_038742 [Vitis vinifera]

 Score =  270 bits (689), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 219/709 (30%), Positives = 323/709 (45%), Gaps = 89/709 (12%)

Query: 166 NRDTVGLDDRMEELL-DLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHA 224
           + D +G D+ +  L+  LL +  P+ S ++I+   GL KT  A + Y+   VK  FD  A
Sbjct: 169 DHDVIGFDEDINMLVARLLDQETPRRSTISIVGMGGLGKTTLAKKVYNCRSVKRRFDFCA 228

Query: 225 WVQEPYTCYADQIL-DIIIKFL-MPSSRLIILHE---------YLMTKRYLIVIDDVWSI 273
           WV       A ++L +I  K L +   RL +++           L  KRYLIV+DD+W  
Sbjct: 229 WVYVSQDYRAGELLHEIGEKILRIEKGRLAMMNRQHLEERVSTVLRKKRYLIVLDDIWET 288

Query: 274 EVWDIIREILPDNQNGSRVLITLAKID----------TVTLFQFENGQNIRL-------- 315
           EVWD ++ + PD  N SRVL T    D          T  L      Q+  L        
Sbjct: 289 EVWDDLKTLFPDVMNASRVLFTTRIRDVAIHADPRSATHELHFLNQAQSWELFLKKAFPM 348

Query: 316 ---------DLVPTGGPLRVTYQGWPFHILYHGSISLEENKREAIAKPIFLQSVA----- 361
                    +L   G  +     G P  I+  G +   + K  ++   + LQS++     
Sbjct: 349 EGDSVTCPPELERLGTQIVAKCGGLPLAIVIIGGLLSRKEKXPSVWLRV-LQSISWQLNN 407

Query: 362 ------------YCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEAT-- 407
                       Y  LP+ LK C LY  +FP  LEI   +L  LWIAEGF+    E +  
Sbjct: 408 DSRQLMEILALSYNDLPYYLKPCFLYFGLFPEDLEIPVGKLVLLWIAEGFVQQRGEESME 467

Query: 408 --AEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKG- 464
             AE +LE+L++R  ++V ++R  G I  C I        L ++   E  F  ILD    
Sbjct: 468 DVAEDFLEELVDRSMIQVAEKRYNGKIKMCRIHDLLRD--LAMSEAKECKFLEILDSTNI 525

Query: 465 --ESRKNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRV 522
                   +R        ++  L    PH  S+L+F+   + L    W+ + E  KLLRV
Sbjct: 526 DTSVTTRARRISVHSSLEEYMKLRHPNPHFRSMLHFSRCEESLRREQWKSLFESLKLLRV 585

Query: 523 LDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTAD 582
           LDL  +  +  P EI  L  LRYL L    L+ LP S  N+  NL TLD+  + +     
Sbjct: 586 LDLERVQTHALPKEIRELVHLRYLGLRRTGLQRLPSSVQNFC-NLQTLDIRATKVSRLPI 644

Query: 583 EFWKMKKLRHLNFGSITLPAHPGNYCG--SLENLNFISALYPCCCTKDLLGRLPNLRNLR 640
           + W M  LRHL     ++  HP  +     L+ L+ +S +Y      DLLG+L NLR L 
Sbjct: 645 QLWNMPGLRHLYLEKTSIAGHPPVHVSVMHLQTLSTVS-IYGNQWIPDLLGKLTNLRKLG 703

Query: 641 IQGDLSYNQSLLSKSLCRLSCLESLKLANES-----------KMPRLSKIILAEYV---- 685
           I G  +     LS+ L +LS L++L+L                 P + K+ L+  +    
Sbjct: 704 IHGYFASQTEALSRCLVKLSNLQNLQLRGTELILEPTIKLLLNQPNIHKLHLSGPIEKLP 763

Query: 686 ----FPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKV 741
                  +LT +    + L+ D    L KLP LQ+LKL  NS+ G+++TC + GFP+L  
Sbjct: 764 DPQEIQPNLTKIILEKSLLVQDIFVILGKLPNLQMLKLLINSFFGKEITCSASGFPKLHG 823

Query: 742 LHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNF 790
           L L  ++ LEEW +  GAMP L  L+I+ C  LKK+PE    + +L   
Sbjct: 824 LELSELVNLEEWRVDDGAMPSLRHLVIDHCDQLKKIPEGFQYLTALREL 872

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359491404|ref|XP_002274414.2| PREDICTED: probable disease resistance RPP8-like protein 2-like [Vitis vinifera]

 Score =  242 bits (618), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 254/874 (29%), Positives = 378/874 (43%), Gaps = 144/874 (16%)

Query: 67  KIAEDEND-NPDLRTVMDEINCFTYESEKVIDTFISSITQQKSQSGCRED------ICD- 118
           K AE + D +  ++  + +I    Y+ + VIDTF+    QQ+ +   R        + D 
Sbjct: 62  KDAEAKQDGDQRVKNWVADIRDVAYDIDDVIDTFLCKTAQQRKEGFFRLSGRYAFVLSDP 121

Query: 119 -ALQGLQSKIIDIKQRMQQLEHIDSRIINELKSIKAQAGNFPAS--LSFKNR-------- 167
            A   +  KI  I +++ ++   DSR    +++I    G   A+  L  K R        
Sbjct: 122 VAHWKISKKINRIMEKIHEI--TDSRSTYGIENIGRGGGRSFATDRLQEKRRSSSHACEE 179

Query: 168 DTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQ 227
           D VG    +  L   LI G  +L  ++I+   GL KT  A + Y  N VK  FD   WV 
Sbjct: 180 DVVGPLQDIRTLESWLIHGETRLCILSIVGMAGLGKTTLAKKLYHSNDVKKNFDFCGWVY 239

Query: 228 EPYTCYADQILDIIIKFL--MPSSRLI---------ILHEYLMTKRYLIVIDDVWSIEVW 276
                     L  ++K +  +P + L           L ++L  K+Y IV+DD+W  EVW
Sbjct: 240 VSQEYRPKDTLQNLVKRVTGLPRAELEKMDKEDLEEALSKFLEEKKYFIVLDDIWKKEVW 299

Query: 277 DIIREILPDNQNGSRVLITLAKIDTV------------TLFQFENGQ-----------NI 313
           D ++   PD +NGSR++ T    D               L   E+G            N 
Sbjct: 300 DDLKAAFPDRKNGSRIIFTTRFKDVALHADPRSPLHEPCLLSDEDGWELLSRKVCLEWNA 359

Query: 314 RLDLVPTGGPLRVTY----QGWPFHILYHGSISLEE----NKREAIAKPIFLQ------- 358
           +  L P    L +       G P  I+  G +   +    N+   + + +  Q       
Sbjct: 360 KTSLPPWSKELGIQIVKRCGGLPLAIVVMGGLLSRKDATFNEWLKVLQSVHWQLAQDPTQ 419

Query: 359 -----SVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNS----EATAE 409
                +++Y  LP+ LK C LY  +FP   EIS R+L  LW+AEGF+        E  AE
Sbjct: 420 CAEILALSYSDLPYYLKSCFLYFGLFPEDYEISARRLILLWVAEGFVQPRGQEPLEDVAE 479

Query: 410 KYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGE-SRK 468
            YLE+L+ R  ++V  R++ G I TC +        L V+   E  F  I+   GE +  
Sbjct: 480 DYLEELVGRSMIQVATRKSNGRIKTCCVHDLLHE--LSVSKGKEDQFLDII--HGEFTVS 535

Query: 469 NVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICE-------MYKLLR 521
           ++ R   L               + SLL F              ICE        +KLLR
Sbjct: 536 SLTRVRRLAIHLGVPPTTKNTSKVRSLLCFD-------------ICEPSFQELRKFKLLR 582

Query: 522 VLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTA 581
           +LDL  + +++  S I NL  LRYL L    LK LP S   +LLNL TLD+  + ++   
Sbjct: 583 ILDLEGVYISRLHSSIGNLIHLRYLGLRGTWLKKLPPSI-QFLLNLQTLDLRSTLLNPIP 641

Query: 582 DEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTK-----DLLGRLPNL 636
              WKM+KLRHL F  +   A       SL NL     L+  C  +     + L +L NL
Sbjct: 642 IVIWKMQKLRHLYFNELEEMAVNPPTDASLANLQ---TLHGICINQTSYVENGLSKLTNL 698

Query: 637 RNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKM--------PRL------------ 676
           R L + GDL  ++  + K +     LE LKL     M        P+L            
Sbjct: 699 RELGLHGDLLLHEEAIGKWIFSSERLECLKLHTRDVMGDFAKNAIPKLNFSSHPHLIKLH 758

Query: 677 -----SKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTC 731
                +K+  AEY FP +LT LS   + LM+DPM  LE L  L+VLKLK ++Y G+++ C
Sbjct: 759 LKGFMAKLFDAEY-FPQNLTELSLKGSFLMEDPMVKLEMLQSLRVLKLKHSAYLGKEMIC 817

Query: 732 GSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFN 791
              GFP+L  L L  +  +E W +  GAM +L  L I  C  LK +P  L  + +++   
Sbjct: 818 SCGGFPQLHFLKLSFLNTVERWRIEDGAMGRLRQLEIIECKRLKIVPRGLQPVTTIHKLK 877

Query: 792 CWWPQPELRQKLREFEDK-----EQCGIQLYPYG 820
             +   E   K++E + +     E   + L P G
Sbjct: 878 LGYMPREFEMKVQERQGENWYKIEHAVVALNPGG 911

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359489792|ref|XP_002274076.2| PREDICTED: probable disease resistance protein RDL6/RF9-like [Vitis vinifera]

 Score =  239 bits (610), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 249/914 (27%), Positives = 402/914 (43%), Gaps = 171/914 (18%)

Query: 42  LHAEIEVVTSWLRDFEYDMSWL-LLQKIAEDEN-DNPDLRTVMDEINCFTYESEKVIDTF 99
           L  ++E     LRD   ++ W+ L  K A+ ++  N  ++  +++I   T+++E VID F
Sbjct: 22  LFGQVEEQVKLLRD---ELKWMRLFLKDADSQSLYNEKIKLWVEQIRNVTHDAEDVIDEF 78

Query: 100 ISSITQQKSQSGCRE------------DICDALQGLQSKIIDIKQRMQQLEHIDSRIINE 147
           I  +  ++ +    +            D    +  L  ++ +I  R++++    S+   E
Sbjct: 79  ILDMDHRQLRLNTLKFLKCLPTCVGFADKLPFIHELDGRVKEINIRIERIMANRSKYGLE 138

Query: 148 LKSIKAQAGNFPASLSFKNR--------DTVGLDDRMEELLDLLIEGPPQLSAVTILDSI 199
                + +      ++ K +        D VG++D  E +  +L++G  + + V+I+   
Sbjct: 139 ALMASSSSSTTDQVVAHKEKWAQVVEGSDVVGIEDGTEVVTQMLMKGEMRRAVVSIVGMG 198

Query: 200 GLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDII--------------IKFL 245
           GL KT  A + Y+ + VK +FDCHAWV       A +IL  +              +K +
Sbjct: 199 GLGKTTLAKKVYNHSDVKQHFDCHAWVYVSQEFKAREILLGVAYCVMSLSDEKKKEVKEM 258

Query: 246 MPSSRLIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTVTLF 305
             +     + EYL  K+YL+ +DDVWS EVW  +R  LP+ ++GS+VLIT  + + + L 
Sbjct: 259 GEAELGRNVREYLKEKKYLVAMDDVWSREVWSSLRSYLPEAKDGSKVLIT-TRNEEIALH 317

Query: 306 QFENGQNIRL----------------------------DLVPTGGPLRVTYQGWPFHILY 337
                   RL                            +L   G  +    +G P  I+ 
Sbjct: 318 ANSQALIYRLRIMNDDESWQLLLKKTFGSRSTSGILTPELEVLGKNIVAKCKGLPLAIVV 377

Query: 338 HGSI-SLEENKREAIAKPI------FLQSVAYCM---------LPFPLKLCCLYLPVFPA 381
            G + S +E  + +  K +       +Q    CM         LP+ LK C LY  +FP 
Sbjct: 378 VGGLLSTKEKTKSSWEKVLASIDWHLIQGPESCMGILALSYNDLPYYLKSCFLYCGIFPE 437

Query: 382 HLEISTRQLYQLWIAEGFIPDNS----EATAEKYLEQLINRGFVEVKKRRAGGTINTCSI 437
             EI T +L QLW+ EGFI        E  AE YL +LI+R  ++V  R+  G + +C I
Sbjct: 438 DSEIKTSKLIQLWLVEGFIQRRGKEPLEDIAEDYLYELIHRSMIQVAARKIDGRVTSCRI 497

Query: 438 RSRCWPSLLVVTLNAEFVFSPILDPK-GESRKNVKRFF--ALEQQSDFAYL--DDYYPHL 492
                       L  +   S   D +  E  +N+   F   + + S   +L  ++   HL
Sbjct: 498 HD----------LLRDLAISEARDARLFEVHENIDVAFPIGVRRLSIHQHLINNNISQHL 547

Query: 493 H-----SLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQ-YPSEIENLSLLRYL 546
           H     SL++FT   +  +   W+ + E  KLL VLDLGS   N   P EI  L  L++L
Sbjct: 548 HNSRLRSLIFFT---EPFERKSWKSLKEHIKLLTVLDLGSTDDNYIVPEEIGELVHLKFL 604

Query: 547 KLNIPSLKSLPLSFFNYLLNLYTLDMPFS--YIDHTADEFWKMKKLRHLN--FGSIT--- 599
            +      +LP S  + L+NL + D+  +  YI HT    WK+++LR+LN   G I+   
Sbjct: 605 HIRGFQRVTLP-SSIDRLVNLRSFDLGNNDCYIPHT---IWKLQQLRYLNCCLGEISSQF 660

Query: 600 -LPAHPGNYCG--SLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYN-------- 648
            L      Y G   L NL  +  L       D LG+L  L+ L + G L+ +        
Sbjct: 661 KLSKCVNGYLGVEKLTNLQTLDLLPGSWLEGDGLGKLTQLKELDLGGLLNPHLKKGFFEC 720

Query: 649 ----QSLLSKSLCRLSCLESLKLANESKMPRLSKII------------------------ 680
                +L + +L  L   E   L +  ++ R  K+I                        
Sbjct: 721 IANLTALRTLNLSHLRGFEKKTLLSHIRLKRWKKVIEEKTLIPGLMPFSHHTYLYKVILG 780

Query: 681 ----LAEYV--FPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSD 734
               L+E +  +P +L  L     +L +DPM  LEKLP L+VL+L   SY G+KL C S 
Sbjct: 781 GKLELSEEIGFYPPNLLELCLCFCELKNDPMFILEKLPKLKVLRLSDGSYVGKKLVCSSG 840

Query: 735 GFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWW 794
           GF +L+ L L ++  LEE  +  GA+P L+ L I  C  +KK+P  L  +K+L       
Sbjct: 841 GFLQLQSLELYALFPLEELIVEEGALPHLKTLQIEHCYGMKKLPRGLLQLKNLEKVE--- 897

Query: 795 PQPELRQKLREFED 808
           P+    + + EFE+
Sbjct: 898 PKFMFDRLIEEFEE 911

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225454212|ref|XP_002274233.1| PREDICTED: putative disease resistance protein At1g50180-like [Vitis vinifera]

 Score =  230 bits (587), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 248/931 (26%), Positives = 408/931 (43%), Gaps = 172/931 (18%)

Query: 42  LHAEIEVVTSWLRDFEYDMSWL-LLQKIAEDEN-DNPDLRTVMDEINCFTYESEKVIDTF 99
           L  ++E     LRD   ++ W+ L  K A+ ++  N  ++  +++I   T+++E VID F
Sbjct: 22  LFGQVEEQVKLLRD---ELKWMRLFLKDADSQSLCNEKIKLWVEQIRNVTHDAEDVIDEF 78

Query: 100 ISSITQQKSQSGCRE------------DICDALQGLQSKIIDIKQRMQQLEHIDSRIINE 147
           I  + +++ +    +            D    +  L  ++ +I  R++++    S+   E
Sbjct: 79  ILDMDRRQLRLNTLKFLKCLPTCVGFADKLPFIHELDGRVKEINIRIERIMANRSKYGLE 138

Query: 148 LKSIKAQAGNFPASLSFKNR--------DTVGLDDRMEELLDLLIEGPPQLSAVTILDSI 199
                  +      +++K +        D VG++D  E +  +L +G  + + V+I+   
Sbjct: 139 ALMASNSSSTTDQVVAYKEKWAQVVEGSDVVGIEDGTEVVTQMLTKGEMRRAVVSIVGMG 198

Query: 200 GLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS-------RLI 252
           GL KT  A + Y+ + VK +FDC AWV         ++L  II  +M  S       R +
Sbjct: 199 GLGKTTLAKKVYNHSGVKRHFDCIAWVCVSQEFKPRELLLSIISSVMSLSNEEKKEMREV 258

Query: 253 ----ILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITL------AKIDTV 302
                L E L  K+YL+V+DDVWSIE W  +   LP+++NGS+VL+T       A+ +  
Sbjct: 259 ELGGKLRECLNDKKYLVVMDDVWSIEAWSSLCSYLPESRNGSKVLMTTRNKEIAAQANGH 318

Query: 303 TLFQFENGQNIRLDL------------------------VPT-------GGPLRVTYQGW 331
            +    + Q +  +L                        VP+       G  +     G 
Sbjct: 319 EVVGHTDSQALVYELPIMDDDESWELFLKKTFGARDNTHVPSSKTLEELGRKIVAKCNGL 378

Query: 332 PFHILYHGSISLEENKREAIAKPIF----------------LQSVAYCMLPFPLKLCCLY 375
           P  I+  G +   + + E   + +                 + +++Y  LP+ LK C LY
Sbjct: 379 PLAIVVLGGLLSTKERTEPSWERVLESIDWHLNRGPESCFGILALSYNDLPYYLKSCFLY 438

Query: 376 LPVFPAHLEISTRQLYQLWIAEGFIPDNS----EATAEKYLEQLINRGFVEVKKRRAGGT 431
             +FP   EI   +L  LWIAEGF+        E  AE YL +LI+R  V+V +++A G 
Sbjct: 439 CGIFPEDSEIKASKLIHLWIAEGFVQRRGIEKLEDIAEDYLYELIHRSMVQVARKKANGR 498

Query: 432 INTCSIRSRCWPSLLVVTLNAEFVFSPILDPK-GESRKNVKRFF--ALEQQSDFAYL--D 486
           + +C I            L  +   S   D K  E  +N+   F  ++ + S   +L  +
Sbjct: 499 VMSCRIHD----------LLRDLAISEARDAKLFEVHENIDFTFPNSIRRLSIHQHLIKN 548

Query: 487 DYYPHLH----SLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQ-YPSEIENLS 541
           +   HLH    SL++FT   D ++  DW+ I +  KLL VLDLG +  +   P EI  L 
Sbjct: 549 NISQHLHNSLRSLIFFT---DPIERKDWRSIQKHVKLLGVLDLGRIEEDYILPKEIGELI 605

Query: 542 LLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPF--SYIDHTADEFWKMKKLRHLN--FGS 597
            L++L +     +    S    L+NL  L++ +  SYI  T    WK+++LRHLN  +G 
Sbjct: 606 HLKFLCIKGYFNRVTLPSSIKRLVNLQNLNLGYNDSYIPCT---IWKLQELRHLNCCYGE 662

Query: 598 IT----LPAHPGNYCG--SLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLS-YNQS 650
           ++    L      Y G   L NL  ++         D LG+L  LR LR+ G L+ Y + 
Sbjct: 663 MSSQFKLNKCMNGYLGVEQLTNLQTLALPVGSWLEGDGLGKLTQLRKLRLVGPLAPYLKK 722

Query: 651 LLSKSLCRLSCLESLKLAN------------------------ESKMPRLSKIILAEYV- 685
               S+  L+ L +L L N                        ++ +P L       Y+ 
Sbjct: 723 GFFDSIAELTTLRTLFLGNWQVDKKKTLLNRVGLKWQENVVEEKTLLPGLMSFSRHTYLY 782

Query: 686 -----------------FPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRK 728
                            +P +L  L+ S  +L DDPM  LEKLP L++L L + SY G+K
Sbjct: 783 KVHLYGKVDKLPEQTEFYPPNLLKLTLSKCELEDDPMLILEKLPTLRILGLLRGSYVGKK 842

Query: 729 LTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLN 788
           + C   GF +L+ L L  +  LEE T+  GAM  L  L I  C  +KK P  L  +K L 
Sbjct: 843 MVCSCGGFLQLESLELNGLNELEELTVEEGAMCNLRTLQILSCDKMKKFPHGLLQMKKLE 902

Query: 789 NFNCWWPQPELRQKLREFEDKEQCGIQLYPY 819
                    +L +++++ E +E   I+L  +
Sbjct: 903 KLGLIRTSGKLIEEVQQTEGEEWDRIRLITF 933

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224096480|ref|XP_002334697.1| nbs-lrr resistance protein [Populus trichocarpa] gi|222874531|gb|EEF11662.1| nbs-lrr resistance protein [Populus trichocarpa]

 Score =  229 bits (585), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 224/860 (26%), Positives = 375/860 (43%), Gaps = 139/860 (16%)

Query: 35  AKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTV--MDEINCFTYES 92
            ++ ++ L  E+  +  +LRD               D   + D R    + +I    Y++
Sbjct: 52  VRREVERLQDELRRMRCFLRD--------------ADAKQDVDERVCNWVSDIRNVAYDA 97

Query: 93  EKVIDTFISSITQQKSQSGCRE------------DICDALQGLQSKIIDIKQRMQQ--LE 138
           E +IDTF   I+  K +   R+             I + L  L+S++ DI        ++
Sbjct: 98  EDLIDTFTLKISPLKKKHFIRKYTSLVKEWKQRSKIAEGLAALRSRLQDISASRDTYGIQ 157

Query: 139 HIDSRIINELKSIKAQAGNFPASLSFKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDS 198
           +I        ++++    + P S   + RD +GL++   +L++ LI+   + SAV+I+  
Sbjct: 158 NIGEGTTTASETMRKLRRSSPRS---EERDIIGLENDTAKLVEQLIQMGDRWSAVSIVGM 214

Query: 199 IGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLM-PSSRLIIL--- 254
            G+ KT    + Y+   ++  F   AW+       A  IL  +I+ +  P  RL  L   
Sbjct: 215 GGIGKTTLGIKIYNHGAIRARFPSRAWIYVSQEFSARDILQRVIRQIASPRERLEALTDE 274

Query: 255 ------HEYLMTKRYLIVIDDVWSIEVWDIIREILP-DNQNGSRVLIT------------ 295
                 +E L  KRYL+V+DD+WS + WD +++  P D  NGSR+L+T            
Sbjct: 275 ELEDLVYENLRRKRYLVVLDDIWSTKAWDCLKKAFPADRSNGSRLLLTTRNKNAALHVDP 334

Query: 296 ---------LAKIDTVTLF---QFENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSISL 343
                    L+K ++  LF    F +G+ I  ++V           G P  I+  G + L
Sbjct: 335 QTTPYDLEFLSKQNSWELFCKKAFIDGKEIGKEIVERCA-------GLPLAIIVIGGL-L 386

Query: 344 EENKREAIAKPIF----------------LQSVAYCMLPFPLKLCCLYLPVFPAHLEIST 387
              +R +  + I                 + +++Y  LPF LK C  YL  FP    I  
Sbjct: 387 SRKRRPSEWERILNNLDAHFARDPNGVSAILALSYNDLPFYLKSCFFYLGHFPEDYSIHA 446

Query: 388 RQLYQLWIAEGFIPDNSEA---TAEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPS 444
            +L++LWIAEG IP   E     AE YL +LI R  V+ ++    G +  C +       
Sbjct: 447 HKLFRLWIAEGLIPHQGERMEDVAEDYLNELIQRNMVQAERMSVNGRVKQCRLHD-LLRD 505

Query: 445 LLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESD- 503
           L      A+       D    S    +R   +   S  + L  + PHL SLL+F   +  
Sbjct: 506 LSTSKAKAQNFLQIPGDENFTSLARCRRH-PIYSDSHLSSLGFFSPHLRSLLFFRVVTRV 564

Query: 504 --------------HLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLN 549
                          L + ++  I   ++LLR+L+L  +   + PS I +L  L YL L 
Sbjct: 565 RYRYFIGRHVYGFYELSNANFDYISRNFRLLRILELEGISCGRIPSTIGDLIHLSYLGLK 624

Query: 550 IPSLKSLPLSFFNYLLNLYTLDMPFS-YIDHTADEFWKMKKLRHLNFGSITLPAHPGNY- 607
             +++ LP S    L NL TLD+  + ++    +  W M+ LRHL      +    G + 
Sbjct: 625 ETNIQVLP-STLGSLCNLQTLDIARNLHLRIVPNVIWNMRNLRHL-----YMCGQSGGFL 678

Query: 608 -CGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLK 666
              +L++L  +S +      ++    L +LR L+++G+LS +   +  S+  L  L SL 
Sbjct: 679 RIDNLKHLQTLSGIDVSRWKQNNSAHLTSLRKLKMRGNLSLDTIAIFDSISALLQLRSLY 738

Query: 667 LANE-SKMPRLSKI-ILAEYV----------------FPHSLTHLSFSNTDLMDDPMPAL 708
           L  E ++ P LS++  L   V                FP +L+ L+   T L    +  L
Sbjct: 739 LRAEGAEFPTLSQLGSLHSLVKLHLKGGITRLPSLQEFPPNLSQLTLEYTHLEQVSIEVL 798

Query: 709 EKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLII 768
           EKLP L + +LK  SYS  +L   ++GFP+L+ L   S+  L E  +   A+P+LE   I
Sbjct: 799 EKLPKLSIFRLKAKSYSKEELGISANGFPQLEFLEFNSLESLTELKIEASALPRLEIFQI 858

Query: 769 NPCAYLKKMPEQLWCIKSLN 788
             C  L+ +P ++  + SL+
Sbjct: 859 VNCKELRMLPAEMKLMTSLH 878

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359489790|ref|XP_003633978.1| PREDICTED: probable disease resistance protein At1g58602-like [Vitis vinifera]

 Score =  227 bits (578), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 257/936 (27%), Positives = 403/936 (43%), Gaps = 181/936 (19%)

Query: 41  NLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVM--DEINCFTYESEKVIDT 98
           +L  E+E     LR+   ++ W+ L     D N   D R  +  ++I    +++E VID 
Sbjct: 22  SLFGEVEGQVKLLRN---ELKWMRLFLKDADSNCIYDERIKLWVEQIREVAHDAEDVIDE 78

Query: 99  FISSITQQKSQSGC------REDICDALQGLQSKIIDIKQRMQQLEHIDSRIINELKSIK 152
           FI ++  Q+ +         R   C         I ++  R++++  +  +I+       
Sbjct: 79  FIFNMDHQRQKRLKNLKFLKRLPTCVGFADKLPFIHELDSRVKEINVMIEKIMVNRSKYG 138

Query: 153 AQAGNFPASLS--------------FKNRDTVGLDDRMEELLDLLIEGP---PQLSAVTI 195
            +A   P+S S               +  D V + D ME +  +LI+     P+ + ++I
Sbjct: 139 LEALVTPSSTSTDHGVSQQERRTPTVEETDVVEIKDGMEVVKQMLIKEDRMRPR-AVMSI 197

Query: 196 LDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRL---- 251
           +   GL KT  A + Y+ N VK +F C AWV         ++L  II  +M  S      
Sbjct: 198 VGMGGLGKTTLAKKVYNHNDVKQHFHCQAWVYVSQEFKPRELLLSIISSVMSLSNEEKKE 257

Query: 252 ----------IILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLIT------ 295
                       L E L  K+YL+ +DDVWSIE W  +R  LP+++NGS+VL+T      
Sbjct: 258 MREMGEDELGGKLRECLNDKKYLVAMDDVWSIEAWSSLRSYLPESRNGSKVLMTTRNKEI 317

Query: 296 ---------LAKIDTVTL--------------------FQFENGQNIRLD--LVPTGGPL 324
                    +   D+  L                    F   +   + L   L   G  +
Sbjct: 318 AAQANPHEVVGHTDSQALVYELRIMDGNESWELFLKKTFGARDSTPVSLSKALEELGRKI 377

Query: 325 RVTYQGWPFHILYHGSISLEENKREAIAKPIF----------------LQSVAYCMLPFP 368
               +G P  I+  G +   + K E   + +                 + +++Y  LP+ 
Sbjct: 378 VAKCKGLPLAIVVLGGLLSTKEKTEPSWERVLASIDWHLNRGPESCFGILALSYNDLPYY 437

Query: 369 LKLCCLYLPVFPAHLEISTRQLYQLWIAEGFI----PDNSEATAEKYLEQLINRGFVEVK 424
           LK C LY  +FP   EI   +L  LWIAEGF+     +  E  AE +L +LI+R  V+V 
Sbjct: 438 LKSCFLYCGIFPEDSEIKASKLIHLWIAEGFVQRRGKEKLEDIAEDFLYELIHRSMVQVA 497

Query: 425 KRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPK-GESRKNVKRFF--ALEQQSD 481
           +++A G + +C I            L  +   S   D K  E  +N+   F  ++ + S 
Sbjct: 498 RKKANGRVMSCRIHD----------LLRDLAISEARDAKLFEVHENIDFTFPNSVRRLSI 547

Query: 482 FAYL--DDYYPHLH-----SLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQ-Y 533
             +L  ++   HLH     SL++FT   D ++  DW+ I E  KLL VLDLGS+  N   
Sbjct: 548 HQHLVKNNISQHLHNSLLRSLIFFT---DPIERKDWRSIQEHVKLLSVLDLGSIEENYIL 604

Query: 534 PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPF--SYIDHTADEFWKMKKLR 591
           P EI  L  L++L +      +LP S    L+NL  L++ +  SYI  T    WK+++LR
Sbjct: 605 PKEIGELIHLKFLCIEGFDRVTLP-SSIKRLVNLQNLNLGYNDSYIPCT---IWKLQELR 660

Query: 592 HLN--FGSIT----LPAHPGNYCG--SLENLNFISALYPCCCTKDLLGRLPNLRNLRIQG 643
           HLN  +G I+    L      Y G   L NL  ++           LG+L  LR L ++G
Sbjct: 661 HLNCRYGEISSQFKLNECMSGYLGVEQLTNLQTLALRAGSWLEGGGLGKLTQLRQLDLRG 720

Query: 644 DLS-YNQSLLSKSLCRLSCLESLKLANE-------------------------------- 670
            L+ Y +     S+  L+ L +L L +                                 
Sbjct: 721 WLTPYLKKGFYDSIAELTTLRTLVLRDMEFYKTKTLLNRVGLKWQENIVEEKTLIPGLMS 780

Query: 671 -SKMPRLSKIILAEYV---------FPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLK 720
            S+   L K+ L   V         +P +L  L+ S+ +L DDPM  LEKLP L++L+L 
Sbjct: 781 FSRHTYLYKVFLQGKVDRLPEQTEFYPPNLVKLTLSSCELKDDPMLILEKLPTLRILELV 840

Query: 721 QNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQ 780
            NSY G+ + C   GF +L+ L L S+  LEE T+  GAM  L  L I  C  +KK+P  
Sbjct: 841 GNSYVGKNMVCSFGGFLQLESLELDSLNELEELTVEEGAMCNLRTLQILYCHKMKKLPRG 900

Query: 781 LWCIKSLNNFNCWWPQPELRQKLREFEDKEQCGIQL 816
           L  +K L          EL +++++ E +E   I+L
Sbjct: 901 LLQMKKLEKLGLRTRGEELIEEVQQTEGEEWDRIRL 936

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224075299|ref|XP_002304589.1| nbs-lrr resistance protein [Populus trichocarpa] gi|222842021|gb|EEE79568.1| nbs-lrr resistance protein [Populus trichocarpa]

 Score =  226 bits (575), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 228/875 (26%), Positives = 385/875 (44%), Gaps = 137/875 (15%)

Query: 27  EEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMDEIN 86
           +E+       + ++ L  E+  +  +LRD +         K  EDE     +R  + +I 
Sbjct: 18  DELEFHTDVHKEVERLQDELRRIRCFLRDAD--------AKQDEDER----VRNWVSDIR 65

Query: 87  CFTYESEKVIDTFISS------ITQQKSQSGC---------REDICDALQGLQSKIIDIK 131
              Y++E +ID FI +        +      C         R  I + L  ++S++ DI 
Sbjct: 66  DVAYDAEDLIDRFIMNNDPLKKKKKNHFIKKCTSYVKGWKQRSKIAEDLMAIRSRLQDIS 125

Query: 132 QRMQQ--LEHIDSRIINELKSIKAQAGNFPASLSFKNRDTVGLDDRMEELLDLLIEGPPQ 189
              +   ++++        ++++    + P     + RD VGL+D   +L+D L++    
Sbjct: 126 ASRETYGIQNVGEGTTAAGETLRKLRRSSPRD---EERDIVGLEDDTAKLVDHLLQMGDH 182

Query: 190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLM-PS 248
            SAV+I+   G+ KT    + Y+ + V+  F   AW+       A  IL  +I+ +  P 
Sbjct: 183 WSAVSIVGMGGIGKTTLGIKIYNHSAVRARFPSRAWICVSQEFSARDILQRVIRQIASPR 242

Query: 249 SRLIIL---------HEYLMTKRYLIVIDDVWSIEVWDIIREILP-DNQNGSRVLIT--- 295
            RL  L         +E L  KRYL+V+DD+WS   WD +++  P D  NGSR+L+T   
Sbjct: 243 ERLEALTDEELEDLVYENLRRKRYLVVLDDIWSTNAWDCLKKAFPVDRSNGSRLLLTTRN 302

Query: 296 ------------------LAKIDTVTLF---QFENGQNIRLD--LVPTGGPLRVTYQGWP 332
                             L+K ++  LF    F +G++      L   G  +     G P
Sbjct: 303 KNVALHVDPQTTPYDLGFLSKQNSWELFCKKTFIDGRDTSCSPILEEIGREIVERCAGLP 362

Query: 333 FHILYHGSISLEENKR----EAIAKPI------------FLQSVAYCMLPFPLKLCCLYL 376
             I+  G + L   KR    E I   +             + +++Y  LP+ LK C LYL
Sbjct: 363 LAIIVIGGL-LSRKKRLNEWERILNNMDSHFARHPNGVAAILALSYNDLPYYLKSCFLYL 421

Query: 377 PVFPAHLEISTRQLYQLWIAEGFIPDN---SEATAEKYLEQLINRGFVEVKKRRAGGTIN 433
            +FP    I   +L++LW+AEG IP      E  AE YL +LI R  V+++     G + 
Sbjct: 422 GLFPEDCTIQAHKLFRLWVAEGLIPHQELRGEDVAEDYLNELIERNMVQMEGMSVNGRVK 481

Query: 434 TCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVKR--FFALEQQSDFAYLDDYYPH 491
            C    R    L  ++++     + +  P  E+  ++ R     +   S  + ++   PH
Sbjct: 482 QC----RLHDLLRDLSISKAKTENFLQIPGNENIPSLTRCRRHPIYSDSHLSCVERLSPH 537

Query: 492 LHSLLYFTSESD---------------HLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSE 536
           L SLL+F   S                 L    +  I   + LLR+L+L  +  +  PS 
Sbjct: 538 LRSLLFFRVVSRVRYRYFIGRNVYGFCELSGAKFDYITRNFNLLRILELEGISCSSIPST 597

Query: 537 IENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFS-YIDHTADEFWKMKKLRHLNF 595
           I  L  L YL L   +++ LP S    L NL TLD+  + ++    D    MK LRHL  
Sbjct: 598 IGELIHLSYLGLKETNIRVLP-STLGSLCNLQTLDIAGNLHLRIIPDVICNMKNLRHL-- 654

Query: 596 GSITLPAHPGNY--CGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLS 653
               +  H G +    +L++L  ++ +      ++    L +LR L I+G+L  +   + 
Sbjct: 655 ---YMCGHSGGHLRIDTLKHLQTLTEIDVSRWKQNNTADLVSLRKLGIRGNLCSDTIKIF 711

Query: 654 KSLCRLSCLESLKL-ANESKMPRLSKI-----------------ILAEYVFPHSLTHLSF 695
            S+  L  L SL L A  ++ P L ++                 + ++  FP +L+ L+ 
Sbjct: 712 DSISALLQLRSLYLRAEGAEFPSLVQLGSLRSLIKLHLRGGISQLPSQQDFPPNLSQLTL 771

Query: 696 SNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTM 755
            +T L  + +  LEKLP L +L+ K  SYS  KLT  +DGFP+L+ L   S+  L E+ +
Sbjct: 772 EHTQLEQESIEILEKLPKLSILRFKAESYSKEKLTISADGFPQLEFLEFNSLESLHEFNI 831

Query: 756 GTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNF 790
              A+P+LE  +I  C  L+ +PE++  + +L+  
Sbjct: 832 EENAVPRLESFLIVNCKGLRMLPEEMRFVATLHKL 866

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356496703|ref|XP_003517205.1| PREDICTED: disease resistance RPP8-like protein 3-like [Glycine max]

 Score =  225 bits (574), Expect = 7e-56,   Method: Compositional matrix adjust.
 Identities = 242/893 (27%), Positives = 375/893 (41%), Gaps = 138/893 (15%)

Query: 23  VLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVM 82
            +A   V+     ++ ++NL  E+  + S+LRD +              +  N  +R  +
Sbjct: 22  AVAAVSVSQLAGVREQVENLKNELGWMQSFLRDAD------------AKQEGNDRVRMWV 69

Query: 83  DEINCFTYESEKVIDTFISSITQQKSQSGCRE-----DICDALQGLQSKIIDIKQRMQQ- 136
            EI    +E+E++I+T++   T Q S            +   +  + SKI  I  R +  
Sbjct: 70  SEIRDVAFEAEELIETYVYKTTMQSSLDKVFRPFHLYKVRTRIDKILSKIKSISDRRETY 129

Query: 137 ----LEHIDSRIINELKSIKAQAGNFPASLSFKNRDTVGLDDRMEELLDLLIEGPPQLSA 192
               +   D    NE    + +    P+  S +    + L+D M  L   L+   P    
Sbjct: 130 GVVVMTRDDGNNSNE----RLRHWRQPSPYS-EEEYVIELEDDMRLLFTQLLAVEPTPHV 184

Query: 193 VTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFL------- 245
           V+I+   GL KT  A + Y+   + ++F+C AWV          +L  I++ +       
Sbjct: 185 VSIVGMGGLGKTTLAKKLYNHTRITNHFECKAWVYVSKEYRRRDVLQGILRDVDALTRDE 244

Query: 246 ---MPSSRLI-ILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDT 301
              +P   L+  L   L  KRYL+V+DD+W +EVWD ++   P  + GS++L+T    D 
Sbjct: 245 MEKIPEEELVNKLRNVLSEKRYLVVLDDIWGMEVWDGLKSAFPRGKMGSKILLTTRNGDV 304

Query: 302 V-------------TLFQ-----------FENGQNIRLDLV---PTGGPLRVTYQGWPFH 334
                         TL +           F     I L+LV        + V   G P  
Sbjct: 305 ALHADACSNPHQLRTLTEDESFRLLCNKAFPGANGIPLELVQLKSLAKEIVVKCGGLPLA 364

Query: 335 ILYHGSI------SLEENKR----------EAIAKPIFLQSVAYCMLPFPLKLCCLYLPV 378
           ++  G +      S  E KR          E   K   + +++Y  LP  LK C LYL +
Sbjct: 365 VVVVGGLLSRKLKSSGEWKRVLQNISWHLLEEQEKIARILALSYNDLPPHLKSCFLYLGL 424

Query: 379 FPAHLEISTRQLYQLWIAEGFIPDNSEATAE----KYLEQLINRGFVEVKKRRAGGTINT 434
           FP  + I T++L +LW+AEGF+    E TAE    KYL +LI R  ++V    + G + T
Sbjct: 425 FPEGVNIQTKKLIRLWVAEGFLLQEGEETAEGVAQKYLNELIGRCMIQVGTVSSLGRVKT 484

Query: 435 CSIRSRCWPSLLVVTLNAEFVFSPIL--DPKGESRKNVKRFFALEQQSDFAYLDDYYPHL 492
             IR       L ++   E  F  I   D  G+S K  +R         +  L     H 
Sbjct: 485 --IRIHHLLRDLSLSKGKEEYFLKIFQGDVAGQSTK-ARRHSMHSCHDRYDSLKHNAGHS 541

Query: 493 HSLLYFTSESDHLDHIDWQK-----------ICEMYKLLRVLDLGSLVLNQYPSEIENLS 541
            SLL+F  E + +    W             I   +KLLRVL+L  + +   PS I +L 
Sbjct: 542 RSLLFFNREYNDIVRKLWHPLNFQQEKKLNFIYRKFKLLRVLELDGVRVVSLPSLIGDLI 601

Query: 542 LLRYLKLNIPSLKS-LPLSFFNYLLNLYTLDMPFS-YIDHTADEFWKMKKLRHLN-FGSI 598
            LRYL L   +L+  LP S  N L NL TLD+ +  ++    +  WKM  LRHL  +   
Sbjct: 602 QLRYLGLRKTNLEEELPPSIGN-LQNLQTLDLRYCCFLMKIPNVIWKMVNLRHLLLYTPF 660

Query: 599 TLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCR 658
             P        +L NL  +  +       D  G L N+ NLR  G    +  +++  L  
Sbjct: 661 DSPDSSHLRMDTLTNLQTLPHIEAGNWIVD--GGLANMINLRQLGICELSGQMVNSVLST 718

Query: 659 LS---------------------------CLESLKLANESKMPRLSKIILAEYVFPHSLT 691
           +                            C    KL+   K+ +L       + FP +L 
Sbjct: 719 VQGLHNLHSLSLSLQSEEDEFPIFMQLSQCTHLQKLSLNGKIKKLPD----PHEFPPNLL 774

Query: 692 HLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLE 751
            L+  N+ L  + +  LE+LP L+VL L + +Y+  +L    +GFP+L +L L  +  LE
Sbjct: 775 KLTLHNSHLQKESIAKLERLPNLKVLILGKGAYNWPELNFNGEGFPQLHILRLVLLKELE 834

Query: 752 EWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQPELRQKLR 804
           EWT+   AMP+LE ++I+ C  LKK+PE L  I SL          E   KLR
Sbjct: 835 EWTVEENAMPRLENMVIDRCEKLKKIPEGLKAITSLKKLKIIGMPVEFEHKLR 887

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745275|emb|CBI40355.3| unnamed protein product [Vitis vinifera]

 Score =  225 bits (573), Expect = 9e-56,   Method: Compositional matrix adjust.
 Identities = 242/869 (27%), Positives = 384/869 (44%), Gaps = 133/869 (15%)

Query: 15  LFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDEND 74
            F+E+L  ++  E         Q I+ L  E+E    W+R F  D       K   DE  
Sbjct: 8   FFAEKLSNLILQEASVFGQVEGQ-IKLLRNELE----WMRLFLKDAD----SKRIYDER- 57

Query: 75  NPDLRTVMDEINCFTYESEKVIDTFISSITQQKSQSGCREDICDALQGLQSKIIDIKQRM 134
              ++  +++I   T+++E VID FI ++  ++     R +    L+ L +  +    ++
Sbjct: 58  ---IKLWVNQIRNATHDAEDVIDEFILNMDHRQR----RLNTLKFLKCLPA-CVGFADKL 109

Query: 135 QQLEHIDSRI--INEL------KSIKAQAGNFPASLS----------------FKNRDTV 170
             +  +DSR+  IN +         K   G+  AS S                 +  D V
Sbjct: 110 PFIHELDSRVKDINVMIGAIMANRSKYGLGDLVASSSSTTDQVAAHKEKRPPVVEESDVV 169

Query: 171 GLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY 230
           G++D +EE+  +L++   + S V+I+   GL KT FA + Y+   V+ +FDC AWV    
Sbjct: 170 GIEDGIEEVKQMLMKEETRRSVVSIVGMGGLGKTTFAKKVYNQRDVQQHFDCKAWVYVSQ 229

Query: 231 TCYADQIL-DIIIKFL--------MPSSRLI-ILHEYLMTKRYLIVIDDVWSIEVWDIIR 280
              A +IL DI   F+        M  S L   L EYL  K+YLIV+DDVWS EVW  +R
Sbjct: 230 EFRAREILLDIANHFMSLSEKEKEMRESELGEKLCEYLKEKKYLIVMDDVWSSEVWSRLR 289

Query: 281 EILPDNQNGSRVLIT-----LAKIDTVTLFQFE----------------------NGQNI 313
             LP+ ++GS+VLIT     +A   T   F +E                          +
Sbjct: 290 SHLPEAKDGSKVLITTRNKEIALQATSQAFIYELRLMNDDESWQLFLKKTFQGTSTPHTL 349

Query: 314 RLDLVPTGGPLRVTYQGWPFHILYHGSI-SLEENKREAIAKPIF---------------L 357
             +L   G  +    +G P  ++  G + S +E  + +  K +                +
Sbjct: 350 SRELEEPGKKIVAKCKGLPLAVVVLGGLLSTKEKTKPSWEKVLASIEWYLDQGPESCMGI 409

Query: 358 QSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEAT----AEKYLE 413
            +++Y  LP+ LK C LY  +FP   EI   +L +LW+AEGFI    + T    AE Y+ 
Sbjct: 410 LALSYNDLPYYLKSCFLYCGIFPEDSEIKASKLIRLWLAEGFIQRRGKETLEDIAEDYMH 469

Query: 414 QLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVKRF 473
           +LI+R  ++V KRR  G + +C +        ++   +A F          E  +N+   
Sbjct: 470 ELIHRSLIQVAKRRVDGEVESCRMHDLLRDLAVLEAKDANFF---------EVHENIDFT 520

Query: 474 FALEQQSDFAYLDDYYPHLHSLLY------FTSESDHLDHIDWQKICEMYKLLRVLDLGS 527
           F +  +    + +    ++   L+        S S+      W+ + E  KLL VL+LG+
Sbjct: 521 FPISVRRLVIHQNLMKKNISQCLHNSQLRSLVSFSETKGKKSWRYLQEHIKLLTVLELGN 580

Query: 528 LVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKM 587
              N  P +I     L+ L +N     +LP S    L+NL +LD+   Y        WK+
Sbjct: 581 T--NMLPRDIGEFIHLKCLCINGYGRVTLPSSICR-LVNLQSLDLGDQY-GSIPYSIWKL 636

Query: 588 KKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCT--KDLLGRLPNLRNLRIQGDL 645
           ++LRHLN G  T    P    G  E++  ++AL     +  K    RL N   L  Q ++
Sbjct: 637 QQLRHLNCGLFT----PYLKKGFFESITKLTALQTLALSIEKYSKKRLLNHLGLEWQKNV 692

Query: 646 SYNQSL---LSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMD 702
              ++L   L    C     E   +    K+P   +       +P +L  L     +L D
Sbjct: 693 IEEKTLFPGLEPFSCHAYLYELCLVGKLEKLPEQFEF------YPPNLLQLDLWKCELRD 746

Query: 703 DPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPK 762
           DPM  LEKLP L++L L  ++Y G K+ C S GF +L+ L L  +  LEE T+G GAM  
Sbjct: 747 DPMMILEKLPSLRMLGLYFDAYVGIKMICSSGGFLQLERLSLVELKKLEELTVGEGAMSS 806

Query: 763 LECLIINPCAYLKKMPEQLWCIKSLNNFN 791
           L+ L I  C  +KK+P  L  + +L   +
Sbjct: 807 LKTLQILNCNEMKKLPHGLLQLTNLEKLS 835

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255582947|ref|XP_002532244.1| Disease resistance protein RPM1, putative [Ricinus communis] gi|223528062|gb|EEF30138.1| Disease resistance protein RPM1, putative [Ricinus communis]

 Score =  224 bits (570), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 231/912 (25%), Positives = 395/912 (43%), Gaps = 132/912 (14%)

Query: 19  RLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDL 78
           +L  +L GE V L       +Q L  E+E + S+LRD +              EN +  +
Sbjct: 12  KLDTLLTGE-VKLLRNVHTELQGLRDELEAIESFLRDADVRFY---------QENSDSRI 61

Query: 79  RTVMDEINCFTYESEKVIDTFISSITQQKSQSGCREDICDALQGLQ------SKIIDIKQ 132
           +T + ++    +E E  ID ++  + + + Q G    I   ++ L+      SKI D+K+
Sbjct: 62  KTWVKQVRQVAFEIEDAIDVYMLHLVRHQDQHGFFHKISRLVRKLKPRHEIASKIQDLKK 121

Query: 133 RMQQLEHIDSRIINELKSIKAQAGNFPA-------SLSFKNRDTVGLDDRMEELLDLLIE 185
            + ++     R    L S +  +            SL     + VG++    EL+  L+E
Sbjct: 122 SVCEIRERSDRYKFNLSSEQGSSDRDNTWHDPRVHSLFIDEAELVGIESPKAELISKLVE 181

Query: 186 GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFL 245
           G  +   ++++   GL KT  A + +    V  YFDC AW+    +    ++L I+I+ L
Sbjct: 182 GASENVVISVVGMGGLGKTTLAKKVFDSERVTVYFDCKAWITVTQSYKMAKLLRIMIRQL 241

Query: 246 -----MPS----------SRLIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGS 290
                +P+          S +  L EYL+ KRYL++ DDVW I +W  I   LP+N  G+
Sbjct: 242 HQENVLPAFEGTDTMSELSLIEKLREYLIEKRYLVIFDDVWDIFLWGYIMTALPNNGKGN 301

Query: 291 RVLIT-----------------------LAKIDTVTLF---QFE-NGQNIRLDLVPTGGP 323
           R++IT                       L K +   LF    F+ NG N    L      
Sbjct: 302 RIIITTRNEGVAPSPNESPFYYVFKLQLLPKREAYELFCKKVFQSNGGNCPSQLQELSHA 361

Query: 324 LRVTYQGWPFHILYHGSI--------------------SLEENKREAIAKPIFLQSVAYC 363
           +    +G P  I+  G +                    SL  ++R  ++  I + S++Y 
Sbjct: 362 IVEKCEGLPLAIVTIGGVLATKEKLVTEWKKFYDDLTSSLASDQR--LSNIIKILSLSYQ 419

Query: 364 MLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNS----EATAEKYLEQLINRG 419
            LP+ LK C LY  +FP +  I+  +L +LWIA+G I +      E  AE+YL +L++R 
Sbjct: 420 DLPYYLKSCFLYFNLFPENCSINCWRLIRLWIADGLIKERQGRIVEEVAEEYLIELVHRR 479

Query: 420 FVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQ 479
            V+V++         C +       +L  +   E  F  +     ++ K   R  ++  +
Sbjct: 480 LVQVERVSFDSKARECRVHDLMREIILFQS--RELSFHQVSSKDYQNLKGRSRHLSINDK 537

Query: 480 SDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIEN 539
                  +     HS++ F  ES+ L       + + +KLLR LDL    L+  P E+ N
Sbjct: 538 VKNILESNCNSQTHSIILF--ESNELPKSFITSVIDDFKLLRSLDLEGAPLDYIPDEVGN 595

Query: 540 LSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHL------ 593
           L  L+YL L   ++K LP S    L NL TLD+  S +     E  ++ KLRHL      
Sbjct: 596 LWHLKYLCLKDTNVKVLPKS-IGKLCNLETLDLRQSLVLDLPIEINRLLKLRHLLAYFFN 654

Query: 594 --------NFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDL 645
                   +  ++ +  + G+   +L+ L++I A +     +  + RL  LR L I    
Sbjct: 655 YDNEFYINSLRAVKMHGNIGS-LKALQKLSYIEADHGVDLIRQ-IERLTQLRKLGITKLK 712

Query: 646 SYNQSLLSKSLCRLSCLESLKLANES-----KMPRLSKIILAEYVFPHS----------- 689
             N   L  +L ++SCL++LK+++ S      +  +S   L +Y++              
Sbjct: 713 KENGLDLCYALEKMSCLQTLKVSSGSVEEFLDLRSISGPPLLQYLYLSGPLVELPPWISK 772

Query: 690 ---LTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKS 746
              L  L F+ + L +D +  L+ LP LQ+L+  +   + ++L      F  LK+LHL  
Sbjct: 773 LSCLVKLVFNWSRLGNDAIQVLQALPNLQMLRFYEGC-NAKQLHFTKGCFSNLKMLHLLH 831

Query: 747 MLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQPELRQKLREF 806
           +  L +  +  G +P +E L I PC  LK++P  +  +++L     +  Q E    ++  
Sbjct: 832 LTRLNKLIIDEGGLPVIEELSIGPCPKLKELPSGIHYLRNLKRLEFYDIQREFAIGMQPL 891

Query: 807 EDKEQCGIQLYP 818
              E C +Q  P
Sbjct: 892 GGHEYCKVQNIP 903

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	821
TAIR|locus:2169523	901	AT5G35450 [Arabidopsis thalian	0.154	0.140	0.304	1.3e-30
TAIR|locus:2037639	907	AT1G58390 "AT1G58390" [Arabido	0.124	0.112	0.382	4.9e-29
TAIR|locus:2152536	908	AT5G48620 [Arabidopsis thalian	0.155	0.140	0.317	2.8e-27
TAIR|locus:2176486	908	RPP8 "RECOGNITION OF PERONOSPO	0.155	0.140	0.317	1.5e-26
TAIR|locus:2037623	899	AT1G58410 [Arabidopsis thalian	0.137	0.125	0.372	4.1e-26
TAIR|locus:2077572	926	RPM1 "RESISTANCE TO P. SYRINGA	0.292	0.259	0.25	2.1e-24
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.261	0.253	0.288	3.5e-22
TAIR|locus:504956182	1049	AT1G58848 [Arabidopsis thalian	0.159	0.124	0.345	8.7e-22
TAIR|locus:2826978	1049	AT1G59218 [Arabidopsis thalian	0.159	0.124	0.345	8.7e-22
TAIR|locus:504956184	1017	AT1G58807 "AT1G58807" [Arabido	0.126	0.102	0.361	1.3e-21

TAIR|locus:2169523 AT5G35450 [Arabidopsis thaliana (taxid:3702)]

 Score = 169 (64.5 bits), Expect = 1.3e-30, Sum P(4) = 1.3e-30
 Identities = 39/128 (30%), Positives = 63/128 (49%)

Query:   676 LSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAXXXXXXXXXXXXXQNSYSGRKLTCGSDG 735
             LSKI     + PH + H+      + +DPMP              + ++ GR++ C   G
Sbjct:   750 LSKIPDQHQLPPH-IAHIYLLFCHMEEDPMPILEKLLHLKSVELRRKAFIGRRMVCSKGG 808

Query:   736 FPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWP 795
             FP+L+ L +     LEEW +  G+MP L  LII+ C  L+++P+ L  + SL        
Sbjct:   809 FPQLRALQISEQSELEEWIVEEGSMPCLRDLIIHSCEKLEELPDGLKYVTSLKELKIEGM 868

Query:   796 QPELRQKL 803
             + E ++KL
Sbjct:   869 KREWKEKL 876

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

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

 Score = 174 (66.3 bits), Expect = 4.9e-29, Sum P(5) = 4.9e-29
 Identities = 39/102 (38%), Positives = 52/102 (50%)

Query:   686 FPHSLTHLSFSNTDLMDDPMPAXXXXXXXXXXXXXQNSYSGRKLTCGSDGFPRLKVLHLK 745
             FP  LT +  S   L +DPMP              + SY GR++ C   GFP+LK L + 
Sbjct:   769 FPSRLTFVKLSECGLEEDPMPILEKLLHLKGVILLKGSYCGRRMVCSGGGFPQLKKLEIV 828

Query:   746 SMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSL 787
              +   EEW +  G+MP LE L I  C  LK++P+ L  I SL
Sbjct:   829 GLNKWEEWLVEEGSMPLLETLSILDCEELKEIPDGLRFIYSL 870

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2152536 AT5G48620 [Arabidopsis thaliana (taxid:3702)]

 Score = 173 (66.0 bits), Expect = 2.8e-27, Sum P(3) = 2.8e-27
 Identities = 41/129 (31%), Positives = 63/129 (48%)

Query:   675 RLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAXXXXXXXXXXXXXQNSYSGRKLTCGSD 734
             R+SKI   ++ FP  L H+   +  + +DPMP                ++ GR++ C   
Sbjct:   758 RMSKIP-DQHQFPPHLAHIHLVHCVMKEDPMPILEKLLHLKSVALSYGAFIGRRVVCSKG 816

Query:   735 GFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWW 794
             GFP+L  L +     LEEW +  G+MP L  L I+ C  LK++P+ L  I SL       
Sbjct:   817 GFPQLCALGISGESELEEWIVEEGSMPCLRTLTIHDCEKLKELPDGLKYITSLKELKIRE 876

Query:   795 PQPELRQKL 803
              + E ++KL
Sbjct:   877 MKREWKEKL 885

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

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

 Score = 173 (66.0 bits), Expect = 1.5e-26, Sum P(3) = 1.5e-26
 Identities = 41/129 (31%), Positives = 63/129 (48%)

Query:   675 RLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAXXXXXXXXXXXXXQNSYSGRKLTCGSD 734
             R+SKI   ++ FP  L HL      + +DPMP              + ++ G ++ C   
Sbjct:   758 RMSKIP-DQHQFPPHLVHLFLIYCGMEEDPMPILEKLLHLKSVRLARKAFLGSRMVCSKG 816

Query:   735 GFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWW 794
             GFP+L V+ +     LEEW +  G+MP L  L I+ C  LK++P+ L  I SL       
Sbjct:   817 GFPQLCVIEISKESELEEWIVEEGSMPCLRTLTIDDCKKLKELPDGLKYITSLKELKIEG 876

Query:   795 PQPELRQKL 803
              + E ++KL
Sbjct:   877 MKREWKEKL 885

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:2037623 AT1G58410 [Arabidopsis thaliana (taxid:3702)]

 Score = 156 (60.0 bits), Expect = 4.1e-26, Sum P(4) = 4.1e-26
 Identities = 44/118 (37%), Positives = 60/118 (50%)

Query:   672 KMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAXXXXXXXXXXXXXQNSYSGRKLTC 731
             +MPRL KI   +++ P  LT L  S   L +DPMP                S+SGRK+ C
Sbjct:   756 EMPRLPKI---QHL-PSHLTVLDLSYCCLEEDPMPILEKLLELKDLSLDYLSFSGRKMVC 811

Query:   732 GSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNN 789
              + GFP+L+ L L      EEW +  G+M +L  L I     LK++P+ L  I SL N
Sbjct:   812 SAGGFPQLRKLALDEQEEWEEWIVEEGSMSRLHTLSIWSST-LKELPDGLRFIYSLKN 868

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2077572 RPM1 "RESISTANCE TO P. SYRINGAE PV MACULICOLA 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 182 (69.1 bits), Expect = 2.1e-24, Sum P(3) = 2.1e-24
 Identities = 65/260 (25%), Positives = 113/260 (43%)

Query:   343 LEENKREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPD 402
             L  N    I + I   S  +  LP+PLK C LY  +FP +  +  ++L ++W+A+ F+  
Sbjct:   407 LNNNHELKIVRSIMFLS--FNDLPYPLKRCFLYCSLFPVNYRMKRKRLIRMWMAQRFVEP 464

Query:   403 ----NSEATAEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEF--VF 456
                  +E  A+ YL +L+ R  ++V      G      +    W   L V+    F  V+
Sbjct:   465 IRGVKAEEVADSYLNELVYRNMLQVILWNPFGRPKAFKMHDVIWEIALSVSKLERFCDVY 524

Query:   457 SPILD--PKGESRKNV-KRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKI 513
             +   D     E+ +N   R   ++++     +     +LHSLL  +S    ++      +
Sbjct:   525 NDDSDGDDAAETMENYGSRHLCIQKEMTPDSIRA--TNLHSLLVCSSAKHKME------L 576

Query:   514 CEMYKXXXXXXXXXXXXNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMP 573
                              ++ P  +  +  L+YL L+   +K LP +F   L+NL TL+  
Sbjct:   577 LPSLNLLRALDLEDSSISKLPDCLVTMFNLKYLNLSKTQVKELPKNFHK-LVNLETLNTK 635

Query:   574 FSYIDHTADEFWKMKKLRHL 593
              S I+      WK+KKLR+L
Sbjct:   636 HSKIEELPLGMWKLKKLRYL 655

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0000166 "nucleotide binding" evidence=ISS

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

TAIR|locus:504956483 AT3G46730 [Arabidopsis thaliana (taxid:3702)]

 Score = 159 (61.0 bits), Expect = 3.5e-22, Sum P(4) = 3.5e-22
 Identities = 69/239 (28%), Positives = 98/239 (41%)

Query:   369 LKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEK----YLEQLINRGFVEVK 424
             LKLC LY  VFP   EI   +L  L +AEGFI ++ E   E     Y+++L++R  V+ +
Sbjct:   417 LKLCFLYFSVFPEDYEIKVEKLIHLLVAEGFIQEDEEMMMEDVARCYIDELVDRSLVKAE 476

Query:   425 KRRAGGTINTCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAY 484
              R   G + +C I        L +    E  F  + + K  S    +R       +D+ Y
Sbjct:   477 -RIERGKVMSCRIHDLLRD--LAIKKAKELNFVNVYNEKQHSSDICRREVVHHLMNDY-Y 532

Query:   485 LDD--YYPHLHSLLYFTSESDHLDHIDWQ----KICEMYKXXXXXXXXXXXXNQYPSEIE 538
             L D      + S L F  E     +++      K+  +              N  P  I 
Sbjct:   533 LCDRRVNKRMRSFL-FIGERRGFGYVNTTNLKLKLLRVLNMEGLLFVSKNISNTLPDVIG 591

Query:   539 NLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM----PFSYIDHTADEFWKMKKLRHL 593
              L  LRYL +    +  LP S  N L  L TLD     PF Y   T D   K+  LRH+
Sbjct:   592 ELIHLRYLGIADTYVSILPASISN-LRFLQTLDASGNDPFQY---TTD-LSKLTSLRHV 645

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 174 (66.3 bits), Expect = 8.7e-22, Sum P(5) = 8.7e-22
 Identities = 49/142 (34%), Positives = 71/142 (50%)

Query:   673 MPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAXXXXXXXXXXXXXQNSYSGRKLTCG 732
             MPRLSK    E  FP  LT L   +  L +DPMP              + S+SG+++ C 
Sbjct:   766 MPRLSK----EQHFPSHLTTLYLQHCRLEEDPMPILEKLHQLKELELRRKSFSGKEMVCS 821

Query:   733 SDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMP-EQLWC-IKSLNNF 790
             S GFP+L+ L +K +   E+W +   +MP L  L I  C  LK++P E L   + S++ F
Sbjct:   822 SGGFPQLQKLSIKGLEEWEDWKVEESSMPVLHTLDIRDCRKLKQLPDEHLPSHLTSISLF 881

Query:   791 NCWW---PQPELRQ--KLREFE 807
              C     P P L +   L+E +
Sbjct:   882 FCCLEEDPMPTLERLVHLKELQ 903

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 174 (66.3 bits), Expect = 8.7e-22, Sum P(5) = 8.7e-22
 Identities = 49/142 (34%), Positives = 71/142 (50%)

Query:   673 MPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAXXXXXXXXXXXXXQNSYSGRKLTCG 732
             MPRLSK    E  FP  LT L   +  L +DPMP              + S+SG+++ C 
Sbjct:   766 MPRLSK----EQHFPSHLTTLYLQHCRLEEDPMPILEKLHQLKELELRRKSFSGKEMVCS 821

Query:   733 SDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMP-EQLWC-IKSLNNF 790
             S GFP+L+ L +K +   E+W +   +MP L  L I  C  LK++P E L   + S++ F
Sbjct:   822 SGGFPQLQKLSIKGLEEWEDWKVEESSMPVLHTLDIRDCRKLKQLPDEHLPSHLTSISLF 881

Query:   791 NCWW---PQPELRQ--KLREFE 807
              C     P P L +   L+E +
Sbjct:   882 FCCLEEDPMPTLERLVHLKELQ 903

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 161 (61.7 bits), Expect = 1.3e-21, Sum P(4) = 1.3e-21
 Identities = 39/108 (36%), Positives = 54/108 (50%)

Query:   673 MPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAXXXXXXXXXXXXXQNSYSGRKLTCG 732
             MPRLS     E  FP  LT L   +  L +DPMP                S+SG+K+ C 
Sbjct:   758 MPRLS----TEQHFPSHLTTLYLESCRLEEDPMPILEKLLQLKELELGFESFSGKKMVCS 813

Query:   733 SDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQ 780
             S GFP+L+ L L  +   E+W +   +MP L  L I  C  LK++P++
Sbjct:   814 SGGFPQLQRLSLLKLEEWEDWKVEESSMPLLRTLDIQVCRKLKQLPDE 861

GO:0005575 "cellular_component" evidence=ND

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

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	821
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-26

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

 Score =  109 bits (274), Expect = 2e-26
 Identities = 82/283 (28%), Positives = 117/283 (41%), Gaps = 57/283 (20%)

Query: 173 DDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC 232
           +D +E L++ L+E    L  V I+   G+ KT  A + Y+ + V  +FD  AWV    T 
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTY 61

Query: 233 YADQILDIIIKFLMPSSRLII----------LHEYLMTKRYLIVIDDVWSIEVWDIIREI 282
              ++   I++ L       +          + E L+ KR+L+V+DDVW    WD I   
Sbjct: 62  TEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGVP 121

Query: 283 LPDNQNGSRVLIT---------------------LAKIDTVTLFQ---FEN----GQNIR 314
            PD +NGSRV++T                     L   ++  LF    FE        + 
Sbjct: 122 FPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPELE 181

Query: 315 --------------LDLVPTGGPL--RVTYQGWPFHILYHGSISLEENKREAIAKPIFLQ 358
                         L L   GG L  + T Q W  H+L   +  L           I   
Sbjct: 182 EVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWE-HVLEQLNNELAGRDGLNEVLSIL-- 238

Query: 359 SVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIP 401
           S++Y  LP  LK C LYL +FP    I   QL +LWIAEGF+ 
Sbjct: 239 SLSYDNLPMHLKRCFLYLALFPEDYNIRKEQLIKLWIAEGFVI 281

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	821
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.92
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.92
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.91
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.86
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.82
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.81
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.79
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.79
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.72
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.68
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.62
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.53
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.51
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.48
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.45
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.44
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.44
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.37
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.36
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.28
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.27
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.08
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.98
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.98
KOG4341	483	consensus F-box protein containing LRR [General fu	98.95
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.85
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.84
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.82
PRK04841	903	transcriptional regulator MalT; Provisional	98.79
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.78
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.78
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.76
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.73
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.72
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.68
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.67
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.64
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.62
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.58
KOG4341	483	consensus F-box protein containing LRR [General fu	98.5
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.44
PLN03150	623	hypothetical protein; Provisional	98.42
cd01128	249	rho_factor Transcription termination factor rho is	98.42
PF05729	166	NACHT: NACHT domain	98.41
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.41
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.41
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.41
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.33
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.33
PTZ00202	550	tuzin; Provisional	98.32
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.3
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.27
PRK09376	416	rho transcription termination factor Rho; Provisio	98.27
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.26
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.24
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.21
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.19
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.15
PLN03150	623	hypothetical protein; Provisional	98.11
PF13173	128	AAA_14: AAA domain	98.1
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.01
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.01
TIGR00767	415	rho transcription termination factor Rho. Members	97.99
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.96
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.95
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.91
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.9
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.88
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.84
COG3899	849	Predicted ATPase [General function prediction only	97.83
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.77
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.77
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.74
PRK06893	229	DNA replication initiation factor; Validated	97.74
PRK13342	413	recombination factor protein RarA; Reviewed	97.71
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.71
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.66
PRK08116	268	hypothetical protein; Validated	97.65
PRK15386	426	type III secretion protein GogB; Provisional	97.64
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.61
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.58
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.57
COG2256	436	MGS1 ATPase related to the helicase subunit of the	97.57
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.57
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.55
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.51
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	97.51
PRK12402	337	replication factor C small subunit 2; Reviewed	97.5
PRK13341	725	recombination factor protein RarA/unknown domain f	97.44
PRK04195	482	replication factor C large subunit; Provisional	97.43
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	97.41
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.4
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.4
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.39
PHA02544	316	44 clamp loader, small subunit; Provisional	97.39
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.38
PLN03025	319	replication factor C subunit; Provisional	97.38
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.38
PRK12377	248	putative replication protein; Provisional	97.37
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	97.37
PRK08727	233	hypothetical protein; Validated	97.37
PRK15386	426	type III secretion protein GogB; Provisional	97.37
KOG2028	554	consensus ATPase related to the helicase subunit o	97.36
COG3903	414	Predicted ATPase [General function prediction only	97.35
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.33
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.29
PRK08118	167	topology modulation protein; Reviewed	97.29
CHL00181	287	cbbX CbbX; Provisional	97.29
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	97.28
PRK08181	269	transposase; Validated	97.27
smart00382	148	AAA ATPases associated with a variety of cellular	97.26
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.25
PRK05642	234	DNA replication initiation factor; Validated	97.22
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.21
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.2
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.16
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.15
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.13
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.12
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	97.11
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.11
PRK06921	266	hypothetical protein; Provisional	97.1
PRK08084	235	DNA replication initiation factor; Provisional	97.1
PRK10536	262	hypothetical protein; Provisional	97.1
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.09
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	97.09
PRK07952	244	DNA replication protein DnaC; Validated	97.09
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.08
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.05
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.05
PF00004	132	AAA: ATPase family associated with various cellula	97.04
PRK06526	254	transposase; Provisional	97.03
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.01
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.0
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	96.98
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	96.96
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	96.96
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	96.96
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	96.96
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	96.96
PRK09183	259	transposase/IS protein; Provisional	96.95
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.93
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	96.92
PRK14088	440	dnaA chromosomal replication initiation protein; P	96.89
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.87
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	96.85
PRK07471	365	DNA polymerase III subunit delta'; Validated	96.83
PRK14087	450	dnaA chromosomal replication initiation protein; P	96.81
PRK06835	329	DNA replication protein DnaC; Validated	96.8
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.8
PRK09087	226	hypothetical protein; Validated	96.8
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	96.78
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.77
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	96.77
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	96.75
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.75
PRK08939	306	primosomal protein DnaI; Reviewed	96.75
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	96.75
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.74
PRK06620	214	hypothetical protein; Validated	96.74
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.71
PRK00149	450	dnaA chromosomal replication initiation protein; R	96.7
PRK09112	351	DNA polymerase III subunit delta'; Validated	96.69
PRK10865	857	protein disaggregation chaperone; Provisional	96.68
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.67
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	96.66
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.66
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.66
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	96.63
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.63
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.63
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	96.62
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.61
CHL00095	821	clpC Clp protease ATP binding subunit	96.61
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.59
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.56
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.55
CHL00095	821	clpC Clp protease ATP binding subunit	96.54
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.53
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	96.53
PRK12422	445	chromosomal replication initiation protein; Provis	96.5
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	96.49
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.49
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.48
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	96.48
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.47
PRK10865	857	protein disaggregation chaperone; Provisional	96.46
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.45
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.42
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.41
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	96.4
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	96.4
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	96.4
PRK12608	380	transcription termination factor Rho; Provisional	96.4
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.39
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.37
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.36
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.36
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	96.34
PRK14086	617	dnaA chromosomal replication initiation protein; P	96.32
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.32
PRK07261	171	topology modulation protein; Provisional	96.32
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.3
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.3
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.26
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.24
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.24
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	96.23
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	96.22
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.22
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.21
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	96.2
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.18
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.14
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.11
PRK07667	193	uridine kinase; Provisional	96.11
PRK06696	223	uridine kinase; Validated	96.1
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.08
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	96.08
COG0593	408	DnaA ATPase involved in DNA replication initiation	96.08
PRK15455	644	PrkA family serine protein kinase; Provisional	96.07
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	96.03
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.01
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.0
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.99
CHL00176	638	ftsH cell division protein; Validated	95.97
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	95.95
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	95.95
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	95.93
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.92
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	95.92
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.89
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	95.88
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	95.87
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.87
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	95.83
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	95.82
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.82
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	95.79
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.77
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.77
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.76
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	95.73
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.73
PTZ00035	337	Rad51 protein; Provisional	95.7
PRK05541	176	adenylylsulfate kinase; Provisional	95.66
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.64
PRK05022	509	anaerobic nitric oxide reductase transcription reg	95.64
PRK05707	328	DNA polymerase III subunit delta'; Validated	95.6
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	95.6
PRK11608	326	pspF phage shock protein operon transcriptional ac	95.58
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	95.58
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	95.57
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	95.57
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	95.55
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	95.53
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.48
CHL00195	489	ycf46 Ycf46; Provisional	95.47
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	95.45
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	95.42
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	95.41
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	95.37
PRK13695	174	putative NTPase; Provisional	95.36
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.35
KOG1514	767	consensus Origin recognition complex, subunit 1, a	95.32
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.31
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.3
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.3
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.29
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.25
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.25
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	95.2
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	95.18
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	95.18
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	95.17
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	95.15
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	95.15
cd03246	173	ABCC_Protease_Secretion This family represents the	95.12
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	95.11
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	95.1
PRK09354	349	recA recombinase A; Provisional	95.09
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	95.08
KOG1969	877	consensus DNA replication checkpoint protein CHL12	95.06
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.06
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.05
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.02
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	95.02
PTZ00301	210	uridine kinase; Provisional	95.0
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	94.98
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.95
PRK08233	182	hypothetical protein; Provisional	94.92
PRK06547	172	hypothetical protein; Provisional	94.91
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	94.91
PHA00729	226	NTP-binding motif containing protein	94.9
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	94.89
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	94.87
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	94.85
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	94.84
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	94.83
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	94.83
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	94.82
PRK05480	209	uridine/cytidine kinase; Provisional	94.79
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	94.77
PRK08058	329	DNA polymerase III subunit delta'; Validated	94.75
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	94.75
PRK04296	190	thymidine kinase; Provisional	94.74
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	94.74
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	94.72
TIGR00235	207	udk uridine kinase. Model contains a number of lon	94.72
PRK13531	498	regulatory ATPase RavA; Provisional	94.68
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.67
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	94.66
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	94.65
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	94.63
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.61
PRK08149	428	ATP synthase SpaL; Validated	94.6
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	94.59
PRK06217	183	hypothetical protein; Validated	94.56
PRK00771	437	signal recognition particle protein Srp54; Provisi	94.55
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	94.53
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	94.51
PRK06762	166	hypothetical protein; Provisional	94.49
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	94.48
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	94.47
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	94.43
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	94.43
PRK14974	336	cell division protein FtsY; Provisional	94.41
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	94.41
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	94.41
PRK03839	180	putative kinase; Provisional	94.4
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	94.39
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	94.38
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	94.37
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	94.37
PRK05922	434	type III secretion system ATPase; Validated	94.36
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	94.36
cd03215	182	ABC_Carb_Monos_II This family represents domain II	94.36
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	94.35
PF07726	131	AAA_3: ATPase family associated with various cellu	94.34
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	94.33
PRK07399	314	DNA polymerase III subunit delta'; Validated	94.33
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.33
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	94.31
PRK04040	188	adenylate kinase; Provisional	94.31
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.29
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	94.29
COG2884	223	FtsE Predicted ATPase involved in cell division [C	94.29
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	94.29
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	94.22
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	94.21
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	94.2
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	94.18
PRK06936	439	type III secretion system ATPase; Provisional	94.16
PRK00625	173	shikimate kinase; Provisional	94.15
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	94.13
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	94.1
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	94.09
PRK08769	319	DNA polymerase III subunit delta'; Validated	94.05
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	94.02
PTZ00185	574	ATPase alpha subunit; Provisional	94.0
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	93.99
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	93.98
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	93.93
PRK09099	441	type III secretion system ATPase; Provisional	93.91
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	93.9
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	93.86
PRK10867	433	signal recognition particle protein; Provisional	93.86
PRK07594	433	type III secretion system ATPase SsaN; Validated	93.85
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	93.84
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	93.84
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	93.81
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	93.77
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	93.74
KOG0473	326	consensus Leucine-rich repeat protein [Function un	93.73
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	93.73
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	93.71
PTZ00088	229	adenylate kinase 1; Provisional	93.7
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	93.69
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	93.69
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	93.65
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	93.65
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	93.61
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	93.6
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	93.6
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	93.6
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	93.59
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	93.59
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	93.57
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	93.57
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	93.57
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	93.56
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	93.55
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	93.54
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	93.51
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	93.51
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	93.48
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	93.45
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	93.45
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	93.44
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	93.41
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	93.4
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	93.38
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	93.37
PRK00131	175	aroK shikimate kinase; Reviewed	93.37
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	93.37
PRK11823	446	DNA repair protein RadA; Provisional	93.37
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	93.36
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	93.33
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	93.33
PLN02318	656	phosphoribulokinase/uridine kinase	93.32
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	93.31
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	93.3
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	93.3
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	93.29
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	93.28
PRK13947	171	shikimate kinase; Provisional	93.25
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	93.23
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	93.23
PF14516	331	AAA_35: AAA-like domain	93.23
PRK09519	790	recA DNA recombination protein RecA; Reviewed	93.2
PRK00889	175	adenylylsulfate kinase; Provisional	93.14
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	93.13
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	93.12
TIGR00959	428	ffh signal recognition particle protein. This mode	93.11
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	93.11
PRK13949	169	shikimate kinase; Provisional	93.1
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	93.08
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	93.08
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	93.07
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	93.06
KOG3864	221	consensus Uncharacterized conserved protein [Funct	93.04
PTZ00494	664	tuzin-like protein; Provisional	93.01
PHA02774	613	E1; Provisional	93.01
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	93.0
PRK05439	311	pantothenate kinase; Provisional	92.99
KOG0927	614	consensus Predicted transporter (ABC superfamily)	92.98
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	92.94
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	92.94
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	92.93
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	92.9
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	92.87
PRK00279	215	adk adenylate kinase; Reviewed	92.87
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	92.86
PRK12678	672	transcription termination factor Rho; Provisional	92.85
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	92.85
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	92.81
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	92.81
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	92.8
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	92.78
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	92.75
PRK14738	206	gmk guanylate kinase; Provisional	92.75
CHL00059	485	atpA ATP synthase CF1 alpha subunit	92.71
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	92.71
PRK06090	319	DNA polymerase III subunit delta'; Validated	92.69
TIGR00064	272	ftsY signal recognition particle-docking protein F	92.66
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	92.66
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	92.64
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	92.63
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	92.61
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	92.6
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	92.58
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	92.57
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	92.56
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	92.55
PRK03846	198	adenylylsulfate kinase; Provisional	92.52
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	92.52
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	92.52
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	92.52
KOG0927	614	consensus Predicted transporter (ABC superfamily)	92.5
KOG4252	246	consensus GTP-binding protein [Signal transduction	92.48
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	92.48
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	92.46
TIGR01026	440	fliI_yscN ATPase FliI/YscN family. This family of	92.45
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	92.43
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	92.42
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	92.41
TIGR00962	501	atpA proton translocating ATP synthase, F1 alpha s	92.39
PRK14530	215	adenylate kinase; Provisional	92.38
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	92.37
PRK13765	637	ATP-dependent protease Lon; Provisional	92.36
PRK06820	440	type III secretion system ATPase; Validated	92.35
PRK10875	615	recD exonuclease V subunit alpha; Provisional	92.34
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	92.32
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	92.26
PRK15064	530	ABC transporter ATP-binding protein; Provisional	92.26
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	92.25
PRK13537	306	nodulation ABC transporter NodI; Provisional	92.23
PRK13948	182	shikimate kinase; Provisional	92.21
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	92.2
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	92.18
PRK09435	332	membrane ATPase/protein kinase; Provisional	92.18
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	92.18
PRK00300	205	gmk guanylate kinase; Provisional	92.17
PRK07960	455	fliI flagellum-specific ATP synthase; Validated	92.17
COG0488	530	Uup ATPase components of ABC transporters with dup	92.16
PRK13975	196	thymidylate kinase; Provisional	92.15
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	92.14

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.7e-87  Score=785.42  Aligned_cols=740  Identities=25%  Similarity=0.326  Sum_probs=561.7

Q ss_pred             HHHHHHHHHHHHHHHhcchhhccccccchhHHHHHHHHHHHHHHHHhhhhhhhHHhhhhcccccCCChhHHHHHHHHHHH
Q 045113            9 MDINFRLFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMDEINCF   88 (821)
Q Consensus         9 ~~~~~~~~~~kl~~~l~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~wl~~l~~~   88 (821)
                      |++.++..++|+.+++. +++....+.++++..|+++|..|+.+++||+.            ++.+...+..|...++++
T Consensus         1 ~~~~~s~~~~~~~~~l~-~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a------------~~~~~~~~~~~~e~~~~~   67 (889)
T KOG4658|consen    1 MGACVSFGVEKLDQLLN-RESECLDGKDNYILELKENLKALQSALEDLDA------------KRDDLERRVNWEEDVGDL   67 (889)
T ss_pred             CCeEEEEehhhHHHHHH-HHHHHHhchHHHHHHHHHHHHHHHHHHHHHHh------------hcchHHHHHHHHHHHHHH
Confidence            34556667888999888 99999999999999999999999999999999            888889999999999999


Q ss_pred             HhhhHHHHHHhHhhhcccC-----CCC----------ChHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccccccc
Q 045113           89 TYESEKVIDTFISSITQQK-----SQS----------GCREDICDALQGLQSKIIDIKQRMQQLEHIDSRIINELKSIKA  153 (821)
Q Consensus        89 ~~~~ed~ld~~~~~~~~~~-----~~~----------~~~~~~~~~i~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~  153 (821)
                      +|++||+++.|........     ..+          ++++..+..+..+.+++.++.+..+.+ +...........  .
T Consensus        68 ~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l-~~~~~~~~~~~~--~  144 (889)
T KOG4658|consen   68 VYLAEDIIWLFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESL-GSKGVFEVVGES--L  144 (889)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHh-ccccceeccccc--c
Confidence            9999999999988664321     001          444777888888888888888888888 654422222111  1


Q ss_pred             ccCCCC-CCCCCCCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcc-cccccceeEEEEcCCC
Q 045113          154 QAGNFP-ASLSFKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNY-VKHYFDCHAWVQEPYT  231 (821)
Q Consensus       154 ~~~~~~-~~~~~~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~-~~~~F~~~~wv~~s~~  231 (821)
                      .+...+ ..+...... ||.+..++++.+.|.+++  ..++||+||||+||||||+.++|+.. ++++||.++||+||+.
T Consensus       145 ~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~--~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~  221 (889)
T KOG4658|consen  145 DPREKVETRPIQSESD-VGLETMLEKLWNRLMEDD--VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKE  221 (889)
T ss_pred             cchhhcccCCCCcccc-ccHHHHHHHHHHHhccCC--CCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEccc
Confidence            111122 344444445 999999999999999987  49999999999999999999999987 9999999999999999


Q ss_pred             CCHHHHHHHHHHHhCCchh----------HHHHHHHhCCCcEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhh
Q 045113          232 CYADQILDIIIKFLMPSSR----------LIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDT  301 (821)
Q Consensus       232 ~~~~~~~~~i~~~l~~~~~----------~~~l~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v  301 (821)
                      |+..+++++|+..++....          +..|.+.|++|||+|||||||+..+|+.++.|+|...+||||++|||++.|
T Consensus       222 f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V  301 (889)
T KOG4658|consen  222 FTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEV  301 (889)
T ss_pred             ccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhh
Confidence            9999999999998887421          788999999999999999999999999999999999999999999999999


Q ss_pred             h---------------------cccc---cccCCcCCCCccchHHHHHHHcCCchHHHHHhhc-----------------
Q 045113          302 V---------------------TLFQ---FENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGS-----------------  340 (821)
Q Consensus       302 ~---------------------~lf~---~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~-----------------  340 (821)
                      |                     +||+   |.......+.++++|++|+++|+|+|||++++|.                 
T Consensus       302 ~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~  381 (889)
T KOG4658|consen  302 CGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNV  381 (889)
T ss_pred             hhccccCCccccccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHcc
Confidence            9                     7777   4443335566999999999999999999999991                 


Q ss_pred             cccccc-----chhccccchhHHHHhhhcCChhhHHHHhhcccCCCCceechhhHHHHHHHcCCCCC-----ChHHHHHH
Q 045113          341 ISLEEN-----KREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPD-----NSEATAEK  410 (821)
Q Consensus       341 ~~~~~~-----~~~~i~~~~~~l~~sy~~L~~~~k~cfl~~s~Fp~~~~i~~~~Li~~W~aeg~i~~-----~~~~~~~~  410 (821)
                      ..+.+.     ..+.++   ++|++||++||+++|.||+|||+|||||+|+++.||.+|+||||+.+     ++++.|+.
T Consensus       382 l~s~~~~~~~~~~~~i~---~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~  458 (889)
T KOG4658|consen  382 LKSSLAADFSGMEESIL---PILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYD  458 (889)
T ss_pred             ccccccCCCCchhhhhH---HhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHH
Confidence            111111     356788   99999999999889999999999999999999999999999999977     78999999


Q ss_pred             HHHHHHhCCceeeeecCCCCCEEEEEeCcchHHHHHHhcc---ccCcceEEecCCC-----CCCCCCceeEEEEEcCCCc
Q 045113          411 YLEQLINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTL---NAEFVFSPILDPK-----GESRKNVKRFFALEQQSDF  482 (821)
Q Consensus       411 ~~~~L~~r~ll~~~~~~~~~~~~~~~mHdlv~dla~~~~~---~~~e~f~~~~~~~-----~~~~~~~~r~lsl~~~~~~  482 (821)
                      |+.+|++++|++.....  ++..+|+|||+|||+|.++|+   ..+|+++...+..     ....+..+||++++++...
T Consensus       459 ~i~~LV~~~Ll~~~~~~--~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~  536 (889)
T KOG4658|consen  459 YIEELVRASLLIEERDE--GRKETVKMHDVVREMALWIASDFGKQEENQIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIE  536 (889)
T ss_pred             HHHHHHHHHHHhhcccc--cceeEEEeeHHHHHHHHHHhccccccccceEEECCcCccccccccchhheeEEEEeccchh
Confidence            99999999999998754  566899999999999999998   1134444443311     2224567999999999888


Q ss_pred             ccccC-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCC-CCcccccccCCCCceEEeecCCCCccccHHH
Q 045113          483 AYLDD-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLV-LNQYPSEIENLSLLRYLKLNIPSLKSLPLSF  560 (821)
Q Consensus       483 ~~~~~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~-l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i  560 (821)
                      ..... .+++|+||.+.++...  .......+|..++.|+||||++|. +.++|+.|++|.|||||+++++.+..+|..+
T Consensus       537 ~~~~~~~~~~L~tLll~~n~~~--l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l  614 (889)
T KOG4658|consen  537 HIAGSSENPKLRTLLLQRNSDW--LLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGL  614 (889)
T ss_pred             hccCCCCCCccceEEEeecchh--hhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHH
Confidence            77677 8999999999998631  023667889999999999999876 7799999999999999999999999999999


Q ss_pred             HhccccceEEecCCc-ccccchhhhccCccCceeecCCcccC--CCCCCCcCCCCCcceecccc-CCcchhhhcCCCCCC
Q 045113          561 FNYLLNLYTLDMPFS-YIDHTADEFWKMKKLRHLNFGSITLP--AHPGNYCGSLENLNFISALY-PCCCTKDLLGRLPNL  636 (821)
Q Consensus       561 ~~~L~~L~~L~L~~~-~l~~lp~~i~~l~~L~~L~L~~~~~~--~~~p~~i~~l~~L~~L~~~~-~~~~~~~~l~~l~~L  636 (821)
                      . +|.+|.+||+..+ .+..+|..+..|++||+|.+......  ...-..+.++.+|+.+.... +...... +..++.|
T Consensus       615 ~-~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~~~~~~l~el~~Le~L~~ls~~~~s~~~~e~-l~~~~~L  692 (889)
T KOG4658|consen  615 G-NLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSALSNDKLLLKELENLEHLENLSITISSVLLLED-LLGMTRL  692 (889)
T ss_pred             H-HHHhhheeccccccccccccchhhhcccccEEEeeccccccchhhHHhhhcccchhhheeecchhHhHhh-hhhhHHH
Confidence            9 9999999999999 55566666677999999988654421  11112234444444444333 2222233 3334444


Q ss_pred             C----eEEEecccccchhHHHHHccCCCCcCEEEeecC-C------C---------CCCCCeeEecc---------cCCC
Q 045113          637 R----NLRIQGDLSYNQSLLSKSLCRLSCLESLKLANE-S------K---------MPRLSKIILAE---------YVFP  687 (821)
Q Consensus       637 ~----~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~-~------~---------~~~L~~l~l~~---------~~~~  687 (821)
                      +    .+.+.++   .....+..+..+.+|+.|.+... +      .         .+++..+.+..         ....
T Consensus       693 ~~~~~~l~~~~~---~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~~~f~  769 (889)
T KOG4658|consen  693 RSLLQSLSIEGC---SKRTLISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDLTWLLFA  769 (889)
T ss_pred             HHHhHhhhhccc---ccceeecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccccchhhcc
Confidence            3    2222111   22333445566666676666641 0      0         00111111111         2356


Q ss_pred             CCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeecc----cccccc
Q 045113          688 HSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGT----GAMPKL  763 (821)
Q Consensus       688 ~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~----~~l~~L  763 (821)
                      ++|+.|.+.+|....++++....+..+..+.+..+.+.+.......++|+++..+.+.+. .++.|....    +.+|.+
T Consensus       770 ~~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~~l~~~-~l~~~~ve~~p~l~~~P~~  848 (889)
T KOG4658|consen  770 PHLTSLSLVSCRLLEDIIPKLKALLELKELILPFNKLEGLRMLCSLGGLPQLYWLPLSFL-KLEELIVEECPKLGKLPLL  848 (889)
T ss_pred             CcccEEEEecccccccCCCHHHHhhhcccEEecccccccceeeecCCCCceeEecccCcc-chhheehhcCcccccCccc
Confidence            788888888887777777777777777766666556655544455666777777766663 355555443    556666


Q ss_pred             ceeEEeec-CCCCCCccc
Q 045113          764 ECLIINPC-AYLKKMPEQ  780 (821)
Q Consensus       764 ~~L~i~~c-~~l~~lp~~  780 (821)
                      .++.+.+| .++..+|++
T Consensus       849 ~~~~i~~~~~~~~~~~~~  866 (889)
T KOG4658|consen  849 STLTIVGCEEKLKEYPDG  866 (889)
T ss_pred             cccceeccccceeecCCc
Confidence            66666665 555555543

>PLN03210 Resistant to P

Probab=100.00  E-value=2.8e-60  Score=587.36  Aligned_cols=596  Identities=17%  Similarity=0.164  Sum_probs=402.4

Q ss_pred             CCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEc---CCC----------
Q 045113          165 KNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQE---PYT----------  231 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~---s~~----------  231 (821)
                      +...+|||+++++++..+|..+.+++++|+||||||+||||||+++|+  ++..+|+..+|+..   +..          
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~--~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~  259 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFS--RLSRQFQSSVFIDRAFISKSMEIYSSANPD  259 (1153)
T ss_pred             ccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHH--HHhhcCCeEEEeeccccccchhhccccccc
Confidence            345699999999999999977767799999999999999999999999  78889999888742   111          


Q ss_pred             -CC-HHHHHHHHHHHhCCchh-----HHHHHHHhCCCcEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh--
Q 045113          232 -CY-ADQILDIIIKFLMPSSR-----LIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV--  302 (821)
Q Consensus       232 -~~-~~~~~~~i~~~l~~~~~-----~~~l~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~--  302 (821)
                       ++ ...++++++.++....+     ...+++.++++|+||||||||+..+|+.+.....+.++||+||||||++.++  
T Consensus       260 ~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~  339 (1153)
T PLN03210        260 DYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRA  339 (1153)
T ss_pred             ccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHh
Confidence             11 12345555555433321     4678889999999999999999999999998777778899999999999876  


Q ss_pred             ------------------cccc---cccCCcCCCCccchHHHHHHHcCCchHHHHHhhcc-------ccccc-------c
Q 045113          303 ------------------TLFQ---FENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSI-------SLEEN-------K  347 (821)
Q Consensus       303 ------------------~lf~---~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~-------~~~~~-------~  347 (821)
                                        +||+   |+... .+..+.+++++|+++|+|+||||+++|+.       .|+-.       .
T Consensus       340 ~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~-~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~  418 (1153)
T PLN03210        340 HGIDHIYEVCLPSNELALEMFCRSAFKKNS-PPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGL  418 (1153)
T ss_pred             cCCCeEEEecCCCHHHHHHHHHHHhcCCCC-CcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCc
Confidence                              6777   54432 45568899999999999999999999932       12211       2


Q ss_pred             hhccccchhHHHHhhhcCChh-hHHHHhhcccCCCCceechhhHHHHHHHcCCCCCChHHHHHHHHHHHHhCCceeeeec
Q 045113          348 REAIAKPIFLQSVAYCMLPFP-LKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVKKR  426 (821)
Q Consensus       348 ~~~i~~~~~~l~~sy~~L~~~-~k~cfl~~s~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~L~~r~ll~~~~~  426 (821)
                      ...|.   ++|++||++|+++ .|.||++||+||.++.++   .+..|++.+.+.      ++..++.|+++||++... 
T Consensus       419 ~~~I~---~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~------~~~~l~~L~~ksLi~~~~-  485 (1153)
T PLN03210        419 DGKIE---KTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---DIKLLLANSDLD------VNIGLKNLVDKSLIHVRE-  485 (1153)
T ss_pred             cHHHH---HHHHHhhhccCccchhhhhheehhhcCCCCHH---HHHHHHHhcCCC------chhChHHHHhcCCEEEcC-
Confidence            35688   9999999999875 999999999999987553   477888877663      233489999999998753 


Q ss_pred             CCCCCEEEEEeCcchHHHHHHhccccCcc-------eEEecCC-----CCCCCCCceeEEEEEcCCCccc---cc-C-CC
Q 045113          427 RAGGTINTCSIRSRCWPSLLVVTLNAEFV-------FSPILDP-----KGESRKNVKRFFALEQQSDFAY---LD-D-YY  489 (821)
Q Consensus       427 ~~~~~~~~~~mHdlv~dla~~~~~~~~e~-------f~~~~~~-----~~~~~~~~~r~lsl~~~~~~~~---~~-~-~~  489 (821)
                            ..+.|||++|+||+.+++  ++.       +.....+     ........++.+++........   .. . .+
T Consensus       486 ------~~~~MHdLl~~~~r~i~~--~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~~i~~~aF~~m  557 (1153)
T PLN03210        486 ------DIVEMHSLLQEMGKEIVR--AQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDELHIHENAFKGM  557 (1153)
T ss_pred             ------CeEEhhhHHHHHHHHHHH--hhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccceeeecHHHHhcC
Confidence                  258999999999999997  442       1111000     0111335678887765443321   11 1 78


Q ss_pred             CCceEEEeecCCCCc--cchhhhHHhhccC-CceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhcccc
Q 045113          490 PHLHSLLYFTSESDH--LDHIDWQKICEMY-KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLN  566 (821)
Q Consensus       490 ~~LrsL~l~~~~~~~--~~~~~~~~~~~~~-~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~  566 (821)
                      ++|+.|.+.......  .....++.-|..+ +.||.|++.++++..+|..+ .+.+|++|+++++.+..+|..+. .+++
T Consensus       558 ~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f-~~~~L~~L~L~~s~l~~L~~~~~-~l~~  635 (1153)
T PLN03210        558 RNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNF-RPENLVKLQMQGSKLEKLWDGVH-SLTG  635 (1153)
T ss_pred             ccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcC-CccCCcEEECcCccccccccccc-cCCC
Confidence            888888886543110  0000112223333 35777777777777777655 35667777777777666666666 6777


Q ss_pred             ceEEecCCc-ccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceecccc-C--CcchhhhcCCCCCCCeEEEe
Q 045113          567 LYTLDMPFS-YIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALY-P--CCCTKDLLGRLPNLRNLRIQ  642 (821)
Q Consensus       567 L~~L~L~~~-~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~-~--~~~~~~~l~~l~~L~~L~l~  642 (821)
                      |+.|+|++| .+..+|. +..+++|++|++++|.....+|..++++++|+.|++.. +  ...+.. + ++++|+.|+++
T Consensus       636 Lk~L~Ls~~~~l~~ip~-ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~-i-~l~sL~~L~Ls  712 (1153)
T PLN03210        636 LRNIDLRGSKNLKEIPD-LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTG-I-NLKSLYRLNLS  712 (1153)
T ss_pred             CCEEECCCCCCcCcCCc-cccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCc-C-CCCCCCEEeCC
Confidence            777777666 4555553 56667777777776665566666667777777776665 2  233333 2 56666666666


Q ss_pred             cccccchhHHHHHccCCCCcCEEEeecCC--------CCCCCCeeEecc-----------------cCCCCCcceEEEec
Q 045113          643 GDLSYNQSLLSKSLCRLSCLESLKLANES--------KMPRLSKIILAE-----------------YVFPHSLTHLSFSN  697 (821)
Q Consensus       643 ~~~~~~~~~l~~~l~~~~~L~~L~l~~~~--------~~~~L~~l~l~~-----------------~~~~~~L~~L~L~~  697 (821)
                      +|.  ....+|..   ..+|+.|+++.+.        ..++|..|.+.+                 ...+++|+.|+|++
T Consensus       713 gc~--~L~~~p~~---~~nL~~L~L~~n~i~~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~  787 (1153)
T PLN03210        713 GCS--RLKSFPDI---STNISWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSD  787 (1153)
T ss_pred             CCC--Cccccccc---cCCcCeeecCCCccccccccccccccccccccccchhhccccccccchhhhhccccchheeCCC
Confidence            662  22233321   2345555555421        122333333322                 11235666677766


Q ss_pred             ccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCC--------------------Cccceeecc
Q 045113          698 TDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSML--------------------WLEEWTMGT  757 (821)
Q Consensus       698 ~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~--------------------~l~~~~~~~  757 (821)
                      |......|.+++++++|+.|+|++|...+.. +.. ..+++|+.|+|++|.                    .++.+|..+
T Consensus       788 n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~L-P~~-~~L~sL~~L~Ls~c~~L~~~p~~~~nL~~L~Ls~n~i~~iP~si  865 (1153)
T PLN03210        788 IPSLVELPSSIQNLHKLEHLEIENCINLETL-PTG-INLESLESLDLSGCSRLRTFPDISTNISDLNLSRTGIEEVPWWI  865 (1153)
T ss_pred             CCCccccChhhhCCCCCCEEECCCCCCcCee-CCC-CCccccCEEECCCCCccccccccccccCEeECCCCCCccChHHH
Confidence            6555556666666777777776654322211 111 134445555554443                    344556666


Q ss_pred             ccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          758 GAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       758 ~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      ..+++|+.|++++|++++.+|..+..+++|+.+++++|+
T Consensus       866 ~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l~~C~  904 (1153)
T PLN03210        866 EKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCG  904 (1153)
T ss_pred             hcCCCCCEEECCCCCCcCccCcccccccCCCeeecCCCc
Confidence            789999999999999999999989999999999999998

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=9.5e-39  Score=339.84  Aligned_cols=228  Identities=29%  Similarity=0.458  Sum_probs=184.0

Q ss_pred             chhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCch--
Q 045113          172 LDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS--  249 (821)
Q Consensus       172 r~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~--  249 (821)
                      ||.++++|.+.|....++.++|+|+||||+||||||+.++++.+++++|+.++||.+++..+..+++..|+.++....  
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            789999999999996677999999999999999999999997669999999999999999999999999999998772  


Q ss_pred             -----h----HHHHHHHhCCCcEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh------------------
Q 045113          250 -----R----LIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV------------------  302 (821)
Q Consensus       250 -----~----~~~l~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~------------------  302 (821)
                           +    ...+.+.|+++++||||||||+...|+.+...++....|++||||||+..++                  
T Consensus        81 ~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~  160 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEE  160 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--HH
T ss_pred             cccccccccccccchhhhccccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence                 1    7889999999999999999999999999999888888899999999999887                  


Q ss_pred             ---cccc---cccCCcCCCCccchHHHHHHHcCCchHHHHHhhccc--------ccc-----c--------chhccccch
Q 045113          303 ---TLFQ---FENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSIS--------LEE-----N--------KREAIAKPI  355 (821)
Q Consensus       303 ---~lf~---~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~~--------~~~-----~--------~~~~i~~~~  355 (821)
                         +||+   +.......+.+.+.+++|+++|+|+||||+++|+..        |+.     .        ....+.   
T Consensus       161 ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~---  237 (287)
T PF00931_consen  161 EALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVF---  237 (287)
T ss_dssp             HHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHH---
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc---
Confidence               5555   222212456778899999999999999999999211        110     0        135577   


Q ss_pred             hHHHHhhhcCChhhHHHHhhcccCCCCceechhhHHHHHHHcCCCCC
Q 045113          356 FLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPD  402 (821)
Q Consensus       356 ~~l~~sy~~L~~~~k~cfl~~s~Fp~~~~i~~~~Li~~W~aeg~i~~  402 (821)
                      .++.+||+.||+++|.||+|||+||+++.|+++.|+++|++||||++
T Consensus       238 ~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~  284 (287)
T PF00931_consen  238 SALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISS  284 (287)
T ss_dssp             HHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC-
T ss_pred             ccceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCcc
Confidence            99999999999999999999999999999999999999999999964

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

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

Probab=99.92  E-value=5.2e-25  Score=273.41  Aligned_cols=174  Identities=21%  Similarity=0.260  Sum_probs=87.0

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC-cccccccCCCCceEEeecCCCCc-cccHHHHhccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN-QYPSEIENLSLLRYLKLNIPSLK-SLPLSFFNYLL  565 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~-~lp~~i~~l~~Lr~L~L~~~~i~-~lp~~i~~~L~  565 (821)
                      .+++|++|.+.++....    ..+..+..+++|++|+|++|.+. .+|..++++++|++|++++|.+. .+|..+. +++
T Consensus       138 ~l~~L~~L~Ls~n~~~~----~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~-~l~  212 (968)
T PLN00113        138 SIPNLETLDLSNNMLSG----EIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELG-QMK  212 (968)
T ss_pred             ccCCCCEEECcCCcccc----cCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHc-CcC
Confidence            44455555555444321    22334455555555555555544 45555555555555555555544 4455555 555


Q ss_pred             cceEEecCCcccc-cchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC---CcchhhhcCCCCCCCeEEE
Q 045113          566 NLYTLDMPFSYID-HTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP---CCCTKDLLGRLPNLRNLRI  641 (821)
Q Consensus       566 ~L~~L~L~~~~l~-~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~---~~~~~~~l~~l~~L~~L~l  641 (821)
                      +|++|++++|.+. .+|..++++++|++|++++|.+.+.+|..++++++|++|++..+   +..+.. +.++++|+.|++
T Consensus       213 ~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L  291 (968)
T PLN00113        213 SLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPS-IFSLQKLISLDL  291 (968)
T ss_pred             CccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchh-HhhccCcCEEEC
Confidence            5555555555433 34555555555555555555555555555555555555555442   233333 445555555555


Q ss_pred             ecccccchhHHHHHccCCCCcCEEEeec
Q 045113          642 QGDLSYNQSLLSKSLCRLSCLESLKLAN  669 (821)
Q Consensus       642 ~~~~~~~~~~l~~~l~~~~~L~~L~l~~  669 (821)
                      ++|  ...+.+|..+..+++|+.|+++.
T Consensus       292 s~n--~l~~~~p~~~~~l~~L~~L~l~~  317 (968)
T PLN00113        292 SDN--SLSGEIPELVIQLQNLEILHLFS  317 (968)
T ss_pred             cCC--eeccCCChhHcCCCCCcEEECCC
Confidence            544  22333444444444555554443

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

Probab=99.92  E-value=1.4e-24  Score=269.50  Aligned_cols=319  Identities=20%  Similarity=0.181  Sum_probs=164.2

Q ss_pred             ceeEEEEEcCCCccccc--C-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC---------------
Q 045113          470 VKRFFALEQQSDFAYLD--D-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN---------------  531 (821)
Q Consensus       470 ~~r~lsl~~~~~~~~~~--~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~---------------  531 (821)
                      .++.+.+..+.......  . .+++|++|.+.++...   ...+..++..+++|++|+|++|.++               
T Consensus        70 ~v~~L~L~~~~i~~~~~~~~~~l~~L~~L~Ls~n~~~---~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~  146 (968)
T PLN00113         70 RVVSIDLSGKNISGKISSAIFRLPYIQTINLSNNQLS---GPIPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLETLD  146 (968)
T ss_pred             cEEEEEecCCCccccCChHHhCCCCCCEEECCCCccC---CcCChHHhccCCCCCEEECcCCccccccCccccCCCCEEE
Confidence            45555555443322111  1 5666666666655432   1233444545555555555555543               


Q ss_pred             --------cccccccCCCCceEEeecCCCCc-cccHHHHhccccceEEecCCcccc-cchhhhccCccCceeecCCcccC
Q 045113          532 --------QYPSEIENLSLLRYLKLNIPSLK-SLPLSFFNYLLNLYTLDMPFSYID-HTADEFWKMKKLRHLNFGSITLP  601 (821)
Q Consensus       532 --------~lp~~i~~l~~Lr~L~L~~~~i~-~lp~~i~~~L~~L~~L~L~~~~l~-~lp~~i~~l~~L~~L~L~~~~~~  601 (821)
                              .+|..++++++|++|++++|.+. .+|..++ ++++|++|++++|.+. .+|..++++++|++|++++|.+.
T Consensus       147 Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~-~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~  225 (968)
T PLN00113        147 LSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLT-NLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLS  225 (968)
T ss_pred             CcCCcccccCChHHhcCCCCCEEECccCcccccCChhhh-hCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccC
Confidence                    34444555555555555555443 4454555 5555555555555332 33555555555555555555554


Q ss_pred             CCCCCCcCCCCCcceeccccC---CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCC-------
Q 045113          602 AHPGNYCGSLENLNFISALYP---CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANES-------  671 (821)
Q Consensus       602 ~~~p~~i~~l~~L~~L~~~~~---~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~-------  671 (821)
                      +.+|..++++++|++|++..+   +..+.. ++++++|+.|++++|  ...+.+|..+.++++|+.|++++|.       
T Consensus       226 ~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n--~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~  302 (968)
T PLN00113        226 GEIPYEIGGLTSLNHLDLVYNNLTGPIPSS-LGNLKNLQYLFLYQN--KLSGPIPPSIFSLQKLISLDLSDNSLSGEIPE  302 (968)
T ss_pred             CcCChhHhcCCCCCEEECcCceeccccChh-HhCCCCCCEEECcCC--eeeccCchhHhhccCcCEEECcCCeeccCCCh
Confidence            455555555555555555442   233333 555555555555554  2333444555555555555555421       


Q ss_pred             ---CCCCCCeeEecc----------cCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcc
Q 045113          672 ---KMPRLSKIILAE----------YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPR  738 (821)
Q Consensus       672 ---~~~~L~~l~l~~----------~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~  738 (821)
                         ..++|+.|.+.+          +..+++|+.|++++|.+.+..|..++.+++|+.|++++|.+.+.. +.....+++
T Consensus       303 ~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~-p~~~~~~~~  381 (968)
T PLN00113        303 LVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEI-PEGLCSSGN  381 (968)
T ss_pred             hHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCCCCcCcCChHHhCCCCCcEEECCCCeeEeeC-ChhHhCcCC
Confidence               223444444433          233444555555555544444444555555555555544443322 112233455


Q ss_pred             cceeeeccCCCccceeeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          739 LKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       739 L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      |+.|++++|.....+|..++.+++|+.|++++|.....+|..+..+++|+.|++++|.
T Consensus       382 L~~L~l~~n~l~~~~p~~~~~~~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~Ls~N~  439 (968)
T PLN00113        382 LFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDISNNN  439 (968)
T ss_pred             CCEEECcCCEecccCCHHHhCCCCCCEEECcCCEeeeECChhHhcCCCCCEEECcCCc
Confidence            5555555554333445555667777777777777666677777777777777777765

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

Probab=99.91  E-value=3.9e-27  Score=249.80  Aligned_cols=314  Identities=19%  Similarity=0.219  Sum_probs=272.1

Q ss_pred             CCceeEEEEEcCCCcccccC--CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceE
Q 045113          468 KNVKRFFALEQQSDFAYLDD--YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRY  545 (821)
Q Consensus       468 ~~~~r~lsl~~~~~~~~~~~--~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~  545 (821)
                      .++..|+++..+........  .+|.||++.+..+...+  ..+++++ -.++.|.+|||+.|++...|..+.+-+++-.
T Consensus        54 lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKn--sGiP~di-F~l~dLt~lDLShNqL~EvP~~LE~AKn~iV  130 (1255)
T KOG0444|consen   54 LQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKN--SGIPTDI-FRLKDLTILDLSHNQLREVPTNLEYAKNSIV  130 (1255)
T ss_pred             HhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhcccccc--CCCCchh-cccccceeeecchhhhhhcchhhhhhcCcEE
Confidence            35688888887766555444  89999999998877653  3355554 4789999999999999999999999999999


Q ss_pred             EeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceecccc-C--
Q 045113          546 LKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALY-P--  622 (821)
Q Consensus       546 L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~-~--  622 (821)
                      |+||+|+|..+|.+++-+|.-|-+|||++|.++.+|+.+..|.+|+.|+|++|.+...--..+..+++|++|.++. +  
T Consensus       131 LNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRT  210 (1255)
T KOG0444|consen  131 LNLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRT  210 (1255)
T ss_pred             EEcccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCChhhHHHHhcCccchhhhhhhcccccch
Confidence            9999999999999988799999999999999999999999999999999999987543334466788889998887 3  


Q ss_pred             -CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCC
Q 045113          623 -CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLM  701 (821)
Q Consensus       623 -~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~  701 (821)
                       ...|.. +..+.||+.++++.+   ....+|..+.++.+|+.|+|++|    .++.|... .....+|++|+||.|+++
T Consensus       211 l~N~Pts-ld~l~NL~dvDlS~N---~Lp~vPecly~l~~LrrLNLS~N----~iteL~~~-~~~W~~lEtLNlSrNQLt  281 (1255)
T KOG0444|consen  211 LDNIPTS-LDDLHNLRDVDLSEN---NLPIVPECLYKLRNLRRLNLSGN----KITELNMT-EGEWENLETLNLSRNQLT  281 (1255)
T ss_pred             hhcCCCc-hhhhhhhhhcccccc---CCCcchHHHhhhhhhheeccCcC----ceeeeecc-HHHHhhhhhhccccchhc
Confidence             366777 899999999999997   67788999999999999999976    78887764 456789999999999975


Q ss_pred             CCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCcccc
Q 045113          702 DDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQL  781 (821)
Q Consensus       702 ~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l  781 (821)
                       ..|..+.+|+.|+.|.+.+|.++-+.++.+.+.+.+|+.+...+| .++-+|..+..|+.|++|.++.| .|-.+|+++
T Consensus       282 -~LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN-~LElVPEglcRC~kL~kL~L~~N-rLiTLPeaI  358 (1255)
T KOG0444|consen  282 -VLPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANN-KLELVPEGLCRCVKLQKLKLDHN-RLITLPEAI  358 (1255)
T ss_pred             -cchHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhcc-ccccCchhhhhhHHHHHhccccc-ceeechhhh
Confidence             678999999999999999898887778888999999999999986 79999999999999999999855 466799999


Q ss_pred             CCCCCCCEEEEeCCc
Q 045113          782 WCIKSLNNFNCWWPQ  796 (821)
Q Consensus       782 ~~l~~L~~L~l~~c~  796 (821)
                      .-++.|+.|++...|
T Consensus       359 HlL~~l~vLDlreNp  373 (1255)
T KOG0444|consen  359 HLLPDLKVLDLRENP  373 (1255)
T ss_pred             hhcCCcceeeccCCc
Confidence            999999999999987

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

Probab=99.86  E-value=9.2e-23  Score=215.92  Aligned_cols=315  Identities=19%  Similarity=0.190  Sum_probs=222.0

Q ss_pred             CceeEEEEEcCCCcccccC--CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceE
Q 045113          469 NVKRFFALEQQSDFAYLDD--YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRY  545 (821)
Q Consensus       469 ~~~r~lsl~~~~~~~~~~~--~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~  545 (821)
                      .+.+.+.+..+....++..  ...+|..|.+..+....    +-...++-++.||+|||+.|.|+.+| +++..-.++++
T Consensus       102 ~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~N~I~s----v~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~  177 (873)
T KOG4194|consen  102 PNLQEVNLNKNELTRIPRFGHESGHLEKLDLRHNLISS----VTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKK  177 (873)
T ss_pred             CcceeeeeccchhhhcccccccccceeEEeeecccccc----ccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceE
Confidence            4556666666655555444  56678888888777653    55567788899999999999999777 45666688999


Q ss_pred             EeecCCCCccccHHHHhccccceEEecCCcccccchh-hhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCC-
Q 045113          546 LKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPC-  623 (821)
Q Consensus       546 L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~-  623 (821)
                      |+|++|.|+.+-..-+..|.+|-+|.|+.|.++.+|. .|.+|++|+.|+|..|.+.-.---.|..|++|+.|.+..|+ 
T Consensus       178 L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I  257 (873)
T KOG4194|consen  178 LNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDI  257 (873)
T ss_pred             EeeccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCc
Confidence            9999999997765544488999999999999999976 45559999999999998733223447888889988887752 


Q ss_pred             -cchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCC
Q 045113          624 -CCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMD  702 (821)
Q Consensus       624 -~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~  702 (821)
                       ..-..++-.|.++++|++..|.  ....-..++..++.|+.|+++.|    .++++++.++.++++|..|+|++|.++.
T Consensus       258 ~kL~DG~Fy~l~kme~l~L~~N~--l~~vn~g~lfgLt~L~~L~lS~N----aI~rih~d~WsftqkL~~LdLs~N~i~~  331 (873)
T KOG4194|consen  258 SKLDDGAFYGLEKMEHLNLETNR--LQAVNEGWLFGLTSLEQLDLSYN----AIQRIHIDSWSFTQKLKELDLSSNRITR  331 (873)
T ss_pred             ccccCcceeeecccceeecccch--hhhhhcccccccchhhhhccchh----hhheeecchhhhcccceeEecccccccc
Confidence             3333447778899999999873  33333457778899999999876    7899999999999999999999999887


Q ss_pred             CCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce----eeccccccccceeEEeecCCCCCCc
Q 045113          703 DPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW----TMGTGAMPKLECLIINPCAYLKKMP  778 (821)
Q Consensus       703 ~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~----~~~~~~l~~L~~L~i~~c~~l~~lp  778 (821)
                      -.+..+..|..|+.|+|+.|.+.-.. ...+.++++|+.|+|.+|. +...    ...+..+|+|++|.+.+| +++++|
T Consensus       332 l~~~sf~~L~~Le~LnLs~Nsi~~l~-e~af~~lssL~~LdLr~N~-ls~~IEDaa~~f~gl~~LrkL~l~gN-qlk~I~  408 (873)
T KOG4194|consen  332 LDEGSFRVLSQLEELNLSHNSIDHLA-EGAFVGLSSLHKLDLRSNE-LSWCIEDAAVAFNGLPSLRKLRLTGN-QLKSIP  408 (873)
T ss_pred             CChhHHHHHHHhhhhcccccchHHHH-hhHHHHhhhhhhhcCcCCe-EEEEEecchhhhccchhhhheeecCc-eeeecc
Confidence            77777777777788877776653211 2223445556666665542 2211    111334556666666554 255554


Q ss_pred             c-ccCCCCCCCEEEEeCCc
Q 045113          779 E-QLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       779 ~-~l~~l~~L~~L~l~~c~  796 (821)
                      . .+.++++|++|++.+.+
T Consensus       409 krAfsgl~~LE~LdL~~Na  427 (873)
T KOG4194|consen  409 KRAFSGLEALEHLDLGDNA  427 (873)
T ss_pred             hhhhccCcccceecCCCCc
Confidence            3 44555555555555443

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

Probab=99.82  E-value=7.8e-23  Score=217.36  Aligned_cols=292  Identities=19%  Similarity=0.195  Sum_probs=196.6

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCc--cccHHHHhccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLK--SLPLSFFNYLL  565 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~--~lp~~i~~~L~  565 (821)
                      .+..++-|.+......     ..+.-++.+.+|+.|.+++|++.++-..++.|+.||.+.++.|++.  .+|..|. .|.
T Consensus        30 qMt~~~WLkLnrt~L~-----~vPeEL~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF-~l~  103 (1255)
T KOG0444|consen   30 QMTQMTWLKLNRTKLE-----QVPEELSRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTDIF-RLK  103 (1255)
T ss_pred             HhhheeEEEechhhhh-----hChHHHHHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCchhc-ccc
Confidence            5566666666554433     3344456666677777777776666666666777777777777665  6777777 777


Q ss_pred             cceEEecCCcccccchhhhccCccCceeecCCcccCCCCC-CCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEe
Q 045113          566 NLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPG-NYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQ  642 (821)
Q Consensus       566 ~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p-~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~  642 (821)
                      .|.+|||++|.+.+.|..+..-+++-.|+||+|++ ..+| +.+.+|+.|-.|+++.|  ...|+. ...+.+|+.|.++
T Consensus       104 dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~I-etIPn~lfinLtDLLfLDLS~NrLe~LPPQ-~RRL~~LqtL~Ls  181 (1255)
T KOG0444|consen  104 DLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNNI-ETIPNSLFINLTDLLFLDLSNNRLEMLPPQ-IRRLSMLQTLKLS  181 (1255)
T ss_pred             cceeeecchhhhhhcchhhhhhcCcEEEEcccCcc-ccCCchHHHhhHhHhhhccccchhhhcCHH-HHHHhhhhhhhcC
Confidence            77777777777777777777777777777777776 3344 33566666667776664  456666 6677777777777


Q ss_pred             cccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEecc
Q 045113          643 GDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQN  722 (821)
Q Consensus       643 ~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~  722 (821)
                      ++.  ....-...+-.+++|+.|.+++.-  ..+..+ +..+..+.||..++||.|.+. ..|..+-++++|+.|+|++|
T Consensus       182 ~NP--L~hfQLrQLPsmtsL~vLhms~Tq--RTl~N~-Ptsld~l~NL~dvDlS~N~Lp-~vPecly~l~~LrrLNLS~N  255 (1255)
T KOG0444|consen  182 NNP--LNHFQLRQLPSMTSLSVLHMSNTQ--RTLDNI-PTSLDDLHNLRDVDLSENNLP-IVPECLYKLRNLRRLNLSGN  255 (1255)
T ss_pred             CCh--hhHHHHhcCccchhhhhhhccccc--chhhcC-CCchhhhhhhhhccccccCCC-cchHHHhhhhhhheeccCcC
Confidence            662  222222233344555555555310  000000 111445789999999999864 67888999999999999988


Q ss_pred             ccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCC-CCCCccccCCCCCCCEEEEeCCc
Q 045113          723 SYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAY-LKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       723 ~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~-l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      .++.  +....+...+|++|+++.| .+..+|.....+++|++|.+.+|.. ...+|++++.+.+|+.+...+..
T Consensus       256 ~ite--L~~~~~~W~~lEtLNlSrN-QLt~LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN~  327 (1255)
T KOG0444|consen  256 KITE--LNMTEGEWENLETLNLSRN-QLTVLPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANNK  327 (1255)
T ss_pred             ceee--eeccHHHHhhhhhhccccc-hhccchHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhccc
Confidence            8766  3334466788999999997 6888898888999999998887753 34789999988888888766644

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

Probab=99.81  E-value=8.3e-21  Score=201.23  Aligned_cols=300  Identities=16%  Similarity=0.118  Sum_probs=224.8

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCcccc-HHHHhcccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLP-LSFFNYLLN  566 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp-~~i~~~L~~  566 (821)
                      -.+..++|.++++....    +-..+|.++++|+.+++.+|.++.+|...+...||..|+|.+|.|..+. +++. .++.
T Consensus        76 lp~~t~~LdlsnNkl~~----id~~~f~nl~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~N~I~sv~se~L~-~l~a  150 (873)
T KOG4194|consen   76 LPSQTQTLDLSNNKLSH----IDFEFFYNLPNLQEVNLNKNELTRIPRFGHESGHLEKLDLRHNLISSVTSEELS-ALPA  150 (873)
T ss_pred             Cccceeeeecccccccc----CcHHHHhcCCcceeeeeccchhhhcccccccccceeEEeeeccccccccHHHHH-hHhh
Confidence            46778899999888763    4457789999999999999999999998888889999999999998665 4455 8899


Q ss_pred             ceEEecCCcccccchh-hhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEec
Q 045113          567 LYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQG  643 (821)
Q Consensus       567 L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~  643 (821)
                      |++|||+.|.+.++|. .+..-.++++|+|++|.++.--...|.++.+|-+|.+..|  ...|..++.++++|+.|++..
T Consensus       151 lrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnr  230 (873)
T KOG4194|consen  151 LRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNR  230 (873)
T ss_pred             hhhhhhhhchhhcccCCCCCCCCCceEEeeccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhccc
Confidence            9999999999998865 4556678999999999997655566888889999998886  456665588899999999988


Q ss_pred             ccccchhHHHHHccCCCCcCEEEeecCC----------CCCCCCeeEecc----------cCCCCCcceEEEecccCCCC
Q 045113          644 DLSYNQSLLSKSLCRLSCLESLKLANES----------KMPRLSKIILAE----------YVFPHSLTHLSFSNTDLMDD  703 (821)
Q Consensus       644 ~~~~~~~~l~~~l~~~~~L~~L~l~~~~----------~~~~L~~l~l~~----------~~~~~~L~~L~L~~~~l~~~  703 (821)
                      |.....+  ...|..+++|+.|.+..|-          .+.+++.|++..          +.+++.|+.|+|++|.+...
T Consensus       231 N~irive--~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~ri  308 (873)
T KOG4194|consen  231 NRIRIVE--GLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRI  308 (873)
T ss_pred             cceeeeh--hhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhhee
Confidence            7422221  2355667777777766531          344455555443          66778888888888887777


Q ss_pred             CcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCcccee-eccccccccceeEEeecCCCC---CCcc
Q 045113          704 PMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWT-MGTGAMPKLECLIINPCAYLK---KMPE  779 (821)
Q Consensus       704 ~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~-~~~~~l~~L~~L~i~~c~~l~---~lp~  779 (821)
                      .++.++.+++|+.|+|++|.++.-. ...+..+..|+.|.|++| .+..+. ..+..+.+|++|++++|..--   .-..
T Consensus       309 h~d~WsftqkL~~LdLs~N~i~~l~-~~sf~~L~~Le~LnLs~N-si~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~  386 (873)
T KOG4194|consen  309 HIDSWSFTQKLKELDLSSNRITRLD-EGSFRVLSQLEELNLSHN-SIDHLAEGAFVGLSSLHKLDLRSNELSWCIEDAAV  386 (873)
T ss_pred             ecchhhhcccceeEeccccccccCC-hhHHHHHHHhhhhccccc-chHHHHhhHHHHhhhhhhhcCcCCeEEEEEecchh
Confidence            7777788888888888877765432 233556778888888886 455443 345678899999998876422   2223


Q ss_pred             ccCCCCCCCEEEEeCCc
Q 045113          780 QLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       780 ~l~~l~~L~~L~l~~c~  796 (821)
                      .+..+++|+.|.+.|..
T Consensus       387 ~f~gl~~LrkL~l~gNq  403 (873)
T KOG4194|consen  387 AFNGLPSLRKLRLTGNQ  403 (873)
T ss_pred             hhccchhhhheeecCce
Confidence            46679999999998876

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

Probab=99.79  E-value=7.2e-22  Score=200.79  Aligned_cols=106  Identities=21%  Similarity=0.140  Sum_probs=62.1

Q ss_pred             CCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeec-cccccccc
Q 045113          686 FPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMG-TGAMPKLE  764 (821)
Q Consensus       686 ~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~-~~~l~~L~  764 (821)
                      .+++|+.|+|++|.+ .+.|..++.+..|+.|+++.|.|...  +........|+.+-.++ ..+..++.. +++|.+|.
T Consensus       433 ~l~kLt~L~L~NN~L-n~LP~e~~~lv~Lq~LnlS~NrFr~l--P~~~y~lq~lEtllas~-nqi~~vd~~~l~nm~nL~  508 (565)
T KOG0472|consen  433 QLQKLTFLDLSNNLL-NDLPEEMGSLVRLQTLNLSFNRFRML--PECLYELQTLETLLASN-NQIGSVDPSGLKNMRNLT  508 (565)
T ss_pred             hhhcceeeecccchh-hhcchhhhhhhhhheecccccccccc--hHHHhhHHHHHHHHhcc-ccccccChHHhhhhhhcc
Confidence            344555555555443 23444444455555555554433221  10011112222222222 245555444 67899999


Q ss_pred             eeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          765 CLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       765 ~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      .|++.++. +..+|.+++++.+|++|+++|.|
T Consensus       509 tLDL~nNd-lq~IPp~LgnmtnL~hLeL~gNp  539 (565)
T KOG0472|consen  509 TLDLQNND-LQQIPPILGNMTNLRHLELDGNP  539 (565)
T ss_pred             eeccCCCc-hhhCChhhccccceeEEEecCCc
Confidence            99999876 66799999999999999999998

>PLN03210 Resistant to P

Probab=99.79  E-value=1.9e-18  Score=215.20  Aligned_cols=287  Identities=19%  Similarity=0.171  Sum_probs=171.2

Q ss_pred             CceeEEEEEcCCCcccccC-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCC-CCcccccccCCCCceEE
Q 045113          469 NVKRFFALEQQSDFAYLDD-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLV-LNQYPSEIENLSLLRYL  546 (821)
Q Consensus       469 ~~~r~lsl~~~~~~~~~~~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~-l~~lp~~i~~l~~Lr~L  546 (821)
                      .++|.+.+..+.....+.. ...+|+.|.+.++....     +...+..+++|+.|+|+++. +..+|. ++.+++|++|
T Consensus       589 ~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~s~l~~-----L~~~~~~l~~Lk~L~Ls~~~~l~~ip~-ls~l~~Le~L  662 (1153)
T PLN03210        589 PKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSKLEK-----LWDGVHSLTGLRNIDLRGSKNLKEIPD-LSMATNLETL  662 (1153)
T ss_pred             cccEEEEecCCCCCCCCCcCCccCCcEEECcCccccc-----cccccccCCCCCEEECCCCCCcCcCCc-cccCCcccEE
Confidence            4455555554444333333 45556666555544331     12223455666666666554 344443 5556666666


Q ss_pred             eecCCC-CccccHHHHhccccceEEecCCc-ccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC--
Q 045113          547 KLNIPS-LKSLPLSFFNYLLNLYTLDMPFS-YIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--  622 (821)
Q Consensus       547 ~L~~~~-i~~lp~~i~~~L~~L~~L~L~~~-~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--  622 (821)
                      +|++|. +..+|.++. ++++|+.|++++| .++.+|..+ ++++|++|++++|.....+|..   .++|+.|++..+  
T Consensus       663 ~L~~c~~L~~lp~si~-~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~~---~~nL~~L~L~~n~i  737 (1153)
T PLN03210        663 KLSDCSSLVELPSSIQ-YLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPDI---STNISWLDLDETAI  737 (1153)
T ss_pred             EecCCCCccccchhhh-ccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCCCCccccccc---cCCcCeeecCCCcc
Confidence            666553 446666665 6666666666665 555555544 5566666666655443444332   223344443332  


Q ss_pred             Ccchhh-----------------------------hcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCC
Q 045113          623 CCCTKD-----------------------------LLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKM  673 (821)
Q Consensus       623 ~~~~~~-----------------------------~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~  673 (821)
                      ...+..                             .....++|+.|++++|  .....+|..++++++|+.|+++   .|
T Consensus       738 ~~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n--~~l~~lP~si~~L~~L~~L~Ls---~C  812 (1153)
T PLN03210        738 EEFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDI--PSLVELPSSIQNLHKLEHLEIE---NC  812 (1153)
T ss_pred             ccccccccccccccccccccchhhccccccccchhhhhccccchheeCCCC--CCccccChhhhCCCCCCEEECC---CC
Confidence            111111                             0011235556666555  3445567777777777777777   45


Q ss_pred             CCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce
Q 045113          674 PRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW  753 (821)
Q Consensus       674 ~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~  753 (821)
                      .+++.+...  ..+++|+.|+|++|......|..   .++|+.|+|++|.+..  ++.....+++|+.|++++|+.+..+
T Consensus       813 ~~L~~LP~~--~~L~sL~~L~Ls~c~~L~~~p~~---~~nL~~L~Ls~n~i~~--iP~si~~l~~L~~L~L~~C~~L~~l  885 (1153)
T PLN03210        813 INLETLPTG--INLESLESLDLSGCSRLRTFPDI---STNISDLNLSRTGIEE--VPWWIEKFSNLSFLDMNGCNNLQRV  885 (1153)
T ss_pred             CCcCeeCCC--CCccccCEEECCCCCcccccccc---ccccCEeECCCCCCcc--ChHHHhcCCCCCEEECCCCCCcCcc
Confidence            556654322  25788888888888644333322   3578888888777654  3445678999999999999999999


Q ss_pred             eeccccccccceeEEeecCCCCCCc
Q 045113          754 TMGTGAMPKLECLIINPCAYLKKMP  778 (821)
Q Consensus       754 ~~~~~~l~~L~~L~i~~c~~l~~lp  778 (821)
                      +.....+++|+.|++++|+.+..++
T Consensus       886 ~~~~~~L~~L~~L~l~~C~~L~~~~  910 (1153)
T PLN03210        886 SLNISKLKHLETVDFSDCGALTEAS  910 (1153)
T ss_pred             CcccccccCCCeeecCCCccccccc
Confidence            9888899999999999999887543

syringae 6; Provisional

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

Probab=99.72  E-value=1.5e-19  Score=202.01  Aligned_cols=271  Identities=22%  Similarity=0.191  Sum_probs=158.6

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      ++-+|.+|.++++...     .++..+..++.|+.|+++.|.+...|.+++++.+|+||+|.+|.+..+|.++. .+.+|
T Consensus        43 ~~v~L~~l~lsnn~~~-----~fp~~it~l~~L~~ln~s~n~i~~vp~s~~~~~~l~~lnL~~n~l~~lP~~~~-~lknl  116 (1081)
T KOG0618|consen   43 KRVKLKSLDLSNNQIS-----SFPIQITLLSHLRQLNLSRNYIRSVPSSCSNMRNLQYLNLKNNRLQSLPASIS-ELKNL  116 (1081)
T ss_pred             heeeeEEeeccccccc-----cCCchhhhHHHHhhcccchhhHhhCchhhhhhhcchhheeccchhhcCchhHH-hhhcc
Confidence            4555888888887765     34455677788888888888888888888888888888888888888888888 88888


Q ss_pred             eEEecCCcccccchhhhccCccCceeecCCc-------------------ccCCCCCCCc--------------------
Q 045113          568 YTLDMPFSYIDHTADEFWKMKKLRHLNFGSI-------------------TLPAHPGNYC--------------------  608 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~-------------------~~~~~~p~~i--------------------  608 (821)
                      ++|+++.|.+..+|..+..+..+..++.++|                   .+.+.++..+                    
T Consensus       117 ~~LdlS~N~f~~~Pl~i~~lt~~~~~~~s~N~~~~~lg~~~ik~~~l~~n~l~~~~~~~i~~l~~~ldLr~N~~~~~dls  196 (1081)
T KOG0618|consen  117 QYLDLSFNHFGPIPLVIEVLTAEEELAASNNEKIQRLGQTSIKKLDLRLNVLGGSFLIDIYNLTHQLDLRYNEMEVLDLS  196 (1081)
T ss_pred             cccccchhccCCCchhHHhhhHHHHHhhhcchhhhhhccccchhhhhhhhhcccchhcchhhhheeeecccchhhhhhhh
Confidence            8888888877666654433333333322222                   1110111000                    


Q ss_pred             -----------------------------------------CCCCCcceeccccC--CcchhhhcCCCCCCCeEEEeccc
Q 045113          609 -----------------------------------------GSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDL  645 (821)
Q Consensus       609 -----------------------------------------~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~  645 (821)
                                                               ..-.+|+.++++.+  ...+.. ++.|.+|+.|.+..+.
T Consensus       197 ~~~~l~~l~c~rn~ls~l~~~g~~l~~L~a~~n~l~~~~~~p~p~nl~~~dis~n~l~~lp~w-i~~~~nle~l~~n~N~  275 (1081)
T KOG0618|consen  197 NLANLEVLHCERNQLSELEISGPSLTALYADHNPLTTLDVHPVPLNLQYLDISHNNLSNLPEW-IGACANLEALNANHNR  275 (1081)
T ss_pred             hccchhhhhhhhcccceEEecCcchheeeeccCcceeeccccccccceeeecchhhhhcchHH-HHhcccceEecccchh
Confidence                                                     11123333333331  233433 6777788888877663


Q ss_pred             c--------------------cchhHHHHHccCCCCcCEEEeecCC---------------------CCCCCCeeEeccc
Q 045113          646 S--------------------YNQSLLSKSLCRLSCLESLKLANES---------------------KMPRLSKIILAEY  684 (821)
Q Consensus       646 ~--------------------~~~~~l~~~l~~~~~L~~L~l~~~~---------------------~~~~L~~l~l~~~  684 (821)
                      -                    .....+|..+...++|++|+|..|-                     .+..+..+.-.+-
T Consensus       276 l~~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e  355 (1081)
T KOG0618|consen  276 LVALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEE  355 (1081)
T ss_pred             HHhhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeehhccccccchHHHhhhhHHHHHHhhhhccccccccccc
Confidence            0                    0122334444556778888887631                     1111111111112


Q ss_pred             CCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccc
Q 045113          685 VFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLE  764 (821)
Q Consensus       685 ~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~  764 (821)
                      ...+.|+.|.+.+|.+++...+.+.+.++|+.|+|++|.+... +......++.|+.|.|++| .++.+|.....+++|+
T Consensus       356 ~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~f-pas~~~kle~LeeL~LSGN-kL~~Lp~tva~~~~L~  433 (1081)
T KOG0618|consen  356 NNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSF-PASKLRKLEELEELNLSGN-KLTTLPDTVANLGRLH  433 (1081)
T ss_pred             hhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccccC-CHHHHhchHHhHHHhcccc-hhhhhhHHHHhhhhhH
Confidence            3345666777777777777777777777777777776654431 1223455666777777765 4555554444444444


Q ss_pred             eeE
Q 045113          765 CLI  767 (821)
Q Consensus       765 ~L~  767 (821)
                      +|.
T Consensus       434 tL~  436 (1081)
T KOG0618|consen  434 TLR  436 (1081)
T ss_pred             HHh
Confidence            443

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

Probab=99.68  E-value=1.8e-19  Score=183.50  Aligned_cols=260  Identities=20%  Similarity=0.195  Sum_probs=154.5

Q ss_pred             eeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcc
Q 045113          520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSIT  599 (821)
Q Consensus       520 Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~  599 (821)
                      |..|++++|.+..+-+.+.++..|..|++++|.+..+|++++ .+..++.|+.+++++..+|+.++.+.+|++|++++|.
T Consensus        47 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~n~  125 (565)
T KOG0472|consen   47 LQKLILSHNDLEVLREDLKNLACLTVLNVHDNKLSQLPAAIG-ELEALKSLNVSHNKLSELPEQIGSLISLVKLDCSSNE  125 (565)
T ss_pred             hhhhhhccCchhhccHhhhcccceeEEEeccchhhhCCHHHH-HHHHHHHhhcccchHhhccHHHhhhhhhhhhhccccc
Confidence            344455555555444445555555555555555555555555 5555555555555555555555555555555555555


Q ss_pred             cCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCC
Q 045113          600 LPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLS  677 (821)
Q Consensus       600 ~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~  677 (821)
                      + ..+|++++.+..|+.++...|  .+.|.. +.++.+|..|.+.++   ...++|+..-.++.|++|+...|    -|+
T Consensus       126 ~-~el~~~i~~~~~l~dl~~~~N~i~slp~~-~~~~~~l~~l~~~~n---~l~~l~~~~i~m~~L~~ld~~~N----~L~  196 (565)
T KOG0472|consen  126 L-KELPDSIGRLLDLEDLDATNNQISSLPED-MVNLSKLSKLDLEGN---KLKALPENHIAMKRLKHLDCNSN----LLE  196 (565)
T ss_pred             e-eecCchHHHHhhhhhhhccccccccCchH-HHHHHHHHHhhcccc---chhhCCHHHHHHHHHHhcccchh----hhh
Confidence            4 444455555555555554442  234444 555555555555554   33334444444555555554332    122


Q ss_pred             eeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeecc
Q 045113          678 KIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGT  757 (821)
Q Consensus       678 ~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~  757 (821)
                      .+ +..++.+.+|..|+|..|++.  ..+.|.+|..|++|++..|.+... .......+++|..|++.++ .++++|.+.
T Consensus       197 tl-P~~lg~l~~L~~LyL~~Nki~--~lPef~gcs~L~Elh~g~N~i~~l-pae~~~~L~~l~vLDLRdN-klke~Pde~  271 (565)
T KOG0472|consen  197 TL-PPELGGLESLELLYLRRNKIR--FLPEFPGCSLLKELHVGENQIEML-PAEHLKHLNSLLVLDLRDN-KLKEVPDEI  271 (565)
T ss_pred             cC-ChhhcchhhhHHHHhhhcccc--cCCCCCccHHHHHHHhcccHHHhh-HHHHhcccccceeeecccc-ccccCchHH
Confidence            22 222455666666777777653  344778888888888876654331 1222446788888888886 688888888


Q ss_pred             ccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          758 GAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       758 ~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      .-+.+|++|+++++. +..+|..++++ .|+.|.+.|.|
T Consensus       272 clLrsL~rLDlSNN~-is~Lp~sLgnl-hL~~L~leGNP  308 (565)
T KOG0472|consen  272 CLLRSLERLDLSNND-ISSLPYSLGNL-HLKFLALEGNP  308 (565)
T ss_pred             HHhhhhhhhcccCCc-cccCCcccccc-eeeehhhcCCc
Confidence            888888888888775 56788888888 88888888888

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

Probab=99.62  E-value=1.1e-17  Score=187.08  Aligned_cols=219  Identities=23%  Similarity=0.238  Sum_probs=142.3

Q ss_pred             ceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecc
Q 045113          567 LYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       567 L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      |++++++++.+..+|..++.+.+|..|+.++|++ ..+|..+...++|+.|.+.++  ...++. +..++.|+.|++..+
T Consensus       243 l~~~dis~n~l~~lp~wi~~~~nle~l~~n~N~l-~~lp~ri~~~~~L~~l~~~~nel~yip~~-le~~~sL~tLdL~~N  320 (1081)
T KOG0618|consen  243 LQYLDISHNNLSNLPEWIGACANLEALNANHNRL-VALPLRISRITSLVSLSAAYNELEYIPPF-LEGLKSLRTLDLQSN  320 (1081)
T ss_pred             ceeeecchhhhhcchHHHHhcccceEecccchhH-HhhHHHHhhhhhHHHHHhhhhhhhhCCCc-ccccceeeeeeehhc
Confidence            4444444444445555555555555555555555 455555555555655555553  344455 677888999999887


Q ss_pred             cccchhHHHHHccCC-C-CcCEEEeecC----------CCCCCCCeeEecc----------cCCCCCcceEEEecccCCC
Q 045113          645 LSYNQSLLSKSLCRL-S-CLESLKLANE----------SKMPRLSKIILAE----------YVFPHSLTHLSFSNTDLMD  702 (821)
Q Consensus       645 ~~~~~~~l~~~l~~~-~-~L~~L~l~~~----------~~~~~L~~l~l~~----------~~~~~~L~~L~L~~~~l~~  702 (821)
                      .   ...+|..+... . .|+.|..+.+          ..++.|+.|++.+          +.++.+|+.|+|++|.+..
T Consensus       321 ~---L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~  397 (1081)
T KOG0618|consen  321 N---LPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNS  397 (1081)
T ss_pred             c---ccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeeccccccc
Confidence            3   22233221111 0 1222222221          1333455555444          6788999999999999865


Q ss_pred             CCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCC--Cccc
Q 045113          703 DPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKK--MPEQ  780 (821)
Q Consensus       703 ~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~--lp~~  780 (821)
                      .+-..+.+++.|++|+|++|.+..  ++.....++.|++|...+| .+..+| ++..+|.|+.++++.| .|+.  +|..
T Consensus       398 fpas~~~kle~LeeL~LSGNkL~~--Lp~tva~~~~L~tL~ahsN-~l~~fP-e~~~l~qL~~lDlS~N-~L~~~~l~~~  472 (1081)
T KOG0618|consen  398 FPASKLRKLEELEELNLSGNKLTT--LPDTVANLGRLHTLRAHSN-QLLSFP-ELAQLPQLKVLDLSCN-NLSEVTLPEA  472 (1081)
T ss_pred             CCHHHHhchHHhHHHhcccchhhh--hhHHHHhhhhhHHHhhcCC-ceeech-hhhhcCcceEEecccc-hhhhhhhhhh
Confidence            555568899999999999998876  3345677899999998886 677788 7888999999999955 4543  4443


Q ss_pred             cCCCCCCCEEEEeCCc
Q 045113          781 LWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       781 l~~l~~L~~L~l~~c~  796 (821)
                      ... |+|++|+++|.+
T Consensus       473 ~p~-p~LkyLdlSGN~  487 (1081)
T KOG0618|consen  473 LPS-PNLKYLDLSGNT  487 (1081)
T ss_pred             CCC-cccceeeccCCc
Confidence            333 799999999988

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.53  E-value=1.5e-14  Score=168.73  Aligned_cols=243  Identities=19%  Similarity=0.178  Sum_probs=167.1

Q ss_pred             CceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCC
Q 045113          518 KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGS  597 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~  597 (821)
                      .+..+|+++++.++.+|..+.  ++|+.|+|++|.+..+|..+.   .+|++|++++|.+..+|..+.  ++|+.|++++
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---GNIKTLYANSNQLTSIPATLP--DTIQEMELSI  250 (754)
T ss_pred             cCceEEEeCCCCcCcCCcccc--cCCcEEEecCCCCCcCChhhc---cCCCEEECCCCccccCChhhh--ccccEEECcC
Confidence            356788888888888887664  478888888888888887665   478888888888888877553  4688888888


Q ss_pred             cccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCC
Q 045113          598 ITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPR  675 (821)
Q Consensus       598 ~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~  675 (821)
                      |.+. .+|..+.  .+|+.|++..|  ...+.. +.  ++|+.|++++|.   ...+|..+.  ++|+.|+++.|    .
T Consensus       251 N~L~-~LP~~l~--s~L~~L~Ls~N~L~~LP~~-l~--~sL~~L~Ls~N~---Lt~LP~~lp--~sL~~L~Ls~N----~  315 (754)
T PRK15370        251 NRIT-ELPERLP--SALQSLDLFHNKISCLPEN-LP--EELRYLSVYDNS---IRTLPAHLP--SGITHLNVQSN----S  315 (754)
T ss_pred             CccC-cCChhHh--CCCCEEECcCCccCccccc-cC--CCCcEEECCCCc---cccCcccch--hhHHHHHhcCC----c
Confidence            8874 6666554  47888887764  233333 32  478888888872   223443322  36777777754    3


Q ss_pred             CCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceee
Q 045113          676 LSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTM  755 (821)
Q Consensus       676 L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~  755 (821)
                      +..+..   ..+++|+.|++++|.++. +|..+  .++|+.|+|++|.+...  +.  .-.++|+.|+|++| .+..+|.
T Consensus       316 Lt~LP~---~l~~sL~~L~Ls~N~Lt~-LP~~l--~~sL~~L~Ls~N~L~~L--P~--~lp~~L~~LdLs~N-~Lt~LP~  384 (754)
T PRK15370        316 LTALPE---TLPPGLKTLEAGENALTS-LPASL--PPELQVLDVSKNQITVL--PE--TLPPTITTLDVSRN-ALTNLPE  384 (754)
T ss_pred             cccCCc---cccccceeccccCCcccc-CChhh--cCcccEEECCCCCCCcC--Ch--hhcCCcCEEECCCC-cCCCCCH
Confidence            443321   134688999999998764 44444  36899999998877642  21  22468999999998 5667765


Q ss_pred             ccccccccceeEEeecCCCCCCcccc----CCCCCCCEEEEeCCc
Q 045113          756 GTGAMPKLECLIINPCAYLKKMPEQL----WCIKSLNNFNCWWPQ  796 (821)
Q Consensus       756 ~~~~l~~L~~L~i~~c~~l~~lp~~l----~~l~~L~~L~l~~c~  796 (821)
                      .+  .++|+.|++++|. +..+|..+    ..++++..|++.+.|
T Consensus       385 ~l--~~sL~~LdLs~N~-L~~LP~sl~~~~~~~~~l~~L~L~~Np  426 (754)
T PRK15370        385 NL--PAALQIMQASRNN-LVRLPESLPHFRGEGPQPTRIIVEYNP  426 (754)
T ss_pred             hH--HHHHHHHhhccCC-cccCchhHHHHhhcCCCccEEEeeCCC
Confidence            43  2478999999875 55666544    345788899998887

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.51  E-value=5.6e-14  Score=162.98  Aligned_cols=233  Identities=20%  Similarity=0.117  Sum_probs=132.5

Q ss_pred             ceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCc
Q 045113          519 LLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSI  598 (821)
Q Consensus       519 ~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~  598 (821)
                      +|+.|++.+|.++.+|..   +++|++|++++|.++.+|..    .++|+.|++++|.+..+|..   .++|+.|++++|
T Consensus       223 ~L~~L~L~~N~Lt~LP~l---p~~Lk~LdLs~N~LtsLP~l----p~sL~~L~Ls~N~L~~Lp~l---p~~L~~L~Ls~N  292 (788)
T PRK15387        223 HITTLVIPDNNLTSLPAL---PPELRTLEVSGNQLTSLPVL----PPGLLELSIFSNPLTHLPAL---PSGLCKLWIFGN  292 (788)
T ss_pred             CCCEEEccCCcCCCCCCC---CCCCcEEEecCCccCcccCc----ccccceeeccCCchhhhhhc---hhhcCEEECcCC
Confidence            455555555555555532   34555555555555555522    23555555555555555442   234555666666


Q ss_pred             ccCCCCCCCcCCCCCcceeccccCC-cchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCC
Q 045113          599 TLPAHPGNYCGSLENLNFISALYPC-CCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLS  677 (821)
Q Consensus       599 ~~~~~~p~~i~~l~~L~~L~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~  677 (821)
                      .+ ..+|..   +++|+.|++.+|. ..++. +  ..+|+.|++++|   ....+|.   ...+|+.|+++.|    +|+
T Consensus       293 ~L-t~LP~~---p~~L~~LdLS~N~L~~Lp~-l--p~~L~~L~Ls~N---~L~~LP~---lp~~Lq~LdLS~N----~Ls  355 (788)
T PRK15387        293 QL-TSLPVL---PPGLQELSVSDNQLASLPA-L--PSELCKLWAYNN---QLTSLPT---LPSGLQELSVSDN----QLA  355 (788)
T ss_pred             cc-cccccc---ccccceeECCCCccccCCC-C--cccccccccccC---ccccccc---cccccceEecCCC----ccC
Confidence            55 234432   3456666665531 11111 1  124555555555   2222332   1135677777654    333


Q ss_pred             eeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeecc
Q 045113          678 KIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGT  757 (821)
Q Consensus       678 ~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~  757 (821)
                      .+.    ..+++|+.|++++|.+.. +|..   .++|+.|+|++|.+...  +   ..+++|+.|++++| .+..+|.. 
T Consensus       356 ~LP----~lp~~L~~L~Ls~N~L~~-LP~l---~~~L~~LdLs~N~Lt~L--P---~l~s~L~~LdLS~N-~LssIP~l-  420 (788)
T PRK15387        356 SLP----TLPSELYKLWAYNNRLTS-LPAL---PSGLKELIVSGNRLTSL--P---VLPSELKELMVSGN-RLTSLPML-  420 (788)
T ss_pred             CCC----CCCcccceehhhcccccc-Cccc---ccccceEEecCCcccCC--C---CcccCCCEEEccCC-cCCCCCcc-
Confidence            321    124577778888877653 3322   34688888887776642  1   13467888888887 46666642 


Q ss_pred             ccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          758 GAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       758 ~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                        +.+|+.|++++|. ++.+|..+.++++|+.|++++++
T Consensus       421 --~~~L~~L~Ls~Nq-Lt~LP~sl~~L~~L~~LdLs~N~  456 (788)
T PRK15387        421 --PSGLLSLSVYRNQ-LTRLPESLIHLSSETTVNLEGNP  456 (788)
T ss_pred             --hhhhhhhhhccCc-ccccChHHhhccCCCeEECCCCC
Confidence              3567888888775 56788888888889999988876

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.48  E-value=1.1e-13  Score=160.56  Aligned_cols=242  Identities=17%  Similarity=0.058  Sum_probs=167.2

Q ss_pred             CCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceE
Q 045113          490 PHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYT  569 (821)
Q Consensus       490 ~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~  569 (821)
                      ++|+.|.+.++....    ++    ..+++|+.|+|++|.++.+|..   .++|++|++++|.+..+|...    .+|+.
T Consensus       222 ~~L~~L~L~~N~Lt~----LP----~lp~~Lk~LdLs~N~LtsLP~l---p~sL~~L~Ls~N~L~~Lp~lp----~~L~~  286 (788)
T PRK15387        222 AHITTLVIPDNNLTS----LP----ALPPELRTLEVSGNQLTSLPVL---PPGLLELSIFSNPLTHLPALP----SGLCK  286 (788)
T ss_pred             cCCCEEEccCCcCCC----CC----CCCCCCcEEEecCCccCcccCc---ccccceeeccCCchhhhhhch----hhcCE
Confidence            467788877766542    11    2357899999999998888753   357888999999888887533    46778


Q ss_pred             EecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCC-cchhhhcCCCCCCCeEEEecccccc
Q 045113          570 LDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPC-CCTKDLLGRLPNLRNLRIQGDLSYN  648 (821)
Q Consensus       570 L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~~~  648 (821)
                      |++++|.+..+|..   +++|+.|++++|.+. .+|...   .+|+.|++.+|. ..++. +  ..+|+.|++++|.   
T Consensus       287 L~Ls~N~Lt~LP~~---p~~L~~LdLS~N~L~-~Lp~lp---~~L~~L~Ls~N~L~~LP~-l--p~~Lq~LdLS~N~---  353 (788)
T PRK15387        287 LWIFGNQLTSLPVL---PPGLQELSVSDNQLA-SLPALP---SELCKLWAYNNQLTSLPT-L--PSGLQELSVSDNQ---  353 (788)
T ss_pred             EECcCCcccccccc---ccccceeECCCCccc-cCCCCc---ccccccccccCccccccc-c--ccccceEecCCCc---
Confidence            89999988888763   578999999998884 455432   346666665532 11111 1  1478899998873   


Q ss_pred             hhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCe
Q 045113          649 QSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRK  728 (821)
Q Consensus       649 ~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~  728 (821)
                      ...+|..   ..+|+.|+++.|    .|..+.    ..+++|+.|+|++|.++. .|..   .++|+.|++++|.+... 
T Consensus       354 Ls~LP~l---p~~L~~L~Ls~N----~L~~LP----~l~~~L~~LdLs~N~Lt~-LP~l---~s~L~~LdLS~N~LssI-  417 (788)
T PRK15387        354 LASLPTL---PSELYKLWAYNN----RLTSLP----ALPSGLKELIVSGNRLTS-LPVL---PSELKELMVSGNRLTSL-  417 (788)
T ss_pred             cCCCCCC---Ccccceehhhcc----ccccCc----ccccccceEEecCCcccC-CCCc---ccCCCEEEccCCcCCCC-
Confidence            3334432   246777777754    333321    124689999999998764 3332   36799999998887652 


Q ss_pred             eeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccc
Q 045113          729 LTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQ  780 (821)
Q Consensus       729 ~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~  780 (821)
                       +   ..+.+|+.|++++| .+..+|..++.+++|+.|++++|+.....|..
T Consensus       418 -P---~l~~~L~~L~Ls~N-qLt~LP~sl~~L~~L~~LdLs~N~Ls~~~~~~  464 (788)
T PRK15387        418 -P---MLPSGLLSLSVYRN-QLTRLPESLIHLSSETTVNLEGNPLSERTLQA  464 (788)
T ss_pred             -C---cchhhhhhhhhccC-cccccChHHhhccCCCeEECCCCCCCchHHHH
Confidence             2   23457899999987 58888888889999999999999865554443

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

Probab=99.45  E-value=1.4e-15  Score=137.95  Aligned_cols=150  Identities=21%  Similarity=0.208  Sum_probs=114.0

Q ss_pred             ccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceee
Q 045113          515 EMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLN  594 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~  594 (821)
                      -.+.++..|-|++|.++..|+.|..+.+|+.|++++|+|+++|.++. .+++|+.|+++.|.+..+|.+|+.++.|+.||
T Consensus        30 f~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~is-sl~klr~lnvgmnrl~~lprgfgs~p~levld  108 (264)
T KOG0617|consen   30 FNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTSIS-SLPKLRILNVGMNRLNILPRGFGSFPALEVLD  108 (264)
T ss_pred             cchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhhhcChhhh-hchhhhheecchhhhhcCccccCCCchhhhhh
Confidence            34566777788888888888888888888888888888888888888 88888888888888888888888888888888


Q ss_pred             cCCcccCC-CCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeec
Q 045113          595 FGSITLPA-HPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLAN  669 (821)
Q Consensus       595 L~~~~~~~-~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~  669 (821)
                      +++|++.. .+|..|-.++.|+.|++.+|  ...|.+ ++++++|+.|.+..+   ..-.+|..++.++.|+.|.+.+
T Consensus       109 ltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~d-vg~lt~lqil~lrdn---dll~lpkeig~lt~lrelhiqg  182 (264)
T KOG0617|consen  109 LTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPD-VGKLTNLQILSLRDN---DLLSLPKEIGDLTRLRELHIQG  182 (264)
T ss_pred             ccccccccccCCcchhHHHHHHHHHhcCCCcccCChh-hhhhcceeEEeeccC---chhhCcHHHHHHHHHHHHhccc
Confidence            88877754 56777777777777777774  456667 788888888877776   4556677777666666666554

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

Probab=99.44  E-value=8.7e-16  Score=139.26  Aligned_cols=160  Identities=26%  Similarity=0.365  Sum_probs=140.2

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      +++++..|.++.+...     ..+.-+..+++|++|++++|+++++|.+|+.++.||.|++.-|.+..+|..++ .++-|
T Consensus        31 ~~s~ITrLtLSHNKl~-----~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgfg-s~p~l  104 (264)
T KOG0617|consen   31 NMSNITRLTLSHNKLT-----VVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGFG-SFPAL  104 (264)
T ss_pred             chhhhhhhhcccCcee-----ecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccccC-CCchh
Confidence            6778888888887765     33445688999999999999999999999999999999999999999999999 99999


Q ss_pred             eEEecCCccc--ccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEec
Q 045113          568 YTLDMPFSYI--DHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQG  643 (821)
Q Consensus       568 ~~L~L~~~~l--~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~  643 (821)
                      +.|||.+|++  ..+|..|..|+.|+-|+++.|.+ ..+|..++++++||.|.+.+|  -+.|.+ ++.++.|++|+|.+
T Consensus       105 evldltynnl~e~~lpgnff~m~tlralyl~dndf-e~lp~dvg~lt~lqil~lrdndll~lpke-ig~lt~lrelhiqg  182 (264)
T KOG0617|consen  105 EVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDF-EILPPDVGKLTNLQILSLRDNDLLSLPKE-IGDLTRLRELHIQG  182 (264)
T ss_pred             hhhhccccccccccCCcchhHHHHHHHHHhcCCCc-ccCChhhhhhcceeEEeeccCchhhCcHH-HHHHHHHHHHhccc
Confidence            9999999955  56799999999999999999988 778889999999999999986  478889 99999999999999


Q ss_pred             ccccchhHHHHHccC
Q 045113          644 DLSYNQSLLSKSLCR  658 (821)
Q Consensus       644 ~~~~~~~~l~~~l~~  658 (821)
                      +   ....+|..+++
T Consensus       183 n---rl~vlppel~~  194 (264)
T KOG0617|consen  183 N---RLTVLPPELAN  194 (264)
T ss_pred             c---eeeecChhhhh
Confidence            8   44555555544

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.44  E-value=2e-13  Score=159.55  Aligned_cols=224  Identities=17%  Similarity=0.189  Sum_probs=120.3

Q ss_pred             CCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceE
Q 045113          490 PHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYT  569 (821)
Q Consensus       490 ~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~  569 (821)
                      ++++.|.+.++....    .+..++   ++|+.|+|++|.++.+|..+.  .+|+.|+|++|.+..+|..+.   .+|++
T Consensus       199 ~~L~~L~Ls~N~Lts----LP~~l~---~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~Ls~N~L~~LP~~l~---s~L~~  266 (754)
T PRK15370        199 EQITTLILDNNELKS----LPENLQ---GNIKTLYANSNQLTSIPATLP--DTIQEMELSINRITELPERLP---SALQS  266 (754)
T ss_pred             cCCcEEEecCCCCCc----CChhhc---cCCCEEECCCCccccCChhhh--ccccEEECcCCccCcCChhHh---CCCCE
Confidence            456777776665542    222222   467777777777777766543  367777777777777776654   36777


Q ss_pred             EecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEeccccc
Q 045113          570 LDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSY  647 (821)
Q Consensus       570 L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~  647 (821)
                      |++++|.+..+|..+.  ++|++|++++|.+. .+|..+.  ++|+.|++..|  ...+.. +  .++|+.|++++|.  
T Consensus       267 L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N~Lt-~LP~~lp--~sL~~L~Ls~N~Lt~LP~~-l--~~sL~~L~Ls~N~--  336 (754)
T PRK15370        267 LDLFHNKISCLPENLP--EELRYLSVYDNSIR-TLPAHLP--SGITHLNVQSNSLTALPET-L--PPGLKTLEAGENA--  336 (754)
T ss_pred             EECcCCccCccccccC--CCCcEEECCCCccc-cCcccch--hhHHHHHhcCCccccCCcc-c--cccceeccccCCc--
Confidence            7777777777776543  46777777777663 3554332  35666666553  122222 2  2456666666652  


Q ss_pred             chhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCC
Q 045113          648 NQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGR  727 (821)
Q Consensus       648 ~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~  727 (821)
                       ...+|..+.  ++|+.|+++.|    ++..+.-   ..+++|+.|+|++|.++ ..|+.+.  ++|+.|++++|.+...
T Consensus       337 -Lt~LP~~l~--~sL~~L~Ls~N----~L~~LP~---~lp~~L~~LdLs~N~Lt-~LP~~l~--~sL~~LdLs~N~L~~L  403 (754)
T PRK15370        337 -LTSLPASLP--PELQVLDVSKN----QITVLPE---TLPPTITTLDVSRNALT-NLPENLP--AALQIMQASRNNLVRL  403 (754)
T ss_pred             -cccCChhhc--CcccEEECCCC----CCCcCCh---hhcCCcCEEECCCCcCC-CCCHhHH--HHHHHHhhccCCcccC
Confidence             222333332  45666666543    2332210   11345666666666654 2333332  2456666665555421


Q ss_pred             e--eeecCCCCcccceeeeccCC
Q 045113          728 K--LTCGSDGFPRLKVLHLKSML  748 (821)
Q Consensus       728 ~--~~~~~~~~~~L~~L~L~~~~  748 (821)
                      .  ++.....++++..|.+.+|+
T Consensus       404 P~sl~~~~~~~~~l~~L~L~~Np  426 (754)
T PRK15370        404 PESLPHFRGEGPQPTRIIVEYNP  426 (754)
T ss_pred             chhHHHHhhcCCCccEEEeeCCC
Confidence            1  11112234555666666653

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

Probab=99.37  E-value=5.6e-14  Score=151.96  Aligned_cols=263  Identities=19%  Similarity=0.140  Sum_probs=139.8

Q ss_pred             hhHHhhccCCceeEEEeCCCCCC-----cccccccCCCCceEEeecCCCCcc-------ccHHHHhccccceEEecCCcc
Q 045113          509 DWQKICEMYKLLRVLDLGSLVLN-----QYPSEIENLSLLRYLKLNIPSLKS-------LPLSFFNYLLNLYTLDMPFSY  576 (821)
Q Consensus       509 ~~~~~~~~~~~Lr~L~L~~~~l~-----~lp~~i~~l~~Lr~L~L~~~~i~~-------lp~~i~~~L~~L~~L~L~~~~  576 (821)
                      .+...|..+..|++|+++++.++     .++..+...+.|++|+++++.+..       ++..+. ++++|+.|++++|.
T Consensus        14 ~~~~~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~-~~~~L~~L~l~~~~   92 (319)
T cd00116          14 RATELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLT-KGCGLQELDLSDNA   92 (319)
T ss_pred             chHHHHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHH-hcCceeEEEccCCC
Confidence            45567788888999999999874     456667778888999888876652       334555 67788888888886


Q ss_pred             cc-cchhhhccCcc---CceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCC-CCCCeEEEeccccc--ch
Q 045113          577 ID-HTADEFWKMKK---LRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRL-PNLRNLRIQGDLSY--NQ  649 (821)
Q Consensus       577 l~-~lp~~i~~l~~---L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l-~~L~~L~l~~~~~~--~~  649 (821)
                      +. ..+..+..+.+   |++|++++|.+......                 ..... +..+ ++|+.|++++|.-.  ..
T Consensus        93 ~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~-----------------~l~~~-l~~~~~~L~~L~L~~n~l~~~~~  154 (319)
T cd00116          93 LGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLR-----------------LLAKG-LKDLPPALEKLVLGRNRLEGASC  154 (319)
T ss_pred             CChhHHHHHHHHhccCcccEEEeeCCccchHHHH-----------------HHHHH-HHhCCCCceEEEcCCCcCCchHH
Confidence            65 34455555544   88888887766421000                 00111 3444 56666666665311  11


Q ss_pred             hHHHHHccCCCCcCEEEeecCCCCCCCCeeEe----cccCCCCCcceEEEecccCCCCC----cccccCCCCCCEEEEec
Q 045113          650 SLLSKSLCRLSCLESLKLANESKMPRLSKIIL----AEYVFPHSLTHLSFSNTDLMDDP----MPALEKLPLLQVLKLKQ  721 (821)
Q Consensus       650 ~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l----~~~~~~~~L~~L~L~~~~l~~~~----~~~l~~l~~L~~L~L~~  721 (821)
                      ..++..+..+++|+.|+++++    ++..-.+    ..+..+++|+.|++++|.+.+..    ...+..+++|++|++++
T Consensus       155 ~~~~~~~~~~~~L~~L~l~~n----~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~  230 (319)
T cd00116         155 EALAKALRANRDLKELNLANN----GIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGD  230 (319)
T ss_pred             HHHHHHHHhCCCcCEEECcCC----CCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCC
Confidence            233444555555666665532    2221000    00223346666666666554322    22344566666666666


Q ss_pred             cccCCCeeeecCC----CCcccceeeeccCCCcc-----ceeeccccccccceeEEeecCCCCC----CccccCCC-CCC
Q 045113          722 NSYSGRKLTCGSD----GFPRLKVLHLKSMLWLE-----EWTMGTGAMPKLECLIINPCAYLKK----MPEQLWCI-KSL  787 (821)
Q Consensus       722 ~~~~~~~~~~~~~----~~~~L~~L~L~~~~~l~-----~~~~~~~~l~~L~~L~i~~c~~l~~----lp~~l~~l-~~L  787 (821)
                      |.+.+..+.....    ..+.|++|++++|. +.     .+......+++|+.|++++|..-..    +...+... +.|
T Consensus       231 n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~-i~~~~~~~l~~~~~~~~~L~~l~l~~N~l~~~~~~~~~~~~~~~~~~~  309 (319)
T cd00116         231 NNLTDAGAAALASALLSPNISLLTLSLSCND-ITDDGAKDLAEVLAEKESLLELDLRGNKFGEEGAQLLAESLLEPGNEL  309 (319)
T ss_pred             CcCchHHHHHHHHHHhccCCCceEEEccCCC-CCcHHHHHHHHHHhcCCCccEEECCCCCCcHHHHHHHHHHHhhcCCch
Confidence            5554321111011    23566666666653 22     1122233445666666666654321    22223333 455


Q ss_pred             CEEEEeCC
Q 045113          788 NNFNCWWP  795 (821)
Q Consensus       788 ~~L~l~~c  795 (821)
                      ++|++.+.
T Consensus       310 ~~~~~~~~  317 (319)
T cd00116         310 ESLWVKDD  317 (319)
T ss_pred             hhcccCCC
Confidence            55555443

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

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

Probab=99.36  E-value=1.4e-13  Score=148.84  Aligned_cols=133  Identities=14%  Similarity=-0.013  Sum_probs=95.4

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCc-------ccccccCCCCceEEeecCCCCc-cccHH
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQ-------YPSEIENLSLLRYLKLNIPSLK-SLPLS  559 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~-------lp~~i~~l~~Lr~L~L~~~~i~-~lp~~  559 (821)
                      ..++|+.|.+.++.........+...+...+.|+.|+++++.+..       ++..+.++++|++|++++|.+. ..+..
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            566799999998876431222455667788899999999987652       3456778999999999999987 45555


Q ss_pred             HHhcccc---ceEEecCCcccc-----cchhhhccC-ccCceeecCCcccCCC----CCCCcCCCCCcceecccc
Q 045113          560 FFNYLLN---LYTLDMPFSYID-----HTADEFWKM-KKLRHLNFGSITLPAH----PGNYCGSLENLNFISALY  621 (821)
Q Consensus       560 i~~~L~~---L~~L~L~~~~l~-----~lp~~i~~l-~~L~~L~L~~~~~~~~----~p~~i~~l~~L~~L~~~~  621 (821)
                      +. .+.+   |+.|++++|.+.     .+...+..+ ++|+.|++++|.+.+.    ++..+..+++|++|++..
T Consensus       101 ~~-~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~  174 (319)
T cd00116         101 LE-SLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLAN  174 (319)
T ss_pred             HH-HHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcC
Confidence            55 6665   999999999765     234456677 8999999999988632    223344445555555544

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).

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.28  E-value=3.4e-12  Score=151.56  Aligned_cols=149  Identities=25%  Similarity=0.204  Sum_probs=119.1

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCC--CCcccc-cccCCCCceEEeecCCC-CccccHHHHhc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLV--LNQYPS-EIENLSLLRYLKLNIPS-LKSLPLSFFNY  563 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~--l~~lp~-~i~~l~~Lr~L~L~~~~-i~~lp~~i~~~  563 (821)
                      ....+|...+.++....     . .--..++.|++|-+.++.  +..++. .|..+++||+|||++|. +..+|.+|+ +
T Consensus       521 ~~~~~rr~s~~~~~~~~-----~-~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~-~  593 (889)
T KOG4658|consen  521 SWNSVRRMSLMNNKIEH-----I-AGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIG-E  593 (889)
T ss_pred             chhheeEEEEeccchhh-----c-cCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHh-h
Confidence            66778888887776542     1 111344579999999986  555554 47789999999999875 779999999 9


Q ss_pred             cccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceecccc-C----CcchhhhcCCCCCCCe
Q 045113          564 LLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALY-P----CCCTKDLLGRLPNLRN  638 (821)
Q Consensus       564 L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~-~----~~~~~~~l~~l~~L~~  638 (821)
                      |-+|++|+++++.+..+|.++.+|.+|.+||+.++.....+|..+..|.+|++|.+.. .    .....+ +.++.+|+.
T Consensus       594 Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~~~~~~l~e-l~~Le~L~~  672 (889)
T KOG4658|consen  594 LVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSALSNDKLLLKE-LENLEHLEN  672 (889)
T ss_pred             hhhhhcccccCCCccccchHHHHHHhhheeccccccccccccchhhhcccccEEEeeccccccchhhHHh-hhcccchhh
Confidence            9999999999999999999999999999999998877666677677799999999887 2    355666 777777877


Q ss_pred             EEEecc
Q 045113          639 LRIQGD  644 (821)
Q Consensus       639 L~l~~~  644 (821)
                      |.+...
T Consensus       673 ls~~~~  678 (889)
T KOG4658|consen  673 LSITIS  678 (889)
T ss_pred             heeecc
Confidence            777554

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

Probab=99.27  E-value=5.8e-13  Score=136.41  Aligned_cols=251  Identities=17%  Similarity=0.146  Sum_probs=145.7

Q ss_pred             ceeEEEeCCCCCCcccc-cccCCCCceEEeecCCCCcccc-HHHHhccccceEEecCC-cccccchh-hhccCccCceee
Q 045113          519 LLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLKSLP-LSFFNYLLNLYTLDMPF-SYIDHTAD-EFWKMKKLRHLN  594 (821)
Q Consensus       519 ~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~i~~lp-~~i~~~L~~L~~L~L~~-~~l~~lp~-~i~~l~~L~~L~  594 (821)
                      .-..++|..|+|+.+|+ +|+.+++||.||||+|.|+.+- ..+. .|.+|-+|-+.+ |+|+.+|. .|++|..|+.|.
T Consensus        68 ~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~-GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLl  146 (498)
T KOG4237|consen   68 ETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFK-GLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLL  146 (498)
T ss_pred             cceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhh-hhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHh
Confidence            35668888888888874 6788889999999999888554 4454 888877776666 68888876 567888888888


Q ss_pred             cCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccc----------cchhHHHHHccCCCCc
Q 045113          595 FGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLS----------YNQSLLSKSLCRLSCL  662 (821)
Q Consensus       595 L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~----------~~~~~l~~~l~~~~~L  662 (821)
                      +.-|++.....+.+..+++|..|.+++|  .......+..+..++.+.+..+..          ......+..++.....
T Consensus       147 lNan~i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsgarc~  226 (498)
T KOG4237|consen  147 LNANHINCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSGARCV  226 (498)
T ss_pred             cChhhhcchhHHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhcCccccccccchhhhHHhhchhhcccceec
Confidence            8888876656666788888888888774  334443366666777666554420          0011111122211111


Q ss_pred             CEEEeecC-C-------CCCCCCee--Eec------c------cCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEe
Q 045113          663 ESLKLANE-S-------KMPRLSKI--ILA------E------YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLK  720 (821)
Q Consensus       663 ~~L~l~~~-~-------~~~~L~~l--~l~------~------~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~  720 (821)
                      ....+... +       -...++++  .+.      +      +..+++|+.|+|++|+++.....+|.++..+++|.|.
T Consensus       227 ~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~  306 (498)
T KOG4237|consen  227 SPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELYLT  306 (498)
T ss_pred             chHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhhhhhhcC
Confidence            11111110 0       00001111  000      0      4456666666666666666556666666666666666


Q ss_pred             ccccCCCeeeecCCCCcccceeeeccCCCccce-eeccccccccceeEEeecC
Q 045113          721 QNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW-TMGTGAMPKLECLIINPCA  772 (821)
Q Consensus       721 ~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~-~~~~~~l~~L~~L~i~~c~  772 (821)
                      .|.+.... ...+.++..|+.|+|.+| +++.+ |..+..+.+|.+|.+-.||
T Consensus       307 ~N~l~~v~-~~~f~~ls~L~tL~L~~N-~it~~~~~aF~~~~~l~~l~l~~Np  357 (498)
T KOG4237|consen  307 RNKLEFVS-SGMFQGLSGLKTLSLYDN-QITTVAPGAFQTLFSLSTLNLLSNP  357 (498)
T ss_pred             cchHHHHH-HHhhhccccceeeeecCC-eeEEEecccccccceeeeeehccCc
Confidence            55543321 122455666666666665 33333 3345555566666665544

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

Probab=99.08  E-value=1.4e-11  Score=126.33  Aligned_cols=229  Identities=18%  Similarity=0.166  Sum_probs=136.3

Q ss_pred             CCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCCceEEeecC-CCCccccHHHHhccccc
Q 045113          490 PHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNI-PSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       490 ~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~-~~i~~lp~~i~~~L~~L  567 (821)
                      +....+.+..+....    +++.+|+.++.||.|||++|.|+.+ |..|..+..|-.|-+.+ |+|.++|+.....|..|
T Consensus        67 ~~tveirLdqN~I~~----iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~sl  142 (498)
T KOG4237|consen   67 PETVEIRLDQNQISS----IPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSL  142 (498)
T ss_pred             CcceEEEeccCCccc----CChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHH
Confidence            345556666666543    7778888888888888888888744 66777777777766666 77888887766688888


Q ss_pred             eEEecCCcccccc-hhhhccCccCceeecCCcccCCCCCC-CcCCCCCcceeccccCC----c-----------chhhhc
Q 045113          568 YTLDMPFSYIDHT-ADEFWKMKKLRHLNFGSITLPAHPGN-YCGSLENLNFISALYPC----C-----------CTKDLL  630 (821)
Q Consensus       568 ~~L~L~~~~l~~l-p~~i~~l~~L~~L~L~~~~~~~~~p~-~i~~l~~L~~L~~~~~~----~-----------~~~~~l  630 (821)
                      +.|.+.-|.+..+ ...+..|++|..|.+..|.+ ..++. .+..+.+++++.+..|.    .           .+.+ +
T Consensus       143 qrLllNan~i~Cir~~al~dL~~l~lLslyDn~~-q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ie-t  220 (498)
T KOG4237|consen  143 QRLLLNANHINCIRQDALRDLPSLSLLSLYDNKI-QSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIE-T  220 (498)
T ss_pred             HHHhcChhhhcchhHHHHHHhhhcchhcccchhh-hhhccccccchhccchHhhhcCccccccccchhhhHHhhchhh-c
Confidence            8888877777666 44677788888887777766 33333 45566666666554420    0           0011 1


Q ss_pred             CCCCCCCeEEEeccc---------ccchhH---------------HHHHccCCCCcCEEEeecCC----------CCCCC
Q 045113          631 GRLPNLRNLRIQGDL---------SYNQSL---------------LSKSLCRLSCLESLKLANES----------KMPRL  676 (821)
Q Consensus       631 ~~l~~L~~L~l~~~~---------~~~~~~---------------l~~~l~~~~~L~~L~l~~~~----------~~~~L  676 (821)
                      +.........+....         ....+.               -...|.++++|+.|++++|-          ....+
T Consensus       221 sgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l  300 (498)
T KOG4237|consen  221 SGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAEL  300 (498)
T ss_pred             ccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhh
Confidence            111111100000000         000001               11235566677777776641          22333


Q ss_pred             CeeEecc----------cCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEecccc
Q 045113          677 SKIILAE----------YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSY  724 (821)
Q Consensus       677 ~~l~l~~----------~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~  724 (821)
                      +.|++..          +..+++|+.|+|++|+++...|..|..+.+|.+|+|-.|.+
T Consensus       301 ~eL~L~~N~l~~v~~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~l~~Np~  358 (498)
T KOG4237|consen  301 QELYLTRNKLEFVSSGMFQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLNLLSNPF  358 (498)
T ss_pred             hhhhcCcchHHHHHHHhhhccccceeeeecCCeeEEEecccccccceeeeeehccCcc
Confidence            3444333          56677777778877777766677777777777777765543

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

Probab=98.98  E-value=2.7e-10  Score=118.83  Aligned_cols=235  Identities=21%  Similarity=0.179  Sum_probs=145.0

Q ss_pred             cCCCCceEEeecCCCCccccH--HHHhccccceEEecCCcc---cccchhhhccCccCceeecCCcccCCCCCCCcCCCC
Q 045113          538 ENLSLLRYLKLNIPSLKSLPL--SFFNYLLNLYTLDMPFSY---IDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLE  612 (821)
Q Consensus       538 ~~l~~Lr~L~L~~~~i~~lp~--~i~~~L~~L~~L~L~~~~---l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~  612 (821)
                      .++..||...|.++.+...+.  ... .|++++.|||+.|-   +..+-.-...||+|+.|+++.|.+.......     
T Consensus       118 sn~kkL~~IsLdn~~V~~~~~~~~~k-~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~-----  191 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRVEDAGIEEYSK-ILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSN-----  191 (505)
T ss_pred             hhHHhhhheeecCccccccchhhhhh-hCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCcccc-----
Confidence            466777777887777776553  444 77888888888873   3344445567888888888877762211110     


Q ss_pred             CcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcce
Q 045113          613 NLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTH  692 (821)
Q Consensus       613 ~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~  692 (821)
                        .              -..+++|+.|.++.|. .....+-..+..+++|+.|.+..|-   .+- ..-.....+..|+.
T Consensus       192 --~--------------~~~l~~lK~L~l~~CG-ls~k~V~~~~~~fPsl~~L~L~~N~---~~~-~~~~~~~i~~~L~~  250 (505)
T KOG3207|consen  192 --T--------------TLLLSHLKQLVLNSCG-LSWKDVQWILLTFPSLEVLYLEANE---IIL-IKATSTKILQTLQE  250 (505)
T ss_pred             --c--------------hhhhhhhheEEeccCC-CCHHHHHHHHHhCCcHHHhhhhccc---ccc-eecchhhhhhHHhh
Confidence              0              1134556667777664 2345555555666777777776540   000 00011234667888


Q ss_pred             EEEecccCCC-CCcccccCCCCCCEEEEeccccCCCeeeec-----CCCCcccceeeeccCCCccceee--ccccccccc
Q 045113          693 LSFSNTDLMD-DPMPALEKLPLLQVLKLKQNSYSGRKLTCG-----SDGFPRLKVLHLKSMLWLEEWTM--GTGAMPKLE  764 (821)
Q Consensus       693 L~L~~~~l~~-~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~-----~~~~~~L~~L~L~~~~~l~~~~~--~~~~l~~L~  764 (821)
                      |+|++|.+.. +.....+.||.|+.|+++.+.+.....+..     ...||+|++|.+..|+ +..|+.  ....+++|+
T Consensus       251 LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~-I~~w~sl~~l~~l~nlk  329 (505)
T KOG3207|consen  251 LDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENN-IRDWRSLNHLRTLENLK  329 (505)
T ss_pred             ccccCCcccccccccccccccchhhhhccccCcchhcCCCccchhhhcccccceeeecccCc-cccccccchhhccchhh
Confidence            8888887654 334567889999999998777655433222     4679999999999984 555643  355678888


Q ss_pred             eeEEeecCCCCCC----ccccCCCCCCCEEEEeCCcHHHH
Q 045113          765 CLIINPCAYLKKM----PEQLWCIKSLNNFNCWWPQPELR  800 (821)
Q Consensus       765 ~L~i~~c~~l~~l----p~~l~~l~~L~~L~l~~c~~~~~  800 (821)
                      .|.+..++..+.-    -..+..+++|..|+=.+|.+..+
T Consensus       330 ~l~~~~n~ln~e~~~a~~~VIAr~~~l~~LN~~di~p~eR  369 (505)
T KOG3207|consen  330 HLRITLNYLNKETDTAKLLVIARISQLVKLNDVDISPNER  369 (505)
T ss_pred             hhhcccccccccccceeEEeeeehhhhhhhcccccChHHh
Confidence            8888766644311    11345566666666555654443

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

Probab=98.98  E-value=7.8e-11  Score=119.64  Aligned_cols=254  Identities=18%  Similarity=0.173  Sum_probs=162.5

Q ss_pred             hhHHhhccCCceeEEEeCCCCCC-----cccccccCCCCceEEeecCCC----CccccHHH-------HhccccceEEec
Q 045113          509 DWQKICEMYKLLRVLDLGSLVLN-----QYPSEIENLSLLRYLKLNIPS----LKSLPLSF-------FNYLLNLYTLDM  572 (821)
Q Consensus       509 ~~~~~~~~~~~Lr~L~L~~~~l~-----~lp~~i~~l~~Lr~L~L~~~~----i~~lp~~i-------~~~L~~L~~L~L  572 (821)
                      ........+..+..|+|++|.+.     .+-+.+.+.++||.-++++-.    ...+|+.+       . .+++|++|||
T Consensus        21 ~v~~~~~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~-~~~~L~~ldL   99 (382)
T KOG1909|consen   21 DVEEELEPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALL-GCPKLQKLDL   99 (382)
T ss_pred             hHHHHhcccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHh-cCCceeEeec
Confidence            44556677788888888888876     344556677788888887632    22555433       3 4568888888


Q ss_pred             CCcccc-----cchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEeccc--
Q 045113          573 PFSYID-----HTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDL--  645 (821)
Q Consensus       573 ~~~~l~-----~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~--  645 (821)
                      |+|.+.     .+-.-+.++..|++|+|++|.+...-...++.  .|.+|..      ... .++-++||.+....|.  
T Consensus       100 SDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~--al~~l~~------~kk-~~~~~~Lrv~i~~rNrle  170 (382)
T KOG1909|consen  100 SDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGR--ALFELAV------NKK-AASKPKLRVFICGRNRLE  170 (382)
T ss_pred             cccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHH--HHHHHHH------Hhc-cCCCcceEEEEeeccccc
Confidence            888432     23345667888999988888763211111111  1222220      111 5666788888888775  


Q ss_pred             ccchhHHHHHccCCCCcCEEEeecCC-CCCCCCeeEecccCCCCCcceEEEecccCCCCC----cccccCCCCCCEEEEe
Q 045113          646 SYNQSLLSKSLCRLSCLESLKLANES-KMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDP----MPALEKLPLLQVLKLK  720 (821)
Q Consensus       646 ~~~~~~l~~~l~~~~~L~~L~l~~~~-~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~----~~~l~~l~~L~~L~L~  720 (821)
                      +.....+...+...+.|+.+.+..|. .++.. .+-..++..|++|+.|+|..|.++...    ...+..+|+|+.|+++
T Consensus       171 n~ga~~~A~~~~~~~~leevr~~qN~I~~eG~-~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~  249 (382)
T KOG1909|consen  171 NGGATALAEAFQSHPTLEEVRLSQNGIRPEGV-TALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLG  249 (382)
T ss_pred             cccHHHHHHHHHhccccceEEEecccccCchh-HHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeeccc
Confidence            23445666777777888888888652 22222 222333778899999999998876432    3356678889999999


Q ss_pred             ccccCCCee----eecCCCCcccceeeeccCCCcc----ceeeccccccccceeEEeecCC
Q 045113          721 QNSYSGRKL----TCGSDGFPRLKVLHLKSMLWLE----EWTMGTGAMPKLECLIINPCAY  773 (821)
Q Consensus       721 ~~~~~~~~~----~~~~~~~~~L~~L~L~~~~~l~----~~~~~~~~l~~L~~L~i~~c~~  773 (821)
                      +|.+....-    .....++|+|+.|.+.+|..-.    .+.......|.|++|++++|..
T Consensus       250 dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  250 DCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             ccccccccHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence            887765331    1123458999999999874222    1222345689999999999874

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

Probab=98.95  E-value=5.9e-11  Score=123.01  Aligned_cols=291  Identities=18%  Similarity=0.149  Sum_probs=159.7

Q ss_pred             CceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCC-CC--cccccccCCCCceEEeecCCC-Cccc-cHHHHhccc
Q 045113          491 HLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLV-LN--QYPSEIENLSLLRYLKLNIPS-LKSL-PLSFFNYLL  565 (821)
Q Consensus       491 ~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~-l~--~lp~~i~~l~~Lr~L~L~~~~-i~~l-p~~i~~~L~  565 (821)
                      .|+.|.+.|.....  ...+..+-..+++++.|++.+|. ++  .+.+.-..+..|++|++..|. ++.. -..+...++
T Consensus       139 ~lk~LSlrG~r~v~--~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~  216 (483)
T KOG4341|consen  139 FLKELSLRGCRAVG--DSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCR  216 (483)
T ss_pred             ccccccccccccCC--cchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhh
Confidence            44555555544331  23445566677777777777776 33  222222356677777777743 4421 123444677


Q ss_pred             cceEEecCCc-cccc--chhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEe
Q 045113          566 NLYTLDMPFS-YIDH--TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQ  642 (821)
Q Consensus       566 ~L~~L~L~~~-~l~~--lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~  642 (821)
                      +|.+|++++| .+..  +..-...+.+|+.+.+.+|.-.   +        |+.|         ..+-+.+..+-++++.
T Consensus       217 kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~---~--------le~l---------~~~~~~~~~i~~lnl~  276 (483)
T KOG4341|consen  217 KLKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLEL---E--------LEAL---------LKAAAYCLEILKLNLQ  276 (483)
T ss_pred             hHHHhhhccCchhhcCcchHHhccchhhhhhhhcccccc---c--------HHHH---------HHHhccChHhhccchh
Confidence            7777777777 4433  2222233444444433333210   0        0000         0001122223333333


Q ss_pred             cccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecc-cCCCCCcceEEEeccc-CCCCCccccc-CCCCCCEEEE
Q 045113          643 GDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAE-YVFPHSLTHLSFSNTD-LMDDPMPALE-KLPLLQVLKL  719 (821)
Q Consensus       643 ~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~-~~~~~~L~~L~L~~~~-l~~~~~~~l~-~l~~L~~L~L  719 (821)
                      .|.......+-..-..+..|+.|..+   .+.++....+.. ...+++|+.|.++.|+ +++.-...++ +++.|+.|++
T Consensus       277 ~c~~lTD~~~~~i~~~c~~lq~l~~s---~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~  353 (483)
T KOG4341|consen  277 HCNQLTDEDLWLIACGCHALQVLCYS---SCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDL  353 (483)
T ss_pred             hhccccchHHHHHhhhhhHhhhhccc---CCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcc
Confidence            33211222222222334455555555   333333333322 2356777777777774 4444455555 6788888888


Q ss_pred             eccccCCCe-eeecCCCCcccceeeeccCCCccce-----eeccccccccceeEEeecCCCCC-CccccCCCCCCCEEEE
Q 045113          720 KQNSYSGRK-LTCGSDGFPRLKVLHLKSMLWLEEW-----TMGTGAMPKLECLIINPCAYLKK-MPEQLWCIKSLNNFNC  792 (821)
Q Consensus       720 ~~~~~~~~~-~~~~~~~~~~L~~L~L~~~~~l~~~-----~~~~~~l~~L~~L~i~~c~~l~~-lp~~l~~l~~L~~L~l  792 (821)
                      .++...... +.....+++.|+.|.|++|..+..-     .....++..|+.+++++||.+.. .-..+..+++|+.+++
T Consensus       354 e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l  433 (483)
T KOG4341|consen  354 EECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIEL  433 (483)
T ss_pred             cccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHHHHHhhCcccceeee
Confidence            766543322 3344567899999999988765533     22335688899999999997653 3345778899999999


Q ss_pred             eCCcHHHHHHHhhc
Q 045113          793 WWPQPELRQKLREF  806 (821)
Q Consensus       793 ~~c~~~~~~~~~~~  806 (821)
                      .+|..-.++-+++.
T Consensus       434 ~~~q~vtk~~i~~~  447 (483)
T KOG4341|consen  434 IDCQDVTKEAISRF  447 (483)
T ss_pred             echhhhhhhhhHHH
Confidence            99997777777764

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.85  E-value=3.6e-07  Score=101.85  Aligned_cols=276  Identities=14%  Similarity=0.093  Sum_probs=152.5

Q ss_pred             CCCCeeechhhHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHH
Q 045113          165 KNRDTVGLDDRMEELLDLLIEG--PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIII  242 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~--~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  242 (821)
                      .+..++||++++++|...|...  ......+.|+|.+|+|||++++.++++.......-..+++.+....+...++..|+
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~  107 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIA  107 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHH
Confidence            4567999999999999998543  23345678999999999999999998432222123456676666677888999999


Q ss_pred             HHhCCc-h--------h-HHHHHHHhC--CCcEEEEEecCCCH------HHHHHHHHhCCCCCCCcE--EEEEecchhhh
Q 045113          243 KFLMPS-S--------R-LIILHEYLM--TKRYLIVIDDVWSI------EVWDIIREILPDNQNGSR--VLITLAKIDTV  302 (821)
Q Consensus       243 ~~l~~~-~--------~-~~~l~~~l~--~kr~LlVlDdv~~~------~~~~~l~~~l~~~~~gs~--iiiTtr~~~v~  302 (821)
                      .++... .        + ...+.+.+.  +++.+||||+++..      +.+..+...+.. ..+++  ||.++....+.
T Consensus       108 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~~~~  186 (394)
T PRK00411        108 RQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDLTFL  186 (394)
T ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCcchh
Confidence            988652 1        1 355555554  45689999999753      234444333322 22334  56665554433


Q ss_pred             ccc-------------ccccCCc---------------CCCCc-cchHHHHHHHc----CCchHHHHHhhc-------cc
Q 045113          303 TLF-------------QFENGQN---------------IRLDL-VPTGGPLRVTY----QGWPFHILYHGS-------IS  342 (821)
Q Consensus       303 ~lf-------------~~~~~~~---------------~~~~~-~~~~~~i~~~c----~glPLai~~~g~-------~~  342 (821)
                      +.+             .|..-..               ....+ .+..+.|++.+    |..+.|+.++-.       ..
T Consensus       187 ~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~  266 (394)
T PRK00411        187 YILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREG  266 (394)
T ss_pred             hhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcC
Confidence            110             0111000               00011 12223333333    446666665531       00


Q ss_pred             ccccchhccccc-----hhHHHHhhhcCChhhHHHHhhcc-cCCC-CceechhhHHHH--HHHcCCCC-CChHHHHHHHH
Q 045113          343 LEENKREAIAKP-----IFLQSVAYCMLPFPLKLCCLYLP-VFPA-HLEISTRQLYQL--WIAEGFIP-DNSEATAEKYL  412 (821)
Q Consensus       343 ~~~~~~~~i~~~-----~~~l~~sy~~L~~~~k~cfl~~s-~Fp~-~~~i~~~~Li~~--W~aeg~i~-~~~~~~~~~~~  412 (821)
                      ...-..+.+..+     .....-.+..||.+.|.-+..++ .... ...+...++...  .+++.+-. +-....-..|+
T Consensus       267 ~~~I~~~~v~~a~~~~~~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~~~~~~~~~~~l  346 (394)
T PRK00411        267 SRKVTEEDVRKAYEKSEIVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYEPRTHTRFYEYI  346 (394)
T ss_pred             CCCcCHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCCcCcHHHHHHHH
Confidence            110011112100     13344567889998775544433 2221 134666666643  33432221 11223346699


Q ss_pred             HHHHhCCceeeeec--CCCCCEEEEEeCcch
Q 045113          413 EQLINRGFVEVKKR--RAGGTINTCSIRSRC  441 (821)
Q Consensus       413 ~~L~~r~ll~~~~~--~~~~~~~~~~mHdlv  441 (821)
                      .+|.+.+++.....  +..|+.+.++.+.--
T Consensus       347 ~~L~~~glI~~~~~~~g~~g~~~~~~~~~~~  377 (394)
T PRK00411        347 NKLDMLGIINTRYSGKGGRGRTRLISLSYDP  377 (394)
T ss_pred             HHHHhcCCeEEEEecCCCCCCeEEEEecCCH
Confidence            99999999987543  345666666665433

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

Probab=98.84  E-value=1.3e-10  Score=124.63  Aligned_cols=152  Identities=22%  Similarity=0.244  Sum_probs=128.2

Q ss_pred             HHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccC
Q 045113          511 QKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKL  590 (821)
Q Consensus       511 ~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L  590 (821)
                      +.-+..|-.|..|.|..|.+..+|..++++..|.||+|+.|++..+|..++ .| -|+.|.+++|+++.+|..++.++.|
T Consensus        91 p~~~~~f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC-~l-pLkvli~sNNkl~~lp~~ig~~~tl  168 (722)
T KOG0532|consen   91 PEEACAFVSLESLILYHNCIRTIPEAICNLEALTFLDLSSNQLSHLPDGLC-DL-PLKVLIVSNNKLTSLPEEIGLLPTL  168 (722)
T ss_pred             chHHHHHHHHHHHHHHhccceecchhhhhhhHHHHhhhccchhhcCChhhh-cC-cceeEEEecCccccCCcccccchhH
Confidence            344566677888889999888999999999999999999999999999987 55 4899999999999999999988999


Q ss_pred             ceeecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEee
Q 045113          591 RHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLA  668 (821)
Q Consensus       591 ~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~  668 (821)
                      .+||.+.|.+ ..+|..++.+.+|+.|.+..|  ...+.+ +..|+ |..|++++|   ....+|..|.+|++|+.|-|.
T Consensus       169 ~~ld~s~nei-~slpsql~~l~slr~l~vrRn~l~~lp~E-l~~Lp-Li~lDfScN---kis~iPv~fr~m~~Lq~l~Le  242 (722)
T KOG0532|consen  169 AHLDVSKNEI-QSLPSQLGYLTSLRDLNVRRNHLEDLPEE-LCSLP-LIRLDFSCN---KISYLPVDFRKMRHLQVLQLE  242 (722)
T ss_pred             HHhhhhhhhh-hhchHHhhhHHHHHHHHHhhhhhhhCCHH-HhCCc-eeeeecccC---ceeecchhhhhhhhheeeeec
Confidence            9999999988 667778889999988887775  467777 77554 888999887   677888899999999999888


Q ss_pred             cC
Q 045113          669 NE  670 (821)
Q Consensus       669 ~~  670 (821)
                      +|
T Consensus       243 nN  244 (722)
T KOG0532|consen  243 NN  244 (722)
T ss_pred             cC
Confidence            75

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

Probab=98.82  E-value=3.5e-09  Score=101.38  Aligned_cols=126  Identities=19%  Similarity=0.188  Sum_probs=44.9

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      ++.++|.|.+.++....     ....-..+..|++|+|++|.++.+. .+..+++|+.|++++|.|..+++.+...+++|
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   90 (175)
T PF14580_consen   17 NPVKLRELNLRGNQIST-----IENLGATLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSNNRISSISEGLDKNLPNL   90 (175)
T ss_dssp             ------------------------S--TT-TT--EEE-TTS--S--T-T----TT--EEE--SS---S-CHHHHHH-TT-
T ss_pred             ccccccccccccccccc-----ccchhhhhcCCCEEECCCCCCcccc-CccChhhhhhcccCCCCCCccccchHHhCCcC
Confidence            45567777777776652     2222235677888888888887765 36778888888888888887766553257888


Q ss_pred             eEEecCCcccccch--hhhccCccCceeecCCcccCCCCCC----CcCCCCCcceeccc
Q 045113          568 YTLDMPFSYIDHTA--DEFWKMKKLRHLNFGSITLPAHPGN----YCGSLENLNFISAL  620 (821)
Q Consensus       568 ~~L~L~~~~l~~lp--~~i~~l~~L~~L~L~~~~~~~~~p~----~i~~l~~L~~L~~~  620 (821)
                      ++|++++|.+..+.  ..+..+++|++|++.+|++... +.    .+..+++|+.|+..
T Consensus        91 ~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~-~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   91 QELYLSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEK-KNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             -EEE-TTS---SCCCCGGGGG-TT--EEE-TT-GGGGS-TTHHHHHHHH-TT-SEETTE
T ss_pred             CEEECcCCcCCChHHhHHHHcCCCcceeeccCCcccch-hhHHHHHHHHcChhheeCCE
Confidence            88888888665552  3566788888888888877432 21    23445555555543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.79  E-value=1.7e-07  Score=116.41  Aligned_cols=255  Identities=15%  Similarity=0.158  Sum_probs=152.3

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC-CCHHHHHHHHHHHh
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT-CYADQILDIIIKFL  245 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l  245 (821)
                      ..+|-|+.    +.+.|... ...+++.|.|++|.||||++......      ++.++|+++... -+...+...++..+
T Consensus        14 ~~~~~R~r----l~~~l~~~-~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l   82 (903)
T PRK04841         14 HNTVVRER----LLAKLSGA-NNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAAL   82 (903)
T ss_pred             cccCcchH----HHHHHhcc-cCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHH
Confidence            34555554    44444432 35789999999999999999998752      236999998754 45555555555555


Q ss_pred             CCc-------h----------h----HHHHHHHhC--CCcEEEEEecCCCH---HHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          246 MPS-------S----------R----LIILHEYLM--TKRYLIVIDDVWSI---EVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       246 ~~~-------~----------~----~~~l~~~l~--~kr~LlVlDdv~~~---~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      ...       .          +    ...+-..+.  +.+++||+||+...   ...+.+...++....+.++|||||..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~  162 (903)
T PRK04841         83 QQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNL  162 (903)
T ss_pred             HHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCC
Confidence            310       0          0    112222332  68999999999532   22334444444445567898999984


Q ss_pred             hhh---------cccc-------cccCCc--------CCCCccchHHHHHHHcCCchHHHHHhhc----cccccc-----
Q 045113          300 DTV---------TLFQ-------FENGQN--------IRLDLVPTGGPLRVTYQGWPFHILYHGS----ISLEEN-----  346 (821)
Q Consensus       300 ~v~---------~lf~-------~~~~~~--------~~~~~~~~~~~i~~~c~glPLai~~~g~----~~~~~~-----  346 (821)
                      .-.         .+..       |...+.        ..+--.+...+|.+.|+|.|+++..++.    ..+...     
T Consensus       163 ~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~~~~~~~~  242 (903)
T PRK04841        163 PPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPIEAAESSRLCDDVEGWATALQLIALSARQNNSSLHDSARR  242 (903)
T ss_pred             CCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCCCHHHHHHHHHHhCChHHHHHHHHHHHhhCCCchhhhhHh
Confidence            211         0000       111110        0111234567899999999999988871    111110     


Q ss_pred             ----chhccccchhHH-HHhhhcCChhhHHHHhhcccCCCCceechhhHHHHHHHcCCCCCChHHHHHHHHHHHHhCCce
Q 045113          347 ----KREAIAKPIFLQ-SVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFV  421 (821)
Q Consensus       347 ----~~~~i~~~~~~l-~~sy~~L~~~~k~cfl~~s~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~L~~r~ll  421 (821)
                          ....+.   ..+ .-.++.||++.+..+...|+++   .++.+ +..     .+..   .+.+...+++|..++++
T Consensus       243 ~~~~~~~~~~---~~l~~~v~~~l~~~~~~~l~~~a~~~---~~~~~-l~~-----~l~~---~~~~~~~L~~l~~~~l~  307 (903)
T PRK04841        243 LAGINASHLS---DYLVEEVLDNVDLETRHFLLRCSVLR---SMNDA-LIV-----RVTG---EENGQMRLEELERQGLF  307 (903)
T ss_pred             hcCCCchhHH---HHHHHHHHhcCCHHHHHHHHHhcccc---cCCHH-HHH-----HHcC---CCcHHHHHHHHHHCCCe
Confidence                012234   333 3348899999999999999987   33322 222     1111   22357889999999987


Q ss_pred             eeeecCCCCCEEEEEeCcchHHHHHHhcc
Q 045113          422 EVKKRRAGGTINTCSIRSRCWPSLLVVTL  450 (821)
Q Consensus       422 ~~~~~~~~~~~~~~~mHdlv~dla~~~~~  450 (821)
                      .....+ .+  ..|+.|++++++......
T Consensus       308 ~~~~~~-~~--~~yr~H~L~r~~l~~~l~  333 (903)
T PRK04841        308 IQRMDD-SG--EWFRYHPLFASFLRHRCQ  333 (903)
T ss_pred             eEeecC-CC--CEEehhHHHHHHHHHHHH
Confidence            542211 11  357889999999987653

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

Probab=98.78  E-value=5e-09  Score=100.32  Aligned_cols=84  Identities=20%  Similarity=0.225  Sum_probs=30.1

Q ss_pred             ccCCceeEEEeCCCCCCccccccc-CCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhc-cCccCce
Q 045113          515 EMYKLLRVLDLGSLVLNQYPSEIE-NLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFW-KMKKLRH  592 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l~~lp~~i~-~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~-~l~~L~~  592 (821)
                      .+...++.|+|.++.|+.+. .++ .+.+|+.|++++|.|..++ .+. .+++|++|++++|.+..++..+. .+++|++
T Consensus        16 ~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~~   92 (175)
T PF14580_consen   16 NNPVKLRELNLRGNQISTIE-NLGATLDKLEVLDLSNNQITKLE-GLP-GLPRLKTLDLSNNRISSISEGLDKNLPNLQE   92 (175)
T ss_dssp             ---------------------S--TT-TT--EEE-TTS--S--T-T-----TT--EEE--SS---S-CHHHHHH-TT--E
T ss_pred             cccccccccccccccccccc-chhhhhcCCCEEECCCCCCcccc-Ccc-ChhhhhhcccCCCCCCccccchHHhCCcCCE
Confidence            44557899999999998764 465 5889999999999999886 566 89999999999999999976664 6999999


Q ss_pred             eecCCcccC
Q 045113          593 LNFGSITLP  601 (821)
Q Consensus       593 L~L~~~~~~  601 (821)
                      |++++|.+.
T Consensus        93 L~L~~N~I~  101 (175)
T PF14580_consen   93 LYLSNNKIS  101 (175)
T ss_dssp             EE-TTS---
T ss_pred             EECcCCcCC
Confidence            999999873

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

Probab=98.78  E-value=1.5e-09  Score=107.66  Aligned_cols=127  Identities=24%  Similarity=0.341  Sum_probs=61.9

Q ss_pred             ccccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEe
Q 045113          563 YLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQ  642 (821)
Q Consensus       563 ~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~  642 (821)
                      .+..|++|||++|.|+.+-.++.-+|+++.|++++|.+..                       +.. +..+++|..|+++
T Consensus       282 TWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~-----------------------v~n-La~L~~L~~LDLS  337 (490)
T KOG1259|consen  282 TWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRT-----------------------VQN-LAELPQLQLLDLS  337 (490)
T ss_pred             hHhhhhhccccccchhhhhhhhhhccceeEEeccccceee-----------------------ehh-hhhcccceEeecc
Confidence            3445666666666666666666666666666666665521                       222 5666777777777


Q ss_pred             cccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCC-CCcccccCCCCCCEEEEec
Q 045113          643 GDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMD-DPMPALEKLPLLQVLKLKQ  721 (821)
Q Consensus       643 ~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~-~~~~~l~~l~~L~~L~L~~  721 (821)
                      +|   ....+..+-.++.+++.|.++.|    .++.  ++|+..+-+|..|++++|++.+ +....+++||+|+.|.|.+
T Consensus       338 ~N---~Ls~~~Gwh~KLGNIKtL~La~N----~iE~--LSGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~  408 (490)
T KOG1259|consen  338 GN---LLAECVGWHLKLGNIKTLKLAQN----KIET--LSGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTG  408 (490)
T ss_pred             cc---hhHhhhhhHhhhcCEeeeehhhh----hHhh--hhhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcC
Confidence            76   33333333334444444444432    1221  1233344444445555544322 1222334444444444443


Q ss_pred             c
Q 045113          722 N  722 (821)
Q Consensus       722 ~  722 (821)
                      |
T Consensus       409 N  409 (490)
T KOG1259|consen  409 N  409 (490)
T ss_pred             C
Confidence            3

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

Probab=98.76  E-value=5.1e-10  Score=120.18  Aligned_cols=191  Identities=21%  Similarity=0.280  Sum_probs=158.4

Q ss_pred             CceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCC
Q 045113          518 KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGS  597 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~  597 (821)
                      ..-...||+.|.+..+|..++.+..|..|.|+.|.+..+|..++ +|..|.+|||+.|.+..+|..++.|+ |+.|-+++
T Consensus        75 tdt~~aDlsrNR~~elp~~~~~f~~Le~liLy~n~~r~ip~~i~-~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~sN  152 (722)
T KOG0532|consen   75 TDTVFADLSRNRFSELPEEACAFVSLESLILYHNCIRTIPEAIC-NLEALTFLDLSSNQLSHLPDGLCDLP-LKVLIVSN  152 (722)
T ss_pred             cchhhhhccccccccCchHHHHHHHHHHHHHHhccceecchhhh-hhhHHHHhhhccchhhcCChhhhcCc-ceeEEEec
Confidence            34456799999999999999999999999999999999999999 99999999999999999999999998 99999999


Q ss_pred             cccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCC
Q 045113          598 ITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPR  675 (821)
Q Consensus       598 ~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~  675 (821)
                      |++ +.+|..++.+..|..|+.+.|  ...+.+ ++.+.+|+.|.+..+   ....+|..+..+ .|..|++++|    +
T Consensus       153 Nkl-~~lp~~ig~~~tl~~ld~s~nei~slpsq-l~~l~slr~l~vrRn---~l~~lp~El~~L-pLi~lDfScN----k  222 (722)
T KOG0532|consen  153 NKL-TSLPEEIGLLPTLAHLDVSKNEIQSLPSQ-LGYLTSLRDLNVRRN---HLEDLPEELCSL-PLIRLDFSCN----K  222 (722)
T ss_pred             Ccc-ccCCcccccchhHHHhhhhhhhhhhchHH-hhhHHHHHHHHHhhh---hhhhCCHHHhCC-ceeeeecccC----c
Confidence            998 889999998899999998885  578888 999999999999887   677788888844 5888888754    6


Q ss_pred             CCeeEecccCCCCCcceEEEecccCCCCCcccc---cCCCCCCEEEEecc
Q 045113          676 LSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAL---EKLPLLQVLKLKQN  722 (821)
Q Consensus       676 L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l---~~l~~L~~L~L~~~  722 (821)
                      +..+-+. +..++.|+.|.|.+|.+.. +|..+   |...-.++|+..-|
T Consensus       223 is~iPv~-fr~m~~Lq~l~LenNPLqS-PPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  223 ISYLPVD-FRKMRHLQVLQLENNPLQS-PPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             eeecchh-hhhhhhheeeeeccCCCCC-ChHHHHhccceeeeeeecchhc
Confidence            6666554 6788999999999998753 33333   23334566666533

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

Probab=98.73  E-value=8.6e-09  Score=114.88  Aligned_cols=128  Identities=22%  Similarity=0.236  Sum_probs=102.2

Q ss_pred             hccCCceeEEEeCCCCCCcccccccCCC-CceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCce
Q 045113          514 CEMYKLLRVLDLGSLVLNQYPSEIENLS-LLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRH  592 (821)
Q Consensus       514 ~~~~~~Lr~L~L~~~~l~~lp~~i~~l~-~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~  592 (821)
                      ...++.+..|++.++.++.+|..++.+. +|++|++++|.+..+|..+. .+++|+.|++++|.+..+|...+.+++|+.
T Consensus       112 ~~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~-~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~  190 (394)
T COG4886         112 LLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLR-NLPNLKNLDLSFNDLSDLPKLLSNLSNLNN  190 (394)
T ss_pred             hhcccceeEEecCCcccccCccccccchhhcccccccccchhhhhhhhh-ccccccccccCCchhhhhhhhhhhhhhhhh
Confidence            4455789999999999999998888885 99999999999999988888 999999999999999999988878999999


Q ss_pred             eecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecc
Q 045113          593 LNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       593 L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      |++++|.+ ..+|..+..+..|++|.+..|  ...+.. +.++.++..|.+.++
T Consensus       191 L~ls~N~i-~~l~~~~~~~~~L~~l~~~~N~~~~~~~~-~~~~~~l~~l~l~~n  242 (394)
T COG4886         191 LDLSGNKI-SDLPPEIELLSALEELDLSNNSIIELLSS-LSNLKNLSGLELSNN  242 (394)
T ss_pred             eeccCCcc-ccCchhhhhhhhhhhhhhcCCcceecchh-hhhcccccccccCCc
Confidence            99999988 667776666666777777665  233344 566666666654444

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

Probab=98.72  E-value=1.3e-09  Score=113.86  Aligned_cols=89  Identities=19%  Similarity=0.207  Sum_probs=45.4

Q ss_pred             CCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecc------cCCCCCcceEEEecccCCC-CCc
Q 045113          633 LPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAE------YVFPHSLTHLSFSNTDLMD-DPM  705 (821)
Q Consensus       633 l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~------~~~~~~L~~L~L~~~~l~~-~~~  705 (821)
                      +..|+.|+++++.. ........++.++.|+.|+++.+    .+.++....      ...+++|++|+++.|++.+ ...
T Consensus       245 ~~~L~~LdLs~N~l-i~~~~~~~~~~l~~L~~Lnls~t----gi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl  319 (505)
T KOG3207|consen  245 LQTLQELDLSNNNL-IDFDQGYKVGTLPGLNQLNLSST----GIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWRSL  319 (505)
T ss_pred             hhHHhhccccCCcc-cccccccccccccchhhhhcccc----CcchhcCCCccchhhhcccccceeeecccCcccccccc
Confidence            34566667766631 11111234556666776666643    222222211      2356777777777776533 223


Q ss_pred             ccccCCCCCCEEEEeccccCC
Q 045113          706 PALEKLPLLQVLKLKQNSYSG  726 (821)
Q Consensus       706 ~~l~~l~~L~~L~L~~~~~~~  726 (821)
                      ..+..+++|+.|.+..|.++.
T Consensus       320 ~~l~~l~nlk~l~~~~n~ln~  340 (505)
T KOG3207|consen  320 NHLRTLENLKHLRITLNYLNK  340 (505)
T ss_pred             chhhccchhhhhhcccccccc
Confidence            344456666666665554443

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

Probab=98.68  E-value=1.9e-08  Score=112.19  Aligned_cols=193  Identities=25%  Similarity=0.264  Sum_probs=140.9

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccc-cceEEecCCcccccchhhhccCccCceeecCCcc
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLL-NLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSIT  599 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~-~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~  599 (821)
                      ..|++..+.+...+..+..++.+..|++.++.+..+|.... .+. +|+.|+++++.+..+|..++.+++|+.|++++|.
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 PSLDLNLNRLRSNISELLELTNLTSLDLDNNNITDIPPLIG-LLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFND  174 (394)
T ss_pred             ceeeccccccccCchhhhcccceeEEecCCcccccCccccc-cchhhcccccccccchhhhhhhhhccccccccccCCch
Confidence            36788888876555667777899999999999999998887 774 9999999999999999889999999999999999


Q ss_pred             cCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCC
Q 045113          600 LPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLS  677 (821)
Q Consensus       600 ~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~  677 (821)
                      + ..+|...+.+++|+.|++..+  ...+.. ...+..|+.|.++++.   ....+..+.++.++..+.+..+    .+.
T Consensus       175 l-~~l~~~~~~~~~L~~L~ls~N~i~~l~~~-~~~~~~L~~l~~~~N~---~~~~~~~~~~~~~l~~l~l~~n----~~~  245 (394)
T COG4886         175 L-SDLPKLLSNLSNLNNLDLSGNKISDLPPE-IELLSALEELDLSNNS---IIELLSSLSNLKNLSGLELSNN----KLE  245 (394)
T ss_pred             h-hhhhhhhhhhhhhhheeccCCccccCchh-hhhhhhhhhhhhcCCc---ceecchhhhhcccccccccCCc----eee
Confidence            8 667776668888888888884  234443 4455668888888762   3334445556666666655422    222


Q ss_pred             eeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCC
Q 045113          678 KIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG  726 (821)
Q Consensus       678 ~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~  726 (821)
                      .+ +...+.+++|+.|++++|.++...  .++.+.+|+.|+++++.+..
T Consensus       246 ~~-~~~~~~l~~l~~L~~s~n~i~~i~--~~~~~~~l~~L~~s~n~~~~  291 (394)
T COG4886         246 DL-PESIGNLSNLETLDLSNNQISSIS--SLGSLTNLRELDLSGNSLSN  291 (394)
T ss_pred             ec-cchhccccccceeccccccccccc--cccccCccCEEeccCccccc
Confidence            21 333566777888888888765432  27777888888887766554

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

Probab=98.67  E-value=7.6e-09  Score=102.71  Aligned_cols=134  Identities=23%  Similarity=0.207  Sum_probs=98.4

Q ss_pred             cCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCccccc
Q 045113          630 LGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALE  709 (821)
Q Consensus       630 l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~  709 (821)
                      ......|+.|++++|   ....+..+..-.+.++.|+++.|    .+.  .+.+++.+++|+.|+|++|.++ ..-.|-.
T Consensus       280 ~dTWq~LtelDLS~N---~I~~iDESvKL~Pkir~L~lS~N----~i~--~v~nLa~L~~L~~LDLS~N~Ls-~~~Gwh~  349 (490)
T KOG1259|consen  280 ADTWQELTELDLSGN---LITQIDESVKLAPKLRRLILSQN----RIR--TVQNLAELPQLQLLDLSGNLLA-ECVGWHL  349 (490)
T ss_pred             cchHhhhhhcccccc---chhhhhhhhhhccceeEEecccc----cee--eehhhhhcccceEeecccchhH-hhhhhHh
Confidence            455567888888887   55666677777788899998865    222  2344677899999999999864 3334445


Q ss_pred             CCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCcccee--eccccccccceeEEeecCCCCCCc
Q 045113          710 KLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWT--MGTGAMPKLECLIINPCAYLKKMP  778 (821)
Q Consensus       710 ~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~--~~~~~l~~L~~L~i~~c~~l~~lp  778 (821)
                      +|-|.+.|.|++|.+..-   .+.+.+-+|..|++.+| +++.+.  ..+|++|+|+.|.+.+||. ..+|
T Consensus       350 KLGNIKtL~La~N~iE~L---SGL~KLYSLvnLDl~~N-~Ie~ldeV~~IG~LPCLE~l~L~~NPl-~~~v  415 (490)
T KOG1259|consen  350 KLGNIKTLKLAQNKIETL---SGLRKLYSLVNLDLSSN-QIEELDEVNHIGNLPCLETLRLTGNPL-AGSV  415 (490)
T ss_pred             hhcCEeeeehhhhhHhhh---hhhHhhhhheecccccc-chhhHHHhcccccccHHHHHhhcCCCc-cccc
Confidence            788999999998876542   23456788999999997 566553  3689999999999999984 3344

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

Probab=98.64  E-value=1.2e-08  Score=103.92  Aligned_cols=232  Identities=18%  Similarity=0.126  Sum_probs=161.6

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC----ccccc-------ccCCCCceEEeecCCCCc--
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN----QYPSE-------IENLSLLRYLKLNIPSLK--  554 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~----~lp~~-------i~~l~~Lr~L~L~~~~i~--  554 (821)
                      ....+..+.++|+.......+.....+.+-+.|+..+++..-..    .+|+.       +-.+++|++|+||.|-+.  
T Consensus        28 ~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~~  107 (382)
T KOG1909|consen   28 PMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGPK  107 (382)
T ss_pred             ccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCcc
Confidence            56678888888888775455677788888899999999876422    44443       446679999999998765  


Q ss_pred             ---cccHHHHhccccceEEecCCcccccchh--------------hhccCccCceeecCCcccCC----CCCCCcCCCCC
Q 045113          555 ---SLPLSFFNYLLNLYTLDMPFSYIDHTAD--------------EFWKMKKLRHLNFGSITLPA----HPGNYCGSLEN  613 (821)
Q Consensus       555 ---~lp~~i~~~L~~L~~L~L~~~~l~~lp~--------------~i~~l~~L~~L~L~~~~~~~----~~p~~i~~l~~  613 (821)
                         .+-.-+. .++.|+.|.|.+|.+.....              .+.+-++||++..++|.+..    .+...+...+.
T Consensus       108 g~~~l~~ll~-s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~  186 (382)
T KOG1909|consen  108 GIRGLEELLS-SCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQSHPT  186 (382)
T ss_pred             chHHHHHHHH-hccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHHhccc
Confidence               3334566 78999999999997754422              23456789999999888743    12234566678


Q ss_pred             cceeccccCC------cchhhhcCCCCCCCeEEEecccc--cchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecc--
Q 045113          614 LNFISALYPC------CCTKDLLGRLPNLRNLRIQGDLS--YNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAE--  683 (821)
Q Consensus       614 L~~L~~~~~~------~~~~~~l~~l~~L~~L~l~~~~~--~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~--  683 (821)
                      |+++.+..|+      .....++..|++|+.|++.+|.-  .-...+...+..+++|+.|++++.    .|+.=--..  
T Consensus       187 leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dc----ll~~~Ga~a~~  262 (382)
T KOG1909|consen  187 LEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDC----LLENEGAIAFV  262 (382)
T ss_pred             cceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeeccccc----ccccccHHHHH
Confidence            8888887752      23334488999999999998841  123456677888889999988852    111100000  


Q ss_pred             ---cCCCCCcceEEEecccCCCCCc----ccccCCCCCCEEEEecccc
Q 045113          684 ---YVFPHSLTHLSFSNTDLMDDPM----PALEKLPLLQVLKLKQNSY  724 (821)
Q Consensus       684 ---~~~~~~L~~L~L~~~~l~~~~~----~~l~~l~~L~~L~L~~~~~  724 (821)
                         -...++|..|.|.+|.++.+..    ..+...|.|+.|+|++|.+
T Consensus       263 ~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  263 DALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             HHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence               2346889999999998764322    2345689999999999988

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

Probab=98.62  E-value=2e-09  Score=106.88  Aligned_cols=63  Identities=21%  Similarity=0.142  Sum_probs=33.1

Q ss_pred             CCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCcc-ceeeccccccccceeEEeecC
Q 045113          710 KLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLE-EWTMGTGAMPKLECLIINPCA  772 (821)
Q Consensus       710 ~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~-~~~~~~~~l~~L~~L~i~~c~  772 (821)
                      ++|+|..|+|++|..........+..|+.|++|.++.|-.+. +-...+..+|+|.+|++.+|-
T Consensus       311 rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY~i~p~~~~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  311 RCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCYDIIPETLLELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             hCCceeeeccccccccCchHHHHHHhcchheeeehhhhcCCChHHeeeeccCcceEEEEecccc
Confidence            566666666665432222222224456666666666664433 222345566666666666664

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.58  E-value=5.1e-06  Score=91.57  Aligned_cols=106  Identities=21%  Similarity=0.144  Sum_probs=77.2

Q ss_pred             CCCeeechhhHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHHhcCccccccc------ceeEEEEcCCCCCHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEG--PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF------DCHAWVQEPYTCYADQI  237 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~--~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F------~~~~wv~~s~~~~~~~~  237 (821)
                      +..++||++++++|..+|...  ......+.|+|++|+|||++++.+++.  .....      -..+|+.+....+...+
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~--l~~~~~~~~~~~~~v~in~~~~~~~~~~   91 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKE--LEEAAEDRDVRVVTVYVNCQILDTLYQV   91 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHH--HHHHhhccCCceEEEEEECCCCCCHHHH
Confidence            447999999999999998752  233567899999999999999999973  22111      13567777777777889


Q ss_pred             HHHHHHHhC---Cc---h--h----HHHHHHHhC--CCcEEEEEecCCCH
Q 045113          238 LDIIIKFLM---PS---S--R----LIILHEYLM--TKRYLIVIDDVWSI  273 (821)
Q Consensus       238 ~~~i~~~l~---~~---~--~----~~~l~~~l~--~kr~LlVlDdv~~~  273 (821)
                      +..|+.++.   ..   .  .    ...+.+.+.  +++++||||+++.-
T Consensus        92 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L  141 (365)
T TIGR02928        92 LVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYL  141 (365)
T ss_pred             HHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhh
Confidence            999999883   21   0  1    344555553  56889999999754

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.

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

Probab=98.50  E-value=8e-09  Score=107.46  Aligned_cols=260  Identities=20%  Similarity=0.154  Sum_probs=166.5

Q ss_pred             CceeEEEeCCCCC-C--cccccccCCCCceEEeecCCC-Cc-cccHHHHhccccceEEecCCc-ccccc-hh-hhccCcc
Q 045113          518 KLLRVLDLGSLVL-N--QYPSEIENLSLLRYLKLNIPS-LK-SLPLSFFNYLLNLYTLDMPFS-YIDHT-AD-EFWKMKK  589 (821)
Q Consensus       518 ~~Lr~L~L~~~~l-~--~lp~~i~~l~~Lr~L~L~~~~-i~-~lp~~i~~~L~~L~~L~L~~~-~l~~l-p~-~i~~l~~  589 (821)
                      ..|+.|.+.|+.- .  .+-....+++++..|++.+|. ++ ..-.++...+++|+.|++..| .++.. -. -...+++
T Consensus       138 g~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~k  217 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRK  217 (483)
T ss_pred             cccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhh
Confidence            3678888888862 2  344445677888888888875 33 233455557888888888887 55543 12 2345888


Q ss_pred             CceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeec
Q 045113          590 LRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLAN  669 (821)
Q Consensus       590 L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~  669 (821)
                      |++|+++.|..-..        .+++.+            ...+.+++.+...+|.......+...-..+..+-.+++. 
T Consensus       218 L~~lNlSwc~qi~~--------~gv~~~------------~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~-  276 (483)
T KOG4341|consen  218 LKYLNLSWCPQISG--------NGVQAL------------QRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQ-  276 (483)
T ss_pred             HHHhhhccCchhhc--------CcchHH------------hccchhhhhhhhcccccccHHHHHHHhccChHhhccchh-
Confidence            88888887753111        112211            455666666666677544444444333444445555543 


Q ss_pred             CCCCCCCCeeEecc-cCCCCCcceEEEecccC-CCCCccccc-CCCCCCEEEEeccc-cCCCeeeecCCCCcccceeeec
Q 045113          670 ESKMPRLSKIILAE-YVFPHSLTHLSFSNTDL-MDDPMPALE-KLPLLQVLKLKQNS-YSGRKLTCGSDGFPRLKVLHLK  745 (821)
Q Consensus       670 ~~~~~~L~~l~l~~-~~~~~~L~~L~L~~~~l-~~~~~~~l~-~l~~L~~L~L~~~~-~~~~~~~~~~~~~~~L~~L~L~  745 (821)
                        .|..++.-.+.. ...+..|+.|+.++|.. ++.+...++ +.++|+.|.+.+|. |+...+.....+.+.|+.+++.
T Consensus       277 --~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e  354 (483)
T KOG4341|consen  277 --HCNQLTDEDLWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLE  354 (483)
T ss_pred             --hhccccchHHHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhccc
Confidence              233344333222 34578889999999853 334444555 78999999999875 5555566666789999999999


Q ss_pred             cCCCccc--eeeccccccccceeEEeecCCCCCC-----ccccCCCCCCCEEEEeCCcHHHH
Q 045113          746 SMLWLEE--WTMGTGAMPKLECLIINPCAYLKKM-----PEQLWCIKSLNNFNCWWPQPELR  800 (821)
Q Consensus       746 ~~~~l~~--~~~~~~~l~~L~~L~i~~c~~l~~l-----p~~l~~l~~L~~L~l~~c~~~~~  800 (821)
                      .|.....  +.....++|.|++|.+++|...+.-     ..+..+...|+.+.+++||.-..
T Consensus       355 ~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d  416 (483)
T KOG4341|consen  355 ECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITD  416 (483)
T ss_pred             ccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchH
Confidence            9865442  2223457999999999999866543     33445677899999999994433

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

Probab=98.44  E-value=4.2e-06  Score=87.95  Aligned_cols=163  Identities=15%  Similarity=0.127  Sum_probs=94.8

Q ss_pred             hHHHHHHHHhcC-CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh---
Q 045113          175 RMEELLDLLIEG-PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR---  250 (821)
Q Consensus       175 ~~~~i~~~L~~~-~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~---  250 (821)
                      ..++++..+... .....++.|+|.+|+||||+++.+++.... ..+ ..+|+ +....+..+++..|+..++...+   
T Consensus        27 ~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~~-~~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~~~  103 (269)
T TIGR03015        27 GHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLDQ-ERV-VAAKL-VNTRVDAEDLLRMVAADFGLETEGRD  103 (269)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcCC-CCe-EEeee-eCCCCCHHHHHHHHHHHcCCCCCCCC
Confidence            334455555432 223568999999999999999999985331 111 22343 33345778889999988876421   


Q ss_pred             ----HHHHHHHh-----CCCcEEEEEecCCCH--HHHHHHHHhCC---CCCCCcEEEEEecchhh--------h------
Q 045113          251 ----LIILHEYL-----MTKRYLIVIDDVWSI--EVWDIIREILP---DNQNGSRVLITLAKIDT--------V------  302 (821)
Q Consensus       251 ----~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~l~~~l~---~~~~gs~iiiTtr~~~v--------~------  302 (821)
                          ...+.+.+     .+++.+||+||++..  ..++.+.....   .......|++|....-.        .      
T Consensus       104 ~~~~~~~l~~~l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~  183 (269)
T TIGR03015       104 KAALLRELEDFLIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRI  183 (269)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhhe
Confidence                23333322     678899999999864  45666654332   12222344555432211        0      


Q ss_pred             ---------------cccc--cccCC-cCCCCc-cchHHHHHHHcCCchHHHHHhhc
Q 045113          303 ---------------TLFQ--FENGQ-NIRLDL-VPTGGPLRVTYQGWPFHILYHGS  340 (821)
Q Consensus       303 ---------------~lf~--~~~~~-~~~~~~-~~~~~~i~~~c~glPLai~~~g~  340 (821)
                                     +++.  +.... .....+ .+..+.|++.++|.|..|..++.
T Consensus       184 ~~~~~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~  240 (269)
T TIGR03015       184 IASCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCD  240 (269)
T ss_pred             eeeeeCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHH
Confidence                           1111  11000 011122 46778899999999999988874

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.

>PLN03150 hypothetical protein; Provisional

Probab=98.42  E-value=3.7e-07  Score=106.84  Aligned_cols=91  Identities=22%  Similarity=0.345  Sum_probs=68.3

Q ss_pred             ceeEEEeCCCCCC-cccccccCCCCceEEeecCCCCc-cccHHHHhccccceEEecCCcccc-cchhhhccCccCceeec
Q 045113          519 LLRVLDLGSLVLN-QYPSEIENLSLLRYLKLNIPSLK-SLPLSFFNYLLNLYTLDMPFSYID-HTADEFWKMKKLRHLNF  595 (821)
Q Consensus       519 ~Lr~L~L~~~~l~-~lp~~i~~l~~Lr~L~L~~~~i~-~lp~~i~~~L~~L~~L~L~~~~l~-~lp~~i~~l~~L~~L~L  595 (821)
                      .++.|+|+++.+. .+|..++++++|++|+|++|.+. .+|..+. .+++|+.|+|++|.+. .+|..+++|++|++|+|
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~L  497 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLG-SITSLEVLDLSYNSFNGSIPESLGQLTSLRILNL  497 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHh-CCCCCCEEECCCCCCCCCCchHHhcCCCCCEEEC
Confidence            3677777777776 67777777888888888887776 7777777 7888888888877664 56777777888888888


Q ss_pred             CCcccCCCCCCCcCC
Q 045113          596 GSITLPAHPGNYCGS  610 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~  610 (821)
                      ++|.+.+.+|..++.
T Consensus       498 s~N~l~g~iP~~l~~  512 (623)
T PLN03150        498 NGNSLSGRVPAALGG  512 (623)
T ss_pred             cCCcccccCChHHhh
Confidence            877777777766554

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

Probab=98.42  E-value=6.2e-07  Score=91.52  Aligned_cols=82  Identities=10%  Similarity=-0.074  Sum_probs=63.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC--CCHHHHHHHH-----HHHhCCchh---------HHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT--CYADQILDII-----IKFLMPSSR---------LII  253 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~--~~~~~~~~~i-----~~~l~~~~~---------~~~  253 (821)
                      -..++|+|.+|+|||||++.+|++.... +|+.++|+++++.  +++.++++.+     +.++..+..         ...
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~~   94 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLEK   94 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHHH
Confidence            5689999999999999999999965444 8999999997776  7999999999     555554322         122


Q ss_pred             HHHH-hCCCcEEEEEecCCC
Q 045113          254 LHEY-LMTKRYLIVIDDVWS  272 (821)
Q Consensus       254 l~~~-l~~kr~LlVlDdv~~  272 (821)
                      ...+ -.+++.++++|++..
T Consensus        95 a~~~~~~G~~vll~iDei~r  114 (249)
T cd01128          95 AKRLVEHGKDVVILLDSITR  114 (249)
T ss_pred             HHHHHHCCCCEEEEEECHHH
Confidence            2221 257999999999954

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.

>PF05729 NACHT: NACHT domain

Probab=98.41  E-value=8.4e-07  Score=85.62  Aligned_cols=112  Identities=17%  Similarity=0.151  Sum_probs=69.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccc----cceeEEEEcCCCCCH---HHHHHHHHHHhCCchh-HHH-HHHH-hCC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHY----FDCHAWVQEPYTCYA---DQILDIIIKFLMPSSR-LII-LHEY-LMT  260 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~----F~~~~wv~~s~~~~~---~~~~~~i~~~l~~~~~-~~~-l~~~-l~~  260 (821)
                      +++.|+|.+|+||||+++.++..-.-...    +...+|+........   ..+...|..+...... ... +... -+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   80 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKN   80 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcC
Confidence            57899999999999999998874222222    456667765554332   2444445444443322 222 2222 257


Q ss_pred             CcEEEEEecCCCHH---------HHHH-HHHhCCC-CCCCcEEEEEecchhhh
Q 045113          261 KRYLIVIDDVWSIE---------VWDI-IREILPD-NQNGSRVLITLAKIDTV  302 (821)
Q Consensus       261 kr~LlVlDdv~~~~---------~~~~-l~~~l~~-~~~gs~iiiTtr~~~v~  302 (821)
                      ++++||+|+++...         .+.. +...++. ..++.+++||+|.....
T Consensus        81 ~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~  133 (166)
T PF05729_consen   81 KRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFP  133 (166)
T ss_pred             CceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHH
Confidence            99999999997431         1222 2233332 35689999999987774

>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=98.41  E-value=2.7e-06  Score=79.96  Aligned_cols=122  Identities=16%  Similarity=0.134  Sum_probs=73.4

Q ss_pred             eechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCch
Q 045113          170 VGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS  249 (821)
Q Consensus       170 vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~  249 (821)
                      +|++..++.+...+....  ...+.|+|.+|+||||+|+.+++.  ....-..++++..+...........+...    .
T Consensus         1 ~~~~~~~~~i~~~~~~~~--~~~v~i~G~~G~GKT~l~~~i~~~--~~~~~~~v~~~~~~~~~~~~~~~~~~~~~----~   72 (151)
T cd00009           1 VGQEEAIEALREALELPP--PKNLLLYGPPGTGKTTLARAIANE--LFRPGAPFLYLNASDLLEGLVVAELFGHF----L   72 (151)
T ss_pred             CchHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHH--hhcCCCCeEEEehhhhhhhhHHHHHhhhh----h
Confidence            478888999988887643  568899999999999999999983  32222346666655544332222111100    0


Q ss_pred             hHHHHHHHhCCCcEEEEEecCCCH--HH---HHHHHHhCCCC---CCCcEEEEEecch
Q 045113          250 RLIILHEYLMTKRYLIVIDDVWSI--EV---WDIIREILPDN---QNGSRVLITLAKI  299 (821)
Q Consensus       250 ~~~~l~~~l~~kr~LlVlDdv~~~--~~---~~~l~~~l~~~---~~gs~iiiTtr~~  299 (821)
                      ...........++.+||+||++..  ..   +..+.......   ..+..||+||...
T Consensus        73 ~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~  130 (151)
T cd00009          73 VRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRP  130 (151)
T ss_pred             HhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCcc
Confidence            011112233457889999999853  22   22222333221   3578888888754

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

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

Probab=98.41  E-value=5.9e-09  Score=103.55  Aligned_cols=162  Identities=19%  Similarity=0.181  Sum_probs=114.1

Q ss_pred             cCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecc-cCCCCCcceEEEecccCCCCCcccc
Q 045113          630 LGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAE-YVFPHSLTHLSFSNTDLMDDPMPAL  708 (821)
Q Consensus       630 l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~-~~~~~~L~~L~L~~~~l~~~~~~~l  708 (821)
                      +..|.+|+.|.+.++  ...+.+...+.+-.+|+.|+|+   .++.++...+.- +.+|+.|..|+|+.|.+..+....+
T Consensus       206 Ls~C~kLk~lSlEg~--~LdD~I~~~iAkN~~L~~lnls---m~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~  280 (419)
T KOG2120|consen  206 LSQCSKLKNLSLEGL--RLDDPIVNTIAKNSNLVRLNLS---MCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTVA  280 (419)
T ss_pred             HHHHHhhhhcccccc--ccCcHHHHHHhccccceeeccc---cccccchhHHHHHHHhhhhHhhcCchHhhccchhhhHH
Confidence            777888888888887  4666777777777888888887   344444433322 5678888888888887655433322


Q ss_pred             -cC-CCCCCEEEEecccc--CCCeeeecCCCCcccceeeeccCCCccc-eeeccccccccceeEEeecCCCCCCcc---c
Q 045113          709 -EK-LPLLQVLKLKQNSY--SGRKLTCGSDGFPRLKVLHLKSMLWLEE-WTMGTGAMPKLECLIINPCAYLKKMPE---Q  780 (821)
Q Consensus       709 -~~-l~~L~~L~L~~~~~--~~~~~~~~~~~~~~L~~L~L~~~~~l~~-~~~~~~~l~~L~~L~i~~c~~l~~lp~---~  780 (821)
                       .+ -++|+.|+|+++.-  ....+......+|+|.+|+|++|..++. ....+..|+.|++|.++.|..+-  |.   .
T Consensus       281 V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY~i~--p~~~~~  358 (419)
T KOG2120|consen  281 VAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCYDII--PETLLE  358 (419)
T ss_pred             HhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchheeeehhhhcCCC--hHHeee
Confidence             22 36788888887532  2222333356799999999999987774 23356789999999999998553  33   4


Q ss_pred             cCCCCCCCEEEEeCCcHH
Q 045113          781 LWCIKSLNNFNCWWPQPE  798 (821)
Q Consensus       781 l~~l~~L~~L~l~~c~~~  798 (821)
                      +...|+|.+|++.||-..
T Consensus       359 l~s~psl~yLdv~g~vsd  376 (419)
T KOG2120|consen  359 LNSKPSLVYLDVFGCVSD  376 (419)
T ss_pred             eccCcceEEEEeccccCc
Confidence            678899999999998643

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=98.41  E-value=2.2e-08  Score=98.36  Aligned_cols=250  Identities=18%  Similarity=0.158  Sum_probs=167.3

Q ss_pred             hccCCceeEEEeCCCCCC-----cccccccCCCCceEEeecCCCCc----ccc-------HHHHhccccceEEecCCccc
Q 045113          514 CEMYKLLRVLDLGSLVLN-----QYPSEIENLSLLRYLKLNIPSLK----SLP-------LSFFNYLLNLYTLDMPFSYI  577 (821)
Q Consensus       514 ~~~~~~Lr~L~L~~~~l~-----~lp~~i~~l~~Lr~L~L~~~~i~----~lp-------~~i~~~L~~L~~L~L~~~~l  577 (821)
                      +.-+..+..+|||||.|.     .+...|.+-.+|+..+++.-...    .+|       +.+. +|++|++.+||.|.+
T Consensus        26 l~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLl-kcp~l~~v~LSDNAf  104 (388)
T COG5238          26 LEMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALL-KCPRLQKVDLSDNAF  104 (388)
T ss_pred             HHhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHh-cCCcceeeecccccc
Confidence            344788899999999886     35556667788998888863211    344       3445 789999999999944


Q ss_pred             c-c----chhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEeccc--ccchh
Q 045113          578 D-H----TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDL--SYNQS  650 (821)
Q Consensus       578 ~-~----lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~--~~~~~  650 (821)
                      . +    +-+.|.+-+.|.||.+++|.+...-..-|++  .|++|..      ... ..+-|.|+...+..|.  +....
T Consensus       105 g~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigk--al~~la~------nKK-aa~kp~Le~vicgrNRlengs~~  175 (388)
T COG5238         105 GSEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGK--ALFHLAY------NKK-AADKPKLEVVICGRNRLENGSKE  175 (388)
T ss_pred             CcccchHHHHHHhcCCCceeEEeecCCCCccchhHHHH--HHHHHHH------Hhh-hccCCCceEEEeccchhccCcHH
Confidence            3 2    2345678889999999999773211111221  2333321      112 4566788888877764  22333


Q ss_pred             HHHHHccCCCCcCEEEeecCC-CCCCCCeeEecccCCCCCcceEEEecccCCCCCc----ccccCCCCCCEEEEeccccC
Q 045113          651 LLSKSLCRLSCLESLKLANES-KMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPM----PALEKLPLLQVLKLKQNSYS  725 (821)
Q Consensus       651 ~l~~~l~~~~~L~~L~l~~~~-~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~----~~l~~l~~L~~L~L~~~~~~  725 (821)
                      .....+..-.+|..+.+..|. .+..++.|...|+..+.+|+.|+|..|.++-...    ..+..++.|+.|.+..|-++
T Consensus       176 ~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDClls  255 (388)
T COG5238         176 LSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDCLLS  255 (388)
T ss_pred             HHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhccccchhhc
Confidence            344455555688999998763 5666777777788899999999999998765333    23456788999999987765


Q ss_pred             CCeee-----ecCCCCcccceeeeccCCCcccee-------eccccccccceeEEeecCC
Q 045113          726 GRKLT-----CGSDGFPRLKVLHLKSMLWLEEWT-------MGTGAMPKLECLIINPCAY  773 (821)
Q Consensus       726 ~~~~~-----~~~~~~~~L~~L~L~~~~~l~~~~-------~~~~~l~~L~~L~i~~c~~  773 (821)
                      .....     +.-..+|+|..|.+.++..-..+.       +..+++|-|..|.+.+|..
T Consensus       256 ~~G~~~v~~~f~e~~~p~l~~L~~~Yne~~~~~i~~~~l~~~e~~~~p~L~~le~ngNr~  315 (388)
T COG5238         256 NEGVKSVLRRFNEKFVPNLMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNGNRI  315 (388)
T ss_pred             cccHHHHHHHhhhhcCCCccccccchhhhcCceeeeechhhhhhcccHHHHHHHHccCcc
Confidence            53321     223357999999998875433221       2346899999999998864

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

Probab=98.33  E-value=1.6e-06  Score=88.98  Aligned_cols=60  Identities=20%  Similarity=0.214  Sum_probs=42.6

Q ss_pred             eeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC
Q 045113          169 TVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC  232 (821)
Q Consensus       169 ~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~  232 (821)
                      |+||+.++++|.+++..+.  .+.+.|+|..|+|||+|++.+.+  ..+..-..++|+...+..
T Consensus         1 F~gR~~el~~l~~~l~~~~--~~~~~l~G~rg~GKTsLl~~~~~--~~~~~~~~~~y~~~~~~~   60 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGP--SQHILLYGPRGSGKTSLLKEFIN--ELKEKGYKVVYIDFLEES   60 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHH--HCT--EECCCHHCCTTBS
T ss_pred             CCCHHHHHHHHHHHHHhhc--CcEEEEEcCCcCCHHHHHHHHHH--HhhhcCCcEEEEecccch
Confidence            6899999999999998764  67899999999999999999998  443222245555544443

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

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.33  E-value=1.1e-06  Score=94.19  Aligned_cols=228  Identities=15%  Similarity=0.100  Sum_probs=118.6

Q ss_pred             CCeeechhhHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEG---PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIK  243 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~---~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  243 (821)
                      .+|+|++..++++..++...   ......+.++|++|+|||+||+.+.+  +....|.   .+..+.......+. ..+.
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~--~~~~~~~---~~~~~~~~~~~~l~-~~l~   77 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIAN--EMGVNLK---ITSGPALEKPGDLA-AILT   77 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHH--HhCCCEE---EeccchhcCchhHH-HHHH
Confidence            36899999999999888642   23356688999999999999999998  3332221   12211111111111 1112


Q ss_pred             HhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCC-------------------CCCCCcEEEEEecchhhh
Q 045113          244 FLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILP-------------------DNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       244 ~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~-------------------~~~~gs~iiiTtr~~~v~  302 (821)
                      .+              +...+|++|++...  ...+.+...+.                   ...+.+-|..||+...+.
T Consensus        78 ~~--------------~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~  143 (305)
T TIGR00635        78 NL--------------EEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLT  143 (305)
T ss_pred             hc--------------ccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccC
Confidence            21              12345566665421  11122211110                   011244555666654333


Q ss_pred             c-c---c----ccccCCc-------------CCCCc-cchHHHHHHHcCCchHHHHHhhcccccc---------c--chh
Q 045113          303 T-L---F----QFENGQN-------------IRLDL-VPTGGPLRVTYQGWPFHILYHGSISLEE---------N--KRE  349 (821)
Q Consensus       303 ~-l---f----~~~~~~~-------------~~~~~-~~~~~~i~~~c~glPLai~~~g~~~~~~---------~--~~~  349 (821)
                      . +   |    .|..-..             ....+ .+....|++.|+|.|-.+.-+....|..         .  ...
T Consensus       144 ~~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~  223 (305)
T TIGR00635       144 SPLRDRFGIILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIAL  223 (305)
T ss_pred             HHHHhhcceEEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHH
Confidence            1 0   1    0111000             01111 3456789999999996554444222211         1  112


Q ss_pred             ccccchhHHHHhhhcCChhhHHHHh-hcccCCCCceechhhHHHHHHHcCCCCCChHHHHHHHHH-HHHhCCceeeee
Q 045113          350 AIAKPIFLQSVAYCMLPFPLKLCCL-YLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLE-QLINRGFVEVKK  425 (821)
Q Consensus       350 ~i~~~~~~l~~sy~~L~~~~k~cfl-~~s~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~-~L~~r~ll~~~~  425 (821)
                      ...   ..+...|..|+++.+..+. ..+.++.+ .+..+++....   |    .....++..++ .|++++|+....
T Consensus       224 ~~l---~~l~~~~~~l~~~~~~~L~al~~~~~~~-~~~~~~ia~~l---g----~~~~~~~~~~e~~Li~~~li~~~~  290 (305)
T TIGR00635       224 KAL---EMLMIDELGLDEIDRKLLSVLIEQFQGG-PVGLKTLAAAL---G----EDADTIEDVYEPYLLQIGFLQRTP  290 (305)
T ss_pred             HHH---HHhCCCCCCCCHHHHHHHHHHHHHhCCC-cccHHHHHHHh---C----CCcchHHHhhhHHHHHcCCcccCC
Confidence            222   4466678888888776555 55666544 45544433321   1    22345666677 699999997444

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.

>PTZ00202 tuzin; Provisional

Probab=98.32  E-value=3.8e-05  Score=82.14  Aligned_cols=81  Identities=15%  Similarity=0.032  Sum_probs=61.9

Q ss_pred             CCCCCCCCCeeechhhHHHHHHHHhcCC-CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHH
Q 045113          160 ASLSFKNRDTVGLDDRMEELLDLLIEGP-PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQIL  238 (821)
Q Consensus       160 ~~~~~~~~~~vGr~~~~~~i~~~L~~~~-~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~  238 (821)
                      .+.+.+...|+||+.+...+...|...+ ...+++.|.|++|+|||||++.+.....    +  ..++.-+.  +..+++
T Consensus       255 ~~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~--~qL~vNpr--g~eElL  326 (550)
T PTZ00202        255 QSAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----M--PAVFVDVR--GTEDTL  326 (550)
T ss_pred             cCCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----c--eEEEECCC--CHHHHH
Confidence            3444567789999999999999997543 2356999999999999999999997322    1  23333333  679999


Q ss_pred             HHHHHHhCCc
Q 045113          239 DIIIKFLMPS  248 (821)
Q Consensus       239 ~~i~~~l~~~  248 (821)
                      +.++.+|+.+
T Consensus       327 r~LL~ALGV~  336 (550)
T PTZ00202        327 RSVVKALGVP  336 (550)
T ss_pred             HHHHHHcCCC
Confidence            9999999965

>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=98.30  E-value=4.4e-07  Score=71.22  Aligned_cols=58  Identities=29%  Similarity=0.390  Sum_probs=32.1

Q ss_pred             CceEEeecCCCCccccHHHHhccccceEEecCCcccccch-hhhccCccCceeecCCcc
Q 045113          542 LLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTA-DEFWKMKKLRHLNFGSIT  599 (821)
Q Consensus       542 ~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp-~~i~~l~~L~~L~L~~~~  599 (821)
                      +|++|++++|.+..+|......+++|++|++++|.+..+| ..+..+++|++|++++|.
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            4555555555555555433325566666666655555553 245556666666666554

...

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.27  E-value=2.9e-07  Score=91.77  Aligned_cols=87  Identities=23%  Similarity=0.248  Sum_probs=48.4

Q ss_pred             hhHHhhccCCceeEEEeCCCCCC---cccccccCCCCceEEeecCCCCc----cccHHHHhccccceEEecCCc--cccc
Q 045113          509 DWQKICEMYKLLRVLDLGSLVLN---QYPSEIENLSLLRYLKLNIPSLK----SLPLSFFNYLLNLYTLDMPFS--YIDH  579 (821)
Q Consensus       509 ~~~~~~~~~~~Lr~L~L~~~~l~---~lp~~i~~l~~Lr~L~L~~~~i~----~lp~~i~~~L~~L~~L~L~~~--~l~~  579 (821)
                      ....+-..+..++.|||.+|.++   .+..-+.++++|++|+|+.|.+.    .+|   . .+.+|++|-|.++  .+..
T Consensus        62 d~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp---~-p~~nl~~lVLNgT~L~w~~  137 (418)
T KOG2982|consen   62 DVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLP---L-PLKNLRVLVLNGTGLSWTQ  137 (418)
T ss_pred             hHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCc---c-cccceEEEEEcCCCCChhh
Confidence            33444456666667777776665   33334456666666766666543    333   2 4556666666666  2334


Q ss_pred             chhhhccCccCceeecCCcc
Q 045113          580 TADEFWKMKKLRHLNFGSIT  599 (821)
Q Consensus       580 lp~~i~~l~~L~~L~L~~~~  599 (821)
                      ....+..+|+++.|+++.|+
T Consensus       138 ~~s~l~~lP~vtelHmS~N~  157 (418)
T KOG2982|consen  138 STSSLDDLPKVTELHMSDNS  157 (418)
T ss_pred             hhhhhhcchhhhhhhhccch
Confidence            44445556666666555553

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.27  E-value=9e-07  Score=93.94  Aligned_cols=82  Identities=12%  Similarity=-0.032  Sum_probs=60.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC--CHHHHHHHHHHHhCCc-hh------------HHHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC--YADQILDIIIKFLMPS-SR------------LIIL  254 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~--~~~~~~~~i~~~l~~~-~~------------~~~l  254 (821)
                      -+..+|+|.+|+||||||+.||++.... +|+.++||.+++.+  .+.++++.|...+-.. .+            .-..
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie~  247 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVIEK  247 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHHH
Confidence            4678999999999999999999954433 89999999999988  7888888886322111 01            1111


Q ss_pred             HHH--hCCCcEEEEEecCCC
Q 045113          255 HEY--LMTKRYLIVIDDVWS  272 (821)
Q Consensus       255 ~~~--l~~kr~LlVlDdv~~  272 (821)
                      .++  -.+++++|++|++..
T Consensus       248 Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        248 AKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHcCCCEEEEEEChHH
Confidence            122  367999999999954

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.26  E-value=3.9e-06  Score=90.63  Aligned_cols=232  Identities=16%  Similarity=0.057  Sum_probs=121.6

Q ss_pred             CCCeeechhhHHHHHHHHhc---CCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIE---GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIII  242 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~---~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  242 (821)
                      -.+|+|++..++.+..++..   .......+.|+|++|+||||||+.+.+  +....|.   ++..+. .....-+..++
T Consensus        24 ~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~--~l~~~~~---~~~~~~-~~~~~~l~~~l   97 (328)
T PRK00080         24 LDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIAN--EMGVNIR---ITSGPA-LEKPGDLAAIL   97 (328)
T ss_pred             HHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHH--HhCCCeE---EEeccc-ccChHHHHHHH
Confidence            35699999999999888864   233466788999999999999999998  3433221   122111 11111111222


Q ss_pred             HHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCC-------------------CCCCcEEEEEecchhh
Q 045113          243 KFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPD-------------------NQNGSRVLITLAKIDT  301 (821)
Q Consensus       243 ~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~-------------------~~~gs~iiiTtr~~~v  301 (821)
                      ..             + .+.-+|++|++...  ...+.+...+.+                   ..+.+-|..||+...+
T Consensus        98 ~~-------------l-~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l  163 (328)
T PRK00080         98 TN-------------L-EEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLL  163 (328)
T ss_pred             Hh-------------c-ccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccC
Confidence            21             2 23457777777532  111222111110                   0123445666664433


Q ss_pred             h-cc---cc----cccCCc-------------CC-CCccchHHHHHHHcCCchHHHHHhhccccccc--------chhcc
Q 045113          302 V-TL---FQ----FENGQN-------------IR-LDLVPTGGPLRVTYQGWPFHILYHGSISLEEN--------KREAI  351 (821)
Q Consensus       302 ~-~l---f~----~~~~~~-------------~~-~~~~~~~~~i~~~c~glPLai~~~g~~~~~~~--------~~~~i  351 (821)
                      . .|   |.    |..-+.             .. .--.+....|++.|+|.|=.+..+....+...        ..+-+
T Consensus       164 ~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v  243 (328)
T PRK00080        164 TSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITKEIA  243 (328)
T ss_pred             CHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCCCCCHHHH
Confidence            3 11   11    111000             01 11224578899999999964444442111110        11112


Q ss_pred             ccchhHHHHhhhcCChhhHHHHh-hcccCCCCceechhhHHHHHHHcCCCCCChHHHHHHHHH-HHHhCCceeeee
Q 045113          352 AKPIFLQSVAYCMLPFPLKLCCL-YLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLE-QLINRGFVEVKK  425 (821)
Q Consensus       352 ~~~~~~l~~sy~~L~~~~k~cfl-~~s~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~-~L~~r~ll~~~~  425 (821)
                      ...+..+...|..|++..+..+. ....|+.+ .+..+.+....     -  ...+.++..++ .|++.+|++...
T Consensus       244 ~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~-~~~~~~~a~~l-----g--~~~~~~~~~~e~~Li~~~li~~~~  311 (328)
T PRK00080        244 DKALDMLGVDELGLDEMDRKYLRTIIEKFGGG-PVGLDTLAAAL-----G--EERDTIEDVYEPYLIQQGFIQRTP  311 (328)
T ss_pred             HHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCC-ceeHHHHHHHH-----C--CCcchHHHHhhHHHHHcCCcccCC
Confidence            21125566677888888777664 66677766 46665553322     1  12334555566 899999997443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.24  E-value=1.7e-05  Score=90.61  Aligned_cols=254  Identities=17%  Similarity=0.158  Sum_probs=159.9

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC-CCHHHHHHHHHHHhCCch-----
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT-CYADQILDIIIKFLMPSS-----  249 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~-----  249 (821)
                      ..++.+.|..+ .+.+.+-|.-++|.|||||+-....  +. ..=..+.|.+.+.+ -+...+...++..+....     
T Consensus        24 R~rL~~~L~~~-~~~RL~li~APAGfGKttl~aq~~~--~~-~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~   99 (894)
T COG2909          24 RPRLLDRLRRA-NDYRLILISAPAGFGKTTLLAQWRE--LA-ADGAAVAWLSLDESDNDPARFLSYLIAALQQATPTLGD   99 (894)
T ss_pred             cHHHHHHHhcC-CCceEEEEeCCCCCcHHHHHHHHHH--hc-CcccceeEeecCCccCCHHHHHHHHHHHHHHhCccccH
Confidence            34566667665 2489999999999999999998875  11 11235899998775 456777777777776321     


Q ss_pred             h----------------HHHHHHHhC--CCcEEEEEecCC---CHHHHHHHHHhCCCCCCCcEEEEEecchhhh------
Q 045113          250 R----------------LIILHEYLM--TKRYLIVIDDVW---SIEVWDIIREILPDNQNGSRVLITLAKIDTV------  302 (821)
Q Consensus       250 ~----------------~~~l~~~l~--~kr~LlVlDdv~---~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~------  302 (821)
                      +                ...+...+.  .++..+||||--   ++.--..+...+.....+-..|||||+.--.      
T Consensus       100 ~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~la~lR  179 (894)
T COG2909         100 EAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGLARLR  179 (894)
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCccccee
Confidence            1                233333333  368899999963   3322334444444555677899999987444      


Q ss_pred             ---cccc-------cccCCc--------CCCCccchHHHHHHHcCCchHHHHHhh-ccc---c-c--ccc----hhcccc
Q 045113          303 ---TLFQ-------FENGQN--------IRLDLVPTGGPLRVTYQGWPFHILYHG-SIS---L-E--ENK----REAIAK  353 (821)
Q Consensus       303 ---~lf~-------~~~~~~--------~~~~~~~~~~~i~~~c~glPLai~~~g-~~~---~-~--~~~----~~~i~~  353 (821)
                         ++++       |..++.        ..+--+.-.+.+.+...|.+-|+..++ ...   . +  +..    .+.+.+
T Consensus       180 lr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~LsG~~~~l~d  259 (894)
T COG2909         180 LRDELLEIGSEELRFDTEEAAAFLNDRGSLPLDAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRGLSGAASHLSD  259 (894)
T ss_pred             ehhhHHhcChHhhcCChHHHHHHHHHcCCCCCChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhhccchHHHHHH
Confidence               4443       333221        112223346778888888888888777 111   0 1  111    112221


Q ss_pred             chhHHHHhhhcCChhhHHHHhhcccCCCCceechhhHHHHHHHcCCCCCChHHHHHHHHHHHHhCCceeeeecCCCCCEE
Q 045113          354 PIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVKKRRAGGTIN  433 (821)
Q Consensus       354 ~~~~l~~sy~~L~~~~k~cfl~~s~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~L~~r~ll~~~~~~~~~~~~  433 (821)
                        -...--++.||+++|.-.+-||+++.=    -++|+..-        +-++.|...+++|.++++|-..-.+   ...
T Consensus       260 --YL~eeVld~Lp~~l~~FLl~~svl~~f----~~eL~~~L--------tg~~ng~amLe~L~~~gLFl~~Ldd---~~~  322 (894)
T COG2909         260 --YLVEEVLDRLPPELRDFLLQTSVLSRF----NDELCNAL--------TGEENGQAMLEELERRGLFLQRLDD---EGQ  322 (894)
T ss_pred             --HHHHHHHhcCCHHHHHHHHHHHhHHHh----hHHHHHHH--------hcCCcHHHHHHHHHhCCCceeeecC---CCc
Confidence              233445688999999998889987531    12333322        3456688899999999988643322   225


Q ss_pred             EEEeCcchHHHHHHhcc
Q 045113          434 TCSIRSRCWPSLLVVTL  450 (821)
Q Consensus       434 ~~~mHdlv~dla~~~~~  450 (821)
                      .|+.|.++.|+...-..
T Consensus       323 WfryH~LFaeFL~~r~~  339 (894)
T COG2909         323 WFRYHHLFAEFLRQRLQ  339 (894)
T ss_pred             eeehhHHHHHHHHhhhc
Confidence            79999999999876665

>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=98.21  E-value=1.1e-06  Score=69.02  Aligned_cols=60  Identities=33%  Similarity=0.414  Sum_probs=46.4

Q ss_pred             CceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCccc
Q 045113          518 KLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYI  577 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l  577 (821)
                      ++|++|++++|.++.+| ..+..+++|++|++++|.+..+|+.....+++|++|++++|.+
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            46788888888888777 4677788888888888888877764433888888888888753

...

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.19  E-value=4.5e-07  Score=90.44  Aligned_cols=84  Identities=15%  Similarity=0.237  Sum_probs=53.1

Q ss_pred             CCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceee--ccccccccceeEEeecCCCCCCcc------cc
Q 045113          710 KLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTM--GTGAMPKLECLIINPCAYLKKMPE------QL  781 (821)
Q Consensus       710 ~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~--~~~~l~~L~~L~i~~c~~l~~lp~------~l  781 (821)
                      .+|++..+.+..|.+....-..++..||.+-.|.|..+ ++.+|..  .+..||+|..|.+.++|....+-.      .+
T Consensus       197 ~Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~~-~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llI  275 (418)
T KOG2982|consen  197 IFPNVNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGAN-NIDSWASVDALNGFPQLVDLRVSENPLSDPLRGGERRFLLI  275 (418)
T ss_pred             hcccchheeeecCcccchhhcccCCCCCcchhhhhccc-ccccHHHHHHHcCCchhheeeccCCcccccccCCcceEEEE
Confidence            35677777776665554444444566777777777764 5666632  456788888888888876654321      35


Q ss_pred             CCCCCCCEEEEeC
Q 045113          782 WCIKSLNNFNCWW  794 (821)
Q Consensus       782 ~~l~~L~~L~l~~  794 (821)
                      +.+++++.|+=+.
T Consensus       276 aRL~~v~vLNGsk  288 (418)
T KOG2982|consen  276 ARLTKVQVLNGSK  288 (418)
T ss_pred             eeccceEEecCcc
Confidence            6677777776443

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

Probab=98.15  E-value=6.6e-06  Score=75.95  Aligned_cols=105  Identities=17%  Similarity=0.190  Sum_probs=73.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccc-----cceeEEEEcCCCCCHHHHHHHHHHHhCCchh--------HHHHHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHY-----FDCHAWVQEPYTCYADQILDIIIKFLMPSSR--------LIILHE  256 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~-----F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~--------~~~l~~  256 (821)
                      -+++.|+|.+|+|||++++.+.++  ....     -..++|+.+....+...+...|+.+++....        ...+.+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~   81 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQ--LNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLID   81 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHH--HHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHH--hHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHH
Confidence            468999999999999999999983  3221     3456799998888999999999999987632        456666


Q ss_pred             HhCCC-cEEEEEecCCCH---HHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          257 YLMTK-RYLIVIDDVWSI---EVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       257 ~l~~k-r~LlVlDdv~~~---~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                      .+... ..+||+|++..-   ..++.+.....  ..+.+||+..+.
T Consensus        82 ~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   82 ALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            66544 469999999543   34556655444  556777776554

>PLN03150 hypothetical protein; Provisional

Probab=98.11  E-value=6.2e-06  Score=96.63  Aligned_cols=107  Identities=15%  Similarity=0.124  Sum_probs=89.3

Q ss_pred             CceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC-cccccccCCCCceEEeecCCCCc-cccHHHHhccccce
Q 045113          491 HLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN-QYPSEIENLSLLRYLKLNIPSLK-SLPLSFFNYLLNLY  568 (821)
Q Consensus       491 ~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~-~lp~~i~~l~~Lr~L~L~~~~i~-~lp~~i~~~L~~L~  568 (821)
                      .++.|.+.++....    ..+..+..+++|+.|+|++|.+. .+|..++.+++|++|+|++|.+. .+|..++ +|++|+
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~  493 (623)
T PLN03150        419 FIDGLGLDNQGLRG----FIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLG-QLTSLR  493 (623)
T ss_pred             EEEEEECCCCCccc----cCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHh-cCCCCC
Confidence            37778777766542    44566889999999999999997 89999999999999999999988 8999999 999999


Q ss_pred             EEecCCcccc-cchhhhccC-ccCceeecCCcccCC
Q 045113          569 TLDMPFSYID-HTADEFWKM-KKLRHLNFGSITLPA  602 (821)
Q Consensus       569 ~L~L~~~~l~-~lp~~i~~l-~~L~~L~L~~~~~~~  602 (821)
                      +|+|++|.+. .+|..+..+ .++..+++.+|....
T Consensus       494 ~L~Ls~N~l~g~iP~~l~~~~~~~~~l~~~~N~~lc  529 (623)
T PLN03150        494 ILNLNGNSLSGRVPAALGGRLLHRASFNFTDNAGLC  529 (623)
T ss_pred             EEECcCCcccccCChHHhhccccCceEEecCCcccc
Confidence            9999999665 778888764 467788888876533

>PF13173 AAA_14: AAA domain

Probab=98.10  E-value=7.3e-06  Score=75.29  Aligned_cols=101  Identities=13%  Similarity=0.119  Sum_probs=67.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEec
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDD  269 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDd  269 (821)
                      -+++.|.|+.|+|||||++.++++..   .-..++++.............++         .+.+.+....++.+|+||+
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~i~iDE   69 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPDL---------LEYFLELIKPGKKYIFIDE   69 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhhh---------HHHHHHhhccCCcEEEEeh
Confidence            46899999999999999999987422   33456666655443211111000         1223333344788999999


Q ss_pred             CCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          270 VWSIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       270 v~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      +....+|......+-+..+..+|++|+......
T Consensus        70 iq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l  102 (128)
T PF13173_consen   70 IQYLPDWEDALKFLVDNGPNIKIILTGSSSSLL  102 (128)
T ss_pred             hhhhccHHHHHHHHHHhccCceEEEEccchHHH
Confidence            988878887777776655678999998866554

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

Probab=98.01  E-value=4.6e-06  Score=82.11  Aligned_cols=50  Identities=20%  Similarity=0.230  Sum_probs=33.7

Q ss_pred             CeeechhhHHHHHHHHhc-CCCCceEEEEEcCCCChHHHHHHHHhcCcccccc
Q 045113          168 DTVGLDDRMEELLDLLIE-GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHY  219 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~-~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~  219 (821)
                      +||||+++++++...|.. .....+.+.|+|.+|+|||+|+++++.  +....
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~--~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLD--RLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHH--HHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHH--HHHhc
Confidence            489999999999999942 234579999999999999999999998  44443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.01  E-value=0.00012  Score=78.63  Aligned_cols=125  Identities=14%  Similarity=0.185  Sum_probs=83.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC----cccccccceeEEEE-cCCCCCHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG----NYVKHYFDCHAWVQ-EPYTCYADQILDII  241 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~----~~~~~~F~~~~wv~-~s~~~~~~~~~~~i  241 (821)
                      .+++|-+..++.+...+..+. -..++-++|..|+||||+|+.+++.    .....|.|...|.. -++..+++++. ++
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~-~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir-~~   81 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNR-FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIR-NI   81 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHH-HH
Confidence            358898888999999987653 2457789999999999999888862    12345677766665 33444555533 23


Q ss_pred             HHHhCCchhHHHHHHHhCCCcEEEEEecC--CCHHHHHHHHHhCCCCCCCcEEEEEecchhh
Q 045113          242 IKFLMPSSRLIILHEYLMTKRYLIVIDDV--WSIEVWDIIREILPDNQNGSRVLITLAKIDT  301 (821)
Q Consensus       242 ~~~l~~~~~~~~l~~~l~~kr~LlVlDdv--~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v  301 (821)
                      .+.+...        -..+++-++|+|++  ++...++.+...+.....++.+|++|.+.+.
T Consensus        82 ~~~~~~~--------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~  135 (313)
T PRK05564         82 IEEVNKK--------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQ  135 (313)
T ss_pred             HHHHhcC--------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHh
Confidence            3322211        11234445555555  5667899999999988889999988876543

>TIGR00767 rho transcription termination factor Rho

Probab=97.99  E-value=1.8e-05  Score=84.76  Aligned_cols=82  Identities=9%  Similarity=-0.063  Sum_probs=61.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC--CCHHHHHHHH-----HHHhCCchh---------HHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT--CYADQILDII-----IKFLMPSSR---------LII  253 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~--~~~~~~~~~i-----~~~l~~~~~---------~~~  253 (821)
                      -+.++|+|.+|+|||||++.+++.... ++|+..+||.+++.  .++.++++.+     +..+..+..         ...
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~  246 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEK  246 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHH
Confidence            568999999999999999999995332 37999999999866  7899999999     333333321         111


Q ss_pred             HHHH-hCCCcEEEEEecCCC
Q 045113          254 LHEY-LMTKRYLIVIDDVWS  272 (821)
Q Consensus       254 l~~~-l~~kr~LlVlDdv~~  272 (821)
                      .... -.+++++|++|.+..
T Consensus       247 Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       247 AKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHcCCCeEEEEEChhH
Confidence            1122 258999999999954

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

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

Probab=97.96  E-value=1.2e-06  Score=97.89  Aligned_cols=242  Identities=24%  Similarity=0.247  Sum_probs=110.5

Q ss_pred             cCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeec
Q 045113          516 MYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNF  595 (821)
Q Consensus       516 ~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L  595 (821)
                      .+..+..+.+..+.+...-..++.+++|.+|++.+|.|..+...+. .+++|++|++++|.|..+.. +..++.|+.|++
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 SLTSLKELNLRQNLIAKILNHLSKLKSLEALDLYDNKIEKIENLLS-SLVNLQVLDLSFNKITKLEG-LSTLTLLKELNL  147 (414)
T ss_pred             HhHhHHhhccchhhhhhhhcccccccceeeeeccccchhhcccchh-hhhcchheeccccccccccc-hhhccchhhhee
Confidence            3344444445555554433445555566666666665555543344 55666666666665555532 444555666666


Q ss_pred             CCcccCCCCCCCcCCCCCcceeccccCCcchhhh--cCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCC
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALYPCCCTKDL--LGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKM  673 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~--l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~  673 (821)
                      ++|.+.. + .++..+++|+.+++.++.....+.  +..+.+|+.+.+.++......    .+..+..+..+++..|   
T Consensus       148 ~~N~i~~-~-~~~~~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i~~i~----~~~~~~~l~~~~l~~n---  218 (414)
T KOG0531|consen  148 SGNLISD-I-SGLESLKSLKLLDLSYNRIVDIENDELSELISLEELDLGGNSIREIE----GLDLLKKLVLLSLLDN---  218 (414)
T ss_pred             ccCcchh-c-cCCccchhhhcccCCcchhhhhhhhhhhhccchHHHhccCCchhccc----chHHHHHHHHhhcccc---
Confidence            6655522 1 223335555555555532111110  244555666666555311110    1111111111122211   


Q ss_pred             CCCCeeEecccCCCCC--cceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCcc
Q 045113          674 PRLSKIILAEYVFPHS--LTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLE  751 (821)
Q Consensus       674 ~~L~~l~l~~~~~~~~--L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~  751 (821)
                       .+..  +.++..+..  |+.++++++.+.. .+..+..++.+..|++..|.+....   ....++.+..+...+++...
T Consensus       219 -~i~~--~~~l~~~~~~~L~~l~l~~n~i~~-~~~~~~~~~~l~~l~~~~n~~~~~~---~~~~~~~~~~~~~~~~~~~~  291 (414)
T KOG0531|consen  219 -KISK--LEGLNELVMLHLRELYLSGNRISR-SPEGLENLKNLPVLDLSSNRISNLE---GLERLPKLSELWLNDNKLAL  291 (414)
T ss_pred             -ccee--ccCcccchhHHHHHHhcccCcccc-ccccccccccccccchhhccccccc---cccccchHHHhccCcchhcc
Confidence             1111  111122222  6677777776532 2245566667777777655544322   12334445555555443221


Q ss_pred             ce---ee-ccccccccceeEEeecCCCC
Q 045113          752 EW---TM-GTGAMPKLECLIINPCAYLK  775 (821)
Q Consensus       752 ~~---~~-~~~~l~~L~~L~i~~c~~l~  775 (821)
                      .+   .. .....+.++.+.+..++.-.
T Consensus       292 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (414)
T KOG0531|consen  292 SEAISQEYITSAAPTLVTLTLELNPIRK  319 (414)
T ss_pred             hhhhhccccccccccccccccccCcccc
Confidence            11   11 13456666666666665433

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.95  E-value=9.9e-07  Score=78.16  Aligned_cols=104  Identities=23%  Similarity=0.199  Sum_probs=80.8

Q ss_pred             CCceeEEEeCCCCCCccc---ccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCcee
Q 045113          517 YKLLRVLDLGSLVLNQYP---SEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHL  593 (821)
Q Consensus       517 ~~~Lr~L~L~~~~l~~lp---~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L  593 (821)
                      -+.+..|||++|++..++   ..+....+|...+|++|.+..+|+.+..+.+.+++|++++|.+..+|..+..++.|+.|
T Consensus        26 akE~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~l  105 (177)
T KOG4579|consen   26 AKELHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSL  105 (177)
T ss_pred             HHHhhhcccccchhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhc
Confidence            345677889999876444   45566778888899999999999888866678999999999999999999999999999


Q ss_pred             ecCCcccCCCCCCCcCCCCCcceecccc
Q 045113          594 NFGSITLPAHPGNYCGSLENLNFISALY  621 (821)
Q Consensus       594 ~L~~~~~~~~~p~~i~~l~~L~~L~~~~  621 (821)
                      ++++|.+ ...|..+..|.+|-.|+...
T Consensus       106 Nl~~N~l-~~~p~vi~~L~~l~~Lds~~  132 (177)
T KOG4579|consen  106 NLRFNPL-NAEPRVIAPLIKLDMLDSPE  132 (177)
T ss_pred             ccccCcc-ccchHHHHHHHhHHHhcCCC
Confidence            9999888 45566565566665555433

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

Probab=97.91  E-value=8e-06  Score=95.36  Aligned_cols=129  Identities=20%  Similarity=0.270  Sum_probs=93.3

Q ss_pred             CceeEEEEEcCCCcc---cccC--CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCc
Q 045113          469 NVKRFFALEQQSDFA---YLDD--YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLL  543 (821)
Q Consensus       469 ~~~r~lsl~~~~~~~---~~~~--~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~L  543 (821)
                      .+.+++.+.+.....   +...  -+|.||+|.+.+....   ...+...+.++++|+.||+++++++.+ ..+++|++|
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~---~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknL  197 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFD---NDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNL  197 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceec---chhHHHHhhccCccceeecCCCCccCc-HHHhccccH
Confidence            456666666543221   1111  7899999999887664   234667889999999999999999877 778999999


Q ss_pred             eEEeecCCCCcc--ccHHHHhccccceEEecCCcccccchh-------hhccCccCceeecCCcccCC
Q 045113          544 RYLKLNIPSLKS--LPLSFFNYLLNLYTLDMPFSYIDHTAD-------EFWKMKKLRHLNFGSITLPA  602 (821)
Q Consensus       544 r~L~L~~~~i~~--lp~~i~~~L~~L~~L~L~~~~l~~lp~-------~i~~l~~L~~L~L~~~~~~~  602 (821)
                      +.|.+++-.+..  --..++ +|++|+.||+|.......+.       --..||+||.||.|++.+..
T Consensus       198 q~L~mrnLe~e~~~~l~~LF-~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~  264 (699)
T KOG3665|consen  198 QVLSMRNLEFESYQDLIDLF-NLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINE  264 (699)
T ss_pred             HHHhccCCCCCchhhHHHHh-cccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchhH
Confidence            999998877763  225677 89999999999873322221       11348999999999887654

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

Probab=97.90  E-value=6.1e-06  Score=96.36  Aligned_cols=109  Identities=22%  Similarity=0.162  Sum_probs=86.8

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC--cccccccCCCCceEEeecCCCCccccHHHHhccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN--QYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLL  565 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~--~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~  565 (821)
                      .-.+|+.|.+.|....  ...++......+|.|+.|.+++-.+.  .+-.-..++++|++||+|+|+++.+ ..++ +|+
T Consensus       120 sr~nL~~LdI~G~~~~--s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS-~Lk  195 (699)
T KOG3665|consen  120 SRQNLQHLDISGSELF--SNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL-SGIS-RLK  195 (699)
T ss_pred             HHHhhhhcCccccchh--hccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc-HHHh-ccc
Confidence            4568999999886543  24466677788999999999998765  4555567889999999999999988 6888 999


Q ss_pred             cceEEecCCcccccc--hhhhccCccCceeecCCccc
Q 045113          566 NLYTLDMPFSYIDHT--ADEFWKMKKLRHLNFGSITL  600 (821)
Q Consensus       566 ~L~~L~L~~~~l~~l--p~~i~~l~~L~~L~L~~~~~  600 (821)
                      |||+|.+++-.+..-  -..+.+|++|++||+|....
T Consensus       196 nLq~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~  232 (699)
T KOG3665|consen  196 NLQVLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKN  232 (699)
T ss_pred             cHHHHhccCCCCCchhhHHHHhcccCCCeeecccccc
Confidence            999999888766654  34678899999999987665

>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=97.88  E-value=1.5e-05  Score=57.38  Aligned_cols=39  Identities=28%  Similarity=0.416  Sum_probs=22.8

Q ss_pred             ceeEEEeCCCCCCcccccccCCCCceEEeecCCCCcccc
Q 045113          519 LLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLP  557 (821)
Q Consensus       519 ~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp  557 (821)
                      +|++|++++|.++.+|+.+++|++|++|++++|.|+.++
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            456666666666666655666666666666666665544

...

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

Probab=97.84  E-value=1.6e-06  Score=96.87  Aligned_cols=105  Identities=18%  Similarity=0.162  Sum_probs=64.9

Q ss_pred             hccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCcee
Q 045113          514 CEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHL  593 (821)
Q Consensus       514 ~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L  593 (821)
                      +..++.|..|++.++.+..+...+..+++|++|++++|.|..+. .+. .+..|+.|++++|.+..+.. +..+++|+.+
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-GLS-TLTLLKELNLSGNLISDISG-LESLKSLKLL  167 (414)
T ss_pred             cccccceeeeeccccchhhcccchhhhhcchheecccccccccc-chh-hccchhhheeccCcchhccC-Cccchhhhcc
Confidence            45666777777777776666554666777777777777776665 444 56667777777776665533 3446677777


Q ss_pred             ecCCcccCCCCC-CCcCCCCCcceeccccC
Q 045113          594 NFGSITLPAHPG-NYCGSLENLNFISALYP  622 (821)
Q Consensus       594 ~L~~~~~~~~~p-~~i~~l~~L~~L~~~~~  622 (821)
                      ++++|.+...-+ . ...+.+|+.+.+..|
T Consensus       168 ~l~~n~i~~ie~~~-~~~~~~l~~l~l~~n  196 (414)
T KOG0531|consen  168 DLSYNRIVDIENDE-LSELISLEELDLGGN  196 (414)
T ss_pred             cCCcchhhhhhhhh-hhhccchHHHhccCC
Confidence            777776633222 1 345556666655553

>COG3899 Predicted ATPase [General function prediction only]

Probab=97.83  E-value=0.00031  Score=84.68  Aligned_cols=247  Identities=14%  Similarity=0.109  Sum_probs=137.7

Q ss_pred             CeeechhhHHHHHHHHhcC-CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcC---CCC---CHHHHHHH
Q 045113          168 DTVGLDDRMEELLDLLIEG-PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEP---YTC---YADQILDI  240 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~~-~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s---~~~---~~~~~~~~  240 (821)
                      .++||+.+.+.|...+... .+...|+.+.|..|||||+|++.|..  .+.+.+...+--..+   +..   ...+..++
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~--~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~   78 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHK--PITQQRGYFIKGKFDQFERNIPLSPLVQAFRD   78 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHH--HHhccceeeeHhhcccccCCCchHHHHHHHHH
Confidence            3789999999999988763 44577999999999999999999998  555443222221111   111   13345555


Q ss_pred             HHHHhCCchh------------------------------------------------------HHHHHHHh-CCCcEEE
Q 045113          241 IIKFLMPSSR------------------------------------------------------LIILHEYL-MTKRYLI  265 (821)
Q Consensus       241 i~~~l~~~~~------------------------------------------------------~~~l~~~l-~~kr~Ll  265 (821)
                      ++.++....+                                                      ...+.... +.++..+
T Consensus        79 l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi  158 (849)
T COG3899          79 LMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVI  158 (849)
T ss_pred             HHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEE
Confidence            5555422100                                                      12222223 3569999


Q ss_pred             EEecC-CC-HHHHHHHHHhCCCCC----CCcEEEEEecchhhh----------cccc---cccCC---------cC-CCC
Q 045113          266 VIDDV-WS-IEVWDIIREILPDNQ----NGSRVLITLAKIDTV----------TLFQ---FENGQ---------NI-RLD  316 (821)
Q Consensus       266 VlDdv-~~-~~~~~~l~~~l~~~~----~gs~iiiTtr~~~v~----------~lf~---~~~~~---------~~-~~~  316 (821)
                      |+||+ |- ...++-+........    ....|..+.......          ..+.   +...+         .+ ...
T Consensus       159 ~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~~~  238 (849)
T COG3899         159 VLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTKLL  238 (849)
T ss_pred             EEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcccc
Confidence            99999 63 333433333222111    011232222222111          0011   11110         02 345


Q ss_pred             ccchHHHHHHHcCCchHHHHHhh--------------ccccccc----chhccccc-hhHHHHhhhcCChhhHHHHhhcc
Q 045113          317 LVPTGGPLRVTYQGWPFHILYHG--------------SISLEEN----KREAIAKP-IFLQSVAYCMLPFPLKLCCLYLP  377 (821)
Q Consensus       317 ~~~~~~~i~~~c~glPLai~~~g--------------~~~~~~~----~~~~i~~~-~~~l~~sy~~L~~~~k~cfl~~s  377 (821)
                      ..+..+.|+++-.|.|+-+.-+=              ...|...    ..-...++ ...+..-.+.||...+.-.-.-|
T Consensus       239 ~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~~~vv~~l~~rl~kL~~~t~~Vl~~AA  318 (849)
T COG3899         239 PAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATTDAVVEFLAARLQKLPGTTREVLKAAA  318 (849)
T ss_pred             cchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhhHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            56788999999999998877664              1112211    11111211 14688889999999999888888


Q ss_pred             cCCCCceechhhHHHHHHHcCCCCCChHHHHHHHHHHHHhCCceeee
Q 045113          378 VFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVK  424 (821)
Q Consensus       378 ~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~L~~r~ll~~~  424 (821)
                      ++-..  |+.+.|.-.|-.      .....+...++.|....++...
T Consensus       319 ~iG~~--F~l~~La~l~~~------~~~~~a~~l~~al~e~lI~~~~  357 (849)
T COG3899         319 CIGNR--FDLDTLAALAED------SPALEAAALLDALQEGLILPLS  357 (849)
T ss_pred             HhCcc--CCHHHHHHHHhh------chHHHHHHHHHHhHhhceeccc
Confidence            87644  445555554432      2345566666666665555433

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.77  E-value=0.00017  Score=83.30  Aligned_cols=107  Identities=13%  Similarity=0.050  Sum_probs=73.6

Q ss_pred             CCCeeechhhHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHHhcCccc---ccccc--eeEEEEcCCCCCHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEG---PPQLSAVTILDSIGLDKTAFAAEAYSGNYV---KHYFD--CHAWVQEPYTCYADQI  237 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~---~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~---~~~F~--~~~wv~~s~~~~~~~~  237 (821)
                      +..++|||+++++|...|...   .....++-|+|.+|.|||+.++.|.+..+-   .....  .+++|.+..-.+...+
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sI  833 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAA  833 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHH
Confidence            457899999999999998752   333467889999999999999999873211   11122  2566666666678888


Q ss_pred             HHHHHHHhCCchh---------HHHHHHHhC---CCcEEEEEecCCC
Q 045113          238 LDIIIKFLMPSSR---------LIILHEYLM---TKRYLIVIDDVWS  272 (821)
Q Consensus       238 ~~~i~~~l~~~~~---------~~~l~~~l~---~kr~LlVlDdv~~  272 (821)
                      ...|..++.....         ...+...+.   ....+||||+|+.
T Consensus       834 YqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~  880 (1164)
T PTZ00112        834 YQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDY  880 (1164)
T ss_pred             HHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhh
Confidence            8888888843311         334444442   2345999999964

>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=97.77  E-value=2.3e-05  Score=56.43  Aligned_cols=39  Identities=28%  Similarity=0.293  Sum_probs=22.4

Q ss_pred             CceEEeecCCCCccccHHHHhccccceEEecCCcccccch
Q 045113          542 LLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTA  581 (821)
Q Consensus       542 ~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp  581 (821)
                      +|++|++++|.|..+|+.+. +|++|++|++++|.+..+|
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~-~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELS-NLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGT-TCTTSSEEEETSSCCSBEG
T ss_pred             cceEEEccCCCCcccCchHh-CCCCCCEEEecCCCCCCCc
Confidence            46666666666666665555 6666666666666555443

...

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

Probab=97.74  E-value=0.00012  Score=80.00  Aligned_cols=103  Identities=14%  Similarity=0.031  Sum_probs=73.0

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHH-h
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKF-L  245 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~-l  245 (821)
                      ..+++.+...+.+...|...    +.|.++|++|+|||++|+.+++.......|+.+.||++++.++..++...+.-. .
T Consensus       175 ~d~~i~e~~le~l~~~L~~~----~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~~v  250 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK----KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPNGV  250 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC----CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCCCC
Confidence            45888999999999999864    377889999999999999999854444578889999999998877766433111 1


Q ss_pred             CCc--hh--HHHHHHHhC--CCcEEEEEecCCCH
Q 045113          246 MPS--SR--LIILHEYLM--TKRYLIVIDDVWSI  273 (821)
Q Consensus       246 ~~~--~~--~~~l~~~l~--~kr~LlVlDdv~~~  273 (821)
                      +-.  ..  .+.+.+...  ++++++|+|++...
T Consensus       251 gy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRa  284 (459)
T PRK11331        251 GFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRA  284 (459)
T ss_pred             CeEecCchHHHHHHHHHhcccCCcEEEEehhhcc
Confidence            100  01  222223222  47899999999653

>PRK06893 DNA replication initiation factor; Validated

Probab=97.74  E-value=7.4e-05  Score=76.12  Aligned_cols=90  Identities=14%  Similarity=0.207  Sum_probs=52.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEec
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDD  269 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDd  269 (821)
                      ...+.++|.+|+|||+|++++++  +.......+.|+.++..   .....             .+.+.+. +.-+||+||
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~--~~~~~~~~~~y~~~~~~---~~~~~-------------~~~~~~~-~~dlLilDD   99 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSN--HYLLNQRTAIYIPLSKS---QYFSP-------------AVLENLE-QQDLVCLDD   99 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHHcCCCeEEeeHHHh---hhhhH-------------HHHhhcc-cCCEEEEeC
Confidence            45789999999999999999998  44333445677765421   00111             1112222 334999999


Q ss_pred             CCCH---HHHH-HHHHhCCC-CCCCcEEEEEecc
Q 045113          270 VWSI---EVWD-IIREILPD-NQNGSRVLITLAK  298 (821)
Q Consensus       270 v~~~---~~~~-~l~~~l~~-~~~gs~iiiTtr~  298 (821)
                      +|..   ..|+ .+...+.. ...|+.+||+|.+
T Consensus       100 i~~~~~~~~~~~~l~~l~n~~~~~~~~illits~  133 (229)
T PRK06893        100 LQAVIGNEEWELAIFDLFNRIKEQGKTLLLISAD  133 (229)
T ss_pred             hhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCC
Confidence            9863   4565 33333332 2235666555543

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.71  E-value=0.00012  Score=81.78  Aligned_cols=107  Identities=19%  Similarity=0.240  Sum_probs=63.9

Q ss_pred             CCeeechhhHHH---HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHH
Q 045113          167 RDTVGLDDRMEE---LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIII  242 (821)
Q Consensus       167 ~~~vGr~~~~~~---i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~  242 (821)
                      .++||.+..+..   +..++..+.  ...+.++|.+|+||||||+.+.+.  ....|     +.++... ++.++ +.++
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~--~~~ilL~GppGtGKTtLA~~ia~~--~~~~~-----~~l~a~~~~~~~i-r~ii   81 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGR--LSSMILWGPPGTGKTTLARIIAGA--TDAPF-----EALSAVTSGVKDL-REVI   81 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCC--CceEEEECCCCCCHHHHHHHHHHH--hCCCE-----EEEecccccHHHH-HHHH
Confidence            357888777655   666665544  567888999999999999999983  33333     2222211 22221 2222


Q ss_pred             HHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEE
Q 045113          243 KFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLI  294 (821)
Q Consensus       243 ~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iii  294 (821)
                      +...        .....+++.+|++|+++..  ...+.+...+..   |..++|
T Consensus        82 ~~~~--------~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI  124 (413)
T PRK13342         82 EEAR--------QRRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLI  124 (413)
T ss_pred             HHHH--------HhhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEE
Confidence            2111        0112458899999999854  456666665543   455555

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

Probab=97.71  E-value=1.2e-06  Score=97.21  Aligned_cols=43  Identities=26%  Similarity=0.223  Sum_probs=22.7

Q ss_pred             hhccCCceeEEEeCCCCCC--cccccccCCCCceEEeecCCCCcc
Q 045113          513 ICEMYKLLRVLDLGSLVLN--QYPSEIENLSLLRYLKLNIPSLKS  555 (821)
Q Consensus       513 ~~~~~~~Lr~L~L~~~~l~--~lp~~i~~l~~Lr~L~L~~~~i~~  555 (821)
                      ++.-+..+.+|.+-..+-.  .-|-.|..+..||.|.|++|.+..
T Consensus        79 i~d~lqkt~~lkl~~~pa~~pt~pi~ifpF~sLr~LElrg~~L~~  123 (1096)
T KOG1859|consen   79 ILDFLQKTKVLKLLPSPARDPTEPISIFPFRSLRVLELRGCDLST  123 (1096)
T ss_pred             HHHHHhhheeeeecccCCCCCCCCceeccccceeeEEecCcchhh
Confidence            3444444555554444321  114456666677777777776654

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

Probab=97.66  E-value=8.4e-07  Score=98.35  Aligned_cols=119  Identities=20%  Similarity=0.223  Sum_probs=52.8

Q ss_pred             eeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchh-hhccCccCceeecCCc
Q 045113          520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSI  598 (821)
Q Consensus       520 Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~  598 (821)
                      |.+.+.++|.+..+-.++.-+++|+.|||++|++.... .+. .|++|++|||++|.+..+|. ....+. |..|++.+|
T Consensus       166 L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~-~Lr-~l~~LkhLDlsyN~L~~vp~l~~~gc~-L~~L~lrnN  242 (1096)
T KOG1859|consen  166 LATASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVD-NLR-RLPKLKHLDLSYNCLRHVPQLSMVGCK-LQLLNLRNN  242 (1096)
T ss_pred             HhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhH-HHH-hcccccccccccchhccccccchhhhh-heeeeeccc
Confidence            34444444444444444444455555555555544443 333 45555555555554444443 111222 455555554


Q ss_pred             ccCCCCCCCcCCCCCcceeccccC----CcchhhhcCCCCCCCeEEEecc
Q 045113          599 TLPAHPGNYCGSLENLNFISALYP----CCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       599 ~~~~~~p~~i~~l~~L~~L~~~~~----~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      .+.. + .++.+|.+|+.|++++|    .....- +..|..|+.|++.+|
T Consensus       243 ~l~t-L-~gie~LksL~~LDlsyNll~~hseL~p-LwsLs~L~~L~LeGN  289 (1096)
T KOG1859|consen  243 ALTT-L-RGIENLKSLYGLDLSYNLLSEHSELEP-LWSLSSLIVLWLEGN  289 (1096)
T ss_pred             HHHh-h-hhHHhhhhhhccchhHhhhhcchhhhH-HHHHHHHHHHhhcCC
Confidence            4421 1 23444555555555443    112222 334444555555554

>PRK08116 hypothetical protein; Validated

Probab=97.65  E-value=0.00027  Score=73.59  Aligned_cols=99  Identities=19%  Similarity=0.189  Sum_probs=60.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCch--hHHHHHHHhCCCcEEEEEe
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS--RLIILHEYLMTKRYLIVID  268 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~--~~~~l~~~l~~kr~LlVlD  268 (821)
                      ..+.++|.+|+|||+||.++++  ++..+-..+++++      ..+++..+........  ....+.+.+.+-. |||||
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~--~l~~~~~~v~~~~------~~~ll~~i~~~~~~~~~~~~~~~~~~l~~~d-lLviD  185 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIAN--ELIEKGVPVIFVN------FPQLLNRIKSTYKSSGKEDENEIIRSLVNAD-LLILD  185 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEE------HHHHHHHHHHHHhccccccHHHHHHHhcCCC-EEEEe
Confidence            4588999999999999999999  4443334556664      4455666655543322  1344555566554 89999


Q ss_pred             cCCC--HHHHH--HHHHhCCC-CCCCcEEEEEecc
Q 045113          269 DVWS--IEVWD--IIREILPD-NQNGSRVLITLAK  298 (821)
Q Consensus       269 dv~~--~~~~~--~l~~~l~~-~~~gs~iiiTtr~  298 (821)
                      |+..  ..+|.  .+...+.. -..|..+||||..
T Consensus       186 Dlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        186 DLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             cccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            9942  23443  22222221 2345679999873

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.64  E-value=0.00011  Score=79.19  Aligned_cols=132  Identities=19%  Similarity=0.174  Sum_probs=82.5

Q ss_pred             hccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCC-CccccHHHHhccccceEEecCCc-ccccchhhhccCccCc
Q 045113          514 CEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPS-LKSLPLSFFNYLLNLYTLDMPFS-YIDHTADEFWKMKKLR  591 (821)
Q Consensus       514 ~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~-i~~lp~~i~~~L~~L~~L~L~~~-~l~~lp~~i~~l~~L~  591 (821)
                      +..+++++.|++++|.++.+|. +  ..+|+.|.+++|. +..+|..+.   .+|+.|++++| .+..+|..      |+
T Consensus        48 ~~~~~~l~~L~Is~c~L~sLP~-L--P~sLtsL~Lsnc~nLtsLP~~LP---~nLe~L~Ls~Cs~L~sLP~s------Le  115 (426)
T PRK15386         48 IEEARASGRLYIKDCDIESLPV-L--PNELTEITIENCNNLTTLPGSIP---EGLEKLTVCHCPEISGLPES------VR  115 (426)
T ss_pred             HHHhcCCCEEEeCCCCCcccCC-C--CCCCcEEEccCCCCcccCCchhh---hhhhheEccCcccccccccc------cc
Confidence            4557899999999999888883 2  2469999998864 678886554   58999999999 88888764      56


Q ss_pred             eeecCCccc--CCCCCCCcCCCCCcceecccc-CCcchhhhcC-CC-CCCCeEEEecccccchhHHHHHccCCCCcCEEE
Q 045113          592 HLNFGSITL--PAHPGNYCGSLENLNFISALY-PCCCTKDLLG-RL-PNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLK  666 (821)
Q Consensus       592 ~L~L~~~~~--~~~~p~~i~~l~~L~~L~~~~-~~~~~~~~l~-~l-~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~  666 (821)
                      +|++..+..  .+.+|.      +|+.|.+.. +...... +. .+ ++|+.|.+++|..  . .+|..+.  .+|+.|.
T Consensus       116 ~L~L~~n~~~~L~~LPs------sLk~L~I~~~n~~~~~~-lp~~LPsSLk~L~Is~c~~--i-~LP~~LP--~SLk~L~  183 (426)
T PRK15386        116 SLEIKGSATDSIKNVPN------GLTSLSINSYNPENQAR-IDNLISPSLKTLSLTGCSN--I-ILPEKLP--ESLQSIT  183 (426)
T ss_pred             eEEeCCCCCcccccCcc------hHhheeccccccccccc-cccccCCcccEEEecCCCc--c-cCccccc--ccCcEEE
Confidence            666655443  234444      355555432 1111111 11 12 4688888888731  1 1222221  4677777


Q ss_pred             eec
Q 045113          667 LAN  669 (821)
Q Consensus       667 l~~  669 (821)
                      ++.
T Consensus       184 ls~  186 (426)
T PRK15386        184 LHI  186 (426)
T ss_pred             ecc
Confidence            753

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.61  E-value=0.00018  Score=83.82  Aligned_cols=132  Identities=16%  Similarity=0.075  Sum_probs=83.4

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccccc---ceeEEEEcCCC---CCHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF---DCHAWVQEPYT---CYADQILDI  240 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F---~~~~wv~~s~~---~~~~~~~~~  240 (821)
                      +.++|++..++.+...+....  ...+.|+|.+|+||||+|+.+++.......+   ...-|+.+...   .+...+...
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~~--~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~  231 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASPF--PQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVTNP  231 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcCC--CCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHhHH
Confidence            468999999999988875443  5679999999999999999998754333332   12345544321   122222111


Q ss_pred             H---------------HHHhCC-------------c----h--------hHHHHHHHhCCCcEEEEEecCCCH--HHHHH
Q 045113          241 I---------------IKFLMP-------------S----S--------RLIILHEYLMTKRYLIVIDDVWSI--EVWDI  278 (821)
Q Consensus       241 i---------------~~~l~~-------------~----~--------~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~  278 (821)
                      +               +...+.             .    +        .+..+.+.+.++++.++-|+.|..  ..|+.
T Consensus       232 llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~  311 (615)
T TIGR02903       232 LLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPKY  311 (615)
T ss_pred             hcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCcccchh
Confidence            1               111110             0    0        067888888889999887777654  45888


Q ss_pred             HHHhCCCCCCCcEEEE--Eecchh
Q 045113          279 IREILPDNQNGSRVLI--TLAKID  300 (821)
Q Consensus       279 l~~~l~~~~~gs~iii--Ttr~~~  300 (821)
                      +...+....+...|+|  ||++..
T Consensus       312 ik~~~~~~~~~~~VLI~aTt~~~~  335 (615)
T TIGR02903       312 IKKLFEEGAPADFVLIGATTRDPE  335 (615)
T ss_pred             hhhhcccCccceEEEEEecccccc
Confidence            8777776666655666  566443

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.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.58  E-value=0.00052  Score=79.01  Aligned_cols=125  Identities=12%  Similarity=0.115  Sum_probs=78.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc-------------------ccccceeEEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV-------------------KHYFDCHAWVQ  227 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~-------------------~~~F~~~~wv~  227 (821)
                      .++||.+..++.|..++..+. -...+-++|..|+||||+|+.+.+.-.-                   .+.|..++++.
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviEID   94 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEMD   94 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEEec
Confidence            469999999999999987653 2446679999999999999877652110                   11233345554


Q ss_pred             cCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecchhh
Q 045113          228 EPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKIDT  301 (821)
Q Consensus       228 ~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~~v  301 (821)
                      .+....++++- ++++.+.        ..-..++.-++|||++...  ..|+.+...+.......++|+||.+..-
T Consensus        95 Aas~rgVDdIR-eLIe~a~--------~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~K  161 (830)
T PRK07003         95 AASNRGVDEMA-ALLERAV--------YAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQK  161 (830)
T ss_pred             ccccccHHHHH-HHHHHHH--------hccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhh
Confidence            44433333322 2222111        0112345568899999754  5688888877766667887777776543

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.57  E-value=1.8e-05  Score=70.30  Aligned_cols=74  Identities=22%  Similarity=0.243  Sum_probs=49.2

Q ss_pred             hhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhh
Q 045113          509 DWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADE  583 (821)
Q Consensus       509 ~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~  583 (821)
                      +++++-.+++.++.|+|++|.+..+|..+..++.||.|+++.|.+...|.-+. .|.+|-+|+..++.+.++|-.
T Consensus        68 fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~-~L~~l~~Lds~~na~~eid~d  141 (177)
T KOG4579|consen   68 FPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNPLNAEPRVIA-PLIKLDMLDSPENARAEIDVD  141 (177)
T ss_pred             CCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCccccchHHHH-HHHhHHHhcCCCCccccCcHH
Confidence            45555566666666777777666666666666677777777776666666666 566666666666666666554

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

Probab=97.57  E-value=0.00034  Score=73.72  Aligned_cols=141  Identities=16%  Similarity=0.167  Sum_probs=77.7

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKF  244 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~  244 (821)
                      ...++|-+..+.++   +..+.  +.-.-.||++|+||||||+.+..  .....|.     .+|-.. ++.++. .+++.
T Consensus        29 Q~HLlg~~~~lrr~---v~~~~--l~SmIl~GPPG~GKTTlA~liA~--~~~~~f~-----~~sAv~~gvkdlr-~i~e~   95 (436)
T COG2256          29 QEHLLGEGKPLRRA---VEAGH--LHSMILWGPPGTGKTTLARLIAG--TTNAAFE-----ALSAVTSGVKDLR-EIIEE   95 (436)
T ss_pred             hHhhhCCCchHHHH---HhcCC--CceeEEECCCCCCHHHHHHHHHH--hhCCceE-----EeccccccHHHHH-HHHHH
Confidence            34445544444443   33333  66777899999999999999998  4555553     233322 223222 22211


Q ss_pred             hCCchhHHHHHHHhCCCcEEEEEecCC--CHHHHHHHHHhCCCCCCCcEEEEE--ecchhhh---------cccccccCC
Q 045113          245 LMPSSRLIILHEYLMTKRYLIVIDDVW--SIEVWDIIREILPDNQNGSRVLIT--LAKIDTV---------TLFQFENGQ  311 (821)
Q Consensus       245 l~~~~~~~~l~~~l~~kr~LlVlDdv~--~~~~~~~l~~~l~~~~~gs~iiiT--tr~~~v~---------~lf~~~~~~  311 (821)
                              .-+....++|.+|.+|.|-  +..+-+.+.+   .-.+|.-|+|-  |-++.-.         .+|.|..- 
T Consensus        96 --------a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp---~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L-  163 (436)
T COG2256          96 --------ARKNRLLGRRTILFLDEIHRFNKAQQDALLP---HVENGTIILIGATTENPSFELNPALLSRARVFELKPL-  163 (436)
T ss_pred             --------HHHHHhcCCceEEEEehhhhcChhhhhhhhh---hhcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecC-
Confidence                    1122334899999999995  3445555544   44567777774  4443222         44443322 


Q ss_pred             cCCCCccchHHH-HHHHcCCch
Q 045113          312 NIRLDLVPTGGP-LRVTYQGWP  332 (821)
Q Consensus       312 ~~~~~~~~~~~~-i~~~c~glP  332 (821)
                       ...++..+.++ +..+..|++
T Consensus       164 -~~~di~~~l~ra~~~~~rgl~  184 (436)
T COG2256         164 -SSEDIKKLLKRALLDEERGLG  184 (436)
T ss_pred             -CHHHHHHHHHHHHhhhhcCCC
Confidence             23344444444 566677776

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

Probab=97.57  E-value=0.00029  Score=76.32  Aligned_cols=105  Identities=17%  Similarity=0.164  Sum_probs=80.3

Q ss_pred             CCeeechhhHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHHhcCcccccccc-e-eEEEEcCCCCCHHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEG--PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFD-C-HAWVQEPYTCYADQILDIII  242 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~--~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~-~-~~wv~~s~~~~~~~~~~~i~  242 (821)
                      ..+.+||++++++...|...  .....-+-|+|.+|.|||+.++.+.+  ++..... . ++.|.+-...+..++...|+
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~--~l~~~~~~~~~~yINc~~~~t~~~i~~~i~   94 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVME--ELEESSANVEVVYINCLELRTPYQVLSKIL   94 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHH--HHHhhhccCceEEEeeeeCCCHHHHHHHHH
Confidence            34999999999999888752  22233388999999999999999998  5544432 1 68888888889999999999


Q ss_pred             HHhCCchh--------HHHHHHHhC--CCcEEEEEecCCCH
Q 045113          243 KFLMPSSR--------LIILHEYLM--TKRYLIVIDDVWSI  273 (821)
Q Consensus       243 ~~l~~~~~--------~~~l~~~l~--~kr~LlVlDdv~~~  273 (821)
                      .+++....        ...+.+.+.  ++.+++|||+++..
T Consensus        95 ~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L  135 (366)
T COG1474          95 NKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDAL  135 (366)
T ss_pred             HHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhh
Confidence            98864321        556666664  58999999999743

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.55  E-value=0.00014  Score=74.26  Aligned_cols=107  Identities=16%  Similarity=0.144  Sum_probs=62.1

Q ss_pred             chhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhH
Q 045113          172 LDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRL  251 (821)
Q Consensus       172 r~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~  251 (821)
                      .+..++.+..++...  ....|.|+|.+|+||||||+.+++.  ........++++++.-.+      ..          
T Consensus        22 ~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKT~la~~~~~~--~~~~~~~~~~i~~~~~~~------~~----------   81 (226)
T TIGR03420        22 NAELLAALRQLAAGK--GDRFLYLWGESGSGKSHLLQAACAA--AEERGKSAIYLPLAELAQ------AD----------   81 (226)
T ss_pred             cHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHH--HHhcCCcEEEEeHHHHHH------hH----------
Confidence            455666777665433  3678999999999999999999983  333334455665433211      00          


Q ss_pred             HHHHHHhCCCcEEEEEecCCCHH---HH-HHHHHhCCC-CCCCcEEEEEecch
Q 045113          252 IILHEYLMTKRYLIVIDDVWSIE---VW-DIIREILPD-NQNGSRVLITLAKI  299 (821)
Q Consensus       252 ~~l~~~l~~kr~LlVlDdv~~~~---~~-~~l~~~l~~-~~~gs~iiiTtr~~  299 (821)
                      ..+...+.+. -+||+||+....   .| +.+...+.. ...+.+||+||+..
T Consensus        82 ~~~~~~~~~~-~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~  133 (226)
T TIGR03420        82 PEVLEGLEQA-DLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAA  133 (226)
T ss_pred             HHHHhhcccC-CEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCC
Confidence            0111222232 389999997532   33 334443332 12345788988753

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.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.51  E-value=0.00036  Score=76.61  Aligned_cols=55  Identities=18%  Similarity=0.209  Sum_probs=42.1

Q ss_pred             CCCCCeeechhhHHHHHHHHhcC--C---------CCceEEEEEcCCCChHHHHHHHHhcCccccccc
Q 045113          164 FKNRDTVGLDDRMEELLDLLIEG--P---------PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF  220 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~~--~---------~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F  220 (821)
                      ....++.|++..+++|.+.+...  .         ...+-+.++|.+|+|||++|+++++  +....|
T Consensus       119 ~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~--~l~~~~  184 (364)
T TIGR01242       119 VSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAH--ETNATF  184 (364)
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHH--hCCCCE
Confidence            34457999999999999887532  1         2245688999999999999999998  444444

Many proteins may score above the trusted cutoff because an internal

>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=97.51  E-value=0.00015  Score=71.35  Aligned_cols=53  Identities=19%  Similarity=0.157  Sum_probs=36.5

Q ss_pred             CCCeeechhhHHHHHHHHhc---CCCCceEEEEEcCCCChHHHHHHHHhcCccccccc
Q 045113          166 NRDTVGLDDRMEELLDLLIE---GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF  220 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~---~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F  220 (821)
                      -.+|||.+.-++++.-++..   ..+.+.-+-.||++|+||||||.-+.+  +....|
T Consensus        23 L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~--e~~~~~   78 (233)
T PF05496_consen   23 LDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIAN--ELGVNF   78 (233)
T ss_dssp             CCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHH--HCT--E
T ss_pred             HHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHh--ccCCCe
Confidence            45799999888886555542   344578889999999999999999999  566556

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.

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.50  E-value=0.00046  Score=75.15  Aligned_cols=44  Identities=23%  Similarity=0.216  Sum_probs=37.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|++..++.+..++..+.  ...+-++|.+|+||||+|+.+.+
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~GtGKT~la~~~~~   58 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPN--LPHLLVQGPPGSGKTAAVRALAR   58 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHH
Confidence            468899999999998887654  45678999999999999999887

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

Probab=97.44  E-value=0.00048  Score=81.11  Aligned_cols=108  Identities=19%  Similarity=0.214  Sum_probs=62.9

Q ss_pred             CCeeechhhHH---HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHH
Q 045113          167 RDTVGLDDRME---ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIK  243 (821)
Q Consensus       167 ~~~vGr~~~~~---~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  243 (821)
                      .+++|.+..+.   .+...+..+.  ...+.++|++|+||||||+.+++  .....|.   .+..+. ..+.++ ++++ 
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~~--~~slLL~GPpGtGKTTLA~aIA~--~~~~~f~---~lna~~-~~i~di-r~~i-   97 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKADR--VGSLILYGPPGVGKTTLARIIAN--HTRAHFS---SLNAVL-AGVKDL-RAEV-   97 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHH--HhcCcce---eehhhh-hhhHHH-HHHH-
Confidence            46889888774   3455555443  56778999999999999999998  4444441   111110 111111 1111 


Q ss_pred             HhCCchhHHHHHHHh--CCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEE
Q 045113          244 FLMPSSRLIILHEYL--MTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLIT  295 (821)
Q Consensus       244 ~l~~~~~~~~l~~~l--~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiT  295 (821)
                              ....+.+  .+++.+||+||++.  ...++.+...+.   .|+.++|+
T Consensus        98 --------~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~  142 (725)
T PRK13341         98 --------DRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIG  142 (725)
T ss_pred             --------HHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEE
Confidence                    1111122  24678999999964  456666665543   35556654

>PRK04195 replication factor C large subunit; Provisional

Probab=97.43  E-value=0.00062  Score=77.54  Aligned_cols=118  Identities=19%  Similarity=0.201  Sum_probs=71.9

Q ss_pred             CCeeechhhHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEG--PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~--~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      .+++|.+..++++.+|+..-  ....+.+-|+|.+|+||||+|+.+++.  ..  |+ .+-+..+...+...+ ..++..
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~e--l~--~~-~ielnasd~r~~~~i-~~~i~~   87 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALAND--YG--WE-VIELNASDQRTADVI-ERVAGE   87 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHH--cC--CC-EEEEcccccccHHHH-HHHHHH
Confidence            46999999999999998752  222678999999999999999999983  32  32 233344543333322 222222


Q ss_pred             hCCchhHHHHHHHhCCCcEEEEEecCCCH------HHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          245 LMPSSRLIILHEYLMTKRYLIVIDDVWSI------EVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       245 l~~~~~~~~l~~~l~~kr~LlVlDdv~~~------~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                      ....      ......++-+||+|+++..      ..+..+...+..  .+..||+|+.+
T Consensus        88 ~~~~------~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~  139 (482)
T PRK04195         88 AATS------GSLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTAND  139 (482)
T ss_pred             hhcc------CcccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccC
Confidence            1110      0111136789999999753      235555555542  23456666643

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.41  E-value=0.0011  Score=75.44  Aligned_cols=121  Identities=12%  Similarity=0.095  Sum_probs=75.9

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcc----c---------------ccccceeEEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNY----V---------------KHYFDCHAWVQ  227 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~----~---------------~~~F~~~~wv~  227 (821)
                      .+++|-+..++.+...+..+. -...+-++|..|+||||+|+.+.+.-.    .               .+.|...+++.
T Consensus        16 ~diiGq~~~v~~L~~~i~~~r-l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieid   94 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQK-VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEID   94 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEee
Confidence            468999999999998887653 235677899999999999999876210    0               11233444454


Q ss_pred             cCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEec
Q 045113          228 EPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLA  297 (821)
Q Consensus       228 ~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr  297 (821)
                      ......++++ ++|++.+..        .-..+++-++|+|++..  ...++.+...+......+++|++|.
T Consensus        95 aas~~gvd~i-r~ii~~~~~--------~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Tt  157 (546)
T PRK14957         95 AASRTGVEET-KEILDNIQY--------MPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATT  157 (546)
T ss_pred             cccccCHHHH-HHHHHHHHh--------hhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEEC
Confidence            4333444332 222222110        11235667999999964  3568888888877666666665443

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

Probab=97.40  E-value=0.0007  Score=70.78  Aligned_cols=104  Identities=13%  Similarity=0.161  Sum_probs=79.3

Q ss_pred             CCCCeeechhhHHHHHHHHhcCCCC-ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHH
Q 045113          165 KNRDTVGLDDRMEELLDLLIEGPPQ-LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIK  243 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~~~~-~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  243 (821)
                      .++.+.+|+..+..+..++...+.. ...|-|+|-.|.|||.+.+.+++..  ..   ..+|+++-..|+...+++.|+.
T Consensus         4 l~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~--n~---~~vw~n~~ecft~~~lle~IL~   78 (438)
T KOG2543|consen    4 LEPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL--NL---ENVWLNCVECFTYAILLEKILN   78 (438)
T ss_pred             cccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc--CC---cceeeehHHhccHHHHHHHHHH
Confidence            3567889999999999988876653 4556899999999999999999843  22   3589999999999999999999


Q ss_pred             HhC-Cchh--------------HHHHHH--HhC--CCcEEEEEecCCCH
Q 045113          244 FLM-PSSR--------------LIILHE--YLM--TKRYLIVIDDVWSI  273 (821)
Q Consensus       244 ~l~-~~~~--------------~~~l~~--~l~--~kr~LlVlDdv~~~  273 (821)
                      +.. .+++              ...+.+  ...  ++.++||||+++.-
T Consensus        79 ~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~l  127 (438)
T KOG2543|consen   79 KSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADAL  127 (438)
T ss_pred             HhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhh
Confidence            995 2221              222222  111  46899999999754

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=97.40  E-value=0.0015  Score=73.42  Aligned_cols=101  Identities=20%  Similarity=0.188  Sum_probs=65.8

Q ss_pred             CCCCeeechhhHHHHHHHHhcC----CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHH
Q 045113          165 KNRDTVGLDDRMEELLDLLIEG----PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDI  240 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~----~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~  240 (821)
                      -+.+-+|+++-+++|++++.-+    ..+-++++.+|++|||||.+|+.|..  .....|-   -++|..-.++.+|-..
T Consensus       409 LdeDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~--ALnRkFf---RfSvGG~tDvAeIkGH  483 (906)
T KOG2004|consen  409 LDEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIAR--ALNRKFF---RFSVGGMTDVAEIKGH  483 (906)
T ss_pred             hcccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHH--HhCCceE---EEeccccccHHhhccc
Confidence            3567899999999999999653    44678999999999999999999997  4544442   2344554444443211


Q ss_pred             HHHHhCCchhHHHHHHHh---CCCcEEEEEecCCC
Q 045113          241 IIKFLMPSSRLIILHEYL---MTKRYLIVIDDVWS  272 (821)
Q Consensus       241 i~~~l~~~~~~~~l~~~l---~~kr~LlVlDdv~~  272 (821)
                      =..-++..  -.++-+.|   +..+=|+.+|.|+.
T Consensus       484 RRTYVGAM--PGkiIq~LK~v~t~NPliLiDEvDK  516 (906)
T KOG2004|consen  484 RRTYVGAM--PGKIIQCLKKVKTENPLILIDEVDK  516 (906)
T ss_pred             ceeeeccC--ChHHHHHHHhhCCCCceEEeehhhh
Confidence            11111111  12333333   45777999999964

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.39  E-value=0.0015  Score=71.44  Aligned_cols=123  Identities=12%  Similarity=0.127  Sum_probs=74.8

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc-------------------cccceeEEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK-------------------HYFDCHAWVQ  227 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~-------------------~~F~~~~wv~  227 (821)
                      .+++|.+..++.+...+..+. -...+-++|..|+||||+|+.+.+.-.-.                   +.+....++.
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~~~~~   94 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDLIEID   94 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceEEec
Confidence            468999999999998887653 24577899999999999999988631100                   0111223333


Q ss_pred             cCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          228 EPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       228 ~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      .+....+.+ .+++.+.+..        .-..+++-++|+|++...  ..++.+...+.......++|++|.+.
T Consensus        95 ~~~~~~v~~-ir~i~~~~~~--------~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~  159 (363)
T PRK14961         95 AASRTKVEE-MREILDNIYY--------SPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDV  159 (363)
T ss_pred             ccccCCHHH-HHHHHHHHhc--------CcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCCh
Confidence            222222222 1222222110        001245569999999754  45778877777666677777776543

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.39  E-value=0.0011  Score=71.53  Aligned_cols=120  Identities=16%  Similarity=0.165  Sum_probs=73.1

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHh
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFL  245 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l  245 (821)
                      -.+++|.+...+.+..++..+. -..++-++|.+|+||||+|+.+++.  ....   ...+..+. .....+...+....
T Consensus        20 ~~~~~~~~~~~~~l~~~~~~~~-~~~~lll~G~~G~GKT~la~~l~~~--~~~~---~~~i~~~~-~~~~~i~~~l~~~~   92 (316)
T PHA02544         20 IDECILPAADKETFKSIVKKGR-IPNMLLHSPSPGTGKTTVAKALCNE--VGAE---VLFVNGSD-CRIDFVRNRLTRFA   92 (316)
T ss_pred             HHHhcCcHHHHHHHHHHHhcCC-CCeEEEeeCcCCCCHHHHHHHHHHH--hCcc---ceEeccCc-ccHHHHHHHHHHHH
Confidence            3578999999999999987643 3467777999999999999999883  3222   23444444 22222222111110


Q ss_pred             CCchhHHHHHHHhCCCcEEEEEecCCCH---HHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          246 MPSSRLIILHEYLMTKRYLIVIDDVWSI---EVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       246 ~~~~~~~~l~~~l~~kr~LlVlDdv~~~---~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      .       -. .+.+.+-++|+||+...   ...+.+...+.....+.++|+||....
T Consensus        93 ~-------~~-~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~  142 (316)
T PHA02544         93 S-------TV-SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKN  142 (316)
T ss_pred             H-------hh-cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChh
Confidence            0       00 01234568999999643   233444444554456788998887543

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

Probab=97.38  E-value=3.9e-05  Score=87.93  Aligned_cols=263  Identities=21%  Similarity=0.110  Sum_probs=136.5

Q ss_pred             ccCCceeEEEeCCCCC--C-ccc-ccccCCCCceEEeecCCC-Ccc--ccHHHHhccccceEEecCCc--ccccch----
Q 045113          515 EMYKLLRVLDLGSLVL--N-QYP-SEIENLSLLRYLKLNIPS-LKS--LPLSFFNYLLNLYTLDMPFS--YIDHTA----  581 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l--~-~lp-~~i~~l~~Lr~L~L~~~~-i~~--lp~~i~~~L~~L~~L~L~~~--~l~~lp----  581 (821)
                      ..+..++.+.+..+..  . ... .-...++.|+.|.+.++. +..  +-.... .+++|+.|++++|  .+...+    
T Consensus       158 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~l~l~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~  236 (482)
T KOG1947|consen  158 RGLANLESLSLSCCGSLLLDKILLRLLSSCPLLKRLSLSGCSKITDDSLDALAL-KCPNLEELDLSGCCLLITLSPLLLL  236 (482)
T ss_pred             HHHHHHheeeeecccccccHHHHHHHHhhCchhhHhhhcccccCChhhHHHHHh-hCchhheecccCcccccccchhHhh
Confidence            3344555555554432  1 111 112347888888888874 443  434455 8899999999873  222222    


Q ss_pred             hhhccCccCceeecCCcc-cCCCCCCCc-CCCCCcceecccc-C---CcchhhhcCCCCCCCeEEEecccccchhHHHHH
Q 045113          582 DEFWKMKKLRHLNFGSIT-LPAHPGNYC-GSLENLNFISALY-P---CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKS  655 (821)
Q Consensus       582 ~~i~~l~~L~~L~L~~~~-~~~~~p~~i-~~l~~L~~L~~~~-~---~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~  655 (821)
                      .....+++|++|+++++. ++...-..+ ..+++|++|.+.. .   ...+..+...+++|++|+++.|.......+...
T Consensus       237 ~~~~~~~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~  316 (482)
T KOG1947|consen  237 LLLSICRKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSGLEAL  316 (482)
T ss_pred             hhhhhcCCcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchHHHHHHH
Confidence            233457889999998877 322111112 1256677766332 1   233333355667777777777753333334444


Q ss_pred             ccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCC---CCcccccCCCCCCEEEEeccccCCCeeeec
Q 045113          656 LCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMD---DPMPALEKLPLLQVLKLKQNSYSGRKLTCG  732 (821)
Q Consensus       656 l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~---~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~  732 (821)
                      ..++++|+.|.+.              +...+..++.+.+..+....   ...-.+..+++|+.+.|.++.......   
T Consensus       317 ~~~c~~l~~l~~~--------------~~~~c~~l~~~~l~~~~~~~~d~~~~~~~~~~~~l~~~~l~~~~~~~~~~---  379 (482)
T KOG1947|consen  317 LKNCPNLRELKLL--------------SLNGCPSLTDLSLSGLLTLTSDDLAELILRSCPKLTDLSLSYCGISDLGL---  379 (482)
T ss_pred             HHhCcchhhhhhh--------------hcCCCccHHHHHHHHhhccCchhHhHHHHhcCCCcchhhhhhhhccCcch---
Confidence            4445555544433              23335556666665554221   112234577888888887655222211   


Q ss_pred             CCCCcccceeeeccCCCc-cceeeccccccccceeEEeecCCCCCCcc-ccCC-CCCCCEEEEeCCcHHHHHHH
Q 045113          733 SDGFPRLKVLHLKSMLWL-EEWTMGTGAMPKLECLIINPCAYLKKMPE-QLWC-IKSLNNFNCWWPQPELRQKL  803 (821)
Q Consensus       733 ~~~~~~L~~L~L~~~~~l-~~~~~~~~~l~~L~~L~i~~c~~l~~lp~-~l~~-l~~L~~L~l~~c~~~~~~~~  803 (821)
                              .+.+.+|+.+ ..+......++.|+.|.+..|...+.--. .... +.++..+++.+|+.......
T Consensus       380 --------~~~l~gc~~l~~~l~~~~~~~~~l~~L~l~~~~~~t~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~  445 (482)
T KOG1947|consen  380 --------ELSLRGCPNLTESLELRLCRSDSLRVLNLSDCRLVTDKGLRCLADSCSNLKDLDLSGCRVITLKSL  445 (482)
T ss_pred             --------HHHhcCCcccchHHHHHhccCCccceEecccCccccccchHHHhhhhhccccCCccCcccccchhh
Confidence                    3333444433 22222222333377888888775542110 1111 66777777777774443333

>PLN03025 replication factor C subunit; Provisional

Probab=97.38  E-value=0.00087  Score=72.12  Aligned_cols=121  Identities=15%  Similarity=0.160  Sum_probs=70.9

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc-ccccc-eeEEEEcCCCCCHHHHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV-KHYFD-CHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~~F~-~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      .+++|.++.++.+..++..+.  ..-+-++|.+|+||||+|+.+.+  +. ...|. .++-+..+...+...+. ++++.
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~G~GKTtla~~la~--~l~~~~~~~~~~eln~sd~~~~~~vr-~~i~~   87 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGN--MPNLILSGPPGTGKTTSILALAH--ELLGPNYKEAVLELNASDDRGIDVVR-NKIKM   87 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHH--HHhcccCccceeeecccccccHHHHH-HHHHH
Confidence            468898888888887776544  44577999999999999999887  33 22232 22223334333333222 22211


Q ss_pred             hCCchhHHHHHHHh-CCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          245 LMPSSRLIILHEYL-MTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       245 l~~~~~~~~l~~~l-~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                      ....      ...+ .++.-++++|++...  ...+.+...+......+++|+++..
T Consensus        88 ~~~~------~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~  138 (319)
T PLN03025         88 FAQK------KVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNT  138 (319)
T ss_pred             HHhc------cccCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCC
Confidence            1000      0001 245679999999753  4455665555544456777777654

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.38  E-value=0.001  Score=73.48  Aligned_cols=48  Identities=19%  Similarity=0.204  Sum_probs=38.9

Q ss_pred             CCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          165 KNRDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...++.|++..++++.+.+..+           -...+-|-++|.+|+|||++|+++++
T Consensus       129 ~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~  187 (389)
T PRK03992        129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAH  187 (389)
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHH
Confidence            3457899999999998877431           12356788999999999999999998

>PRK12377 putative replication protein; Provisional

Probab=97.37  E-value=0.00076  Score=68.92  Aligned_cols=99  Identities=13%  Similarity=0.036  Sum_probs=57.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEec
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDD  269 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDd  269 (821)
                      ...+.++|.+|+|||+||.++.+  ........++++++.      ++...|-...........+.+.+ .+-=||||||
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~--~l~~~g~~v~~i~~~------~l~~~l~~~~~~~~~~~~~l~~l-~~~dLLiIDD  171 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGN--RLLAKGRSVIVVTVP------DVMSRLHESYDNGQSGEKFLQEL-CKVDLLVLDE  171 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHHcCCCeEEEEHH------HHHHHHHHHHhccchHHHHHHHh-cCCCEEEEcC
Confidence            46789999999999999999999  454444456776543      44444444332221122333333 3556999999


Q ss_pred             CCCH--HHH--HHHHHhCCC-CCCCcEEEEEec
Q 045113          270 VWSI--EVW--DIIREILPD-NQNGSRVLITLA  297 (821)
Q Consensus       270 v~~~--~~~--~~l~~~l~~-~~~gs~iiiTtr  297 (821)
                      +...  ..|  +.+...+.. -.+.--+||||.
T Consensus       172 lg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSN  204 (248)
T PRK12377        172 IGIQRETKNEQVVLNQIIDRRTASMRSVGMLTN  204 (248)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcC
Confidence            9432  233  233333321 112234677876

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.37  E-value=0.0011  Score=77.91  Aligned_cols=123  Identities=15%  Similarity=0.117  Sum_probs=77.3

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc-------------------cccceeEEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK-------------------HYFDCHAWVQ  227 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~-------------------~~F~~~~wv~  227 (821)
                      .++||-+..++.+.+++..+. -...+-++|..|+||||+|+.+.+.-.-.                   ..|..++++.
T Consensus        16 ddIIGQe~Iv~~LknaI~~~r-l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviEid   94 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQR-LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIEVD   94 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEEec
Confidence            469999999999999887653 23456899999999999999998731111                   1122234443


Q ss_pred             cCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          228 EPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       228 ~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      .+....+..+ ++|.+.+.        .....+++-++|||++..  ...++.+...+.......++|++|.+.
T Consensus        95 Aas~~kVDdI-ReLie~v~--------~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~  159 (944)
T PRK14949         95 AASRTKVDDT-RELLDNVQ--------YRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDP  159 (944)
T ss_pred             cccccCHHHH-HHHHHHHH--------hhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCc
Confidence            3322333332 33333221        112246778999999964  467888888887666567766655543

>PRK08727 hypothetical protein; Validated

Probab=97.37  E-value=0.00067  Score=69.27  Aligned_cols=90  Identities=17%  Similarity=0.096  Sum_probs=52.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEec
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDD  269 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDd  269 (821)
                      ...+.|+|..|+|||+|++++++  +.......++++++.+      ....+.          ...+.+ .+.-+||+||
T Consensus        41 ~~~l~l~G~~G~GKThL~~a~~~--~~~~~~~~~~y~~~~~------~~~~~~----------~~~~~l-~~~dlLiIDD  101 (233)
T PRK08727         41 SDWLYLSGPAGTGKTHLALALCA--AAEQAGRSSAYLPLQA------AAGRLR----------DALEAL-EGRSLVALDG  101 (233)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHHcCCcEEEEeHHH------hhhhHH----------HHHHHH-hcCCEEEEeC
Confidence            45699999999999999999988  4444344566775432      111111          111122 1335899999


Q ss_pred             CCCH---HHHH-HHHHhCCC-CCCCcEEEEEecc
Q 045113          270 VWSI---EVWD-IIREILPD-NQNGSRVLITLAK  298 (821)
Q Consensus       270 v~~~---~~~~-~l~~~l~~-~~~gs~iiiTtr~  298 (821)
                      +...   ..|. .+...+.. ..+|..||+|++.
T Consensus       102 i~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~  135 (233)
T PRK08727        102 LESIAGQREDEVALFDFHNRARAAGITLLYTARQ  135 (233)
T ss_pred             cccccCChHHHHHHHHHHHHHHHcCCeEEEECCC
Confidence            9632   2333 22222221 2246679999984

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.37  E-value=0.00079  Score=72.77  Aligned_cols=64  Identities=14%  Similarity=0.071  Sum_probs=45.6

Q ss_pred             ccCCCCceEEeecCCCCccccHHHHhccccceEEecCCc-ccccchhhhccCccCceeecCCcccCCCCCC
Q 045113          537 IENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFS-YIDHTADEFWKMKKLRHLNFGSITLPAHPGN  606 (821)
Q Consensus       537 i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~-~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~  606 (821)
                      +..+.++++|++++|.+..+| .   -..+|++|.+++| .+..+|..+  .++|++|++++|.....+|.
T Consensus        48 ~~~~~~l~~L~Is~c~L~sLP-~---LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP~  112 (426)
T PRK15386         48 IEEARASGRLYIKDCDIESLP-V---LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLPE  112 (426)
T ss_pred             HHHhcCCCEEEeCCCCCcccC-C---CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCccccccccc
Confidence            445678889999998888888 2   2346888999887 677777655  35788888888743344443

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

Probab=97.36  E-value=0.0008  Score=69.54  Aligned_cols=117  Identities=20%  Similarity=0.222  Sum_probs=68.1

Q ss_pred             CCCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHH
Q 045113          164 FKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIK  243 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  243 (821)
                      +....++|-+.-+..+   +..  +.+.-+.+||.+|+||||||+.+.+..+-..    .-||..|-.-.-..-.++|++
T Consensus       141 vGQ~hlv~q~gllrs~---ieq--~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife  211 (554)
T KOG2028|consen  141 VGQSHLVGQDGLLRSL---IEQ--NRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFE  211 (554)
T ss_pred             cchhhhcCcchHHHHH---HHc--CCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHH
Confidence            3344555554433332   223  3477888999999999999999998544333    346666554332222333333


Q ss_pred             HhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEE--Eecch
Q 045113          244 FLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLI--TLAKI  299 (821)
Q Consensus       244 ~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iii--Ttr~~  299 (821)
                      +-      + =...+.++|..|.+|.|-.  ..+-+   ..+|.-.+|+-++|  ||.+.
T Consensus       212 ~a------q-~~~~l~krkTilFiDEiHRFNksQQD---~fLP~VE~G~I~lIGATTENP  261 (554)
T KOG2028|consen  212 QA------Q-NEKSLTKRKTILFIDEIHRFNKSQQD---TFLPHVENGDITLIGATTENP  261 (554)
T ss_pred             HH------H-HHHhhhcceeEEEeHHhhhhhhhhhh---cccceeccCceEEEecccCCC
Confidence            21      1 1233457889999999943  22332   34566667777666  44443

>COG3903 Predicted ATPase [General function prediction only]

Probab=97.35  E-value=0.00037  Score=73.96  Aligned_cols=226  Identities=17%  Similarity=0.107  Sum_probs=139.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccce-eEEEEcCCCCCHHHHHHHHHHHhCCch-----hHHHHHHHhCCCc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDC-HAWVQEPYTCYADQILDIIIKFLMPSS-----RLIILHEYLMTKR  262 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~-~~wv~~s~~~~~~~~~~~i~~~l~~~~-----~~~~l~~~l~~kr  262 (821)
                      ..+-+.++|.|||||||++-.+..   +..-|.. +.+|....--+...+.-.....+....     ....+.....++|
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~---~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g~~~~~~~~~~~~~rr   89 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH---AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQPGDSAVDTLVRRIGDRR   89 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh---HhhhcccceeeeeccccCchhHhHHHHHhhcccccccchHHHHHHHHHHhhhh
Confidence            478999999999999999988886   6667765 444544443444444444444454442     1567888889999


Q ss_pred             EEEEEecCCCHH-HHHHHHHhCCCCCCCcEEEEEecchhhh------------------cccc---cccCCc--CCCCcc
Q 045113          263 YLIVIDDVWSIE-VWDIIREILPDNQNGSRVLITLAKIDTV------------------TLFQ---FENGQN--IRLDLV  318 (821)
Q Consensus       263 ~LlVlDdv~~~~-~~~~l~~~l~~~~~gs~iiiTtr~~~v~------------------~lf~---~~~~~~--~~~~~~  318 (821)
                      .++|+||...-. .-..+...+-.+...-.|+.|+|..-..                  ++|.   -.....  ....-.
T Consensus        90 ~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l~~~~~  169 (414)
T COG3903          90 ALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILVAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWLTDDNA  169 (414)
T ss_pred             HHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhcccccccccCCccccCCchhHHHHHHHHHhccceeecCCch
Confidence            999999995432 2223333444455566788888876444                  3332   000000  223345


Q ss_pred             chHHHHHHHcCCchHHHHHhhcc-------------------ccc---cc--chhccccchhHHHHhhhcCChhhHHHHh
Q 045113          319 PTGGPLRVTYQGWPFHILYHGSI-------------------SLE---EN--KREAIAKPIFLQSVAYCMLPFPLKLCCL  374 (821)
Q Consensus       319 ~~~~~i~~~c~glPLai~~~g~~-------------------~~~---~~--~~~~i~~~~~~l~~sy~~L~~~~k~cfl  374 (821)
                      ..+.+|.+...|.|++|...++.                   .++   +.  .....+   ..+.+||.-|....+--|-
T Consensus       170 a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~---asl~ws~~lLtgwe~~~~~  246 (414)
T COG3903         170 AAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLR---ASLDWSYALLTGWERALFG  246 (414)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhcc---chhhhhhHhhhhHHHHHhc
Confidence            66889999999999999988711                   000   00  344566   8999999999999888888


Q ss_pred             hcccCCCCceechhhHHHHHHHcCCCCCChHHHHHHHHHHHHhCCceeee
Q 045113          375 YLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVK  424 (821)
Q Consensus       375 ~~s~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~L~~r~ll~~~  424 (821)
                      -++.|...+...    ...|.+-|=......-....-+-.+++.+++...
T Consensus       247 rLa~~~g~f~~~----l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~  292 (414)
T COG3903         247 RLAVFVGGFDLG----LALAVAAGADVDVPRYLVLLALTLLVDKSLVVAL  292 (414)
T ss_pred             chhhhhhhhccc----HHHHHhcCCccccchHHHHHHHHHHhhccchhhh
Confidence            888888776543    2344444432100111122234455666655443

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=97.33  E-value=9.9e-05  Score=73.17  Aligned_cols=241  Identities=17%  Similarity=0.110  Sum_probs=128.1

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC----ccc-------ccccCCCCceEEeecCCCCc-c
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN----QYP-------SEIENLSLLRYLKLNIPSLK-S  555 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~----~lp-------~~i~~l~~Lr~L~L~~~~i~-~  555 (821)
                      ....+..+.++|+.........+...+.+-++|++.+++.-...    .+|       +.+-+|++|+..+||.|.+. +
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            35566777888887764344455666777788888888765422    233       34567888899999888776 4


Q ss_pred             ccHH----HHhccccceEEecCCcccccchh-h-------------hccCccCceeecCCcccCCCCCCCcCCCCCccee
Q 045113          556 LPLS----FFNYLLNLYTLDMPFSYIDHTAD-E-------------FWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFI  617 (821)
Q Consensus       556 lp~~----i~~~L~~L~~L~L~~~~l~~lp~-~-------------i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L  617 (821)
                      .|+.    |. +-+.|..|.+++|.+..+.. .             ..+-|.|+...+..|.+.. .|...         
T Consensus       108 ~~e~L~d~is-~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlen-gs~~~---------  176 (388)
T COG5238         108 FPEELGDLIS-SSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLEN-GSKEL---------  176 (388)
T ss_pred             cchHHHHHHh-cCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhcc-CcHHH---------
Confidence            4433    44 56788889888887765522 1             2334567777666665521 11100         


Q ss_pred             ccccCCcchhhhcCCCCCCCeEEEecccccc---hhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecc-cCCCCCcceE
Q 045113          618 SALYPCCCTKDLLGRLPNLRNLRIQGDLSYN---QSLLSKSLCRLSCLESLKLANESKMPRLSKIILAE-YVFPHSLTHL  693 (821)
Q Consensus       618 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~---~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~-~~~~~~L~~L  693 (821)
                              ....+..-.+|+.+.+..|....   ..-+...+..+++|+.|+|..|. ....-+.++.. +...+.|+.|
T Consensus       177 --------~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNt-ft~~gS~~La~al~~W~~lrEL  247 (388)
T COG5238         177 --------SAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNT-FTLEGSRYLADALCEWNLLREL  247 (388)
T ss_pred             --------HHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccc-hhhhhHHHHHHHhcccchhhhc
Confidence                    00001112334444444332100   11111222334445555554431 00000000100 3344556777


Q ss_pred             EEecccCCCCCccc----cc--CCCCCCEEEEeccccCCCeeee------cCCCCcccceeeeccCC
Q 045113          694 SFSNTDLMDDPMPA----LE--KLPLLQVLKLKQNSYSGRKLTC------GSDGFPRLKVLHLKSML  748 (821)
Q Consensus       694 ~L~~~~l~~~~~~~----l~--~l~~L~~L~L~~~~~~~~~~~~------~~~~~~~L~~L~L~~~~  748 (821)
                      .+..|-++......    +.  ..|+|..|...+|...+..+..      ..+..|-|..|.+.+|.
T Consensus       248 ~lnDClls~~G~~~v~~~f~e~~~p~l~~L~~~Yne~~~~~i~~~~l~~~e~~~~p~L~~le~ngNr  314 (388)
T COG5238         248 RLNDCLLSNEGVKSVLRRFNEKFVPNLMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNGNR  314 (388)
T ss_pred             cccchhhccccHHHHHHHhhhhcCCCccccccchhhhcCceeeeechhhhhhcccHHHHHHHHccCc
Confidence            77777665433322    22  3678888888877665543322      23567888888888763

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.29  E-value=0.0021  Score=69.29  Aligned_cols=117  Identities=14%  Similarity=0.161  Sum_probs=70.3

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc-cccceeEEEE--cCCCCCHHHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK-HYFDCHAWVQ--EPYTCYADQILDIIIK  243 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~-~~F~~~~wv~--~s~~~~~~~~~~~i~~  243 (821)
                      .+++|+++.++.+..++..+.  ...+-++|.+|+||||+|+.+.+.  .. ..+. ..++.  .+.......+...+..
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~--~~~~ll~G~~G~GKt~~~~~l~~~--l~~~~~~-~~~i~~~~~~~~~~~~~~~~i~~   91 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKN--MPHLLFAGPPGTGKTTAALALARE--LYGEDWR-ENFLELNASDERGIDVIRNKIKE   91 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHH--HcCCccc-cceEEeccccccchHHHHHHHHH
Confidence            458899999999999987654  456799999999999999999873  21 1221 11222  2222222222111111


Q ss_pred             HhCCchhHHHHHHH--h-CCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          244 FLMPSSRLIILHEY--L-MTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       244 ~l~~~~~~~~l~~~--l-~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                                +...  . ...+-++++|++..  ....+.+...+......+++|+++..
T Consensus        92 ----------~~~~~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~  141 (319)
T PRK00440         92 ----------FARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNY  141 (319)
T ss_pred             ----------HHhcCCCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCC
Confidence                      1111  1 13456899999864  34456666666554556777777643

>PRK08118 topology modulation protein; Reviewed

Probab=97.29  E-value=0.00012  Score=70.35  Aligned_cols=35  Identities=20%  Similarity=0.325  Sum_probs=28.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccc-cccceeEE
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVK-HYFDCHAW  225 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~-~~F~~~~w  225 (821)
                      +.|.|+|++|+||||||+.+++...+. -+||..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            468999999999999999999854444 56777775

>CHL00181 cbbX CbbX; Provisional

Probab=97.29  E-value=0.0023  Score=67.38  Aligned_cols=126  Identities=16%  Similarity=0.157  Sum_probs=66.2

Q ss_pred             CeeechhhHHHHHHHHh---c-------C---CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCH
Q 045113          168 DTVGLDDRMEELLDLLI---E-------G---PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYA  234 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~---~-------~---~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~  234 (821)
                      +++|.+..+++|.++..   -       +   ......+.++|.+|+||||+|+.+++.....+.-...-|+.++.    
T Consensus        24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~----   99 (287)
T CHL00181         24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTR----   99 (287)
T ss_pred             hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecH----
Confidence            57888887776655432   1       1   11233478899999999999999976211111111122444442    


Q ss_pred             HHHHHHHHHHhCCchhHHHHHHHhC-CCcEEEEEecCCC-----------HHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          235 DQILDIIIKFLMPSSRLIILHEYLM-TKRYLIVIDDVWS-----------IEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       235 ~~~~~~i~~~l~~~~~~~~l~~~l~-~kr~LlVlDdv~~-----------~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      .++...    ..+... ....+.+. ...-+|++|++..           .+..+.+...+.+...+.+||.++....+.
T Consensus       100 ~~l~~~----~~g~~~-~~~~~~l~~a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~  174 (287)
T CHL00181        100 DDLVGQ----YIGHTA-PKTKEVLKKAMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMD  174 (287)
T ss_pred             HHHHHH----Hhccch-HHHHHHHHHccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHH
Confidence            222222    211111 11122221 1235999999953           233455555565555566777777654443

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.28  E-value=0.0027  Score=72.55  Aligned_cols=124  Identities=13%  Similarity=0.082  Sum_probs=78.1

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc-------------------ccccceeEEE
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV-------------------KHYFDCHAWV  226 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~-------------------~~~F~~~~wv  226 (821)
                      -.++||.+...+.+..++..+. -...+-++|..|+||||+|+.+.+.-.-                   .+.|..++.+
T Consensus        14 FddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviEI   92 (702)
T PRK14960         14 FNELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIEI   92 (702)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEEe
Confidence            3469999999999999998653 2468889999999999999988762110                   1122233444


Q ss_pred             EcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          227 QEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       227 ~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      ..+...++.++ ++++..+..        .-..+++-++|+|++...  ...+.+...+.....+.++|+||.+.
T Consensus        93 DAAs~~~VddI-Reli~~~~y--------~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~  158 (702)
T PRK14960         93 DAASRTKVEDT-RELLDNVPY--------APTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDP  158 (702)
T ss_pred             cccccCCHHHH-HHHHHHHhh--------hhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECCh
Confidence            44433333332 222222110        112356678999999743  56777877777655667787777653

>PRK08181 transposase; Validated

Probab=97.27  E-value=0.00073  Score=69.94  Aligned_cols=99  Identities=14%  Similarity=0.088  Sum_probs=55.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDV  270 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv  270 (821)
                      .-+.++|.+|+|||.||.++.+  +.......++|++      ..++...+....... ....+.+.+. +-=|||+||+
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~--~a~~~g~~v~f~~------~~~L~~~l~~a~~~~-~~~~~l~~l~-~~dLLIIDDl  176 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGL--ALIENGWRVLFTR------TTDLVQKLQVARREL-QLESAIAKLD-KFDLLILDDL  176 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHH--HHHHcCCceeeee------HHHHHHHHHHHHhCC-cHHHHHHHHh-cCCEEEEecc
Confidence            4589999999999999999987  4433334456664      345555554332211 1222333332 3449999999


Q ss_pred             CCH---HHH-HHHHHhCCCCCCCcEEEEEecch
Q 045113          271 WSI---EVW-DIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       271 ~~~---~~~-~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      ...   ..+ +.+...+.....+..+||||...
T Consensus       177 g~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        177 AYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             ccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            532   222 22333332211123588888743

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.26  E-value=0.00092  Score=61.96  Aligned_cols=81  Identities=11%  Similarity=-0.008  Sum_probs=45.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHH---HHHHhCCchh---HHHHHHHhCCC-cE
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDI---IIKFLMPSSR---LIILHEYLMTK-RY  263 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~---i~~~l~~~~~---~~~l~~~l~~k-r~  263 (821)
                      ..+.|+|.+|+||||+|+.+..  ........++.+..+...........   ..........   ...+.+..+.. ..
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALAR--ELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPD   80 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHh--ccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCC
Confidence            5789999999999999999998  33333233555554443322211111   0000000111   33444444443 49


Q ss_pred             EEEEecCCCH
Q 045113          264 LIVIDDVWSI  273 (821)
Q Consensus       264 LlVlDdv~~~  273 (821)
                      +|++|+++..
T Consensus        81 viiiDei~~~   90 (148)
T smart00382       81 VLILDEITSL   90 (148)
T ss_pred             EEEEECCccc
Confidence            9999999865

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.

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.25  E-value=0.0022  Score=72.73  Aligned_cols=121  Identities=13%  Similarity=0.094  Sum_probs=72.5

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccce------------------eEEEEc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDC------------------HAWVQE  228 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~------------------~~wv~~  228 (821)
                      .+++|-+...+.+..++..+. -...+-++|.+|+||||+|+.+.+...-.+.+..                  +.++..
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~el~~   92 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVLEIDA   92 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceEEecc
Confidence            468999998888888887653 2356789999999999999998873221122222                  233333


Q ss_pred             CCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEec
Q 045113          229 PYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLA  297 (821)
Q Consensus       229 s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr  297 (821)
                      +...++..+ +++.+.+..        .-..+++-++|+|+++..  ..++.+...+........+|++|.
T Consensus        93 ~~~~~vd~i-R~l~~~~~~--------~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~  154 (504)
T PRK14963         93 ASNNSVEDV-RDLREKVLL--------APLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATT  154 (504)
T ss_pred             cccCCHHHH-HHHHHHHhh--------ccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcC
Confidence            222222221 112111110        012346679999999754  568888887776555556555554

>PRK05642 DNA replication initiation factor; Validated

Probab=97.22  E-value=0.0011  Score=67.78  Aligned_cols=90  Identities=18%  Similarity=0.245  Sum_probs=53.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEec
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDD  269 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDd  269 (821)
                      ...+.|+|..|+|||+|++++++  +....-..++|++..+      +...          ...+.+.+.+-. ++|+||
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~--~~~~~~~~v~y~~~~~------~~~~----------~~~~~~~~~~~d-~LiiDD  105 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACL--RFEQRGEPAVYLPLAE------LLDR----------GPELLDNLEQYE-LVCLDD  105 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHhCCCcEEEeeHHH------HHhh----------hHHHHHhhhhCC-EEEEec
Confidence            46789999999999999999987  3332223566775432      2211          112333333332 678999


Q ss_pred             CCCH---HHHHH-HHHhCCC-CCCCcEEEEEecc
Q 045113          270 VWSI---EVWDI-IREILPD-NQNGSRVLITLAK  298 (821)
Q Consensus       270 v~~~---~~~~~-l~~~l~~-~~~gs~iiiTtr~  298 (821)
                      +...   ..|.. +...+.. ..+|..||+|++.
T Consensus       106 i~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~  139 (234)
T PRK05642        106 LDVIAGKADWEEALFHLFNRLRDSGRRLLLAASK  139 (234)
T ss_pred             hhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCC
Confidence            9632   34543 3333331 2346778988874

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.21  E-value=0.0056  Score=67.16  Aligned_cols=124  Identities=12%  Similarity=0.056  Sum_probs=72.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCC--------CceEEEEEcCCCChHHHHHHHHhcC-----cc------------c-cccc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPP--------QLSAVTILDSIGLDKTAFAAEAYSG-----NY------------V-KHYF  220 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~--------~~~vi~i~G~gGiGKTtLa~~v~~~-----~~------------~-~~~F  220 (821)
                      .+++|-+..++.+...+..+..        -...+-++|+.|+||||+|+.+.+.     +.            + .+.+
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~h   84 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTH   84 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCC
Confidence            3588999999999999976531        3567889999999999999887541     00            0 0111


Q ss_pred             ceeEEEEcC-CCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEec
Q 045113          221 DCHAWVQEP-YTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLA  297 (821)
Q Consensus       221 ~~~~wv~~s-~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr  297 (821)
                      ....++... ....+.++ +++.+.+..        .-..+++-++++|++...  ...+.+...+.....+..+|++|.
T Consensus        85 pD~~~i~~~~~~i~i~~i-R~l~~~~~~--------~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~  155 (394)
T PRK07940         85 PDVRVVAPEGLSIGVDEV-RELVTIAAR--------RPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAP  155 (394)
T ss_pred             CCEEEeccccccCCHHHH-HHHHHHHHh--------CcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEEC
Confidence            112233221 22333332 122222111        011245558888999753  556777777766666777777666


Q ss_pred             ch
Q 045113          298 KI  299 (821)
Q Consensus       298 ~~  299 (821)
                      +.
T Consensus       156 ~~  157 (394)
T PRK07940        156 SP  157 (394)
T ss_pred             Ch
Confidence            64

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.20  E-value=0.003  Score=71.95  Aligned_cols=127  Identities=12%  Similarity=0.075  Sum_probs=77.4

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc------------------------ccccc
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV------------------------KHYFD  221 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~------------------------~~~F~  221 (821)
                      -.++||-+..++.|.+++..+. -...+-++|..|+||||+|+.+.+.-.-                        .+.|.
T Consensus        15 FddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~hp   93 (700)
T PRK12323         15 FTTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGRFV   93 (700)
T ss_pred             HHHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCCCC
Confidence            3469999999999999997653 2456788999999999999887652110                        01222


Q ss_pred             eeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEE-Eecc
Q 045113          222 CHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLI-TLAK  298 (821)
Q Consensus       222 ~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iii-Ttr~  298 (821)
                      .++++..+...+++++- ++++.+..        .-..++.-++|+|++...  ..++.+...+.....+.++|+ ||..
T Consensus        94 DviEIdAas~~gVDdIR-eLie~~~~--------~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep  164 (700)
T PRK12323         94 DYIEMDAASNRGVDEMA-QLLDKAVY--------APTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDP  164 (700)
T ss_pred             cceEecccccCCHHHHH-HHHHHHHh--------chhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCCh
Confidence            34444444333333322 12221110        112356679999999753  678888888876555666554 4444


Q ss_pred             hhhh
Q 045113          299 IDTV  302 (821)
Q Consensus       299 ~~v~  302 (821)
                      ..+.
T Consensus       165 ~kLl  168 (700)
T PRK12323        165 QKIP  168 (700)
T ss_pred             Hhhh
Confidence            4444

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.16  E-value=0.0027  Score=71.39  Aligned_cols=122  Identities=16%  Similarity=0.110  Sum_probs=70.8

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc-------------------cccceeEEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK-------------------HYFDCHAWVQ  227 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~-------------------~~F~~~~wv~  227 (821)
                      .++||.+...+.+...+..+. -...+-++|.+|+||||+|+.+.+.-.-.                   +.+...+.+.
T Consensus        14 ~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~   92 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIELD   92 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEEe
Confidence            469999888888777776553 23567899999999999999997631110                   0111233444


Q ss_pred             cCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          228 EPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       228 ~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                      .+...++.++. +|.+....        .-..+++-++|+|++...  ...+.+...+........+|++|.+
T Consensus        93 aa~~~gid~iR-~i~~~~~~--------~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn  156 (472)
T PRK14962         93 AASNRGIDEIR-KIRDAVGY--------RPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTN  156 (472)
T ss_pred             CcccCCHHHHH-HHHHHHhh--------ChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCC
Confidence            44333443332 33322111        112356679999999643  4566676666554434554444433

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

Probab=97.15  E-value=0.00055  Score=65.35  Aligned_cols=82  Identities=22%  Similarity=0.220  Sum_probs=59.6

Q ss_pred             CceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccch--hhhccCccCceeec
Q 045113          518 KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTA--DEFWKMKKLRHLNF  595 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp--~~i~~l~~L~~L~L  595 (821)
                      .....+||++|.+..++. +..++.|..|.|++|.|..+.+.+...+++|++|.|.+|++.++-  ..+..+|+|++|-+
T Consensus        42 d~~d~iDLtdNdl~~l~~-lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltl  120 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLRKLDN-LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTL  120 (233)
T ss_pred             cccceecccccchhhccc-CCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeee
Confidence            345677888888765543 566778888888888888777777756777888888888766663  24566778888876


Q ss_pred             CCccc
Q 045113          596 GSITL  600 (821)
Q Consensus       596 ~~~~~  600 (821)
                      -+|..
T Consensus       121 l~Npv  125 (233)
T KOG1644|consen  121 LGNPV  125 (233)
T ss_pred             cCCch
Confidence            66655

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.13  E-value=0.0036  Score=71.14  Aligned_cols=122  Identities=11%  Similarity=0.067  Sum_probs=77.9

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc-------------------ccccceeEEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV-------------------KHYFDCHAWVQ  227 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~-------------------~~~F~~~~wv~  227 (821)
                      .++||-+..++.+..++..+. -...+-++|..|+||||+|+.+.+.---                   .+.|..++.+.
T Consensus        16 ~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~eid   94 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEVD   94 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEEc
Confidence            469999999999999997653 2346789999999999999888762110                   11233345555


Q ss_pred             cCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          228 EPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       228 ~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                      .+....++++ +++++.+..        .-..++.-++|+|++..  ....+.+...+......+++|++|.+
T Consensus        95 aas~~~v~~i-R~l~~~~~~--------~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd  158 (509)
T PRK14958         95 AASRTKVEDT-RELLDNIPY--------APTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTD  158 (509)
T ss_pred             ccccCCHHHH-HHHHHHHhh--------ccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECC
Confidence            4444444443 233332211        11235666899999975  35677787777766666776665543

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.12  E-value=0.0047  Score=69.79  Aligned_cols=126  Identities=13%  Similarity=0.065  Sum_probs=76.6

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccc-----------------------ccee
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHY-----------------------FDCH  223 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~-----------------------F~~~  223 (821)
                      .+++|-+..++.+...+..+. -...+-++|..|+||||+|+.+++.-.-...                       ...+
T Consensus        21 ~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h~Dv   99 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHPDI   99 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCCCcE
Confidence            468999999988888776543 2457889999999999999999863111100                       0122


Q ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEE-Eecchh
Q 045113          224 AWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLI-TLAKID  300 (821)
Q Consensus       224 ~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iii-Ttr~~~  300 (821)
                      +.+......++.++.. +++...        ..-..+++-++|+|+++.  ...|+.+...+......+.+|+ ||+...
T Consensus       100 ~eidaas~~~vd~Ir~-iie~a~--------~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~k  170 (507)
T PRK06645        100 IEIDAASKTSVDDIRR-IIESAE--------YKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQK  170 (507)
T ss_pred             EEeeccCCCCHHHHHH-HHHHHH--------hccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHH
Confidence            3333333333333322 222211        011345777899999986  3678888888776666666654 445444


Q ss_pred             hh
Q 045113          301 TV  302 (821)
Q Consensus       301 v~  302 (821)
                      +.
T Consensus       171 I~  172 (507)
T PRK06645        171 IP  172 (507)
T ss_pred             hh
Confidence            44

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=97.11  E-value=0.0045  Score=71.38  Aligned_cols=124  Identities=15%  Similarity=0.134  Sum_probs=74.4

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc-------------------ccccceeEEE
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV-------------------KHYFDCHAWV  226 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~-------------------~~~F~~~~wv  226 (821)
                      -.+++|.+..++.|..++..+. -...+-++|..|+||||+|+.+.+.---                   .+.|-..+.+
T Consensus        15 FddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~DvlEi   93 (709)
T PRK08691         15 FADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLLEI   93 (709)
T ss_pred             HHHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceEEE
Confidence            3479999999999999988653 2457889999999999999888762100                   0112222344


Q ss_pred             EcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          227 QEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       227 ~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      ..+....+..+ +++++....        .-..+++-++|+|++...  ...+.+...+.......++|++|.+.
T Consensus        94 daAs~~gVd~I-Relle~a~~--------~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~  159 (709)
T PRK08691         94 DAASNTGIDNI-REVLENAQY--------APTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDP  159 (709)
T ss_pred             eccccCCHHHH-HHHHHHHHh--------hhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCc
Confidence            43333333322 222221110        012246678999999753  34666666665544456777666543

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.11  E-value=0.0025  Score=66.38  Aligned_cols=45  Identities=20%  Similarity=0.149  Sum_probs=33.4

Q ss_pred             CeeechhhHHHHHHHHhc-------------CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          168 DTVGLDDRMEELLDLLIE-------------GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~-------------~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .++|.+..+++|.+....             ..+...-+.++|.+|+||||+|+.+++
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~   64 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGK   64 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHH
Confidence            478988888777544321             123456678999999999999999976

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.

>PRK06921 hypothetical protein; Provisional

Probab=97.10  E-value=0.002  Score=66.97  Aligned_cols=120  Identities=14%  Similarity=0.096  Sum_probs=65.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccc-cceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEe
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHY-FDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVID  268 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~-F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlD  268 (821)
                      ..-+.++|..|+|||+||.++.+  ++... -..+++++.      .++...+....   .......+.+. +-=|||||
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~--~l~~~~g~~v~y~~~------~~l~~~l~~~~---~~~~~~~~~~~-~~dlLiID  184 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAAN--ELMRKKGVPVLYFPF------VEGFGDLKDDF---DLLEAKLNRMK-KVEVLFID  184 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH--HHhhhcCceEEEEEH------HHHHHHHHHHH---HHHHHHHHHhc-CCCEEEEe
Confidence            56789999999999999999998  44443 345667664      23333332221   11122223333 34599999


Q ss_pred             cCCC-------HHHHH--HHHHhCCC-CCCCcEEEEEecchhhhcccccccCCcCCCCccchHHHHHHHcCCc
Q 045113          269 DVWS-------IEVWD--IIREILPD-NQNGSRVLITLAKIDTVTLFQFENGQNIRLDLVPTGGPLRVTYQGW  331 (821)
Q Consensus       269 dv~~-------~~~~~--~l~~~l~~-~~~gs~iiiTtr~~~v~~lf~~~~~~~~~~~~~~~~~~i~~~c~gl  331 (821)
                      |+..       ..+|.  .+...+.. -..+..+||||...-- ++..         --+.++..|+..|.+.
T Consensus       185 Dl~~~~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~~~~-el~~---------~~~~l~sRi~~r~~~~  247 (266)
T PRK06921        185 DLFKPVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSELTID-ELLD---------IDEALGSRIVEMCKDY  247 (266)
T ss_pred             ccccccCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECCCCHH-HHhh---------hhhHHHHHHHHhccCe
Confidence            9922       12443  23333321 1124557888863211 1111         0146677777777654

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.10  E-value=0.0015  Score=66.88  Aligned_cols=91  Identities=18%  Similarity=0.264  Sum_probs=50.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEec
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDD  269 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDd  269 (821)
                      ...+.|+|..|+|||+|++.+++  .....-..+.++.+.....   .             ...+.+.+.. --+|++||
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~--~~~~~~~~v~y~~~~~~~~---~-------------~~~~~~~~~~-~dlliiDd  105 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACA--ELSQRGRAVGYVPLDKRAW---F-------------VPEVLEGMEQ-LSLVCIDN  105 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHhCCCeEEEEEHHHHhh---h-------------hHHHHHHhhh-CCEEEEeC
Confidence            46889999999999999999998  3333333456665543110   0             0111122211 23789999


Q ss_pred             CCCH---HHHHH-HHHhCCC-CCCC-cEEEEEecch
Q 045113          270 VWSI---EVWDI-IREILPD-NQNG-SRVLITLAKI  299 (821)
Q Consensus       270 v~~~---~~~~~-l~~~l~~-~~~g-s~iiiTtr~~  299 (821)
                      +...   ..|+. +...+.. ...| .++|+||+..
T Consensus       106 i~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~  141 (235)
T PRK08084        106 IECIAGDELWEMAIFDLYNRILESGRTRLLITGDRP  141 (235)
T ss_pred             hhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCC
Confidence            9642   34542 2222221 1123 4799998843

>PRK10536 hypothetical protein; Provisional

Probab=97.10  E-value=0.0042  Score=62.92  Aligned_cols=126  Identities=10%  Similarity=0.135  Sum_probs=72.1

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEE----cCCC--C---CHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQ----EPYT--C---YADQ  236 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~----~s~~--~---~~~~  236 (821)
                      ...+.++......++.+|...    .+|.+.|.+|.|||+||.++..+.-..+.|+..+-+.    +.+.  |   +..+
T Consensus        54 ~~~i~p~n~~Q~~~l~al~~~----~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~~~e  129 (262)
T PRK10536         54 TSPILARNEAQAHYLKAIESK----QLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGDIAE  129 (262)
T ss_pred             CccccCCCHHHHHHHHHHhcC----CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCCHHH
Confidence            345778999999999988763    3999999999999999998776422234455444331    1111  0   1211


Q ss_pred             H----HHHHHHHhC---CchhHHHH------------HHHhCCCcE---EEEEecCCCHHHHHHHHHhCCCCCCCcEEEE
Q 045113          237 I----LDIIIKFLM---PSSRLIIL------------HEYLMTKRY---LIVIDDVWSIEVWDIIREILPDNQNGSRVLI  294 (821)
Q Consensus       237 ~----~~~i~~~l~---~~~~~~~l------------~~~l~~kr~---LlVlDdv~~~~~~~~l~~~l~~~~~gs~iii  294 (821)
                      -    ...+.+.+.   .....+.+            -.++++..+   +||+|...+... ..+...+..-+.+||||+
T Consensus       130 K~~p~~~pi~D~L~~~~~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~-~~~k~~ltR~g~~sk~v~  208 (262)
T PRK10536        130 KFAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTA-AQMKMFLTRLGENVTVIV  208 (262)
T ss_pred             HHHHHHHHHHHHHHHHhChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCH-HHHHHHHhhcCCCCEEEE
Confidence            1    111111111   11111211            124555544   999999976432 344444444567899987


Q ss_pred             Ee
Q 045113          295 TL  296 (821)
Q Consensus       295 Tt  296 (821)
                      |=
T Consensus       209 ~G  210 (262)
T PRK10536        209 NG  210 (262)
T ss_pred             eC
Confidence            74

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.09  E-value=0.0029  Score=71.14  Aligned_cols=50  Identities=22%  Similarity=0.221  Sum_probs=39.1

Q ss_pred             CCCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          164 FKNRDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ..-.++.|.+..+++|.+.+..+           -...+-+-++|.+|+|||++|+++++.
T Consensus       179 v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~e  239 (512)
T TIGR03689       179 VTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANS  239 (512)
T ss_pred             CCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHh
Confidence            33456889999999998887531           123456889999999999999999983

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.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.09  E-value=0.0044  Score=70.92  Aligned_cols=122  Identities=13%  Similarity=0.120  Sum_probs=75.5

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc-------------------ccccceeEEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV-------------------KHYFDCHAWVQ  227 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~-------------------~~~F~~~~wv~  227 (821)
                      .+++|-+..++.+..++..+. -...+-++|..|+||||+|+.+.+.---                   .+.|...+++.
T Consensus        16 ~divGq~~v~~~L~~~i~~~~-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei~   94 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQR-LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEVD   94 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEee
Confidence            468999999999998887653 2356779999999999999888652100                   01233344454


Q ss_pred             cCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          228 EPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       228 ~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                      .+....+.++ +++++.+..        .-..+++-++|+|++...  ...+.+...+......+.+|++|.+
T Consensus        95 ~~~~~~vd~i-r~l~~~~~~--------~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d  158 (527)
T PRK14969         95 AASNTQVDAM-RELLDNAQY--------APTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTD  158 (527)
T ss_pred             ccccCCHHHH-HHHHHHHhh--------CcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCC
Confidence            3333333332 233322111        012356779999999754  4577787777765556666665543

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.09  E-value=0.0023  Score=65.23  Aligned_cols=114  Identities=13%  Similarity=0.082  Sum_probs=63.1

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCc-hhHHHH
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPS-SRLIIL  254 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~-~~~~~l  254 (821)
                      +..+.++...-......+.++|.+|+|||+||.++.+  .....-..+++++      ..++...+-...... .....+
T Consensus        85 l~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~--~l~~~g~~v~~it------~~~l~~~l~~~~~~~~~~~~~~  156 (244)
T PRK07952         85 LSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICN--ELLLRGKSVLIIT------VADIMSAMKDTFSNSETSEEQL  156 (244)
T ss_pred             HHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHH--HHHhcCCeEEEEE------HHHHHHHHHHHHhhccccHHHH
Confidence            4444444433232345788999999999999999998  4433334556663      445555444433211 113345


Q ss_pred             HHHhCCCcEEEEEecCCCH--HHHHH--HHHhCCC-CCCCcEEEEEecc
Q 045113          255 HEYLMTKRYLIVIDDVWSI--EVWDI--IREILPD-NQNGSRVLITLAK  298 (821)
Q Consensus       255 ~~~l~~kr~LlVlDdv~~~--~~~~~--l~~~l~~-~~~gs~iiiTtr~  298 (821)
                      .+.+. +.=+||+||+...  .+|+.  +...+.. -...-.+||||..
T Consensus       157 l~~l~-~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl  204 (244)
T PRK07952        157 LNDLS-NVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNS  204 (244)
T ss_pred             HHHhc-cCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence            55565 3458888999643  34542  2222221 1123457777763

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.08  E-value=0.0049  Score=69.07  Aligned_cols=122  Identities=15%  Similarity=0.131  Sum_probs=77.6

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC------cc------------cc-cccceeEEE
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG------NY------------VK-HYFDCHAWV  226 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~------~~------------~~-~~F~~~~wv  226 (821)
                      -.++||-+...+.+...+..+. -...+-++|..|+||||+|+.+.+.      +.            +. +.+..++.+
T Consensus        12 f~dliGQe~vv~~L~~a~~~~r-i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~ei   90 (491)
T PRK14964         12 FKDLVGQDVLVRILRNAFTLNK-IPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEI   90 (491)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEE
Confidence            3568999988888888776653 2347889999999999999888641      00            11 122344566


Q ss_pred             EcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEec
Q 045113          227 QEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLA  297 (821)
Q Consensus       227 ~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr  297 (821)
                      ..+...++.++- +|++....        .-..+++-++|+|++..  ....+.+...+....+.+++|++|.
T Consensus        91 daas~~~vddIR-~Iie~~~~--------~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatt  154 (491)
T PRK14964         91 DAASNTSVDDIK-VILENSCY--------LPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATT  154 (491)
T ss_pred             ecccCCCHHHHH-HHHHHHHh--------ccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeC
Confidence            665555555433 23322110        01234666899999964  3567888888777666777766654

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

Probab=97.05  E-value=0.0028  Score=63.96  Aligned_cols=121  Identities=13%  Similarity=0.184  Sum_probs=69.7

Q ss_pred             Ceeec-hhhHHHHHHHHhc-CCCCceEEEEEcCCCChHHHHHHHHhcCccccccc-c-eeEEEEcCCCCCHHHHHHHHHH
Q 045113          168 DTVGL-DDRMEELLDLLIE-GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF-D-CHAWVQEPYTCYADQILDIIIK  243 (821)
Q Consensus       168 ~~vGr-~~~~~~i~~~L~~-~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F-~-~~~wv~~s~~~~~~~~~~~i~~  243 (821)
                      -++|- ....-...+.+.. ++.....+-|+|..|+|||+|.+++++  ++.+.. . .++++      +..++...+..
T Consensus        10 fv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~--~~~~~~~~~~v~y~------~~~~f~~~~~~   81 (219)
T PF00308_consen   10 FVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIAN--EAQKQHPGKRVVYL------SAEEFIREFAD   81 (219)
T ss_dssp             S--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHH--HHHHHCTTS-EEEE------EHHHHHHHHHH
T ss_pred             CCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHH--HHHhccccccceee------cHHHHHHHHHH
Confidence            34564 3333344444444 343466789999999999999999998  554332 2 34555      34556666655


Q ss_pred             HhCCchhHHHHHHHhCCCcEEEEEecCCCH---HHHH-HHHHhCCC-CCCCcEEEEEecc
Q 045113          244 FLMPSSRLIILHEYLMTKRYLIVIDDVWSI---EVWD-IIREILPD-NQNGSRVLITLAK  298 (821)
Q Consensus       244 ~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~---~~~~-~l~~~l~~-~~~gs~iiiTtr~  298 (821)
                      .+.. .....+.+.+.+ -=+|++||+...   ..|. .+...+.. ...|-+||+|++.
T Consensus        82 ~~~~-~~~~~~~~~~~~-~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~  139 (219)
T PF00308_consen   82 ALRD-GEIEEFKDRLRS-ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDR  139 (219)
T ss_dssp             HHHT-TSHHHHHHHHCT-SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS
T ss_pred             HHHc-ccchhhhhhhhc-CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCC
Confidence            5544 224556666663 347889999642   2333 22222221 2346789999863

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.

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

Probab=97.05  E-value=0.00012  Score=83.99  Aligned_cols=81  Identities=21%  Similarity=0.159  Sum_probs=44.6

Q ss_pred             cCCCCCcceEEEecccCCCCC-cccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeec-ccc-c
Q 045113          684 YVFPHSLTHLSFSNTDLMDDP-MPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMG-TGA-M  760 (821)
Q Consensus       684 ~~~~~~L~~L~L~~~~l~~~~-~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~-~~~-l  760 (821)
                      ...+++|+.+.+..|...... ...+.++|+|. ..+..          ....+..++.|.+..|.....-... ... +
T Consensus       358 ~~~~~~l~~~~l~~~~~~~~~~~~~l~gc~~l~-~~l~~----------~~~~~~~l~~L~l~~~~~~t~~~l~~~~~~~  426 (482)
T KOG1947|consen  358 LRSCPKLTDLSLSYCGISDLGLELSLRGCPNLT-ESLEL----------RLCRSDSLRVLNLSDCRLVTDKGLRCLADSC  426 (482)
T ss_pred             HhcCCCcchhhhhhhhccCcchHHHhcCCcccc-hHHHH----------HhccCCccceEecccCccccccchHHHhhhh
Confidence            345777777777777643333 24556677663 22220          0122233788888887655422111 111 6


Q ss_pred             cccceeEEeecCCCC
Q 045113          761 PKLECLIINPCAYLK  775 (821)
Q Consensus       761 ~~L~~L~i~~c~~l~  775 (821)
                      ..+..+.+.+|+...
T Consensus       427 ~~~~~l~~~~~~~~~  441 (482)
T KOG1947|consen  427 SNLKDLDLSGCRVIT  441 (482)
T ss_pred             hccccCCccCccccc
Confidence            677888888887654

>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=97.04  E-value=0.0021  Score=59.05  Aligned_cols=21  Identities=19%  Similarity=0.143  Sum_probs=19.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |-|+|.+|+||||+|+.+.+.
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            568999999999999999983

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 ....

>PRK06526 transposase; Provisional

Probab=97.03  E-value=0.0011  Score=68.17  Aligned_cols=99  Identities=17%  Similarity=0.118  Sum_probs=51.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEec
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDD  269 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDd  269 (821)
                      -.-+.++|.+|+|||+||..+.+... ...+ .+.|+      +..++...+........-...+.+ + .+.-+||+||
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~-~~g~-~v~f~------t~~~l~~~l~~~~~~~~~~~~l~~-l-~~~dlLIIDD  167 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRAC-QAGH-RVLFA------TAAQWVARLAAAHHAGRLQAELVK-L-GRYPLLIVDE  167 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHH-HCCC-chhhh------hHHHHHHHHHHHHhcCcHHHHHHH-h-ccCCEEEEcc
Confidence            34689999999999999999987321 1222 23333      334455554433211111222222 2 2345899999


Q ss_pred             CCCH---HHH-HHHHHhCCC-CCCCcEEEEEecch
Q 045113          270 VWSI---EVW-DIIREILPD-NQNGSRVLITLAKI  299 (821)
Q Consensus       270 v~~~---~~~-~~l~~~l~~-~~~gs~iiiTtr~~  299 (821)
                      +...   ..+ +.+...+.. ...++ +|+||...
T Consensus       168 ~g~~~~~~~~~~~L~~li~~r~~~~s-~IitSn~~  201 (254)
T PRK06526        168 VGYIPFEPEAANLFFQLVSSRYERAS-LIVTSNKP  201 (254)
T ss_pred             cccCCCCHHHHHHHHHHHHHHHhcCC-EEEEcCCC
Confidence            9632   122 122222221 12244 88888743

>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=97.01  E-value=0.0016  Score=65.58  Aligned_cols=36  Identities=22%  Similarity=0.337  Sum_probs=30.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQE  228 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~  228 (821)
                      -.++|+|..|+|||||+..+..  ...+.|+.+++++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~--~~~~~f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLY--YLRHKFDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHH--hhcccCCEEEEEec
Confidence            4678999999999999999987  57788977777654

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

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=97.00  E-value=0.0042  Score=70.35  Aligned_cols=103  Identities=14%  Similarity=0.125  Sum_probs=63.9

Q ss_pred             CCCCeeechhhHHHHHHHHhcC----CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHH
Q 045113          165 KNRDTVGLDDRMEELLDLLIEG----PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDI  240 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~----~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~  240 (821)
                      -+.+-+|.++.+++|+++|.-.    .-.-.++++||++|||||.|++.|.+  .....|-   -+++..-.|..+|-..
T Consensus       321 Ld~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~--al~Rkfv---R~sLGGvrDEAEIRGH  395 (782)
T COG0466         321 LDKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAK--ALGRKFV---RISLGGVRDEAEIRGH  395 (782)
T ss_pred             hcccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHH--HhCCCEE---EEecCccccHHHhccc
Confidence            3567899999999999999642    33457999999999999999999998  5665552   2233333333322111


Q ss_pred             HHHHhCCchh-HHHHHHHhCCCcEEEEEecCCC
Q 045113          241 IIKFLMPSSR-LIILHEYLMTKRYLIVIDDVWS  272 (821)
Q Consensus       241 i~~~l~~~~~-~~~l~~~l~~kr~LlVlDdv~~  272 (821)
                      =-.-++.... .-.-.+..+.++=+++||.++.
T Consensus       396 RRTYIGamPGrIiQ~mkka~~~NPv~LLDEIDK  428 (782)
T COG0466         396 RRTYIGAMPGKIIQGMKKAGVKNPVFLLDEIDK  428 (782)
T ss_pred             cccccccCChHHHHHHHHhCCcCCeEEeechhh
Confidence            0000000000 1111223356788999999974

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=96.98  E-value=0.0047  Score=71.46  Aligned_cols=124  Identities=14%  Similarity=0.108  Sum_probs=75.0

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc-------------------cccceeEEE
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK-------------------HYFDCHAWV  226 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~-------------------~~F~~~~wv  226 (821)
                      -.++||-+..++.+...+..+. -...+-++|..|+||||+|+.+.+.---.                   +.|...+.+
T Consensus        15 f~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~iei   93 (647)
T PRK07994         15 FAEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDLIEI   93 (647)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCceee
Confidence            3469999999999988887654 23557899999999999999887631110                   112122333


Q ss_pred             EcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          227 QEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       227 ~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      ..+....++++ ++|.+.+.        ..-..+++-++|+|++..  ....+.+...+.......++|.+|.+.
T Consensus        94 daas~~~Vddi-R~li~~~~--------~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~  159 (647)
T PRK07994         94 DAASRTKVEDT-RELLDNVQ--------YAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDP  159 (647)
T ss_pred             cccccCCHHHH-HHHHHHHH--------hhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCc
Confidence            33322233322 22222211        111246777999999964  367788877777655566655554443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.96  E-value=0.0051  Score=70.97  Aligned_cols=122  Identities=11%  Similarity=0.119  Sum_probs=73.4

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc------------------------ccccce
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV------------------------KHYFDC  222 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~------------------------~~~F~~  222 (821)
                      .++||-+..++.+..++..+. -...+-++|..|+||||+|+.+.+.---                        .+.|..
T Consensus        16 ~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g~h~D   94 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSGRFVD   94 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcCCCCc
Confidence            468998888888888887653 2467789999999999999888431000                        011222


Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          223 HAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       223 ~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                      ++++..+...+++++ +++++.+..        .-..++.-++|+|++..  ...++.+...+.......++|++|.+
T Consensus        95 ~~eldaas~~~Vd~i-Reli~~~~~--------~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd  163 (618)
T PRK14951         95 YTELDAASNRGVDEV-QQLLEQAVY--------KPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTD  163 (618)
T ss_pred             eeecCcccccCHHHH-HHHHHHHHh--------CcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECC
Confidence            333433333333332 222222110        01124555899999975  36788888888765556666655533

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=96.96  E-value=0.005  Score=61.61  Aligned_cols=118  Identities=13%  Similarity=0.197  Sum_probs=69.7

Q ss_pred             CCCCCCeeechhhHHHHHHHHh---cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC--CCHHHH
Q 045113          163 SFKNRDTVGLDDRMEELLDLLI---EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT--CYADQI  237 (821)
Q Consensus       163 ~~~~~~~vGr~~~~~~i~~~L~---~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~--~~~~~~  237 (821)
                      .+.-..++|.|..++.|++=-.   .+. ...-+-+||..|.|||++++++.+...-.+ . ..  |.|++.  .++.  
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~-pannvLL~G~rGtGKSSlVkall~~y~~~G-L-Rl--Iev~k~~L~~l~--   95 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQGL-PANNVLLWGARGTGKSSLVKALLNEYADQG-L-RL--IEVSKEDLGDLP--   95 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcCC-CCcceEEecCCCCCHHHHHHHHHHHHhhcC-c-eE--EEECHHHhccHH--
Confidence            3455689999999988765332   232 245566799999999999999998321111 1 12  222221  2333  


Q ss_pred             HHHHHHHhCCchhHHHHHHHh--CCCcEEEEEecCC---CHHHHHHHHHhCCC---CCCCc-EEEEEecchhhh
Q 045113          238 LDIIIKFLMPSSRLIILHEYL--MTKRYLIVIDDVW---SIEVWDIIREILPD---NQNGS-RVLITLAKIDTV  302 (821)
Q Consensus       238 ~~~i~~~l~~~~~~~~l~~~l--~~kr~LlVlDdv~---~~~~~~~l~~~l~~---~~~gs-~iiiTtr~~~v~  302 (821)
                                     .|.+.+  ...||+|.+||+.   +......++..+..   ..+.. .|..||..++..
T Consensus        96 ---------------~l~~~l~~~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv  154 (249)
T PF05673_consen   96 ---------------ELLDLLRDRPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLV  154 (249)
T ss_pred             ---------------HHHHHHhcCCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhcc
Confidence                           333333  3589999999995   23456777766653   22333 344455444443

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=96.96  E-value=0.0053  Score=69.98  Aligned_cols=121  Identities=13%  Similarity=0.111  Sum_probs=71.7

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc--------------------cccceeEE
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK--------------------HYFDCHAW  225 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~--------------------~~F~~~~w  225 (821)
                      -.+++|.+..++.+...+..+. -...+-++|+.|+||||+|+.+.+.-.-.                    .|. ..++
T Consensus        15 F~dIIGQe~iv~~L~~aI~~~r-l~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~-Diie   92 (605)
T PRK05896         15 FKQIIGQELIKKILVNAILNNK-LTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSV-DIVE   92 (605)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCC-ceEE
Confidence            3468999999999999887653 23578899999999999999887621000                    011 1233


Q ss_pred             EEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEec
Q 045113          226 VQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLA  297 (821)
Q Consensus       226 v~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr  297 (821)
                      +..+....+.++ +++...+..       .. ..+++-++|+|++..  ...++.+...+........+|++|.
T Consensus        93 Idaas~igVd~I-ReIi~~~~~-------~P-~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt  157 (605)
T PRK05896         93 LDAASNNGVDEI-RNIIDNINY-------LP-TTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATT  157 (605)
T ss_pred             eccccccCHHHH-HHHHHHHHh-------ch-hhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECC
Confidence            433222333322 222222111       00 123344699999964  4567778777765555566665553

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=96.96  E-value=0.0047  Score=65.03  Aligned_cols=123  Identities=15%  Similarity=0.154  Sum_probs=63.7

Q ss_pred             CeeechhhHHHHHHHHhc----------C---CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCH
Q 045113          168 DTVGLDDRMEELLDLLIE----------G---PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYA  234 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~----------~---~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~  234 (821)
                      .++|.+..+++|.++...          +   .....-+-++|.+|+||||+|+.+..-..-.+......|+.++.    
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----   98 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR----   98 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH----
Confidence            478888877776554321          1   01123577999999999999977765211111111223444442    


Q ss_pred             HHHHHHHHHHhCCchhHHHHHHHhC-CCcEEEEEecCCC-----------HHHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          235 DQILDIIIKFLMPSSRLIILHEYLM-TKRYLIVIDDVWS-----------IEVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       235 ~~~~~~i~~~l~~~~~~~~l~~~l~-~kr~LlVlDdv~~-----------~~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      .++    ...+.+... ..+.+.+. ...-+|+||++..           .+.++.+...+.....+-+||.++...
T Consensus        99 ~~l----~~~~~g~~~-~~~~~~~~~a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~  170 (284)
T TIGR02880        99 DDL----VGQYIGHTA-PKTKEILKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKD  170 (284)
T ss_pred             HHH----hHhhcccch-HHHHHHHHHccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcH
Confidence            122    222222111 11222221 1346899999852           233455666665555556666666543

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.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.96  E-value=0.0057  Score=67.82  Aligned_cols=46  Identities=24%  Similarity=0.195  Sum_probs=38.3

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|-+..+..+..++..+. -...+-++|..|+||||+|+.+.+
T Consensus        17 f~dvVGQe~iv~~L~~~i~~~r-i~ha~Lf~GP~GtGKTTlAriLAk   62 (484)
T PRK14956         17 FRDVIHQDLAIGALQNALKSGK-IGHAYIFFGPRGVGKTTIARILAK   62 (484)
T ss_pred             HHHHhChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999888887764 224678999999999999999987

>PRK09183 transposase/IS protein; Provisional

Probab=96.95  E-value=0.0022  Score=66.47  Aligned_cols=99  Identities=15%  Similarity=0.137  Sum_probs=50.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEec
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDD  269 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDd  269 (821)
                      -..+.|+|.+|+|||+||..+.+.  ....-..+.++.      ..++...+........-...+.+. -.+.-++|+||
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~--a~~~G~~v~~~~------~~~l~~~l~~a~~~~~~~~~~~~~-~~~~dlLiiDd  172 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYE--AVRAGIKVRFTT------AADLLLQLSTAQRQGRYKTTLQRG-VMAPRLLIIDE  172 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHH--HHHcCCeEEEEe------HHHHHHHHHHHHHCCcHHHHHHHH-hcCCCEEEEcc
Confidence            346779999999999999999763  221112233443      333443332221111101222222 23456999999


Q ss_pred             CCCH----HHHHHHHHhCCC-CCCCcEEEEEecc
Q 045113          270 VWSI----EVWDIIREILPD-NQNGSRVLITLAK  298 (821)
Q Consensus       270 v~~~----~~~~~l~~~l~~-~~~gs~iiiTtr~  298 (821)
                      +...    ...+.+...+.. -..++ +||||..
T Consensus       173 lg~~~~~~~~~~~lf~li~~r~~~~s-~iiTsn~  205 (259)
T PRK09183        173 IGYLPFSQEEANLFFQVIAKRYEKGS-MILTSNL  205 (259)
T ss_pred             cccCCCChHHHHHHHHHHHHHHhcCc-EEEecCC
Confidence            9642    221223222221 12344 8888863

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

Probab=96.93  E-value=0.022  Score=59.03  Aligned_cols=106  Identities=15%  Similarity=0.136  Sum_probs=74.1

Q ss_pred             CCCeeec---hhhHHHHHHHHhcC-CCCceEEEEEcCCCChHHHHHHHHhcCcccc-----cccceeEEEEcCCCCCHHH
Q 045113          166 NRDTVGL---DDRMEELLDLLIEG-PPQLSAVTILDSIGLDKTAFAAEAYSGNYVK-----HYFDCHAWVQEPYTCYADQ  236 (821)
Q Consensus       166 ~~~~vGr---~~~~~~i~~~L~~~-~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~-----~~F~~~~wv~~s~~~~~~~  236 (821)
                      .+..||-   ...++++.++|..+ ..+..-+.|||-.|.|||++++.+....-..     ..+ .++.|.....++...
T Consensus        33 ~~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~-PVv~vq~P~~p~~~~  111 (302)
T PF05621_consen   33 ADRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERI-PVVYVQMPPEPDERR  111 (302)
T ss_pred             cCCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccc-cEEEEecCCCCChHH
Confidence            3445664   34445556666554 3457889999999999999999998642211     111 577788888999999


Q ss_pred             HHHHHHHHhCCchh--------HHHHHHHhCC-CcEEEEEecCCC
Q 045113          237 ILDIIIKFLMPSSR--------LIILHEYLMT-KRYLIVIDDVWS  272 (821)
Q Consensus       237 ~~~~i~~~l~~~~~--------~~~l~~~l~~-kr~LlVlDdv~~  272 (821)
                      +...|+.+++.+..        ...+...++. +--+||+|.+-+
T Consensus       112 ~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~  156 (302)
T PF05621_consen  112 FYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHN  156 (302)
T ss_pred             HHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHH
Confidence            99999999998742        2333455543 455899999964

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

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.92  E-value=0.0064  Score=67.43  Aligned_cols=120  Identities=12%  Similarity=0.068  Sum_probs=70.5

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc----------------------------
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK----------------------------  217 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~----------------------------  217 (821)
                      -.+++|.+..++.+..++..+. -...+-++|+.|+||||+|..+.+.-.-.                            
T Consensus        15 ~~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~   93 (397)
T PRK14955         15 FADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFDAG   93 (397)
T ss_pred             HhhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHhcC
Confidence            3468999998888888887653 23468899999999999998877521100                            


Q ss_pred             cccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEE
Q 045113          218 HYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLIT  295 (821)
Q Consensus       218 ~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiT  295 (821)
                      .+++... +..+....+.++. ++.+.+..        .-..+++-++|+|++..  ...++.+...+......+.+|++
T Consensus        94 ~~~n~~~-~~~~~~~~id~Ir-~l~~~~~~--------~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~  163 (397)
T PRK14955         94 TSLNISE-FDAASNNSVDDIR-LLRENVRY--------GPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFA  163 (397)
T ss_pred             CCCCeEe-ecccccCCHHHHH-HHHHHHhh--------chhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEE
Confidence            1122111 1111111222221 12221110        01234566889999964  35788888888766667776655


Q ss_pred             e
Q 045113          296 L  296 (821)
Q Consensus       296 t  296 (821)
                      |
T Consensus       164 t  164 (397)
T PRK14955        164 T  164 (397)
T ss_pred             e
Confidence            5

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=96.89  E-value=0.0045  Score=69.39  Aligned_cols=99  Identities=18%  Similarity=0.263  Sum_probs=59.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccccccc-c-eeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEE
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYF-D-CHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVI  267 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F-~-~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVl  267 (821)
                      ...+-|+|.+|+|||+|++++.+  ++...+ . .++|++.      .++..++...+.... ...+.+.+..+.-+|++
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~--~l~~~~~~~~v~yi~~------~~f~~~~~~~~~~~~-~~~f~~~~~~~~dvLlI  200 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGN--YVVQNEPDLRVMYITS------EKFLNDLVDSMKEGK-LNEFREKYRKKVDVLLI  200 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHH--HHHHhCCCCeEEEEEH------HHHHHHHHHHHhccc-HHHHHHHHHhcCCEEEE
Confidence            45699999999999999999998  454433 3 4566643      455566665554321 33444444445568999


Q ss_pred             ecCCCH---HHH-HHHHHhCCC-CCCCcEEEEEec
Q 045113          268 DDVWSI---EVW-DIIREILPD-NQNGSRVLITLA  297 (821)
Q Consensus       268 Ddv~~~---~~~-~~l~~~l~~-~~~gs~iiiTtr  297 (821)
                      ||+...   ..+ +.+...+.. ...|..||+||.
T Consensus       201 DDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd  235 (440)
T PRK14088        201 DDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSD  235 (440)
T ss_pred             echhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECC
Confidence            999632   111 223222221 122456888875

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

Probab=96.87  E-value=0.0031  Score=65.03  Aligned_cols=75  Identities=17%  Similarity=0.080  Sum_probs=48.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEe
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVID  268 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlD  268 (821)
                      +..-+.++|.+|+|||.||.++.+  ++...=-.+.++      +..++..++............+.+.++. -=|||||
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~--~l~~~g~sv~f~------~~~el~~~Lk~~~~~~~~~~~l~~~l~~-~dlLIiD  174 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGN--ELLKAGISVLFI------TAPDLLSKLKAAFDEGRLEEKLLRELKK-VDLLIID  174 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHH--HHHHcCCeEEEE------EHHHHHHHHHHHHhcCchHHHHHHHhhc-CCEEEEe
Confidence            466789999999999999999999  454322345555      3455666666555542223344443433 2388999


Q ss_pred             cCCC
Q 045113          269 DVWS  272 (821)
Q Consensus       269 dv~~  272 (821)
                      |+-.
T Consensus       175 DlG~  178 (254)
T COG1484         175 DIGY  178 (254)
T ss_pred             cccC
Confidence            9964

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=96.85  E-value=0.012  Score=64.54  Aligned_cols=123  Identities=14%  Similarity=0.133  Sum_probs=73.9

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcc---c-----------------ccccceeEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNY---V-----------------KHYFDCHAWV  226 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~---~-----------------~~~F~~~~wv  226 (821)
                      .+++|.+..++.+.+.+..+. -...+-++|.+|+||||+|+.+...-.   .                 ..+|+. +++
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~-~~~   91 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV-IEI   91 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE-EEe
Confidence            468999999999999887653 235678899999999999988765210   0                 013333 344


Q ss_pred             EcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          227 QEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       227 ~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      ..+...++.. .+++...+..        .-..+++-++|+|++...  ...+.+...+......+.+|++|.+..
T Consensus        92 ~~~~~~~~~~-~~~l~~~~~~--------~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~  158 (355)
T TIGR02397        92 DAASNNGVDD-IREILDNVKY--------APSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPH  158 (355)
T ss_pred             eccccCCHHH-HHHHHHHHhc--------CcccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHH
Confidence            3332222222 1222222111        012245568899998543  567777777765555677777765443

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.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=96.83  E-value=0.002  Score=70.04  Aligned_cols=47  Identities=21%  Similarity=0.164  Sum_probs=37.9

Q ss_pred             CCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          165 KNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+++|-+...+.+.+.+..+. -...+-++|..|+||+|+|..+.+
T Consensus        17 ~~~~iiGq~~~~~~L~~~~~~~r-l~HA~Lf~Gp~G~GK~~lA~~~A~   63 (365)
T PRK07471         17 ETTALFGHAAAEAALLDAYRSGR-LHHAWLIGGPQGIGKATLAYRMAR   63 (365)
T ss_pred             chhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHH
Confidence            45679999999999999888763 244688999999999999866554

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=96.81  E-value=0.0046  Score=69.39  Aligned_cols=101  Identities=18%  Similarity=0.282  Sum_probs=60.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccccccc--ceeEEEEcCCCCCHHHHHHHHHHHhCCch-hHHHHHHHhCCCcEEEE
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYF--DCHAWVQEPYTCYADQILDIIIKFLMPSS-RLIILHEYLMTKRYLIV  266 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F--~~~~wv~~s~~~~~~~~~~~i~~~l~~~~-~~~~l~~~l~~kr~LlV  266 (821)
                      ...+-|+|..|+|||+|++++.+  .+....  ..++++      +..++...+...+.... ....+.+.++. .-+||
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~--~l~~~~~~~~v~yv------~~~~f~~~~~~~l~~~~~~~~~~~~~~~~-~dvLi  211 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKN--YIESNFSDLKVSYM------SGDEFARKAVDILQKTHKEIEQFKNEICQ-NDVLI  211 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHH--HHHHhCCCCeEEEE------EHHHHHHHHHHHHHHhhhHHHHHHHHhcc-CCEEE
Confidence            46789999999999999999998  443222  233444      34556666666655321 23444454543 44888


Q ss_pred             EecCCCH---HH-HHHHHHhCCC-CCCCcEEEEEecch
Q 045113          267 IDDVWSI---EV-WDIIREILPD-NQNGSRVLITLAKI  299 (821)
Q Consensus       267 lDdv~~~---~~-~~~l~~~l~~-~~~gs~iiiTtr~~  299 (821)
                      +||+...   .. .+.+...+.. ...|..||+|+...
T Consensus       212 IDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~  249 (450)
T PRK14087        212 IDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKS  249 (450)
T ss_pred             EeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCC
Confidence            9999532   22 2344443331 22345788887643

>PRK06835 DNA replication protein DnaC; Validated

Probab=96.80  E-value=0.006  Score=65.18  Aligned_cols=98  Identities=12%  Similarity=0.181  Sum_probs=54.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHH-hCCchhHHHHHHHhCCCcEEEEEec
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKF-LMPSSRLIILHEYLMTKRYLIVIDD  269 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~-l~~~~~~~~l~~~l~~kr~LlVlDd  269 (821)
                      .-+.++|.+|+|||+||.++.+  ++...-..++++++      .++...+... .....+.....+.+.+ -=||||||
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~--~l~~~g~~V~y~t~------~~l~~~l~~~~~~~~~~~~~~~~~l~~-~DLLIIDD  254 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAK--ELLDRGKSVIYRTA------DELIEILREIRFNNDKELEEVYDLLIN-CDLLIIDD  254 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHH--HHHHCCCeEEEEEH------HHHHHHHHHHHhccchhHHHHHHHhcc-CCEEEEec
Confidence            6799999999999999999998  44333335666654      3333333322 1111112212333332 24899999


Q ss_pred             CCCH--HHH--HHHHHhCCC-CCCCcEEEEEec
Q 045113          270 VWSI--EVW--DIIREILPD-NQNGSRVLITLA  297 (821)
Q Consensus       270 v~~~--~~~--~~l~~~l~~-~~~gs~iiiTtr  297 (821)
                      +...  ..|  +.+...+.. -..+-.+||||.
T Consensus       255 lG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSN  287 (329)
T PRK06835        255 LGTEKITEFSKSELFNLINKRLLRQKKMIISTN  287 (329)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECC
Confidence            9543  222  233333321 122456888886

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.80  E-value=0.0035  Score=63.92  Aligned_cols=44  Identities=14%  Similarity=0.169  Sum_probs=30.2

Q ss_pred             eechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          170 VGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       170 vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .|.+.........+.........+.|+|..|+|||+||+.+++.
T Consensus        22 ~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~   65 (227)
T PRK08903         22 AGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVAD   65 (227)
T ss_pred             cCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            45554444434333333334568899999999999999999983

>PRK09087 hypothetical protein; Validated

Probab=96.80  E-value=0.007  Score=61.32  Aligned_cols=24  Identities=21%  Similarity=0.183  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -+.+.|+|..|+|||||++.+++.
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~   67 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREK   67 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHh
Confidence            467999999999999999999874

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=96.78  E-value=0.011  Score=64.96  Aligned_cols=49  Identities=20%  Similarity=0.155  Sum_probs=39.0

Q ss_pred             CCCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          164 FKNRDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +.-.++.|.+..+++|.+.+...           -...+-|.++|.+|.|||++|+++.+
T Consensus       142 v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~  201 (398)
T PTZ00454        142 VTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAH  201 (398)
T ss_pred             CCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            34457899999999988876421           12457788999999999999999998

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

Probab=96.77  E-value=0.006  Score=73.18  Aligned_cols=44  Identities=20%  Similarity=0.283  Sum_probs=37.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++||+.+++++++.|....  ..-+.++|.+|+|||++|+.+.+
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~--~~n~lL~G~pG~GKT~l~~~la~  225 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRK--KNNPLLVGEPGVGKTAIAEGLAL  225 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCC--CCceEEECCCCCCHHHHHHHHHH
Confidence            469999999999999997764  33456999999999999999887

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=96.77  E-value=0.017  Score=56.93  Aligned_cols=111  Identities=14%  Similarity=0.135  Sum_probs=62.7

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc--------------------cccceeEEEEc-CCCCCHHH
Q 045113          178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK--------------------HYFDCHAWVQE-PYTCYADQ  236 (821)
Q Consensus       178 ~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~--------------------~~F~~~~wv~~-s~~~~~~~  236 (821)
                      .+.+.+..+. -...+-++|..|+||||+|+.+.+.-.-.                    .+.|. .++.. ....+++.
T Consensus         3 ~l~~~i~~~~-~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~-~~~~~~~~~~~~~~   80 (188)
T TIGR00678         3 QLKRALEKGR-LAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDL-HRLEPEGQSIKVDQ   80 (188)
T ss_pred             HHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcE-EEeccccCcCCHHH
Confidence            4455554443 23678899999999999998876621111                    12222 22222 22233333


Q ss_pred             HHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          237 ILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       237 ~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      +. ++.+.+...        -..+.+-++|+|++..  ...++.+...+....+.+.+|++|++.
T Consensus        81 i~-~i~~~~~~~--------~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~  136 (188)
T TIGR00678        81 VR-ELVEFLSRT--------PQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSP  136 (188)
T ss_pred             HH-HHHHHHccC--------cccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECCh
Confidence            22 222222110        0134666899999964  356788888887666667777777643

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=96.75  E-value=0.0057  Score=68.26  Aligned_cols=121  Identities=17%  Similarity=0.222  Sum_probs=64.7

Q ss_pred             CeeechhhH--HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccc--eeEEEEcCCCCCHHHHHHHHHH
Q 045113          168 DTVGLDDRM--EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFD--CHAWVQEPYTCYADQILDIIIK  243 (821)
Q Consensus       168 ~~vGr~~~~--~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~--~~~wv~~s~~~~~~~~~~~i~~  243 (821)
                      -++|.+...  ..+.++..........+.|+|..|+|||+|++++++  ++.....  .+++++      ..++...+..
T Consensus       112 fi~g~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~--~l~~~~~~~~v~yi~------~~~~~~~~~~  183 (405)
T TIGR00362       112 FVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGN--EILENNPNAKVVYVS------SEKFTNDFVN  183 (405)
T ss_pred             cccCCcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHH--HHHHhCCCCcEEEEE------HHHHHHHHHH
Confidence            355754432  222333332222345789999999999999999998  4544332  345553      3344444554


Q ss_pred             HhCCchhHHHHHHHhCCCcEEEEEecCCCH---HH-HHHHHHhCCC-CCCCcEEEEEecc
Q 045113          244 FLMPSSRLIILHEYLMTKRYLIVIDDVWSI---EV-WDIIREILPD-NQNGSRVLITLAK  298 (821)
Q Consensus       244 ~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~---~~-~~~l~~~l~~-~~~gs~iiiTtr~  298 (821)
                      .+... ....+.+.+++ .-+|||||+...   .. .+.+...+.. ...|..||+||..
T Consensus       184 ~~~~~-~~~~~~~~~~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~  241 (405)
T TIGR00362       184 ALRNN-KMEEFKEKYRS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDR  241 (405)
T ss_pred             HHHcC-CHHHHHHHHHh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCC
Confidence            44322 13344444443 348899999642   11 1223332221 1234568887764

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).

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

Probab=96.75  E-value=0.0039  Score=64.11  Aligned_cols=91  Identities=11%  Similarity=0.176  Sum_probs=60.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccc-eeEEEEcCCCC-CHHHHHHHHHHHhCCc--------hh---------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFD-CHAWVQEPYTC-YADQILDIIIKFLMPS--------SR---------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~-~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~---------  250 (821)
                      -+.++|+|-.|+|||||++.+++  .++.+|+ .++++-+.+.. .+.++.+++...-...        .+         
T Consensus        69 GQr~~If~~~G~GKTtLa~~i~~--~i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~  146 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELIN--NIAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARV  146 (274)
T ss_pred             CCEEEEecCCCCChhHHHHHHHH--HHHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            56899999999999999999998  5665664 45556666654 3556666665432111        01         


Q ss_pred             ---HHHHHHHh---CCCcEEEEEecCCCH-HHHHHHHHh
Q 045113          251 ---LIILHEYL---MTKRYLIVIDDVWSI-EVWDIIREI  282 (821)
Q Consensus       251 ---~~~l~~~l---~~kr~LlVlDdv~~~-~~~~~l~~~  282 (821)
                         +-.+.+++   +++.+|+++||+-.. ..+.++...
T Consensus       147 ~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~a~A~reis~~  185 (274)
T cd01133         147 ALTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSAL  185 (274)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeChhHHHHHHHHHHHH
Confidence               34455555   389999999999543 344444433

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.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.75  E-value=0.0047  Score=65.48  Aligned_cols=118  Identities=12%  Similarity=0.122  Sum_probs=68.5

Q ss_pred             echhhHHHHHHHHhcCC--CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCc
Q 045113          171 GLDDRMEELLDLLIEGP--PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPS  248 (821)
Q Consensus       171 Gr~~~~~~i~~~L~~~~--~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  248 (821)
                      ++....+...+++..-.  ...+-+.++|..|+|||.||.++++  +....=..+.++++      .++..++.......
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~--~l~~~g~~v~~~~~------~~l~~~lk~~~~~~  206 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIAN--ELAKKGVSSTLLHF------PEFIRELKNSISDG  206 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHH--HHHHcCCCEEEEEH------HHHHHHHHHHHhcC
Confidence            45555555566665321  2356789999999999999999999  44332233556654      34555555444322


Q ss_pred             hhHHHHHHHhCCCcEEEEEecCCCH--HHHH--HHHHhC-CCC-CCCcEEEEEecc
Q 045113          249 SRLIILHEYLMTKRYLIVIDDVWSI--EVWD--IIREIL-PDN-QNGSRVLITLAK  298 (821)
Q Consensus       249 ~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~--~l~~~l-~~~-~~gs~iiiTtr~  298 (821)
                      . .....+.++ +-=||||||+...  .+|.  .+...+ ... ..+-.+|+||..
T Consensus       207 ~-~~~~l~~l~-~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        207 S-VKEKIDAVK-EAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             c-HHHHHHHhc-CCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            1 222333333 4558999999643  4564  343333 221 235568888864

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.75  E-value=0.015  Score=67.00  Aligned_cols=125  Identities=11%  Similarity=0.035  Sum_probs=75.0

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc----------------------cccceeE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK----------------------HYFDCHA  224 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~----------------------~~F~~~~  224 (821)
                      .+++|.+..++.+..++..+. -...+-++|..|+||||+|+.+.+.-.-.                      .+. .++
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~-dvi   90 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGR-INHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSI-DVV   90 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCc-eEE
Confidence            468999999999999987653 24467899999999999998887621100                      111 133


Q ss_pred             EEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEe-cchhh
Q 045113          225 WVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITL-AKIDT  301 (821)
Q Consensus       225 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTt-r~~~v  301 (821)
                      .+..+...++.++ ++|.+.+.        ..-..+++-++|+|++..  ....+.+...+........+|++| ....+
T Consensus        91 eidaas~~gvd~i-Rel~~~~~--------~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kl  161 (584)
T PRK14952         91 ELDAASHGGVDDT-RELRDRAF--------YAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKV  161 (584)
T ss_pred             EeccccccCHHHH-HHHHHHHH--------hhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhh
Confidence            3433333233332 22221111        001124566889999964  467888888887666566655555 44433


Q ss_pred             h
Q 045113          302 V  302 (821)
Q Consensus       302 ~  302 (821)
                      .
T Consensus       162 l  162 (584)
T PRK14952        162 L  162 (584)
T ss_pred             H
Confidence            3

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

Probab=96.74  E-value=0.0013  Score=62.96  Aligned_cols=119  Identities=23%  Similarity=0.240  Sum_probs=76.8

Q ss_pred             eEEEeCCCCCCcccccccC-CCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhcc-CccCceeecCCc
Q 045113          521 RVLDLGSLVLNQYPSEIEN-LSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWK-MKKLRHLNFGSI  598 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~-l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~-l~~L~~L~L~~~  598 (821)
                      +.++|.+..+...-. ++. +.+.-.++|++|.+..++ .+. .++.|.+|.+++|.|..+-+.+.. +++|..|.+.+|
T Consensus        22 ~e~~LR~lkip~ien-lg~~~d~~d~iDLtdNdl~~l~-~lp-~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnN   98 (233)
T KOG1644|consen   22 RELDLRGLKIPVIEN-LGATLDQFDAIDLTDNDLRKLD-NLP-HLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNN   98 (233)
T ss_pred             cccccccccccchhh-ccccccccceecccccchhhcc-cCC-CccccceEEecCCcceeeccchhhhccccceEEecCc
Confidence            556666665542221 221 345678899999877655 333 788999999999999998665654 778999999999


Q ss_pred             ccCCCCC--CCcCCCCCcceeccccC------CcchhhhcCCCCCCCeEEEecc
Q 045113          599 TLPAHPG--NYCGSLENLNFISALYP------CCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       599 ~~~~~~p--~~i~~l~~L~~L~~~~~------~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      ++.. +.  ..+..++.|+.|.+.+|      ..-.-- +..+|+|+.|+..+.
T Consensus        99 si~~-l~dl~pLa~~p~L~~Ltll~Npv~~k~~YR~yv-l~klp~l~~LDF~kV  150 (233)
T KOG1644|consen   99 SIQE-LGDLDPLASCPKLEYLTLLGNPVEHKKNYRLYV-LYKLPSLRTLDFQKV  150 (233)
T ss_pred             chhh-hhhcchhccCCccceeeecCCchhcccCceeEE-EEecCcceEeehhhh
Confidence            8732 22  22556666777666553      111112 556677777776665

>PRK06620 hypothetical protein; Validated

Probab=96.74  E-value=0.0073  Score=60.65  Aligned_cols=23  Identities=13%  Similarity=-0.120  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      +.+-|+|.+|+|||+|++.+.+.
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~   67 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNL   67 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhc
Confidence            67899999999999999998874

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=96.71  E-value=0.038  Score=64.59  Aligned_cols=110  Identities=17%  Similarity=0.332  Sum_probs=72.5

Q ss_pred             CCCeeechhhHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHHhcCccccccc---ceeEEEEcCCCCCHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEG-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF---DCHAWVQEPYTCYAD  235 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F---~~~~wv~~s~~~~~~  235 (821)
                      ...++|-|..++.+.+.+.-.       ...+.++-.+|+.|||||.||+.+..     ..|   +..+-+      |+.
T Consensus       490 ~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~-----~Lfg~e~aliR~------DMS  558 (786)
T COG0542         490 KKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAE-----ALFGDEQALIRI------DMS  558 (786)
T ss_pred             hcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHH-----HhcCCCccceee------chH
Confidence            356999999999999888642       23467888899999999999888775     123   222222      222


Q ss_pred             HHHH--HHHHHhCCchh------HHHHHHHhCCCcE-EEEEecCCC--HHHHHHHHHhCCCC
Q 045113          236 QILD--IIIKFLMPSSR------LIILHEYLMTKRY-LIVIDDVWS--IEVWDIIREILPDN  286 (821)
Q Consensus       236 ~~~~--~i~~~l~~~~~------~~~l~~~l~~kr~-LlVlDdv~~--~~~~~~l~~~l~~~  286 (821)
                      +..+  .+.+-++.+..      ...|-+..+.++| +|.||.|..  ++-.+.+...+.++
T Consensus       559 Ey~EkHsVSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdG  620 (786)
T COG0542         559 EYMEKHSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDG  620 (786)
T ss_pred             HHHHHHHHHHHhCCCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCC
Confidence            2221  22222333322      6677788888888 888999975  46677777777643

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=96.70  E-value=0.0082  Score=67.89  Aligned_cols=121  Identities=16%  Similarity=0.217  Sum_probs=65.0

Q ss_pred             eeechhh--HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccc--eeEEEEcCCCCCHHHHHHHHHHH
Q 045113          169 TVGLDDR--MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFD--CHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       169 ~vGr~~~--~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~--~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      ++|....  ......+..........+.|+|.+|+|||+|++++.+  ++...+.  .+++++.      .++..++...
T Consensus       125 v~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~--~~~~~~~~~~v~yi~~------~~~~~~~~~~  196 (450)
T PRK00149        125 VVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGN--YILEKNPNAKVVYVTS------EKFTNDFVNA  196 (450)
T ss_pred             ccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHH--HHHHhCCCCeEEEEEH------HHHHHHHHHH
Confidence            5564432  3333333333333356789999999999999999999  5554442  3455543      3333444444


Q ss_pred             hCCchhHHHHHHHhCCCcEEEEEecCCCH---H-HHHHHHHhCCC-CCCCcEEEEEecch
Q 045113          245 LMPSSRLIILHEYLMTKRYLIVIDDVWSI---E-VWDIIREILPD-NQNGSRVLITLAKI  299 (821)
Q Consensus       245 l~~~~~~~~l~~~l~~kr~LlVlDdv~~~---~-~~~~l~~~l~~-~~~gs~iiiTtr~~  299 (821)
                      +... ....+.+.++ +.-+||+||+...   . ..+.+...+.. ...|..||+||...
T Consensus       197 ~~~~-~~~~~~~~~~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~  254 (450)
T PRK00149        197 LRNN-TMEEFKEKYR-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRP  254 (450)
T ss_pred             HHcC-cHHHHHHHHh-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCC
Confidence            4321 1334444454 3448999999532   1 12233332221 12245688887653

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=96.69  E-value=0.022  Score=61.66  Aligned_cols=48  Identities=19%  Similarity=0.161  Sum_probs=39.6

Q ss_pred             CCCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          164 FKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .....++|-+...+.+...+..+. -...+-|+|..|+||||+|..+.+
T Consensus        20 ~~~~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~   67 (351)
T PRK09112         20 SENTRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLAN   67 (351)
T ss_pred             CchhhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHH
Confidence            455679999999999999997763 245788999999999999987765

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.68  E-value=0.0049  Score=74.80  Aligned_cols=44  Identities=16%  Similarity=0.283  Sum_probs=37.8

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++||+.++.++++.|....  ..-+.++|.+|+||||+|+.+..
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~--~~n~lL~G~pGvGKT~l~~~la~  221 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQ  221 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCC--cCceEEECCCCCCHHHHHHHHHH
Confidence            469999999999999998764  33456899999999999998887

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.67  E-value=0.004  Score=75.31  Aligned_cols=126  Identities=12%  Similarity=0.131  Sum_probs=71.7

Q ss_pred             CCCeeechhhHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEG-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQIL  238 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~  238 (821)
                      ...++|.+..++.+.+.+...       .....++.++|..|+|||.||+.+..  .+-+.....+-+.++.-.. .   
T Consensus       565 ~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~--~l~~~~~~~~~~dmse~~~-~---  638 (852)
T TIGR03345       565 AERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAE--LLYGGEQNLITINMSEFQE-A---  638 (852)
T ss_pred             cCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHH--HHhCCCcceEEEeHHHhhh-h---
Confidence            357999999999999988531       22356789999999999999988876  2211111122222221110 0   


Q ss_pred             HHHHHHhCCch------hHHHHHHHhC-CCcEEEEEecCCC--HHHHHHHHHhCCCCC-----------CCcEEEEEec
Q 045113          239 DIIIKFLMPSS------RLIILHEYLM-TKRYLIVIDDVWS--IEVWDIIREILPDNQ-----------NGSRVLITLA  297 (821)
Q Consensus       239 ~~i~~~l~~~~------~~~~l~~~l~-~kr~LlVlDdv~~--~~~~~~l~~~l~~~~-----------~gs~iiiTtr  297 (821)
                      ..+..-++.+.      +...+.+.++ ...-+|+||++..  ...++.+...+..+.           ..+-||+||.
T Consensus       639 ~~~~~l~g~~~gyvg~~~~g~L~~~v~~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSN  717 (852)
T TIGR03345       639 HTVSRLKGSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSN  717 (852)
T ss_pred             hhhccccCCCCCcccccccchHHHHHHhCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCC
Confidence            01111111111      1223444444 4556999999974  355666666665432           3455666765

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.66  E-value=0.011  Score=64.97  Aligned_cols=121  Identities=16%  Similarity=0.134  Sum_probs=69.3

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc------ccccceeE-EEEcCCCCCHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV------KHYFDCHA-WVQEPYTCYADQILD  239 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~------~~~F~~~~-wv~~s~~~~~~~~~~  239 (821)
                      .+++|.+...+.+...+..+. -...+-++|.+|+||||+|+.+.+.-.-      ...|...+ -+......++.++. 
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~-~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~-   94 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNH-LAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDDIR-   94 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHHHH-
Confidence            468999999999999997653 2457889999999999999998763110      11222111 11111112222222 


Q ss_pred             HHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEec
Q 045113          240 IIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLA  297 (821)
Q Consensus       240 ~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr  297 (821)
                      ++++.+..        .-..+++-++++|++..  ...++.+...+......+.+|++|.
T Consensus        95 ~l~~~~~~--------~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~  146 (367)
T PRK14970         95 NLIDQVRI--------PPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATT  146 (367)
T ss_pred             HHHHHHhh--------ccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeC
Confidence            22221110        01124556899999864  3457777666655444556665553

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=96.66  E-value=0.0068  Score=62.69  Aligned_cols=70  Identities=17%  Similarity=0.099  Sum_probs=46.9

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc----ccceeEEEEcCCCCCHHHHHHHHHHHhCCc
Q 045113          178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH----YFDCHAWVQEPYTCYADQILDIIIKFLMPS  248 (821)
Q Consensus       178 ~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~----~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  248 (821)
                      .|-+.|.++=..-.+.=|+|.+|+|||.||..++-...+..    .=..++|++....|+.+.+. +|++.....
T Consensus        26 ~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~   99 (256)
T PF08423_consen   26 SLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLD   99 (256)
T ss_dssp             HHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-
T ss_pred             HHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccc
Confidence            34445544433467999999999999999987764323221    12369999999999988876 466665443

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 ....

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

Probab=96.66  E-value=0.0066  Score=72.85  Aligned_cols=114  Identities=10%  Similarity=0.159  Sum_probs=68.3

Q ss_pred             CCCeeechhhHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC---CHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEG-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC---YAD  235 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~---~~~  235 (821)
                      ...++|.+..++.|.+.+...       .....++.++|..|+|||+||+.+..  ..   +...+.++.+.-.   .+.
T Consensus       453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~--~l---~~~~~~~d~se~~~~~~~~  527 (731)
T TIGR02639       453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAE--AL---GVHLERFDMSEYMEKHTVS  527 (731)
T ss_pred             hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHH--Hh---cCCeEEEeCchhhhcccHH
Confidence            356899999999998888742       12345788999999999999999987  33   2233445444321   122


Q ss_pred             HHHHHHHHHhCCchhHHHHHHHhCCCc-EEEEEecCCC--HHHHHHHHHhCCC
Q 045113          236 QILDIIIKFLMPSSRLIILHEYLMTKR-YLIVIDDVWS--IEVWDIIREILPD  285 (821)
Q Consensus       236 ~~~~~i~~~l~~~~~~~~l~~~l~~kr-~LlVlDdv~~--~~~~~~l~~~l~~  285 (821)
                      .+...-....+ .+....+.+.++.++ -+++||+++.  .+.++.+...+..
T Consensus       528 ~lig~~~gyvg-~~~~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~  579 (731)
T TIGR02639       528 RLIGAPPGYVG-FEQGGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDY  579 (731)
T ss_pred             HHhcCCCCCcc-cchhhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhcc
Confidence            22111000000 011334555555444 5999999975  3566666666653

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=96.63  E-value=0.015  Score=69.57  Aligned_cols=121  Identities=12%  Similarity=0.082  Sum_probs=74.6

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc----------------------cccceeE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK----------------------HYFDCHA  224 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~----------------------~~F~~~~  224 (821)
                      .++||.+..++.|..++..+. -...+-++|..|+||||+|+.+.+.-.-.                      .++| ++
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~r-i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~d-v~   92 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGR-INHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLD-VT   92 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCc-EE
Confidence            468999999999999988654 23567899999999999998886531100                      1122 23


Q ss_pred             EEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          225 WVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       225 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                      ++.......+.++- ++.+.+.        ..-..+++-++|||++..  ...++.|...+..-...+.+|++|.+
T Consensus        93 eidaas~~~Vd~iR-~l~~~~~--------~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~  159 (824)
T PRK07764         93 EIDAASHGGVDDAR-ELRERAF--------FAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTE  159 (824)
T ss_pred             EecccccCCHHHHH-HHHHHHH--------hchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCC
Confidence            34332222333332 1221111        111335566888999975  36788888888876666776655543

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.63  E-value=0.0098  Score=72.53  Aligned_cols=113  Identities=17%  Similarity=0.233  Sum_probs=67.5

Q ss_pred             CCeeechhhHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEG-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILD  239 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~  239 (821)
                      ..++|.+..++.+...+...       .....++.++|..|+|||++|+.+..  .....-...+.+..+.-.....+ .
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~--~l~~~~~~~i~~d~s~~~~~~~~-~  641 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAE--FLFDDEDAMVRIDMSEYMEKHSV-A  641 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHH--HhcCCCCcEEEEechhhcccchH-H
Confidence            46999999999999998752       11246788999999999999999987  22221223334444432211111 1


Q ss_pred             HHHHHhCCc------hhHHHHHHHhCCCc-EEEEEecCCC--HHHHHHHHHhCCC
Q 045113          240 IIIKFLMPS------SRLIILHEYLMTKR-YLIVIDDVWS--IEVWDIIREILPD  285 (821)
Q Consensus       240 ~i~~~l~~~------~~~~~l~~~l~~kr-~LlVlDdv~~--~~~~~~l~~~l~~  285 (821)
                      .+   ++.+      ++...+.+.++.++ .+|+||++..  ...++.+...+..
T Consensus       642 ~l---~g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~  693 (852)
T TIGR03346       642 RL---IGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDD  693 (852)
T ss_pred             Hh---cCCCCCccCcccccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhc
Confidence            11   1111      11234444444333 4999999975  3567777776643

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.

>TIGR00763 lon ATP-dependent protease La

Probab=96.63  E-value=0.0085  Score=72.34  Aligned_cols=53  Identities=21%  Similarity=0.338  Sum_probs=41.1

Q ss_pred             CCCeeechhhHHHHHHHHhc----CCCCceEEEEEcCCCChHHHHHHHHhcCccccccc
Q 045113          166 NRDTVGLDDRMEELLDLLIE----GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF  220 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~----~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F  220 (821)
                      ..+++|.+..+++|.+++..    +.....++.++|.+|+|||++|+.+.+  .....|
T Consensus       319 ~~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~--~l~~~~  375 (775)
T TIGR00763       319 DEDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAK--ALNRKF  375 (775)
T ss_pred             hhhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHH--HhcCCe
Confidence            34689999999999987753    222345899999999999999999998  444444

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.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=96.62  E-value=0.014  Score=67.41  Aligned_cols=121  Identities=14%  Similarity=0.096  Sum_probs=72.7

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccc------------------------cc
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHY------------------------FD  221 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~------------------------F~  221 (821)
                      -.+++|.+..++.+...+..+. -...+-++|..|+||||+|+.+.+.---...                        ..
T Consensus        23 f~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i~~g~h~  101 (598)
T PRK09111         23 FDDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAIMEGRHV  101 (598)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHHhcCCCC
Confidence            3579999999999999887653 2447889999999999999988762110000                        01


Q ss_pred             eeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEe
Q 045113          222 CHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITL  296 (821)
Q Consensus       222 ~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTt  296 (821)
                      .++++.......+.++- +|++.+..        .-..+++-++|+|++..  ....+.+...+.....++++|++|
T Consensus       102 Dv~e~~a~s~~gvd~IR-eIie~~~~--------~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~t  169 (598)
T PRK09111        102 DVLEMDAASHTGVDDIR-EIIESVRY--------RPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFAT  169 (598)
T ss_pred             ceEEecccccCCHHHHH-HHHHHHHh--------chhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEe
Confidence            12333333222333321 22222111        00124556799999964  356777877777665667766555

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.61  E-value=0.013  Score=60.14  Aligned_cols=58  Identities=16%  Similarity=0.110  Sum_probs=40.8

Q ss_pred             HHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccc----cceeEEEEcCCCCCHHHHH
Q 045113          181 DLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHY----FDCHAWVQEPYTCYADQIL  238 (821)
Q Consensus       181 ~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~----F~~~~wv~~s~~~~~~~~~  238 (821)
                      ++|..+-..-.++.|+|.+|+||||||..++-.......    -..++|++....++..++.
T Consensus        10 ~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~   71 (235)
T cd01123          10 ELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV   71 (235)
T ss_pred             hhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH
Confidence            334444445789999999999999999988743222221    3689999988877765544

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 .

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.61  E-value=0.0073  Score=73.36  Aligned_cols=126  Identities=13%  Similarity=0.202  Sum_probs=74.1

Q ss_pred             CCeeechhhHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEG-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILD  239 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~  239 (821)
                      ..++|-+..++.|...+...       .....++-++|..|+|||+||+.+.+  .+-..-...+-+..+.-.....+. 
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~--~l~~~~~~~~~~d~s~~~~~~~~~-  585 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALAS--YFFGSEDAMIRLDMSEYMEKHTVS-  585 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHH--HhcCCccceEEEEchhccccccHH-
Confidence            57999999999998888632       22245677899999999999998886  221111223333333321111111 


Q ss_pred             HHHHHhCCc------hhHHHHHHHhCCCc-EEEEEecCCC--HHHHHHHHHhCCCCC-----------CCcEEEEEecc
Q 045113          240 IIIKFLMPS------SRLIILHEYLMTKR-YLIVIDDVWS--IEVWDIIREILPDNQ-----------NGSRVLITLAK  298 (821)
Q Consensus       240 ~i~~~l~~~------~~~~~l~~~l~~kr-~LlVlDdv~~--~~~~~~l~~~l~~~~-----------~gs~iiiTtr~  298 (821)
                         .-++.+      ++...+.+.++.++ .+++||++..  .+.++.+...+..+.           ..+-||+||..
T Consensus       586 ---~l~g~~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~  661 (821)
T CHL00095        586 ---KLIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNL  661 (821)
T ss_pred             ---HhcCCCCcccCcCccchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeCCc
Confidence               111111      11345666666655 4889999974  356777777665431           34556666654

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=96.59  E-value=0.00061  Score=67.91  Aligned_cols=86  Identities=16%  Similarity=0.189  Sum_probs=48.7

Q ss_pred             hccCCceeEEEeCCCCCCcccccccCCCCceEEeecCC--CCc-cccHHHHhccccceEEecCCcccccc--hhhhccCc
Q 045113          514 CEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIP--SLK-SLPLSFFNYLLNLYTLDMPFSYIDHT--ADEFWKMK  588 (821)
Q Consensus       514 ~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~--~i~-~lp~~i~~~L~~L~~L~L~~~~l~~l--p~~i~~l~  588 (821)
                      ...+..|..|++.++.++.+- .+-.|++|++|.++.|  .+. .++...- ++++|++|++++|++..+  -..+..+.
T Consensus        39 ~d~~~~le~ls~~n~gltt~~-~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e-~~P~l~~l~ls~Nki~~lstl~pl~~l~  116 (260)
T KOG2739|consen   39 TDEFVELELLSVINVGLTTLT-NFPKLPKLKKLELSDNYRRVSGGLEVLAE-KAPNLKVLNLSGNKIKDLSTLRPLKELE  116 (260)
T ss_pred             cccccchhhhhhhccceeecc-cCCCcchhhhhcccCCcccccccceehhh-hCCceeEEeecCCccccccccchhhhhc
Confidence            344455555555555544322 1334667777777777  333 5555555 667777777777755432  11245566


Q ss_pred             cCceeecCCcccC
Q 045113          589 KLRHLNFGSITLP  601 (821)
Q Consensus       589 ~L~~L~L~~~~~~  601 (821)
                      +|..|++.+|..+
T Consensus       117 nL~~Ldl~n~~~~  129 (260)
T KOG2739|consen  117 NLKSLDLFNCSVT  129 (260)
T ss_pred             chhhhhcccCCcc
Confidence            6777777666553

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.56  E-value=0.0099  Score=60.49  Aligned_cols=56  Identities=14%  Similarity=0.058  Sum_probs=40.1

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHH
Q 045113          179 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQI  237 (821)
Q Consensus       179 i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~  237 (821)
                      +-++|..+=..-.++-|+|.+|+|||++|.++..  .....-..++|++.. .++...+
T Consensus        12 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~--~~~~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         12 LDELLGGGFERGTITQIYGPPGSGKTNICLQLAV--EAAKNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHH--HHHHCCCeEEEEECC-CCCHHHH
Confidence            3444444444578999999999999999988886  333334678899887 5665544

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.55  E-value=0.013  Score=55.91  Aligned_cols=40  Identities=13%  Similarity=0.032  Sum_probs=29.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY  233 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~  233 (821)
                      ++.|+|.+|+||||+++.+..  .....-..++|+.......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~--~~~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLAL--NIATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHH--HHHhcCCEEEEEECCcchH
Confidence            468999999999999999987  3333335677877765543

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.54  E-value=0.0061  Score=74.06  Aligned_cols=44  Identities=18%  Similarity=0.299  Sum_probs=37.6

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++||+++++++++.|....  ..-+.++|.+|+|||++|+.+..
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~--~~n~lL~G~pGvGKTal~~~la~  222 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRT--KNNPILIGEPGVGKTAIAEGLAQ  222 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccc--cCCeEEECCCCCCHHHHHHHHHH
Confidence            468999999999999998754  33446999999999999998887

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

Probab=96.53  E-value=0.0017  Score=63.04  Aligned_cols=73  Identities=16%  Similarity=0.089  Sum_probs=42.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEec
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDD  269 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDd  269 (821)
                      -.-+.++|.+|+|||.||.++.+  +...+=..+.|+.      ..+++..+-..-.. .....+.+.+.+ -=||||||
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~--~~~~~g~~v~f~~------~~~L~~~l~~~~~~-~~~~~~~~~l~~-~dlLilDD  116 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIAN--EAIRKGYSVLFIT------ASDLLDELKQSRSD-GSYEELLKRLKR-VDLLILDD  116 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHH--HHHHTT--EEEEE------HHHHHHHHHCCHCC-TTHCHHHHHHHT-SSCEEEET
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHH--HhccCCcceeEee------cCceeccccccccc-cchhhhcCcccc-ccEecccc
Confidence            45699999999999999999987  3332222356664      44555554432211 113334444443 34778999


Q ss_pred             CCC
Q 045113          270 VWS  272 (821)
Q Consensus       270 v~~  272 (821)
                      +-.
T Consensus       117 lG~  119 (178)
T PF01695_consen  117 LGY  119 (178)
T ss_dssp             CTS
T ss_pred             cce
Confidence            964

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.

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.53  E-value=0.018  Score=66.79  Aligned_cols=120  Identities=10%  Similarity=0.061  Sum_probs=69.9

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc----------------------------cc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV----------------------------KH  218 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~----------------------------~~  218 (821)
                      .+++|-+..++.+...+..+. -...+-++|..|+||||+|+.+.+.---                            ..
T Consensus        16 ~eivGQe~i~~~L~~~i~~~r-i~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~g~   94 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFDAGT   94 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHhccC
Confidence            468999999998888887653 2356889999999999999777652100                            11


Q ss_pred             ccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEe
Q 045113          219 YFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITL  296 (821)
Q Consensus       219 ~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTt  296 (821)
                      +|+.+.+ .......+++|. ++.+.+.       ..- ..+.+-++|+|++...  ...+.+...+......+.+|++|
T Consensus        95 ~~n~~~~-d~~s~~~vd~Ir-~l~e~~~-------~~P-~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t  164 (620)
T PRK14954         95 SLNISEF-DAASNNSVDDIR-QLRENVR-------YGP-QKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFAT  164 (620)
T ss_pred             CCCeEEe-cccccCCHHHHH-HHHHHHH-------hhh-hcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEe
Confidence            2332222 111222233222 1221111       011 2345557899998653  56778888877655566655555


Q ss_pred             c
Q 045113          297 A  297 (821)
Q Consensus       297 r  297 (821)
                      .
T Consensus       165 ~  165 (620)
T PRK14954        165 T  165 (620)
T ss_pred             C
Confidence            3

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=96.50  E-value=0.0071  Score=67.66  Aligned_cols=99  Identities=9%  Similarity=0.166  Sum_probs=56.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEec
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDD  269 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDd  269 (821)
                      ...+.|+|..|+|||+|++++.+  ++...-..+++++      ...+...+...+... ....+++.+.. .-+|++||
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~--~l~~~~~~v~yi~------~~~f~~~~~~~l~~~-~~~~f~~~~~~-~dvLiIDD  210 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVH--ALRESGGKILYVR------SELFTEHLVSAIRSG-EMQRFRQFYRN-VDALFIED  210 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHH--HHHHcCCCEEEee------HHHHHHHHHHHHhcc-hHHHHHHHccc-CCEEEEcc
Confidence            46788999999999999999998  4433223345553      334445555554432 23344444443 44888899


Q ss_pred             CCCHH----HHHHHHHhCCC-CCCCcEEEEEecc
Q 045113          270 VWSIE----VWDIIREILPD-NQNGSRVLITLAK  298 (821)
Q Consensus       270 v~~~~----~~~~l~~~l~~-~~~gs~iiiTtr~  298 (821)
                      +....    ..+.+...+.. ...|..||+||..
T Consensus       211 iq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~  244 (445)
T PRK12422        211 IEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTC  244 (445)
T ss_pred             hhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCC
Confidence            85421    12233333221 1135578888854

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.49  E-value=0.025  Score=66.04  Aligned_cols=121  Identities=15%  Similarity=0.156  Sum_probs=71.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc---------------------ccceeEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH---------------------YFDCHAW  225 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~---------------------~F~~~~w  225 (821)
                      .+++|-+..++.+..++..+. -...+-++|..|+||||+|+.+.+.-....                     +.| ++.
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d-~~~   93 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVD-VIE   93 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCe-EEE
Confidence            479999999999988887653 235678999999999999998876211000                     111 222


Q ss_pred             EEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          226 VQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       226 v~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                      +..+...++.++ ++|.+.+..        .-..+++-++|+|++..  ....+.+...+......+.+|++|.+
T Consensus        94 i~~~~~~~vd~i-r~ii~~~~~--------~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~  159 (585)
T PRK14950         94 MDAASHTSVDDA-REIIERVQF--------RPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTE  159 (585)
T ss_pred             EeccccCCHHHH-HHHHHHHhh--------CcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCC
Confidence            222222233322 222221111        01124567899999864  35677777777665556666666543

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.49  E-value=0.0024  Score=67.99  Aligned_cols=47  Identities=15%  Similarity=0.348  Sum_probs=41.1

Q ss_pred             CCeeechhhHHHHHHHHhcC----CCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          167 RDTVGLDDRMEELLDLLIEG----PPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~----~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ..++|.++.++++++++...    +..-+++.++|.+|+||||||+.+.+.
T Consensus        51 ~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~  101 (361)
T smart00763       51 HDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRG  101 (361)
T ss_pred             hhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999763    335689999999999999999999874

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

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.48  E-value=0.009  Score=60.00  Aligned_cols=55  Identities=13%  Similarity=0.018  Sum_probs=40.5

Q ss_pred             HHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHH
Q 045113          182 LLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILD  239 (821)
Q Consensus       182 ~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~  239 (821)
                      +|..+=+.-+++-|+|.+|+|||++|..+..  .....-..++|++... ++...+.+
T Consensus         4 ~l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~--~~~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237         4 LLGGGVERGTITQIYGPPGSGKTNICMILAV--NAARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             hhcCCCCCCeEEEEECCCCCCHHHHHHHHHH--HHHhCCCeEEEEECCC-CCHHHHHH
Confidence            3444445578999999999999999988876  3334456899999876 66655544

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.48  E-value=0.021  Score=65.57  Aligned_cols=122  Identities=11%  Similarity=0.031  Sum_probs=71.5

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccc-------------------cceeEEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHY-------------------FDCHAWVQ  227 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~-------------------F~~~~wv~  227 (821)
                      .+++|-+..++.|...+..+. -...+-++|..|+||||+|+.+.+.---...                   ...++++.
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~r-i~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv~eId   94 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENR-VAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDVVEID   94 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCceEEEe
Confidence            468898888888888786542 2467778999999999999888863211100                   01133343


Q ss_pred             cCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          228 EPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       228 ~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                      .+....+.++. .+.+.+..        .-..+++-++|+|++..  ...++.+...+........+|++|..
T Consensus        95 ~a~~~~Id~iR-~L~~~~~~--------~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~  158 (624)
T PRK14959         95 GASNRGIDDAK-RLKEAIGY--------APMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTE  158 (624)
T ss_pred             cccccCHHHHH-HHHHHHHh--------hhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCC
Confidence            32222333221 12211110        11235667999999964  35677887777654445666665544

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.47  E-value=0.0069  Score=73.82  Aligned_cols=44  Identities=16%  Similarity=0.283  Sum_probs=37.4

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++||+.+++++++.|....  ..-+.++|.+|+|||++|..+..
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~--~~n~lL~G~pGvGKT~l~~~la~  216 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRT--KNNPVLIGEPGVGKTAIVEGLAQ  216 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHH
Confidence            459999999999999998764  33445899999999999998887

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.46  E-value=0.012  Score=71.56  Aligned_cols=114  Identities=14%  Similarity=0.221  Sum_probs=66.3

Q ss_pred             CCCeeechhhHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEG-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQIL  238 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~  238 (821)
                      ...++|.+..++.+...+...       .....++.++|..|+|||++|+.+.+  ..-..-...+.+..+.-.. ....
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~--~l~~~~~~~i~id~se~~~-~~~~  643 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALAN--FMFDSDDAMVRIDMSEFME-KHSV  643 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHH--HhhcCCCcEEEEEhHHhhh-hhhH
Confidence            346899999999998888642       12245788999999999999999987  2211112234444332111 1111


Q ss_pred             HHHHHHhCCc------hhHHHHHHHhCCC-cEEEEEecCCC--HHHHHHHHHhCCC
Q 045113          239 DIIIKFLMPS------SRLIILHEYLMTK-RYLIVIDDVWS--IEVWDIIREILPD  285 (821)
Q Consensus       239 ~~i~~~l~~~------~~~~~l~~~l~~k-r~LlVlDdv~~--~~~~~~l~~~l~~  285 (821)
                      ..+   ++.+      .+...+.+.++.+ .-+|+||++..  ...++.+...+..
T Consensus       644 ~~L---iG~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~  696 (857)
T PRK10865        644 SRL---VGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDD  696 (857)
T ss_pred             HHH---hCCCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhh
Confidence            111   1111      1122344444333 36999999973  4667777666643

>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=96.45  E-value=0.0043  Score=61.08  Aligned_cols=120  Identities=18%  Similarity=0.175  Sum_probs=62.4

Q ss_pred             eechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEc----CCCC-----CHHH----
Q 045113          170 VGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQE----PYTC-----YADQ----  236 (821)
Q Consensus       170 vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~----s~~~-----~~~~----  236 (821)
                      ..+..+....++.|..    ..++.+.|.+|.|||.||.+..-+.-..+.|+..+++.-    .+..     +..+    
T Consensus         3 ~p~~~~Q~~~~~al~~----~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p   78 (205)
T PF02562_consen    3 KPKNEEQKFALDALLN----NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEP   78 (205)
T ss_dssp             ---SHHHHHHHHHHHH-----SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------T
T ss_pred             cCCCHHHHHHHHHHHh----CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHH
Confidence            4566777888888883    569999999999999999877754334578888887742    1111     1110    


Q ss_pred             ---HHHHHHHHhCCchhHHHHHH----------HhCC---CcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEe
Q 045113          237 ---ILDIIIKFLMPSSRLIILHE----------YLMT---KRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITL  296 (821)
Q Consensus       237 ---~~~~i~~~l~~~~~~~~l~~----------~l~~---kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTt  296 (821)
                         -..+.+..+......+.+.+          ++++   ...+||+|++.+.  .++..+   +...+.|||||++=
T Consensus        79 ~~~p~~d~l~~~~~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~i---lTR~g~~skii~~G  153 (205)
T PF02562_consen   79 YLRPIYDALEELFGKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMI---LTRIGEGSKIIITG  153 (205)
T ss_dssp             TTHHHHHHHTTTS-TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHH---HTTB-TT-EEEEEE
T ss_pred             HHHHHHHHHHHHhChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHH---HcccCCCcEEEEec
Confidence               11122222221111222222          2344   3469999999653  455555   44456799999873

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.42  E-value=0.015  Score=61.94  Aligned_cols=69  Identities=16%  Similarity=0.075  Sum_probs=47.9

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc----cccceeEEEEcCCCCCHHHHHHHHHHHhCC
Q 045113          178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK----HYFDCHAWVQEPYTCYADQILDIIIKFLMP  247 (821)
Q Consensus       178 ~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~----~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  247 (821)
                      .+-++|..+=+.-+++-|+|.+|+|||+|+..++-.....    ..=..++|++....|+.+++.+ +++.++.
T Consensus        84 ~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~  156 (313)
T TIGR02238        84 ALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGV  156 (313)
T ss_pred             HHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCC
Confidence            3444555554557899999999999999998766322221    1124789999999999888764 5565544

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.

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=96.41  E-value=0.0022  Score=58.07  Aligned_cols=21  Identities=24%  Similarity=0.267  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ||.|.|++|+||||+|+.+.+
T Consensus         1 vI~I~G~~gsGKST~a~~La~   21 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAE   21 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999987

...

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=96.40  E-value=0.032  Score=62.66  Aligned_cols=120  Identities=14%  Similarity=0.116  Sum_probs=71.2

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc---------------------ccccceeEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV---------------------KHYFDCHAW  225 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~---------------------~~~F~~~~w  225 (821)
                      .+++|.+..++.+...+..+. -...+-++|..|+||||+|+.+.+.---                     ..+++ .++
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~-i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d-~~~   94 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNR-AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD-VLE   94 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc-eEE
Confidence            478999999999999987653 2356788999999999999887652100                     11222 222


Q ss_pred             EEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEec
Q 045113          226 VQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLA  297 (821)
Q Consensus       226 v~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr  297 (821)
                      +.......+.++. ++.+.+.        ..-..+.+-++|+|++...  ...+.+...+........+|++|.
T Consensus        95 i~g~~~~gid~ir-~i~~~l~--------~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~  159 (451)
T PRK06305         95 IDGASHRGIEDIR-QINETVL--------FTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATT  159 (451)
T ss_pred             eeccccCCHHHHH-HHHHHHH--------hhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeC
Confidence            2222222233222 2222111        0112356678999998643  456777777766555666766664

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=96.40  E-value=0.01  Score=65.89  Aligned_cols=52  Identities=19%  Similarity=0.216  Sum_probs=40.0

Q ss_pred             CCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhcCccccccc
Q 045113          167 RDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF  220 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F  220 (821)
                      .++.|.+..+++|.+.+.-.           -...+-+.++|.+|+|||++|+++.+  +....|
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~--el~~~f  245 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVAN--ETSATF  245 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHH--hhCCCE
Confidence            46789999999998877521           12345678999999999999999998  454444

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.40  E-value=0.032  Score=63.12  Aligned_cols=121  Identities=13%  Similarity=0.063  Sum_probs=71.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcc-----c--------------ccccceeEEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNY-----V--------------KHYFDCHAWVQ  227 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~-----~--------------~~~F~~~~wv~  227 (821)
                      .+++|-+...+.+...+..+. -..++-++|..|+||||+|+.+.....     .              .+.|...+++.
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~eid   94 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIEID   94 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEEEe
Confidence            468899999999999997753 245667899999999999988765210     0              01122234444


Q ss_pred             cCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEec
Q 045113          228 EPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLA  297 (821)
Q Consensus       228 ~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr  297 (821)
                      .+....+.++ +.|.+.+..        .-..+++-++|+|++..  ....+.+...+........+|++|.
T Consensus        95 aas~~gvd~i-r~I~~~~~~--------~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt  157 (486)
T PRK14953         95 AASNRGIDDI-RALRDAVSY--------TPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTT  157 (486)
T ss_pred             CccCCCHHHH-HHHHHHHHh--------CcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEEC
Confidence            3333333322 112111110        01235667999999864  3566777777766555566655553

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.40  E-value=0.01  Score=63.63  Aligned_cols=95  Identities=13%  Similarity=0.012  Sum_probs=62.7

Q ss_pred             hHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccc-cce-eEEEEcCCC-CCHHHHHHHHHHHhCCch--
Q 045113          175 RMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHY-FDC-HAWVQEPYT-CYADQILDIIIKFLMPSS--  249 (821)
Q Consensus       175 ~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~-F~~-~~wv~~s~~-~~~~~~~~~i~~~l~~~~--  249 (821)
                      -..++++.+.-- ..-+.+.|+|.+|+|||||++.+.+  .+... =+. ++|+.+.+. -.+.++.+.+...+....  
T Consensus       119 ~~~RvID~l~Pi-GkGQR~LIvG~pGtGKTTLl~~la~--~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~d  195 (380)
T PRK12608        119 LSMRVVDLVAPI-GKGQRGLIVAPPRAGKTVLLQQIAA--AVAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFD  195 (380)
T ss_pred             hhHhhhhheeec-CCCceEEEECCCCCCHHHHHHHHHH--HHHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCC
Confidence            344567766531 1235679999999999999999887  34332 233 467677665 467888888877666532  


Q ss_pred             h-----------HHHHHHHh--CCCcEEEEEecCCC
Q 045113          250 R-----------LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       250 ~-----------~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                      .           ...+.+++  ++++++||+|++..
T Consensus       196 e~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        196 RPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence            1           11222222  58999999999953

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.39  E-value=0.029  Score=60.62  Aligned_cols=122  Identities=14%  Similarity=0.119  Sum_probs=82.1

Q ss_pred             CeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc---------------------ccceeEEE
Q 045113          168 DTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH---------------------YFDCHAWV  226 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~---------------------~F~~~~wv  226 (821)
                      .++|-+....++..+......-...+-++|++|+||||+|..+.+.  +-.                     ....+..+
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~--l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel   79 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKE--LLCENPTGLLPCGHCRSCKLIPAGNHPDFLEL   79 (325)
T ss_pred             CcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHH--HhCCCcccCCcccchhhhhHHhhcCCCceEEe
Confidence            4677788888888888754433446999999999999998888763  211                     22456666


Q ss_pred             EcCCCCC---HHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          227 QEPYTCY---ADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       227 ~~s~~~~---~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      ..+....   ..+..+++.+......        ..++.-++++|+++..  +.-+.+...+......+.+|++|...
T Consensus        80 ~~s~~~~~~i~~~~vr~~~~~~~~~~--------~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~  149 (325)
T COG0470          80 NPSDLRKIDIIVEQVRELAEFLSESP--------LEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDP  149 (325)
T ss_pred             cccccCCCcchHHHHHHHHHHhccCC--------CCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCCh
Confidence            6666555   3444445444433211        1357789999999764  45677777777777788888888743

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.37  E-value=0.0066  Score=73.49  Aligned_cols=44  Identities=20%  Similarity=0.351  Sum_probs=38.0

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++||+.++.++++.|....  ..-+.++|.+|+||||+|+.+.+
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~--~~n~lLvG~pGvGKTal~~~La~  230 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRR--QNNPILTGEAGVGKTAVVEGLAL  230 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCC--cCceeEECCCCCCHHHHHHHHHH
Confidence            479999999999999997764  33456999999999999999887

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.36  E-value=0.033  Score=57.97  Aligned_cols=55  Identities=15%  Similarity=0.112  Sum_probs=34.4

Q ss_pred             hHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHH
Q 045113          175 RMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQIL  238 (821)
Q Consensus       175 ~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~  238 (821)
                      -++++..++..+    .-|-+.|.+|+|||++|+.+.+  ....   ..+.++.+...+..+++
T Consensus        10 l~~~~l~~l~~g----~~vLL~G~~GtGKT~lA~~la~--~lg~---~~~~i~~~~~~~~~dll   64 (262)
T TIGR02640        10 VTSRALRYLKSG----YPVHLRGPAGTGKTTLAMHVAR--KRDR---PVMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHHhcC----CeEEEEcCCCCCHHHHHHHHHH--HhCC---CEEEEeCCccCCHHHHh
Confidence            344455555443    3566899999999999999986  3322   23455555555544443

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).

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.36  E-value=0.015  Score=65.59  Aligned_cols=98  Identities=14%  Similarity=0.079  Sum_probs=67.2

Q ss_pred             CCCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC--CCHHHHHHHH
Q 045113          164 FKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT--CYADQILDII  241 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~--~~~~~~~~~i  241 (821)
                      ..+.+++-....+++..+....+--.-.-|-|.|..|+|||+||+++++... +.+.-.+.+|+++.-  -..+.+++.+
T Consensus       405 ~~e~d~i~~~s~kke~~n~~~spv~~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l  483 (952)
T KOG0735|consen  405 PFEHDFIQVPSYKKENANQELSPVFRHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFL  483 (952)
T ss_pred             cCCCceeecchhhhhhhhhhcccccccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHH
Confidence            3446677666666666665555444466789999999999999999998544 445555666766643  3455555544


Q ss_pred             HHHhCCchhHHHHHHHhCCCcEEEEEecCC
Q 045113          242 IKFLMPSSRLIILHEYLMTKRYLIVIDDVW  271 (821)
Q Consensus       242 ~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~  271 (821)
                      .         ..+.+.+...+.+|||||++
T Consensus       484 ~---------~vfse~~~~~PSiIvLDdld  504 (952)
T KOG0735|consen  484 N---------NVFSEALWYAPSIIVLDDLD  504 (952)
T ss_pred             H---------HHHHHHHhhCCcEEEEcchh
Confidence            3         23445677899999999995

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

Probab=96.34  E-value=0.017  Score=62.37  Aligned_cols=107  Identities=13%  Similarity=0.084  Sum_probs=72.7

Q ss_pred             CCCCeeechhhHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHH
Q 045113          165 KNRDTVGLDDRMEELLDLLIEG--PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIII  242 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~--~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  242 (821)
                      .+..++||+.++..+.+|+...  .....-+-|.|.+|.|||.+...++.+..-...=-.++.+....--....++..|.
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~  227 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIF  227 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHH
Confidence            3567999999999999999874  34577899999999999999999998532221111334444433344566777776


Q ss_pred             HHh----CCc-hh---HHHHHHHhCC--CcEEEEEecCC
Q 045113          243 KFL----MPS-SR---LIILHEYLMT--KRYLIVIDDVW  271 (821)
Q Consensus       243 ~~l----~~~-~~---~~~l~~~l~~--kr~LlVlDdv~  271 (821)
                      ..+    ..+ .+   ...+.+...+  ..+|+|+|.++
T Consensus       228 ~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD  266 (529)
T KOG2227|consen  228 SSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMD  266 (529)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhh
Confidence            666    222 12   4556666654  35899999985

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=96.32  E-value=0.021  Score=65.25  Aligned_cols=100  Identities=11%  Similarity=0.186  Sum_probs=57.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccccccc--ceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEE
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYF--DCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVI  267 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F--~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVl  267 (821)
                      ...+.|+|..|+|||.|++++++  .....+  ..+++++      ..++..++...+.... ...+++.+.+ -=+|||
T Consensus       314 ~NpL~LyG~sGsGKTHLL~AIa~--~a~~~~~g~~V~Yit------aeef~~el~~al~~~~-~~~f~~~y~~-~DLLlI  383 (617)
T PRK14086        314 YNPLFIYGESGLGKTHLLHAIGH--YARRLYPGTRVRYVS------SEEFTNEFINSIRDGK-GDSFRRRYRE-MDILLV  383 (617)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHH--HHHHhCCCCeEEEee------HHHHHHHHHHHHHhcc-HHHHHHHhhc-CCEEEE
Confidence            45689999999999999999998  444332  2345553      3444445544433211 2334444443 347889


Q ss_pred             ecCCCH---HHH-HHHHHhCCC-CCCCcEEEEEecch
Q 045113          268 DDVWSI---EVW-DIIREILPD-NQNGSRVLITLAKI  299 (821)
Q Consensus       268 Ddv~~~---~~~-~~l~~~l~~-~~~gs~iiiTtr~~  299 (821)
                      ||+...   ..| +.+...+.. ...|..|||||+..
T Consensus       384 DDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~  420 (617)
T PRK14086        384 DDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRP  420 (617)
T ss_pred             ehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCC
Confidence            999642   223 223333221 22356688888763

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.32  E-value=0.00048  Score=68.69  Aligned_cols=59  Identities=24%  Similarity=0.336  Sum_probs=27.8

Q ss_pred             CCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCcc
Q 045113          490 PHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKS  555 (821)
Q Consensus       490 ~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~  555 (821)
                      .+++.|.+.|+...+      ..++.+|+.|+||.|+-|.|+.+-+ +..|++|+.|.|+.|.|..
T Consensus        19 ~~vkKLNcwg~~L~D------Isic~kMp~lEVLsLSvNkIssL~p-l~rCtrLkElYLRkN~I~s   77 (388)
T KOG2123|consen   19 ENVKKLNCWGCGLDD------ISICEKMPLLEVLSLSVNKISSLAP-LQRCTRLKELYLRKNCIES   77 (388)
T ss_pred             HHhhhhcccCCCccH------HHHHHhcccceeEEeeccccccchh-HHHHHHHHHHHHHhccccc
Confidence            344445555444431      2344555555555555555544422 4444455555555544443

>PRK07261 topology modulation protein; Provisional

Probab=96.32  E-value=0.0066  Score=58.71  Aligned_cols=67  Identities=15%  Similarity=0.192  Sum_probs=39.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCcccc-cccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSGNYVK-HYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDV  270 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~~~~~-~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv  270 (821)
                      .|.|+|++|+||||||+.+.....+. -+.|...|-..-...+..+.             ...+.+.+.+.+  .|+|+.
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~--wIidg~   66 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDM-------------IADISNFLLKHD--WIIDGN   66 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHH-------------HHHHHHHHhCCC--EEEcCc
Confidence            58999999999999999988632221 23455555322122222222             233444555555  678888


Q ss_pred             CCH
Q 045113          271 WSI  273 (821)
Q Consensus       271 ~~~  273 (821)
                      ...
T Consensus        67 ~~~   69 (171)
T PRK07261         67 YSW   69 (171)
T ss_pred             chh
Confidence            543

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.30  E-value=0.018  Score=56.14  Aligned_cols=111  Identities=8%  Similarity=0.060  Sum_probs=60.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccc-ccc--cc------------e-eEEEEcCCCCCH--HHHHHHHHHHhCCchh-
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYV-KHY--FD------------C-HAWVQEPYTCYA--DQILDIIIKFLMPSSR-  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~~--F~------------~-~~wv~~s~~~~~--~~~~~~i~~~l~~~~~-  250 (821)
                      -.+++|+|..|.|||||++.+...... .+.  |+            . +.++  .+.+..  ..+.+.+...+...+. 
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~i~~~--~q~~~~~~~tv~~~i~~~LS~G~~q  105 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGDLKPQQGEITLDGVPVSDLEKALSSLISVL--NQRPYLFDTTLRNNLGRRFSGGERQ  105 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCEEHHHHHHHHHhhEEEE--ccCCeeecccHHHhhcccCCHHHHH
Confidence            458999999999999999999874221 110  11            1 1122  222111  1233333223332222 


Q ss_pred             HHHHHHHhCCCcEEEEEecCCCH---HHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          251 LIILHEYLMTKRYLIVIDDVWSI---EVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       251 ~~~l~~~l~~kr~LlVlDdv~~~---~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      .-.+.+.+-.++-++++|+....   ...+.+...+.....+..||++|.+....
T Consensus       106 rv~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~  160 (178)
T cd03247         106 RLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGI  160 (178)
T ss_pred             HHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHH
Confidence            44566777788889999998643   22222222222112367788888776554

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.

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.30  E-value=0.00051  Score=68.54  Aligned_cols=104  Identities=18%  Similarity=0.179  Sum_probs=83.0

Q ss_pred             ccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccch--hhhccCccCce
Q 045113          515 EMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTA--DEFWKMKKLRH  592 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp--~~i~~l~~L~~  592 (821)
                      +.+.+.+.|++.||.++.+. -+.+++.|..|.|+-|.|+.|- .+. .|++|+.|.|+.|.|..+-  ..+.++++|+.
T Consensus        16 sdl~~vkKLNcwg~~L~DIs-ic~kMp~lEVLsLSvNkIssL~-pl~-rCtrLkElYLRkN~I~sldEL~YLknlpsLr~   92 (388)
T KOG2123|consen   16 SDLENVKKLNCWGCGLDDIS-ICEKMPLLEVLSLSVNKISSLA-PLQ-RCTRLKELYLRKNCIESLDELEYLKNLPSLRT   92 (388)
T ss_pred             hHHHHhhhhcccCCCccHHH-HHHhcccceeEEeeccccccch-hHH-HHHHHHHHHHHhcccccHHHHHHHhcCchhhh
Confidence            34567888999999988553 2457899999999999999886 566 8999999999999888773  46789999999


Q ss_pred             eecCCcccCCCCCC-----CcCCCCCcceecccc
Q 045113          593 LNFGSITLPAHPGN-----YCGSLENLNFISALY  621 (821)
Q Consensus       593 L~L~~~~~~~~~p~-----~i~~l~~L~~L~~~~  621 (821)
                      |-|..|...+.-+.     .+.-|++|+.|+-..
T Consensus        93 LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLDnv~  126 (388)
T KOG2123|consen   93 LWLDENPCCGEAGQNYRRKVLRVLPNLKKLDNVP  126 (388)
T ss_pred             HhhccCCcccccchhHHHHHHHHcccchhccCcc
Confidence            99988887665553     256678888887544

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.26  E-value=0.019  Score=61.65  Aligned_cols=69  Identities=17%  Similarity=0.063  Sum_probs=47.9

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc----cccceeEEEEcCCCCCHHHHHHHHHHHhCCc
Q 045113          179 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK----HYFDCHAWVQEPYTCYADQILDIIIKFLMPS  248 (821)
Q Consensus       179 i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~----~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  248 (821)
                      +-++|..+=+.-+++-|+|.+|+|||+|+..++-.....    +.-..++|++....|+.+++.+ +++.++..
T Consensus       115 LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d  187 (344)
T PLN03187        115 LDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMD  187 (344)
T ss_pred             HHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCC
Confidence            334455554457888899999999999998876322221    1224789999999999888765 55655543

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.24  E-value=0.012  Score=58.43  Aligned_cols=106  Identities=15%  Similarity=0.142  Sum_probs=60.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC-CCCHHHHHHHHHHH--hCCch-h-HHHHHHHhCCCcEEE
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY-TCYADQILDIIIKF--LMPSS-R-LIILHEYLMTKRYLI  265 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~--l~~~~-~-~~~l~~~l~~kr~Ll  265 (821)
                      .+|.|+|..|+||||++..+..  .+.......+++-... .+.... ...+..+  ++... . .+.++..+...+=.|
T Consensus         2 GlilI~GptGSGKTTll~~ll~--~~~~~~~~~i~t~e~~~E~~~~~-~~~~i~q~~vg~~~~~~~~~i~~aLr~~pd~i   78 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMID--YINKNKTHHILTIEDPIEFVHES-KRSLINQREVGLDTLSFENALKAALRQDPDVI   78 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH--HhhhcCCcEEEEEcCCccccccC-ccceeeecccCCCccCHHHHHHHHhcCCcCEE
Confidence            3789999999999999998776  3333334444432211 110000 0011111  11111 1 566777777777899


Q ss_pred             EEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          266 VIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       266 VlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      ++|.+.+.+.+..+....   ..|-.|+.|+-..++.
T Consensus        79 i~gEird~e~~~~~l~~a---~~G~~v~~t~Ha~~~~  112 (198)
T cd01131          79 LVGEMRDLETIRLALTAA---ETGHLVMSTLHTNSAA  112 (198)
T ss_pred             EEcCCCCHHHHHHHHHHH---HcCCEEEEEecCCcHH
Confidence            999998877665544332   2355688787665554

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.

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=96.24  E-value=0.017  Score=69.19  Aligned_cols=101  Identities=12%  Similarity=0.132  Sum_probs=60.3

Q ss_pred             CCCeeechhhHHHHHHHHhc----CCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIE----GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDII  241 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~----~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i  241 (821)
                      +.+.+|.+..+++|+++|..    +.....++.++|.+|+||||+|+.+..  .....|-.   +..+...+..++...-
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~--~l~~~~~~---i~~~~~~d~~~i~g~~  395 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAK--ATGRKYVR---MALGGVRDEAEIRGHR  395 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHH--HhCCCEEE---EEcCCCCCHHHhccch
Confidence            45699999999999998874    123456899999999999999999997  34434422   2333333333332221


Q ss_pred             HHHhCCchh--HHHHHHHhCCCcEEEEEecCCC
Q 045113          242 IKFLMPSSR--LIILHEYLMTKRYLIVIDDVWS  272 (821)
Q Consensus       242 ~~~l~~~~~--~~~l~~~l~~kr~LlVlDdv~~  272 (821)
                      ....+....  .+.+.+ .....-+++||.++.
T Consensus       396 ~~~~g~~~G~~~~~l~~-~~~~~~villDEidk  427 (784)
T PRK10787        396 RTYIGSMPGKLIQKMAK-VGVKNPLFLLDEIDK  427 (784)
T ss_pred             hccCCCCCcHHHHHHHh-cCCCCCEEEEEChhh
Confidence            111111111  222222 222445789999964

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

Probab=96.23  E-value=0.027  Score=62.18  Aligned_cols=95  Identities=17%  Similarity=0.161  Sum_probs=62.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDV  270 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv  270 (821)
                      ++.|.|+-++||||+++.+...  ....   .+++...... +-.++ .+...         .+.+.-..++..|+||.|
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~--~~~~---~iy~~~~d~~~~~~~l-~d~~~---------~~~~~~~~~~~yifLDEI  103 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKG--LLEE---IIYINFDDLRLDRIEL-LDLLR---------AYIELKEREKSYIFLDEI  103 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhh--CCcc---eEEEEecchhcchhhH-HHHHH---------HHHHhhccCCceEEEecc
Confidence            9999999999999999777763  2222   4555433221 11111 11111         111111228899999999


Q ss_pred             CCHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          271 WSIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       271 ~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      ....+|+.....+.+.++. +|++|+-+....
T Consensus       104 q~v~~W~~~lk~l~d~~~~-~v~itgsss~ll  134 (398)
T COG1373         104 QNVPDWERALKYLYDRGNL-DVLITGSSSSLL  134 (398)
T ss_pred             cCchhHHHHHHHHHccccc-eEEEECCchhhh
Confidence            9999999888888877766 899998877665

>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=96.22  E-value=0.06  Score=51.49  Aligned_cols=120  Identities=20%  Similarity=0.164  Sum_probs=73.4

Q ss_pred             echhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC----cccc--------------cccceeEEEEcCCC-
Q 045113          171 GLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG----NYVK--------------HYFDCHAWVQEPYT-  231 (821)
Q Consensus       171 Gr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~----~~~~--------------~~F~~~~wv~~s~~-  231 (821)
                      |-+...+.+.+.+..+. -...+-++|..|+||+|+|..+.+.    ....              .......|+.-... 
T Consensus         1 gq~~~~~~L~~~~~~~~-l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~   79 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGR-LPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKK   79 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC---SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSS
T ss_pred             CcHHHHHHHHHHHHcCC-cceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEeccccc
Confidence            34555666666665542 3457889999999999998776542    1110              22334555554433 


Q ss_pred             --CCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          232 --CYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       232 --~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                        ..++++. ++...+...        -..+++=.+|+||+..  .+.++.+...+.....++++|++|++..
T Consensus        80 ~~i~i~~ir-~i~~~~~~~--------~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~  143 (162)
T PF13177_consen   80 KSIKIDQIR-EIIEFLSLS--------PSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPS  143 (162)
T ss_dssp             SSBSHHHHH-HHHHHCTSS---------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GG
T ss_pred             chhhHHHHH-HHHHHHHHH--------HhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChH
Confidence              4454443 444333321        1124667899999975  4678888888888778899999888664

...

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=96.22  E-value=0.0052  Score=57.11  Aligned_cols=106  Identities=15%  Similarity=0.059  Sum_probs=62.2

Q ss_pred             eechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc-ccccceeEEEEcCCCCCHHHHHHHHHHHhCCc
Q 045113          170 VGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV-KHYFDCHAWVQEPYTCYADQILDIIIKFLMPS  248 (821)
Q Consensus       170 vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  248 (821)
                      ||....++++.+.+..-...-..|-|+|..|+||+++|+.++..... ...|..+-   .... .     .+++++    
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~---~~~~-~-----~~~l~~----   67 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVID---CASL-P-----AELLEQ----   67 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCC---HHCT-C-----HHHHHH----
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEec---hhhC-c-----HHHHHH----
Confidence            57788888888888764333567889999999999999999974222 12332111   1111 1     222222    


Q ss_pred             hhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCC-CCCCcEEEEEecch
Q 045113          249 SRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPD-NQNGSRVLITLAKI  299 (821)
Q Consensus       249 ~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~-~~~gs~iiiTtr~~  299 (821)
                                 .+.--|+++|+..  .+....+...+.. .....|+|.||+..
T Consensus        68 -----------a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   68 -----------AKGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             -----------CTTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             -----------cCCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence                       1445688999964  3444455444442 25568999998743

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=96.21  E-value=0.01  Score=70.40  Aligned_cols=44  Identities=18%  Similarity=0.246  Sum_probs=37.3

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++||+.+++++++.|....  ..-+-++|.+|+|||++|+.+.+
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~--~~n~LLvGppGvGKT~lae~la~  229 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAW  229 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHH
Confidence            469999999999999998753  23445899999999999999886

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.20  E-value=0.041  Score=63.91  Aligned_cols=126  Identities=13%  Similarity=0.085  Sum_probs=72.9

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc--------------------cccceeEE
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK--------------------HYFDCHAW  225 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~--------------------~~F~~~~w  225 (821)
                      -.+++|.+...+.+...+..+. -...+-++|..|+||||+|+.+.+.---.                    .++| ++.
T Consensus        15 f~~iiGq~~v~~~L~~~i~~~~-~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d-~~e   92 (576)
T PRK14965         15 FSDLTGQEHVSRTLQNAIDTGR-VAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVD-VFE   92 (576)
T ss_pred             HHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCC-eee
Confidence            3479999999999999887653 23567889999999999998887631000                    0112 122


Q ss_pred             EEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEe-cchhhh
Q 045113          226 VQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITL-AKIDTV  302 (821)
Q Consensus       226 v~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTt-r~~~v~  302 (821)
                      +.......++++ ++|.+.+..        .-..+++-++|+|++..  ....+.+...+........+|++| ....+.
T Consensus        93 id~~s~~~v~~i-r~l~~~~~~--------~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~  163 (576)
T PRK14965         93 IDGASNTGVDDI-RELRENVKY--------LPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVP  163 (576)
T ss_pred             eeccCccCHHHH-HHHHHHHHh--------ccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhh
Confidence            222222233332 222222110        01124555788999964  356777777776655566666554 444443

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.18  E-value=0.032  Score=59.91  Aligned_cols=68  Identities=18%  Similarity=0.112  Sum_probs=46.5

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccccc----ceeEEEEcCCCCCHHHHHHHHHHHhC
Q 045113          178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF----DCHAWVQEPYTCYADQILDIIIKFLM  246 (821)
Q Consensus       178 ~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F----~~~~wv~~s~~~~~~~~~~~i~~~l~  246 (821)
                      .+-++|..+=+.-.++-|+|.+|+|||++|..++........+    ..++||+....|+...+.+ +++.++
T Consensus        90 ~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g  161 (317)
T PRK04301         90 ELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALG  161 (317)
T ss_pred             HHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcC
Confidence            3344555554557899999999999999998887532221111    4799999999888877654 344443

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.14  E-value=0.039  Score=56.15  Aligned_cols=58  Identities=16%  Similarity=0.141  Sum_probs=40.9

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccccc------ceeEEEEcCCCCCHHHHH
Q 045113          179 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF------DCHAWVQEPYTCYADQIL  238 (821)
Q Consensus       179 i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F------~~~~wv~~s~~~~~~~~~  238 (821)
                      +-++|..+=..-.++.|+|.+|+|||+||..+...  ....-      ..++|++....++...+.
T Consensus         8 lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~--~~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393           8 LDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVE--AQLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             HHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHH--hhcccccCCCcceEEEEecCCCCCHHHHH
Confidence            33444445455789999999999999999988752  22223      467899888877765544

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.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.11  E-value=0.028  Score=59.92  Aligned_cols=70  Identities=16%  Similarity=-0.001  Sum_probs=47.1

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc----ccceeEEEEcCCCCCHHHHHHHHHHHhCC
Q 045113          177 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH----YFDCHAWVQEPYTCYADQILDIIIKFLMP  247 (821)
Q Consensus       177 ~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~----~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  247 (821)
                      +.+-++|..+=+.-.++.|+|.+|+|||||+..++.......    .-..++|++....++..++ .++++.++.
T Consensus        83 ~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~  156 (316)
T TIGR02239        83 KELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGL  156 (316)
T ss_pred             HHHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCC
Confidence            344455655545688999999999999999988875222211    1236799998888887764 344555443

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).

>PRK07667 uridine kinase; Provisional

Probab=96.11  E-value=0.01  Score=58.68  Aligned_cols=38  Identities=18%  Similarity=0.154  Sum_probs=32.3

Q ss_pred             hHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          175 RMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       175 ~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+.|.+.+..-.+...+|+|.|.+|+||||+|+.+..
T Consensus         2 ~~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~   39 (193)
T PRK07667          2 STNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKE   39 (193)
T ss_pred             CHHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            35677788877666679999999999999999999987

>PRK06696 uridine kinase; Validated

Probab=96.10  E-value=0.0069  Score=61.46  Aligned_cols=42  Identities=21%  Similarity=0.196  Sum_probs=35.2

Q ss_pred             echhhHHHHHHHHhc-CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          171 GLDDRMEELLDLLIE-GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       171 Gr~~~~~~i~~~L~~-~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|++-+++|.+.+.. ..+...+|+|.|.+|+||||||+.+..
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~   44 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAE   44 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            366777888888865 344689999999999999999999987

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.08  E-value=0.027  Score=60.53  Aligned_cols=70  Identities=14%  Similarity=0.029  Sum_probs=48.5

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc----ccceeEEEEcCCCCCHHHHHHHHHHHhCC
Q 045113          177 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH----YFDCHAWVQEPYTCYADQILDIIIKFLMP  247 (821)
Q Consensus       177 ~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~----~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  247 (821)
                      ..+-++|..+=..-.++-|+|.+|+|||+||..++-......    .=..++|++....|+.+++. +|++.++.
T Consensus       110 ~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~  183 (342)
T PLN03186        110 RELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGL  183 (342)
T ss_pred             HHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCC
Confidence            344455555545578899999999999999987774322211    11379999999999888764 45665544

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.08  E-value=0.051  Score=63.39  Aligned_cols=125  Identities=14%  Similarity=0.126  Sum_probs=76.2

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcc---------------------cccccceeEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNY---------------------VKHYFDCHAW  225 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~---------------------~~~~F~~~~w  225 (821)
                      .+++|-+...+.+..++..+. -...+-++|..|+||||+|+.+...-.                     ...+|+. ..
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~-l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~-~~   94 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNK-LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI-HE   94 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce-EE
Confidence            468999999999999997753 245678999999999999887665210                     1124543 23


Q ss_pred             EEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEe-cchhhh
Q 045113          226 VQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITL-AKIDTV  302 (821)
Q Consensus       226 v~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTt-r~~~v~  302 (821)
                      +..+...++.++.. +++++...        -..+++-++|+|++..  ...++.+...+.....++.+|++| +...+.
T Consensus        95 ld~~~~~~vd~Ir~-li~~~~~~--------P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl  165 (614)
T PRK14971         95 LDAASNNSVDDIRN-LIEQVRIP--------PQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKIL  165 (614)
T ss_pred             ecccccCCHHHHHH-HHHHHhhC--------cccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhch
Confidence            33333333433332 22221110        0123555889999864  356888888887665667765544 444444

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=96.08  E-value=0.027  Score=61.26  Aligned_cols=103  Identities=17%  Similarity=0.149  Sum_probs=61.8

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEE
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVI  267 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVl  267 (821)
                      .....+-|||..|.|||.|++++.+  ....+......+.++    .+....+++..+.. ...+..++..  .-=++++
T Consensus       111 ~~~nplfi~G~~GlGKTHLl~Aign--~~~~~~~~a~v~y~~----se~f~~~~v~a~~~-~~~~~Fk~~y--~~dlllI  181 (408)
T COG0593         111 GAYNPLFIYGGVGLGKTHLLQAIGN--EALANGPNARVVYLT----SEDFTNDFVKALRD-NEMEKFKEKY--SLDLLLI  181 (408)
T ss_pred             CcCCcEEEECCCCCCHHHHHHHHHH--HHHhhCCCceEEecc----HHHHHHHHHHHHHh-hhHHHHHHhh--ccCeeee
Confidence            3578999999999999999999999  666655533333333    23333333333332 1245566666  4448899


Q ss_pred             ecCCCH---HH-HHHHHHhCCC-CCCCcEEEEEecch
Q 045113          268 DDVWSI---EV-WDIIREILPD-NQNGSRVLITLAKI  299 (821)
Q Consensus       268 Ddv~~~---~~-~~~l~~~l~~-~~~gs~iiiTtr~~  299 (821)
                      ||++--   +. -+++...+.. ...|-.||+|++..
T Consensus       182 DDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~  218 (408)
T COG0593         182 DDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRP  218 (408)
T ss_pred             chHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCC
Confidence            999642   22 2333333332 22344899998654

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.07  E-value=0.0058  Score=68.45  Aligned_cols=45  Identities=16%  Similarity=0.313  Sum_probs=39.7

Q ss_pred             CeeechhhHHHHHHHHhc----CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          168 DTVGLDDRMEELLDLLIE----GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~----~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +++|.++.+++|++.|..    -+..-+++.++|++|+||||||+.+.+
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            689999999999999943    244578999999999999999999997

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=96.03  E-value=0.028  Score=57.49  Aligned_cols=124  Identities=15%  Similarity=0.182  Sum_probs=77.4

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEE-EEcCCCCCHHHHHHHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAW-VQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~w-v~~s~~~~~~~~~~~i~~~  244 (821)
                      ..+++|-+..+.-+.+.+...  .....-.+|++|.|||+-|.++...---.+.|.+++. .++|..-.+.-+-..+   
T Consensus        35 ~de~~gQe~vV~~L~~a~~~~--~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Ki---  109 (346)
T KOG0989|consen   35 FDELAGQEHVVQVLKNALLRR--ILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKI---  109 (346)
T ss_pred             HHhhcchHHHHHHHHHHHhhc--CCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhh---
Confidence            457899999999998888874  3788899999999999988777652111456765543 3455443332111000   


Q ss_pred             hCCchhHHHHHHHh------CCCc-EEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          245 LMPSSRLIILHEYL------MTKR-YLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       245 l~~~~~~~~l~~~l------~~kr-~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                       .   +...+.-..      ..++ -.+|||+++..  +.|..++..+.+....++-|..+..
T Consensus       110 -k---~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcny  168 (346)
T KOG0989|consen  110 -K---NFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNY  168 (346)
T ss_pred             -c---CHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCC
Confidence             0   011111111      1133 37899999865  7899999988876666665444433

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=96.01  E-value=0.073  Score=55.78  Aligned_cols=131  Identities=19%  Similarity=0.217  Sum_probs=81.0

Q ss_pred             CCCCCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC
Q 045113          162 LSFKNRDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY  230 (821)
Q Consensus       162 ~~~~~~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~  230 (821)
                      |.+.-.++-|.++.+++|.+...-+           =...+=|-++|.+|.|||-||++|.+  +....|=     .|..
T Consensus       146 PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~--~T~AtFI-----rvvg  218 (406)
T COG1222         146 PDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVAN--QTDATFI-----RVVG  218 (406)
T ss_pred             CCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHh--ccCceEE-----Eecc
Confidence            3344457889999999998887653           13467788999999999999999999  5555552     2221


Q ss_pred             CCCHHHHHHHHHHHhCCchh-HHHHHHHhC-CCcEEEEEecCCCH-------------HH---HHHHHHhCCC--CCCCc
Q 045113          231 TCYADQILDIIIKFLMPSSR-LIILHEYLM-TKRYLIVIDDVWSI-------------EV---WDIIREILPD--NQNGS  290 (821)
Q Consensus       231 ~~~~~~~~~~i~~~l~~~~~-~~~l~~~l~-~kr~LlVlDdv~~~-------------~~---~~~l~~~l~~--~~~gs  290 (821)
                      +   +-+++-|.    .... ...+.+.-+ ..+..|.+|.++..             +.   .-++...+..  ....-
T Consensus       219 S---ElVqKYiG----EGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nv  291 (406)
T COG1222         219 S---ELVQKYIG----EGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNV  291 (406)
T ss_pred             H---HHHHHHhc----cchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCe
Confidence            1   11222211    1111 333444443 57899999998621             11   2233333332  23357


Q ss_pred             EEEEEecchhhh--cccc
Q 045113          291 RVLITLAKIDTV--TLFQ  306 (821)
Q Consensus       291 ~iiiTtr~~~v~--~lf~  306 (821)
                      |||..|...++.  .|+.
T Consensus       292 KVI~ATNR~D~LDPALLR  309 (406)
T COG1222         292 KVIMATNRPDILDPALLR  309 (406)
T ss_pred             EEEEecCCccccChhhcC
Confidence            999999988888  4555

>cd01394 radB RadB

Probab=96.00  E-value=0.031  Score=56.49  Aligned_cols=54  Identities=17%  Similarity=0.042  Sum_probs=37.5

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC
Q 045113          178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY  233 (821)
Q Consensus       178 ~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~  233 (821)
                      .+-++|..+=..-.++.|.|.+|+||||+|.++..  .....=..++|++....+.
T Consensus         7 ~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~--~~~~~g~~v~yi~~e~~~~   60 (218)
T cd01394           7 GLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAV--ETAGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             HHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHH--HHHhcCCeEEEEECCCCCH
Confidence            34444544444578999999999999999998876  3323334677887665554

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=95.99  E-value=0.019  Score=68.23  Aligned_cols=109  Identities=9%  Similarity=0.158  Sum_probs=65.9

Q ss_pred             CCeeechhhHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEG-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILD  239 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~  239 (821)
                      ..++|-+..++.|.+.+...       ......+-++|.+|+|||++|+.+..  ....   ..+.+..+.-....    
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~--~l~~---~~i~id~se~~~~~----  528 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSK--ALGI---ELLRFDMSEYMERH----  528 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHH--HhCC---CcEEeechhhcccc----
Confidence            45899999999999988731       22356788999999999999999987  3322   22333333221111    


Q ss_pred             HHHHHhCCch------hHHHHHHHhCC-CcEEEEEecCCCH--HHHHHHHHhCC
Q 045113          240 IIIKFLMPSS------RLIILHEYLMT-KRYLIVIDDVWSI--EVWDIIREILP  284 (821)
Q Consensus       240 ~i~~~l~~~~------~~~~l~~~l~~-kr~LlVlDdv~~~--~~~~~l~~~l~  284 (821)
                      .+.+-++.+.      ....+.+.++. ...+|+||++...  +.++.+...+.
T Consensus       529 ~~~~LiG~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld  582 (758)
T PRK11034        529 TVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMD  582 (758)
T ss_pred             cHHHHcCCCCCcccccccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHh
Confidence            1111112111      12344455544 3469999999754  55677766654

>CHL00176 ftsH cell division protein; Validated

Probab=95.97  E-value=0.023  Score=66.25  Aligned_cols=48  Identities=21%  Similarity=0.274  Sum_probs=34.9

Q ss_pred             CCCeeechhhHHHHHHHH---hcCC-------CCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          166 NRDTVGLDDRMEELLDLL---IEGP-------PQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L---~~~~-------~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|.++.++++.+.+   ..+.       ...+-|.++|.+|+|||+||+++.+.
T Consensus       182 f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e  239 (638)
T CHL00176        182 FRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGE  239 (638)
T ss_pred             HHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            346889887777665544   3321       12456889999999999999999883

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.95  E-value=0.041  Score=55.90  Aligned_cols=110  Identities=13%  Similarity=0.045  Sum_probs=66.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC-----CCCHHHHHHHHHHHhCCchh--------------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY-----TCYADQILDIIIKFLMPSSR--------------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~-----~~~~~~~~~~i~~~l~~~~~--------------  250 (821)
                      -.++|+||..|.||||+++.+..   .-.--...++..-.+     .....+-..++++.++...+              
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~---L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQr  115 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILG---LEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQR  115 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHc---CcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhh
Confidence            56999999999999999999997   222222333332111     22234456677777776643              


Q ss_pred             -HHHHHHHhCCCcEEEEEecCCCHHHH---HHHHHhCC--CCCCCcEEEEEecchhhh
Q 045113          251 -LIILHEYLMTKRYLIVIDDVWSIEVW---DIIREILP--DNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       251 -~~~l~~~l~~kr~LlVlDdv~~~~~~---~~l~~~l~--~~~~gs~iiiTtr~~~v~  302 (821)
                       .-.+.+.|.-++-+||.|..-+..+.   ..+...+.  ....|-..+..|-+-.|+
T Consensus       116 QRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv  173 (268)
T COG4608         116 QRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVV  173 (268)
T ss_pred             hhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhh
Confidence             45677888899999999997543211   22222222  122345566666665555

>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=95.95  E-value=0.038  Score=53.95  Aligned_cols=109  Identities=15%  Similarity=0.130  Sum_probs=62.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEE---cCCCCCHHHHHH------HHHHHhCCchh----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQ---EPYTCYADQILD------IIIKFLMPSSR----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~---~s~~~~~~~~~~------~i~~~l~~~~~----------  250 (821)
                      -.+++|+|..|.|||||++.+....   ......+++.   +. ..+......      ++++.++....          
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~~---~~~~G~v~~~g~~~~-~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~  100 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGLL---KPSSGEILLDGKDLA-SLSPKELARKIAYVPQALELLGLAHLADRPFNELSG  100 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC---CCCCcEEEECCEECC-cCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCH
Confidence            4599999999999999999999732   2233444432   22 112222111      13444443211          


Q ss_pred             ----HHHHHHHhCCCcEEEEEecCCC---HHHHHHHHHhCCCC-CC-CcEEEEEecchhhh
Q 045113          251 ----LIILHEYLMTKRYLIVIDDVWS---IEVWDIIREILPDN-QN-GSRVLITLAKIDTV  302 (821)
Q Consensus       251 ----~~~l~~~l~~kr~LlVlDdv~~---~~~~~~l~~~l~~~-~~-gs~iiiTtr~~~v~  302 (821)
                          .-.+.+.+...+-++++|+.-.   ....+.+...+... .. |..||++|.+....
T Consensus       101 G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214         101 GERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence                3455667778889999999853   23333333333321 12 56788888775543

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.

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=95.93  E-value=0.067  Score=62.59  Aligned_cols=125  Identities=16%  Similarity=0.110  Sum_probs=72.0

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCc---cc--------------ccccceeEEEEcC
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGN---YV--------------KHYFDCHAWVQEP  229 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~---~~--------------~~~F~~~~wv~~s  229 (821)
                      .+++|.+..++.+...+..+. -...+-++|..|+||||+|+.+.+.-   ..              ..+++ ++++...
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~r-l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~D-vieidaa   95 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNK-ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLD-IIEMDAA   95 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCc-EEEEecc
Confidence            468999999999999987653 24567789999999999998886521   00              00111 1222221


Q ss_pred             CCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEE-EEecchhhh
Q 045113          230 YTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVL-ITLAKIDTV  302 (821)
Q Consensus       230 ~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~ii-iTtr~~~v~  302 (821)
                      ...++.++ +++.+.+..        .-..+++-++|+|++..  ...++.+...+........+| +||+...+.
T Consensus        96 sn~~vd~I-ReLie~~~~--------~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl  162 (725)
T PRK07133         96 SNNGVDEI-RELIENVKN--------LPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIP  162 (725)
T ss_pred             ccCCHHHH-HHHHHHHHh--------chhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhh
Confidence            11222221 122221110        01235666899999964  357888887777655555555 444444443

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.92  E-value=0.0065  Score=56.06  Aligned_cols=23  Identities=17%  Similarity=0.176  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .--|.|.||+|+||||+++.+.+
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e   27 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAE   27 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHH
Confidence            34689999999999999999997

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=95.92  E-value=0.076  Score=60.30  Aligned_cols=122  Identities=15%  Similarity=0.091  Sum_probs=73.6

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCc---ccc-----------------cccceeEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGN---YVK-----------------HYFDCHAWV  226 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~---~~~-----------------~~F~~~~wv  226 (821)
                      .+++|-+...+.+...+..+. -..++-++|..|+||||+|+.+.+.-   .-.                 .|++ ++.+
T Consensus        14 deiiGqe~v~~~L~~~I~~gr-l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~d-v~el   91 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNR-LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHID-IIEM   91 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCe-EEEe
Confidence            469999999999998887653 24466889999999999998766521   000                 1122 2333


Q ss_pred             EcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          227 QEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       227 ~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      ..+....+.++...+ .....        .-..+++-++|+|++...  +..+.+...+....+.+++|++|.+.
T Consensus        92 daas~~gId~IReli-e~~~~--------~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~  157 (535)
T PRK08451         92 DAASNRGIDDIRELI-EQTKY--------KPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDP  157 (535)
T ss_pred             ccccccCHHHHHHHH-HHHhh--------CcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECCh
Confidence            333222343333222 21100        001245668899999643  56777777776656667777776553

>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=95.89  E-value=0.041  Score=51.51  Aligned_cols=94  Identities=12%  Similarity=0.074  Sum_probs=55.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEE-------cCCCCCHHHHHHHHHHHhCCchh-HHHHHHHhCCC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQ-------EPYTCYADQILDIIIKFLMPSSR-LIILHEYLMTK  261 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~-------~s~~~~~~~~~~~i~~~l~~~~~-~~~l~~~l~~k  261 (821)
                      -.+++|+|..|.|||||++.+.....   .....+|+.       +.+              +..... .-.+.+.+..+
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~---~~~G~i~~~~~~~i~~~~~--------------lS~G~~~rv~laral~~~   88 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGELE---PDEGIVTWGSTVKIGYFEQ--------------LSGGEKMRLALAKLLLEN   88 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCCC---CCceEEEECCeEEEEEEcc--------------CCHHHHHHHHHHHHHhcC
Confidence            46999999999999999999987422   122333321       111              221111 33455667778


Q ss_pred             cEEEEEecCCC---HHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          262 RYLIVIDDVWS---IEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       262 r~LlVlDdv~~---~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      +-++++|+...   ......+...+...  +..||++|.+....
T Consensus        89 p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~  130 (144)
T cd03221          89 PNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFL  130 (144)
T ss_pred             CCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHH
Confidence            88999999853   33333333333322  24688888765543

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.

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.88  E-value=0.088  Score=57.73  Aligned_cols=153  Identities=15%  Similarity=0.176  Sum_probs=85.0

Q ss_pred             CCCeeechh---hHHHHHHHHhcCC-------CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHH
Q 045113          166 NRDTVGLDD---RMEELLDLLIEGP-------PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYAD  235 (821)
Q Consensus       166 ~~~~vGr~~---~~~~i~~~L~~~~-------~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~  235 (821)
                      -.++-|.|+   ++++|+++|.++.       .=.+=|-++|++|.|||-||++|.-...|-  |    |......|+.-
T Consensus       303 F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VP--F----F~~sGSEFdEm  376 (752)
T KOG0734|consen  303 FEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVP--F----FYASGSEFDEM  376 (752)
T ss_pred             cccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCC--e----Eeccccchhhh
Confidence            456778765   5677888898752       125678899999999999999999844332  2    12222233211


Q ss_pred             HHHHHHHHHhCCchhHHHHHHHh----CCCcEEEEEecCCCH-------------HHHHHHHHhCCCCCC--CcEEEEEe
Q 045113          236 QILDIIIKFLMPSSRLIILHEYL----MTKRYLIVIDDVWSI-------------EVWDIIREILPDNQN--GSRVLITL  296 (821)
Q Consensus       236 ~~~~~i~~~l~~~~~~~~l~~~l----~~kr~LlVlDdv~~~-------------~~~~~l~~~l~~~~~--gs~iiiTt  296 (821)
                            .-..    .+.++++..    +.-++.|.+|.++..             ..++++...+....+  |--||-.|
T Consensus       377 ------~VGv----GArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiIvigAT  446 (752)
T KOG0734|consen  377 ------FVGV----GARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGIIVIGAT  446 (752)
T ss_pred             ------hhcc----cHHHHHHHHHHHHhcCCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCceEEEecc
Confidence                  1111    133444333    357899999998631             235666666664433  33333345


Q ss_pred             cchhhh--cccc---cccCCc-CCCCccchHHHHHHHcCCchHH
Q 045113          297 AKIDTV--TLFQ---FENGQN-IRLDLVPTGGPLRVTYQGWPFH  334 (821)
Q Consensus       297 r~~~v~--~lf~---~~~~~~-~~~~~~~~~~~i~~~c~glPLa  334 (821)
                      ...+..  .|.+   |..... +.|+...-.+-+--+..+.|++
T Consensus       447 Nfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki~~~  490 (752)
T KOG0734|consen  447 NFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKIPLD  490 (752)
T ss_pred             CChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHHhcCCcc
Confidence            444444  3333   443332 4455554444444455556554

>TIGR00602 rad24 checkpoint protein rad24

Probab=95.87  E-value=0.024  Score=65.63  Aligned_cols=48  Identities=13%  Similarity=0.063  Sum_probs=40.1

Q ss_pred             CCCCeeechhhHHHHHHHHhcCC---CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          165 KNRDTVGLDDRMEELLDLLIEGP---PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~~---~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.+++|-+..++++..++....   ...+++.|+|.+|+||||+++.+..
T Consensus        82 ~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~  132 (637)
T TIGR00602        82 TQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSK  132 (637)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            34579999999999999987642   2356899999999999999999997

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.87  E-value=0.055  Score=57.96  Aligned_cols=68  Identities=13%  Similarity=0.098  Sum_probs=46.6

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc----ccceeEEEEcCCCCCHHHHHHHHHHHhCC
Q 045113          179 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH----YFDCHAWVQEPYTCYADQILDIIIKFLMP  247 (821)
Q Consensus       179 i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~----~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  247 (821)
                      +-++|..+=..-.++-|+|.+|+||||++..++.......    .=..++||+....|+.+++. ++++.++.
T Consensus        84 lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl  155 (310)
T TIGR02236        84 LDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGL  155 (310)
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCC
Confidence            3445555544578999999999999999988875322211    11379999999988887765 34454443

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.

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.83  E-value=0.082  Score=61.68  Aligned_cols=122  Identities=14%  Similarity=0.056  Sum_probs=71.0

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccccc---------------------ceeEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF---------------------DCHAW  225 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F---------------------~~~~w  225 (821)
                      .+++|.+...+.+..++..+. -...+-++|..|+||||+|+.+.+.---....                     ..++.
T Consensus        16 ~~liGq~~i~~~L~~~l~~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~h~D~~e   94 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNR-IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGNALDVIE   94 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCCCccEEE
Confidence            468999999999998888653 23567889999999999999987631110000                     01122


Q ss_pred             EEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          226 VQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       226 v~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                      +.......++.+ +++++.+..        .-..+++-++|+|++..  ...++.+...+........+|++|.+
T Consensus        95 i~~~~~~~vd~I-Reii~~a~~--------~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~  160 (620)
T PRK14948         95 IDAASNTGVDNI-RELIERAQF--------APVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTD  160 (620)
T ss_pred             EeccccCCHHHH-HHHHHHHhh--------ChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCC
Confidence            222212222222 222222110        01124556889999974  35688888877765555655555543

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=95.82  E-value=0.11  Score=59.90  Aligned_cols=121  Identities=12%  Similarity=0.074  Sum_probs=73.4

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc--------------------cccceeEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK--------------------HYFDCHAWV  226 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~--------------------~~F~~~~wv  226 (821)
                      .+++|-+..++.+...+..+. -...+-++|..|+||||+|+.+.+.---.                    .+++. +++
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~-i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv-~~i   93 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNK-IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDV-IEI   93 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCe-EEe
Confidence            468999999999999997653 24568899999999999999987731100                    12322 222


Q ss_pred             EcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          227 QEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       227 ~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                      .......+.++. ++.+.+.        ..-..+++-++|+|++..  ...++.+...+........+|.+|..
T Consensus        94 dgas~~~vddIr-~l~e~~~--------~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte  158 (563)
T PRK06647         94 DGASNTSVQDVR-QIKEEIM--------FPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTE  158 (563)
T ss_pred             cCcccCCHHHHH-HHHHHHH--------hchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCC
Confidence            222222233222 1111110        001235666899999864  35678888887766666666666543

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.82  E-value=0.09  Score=54.60  Aligned_cols=120  Identities=13%  Similarity=0.040  Sum_probs=70.1

Q ss_pred             hHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCc--h---
Q 045113          175 RMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPS--S---  249 (821)
Q Consensus       175 ~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~--~---  249 (821)
                      ..+.++..|... .+..-++|+|..|.|||||.+.+...  +.. ....+++.- +.....+-..+++.....-  .   
T Consensus        97 ~~~~~l~~l~~~-~~~~~~~i~g~~g~GKttl~~~l~~~--~~~-~~G~i~~~g-~~v~~~d~~~ei~~~~~~~~q~~~~  171 (270)
T TIGR02858        97 AADKLLPYLVRN-NRVLNTLIISPPQCGKTTLLRDLARI--LST-GISQLGLRG-KKVGIVDERSEIAGCVNGVPQHDVG  171 (270)
T ss_pred             cHHHHHHHHHhC-CCeeEEEEEcCCCCCHHHHHHHHhCc--cCC-CCceEEECC-EEeecchhHHHHHHHhccccccccc
Confidence            345555555533 23678999999999999999999973  322 222333210 0000000112222222111  0   


Q ss_pred             ---h-------HHHHHHHhC-CCcEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          250 ---R-------LIILHEYLM-TKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       250 ---~-------~~~l~~~l~-~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                         +       +..+...+. ..+=++++|.+-..+.+..+...+.   .|..||+||....+.
T Consensus       172 ~r~~v~~~~~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~~  232 (270)
T TIGR02858       172 IRTDVLDGCPKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDVE  232 (270)
T ss_pred             ccccccccchHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHHH
Confidence               0       333444443 5788999999988777777766653   477899999987764

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.

>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=95.79  E-value=0.075  Score=57.40  Aligned_cols=41  Identities=10%  Similarity=0.110  Sum_probs=34.0

Q ss_pred             chhhHHHHHHHHhcCC-CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          172 LDDRMEELLDLLIEGP-PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       172 r~~~~~~i~~~L~~~~-~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      |+.-.+.+.+.+...+ ....+|+|.|.=|+||||+.+.+.+
T Consensus         1 ~~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~   42 (325)
T PF07693_consen    1 RKPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKE   42 (325)
T ss_pred             ChHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3455677888887754 6789999999999999999999987

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 [].

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.77  E-value=0.033  Score=67.09  Aligned_cols=48  Identities=19%  Similarity=0.195  Sum_probs=38.1

Q ss_pred             CCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          165 KNRDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.++.|.+..+++|.+++...           -...+-|.++|.+|+||||||+.+.+
T Consensus       176 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~  234 (733)
T TIGR01243       176 TYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVAN  234 (733)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHH
Confidence            3446889999999998887431           12346688999999999999999998

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.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.77  E-value=0.031  Score=62.11  Aligned_cols=93  Identities=20%  Similarity=0.190  Sum_probs=63.5

Q ss_pred             CCCCCeeechhhHHHHHHHHhcC---C-------CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC
Q 045113          164 FKNRDTVGLDDRMEELLDLLIEG---P-------PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY  233 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~~---~-------~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~  233 (821)
                      +.-.++-|.|..+.++.+++..-   +       ...+=|-++|.+|.|||.||+++.+  +..-.|     +.++..  
T Consensus       187 v~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAg--el~vPf-----~~isAp--  257 (802)
T KOG0733|consen  187 VSFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAG--ELGVPF-----LSISAP--  257 (802)
T ss_pred             cchhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhh--hcCCce-----Eeecch--
Confidence            34457889999999988887641   1       2356688999999999999999999  444333     333322  


Q ss_pred             HHHHHHHHHHHhCCchh--HHHHH-HHhCCCcEEEEEecCC
Q 045113          234 ADQILDIIIKFLMPSSR--LIILH-EYLMTKRYLIVIDDVW  271 (821)
Q Consensus       234 ~~~~~~~i~~~l~~~~~--~~~l~-~~l~~kr~LlVlDdv~  271 (821)
                            +|+....+..+  ..++. +.-..-++++++|+++
T Consensus       258 ------eivSGvSGESEkkiRelF~~A~~~aPcivFiDeID  292 (802)
T KOG0733|consen  258 ------EIVSGVSGESEKKIRELFDQAKSNAPCIVFIDEID  292 (802)
T ss_pred             ------hhhcccCcccHHHHHHHHHHHhccCCeEEEeeccc
Confidence                  44444444433  33444 3345689999999997

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=95.76  E-value=0.0057  Score=61.15  Aligned_cols=84  Identities=20%  Similarity=0.180  Sum_probs=61.2

Q ss_pred             hhccCCceeEEEeCCCC--CC-cccccccCCCCceEEeecCCCCc---cccHHHHhccccceEEecCCcccccc----hh
Q 045113          513 ICEMYKLLRVLDLGSLV--LN-QYPSEIENLSLLRYLKLNIPSLK---SLPLSFFNYLLNLYTLDMPFSYIDHT----AD  582 (821)
Q Consensus       513 ~~~~~~~Lr~L~L~~~~--l~-~lp~~i~~l~~Lr~L~L~~~~i~---~lp~~i~~~L~~L~~L~L~~~~l~~l----p~  582 (821)
                      -|..+++|+.|+++.|.  +. .++-...++++|++|++++|+|.   +++ .+. .+.+|.+|++.+|....+    -.
T Consensus        60 ~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~-pl~-~l~nL~~Ldl~n~~~~~l~dyre~  137 (260)
T KOG2739|consen   60 NFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLR-PLK-ELENLKSLDLFNCSVTNLDDYREK  137 (260)
T ss_pred             cCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccc-hhh-hhcchhhhhcccCCccccccHHHH
Confidence            46678899999999994  33 56555667799999999999876   333 445 788899999999955544    12


Q ss_pred             hhccCccCceeecCCc
Q 045113          583 EFWKMKKLRHLNFGSI  598 (821)
Q Consensus       583 ~i~~l~~L~~L~L~~~  598 (821)
                      .+.-+++|++||-...
T Consensus       138 vf~ll~~L~~LD~~dv  153 (260)
T KOG2739|consen  138 VFLLLPSLKYLDGCDV  153 (260)
T ss_pred             HHHHhhhhcccccccc
Confidence            3455788888865443

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=95.73  E-value=0.054  Score=62.08  Aligned_cols=50  Identities=22%  Similarity=0.324  Sum_probs=35.8

Q ss_pred             CCCCCeeechhhHHHHHHHHh---cC-------CCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          164 FKNRDTVGLDDRMEELLDLLI---EG-------PPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~---~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      +.-.+++|.+..++++.+.+.   ..       ....+-+-++|.+|+|||+||+.+.+.
T Consensus        52 ~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~  111 (495)
T TIGR01241        52 VTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGE  111 (495)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence            334578898887776655443   21       122445889999999999999999983

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.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=95.73  E-value=0.046  Score=52.95  Aligned_cols=104  Identities=13%  Similarity=0.154  Sum_probs=59.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC-ccc--ccc---cc--eeEEEEcCCCCCHHHHHHHHHHHhCCch---h--------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG-NYV--KHY---FD--CHAWVQEPYTCYADQILDIIIKFLMPSS---R--------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~-~~~--~~~---F~--~~~wv~~s~~~~~~~~~~~i~~~l~~~~---~--------  250 (821)
                      -.+++|+|..|+|||||.+.+..+ -++  ...   |.  .+.|+  .+        .+.++.+....   +        
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~--~q--------~~~l~~~~L~~~~~~~~~~~LSg   90 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFI--DQ--------LQFLIDVGLGYLTLGQKLSTLSG   90 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEE--hH--------HHHHHHcCCCccccCCCcCcCCH
Confidence            468999999999999999998632 111  111   11  12332  22        34455554321   1        


Q ss_pred             ----HHHHHHHhCCC--cEEEEEecCCC---HHHHHHHHHhCCC-CCCCcEEEEEecchhhhc
Q 045113          251 ----LIILHEYLMTK--RYLIVIDDVWS---IEVWDIIREILPD-NQNGSRVLITLAKIDTVT  303 (821)
Q Consensus       251 ----~~~l~~~l~~k--r~LlVlDdv~~---~~~~~~l~~~l~~-~~~gs~iiiTtr~~~v~~  303 (821)
                          .-.+.+.+-.+  +-++++|..-.   ....+.+...+.. ...|..||++|.+.+...
T Consensus        91 Gq~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~  153 (176)
T cd03238          91 GELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLS  153 (176)
T ss_pred             HHHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence                33445556666  77889999853   2333333333322 124677888888876653

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.

>PTZ00035 Rad51 protein; Provisional

Probab=95.70  E-value=0.071  Score=57.45  Aligned_cols=69  Identities=14%  Similarity=0.000  Sum_probs=46.2

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc----cccceeEEEEcCCCCCHHHHHHHHHHHhCC
Q 045113          178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK----HYFDCHAWVQEPYTCYADQILDIIIKFLMP  247 (821)
Q Consensus       178 ~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~----~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  247 (821)
                      .+-++|..+=+.-.++.|+|.+|+|||||+..++-.....    ..=..++|++....|+.+++ .++++.++.
T Consensus       106 ~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~  178 (337)
T PTZ00035        106 QLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGL  178 (337)
T ss_pred             HHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCC
Confidence            3445555554567899999999999999998887432321    11235779998888887764 344555443

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.66  E-value=0.025  Score=55.06  Aligned_cols=36  Identities=19%  Similarity=0.194  Sum_probs=29.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEE
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWV  226 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  226 (821)
                      ...+|.+.|+.|+||||+|+.+++  +....+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~--~l~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYE--RLKLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHH--HHHHcCCcEEEE
Confidence            356999999999999999999998  555556666665

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=95.64  E-value=0.051  Score=52.69  Aligned_cols=102  Identities=12%  Similarity=0.043  Sum_probs=56.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccc-cc--ccceeEEEEcCCCCCHHHHHHHHHHHhCCchh-HHHHHHHhCCCcEEE
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYV-KH--YFDCHAWVQEPYTCYADQILDIIIKFLMPSSR-LIILHEYLMTKRYLI  265 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~--~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~-~~~l~~~l~~kr~Ll  265 (821)
                      -.+++|+|..|.|||||++.+..-... .+  .|+..-...+.+...           +...+. .-.+.+.+..++-++
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~-----------LSgGq~qrv~laral~~~p~ll   93 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYID-----------LSGGELQRVAIAAALLRNATFY   93 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCC-----------CCHHHHHHHHHHHHHhcCCCEE
Confidence            459999999999999999999863211 11  122110111223222           222221 445566777788899


Q ss_pred             EEecCCCH---HHHHHHHHhCCC--CCCCcEEEEEecchhhh
Q 045113          266 VIDDVWSI---EVWDIIREILPD--NQNGSRVLITLAKIDTV  302 (821)
Q Consensus       266 VlDdv~~~---~~~~~l~~~l~~--~~~gs~iiiTtr~~~v~  302 (821)
                      ++|..-..   ...+.+...+..  ...+.-||++|.+....
T Consensus        94 lLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~  135 (177)
T cd03222          94 LFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVL  135 (177)
T ss_pred             EEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHHHH
Confidence            99998532   322333332221  11235677777776554

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.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=95.64  E-value=0.1  Score=59.94  Aligned_cols=48  Identities=19%  Similarity=0.187  Sum_probs=41.5

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ...++|....++++.+.+..-...-.-|-|+|..|+|||++|+.+++.
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~  233 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAA  233 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHh
Confidence            457999999999999999875445668889999999999999999973

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=95.60  E-value=0.27  Score=52.80  Aligned_cols=142  Identities=13%  Similarity=0.091  Sum_probs=74.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCccc-------------------ccccceeEEEEcC---CCCCHHHHHHHHHHHhC
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYV-------------------KHYFDCHAWVQEP---YTCYADQILDIIIKFLM  246 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~-------------------~~~F~~~~wv~~s---~~~~~~~~~~~i~~~l~  246 (821)
                      -...+-++|..|+||||+|+.+...---                   .+......|+.-.   +...++++-+ +.+.+.
T Consensus        21 ~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~-l~~~~~   99 (328)
T PRK05707         21 HPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRE-LVSFVV   99 (328)
T ss_pred             cceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHH-HHHHHh
Confidence            3567889999999999999776652100                   0111123344221   2233333321 222211


Q ss_pred             CchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecchhhh--------cccccccCCc----
Q 045113          247 PSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKIDTV--------TLFQFENGQN----  312 (821)
Q Consensus       247 ~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~--------~lf~~~~~~~----  312 (821)
                      ..        -..+++-++|+|++..  ....+.+...+.....++.+|+||.+....        ..+.|..-..    
T Consensus       100 ~~--------~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~  171 (328)
T PRK05707        100 QT--------AQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESL  171 (328)
T ss_pred             hc--------cccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHH
Confidence            10        0123444557799975  467788888887766678888887776443        2222332211    


Q ss_pred             ------CCCCccchHHHHHHHcCCchHHHHHhh
Q 045113          313 ------IRLDLVPTGGPLRVTYQGWPFHILYHG  339 (821)
Q Consensus       313 ------~~~~~~~~~~~i~~~c~glPLai~~~g  339 (821)
                            ......+.+..++..++|.|+.+..+.
T Consensus       172 ~~L~~~~~~~~~~~~~~~l~la~Gsp~~A~~l~  204 (328)
T PRK05707        172 QWLQQALPESDERERIELLTLAGGSPLRALQLH  204 (328)
T ss_pred             HHHHHhcccCChHHHHHHHHHcCCCHHHHHHHH
Confidence                  001112234466778888887655443

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=95.60  E-value=0.027  Score=55.04  Aligned_cols=95  Identities=20%  Similarity=0.198  Sum_probs=59.4

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc-ccc-ceeEEEEcCCCCCHHHHHHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK-HYF-DCHAWVQEPYTCYADQILDIIIK  243 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~-~~F-~~~~wv~~s~~~~~~~~~~~i~~  243 (821)
                      -.++||-++.++++.-+-.+++  +.-+.|.||+|+||||-+..+.+  +.- ..+ +.+.=..+|....+.-+-..|-.
T Consensus        26 l~dIVGNe~tv~rl~via~~gn--mP~liisGpPG~GKTTsi~~LAr--~LLG~~~ke~vLELNASdeRGIDvVRn~IK~  101 (333)
T KOG0991|consen   26 LQDIVGNEDTVERLSVIAKEGN--MPNLIISGPPGTGKTTSILCLAR--ELLGDSYKEAVLELNASDERGIDVVRNKIKM  101 (333)
T ss_pred             HHHhhCCHHHHHHHHHHHHcCC--CCceEeeCCCCCchhhHHHHHHH--HHhChhhhhHhhhccCccccccHHHHHHHHH
Confidence            3579999999999877776665  88899999999999997666665  221 112 34444455555544433332211


Q ss_pred             HhCCchhHHHHHHH--h-CCCcEEEEEecCCCH
Q 045113          244 FLMPSSRLIILHEY--L-MTKRYLIVIDDVWSI  273 (821)
Q Consensus       244 ~l~~~~~~~~l~~~--l-~~kr~LlVlDdv~~~  273 (821)
                      -.         ++.  | .++--.||||..++.
T Consensus       102 FA---------Q~kv~lp~grhKIiILDEADSM  125 (333)
T KOG0991|consen  102 FA---------QKKVTLPPGRHKIIILDEADSM  125 (333)
T ss_pred             HH---------HhhccCCCCceeEEEeeccchh
Confidence            10         011  1 245558899999875

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=95.58  E-value=0.039  Score=59.37  Aligned_cols=46  Identities=20%  Similarity=0.216  Sum_probs=39.4

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|....+.++.+.+..-...-.-|-|+|-.|+||+++|+.++.
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~   51 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHY   51 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHH
Confidence            4589999999999999876544456788999999999999999986

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=95.58  E-value=0.11  Score=51.89  Aligned_cols=124  Identities=16%  Similarity=0.190  Sum_probs=74.1

Q ss_pred             CCCCeeechhhHHH---HHHHHhcC----CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHH
Q 045113          165 KNRDTVGLDDRMEE---LLDLLIEG----PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQI  237 (821)
Q Consensus       165 ~~~~~vGr~~~~~~---i~~~L~~~----~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~  237 (821)
                      .-.++||.++.+.+   |++.|..+    +...+-|-.+|.+|.|||.+|+++.+.  .+--|     +.|.    .   
T Consensus       119 t~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane--~kvp~-----l~vk----a---  184 (368)
T COG1223         119 TLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANE--AKVPL-----LLVK----A---  184 (368)
T ss_pred             cHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcc--cCCce-----EEec----h---
Confidence            34578998887765   67888764    467899999999999999999999994  43333     1111    1   


Q ss_pred             HHHHHHHhCCchh-HHHHHHHh-CCCcEEEEEecCCCH--------------HHHHHHHHhCC--CCCCCcEEEEEecch
Q 045113          238 LDIIIKFLMPSSR-LIILHEYL-MTKRYLIVIDDVWSI--------------EVWDIIREILP--DNQNGSRVLITLAKI  299 (821)
Q Consensus       238 ~~~i~~~l~~~~~-~~~l~~~l-~~kr~LlVlDdv~~~--------------~~~~~l~~~l~--~~~~gs~iiiTtr~~  299 (821)
                      .+-|.+.++.... ..++.+.- +.-++.+.+|.++-.              +..+.+...+.  ..+-|-.-|-.|.+.
T Consensus       185 t~liGehVGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p  264 (368)
T COG1223         185 TELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNRP  264 (368)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCCh
Confidence            1122222222211 33444333 358899999988621              22344444444  233455555566665


Q ss_pred             hhh
Q 045113          300 DTV  302 (821)
Q Consensus       300 ~v~  302 (821)
                      +..
T Consensus       265 ~~L  267 (368)
T COG1223         265 ELL  267 (368)
T ss_pred             hhc
Confidence            555

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=95.57  E-value=0.051  Score=64.97  Aligned_cols=130  Identities=13%  Similarity=0.084  Sum_probs=72.5

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhC
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLM  246 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  246 (821)
                      ..++|....++++.+.+..-...-.-|-|+|..|+|||++|+.+++...-+  -...+.+.+..-. ...+...+.....
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~--~~~~v~i~c~~~~-~~~~~~~lfg~~~  452 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRN--NRRMVKMNCAAMP-AGLLESDLFGHER  452 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCCC--CCCeEEEecccCC-hhHhhhhhcCccc
Confidence            469999999999988887543345678899999999999999999742211  1133334433322 1222222222111


Q ss_pred             Cch---hHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCC-----------CCCcEEEEEecch
Q 045113          247 PSS---RLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDN-----------QNGSRVLITLAKI  299 (821)
Q Consensus       247 ~~~---~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~-----------~~gs~iiiTtr~~  299 (821)
                      +..   ........-....=.|+||+|...  .....+...+..+           ..+.|||.||...
T Consensus       453 ~~~~g~~~~~~g~le~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~  521 (686)
T PRK15429        453 GAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRD  521 (686)
T ss_pred             ccccccccchhhHHHhcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCC
Confidence            100   011111122233457999999753  4445555444321           1345888888653

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=95.57  E-value=0.045  Score=51.01  Aligned_cols=21  Identities=14%  Similarity=0.184  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +|-++|++|+||||+|+.+..
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            578999999999999999985

...

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=95.55  E-value=0.016  Score=58.87  Aligned_cols=105  Identities=19%  Similarity=0.211  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHHHhcchhhccccccchhHHHHHHHHHHHHHHHHhhhhhhhHHhhhhcccccCCChhHHHHHHHHHHHHhh
Q 045113           12 NFRLFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDENDNPDLRTVMDEINCFTYE   91 (821)
Q Consensus        12 ~~~~~~~kl~~~l~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~wl~~l~~~~~~   91 (821)
                      -|..++..+-++.. .....+.-++.+++-++.+++.+|.|++.+-.+           ........+.+..++...||+
T Consensus       297 yVdFlL~NLkdfq~-rysdSlaflKnQiqvIQ~elesLqpFLk~V~ee-----------~~nkh~~~ed~a~~ii~kAye  364 (402)
T PF12061_consen  297 YVDFLLKNLKDFQG-RYSDSLAFLKNQIQVIQTELESLQPFLKHVVEE-----------PHNKHDTNEDCATQIIRKAYE  364 (402)
T ss_pred             HHHHHHhhHHHHhc-cccchHHHHHHHHHHHHHHHHHhhHHHHHHHhc-----------cchhhhhhhhHHHHHHHHHhh
Confidence            45566677777666 666777888999999999999999999998551           333334489999999999999


Q ss_pred             hHHHHHHhHhhhcccCCCCChHHHHHHHHHHHHHHHH
Q 045113           92 SEKVIDTFISSITQQKSQSGCREDICDALQGLQSKII  128 (821)
Q Consensus        92 ~ed~ld~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  128 (821)
                      +|.++|-+..........-.|...+..+|+-++++++
T Consensus       365 vEYVVDaCi~k~~P~Wcl~~WL~dIieei~~ik~~i~  401 (402)
T PF12061_consen  365 VEYVVDACISKSVPHWCLERWLLDIIEEITCIKAKIQ  401 (402)
T ss_pred             eeeeeehhhcCCCcHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999998855332110001233677777777777664

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=95.53  E-value=0.074  Score=52.59  Aligned_cols=116  Identities=16%  Similarity=0.183  Sum_probs=73.0

Q ss_pred             CCCCCeeechhhHHHHHHHHh---cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHH
Q 045113          164 FKNRDTVGLDDRMEELLDLLI---EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDI  240 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~---~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~  240 (821)
                      ++-..++|.|..++.+++=-.   .+. .-.-|-+||.-|.||+.|++++.+  ++....-.-  |.|++.    ++.  
T Consensus        57 i~L~~l~Gvd~qk~~L~~NT~~F~~G~-pANnVLLwGaRGtGKSSLVKA~~~--e~~~~glrL--VEV~k~----dl~--  125 (287)
T COG2607          57 IDLADLVGVDRQKEALVRNTEQFAEGL-PANNVLLWGARGTGKSSLVKALLN--EYADEGLRL--VEVDKE----DLA--  125 (287)
T ss_pred             cCHHHHhCchHHHHHHHHHHHHHHcCC-cccceEEecCCCCChHHHHHHHHH--HHHhcCCeE--EEEcHH----HHh--
Confidence            444579999988888765332   232 245677999999999999999998  565544333  333322    000  


Q ss_pred             HHHHhCCchhHHHHHHHhC--CCcEEEEEecCCC---HHHHHHHHHhCCCC---CCCcEEEEEecch
Q 045113          241 IIKFLMPSSRLIILHEYLM--TKRYLIVIDDVWS---IEVWDIIREILPDN---QNGSRVLITLAKI  299 (821)
Q Consensus       241 i~~~l~~~~~~~~l~~~l~--~kr~LlVlDdv~~---~~~~~~l~~~l~~~---~~gs~iiiTtr~~  299 (821)
                               +...|.+.|+  .+||.|..||+.-   .+....++..+..+   .+...++..|-++
T Consensus       126 ---------~Lp~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNR  183 (287)
T COG2607         126 ---------TLPDLVELLRARPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNR  183 (287)
T ss_pred             ---------hHHHHHHHHhcCCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCC
Confidence                     0334444554  5899999999952   35678888887743   3334455445443

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.48  E-value=0.043  Score=58.17  Aligned_cols=86  Identities=22%  Similarity=0.091  Sum_probs=53.5

Q ss_pred             HHHHHh-cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh-------
Q 045113          179 LLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR-------  250 (821)
Q Consensus       179 i~~~L~-~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~-------  250 (821)
                      +-.+|. .+=+.-+++-|+|.+|+||||||..++.  .....-..++|++....++..     .++.++...+       
T Consensus        43 LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~--~~~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p  115 (325)
T cd00983          43 LDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIA--EAQKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQP  115 (325)
T ss_pred             HHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHH--HHHHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCC
Confidence            334454 4445578999999999999999998775  233334568899877766643     3344433211       


Q ss_pred             ------HHHHHHHhC-CCcEEEEEecCC
Q 045113          251 ------LIILHEYLM-TKRYLIVIDDVW  271 (821)
Q Consensus       251 ------~~~l~~~l~-~kr~LlVlDdv~  271 (821)
                            ...+...++ +.--+||+|.|-
T Consensus       116 ~~~eq~l~i~~~li~s~~~~lIVIDSva  143 (325)
T cd00983         116 DTGEQALEIADSLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             CCHHHHHHHHHHHHhccCCCEEEEcchH
Confidence                  223333333 355688888873

RecA couples ATP hydrolysis to DNA strand exchange.

>CHL00195 ycf46 Ycf46; Provisional

Probab=95.47  E-value=0.49  Score=53.58  Aligned_cols=47  Identities=21%  Similarity=0.185  Sum_probs=34.1

Q ss_pred             CCCeeechhhHHHHHHHHhc--------CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLIE--------GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~--------~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.++.|.+.-++.+.+....        +-...+-|-++|.+|.|||.+|+++.+
T Consensus       227 ~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~  281 (489)
T CHL00195        227 ISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIAN  281 (489)
T ss_pred             HHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHH
Confidence            34688888777666543211        112356788999999999999999998

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=95.45  E-value=0.086  Score=50.95  Aligned_cols=107  Identities=19%  Similarity=0.211  Sum_probs=57.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEE------------------cCCCCCH--HHHHHHHHHHhCCch
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQ------------------EPYTCYA--DQILDIIIKFLMPSS  249 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~------------------~s~~~~~--~~~~~~i~~~l~~~~  249 (821)
                      -.+++|+|..|.|||||.+.+..-..   .....+++.                  +.+.+..  ..+.+.+   +...+
T Consensus        28 G~~~~l~G~nGsGKstLl~~i~G~~~---~~~G~i~~~g~~~~~~~~~~~~~~i~~~~~~~~~~~~t~~e~l---LS~G~  101 (171)
T cd03228          28 GEKVAIVGPSGSGKSTLLKLLLRLYD---PTSGEILIDGVDLRDLDLESLRKNIAYVPQDPFLFSGTIRENI---LSGGQ  101 (171)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCCC---CCCCEEEECCEEhhhcCHHHHHhhEEEEcCCchhccchHHHHh---hCHHH
Confidence            46999999999999999999987321   111222211                  1111111  1111111   22211


Q ss_pred             h-HHHHHHHhCCCcEEEEEecCCCH---HHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          250 R-LIILHEYLMTKRYLIVIDDVWSI---EVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       250 ~-~~~l~~~l~~kr~LlVlDdv~~~---~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      . .-.+.+.+..++-++++|+....   ...+.+...+.....+..||++|.+....
T Consensus       102 ~~rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~  158 (171)
T cd03228         102 RQRIAIARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTI  158 (171)
T ss_pred             HHHHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHH
Confidence            1 34456667778889999998642   22233333222212356788888766543

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.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=95.42  E-value=0.18  Score=58.34  Aligned_cols=121  Identities=16%  Similarity=0.093  Sum_probs=70.5

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc--------------------ccccceeEE
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV--------------------KHYFDCHAW  225 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~--------------------~~~F~~~~w  225 (821)
                      -.+++|.+...+.+...+..+. -...+-++|..|+||||+|+.+.+.---                    ..++| ++.
T Consensus        15 f~~viGq~~v~~~L~~~i~~~~-~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~d-v~e   92 (559)
T PRK05563         15 FEDVVGQEHITKTLKNAIKQGK-ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMD-VIE   92 (559)
T ss_pred             HHhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCC-eEE
Confidence            3579999999999999988753 2456778999999999999887652100                    11222 222


Q ss_pred             EEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEec
Q 045113          226 VQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLA  297 (821)
Q Consensus       226 v~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr  297 (821)
                      +..+....+.++. ++...+..        .-..+++-++|+|++..  ...++.+...+........+|++|.
T Consensus        93 idaas~~~vd~ir-~i~~~v~~--------~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt  157 (559)
T PRK05563         93 IDAASNNGVDEIR-DIRDKVKY--------APSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATT  157 (559)
T ss_pred             eeccccCCHHHHH-HHHHHHhh--------CcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeC
Confidence            3322222222111 11111110        00234666889999974  3568888877765554555554443

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

Probab=95.41  E-value=0.014  Score=59.06  Aligned_cols=53  Identities=19%  Similarity=0.196  Sum_probs=43.2

Q ss_pred             CCCeeechhhHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHHhcCccccccc
Q 045113          166 NRDTVGLDDRMEELLDLLIEG---PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF  220 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~---~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F  220 (821)
                      -.+|||.+.-++++.=++...   ...+.-|-++|++|.||||||.-+.+  +....+
T Consensus        25 l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~--Emgvn~   80 (332)
T COG2255          25 LDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIAN--ELGVNL   80 (332)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHH--HhcCCe
Confidence            457999999999987777653   45688899999999999999999999  554433

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=95.37  E-value=0.08  Score=51.29  Aligned_cols=108  Identities=16%  Similarity=0.107  Sum_probs=60.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEE-----------------EcCCCCC---HHHHHHHHHHHhCCch
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWV-----------------QEPYTCY---ADQILDIIIKFLMPSS  249 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv-----------------~~s~~~~---~~~~~~~i~~~l~~~~  249 (821)
                      -.+++|+|..|.|||||++.+......   ....+++                 .+.+.+.   -..+.+.+.  +...+
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~~---~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~~tv~~~~~--LS~G~  100 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGLLKP---DSGEIKVLGKDIKKEPEEVKRRIGYLPEEPSLYENLTVRENLK--LSGGM  100 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCCC---CCeEEEECCEEcccchHhhhccEEEEecCCccccCCcHHHHhh--cCHHH
Confidence            458999999999999999999874211   1111111                 1122211   112222222  22222


Q ss_pred             h-HHHHHHHhCCCcEEEEEecCCCH---HHHHHHHHhCCC-CCCCcEEEEEecchhhh
Q 045113          250 R-LIILHEYLMTKRYLIVIDDVWSI---EVWDIIREILPD-NQNGSRVLITLAKIDTV  302 (821)
Q Consensus       250 ~-~~~l~~~l~~kr~LlVlDdv~~~---~~~~~l~~~l~~-~~~gs~iiiTtr~~~v~  302 (821)
                      . .-.+.+.+..++=++++|+.-..   .....+...+.. ...|..||++|.+....
T Consensus       101 ~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~  158 (173)
T cd03230         101 KQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEA  158 (173)
T ss_pred             HHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHH
Confidence            2 44566777888899999998643   222333333221 12267788888876544

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.

>PRK13695 putative NTPase; Provisional

Probab=95.36  E-value=0.017  Score=56.05  Aligned_cols=22  Identities=18%  Similarity=0.182  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .|+|+|.+|+|||||++.+++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998863

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.35  E-value=0.054  Score=51.91  Aligned_cols=109  Identities=12%  Similarity=0.081  Sum_probs=59.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC--CCCHHHHHH-HHHH--HhCCchh-HHHHHHHhCCCcE
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY--TCYADQILD-IIIK--FLMPSSR-LIILHEYLMTKRY  263 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~--~~~~~~~~~-~i~~--~l~~~~~-~~~l~~~l~~kr~  263 (821)
                      -.+++|+|..|.|||||.+.+....   ......+++.-..  ..+..+..+ .+..  ++...+. .-.+.+.+-.++-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~~---~~~~G~v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G~~qrl~laral~~~p~  102 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGLY---KPDSGEILVDGKEVSFASPRDARRAGIAMVYQLSVGERQMVEIARALARNAR  102 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC---CCCCeEEEECCEECCcCCHHHHHhcCeEEEEecCHHHHHHHHHHHHHhcCCC
Confidence            4599999999999999999998732   2234444442111  111111111 1100  0111111 4455666777888


Q ss_pred             EEEEecCCCH---HHHHHHHHhCCC-CCCCcEEEEEecchhh
Q 045113          264 LIVIDDVWSI---EVWDIIREILPD-NQNGSRVLITLAKIDT  301 (821)
Q Consensus       264 LlVlDdv~~~---~~~~~l~~~l~~-~~~gs~iiiTtr~~~v  301 (821)
                      ++++|+....   .....+...+.. ...|.-||++|.+...
T Consensus       103 illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~  144 (163)
T cd03216         103 LLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDE  144 (163)
T ss_pred             EEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHH
Confidence            9999998542   333333333321 1236678888887653

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.

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=95.32  E-value=0.14  Score=58.18  Aligned_cols=130  Identities=17%  Similarity=0.098  Sum_probs=87.4

Q ss_pred             CCCeeechhhHHHHHHHHhcC--C-CCceEEEEEcCCCChHHHHHHHHhcCcc------cccccceeEEEEcCCCCCHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEG--P-PQLSAVTILDSIGLDKTAFAAEAYSGNY------VKHYFDCHAWVQEPYTCYADQ  236 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~--~-~~~~vi~i~G~gGiGKTtLa~~v~~~~~------~~~~F~~~~wv~~s~~~~~~~  236 (821)
                      +..+-+||.+..+|..++...  + +.-+.+-|.|.+|.|||..+..|.+.-.      --..|+ .+.|..-+-....+
T Consensus       395 p~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~~  473 (767)
T KOG1514|consen  395 PESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPRE  473 (767)
T ss_pred             cccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHHH
Confidence            345779999999999998753  2 3456999999999999999999987321      112343 33444444567899


Q ss_pred             HHHHHHHHhCCchh-----HHHHHHHhC-----CCcEEEEEecCCCHH--HHHHHHHhCCC-CCCCcEEEEEe
Q 045113          237 ILDIIIKFLMPSSR-----LIILHEYLM-----TKRYLIVIDDVWSIE--VWDIIREILPD-NQNGSRVLITL  296 (821)
Q Consensus       237 ~~~~i~~~l~~~~~-----~~~l~~~l~-----~kr~LlVlDdv~~~~--~~~~l~~~l~~-~~~gs~iiiTt  296 (821)
                      +...|..++.+...     .+.+..+..     .+..++++|+++...  .-+-+-..|.| ..++||++|.+
T Consensus       474 ~Y~~I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~  546 (767)
T KOG1514|consen  474 IYEKIWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIA  546 (767)
T ss_pred             HHHHHHHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEE
Confidence            99999999998753     455555543     467899999985321  12223333333 45688876654

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.31  E-value=0.22  Score=53.88  Aligned_cols=24  Identities=17%  Similarity=0.311  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|+++|.+|+||||++..+..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~  263 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAW  263 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHH
Confidence            357999999999999999988875

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=95.30  E-value=0.011  Score=53.83  Aligned_cols=20  Identities=30%  Similarity=0.234  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045113          193 VTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~  212 (821)
                      |+|.|.+|+||||+|+.+.+
T Consensus         1 I~i~G~~GsGKtTia~~L~~   20 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAE   20 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999988

...

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.30  E-value=0.15  Score=61.52  Aligned_cols=48  Identities=21%  Similarity=0.188  Sum_probs=37.1

Q ss_pred             CCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          165 KNRDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.++.|.+..++++.+.+..+           -...+-|.++|.+|+|||++|+++.+
T Consensus       451 ~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~  509 (733)
T TIGR01243       451 RWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVAT  509 (733)
T ss_pred             chhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            3456889999888887776521           12345588899999999999999998

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=95.29  E-value=0.077  Score=52.52  Aligned_cols=111  Identities=8%  Similarity=0.120  Sum_probs=58.3

Q ss_pred             hhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh-HH
Q 045113          174 DRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR-LI  252 (821)
Q Consensus       174 ~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~-~~  252 (821)
                      .+..+.+..+..+.  -+++.|.|.+|.||||+++.+..  ..... ...+.+..........    +.+..+.... ..
T Consensus         4 ~~Q~~a~~~~l~~~--~~~~~l~G~aGtGKT~~l~~~~~--~~~~~-g~~v~~~apT~~Aa~~----L~~~~~~~a~Ti~   74 (196)
T PF13604_consen    4 EEQREAVRAILTSG--DRVSVLQGPAGTGKTTLLKALAE--ALEAA-GKRVIGLAPTNKAAKE----LREKTGIEAQTIH   74 (196)
T ss_dssp             HHHHHHHHHHHHCT--CSEEEEEESTTSTHHHHHHHHHH--HHHHT-T--EEEEESSHHHHHH----HHHHHTS-EEEHH
T ss_pred             HHHHHHHHHHHhcC--CeEEEEEECCCCCHHHHHHHHHH--HHHhC-CCeEEEECCcHHHHHH----HHHhhCcchhhHH
Confidence            34445555554443  46888899999999999998876  23222 2333333333322233    3333332211 11


Q ss_pred             HHHHHh----------CCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEE
Q 045113          253 ILHEYL----------MTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLIT  295 (821)
Q Consensus       253 ~l~~~l----------~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiT  295 (821)
                      .+....          ..++-+||+|+....  ..+..+....+.  .|+|+|+.
T Consensus        75 ~~l~~~~~~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilv  127 (196)
T PF13604_consen   75 SFLYRIPNGDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILV  127 (196)
T ss_dssp             HHTTEECCEECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEE
T ss_pred             HHHhcCCcccccccccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEE
Confidence            111111          123459999999753  567777777664  46788754

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=95.25  E-value=0.11  Score=49.96  Aligned_cols=109  Identities=15%  Similarity=0.103  Sum_probs=59.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccc-ccc--cc---eeEEEEcCCCCCH--HHHHHHHHH----HhCCchh-HHHHHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYV-KHY--FD---CHAWVQEPYTCYA--DQILDIIIK----FLMPSSR-LIILHE  256 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~~--F~---~~~wv~~s~~~~~--~~~~~~i~~----~l~~~~~-~~~l~~  256 (821)
                      -.+++|+|..|.|||||++.+..-... .+.  |+   .+.+  +.+.+..  ..+.+.+..    ++...+. .-.+.+
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~--~~q~~~~~~~tv~~nl~~~~~~~LS~G~~~rv~lar  104 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLF--LPQRPYLPLGTLREQLIYPWDDVLSGGEQQRLAFAR  104 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEE--ECCCCccccccHHHHhhccCCCCCCHHHHHHHHHHH
Confidence            458999999999999999999974221 111  11   1222  2333211  133333321    1111111 445566


Q ss_pred             HhCCCcEEEEEecCCCH---HHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          257 YLMTKRYLIVIDDVWSI---EVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       257 ~l~~kr~LlVlDdv~~~---~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      .+..++=++++|+.-..   .....+...+...  +..||++|.+....
T Consensus       105 al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~  151 (166)
T cd03223         105 LLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLW  151 (166)
T ss_pred             HHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHH
Confidence            67778889999998543   2222332322222  35688888766543

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

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.25  E-value=0.024  Score=57.83  Aligned_cols=26  Identities=23%  Similarity=0.244  Sum_probs=23.6

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          187 PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       187 ~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+...+|+|.|..|.|||||++.+..
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~   55 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEA   55 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999999999887

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.20  E-value=0.13  Score=56.34  Aligned_cols=78  Identities=17%  Similarity=0.049  Sum_probs=41.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC--HHHHHHHHHHHhCCch----hHHHHHHHhCC-Cc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY--ADQILDIIIKFLMPSS----RLIILHEYLMT-KR  262 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~--~~~~~~~i~~~l~~~~----~~~~l~~~l~~-kr  262 (821)
                      ..++.++|.+|+||||++..+.........+  .+.+.....+.  ..+.++..++.++.+.    +...+.+.+.. ..
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~--~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~~~~  300 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGK--SVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLARDGS  300 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCC--eEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHhCCC
Confidence            5789999999999999998887522122222  33332222222  2333444444444431    13444444432 33


Q ss_pred             EEEEEec
Q 045113          263 YLIVIDD  269 (821)
Q Consensus       263 ~LlVlDd  269 (821)
                      =+||+|-
T Consensus       301 D~VLIDT  307 (432)
T PRK12724        301 ELILIDT  307 (432)
T ss_pred             CEEEEeC
Confidence            4588883

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=95.18  E-value=0.069  Score=54.97  Aligned_cols=93  Identities=18%  Similarity=0.104  Sum_probs=62.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccc--ccccceeEEEEcCCCC-CHHHHHHHHHHHhCCch---------h-------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYV--KHYFDCHAWVQEPYTC-YADQILDIIIKFLMPSS---------R-------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~--~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~---------~-------  250 (821)
                      -+.++|.|-.|+|||+|+..+.+...+  +++-+.++++-+.+.. .+.++.+++.+.=....         +       
T Consensus        69 GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~  148 (276)
T cd01135          69 GQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERII  148 (276)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHH
Confidence            467899999999999999998875331  2234678888887764 46677777665422211         0       


Q ss_pred             ----HHHHHHHh---CCCcEEEEEecCCCH-HHHHHHHHh
Q 045113          251 ----LIILHEYL---MTKRYLIVIDDVWSI-EVWDIIREI  282 (821)
Q Consensus       251 ----~~~l~~~l---~~kr~LlVlDdv~~~-~~~~~l~~~  282 (821)
                          +-.+.+++   +++++|+++||+... ..+.++...
T Consensus       149 a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~A~A~rEisl~  188 (276)
T cd01135         149 TPRMALTTAEYLAYEKGKHVLVILTDMTNYAEALREISAA  188 (276)
T ss_pred             HHHHHHHHHHHHHhccCCeEEEEEcChhHHHHHHHHHHhc
Confidence                34455555   368999999999653 344555433

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.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=95.18  E-value=0.16  Score=47.94  Aligned_cols=106  Identities=11%  Similarity=0.032  Sum_probs=57.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEE---cCCCCCHHHHHHHHHHHh-------------CCc-hh---
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQ---EPYTCYADQILDIIIKFL-------------MPS-SR---  250 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~---~s~~~~~~~~~~~i~~~l-------------~~~-~~---  250 (821)
                      .+|-|++-.|.||||+|..+.-  +...+=..+.+|.   -........+++.+- .+             ... .+   
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~--ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~-~v~~~~~g~~~~~~~~~~~~~~~~   79 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLAL--RALGHGYRVGVVQFLKGGWKYGELKALERLP-NIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH--HHHHCCCeEEEEEEeCCCCccCHHHHHHhCC-CcEEEECCCCCccCCCChHHHHHH
Confidence            4678888899999999877665  2222111222222   111223333332220 00             000 00   


Q ss_pred             ----HHHHHHHhCC-CcEEEEEecCCCH-----HHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          251 ----LIILHEYLMT-KRYLIVIDDVWSI-----EVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       251 ----~~~l~~~l~~-kr~LlVlDdv~~~-----~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                          .+..++.+.. .-=|+|||++-..     .+.+.+...+.....+..||+|.|+.
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~  138 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNA  138 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCC
Confidence                3344444544 4459999998543     34556666666556677899999974

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.

>TIGR02012 tigrfam_recA protein RecA

Probab=95.17  E-value=0.07  Score=56.57  Aligned_cols=86  Identities=20%  Similarity=0.083  Sum_probs=53.3

Q ss_pred             HHHHHh-cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh-------
Q 045113          179 LLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR-------  250 (821)
Q Consensus       179 i~~~L~-~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~-------  250 (821)
                      +-.+|. .+=+.-+++-|+|.+|+||||||..+..  .....=..++|++....++..     .+++++...+       
T Consensus        43 LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~--~~~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p  115 (321)
T TIGR02012        43 LDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIA--EAQKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQP  115 (321)
T ss_pred             HHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHH--HHHHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecC
Confidence            334454 4445678999999999999999988776  233333567788776665543     3444443311       


Q ss_pred             ------HHHHHHHhC-CCcEEEEEecCC
Q 045113          251 ------LIILHEYLM-TKRYLIVIDDVW  271 (821)
Q Consensus       251 ------~~~l~~~l~-~kr~LlVlDdv~  271 (821)
                            ...+...++ +..-+||+|.|-
T Consensus       116 ~~~eq~l~~~~~li~~~~~~lIVIDSv~  143 (321)
T TIGR02012       116 DTGEQALEIAETLVRSGAVDIIVVDSVA  143 (321)
T ss_pred             CCHHHHHHHHHHHhhccCCcEEEEcchh
Confidence                  233333333 355688999874

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.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=95.15  E-value=0.072  Score=58.85  Aligned_cols=80  Identities=14%  Similarity=0.137  Sum_probs=50.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCc-------hh------------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPS-------SR------------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~-------~~------------  250 (821)
                      -..++|+|..|+|||||++.+....   .....+++..-.+.-++.++....+......       .+            
T Consensus       165 Gqri~I~G~SGsGKTTLL~~Ia~l~---~pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~~  241 (450)
T PRK06002        165 GQRIGIFAGSGVGKSTLLAMLARAD---AFDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPLT  241 (450)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC---CCCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHHH
Confidence            4589999999999999999988632   2233455544334445555554444433211       01            


Q ss_pred             HHHHHHHh--CCCcEEEEEecCCC
Q 045113          251 LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 ~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                      +-.+.+++  +++.+|+++||+-.
T Consensus       242 a~~iAEyfrd~G~~Vll~~DslTr  265 (450)
T PRK06002        242 ATAIAEYFRDRGENVLLIVDSVTR  265 (450)
T ss_pred             HHHHHHHHHHcCCCEEEeccchHH
Confidence            33344444  48999999999954

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=95.15  E-value=0.068  Score=58.75  Aligned_cols=87  Identities=11%  Similarity=0.075  Sum_probs=56.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC-HHHHHHHHHHHhCCch--------h----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY-ADQILDIIIKFLMPSS--------R----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~--------~----------  250 (821)
                      -..++|+|..|+|||||++.+....    ..+.++.+-+.+... +.++.++++..-....        +          
T Consensus       162 GqrigI~G~sG~GKSTLL~~I~~~~----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~  237 (444)
T PRK08972        162 GQRMGLFAGSGVGKSVLLGMMTRGT----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGC  237 (444)
T ss_pred             CCEEEEECCCCCChhHHHHHhccCC----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHH
Confidence            5689999999999999999998731    225666666666543 4556666544422211        1          


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHH
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIR  280 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~  280 (821)
                        +-.+.+++  +++.+|+++||+-.. ..+.++.
T Consensus       238 ~~A~tiAEyfrd~G~~VLl~~DslTR~A~A~REIs  272 (444)
T PRK08972        238 ETATTIAEYFRDQGLNVLLLMDSLTRYAQAQREIA  272 (444)
T ss_pred             HHHHHHHHHHHHcCCCEEEEEcChHHHHHHHHHHH
Confidence              33445555  589999999999543 3444443

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=95.12  E-value=0.077  Score=51.41  Aligned_cols=107  Identities=16%  Similarity=0.124  Sum_probs=57.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEE------------------EcCCCCCH--HHHHHHHHHHhCCch
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWV------------------QEPYTCYA--DQILDIIIKFLMPSS  249 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv------------------~~s~~~~~--~~~~~~i~~~l~~~~  249 (821)
                      -.+++|+|..|.|||||.+.+..-...   ....+++                  .+.+.+..  ..+.+.+   +...+
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~~~---~~G~i~~~g~~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~l---LS~G~  101 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGLLRP---TSGRVRLDGADISQWDPNELGDHVGYLPQDDELFSGSIAENI---LSGGQ  101 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccCC---CCCeEEECCEEcccCCHHHHHhheEEECCCCccccCcHHHHC---cCHHH
Confidence            458999999999999999999863211   1111111                  11222111  1112111   22222


Q ss_pred             h-HHHHHHHhCCCcEEEEEecCCCH---HHHHHHHHhCCC-CCCCcEEEEEecchhhh
Q 045113          250 R-LIILHEYLMTKRYLIVIDDVWSI---EVWDIIREILPD-NQNGSRVLITLAKIDTV  302 (821)
Q Consensus       250 ~-~~~l~~~l~~kr~LlVlDdv~~~---~~~~~l~~~l~~-~~~gs~iiiTtr~~~v~  302 (821)
                      . .-.+.+.+..++-++++|+....   .....+...+.. ...|..||++|.+....
T Consensus       102 ~qrv~la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~  159 (173)
T cd03246         102 RQRLGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPETL  159 (173)
T ss_pred             HHHHHHHHHHhcCCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHH
Confidence            1 44556667777889999998643   222222222221 12366788888776543

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

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=95.11  E-value=0.19  Score=46.82  Aligned_cols=105  Identities=5%  Similarity=0.071  Sum_probs=80.6

Q ss_pred             HHHHHHHHHHHHHHHhcchhhccccccchhHHHHHHHHHHHHHHHHhhhhhhhHHhhhhccccc-CCChhHHHHHHHHHH
Q 045113            9 MDINFRLFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAEDE-NDNPDLRTVMDEINC   87 (821)
Q Consensus         9 ~~~~~~~~~~kl~~~l~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~wl~~l~~   87 (821)
                      ..||++.+++.+...+. +.......++.-.++|..+++.|..++++.+.            .. .-+..-+.-++++.+
T Consensus         7 ~gaalG~~~~eLlk~v~-~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~------------~~~eld~~~~ee~e~L~~   73 (147)
T PF05659_consen    7 GGAALGAVFGELLKAVI-DASKKSLSFKSILKRLESTLESIIPIIKEIDK------------LNVELDRPRQEEIERLKE   73 (147)
T ss_pred             HHHHHHHHHHHHHHHHH-HHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHH------------HhhhcCCchhHHHHHHHH
Confidence            45777888888888888 88888889999999999999999999999998            32 222333778899999


Q ss_pred             HHhhhHHHHHHhHhhhcccCCCCChH--HHHHHHHHHHHHHHHHHH
Q 045113           88 FTYESEKVIDTFISSITQQKSQSGCR--EDICDALQGLQSKIIDIK  131 (821)
Q Consensus        88 ~~~~~ed~ld~~~~~~~~~~~~~~~~--~~~~~~i~~~~~~~~~i~  131 (821)
                      ...++++++++|..-..     ..++  ++.+++|+++.+.+....
T Consensus        74 ~L~~g~~LV~k~sk~~r-----~n~~kk~~y~~Ki~~le~~l~~f~  114 (147)
T PF05659_consen   74 LLEKGKELVEKCSKVRR-----WNLYKKPRYARKIEELEESLRRFI  114 (147)
T ss_pred             HHHHHHHHHHHhccccH-----HHHHhhHhHHHHHHHHHHHHHHHh
Confidence            99999999999865321     1122  667788888877775543

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

>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=95.10  E-value=0.065  Score=53.55  Aligned_cols=87  Identities=13%  Similarity=0.116  Sum_probs=55.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHHhCCc---------hh---------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKFLMPS---------SR---------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~---------~~---------  250 (821)
                      -..++|.|.+|+|||+|++.+.+..  .  =+..+++.+.+.. .+.++.+++...-...         .+         
T Consensus        15 Gqr~~I~g~~g~GKt~Ll~~i~~~~--~--~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~   90 (215)
T PF00006_consen   15 GQRIGIFGGAGVGKTVLLQEIANNQ--D--ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAP   90 (215)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHC--T--TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHH
T ss_pred             CCEEEEEcCcccccchhhHHHHhcc--c--ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhh
Confidence            3579999999999999999998742  2  2344777777653 4566666664431111         00         


Q ss_pred             ------HHHHHHHhCCCcEEEEEecCCCH-HHHHHHHHh
Q 045113          251 ------LIILHEYLMTKRYLIVIDDVWSI-EVWDIIREI  282 (821)
Q Consensus       251 ------~~~l~~~l~~kr~LlVlDdv~~~-~~~~~l~~~  282 (821)
                            ++.++.  +++.+|+++||+-.- ..+.++...
T Consensus        91 ~~a~t~AEyfrd--~G~dVlli~Dsltr~a~A~reis~~  127 (215)
T PF00006_consen   91 YTALTIAEYFRD--QGKDVLLIIDSLTRWAQAYREISLL  127 (215)
T ss_dssp             HHHHHHHHHHHH--TTSEEEEEEETHHHHHHHHHHHHHH
T ss_pred             ccchhhhHHHhh--cCCceeehhhhhHHHHHHHHhhhcc
Confidence                  333333  789999999999432 334444443

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 ....

>PRK09354 recA recombinase A; Provisional

Probab=95.09  E-value=0.082  Score=56.58  Aligned_cols=87  Identities=23%  Similarity=0.098  Sum_probs=55.7

Q ss_pred             HHHHHHh-cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh------
Q 045113          178 ELLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR------  250 (821)
Q Consensus       178 ~i~~~L~-~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~------  250 (821)
                      .+-.+|. .+=+.-+++-|+|.+|+||||||.++...  ....=..++|++....++..     .+++++...+      
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~--~~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~q  119 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQ  119 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEec
Confidence            3444555 45456789999999999999999887762  33334578899887777653     3444444321      


Q ss_pred             -------HHHHHHHhC-CCcEEEEEecCC
Q 045113          251 -------LIILHEYLM-TKRYLIVIDDVW  271 (821)
Q Consensus       251 -------~~~l~~~l~-~kr~LlVlDdv~  271 (821)
                             ...+...++ +.--+||+|-|-
T Consensus       120 p~~~Eq~l~i~~~li~s~~~~lIVIDSva  148 (349)
T PRK09354        120 PDTGEQALEIADTLVRSGAVDLIVVDSVA  148 (349)
T ss_pred             CCCHHHHHHHHHHHhhcCCCCEEEEeChh
Confidence                   233333333 355688888874

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=95.08  E-value=0.067  Score=52.34  Aligned_cols=21  Identities=24%  Similarity=0.215  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ||.|+|++|+||||+|+.+..
T Consensus         1 ~i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999987

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.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.06  E-value=0.051  Score=61.85  Aligned_cols=74  Identities=18%  Similarity=0.159  Sum_probs=55.0

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhC--CCcEEE
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLM--TKRYLI  265 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~--~kr~Ll  265 (821)
                      +.-+|.-++|.+|+||||||.-|.+..    -| .++=|.+|..-+...+-..|...+..       ...+.  +++..+
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqa----GY-sVvEINASDeRt~~~v~~kI~~avq~-------~s~l~adsrP~CL  391 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQA----GY-SVVEINASDERTAPMVKEKIENAVQN-------HSVLDADSRPVCL  391 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhc----Cc-eEEEecccccccHHHHHHHHHHHHhh-------ccccccCCCcceE
Confidence            356899999999999999999999732    22 36667888888877777776655432       23443  688899


Q ss_pred             EEecCCCH
Q 045113          266 VIDDVWSI  273 (821)
Q Consensus       266 VlDdv~~~  273 (821)
                      |+|.++..
T Consensus       392 ViDEIDGa  399 (877)
T KOG1969|consen  392 VIDEIDGA  399 (877)
T ss_pred             EEecccCC
Confidence            99999754

>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=95.06  E-value=0.1  Score=51.53  Aligned_cols=57  Identities=16%  Similarity=0.055  Sum_probs=34.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC-CCCHHHHHHHHHHHhCCc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY-TCYADQILDIIIKFLMPS  248 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~  248 (821)
                      .+||.++|..|+||||.+-.+..  +.+..=..+..++... .....+-++..++.++.+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa--~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp   58 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAA--RLKLKGKKVALISADTYRIGAVEQLKTYAEILGVP   58 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHH--HHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHH--HHhhccccceeecCCCCCccHHHHHHHHHHHhccc
Confidence            36899999999999987666555  2333333455666442 233445555666666543

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 ....

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.05  E-value=0.055  Score=56.24  Aligned_cols=123  Identities=20%  Similarity=0.161  Sum_probs=65.2

Q ss_pred             eechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCc-
Q 045113          170 VGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPS-  248 (821)
Q Consensus       170 vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~-  248 (821)
                      .|...+..+.+..+....  -.+|.|.|..|.||||+++.+.+  .+...-..++.+.-+..+....+.+   -.+... 
T Consensus        62 lg~~~~~~~~l~~~~~~~--~GlilisG~tGSGKTT~l~all~--~i~~~~~~iitiEdp~E~~~~~~~q---~~v~~~~  134 (264)
T cd01129          62 LGLKPENLEIFRKLLEKP--HGIILVTGPTGSGKTTTLYSALS--ELNTPEKNIITVEDPVEYQIPGINQ---VQVNEKA  134 (264)
T ss_pred             cCCCHHHHHHHHHHHhcC--CCEEEEECCCCCcHHHHHHHHHh--hhCCCCCeEEEECCCceecCCCceE---EEeCCcC
Confidence            455555544444444333  45899999999999999998765  2322111222222121211111100   000111 


Q ss_pred             -hh-HHHHHHHhCCCcEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          249 -SR-LIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       249 -~~-~~~l~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                       .+ ...++..|+..+=.|+++++.+.+....+......   |-.++-|..-.++.
T Consensus       135 ~~~~~~~l~~~lR~~PD~i~vgEiR~~e~a~~~~~aa~t---Gh~v~tTlHa~~~~  187 (264)
T cd01129         135 GLTFARGLRAILRQDPDIIMVGEIRDAETAEIAVQAALT---GHLVLSTLHTNDAP  187 (264)
T ss_pred             CcCHHHHHHHHhccCCCEEEeccCCCHHHHHHHHHHHHc---CCcEEEEeccCCHH
Confidence             11 56777788888889999999988754443333222   33355454433333

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.02  E-value=0.016  Score=57.42  Aligned_cols=21  Identities=24%  Similarity=0.237  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ||+|.|.+|+||||+|+.+..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~   21 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQ   21 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999987

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 ....

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=95.02  E-value=0.18  Score=60.09  Aligned_cols=109  Identities=15%  Similarity=0.221  Sum_probs=72.8

Q ss_pred             CCeeechhhHHHHHHHHhcC-----C-CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEG-----P-PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDI  240 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~-----~-~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~  240 (821)
                      ..++|-++.+..|.+.+...     + .....+-+.|..|+|||.||+++..  .+-+..+..+-++.|      +.++ 
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~--~~Fgse~~~IriDms------e~~e-  632 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAE--YVFGSEENFIRLDMS------EFQE-  632 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHH--HHcCCccceEEechh------hhhh-
Confidence            45888899999988888753     1 1477888999999999999999887  443334444444333      2233 


Q ss_pred             HHHHhCCch------hHHHHHHHhCCCcE-EEEEecCCCH--HHHHHHHHhCC
Q 045113          241 IIKFLMPSS------RLIILHEYLMTKRY-LIVIDDVWSI--EVWDIIREILP  284 (821)
Q Consensus       241 i~~~l~~~~------~~~~l~~~l~~kr~-LlVlDdv~~~--~~~~~l~~~l~  284 (821)
                      +.+.++.+.      ....|-+.++.++| .|+||||...  .....+...+.
T Consensus       633 vskligsp~gyvG~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~lD  685 (898)
T KOG1051|consen  633 VSKLIGSPPGYVGKEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLD  685 (898)
T ss_pred             hhhccCCCcccccchhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHHh
Confidence            333334332      26788889988776 7778999753  44555555544

>PTZ00301 uridine kinase; Provisional

Probab=95.00  E-value=0.024  Score=56.63  Aligned_cols=23  Identities=17%  Similarity=0.273  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|||.|.+|+||||||+.+.+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~   25 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVS   25 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHH
Confidence            47999999999999999998876

>TIGR01069 mutS2 MutS2 family protein

Probab=94.98  E-value=0.12  Score=62.03  Aligned_cols=144  Identities=16%  Similarity=0.093  Sum_probs=73.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC--CC-HHHH------HHHHHHHhCCc-hhHHHHHHHhC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT--CY-ADQI------LDIIIKFLMPS-SRLIILHEYLM  259 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~--~~-~~~~------~~~i~~~l~~~-~~~~~l~~~l~  259 (821)
                      .+++.|+|..|.||||+.+.+.-.. +  .....++|.+...  +. ...+      .+.+...+..- .+...+...+.
T Consensus       322 ~~~liItGpNg~GKSTlLK~i~~~~-l--~aq~G~~Vpa~~~~~~~~~d~i~~~i~~~~si~~~LStfS~~m~~~~~il~  398 (771)
T TIGR01069       322 KRVLAITGPNTGGKTVTLKTLGLLA-L--MFQSGIPIPANEHSEIPYFEEIFADIGDEQSIEQNLSTFSGHMKNISAILS  398 (771)
T ss_pred             ceEEEEECCCCCCchHHHHHHHHHH-H--HHHhCCCccCCccccccchhheeeecChHhHHhhhhhHHHHHHHHHHHHHH
Confidence            5799999999999999998886520 0  0011111111110  00 0000      01111111110 11223333333


Q ss_pred             --CCcEEEEEecCCCH---HHHHHH----HHhCCCCCCCcEEEEEecchhhhcccc-----------cccCCc-------
Q 045113          260 --TKRYLIVIDDVWSI---EVWDII----REILPDNQNGSRVLITLAKIDTVTLFQ-----------FENGQN-------  312 (821)
Q Consensus       260 --~kr~LlVlDdv~~~---~~~~~l----~~~l~~~~~gs~iiiTtr~~~v~~lf~-----------~~~~~~-------  312 (821)
                        +.+-|+++|..-..   .+-..+    ...+.  ..|+.+|+||....+..+..           |....-       
T Consensus       399 ~~~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~~~~~~~v~~~~~~~d~~~l~p~Ykl~  476 (771)
T TIGR01069       399 KTTENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKALMYNNEGVENASVLFDEETLSPTYKLL  476 (771)
T ss_pred             hcCCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhcCCCCeEEeEEEEcCCCCceEEEEC
Confidence              48899999998642   222222    22332  35789999999987762211           211100       


Q ss_pred             CCCCccchHHHHHHHcCCchHHHHHhh
Q 045113          313 IRLDLVPTGGPLRVTYQGWPFHILYHG  339 (821)
Q Consensus       313 ~~~~~~~~~~~i~~~c~glPLai~~~g  339 (821)
                      ....-...|-+|++++ |+|-.+.--|
T Consensus       477 ~G~~g~S~a~~iA~~~-Glp~~ii~~A  502 (771)
T TIGR01069       477 KGIPGESYAFEIAQRY-GIPHFIIEQA  502 (771)
T ss_pred             CCCCCCcHHHHHHHHh-CcCHHHHHHH
Confidence            0011134577888777 7888877766

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.

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=94.95  E-value=0.04  Score=50.26  Aligned_cols=83  Identities=14%  Similarity=0.217  Sum_probs=33.8

Q ss_pred             HhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchh-hhccCcc
Q 045113          512 KICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKK  589 (821)
Q Consensus       512 ~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~  589 (821)
                      .+|..++.|+.+.+.. .+..++ ..+.++.+|+.+.+..+ +..++......+.+|+.+.+.. .+..++. .+..+++
T Consensus         6 ~~F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~   82 (129)
T PF13306_consen    6 NAFYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTN   82 (129)
T ss_dssp             TTTTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TT
T ss_pred             HHHhCCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccccccccccc
Confidence            4455555666666553 344443 23445555666666553 4444443332444566666644 3333322 3334556


Q ss_pred             CceeecCC
Q 045113          590 LRHLNFGS  597 (821)
Q Consensus       590 L~~L~L~~  597 (821)
                      |+.+++..
T Consensus        83 l~~i~~~~   90 (129)
T PF13306_consen   83 LKNIDIPS   90 (129)
T ss_dssp             ECEEEETT
T ss_pred             ccccccCc
Confidence            66665543

>PRK08233 hypothetical protein; Provisional

Probab=94.92  E-value=0.021  Score=55.83  Aligned_cols=23  Identities=22%  Similarity=0.170  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|+|.|.+|+||||||+.+..
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~   25 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTH   25 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            47999999999999999999987

>PRK06547 hypothetical protein; Provisional

Probab=94.91  E-value=0.034  Score=53.63  Aligned_cols=33  Identities=21%  Similarity=0.132  Sum_probs=25.9

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          179 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       179 i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      +...+..  ....+|+|.|.+|+||||+|+.+.+.
T Consensus         6 ~~~~~~~--~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547          6 IAARLCG--GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             HHHHhhc--CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3444443  34889999999999999999999873

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=94.91  E-value=0.079  Score=57.77  Aligned_cols=90  Identities=21%  Similarity=0.131  Sum_probs=52.1

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh-----
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR-----  250 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~-----  250 (821)
                      ..++-+.|..+=..-.++.|.|.+|+|||||+..+..  .....-..++|++....  ..++.. -++.++...+     
T Consensus        68 i~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~--~~a~~g~~VlYvs~EEs--~~qi~~-Ra~rlg~~~~~l~l~  142 (372)
T cd01121          68 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAA--RLAKRGGKVLYVSGEES--PEQIKL-RADRLGISTENLYLL  142 (372)
T ss_pred             CHHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHH--HHHhcCCeEEEEECCcC--HHHHHH-HHHHcCCCcccEEEE
Confidence            3445555555534467999999999999999998876  33333346778775443  333322 2333433211     


Q ss_pred             ----HHHHHHHhC-CCcEEEEEecC
Q 045113          251 ----LIILHEYLM-TKRYLIVIDDV  270 (821)
Q Consensus       251 ----~~~l~~~l~-~kr~LlVlDdv  270 (821)
                          .+.+.+.+. .+.-+||+|.+
T Consensus       143 ~e~~le~I~~~i~~~~~~lVVIDSI  167 (372)
T cd01121         143 AETNLEDILASIEELKPDLVIIDSI  167 (372)
T ss_pred             ccCcHHHHHHHHHhcCCcEEEEcch
Confidence                344444443 24556777766

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.

>PHA00729 NTP-binding motif containing protein

Probab=94.90  E-value=0.032  Score=55.68  Aligned_cols=33  Identities=15%  Similarity=0.250  Sum_probs=26.1

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       178 ~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++++.+...+  ...|.|.|.+|+||||||..+.+
T Consensus         7 ~~~~~l~~~~--f~nIlItG~pGvGKT~LA~aLa~   39 (226)
T PHA00729          7 KIVSAYNNNG--FVSAVIFGKQGSGKTTYALKVAR   39 (226)
T ss_pred             HHHHHHhcCC--eEEEEEECCCCCCHHHHHHHHHH
Confidence            3455554443  56789999999999999999987

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=94.89  E-value=0.066  Score=59.56  Aligned_cols=82  Identities=13%  Similarity=0.152  Sum_probs=57.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHHhCCch--------h----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKFLMPSS--------R----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~--------~----------  250 (821)
                      -+.++|.|-+|+|||||+.++.+... +.+-+.++++-+.+.. .+.++.+++...-....        +          
T Consensus       143 GQR~gIfa~~G~GKt~Ll~~~~~~~~-~~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~  221 (461)
T PRK12597        143 GGKTGLFGGAGVGKTVLMMELIFNIS-KQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVV  221 (461)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHH-hhCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHH
Confidence            56899999999999999988887422 2356788888777654 45667776665422110        1          


Q ss_pred             --HHHHHHHh---CCCcEEEEEecCCC
Q 045113          251 --LIILHEYL---MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 --~~~l~~~l---~~kr~LlVlDdv~~  272 (821)
                        +-.+.+++   +++.+|+++||+-.
T Consensus       222 ~~a~tiAEyfrd~~G~~VLl~~DslTR  248 (461)
T PRK12597        222 LTGLTIAEYLRDEEKEDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHhcCCceEEEeccchH
Confidence              44555665   37999999999954

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=94.87  E-value=0.11  Score=54.49  Aligned_cols=150  Identities=17%  Similarity=0.142  Sum_probs=81.4

Q ss_pred             echhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc-CcccccccceeEE----EEcCCCC----C-HHHH---
Q 045113          171 GLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS-GNYVKHYFDCHAW----VQEPYTC----Y-ADQI---  237 (821)
Q Consensus       171 Gr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~-~~~~~~~F~~~~w----v~~s~~~----~-~~~~---  237 (821)
                      +|+.+..--+++|.+++  +..|.+.|.+|.|||-||-+..= ....++.|..++-    |.+.+.-    . .++=   
T Consensus       228 prn~eQ~~ALdlLld~d--I~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~eEeKm~P  305 (436)
T COG1875         228 PRNAEQRVALDLLLDDD--IDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTEEEKMGP  305 (436)
T ss_pred             cccHHHHHHHHHhcCCC--CCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCchhhhccc
Confidence            47777777888888877  99999999999999988755432 1123455554432    2233221    1 1111   


Q ss_pred             ----HHHHHHHhCCchh--HHHHHHH-------------hCC---CcEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEE
Q 045113          238 ----LDIIIKFLMPSSR--LIILHEY-------------LMT---KRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLIT  295 (821)
Q Consensus       238 ----~~~i~~~l~~~~~--~~~l~~~-------------l~~---kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiT  295 (821)
                          .-+-++.+....+  ...+...             +++   .+-+||+|...+-. -.+++..+...+.||||+.|
T Consensus       306 Wmq~i~DnLE~L~~~~~~~~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLT-pheikTiltR~G~GsKIVl~  384 (436)
T COG1875         306 WMQAIFDNLEVLFSPNEPGDRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLT-PHELKTILTRAGEGSKIVLT  384 (436)
T ss_pred             hHHHHHhHHHHHhcccccchHHHHHHHhccceeeeeeeeecccccccceEEEehhhccC-HHHHHHHHHhccCCCEEEEc
Confidence                1111122221111  1122222             233   33589999996532 23455555667889999987


Q ss_pred             ecchhhhcccccccCCcCCCCccc---hHHHHHHHcCCchHH
Q 045113          296 LAKIDTVTLFQFENGQNIRLDLVP---TGGPLRVTYQGWPFH  334 (821)
Q Consensus       296 tr~~~v~~lf~~~~~~~~~~~~~~---~~~~i~~~c~glPLa  334 (821)
                      ---.++           +.+.+.+   -..-++++.+|+|+.
T Consensus       385 gd~aQi-----------D~~yl~~~snGLtyvverfk~~~l~  415 (436)
T COG1875         385 GDPAQI-----------DTPYLDETSNGLTYVVEKFKGHPLS  415 (436)
T ss_pred             CCHHHc-----------CCccccCCCccHHHHHHHhcCCCce
Confidence            543332           1222211   124467777777754

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.85  E-value=0.24  Score=55.22  Aligned_cols=40  Identities=15%  Similarity=0.002  Sum_probs=26.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEP  229 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s  229 (821)
                      -+++.++|.+|+||||++..+.........-..+..|+..
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D  260 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLD  260 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECC
Confidence            3599999999999999887776521101222345566553

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=94.84  E-value=0.082  Score=56.90  Aligned_cols=45  Identities=22%  Similarity=0.194  Sum_probs=37.2

Q ss_pred             eeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          169 TVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       169 ~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ++|....++++.+.+..-...-.-|-|+|..|+||+++|+.+++.
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~   45 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYL   45 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHh
Confidence            478888888888888765444567899999999999999999863

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

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.83  E-value=0.2  Score=49.41  Aligned_cols=113  Identities=18%  Similarity=0.122  Sum_probs=67.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccccc-----ccc--------------eeEEEEcCCCC-----CHHH---------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKH-----YFD--------------CHAWVQEPYTC-----YADQ---------  236 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~-----~F~--------------~~~wv~~s~~~-----~~~~---------  236 (821)
                      -.+-+|.|+.|.||+|||..+.-++..+-     .|+              .-+|+....+.     +..+         
T Consensus        30 GEvhaiMGPNGsGKSTLa~~i~G~p~Y~Vt~G~I~~~GedI~~l~~~ERAr~GifLafQ~P~ei~GV~~~~fLr~a~n~~  109 (251)
T COG0396          30 GEVHAIMGPNGSGKSTLAYTIMGHPKYEVTEGEILFDGEDILELSPDERARAGIFLAFQYPVEIPGVTNSDFLRAAMNAR  109 (251)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCCceEecceEEECCcccccCCHhHHHhcCCEEeecCCccCCCeeHHHHHHHHHHhh
Confidence            45889999999999999999998763310     121              12222211111     1222         


Q ss_pred             ------------HHHHHHHHhCCchh----------------HHHHHHHhCCCcEEEEEecCCCHHHHH---HHHHhCC-
Q 045113          237 ------------ILDIIIKFLMPSSR----------------LIILHEYLMTKRYLIVIDDVWSIEVWD---IIREILP-  284 (821)
Q Consensus       237 ------------~~~~i~~~l~~~~~----------------~~~l~~~l~~kr~LlVlDdv~~~~~~~---~l~~~l~-  284 (821)
                                  ..++.++.+....+                ..++.+.+.-++-+.|||..++--+.+   .+...+. 
T Consensus       110 ~~~~~~~~~~~~~~~e~~~~l~~~~~~l~R~vN~GFSGGEkKR~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~  189 (251)
T COG0396         110 RGARGILPEFIKELKEKAELLGLDEEFLERYVNEGFSGGEKKRNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINA  189 (251)
T ss_pred             hccccccHHHHHHHHHHHHHcCCCHHHhhcccCCCcCcchHHHHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHH
Confidence                        23333444444321                566667777788899999998754433   3333332 


Q ss_pred             CCCCCcEEEEEecchhhh
Q 045113          285 DNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       285 ~~~~gs~iiiTtr~~~v~  302 (821)
                      -..+|+-++|.|..+.++
T Consensus       190 lr~~~~~~liITHy~rll  207 (251)
T COG0396         190 LREEGRGVLIITHYQRLL  207 (251)
T ss_pred             HhcCCCeEEEEecHHHHH
Confidence            123477788888888877

>TIGR01817 nifA Nif-specific regulatory protein

Probab=94.83  E-value=0.083  Score=61.26  Aligned_cols=49  Identities=18%  Similarity=0.111  Sum_probs=41.0

Q ss_pred             CCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          165 KNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ....++|....++++.+.+..-...-..|-|+|..|+|||++|+.+++.
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~  242 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYL  242 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHh
Confidence            4568999999999999988764334556779999999999999999973

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.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=94.82  E-value=0.11  Score=53.44  Aligned_cols=90  Identities=18%  Similarity=0.097  Sum_probs=56.7

Q ss_pred             ceEEEEEcCCCChHHHHH-HHHhcCccccccccee-EEEEcCCCC-CHHHHHHHHHHHhCCc---------hh-------
Q 045113          190 LSAVTILDSIGLDKTAFA-AEAYSGNYVKHYFDCH-AWVQEPYTC-YADQILDIIIKFLMPS---------SR-------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa-~~v~~~~~~~~~F~~~-~wv~~s~~~-~~~~~~~~i~~~l~~~---------~~-------  250 (821)
                      -+.++|.|-.|+|||+|| ..+.+.  .  +-+.+ +++-+.+.. .+.++.+++.+.-...         ++       
T Consensus        69 GQr~~Ifg~~g~GKt~L~l~~i~~~--~--~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  144 (274)
T cd01132          69 GQRELIIGDRQTGKTAIAIDTIINQ--K--GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYL  144 (274)
T ss_pred             CCEEEeeCCCCCCccHHHHHHHHHh--c--CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHH
Confidence            468999999999999995 666652  1  23444 566666654 4566776666432211         01       


Q ss_pred             ----HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHHHhC
Q 045113          251 ----LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIREIL  283 (821)
Q Consensus       251 ----~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~~~l  283 (821)
                          +-.+.+++  +++.+|+|+||+... ..|.++...+
T Consensus       145 a~~~a~aiAE~fr~~G~~Vlvl~DslTr~A~A~rEisl~~  184 (274)
T cd01132         145 APYTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQMSLLL  184 (274)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEcChHHHHHHHHHHHHhc
Confidence                22333333  579999999999654 4566665544

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=94.79  E-value=0.023  Score=56.99  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +..+|+|.|.+|+||||||+.+..
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~   28 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYE   28 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999997

>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=94.77  E-value=0.021  Score=45.80  Aligned_cols=22  Identities=18%  Similarity=0.203  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      +|.|.|..|+||||+|+.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998873

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.

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=94.75  E-value=0.26  Score=53.16  Aligned_cols=123  Identities=11%  Similarity=0.039  Sum_probs=69.0

Q ss_pred             Ceee-chhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCc---c-c----------------ccccceeEEE
Q 045113          168 DTVG-LDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGN---Y-V----------------KHYFDCHAWV  226 (821)
Q Consensus       168 ~~vG-r~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~---~-~----------------~~~F~~~~wv  226 (821)
                      .++| -+..++.+...+..+. -....-++|..|+||||+|+.+.+.-   . .                ..|-|.....
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~~-l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i~   84 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKNR-LSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLVA   84 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEec
Confidence            3566 5566667777665543 35677899999999999988875421   0 0                0122322221


Q ss_pred             EcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          227 QEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       227 ~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      ..+....++++.. +.+.+..        .-..+.+=++|+|++...  ...+.+...+.....++.+|++|.+..
T Consensus        85 ~~~~~i~id~ir~-l~~~~~~--------~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~  151 (329)
T PRK08058         85 PDGQSIKKDQIRY-LKEEFSK--------SGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKH  151 (329)
T ss_pred             cccccCCHHHHHH-HHHHHhh--------CCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChH
Confidence            1122222222221 1111110        002245557899998643  567788888887777888887776543

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=94.75  E-value=0.076  Score=50.50  Aligned_cols=110  Identities=15%  Similarity=0.113  Sum_probs=59.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC--CHHHHHHHHHH--HhCCchh-HHHHHHHhCCCcEE
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC--YADQILDIIIK--FLMPSSR-LIILHEYLMTKRYL  264 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~--~~~~~~~~i~~--~l~~~~~-~~~l~~~l~~kr~L  264 (821)
                      -.+++|+|..|.|||||++.+....   ......+++.-....  ........+.-  ++...+. .-.+...+...+-+
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~~---~~~~G~i~~~~~~~~~~~~~~~~~~i~~~~qlS~G~~~r~~l~~~l~~~~~i  101 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGLL---KPTSGEILIDGKDIAKLPLEELRRRIGYVPQLSGGQRQRVALARALLLNPDL  101 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC---CCCccEEEECCEEcccCCHHHHHhceEEEeeCCHHHHHHHHHHHHHhcCCCE
Confidence            3699999999999999999999732   223444444321111  11111111110  0222221 34456666677889


Q ss_pred             EEEecCCC---HHHHHHHHHhCCC-CCCCcEEEEEecchhhh
Q 045113          265 IVIDDVWS---IEVWDIIREILPD-NQNGSRVLITLAKIDTV  302 (821)
Q Consensus       265 lVlDdv~~---~~~~~~l~~~l~~-~~~gs~iiiTtr~~~v~  302 (821)
                      +++|....   ......+...+.. ...+.-|+++|.+....
T Consensus       102 ~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~  143 (157)
T cd00267         102 LLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELA  143 (157)
T ss_pred             EEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHH
Confidence            99999863   2333333333221 11256788888766544

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.

>PRK04296 thymidine kinase; Provisional

Probab=94.74  E-value=0.052  Score=53.49  Aligned_cols=104  Identities=13%  Similarity=-0.064  Sum_probs=55.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCch------hHHHHHHHh---CCC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS------RLIILHEYL---MTK  261 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~------~~~~l~~~l---~~k  261 (821)
                      .++-|+|..|.||||+|..+..  +...+-..++.+.  ..++.+.....++.+++...      ....+.+.+   .++
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~--~~~~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~~~~~   78 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAY--NYEERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEEEGEK   78 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHH--HHHHcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHhhCCC
Confidence            4677899999999999988877  3333333333331  11121222223344443211      122222222   234


Q ss_pred             cEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          262 RYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       262 r~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      .-+||+|.+..  .++..++...+  ...|..||+|.++.+
T Consensus        79 ~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~  117 (190)
T PRK04296         79 IDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD  117 (190)
T ss_pred             CCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence            55999999953  23333333332  234788999988754

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=94.74  E-value=0.14  Score=50.56  Aligned_cols=110  Identities=12%  Similarity=0.084  Sum_probs=59.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCc--c-cccc--cc----------eeEEEEcCCCCC---HHHHHHHHHH-----HhC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGN--Y-VKHY--FD----------CHAWVQEPYTCY---ADQILDIIIK-----FLM  246 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~--~-~~~~--F~----------~~~wv~~s~~~~---~~~~~~~i~~-----~l~  246 (821)
                      -.+++|.|..|.|||||.+.+..-.  . ..+.  |+          ..+. .+.+.+.   -..+.+.+..     .+.
T Consensus        35 Ge~~~l~G~nGsGKStLl~~i~Gl~~~~~~~G~i~~~g~~~~~~~~~~~i~-~~~q~~~~~~~~t~~~~i~~~~~~~~LS  113 (194)
T cd03213          35 GELTAIMGPSGAGKSTLLNALAGRRTGLGVSGEVLINGRPLDKRSFRKIIG-YVPQDDILHPTLTVRETLMFAAKLRGLS  113 (194)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCCCCCCceEEEECCEeCchHhhhheEE-EccCcccCCCCCcHHHHHHHHHHhccCC
Confidence            4689999999999999999998732  1 1111  11          1111 1222211   1122222221     222


Q ss_pred             Cchh-HHHHHHHhCCCcEEEEEecCCC---HHHHHHHHHhCCC-CCCCcEEEEEecchh
Q 045113          247 PSSR-LIILHEYLMTKRYLIVIDDVWS---IEVWDIIREILPD-NQNGSRVLITLAKID  300 (821)
Q Consensus       247 ~~~~-~~~l~~~l~~kr~LlVlDdv~~---~~~~~~l~~~l~~-~~~gs~iiiTtr~~~  300 (821)
                      ..+. .-.+.+.+..++-++++|+.-.   ......+...+.. ...|.-||++|.+..
T Consensus       114 ~G~~qrv~laral~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  172 (194)
T cd03213         114 GGERKRVSIALELVSNPSLLFLDEPTSGLDSSSALQVMSLLRRLADTGRTIICSIHQPS  172 (194)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEecCch
Confidence            2222 4456677777888999999854   3333333333332 123677888887753

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.

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=94.72  E-value=0.04  Score=58.55  Aligned_cols=26  Identities=12%  Similarity=0.027  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .....++|||.+|.|||.+|+++++.
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~e  171 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKK  171 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence            35789999999999999999999993

>TIGR00235 udk uridine kinase

Probab=94.72  E-value=0.025  Score=56.62  Aligned_cols=24  Identities=25%  Similarity=0.224  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.+|+|+|.+|+||||||+.+..
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999987

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK13531 regulatory ATPase RavA; Provisional

Probab=94.68  E-value=0.033  Score=61.73  Aligned_cols=42  Identities=17%  Similarity=0.158  Sum_probs=37.4

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++||++.++.+...+..+.    -|-+.|.+|+|||++|+.+..
T Consensus        20 ~~i~gre~vI~lll~aalag~----hVLL~GpPGTGKT~LAraLa~   61 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSGE----SVFLLGPPGIAKSLIARRLKF   61 (498)
T ss_pred             hhccCcHHHHHHHHHHHccCC----CEEEECCCChhHHHHHHHHHH
Confidence            358999999999999888765    678999999999999999997

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.67  E-value=0.083  Score=57.49  Aligned_cols=77  Identities=12%  Similarity=0.173  Sum_probs=49.7

Q ss_pred             CCeeechhhHHHHHHHHhcC------------CCCceEEEEEcCCCChHHHHHHHHhcCccccccc---ceeEEEEcCC-
Q 045113          167 RDTVGLDDRMEELLDLLIEG------------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF---DCHAWVQEPY-  230 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~------------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F---~~~~wv~~s~-  230 (821)
                      ..++|.++.++.+...+...            +...+-|-++|.+|+||||+|+.+..  .....|   +...++.... 
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~--~l~~~fi~vdat~~~e~g~v   89 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAK--LANAPFIKVEATKFTEVGYV   89 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHH--HhCCeEEEeecceeecCCcc
Confidence            45889999888887666632            11246788999999999999999998  344333   2222322222 


Q ss_pred             CCCHHHHHHHHHHHh
Q 045113          231 TCYADQILDIIIKFL  245 (821)
Q Consensus       231 ~~~~~~~~~~i~~~l  245 (821)
                      ..+.+.+.+.+....
T Consensus        90 G~dvE~i~r~l~e~A  104 (441)
T TIGR00390        90 GRDVESMVRDLTDAA  104 (441)
T ss_pred             cCCHHHHHHHHHHHH
Confidence            235666666665543

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.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=94.66  E-value=0.23  Score=49.97  Aligned_cols=24  Identities=13%  Similarity=0.083  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|.|||||++.+...
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~G~   48 (213)
T cd03235          25 GEFLAIVGPNGAGKSTLLKAILGL   48 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            458999999999999999999864

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.65  E-value=0.6  Score=52.60  Aligned_cols=23  Identities=17%  Similarity=0.198  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|+|+|.+|+||||++..+..
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa  372 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQ  372 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46999999999999999988775

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.63  E-value=0.26  Score=53.50  Aligned_cols=80  Identities=19%  Similarity=0.140  Sum_probs=46.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccccccc--ceeEEEEcCC-CCCHHHHHHHHHHHhCCchh-------HHHHHHHhC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYF--DCHAWVQEPY-TCYADQILDIIIKFLMPSSR-------LIILHEYLM  259 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F--~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~-------~~~l~~~l~  259 (821)
                      -.++.++|..|+||||++..+..  +....+  ..+..++... .....+-++...+.++.+..       .......+.
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~--~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~  214 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAA--RCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELR  214 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH--HHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhc
Confidence            45899999999999999998887  322223  3455555332 22334444444555554321       223333444


Q ss_pred             CCcEEEEEecCCC
Q 045113          260 TKRYLIVIDDVWS  272 (821)
Q Consensus       260 ~kr~LlVlDdv~~  272 (821)
                      ++ -+|++|..-.
T Consensus       215 ~~-DlVLIDTaG~  226 (374)
T PRK14722        215 NK-HMVLIDTIGM  226 (374)
T ss_pred             CC-CEEEEcCCCC
Confidence            54 5566999853

>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=94.61  E-value=0.019  Score=34.35  Aligned_cols=20  Identities=40%  Similarity=0.511  Sum_probs=11.3

Q ss_pred             eeEEEeCCCCCCcccccccC
Q 045113          520 LRVLDLGSLVLNQYPSEIEN  539 (821)
Q Consensus       520 Lr~L~L~~~~l~~lp~~i~~  539 (821)
                      |++|||++|.++.+|+++++
T Consensus         2 L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             ESEEEETSSEESEEGTTTTT
T ss_pred             ccEEECCCCcCEeCChhhcC
Confidence            55666666665555555443

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 ....

>PRK08149 ATP synthase SpaL; Validated

Probab=94.60  E-value=0.12  Score=57.03  Aligned_cols=79  Identities=16%  Similarity=0.087  Sum_probs=50.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC-CCCHHHHHHHHHHHhCCc--------hh----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY-TCYADQILDIIIKFLMPS--------SR----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~--------~~----------  250 (821)
                      -..++|+|..|+|||||++.+.....    -+.++...+.. .-++.++..+........        .+          
T Consensus       151 Gq~i~I~G~sG~GKTTLl~~i~~~~~----~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~  226 (428)
T PRK08149        151 GQRMGIFASAGCGKTSLMNMLIEHSE----ADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAA  226 (428)
T ss_pred             CCEEEEECCCCCChhHHHHHHhcCCC----CCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHH
Confidence            56899999999999999999987322    23333344433 335566666666543321        01          


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCC
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                        +-.+.+++  ++|++|+++||+-.
T Consensus       227 ~~a~tiAE~fr~~G~~Vll~~DslTr  252 (428)
T PRK08149        227 LVATTVAEYFRDQGKRVVLFIDSMTR  252 (428)
T ss_pred             HHHHHHHHHHHHcCCCEEEEccchHH
Confidence              33344444  58999999999954

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=94.59  E-value=0.16  Score=57.17  Aligned_cols=118  Identities=20%  Similarity=0.332  Sum_probs=69.1

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHH-HHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCch------
Q 045113          177 EELLDLLIEGPPQLSAVTILDSIGLDKTA-FAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS------  249 (821)
Q Consensus       177 ~~i~~~L~~~~~~~~vi~i~G~gGiGKTt-La~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~------  249 (821)
                      +++++.+.+    -+||.|+|-.|.|||| |||.+|.+---..   ..|=++-.+....-.+.+..++.++..-      
T Consensus       362 ~~ll~~ir~----n~vvvivgETGSGKTTQl~QyL~edGY~~~---GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~~VGY  434 (1042)
T KOG0924|consen  362 DQLLSVIRE----NQVVVIVGETGSGKTTQLAQYLYEDGYADN---GMIGCTQPRRVAAISVAKRVAEEMGVTLGDTVGY  434 (1042)
T ss_pred             HHHHHHHhh----CcEEEEEecCCCCchhhhHHHHHhcccccC---CeeeecCchHHHHHHHHHHHHHHhCCccccccce
Confidence            345555544    4599999999999997 8898987522211   2232233333344456666666664431      


Q ss_pred             -----h-------------HHHHHHHhC----CCcEEEEEecCCCH----H-HHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          250 -----R-------------LIILHEYLM----TKRYLIVIDDVWSI----E-VWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       250 -----~-------------~~~l~~~l~----~kr~LlVlDdv~~~----~-~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                           +             ...|++.|+    .|=..||+|..-..    + -+..++..+.. ...-|+||||-..+.-
T Consensus       435 sIRFEdvT~~~T~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERslNtDilfGllk~~lar-RrdlKliVtSATm~a~  513 (1042)
T KOG0924|consen  435 SIRFEDVTSEDTKIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSLNTDILFGLLKKVLAR-RRDLKLIVTSATMDAQ  513 (1042)
T ss_pred             EEEeeecCCCceeEEEeccchHHHHHhhhhhhhheeEEEechhhhcccchHHHHHHHHHHHHh-hccceEEEeeccccHH
Confidence                 1             344555554    45568999998543    1 12333333332 3368999999876654

>PRK06217 hypothetical protein; Validated

Probab=94.56  E-value=0.14  Score=50.04  Aligned_cols=35  Identities=17%  Similarity=0.196  Sum_probs=25.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCccccccc--ceeEEE
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYF--DCHAWV  226 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F--~~~~wv  226 (821)
                      ..|.|.|.+|+||||+|+++...... .+|  |..+|.
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~l~~-~~~~~D~~~~~   38 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAERLDI-PHLDTDDYFWL   38 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCC-cEEEcCceeec
Confidence            35899999999999999999974322 234  455664

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=94.55  E-value=0.37  Score=53.62  Aligned_cols=80  Identities=18%  Similarity=0.077  Sum_probs=46.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC-CCCHHHHHHHHHHHhCCc-------hh-HHHHHH---
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY-TCYADQILDIIIKFLMPS-------SR-LIILHE---  256 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~-------~~-~~~l~~---  256 (821)
                      ...+|.++|.+|+||||.|..+..  ..+..-..+.-|++.. .+...+-++.++.+++.+       .+ ...+.+   
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~--~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~  171 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLAR--YFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLE  171 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH--HHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHH
Confidence            468999999999999999988876  3332212344444332 223344455666665442       11 222222   


Q ss_pred             HhCCCcEEEEEecCC
Q 045113          257 YLMTKRYLIVIDDVW  271 (821)
Q Consensus       257 ~l~~kr~LlVlDdv~  271 (821)
                      .+.+. =+||+|..-
T Consensus       172 ~~~~~-DvVIIDTAG  185 (437)
T PRK00771        172 KFKKA-DVIIVDTAG  185 (437)
T ss_pred             HhhcC-CEEEEECCC
Confidence            33333 578888874

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=94.53  E-value=0.093  Score=51.09  Aligned_cols=23  Identities=17%  Similarity=0.133  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|.|||||++.+..
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G   48 (178)
T cd03229          26 GEIVALLGPSGSGKSTLLRCIAG   48 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45999999999999999999985

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=94.51  E-value=0.12  Score=49.73  Aligned_cols=45  Identities=18%  Similarity=0.152  Sum_probs=34.8

Q ss_pred             eeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          169 TVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       169 ~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      +||.+..+.++++.+..-.....-|-|+|..|+||+.+|+.+++.
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHC
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHh
Confidence            578899999999988764333456679999999999999999983

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 ....

>PRK06762 hypothetical protein; Provisional

Probab=94.49  E-value=0.029  Score=53.96  Aligned_cols=22  Identities=23%  Similarity=0.255  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|.|++|+||||+|+.+.+
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~   24 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQE   24 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999987

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=94.48  E-value=0.098  Score=58.02  Aligned_cols=90  Identities=10%  Similarity=0.121  Sum_probs=57.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHHhCCch--------h----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKFLMPSS--------R----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~--------~----------  250 (821)
                      -+.++|.|-.|+|||||+.++...... ++=+.++++-+.+.. .+.++.+++...=....        +          
T Consensus       144 GQR~gIfa~~GvGKt~Ll~~i~~~~~~-~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~  222 (463)
T PRK09280        144 GGKIGLFGGAGVGKTVLIQELINNIAK-EHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVA  222 (463)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHHh-cCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence            568999999999999999887653111 111356777776654 45677777765422210        1          


Q ss_pred             --HHHHHHHh---CCCcEEEEEecCCCH-HHHHHHH
Q 045113          251 --LIILHEYL---MTKRYLIVIDDVWSI-EVWDIIR  280 (821)
Q Consensus       251 --~~~l~~~l---~~kr~LlVlDdv~~~-~~~~~l~  280 (821)
                        +-.+.+++   +++.+|+++||+-.- ..+.++.
T Consensus       223 ~~a~tiAEyfrd~~G~~VLll~DslTR~A~A~REis  258 (463)
T PRK09280        223 LTGLTMAEYFRDVEGQDVLLFIDNIFRFTQAGSEVS  258 (463)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecchHHHHHHHHHHH
Confidence              34455555   679999999999543 3344444

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=94.47  E-value=0.17  Score=50.35  Aligned_cols=113  Identities=13%  Similarity=0.138  Sum_probs=60.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCc--c-ccc--ccc--------------eeEEEEcCCCC------CHHHHHHHHHHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGN--Y-VKH--YFD--------------CHAWVQEPYTC------YADQILDIIIKF  244 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~--~-~~~--~F~--------------~~~wv~~s~~~------~~~~~~~~i~~~  244 (821)
                      -.+++|+|..|.|||||.+.+....  . ..+  .|+              ..+++ +.+.+      .+.+..+.....
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~~~p~~G~i~~~g~~~~~~~~~~~~~~~i~~-v~q~~~~~~~~~~~~~l~~~~~~  104 (200)
T cd03217          26 GEVHALMGPNGSGKSTLAKTIMGHPKYEVTEGEILFKGEDITDLPPEERARLGIFL-AFQYPPEIPGVKNADFLRYVNEG  104 (200)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCCCccEEEECCEECCcCCHHHHhhCcEEE-eecChhhccCccHHHHHhhcccc
Confidence            4699999999999999999988741  1 111  010              11222 22221      222222111112


Q ss_pred             hCCchh-HHHHHHHhCCCcEEEEEecCCC---HHHHHHHHHhCCCC-CCCcEEEEEecchhhhc
Q 045113          245 LMPSSR-LIILHEYLMTKRYLIVIDDVWS---IEVWDIIREILPDN-QNGSRVLITLAKIDTVT  303 (821)
Q Consensus       245 l~~~~~-~~~l~~~l~~kr~LlVlDdv~~---~~~~~~l~~~l~~~-~~gs~iiiTtr~~~v~~  303 (821)
                      +...+. .-.+.+.+...+-++++|+.-.   ......+...+... ..|.-||++|.+.....
T Consensus       105 LS~G~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~L~~~~~~~~tiii~sh~~~~~~  168 (200)
T cd03217         105 FSGGEKKRNEILQLLLLEPDLAILDEPDSGLDIDALRLVAEVINKLREEGKSVLIITHYQRLLD  168 (200)
T ss_pred             CCHHHHHHHHHHHHHhcCCCEEEEeCCCccCCHHHHHHHHHHHHHHHHCCCEEEEEecCHHHHH
Confidence            222211 4556677777888999999853   23333333332211 23667888888776554

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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.43  E-value=0.32  Score=53.70  Aligned_cols=23  Identities=17%  Similarity=0.228  Sum_probs=20.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|+++|..|+||||++..+..
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~  213 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAA  213 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46999999999999999887654

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=94.43  E-value=0.043  Score=50.82  Aligned_cols=44  Identities=25%  Similarity=0.101  Sum_probs=33.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCc
Q 045113          192 AVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPS  248 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  248 (821)
                      +|.|-|.+|+||||+|+.+.+..-.+  |           .+.-.++++|++..+.+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~--~-----------vsaG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK--L-----------VSAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc--e-----------eeccHHHHHHHHHcCCC
Confidence            68999999999999999999832222  1           13446788888888776

>PRK14974 cell division protein FtsY; Provisional

Probab=94.41  E-value=0.4  Score=51.44  Aligned_cols=24  Identities=17%  Similarity=0.106  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +..+|.++|++|+||||++..+..
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~  162 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAY  162 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            468999999999999997777765

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=94.41  E-value=0.18  Score=56.44  Aligned_cols=121  Identities=17%  Similarity=0.154  Sum_probs=73.5

Q ss_pred             CCeeechhhHHHHHHHHhcCC-----------CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHH
Q 045113          167 RDTVGLDDRMEELLDLLIEGP-----------PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYAD  235 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~-----------~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~  235 (821)
                      .++-|.++-..++...+..+-           ....=|-+||.+|.|||-||++|.|  +-+-.|     ++|...    
T Consensus       511 ~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVAN--Eag~NF-----isVKGP----  579 (802)
T KOG0733|consen  511 DDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVAN--EAGANF-----ISVKGP----  579 (802)
T ss_pred             hhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhh--hccCce-----EeecCH----
Confidence            455567777777666665431           2345677899999999999999999  555556     333222    


Q ss_pred             HHHHHHHHH-hCCchh-HHHHHHH-hCCCcEEEEEecCCCH-------------HHHHHHHHhCCC--CCCCcEEEEEec
Q 045113          236 QILDIIIKF-LMPSSR-LIILHEY-LMTKRYLIVIDDVWSI-------------EVWDIIREILPD--NQNGSRVLITLA  297 (821)
Q Consensus       236 ~~~~~i~~~-l~~~~~-~~~l~~~-l~~kr~LlVlDdv~~~-------------~~~~~l~~~l~~--~~~gs~iiiTtr  297 (821)
                          +++.. ++.++. ...+.++ -..-++.|.||.++..             -..+.+...+..  ...|--||-.|.
T Consensus       580 ----ELlNkYVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATN  655 (802)
T KOG0733|consen  580 ----ELLNKYVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATN  655 (802)
T ss_pred             ----HHHHHHhhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecC
Confidence                11111 111111 2333333 3468999999999631             123556555553  345667777788


Q ss_pred             chhhh
Q 045113          298 KIDTV  302 (821)
Q Consensus       298 ~~~v~  302 (821)
                      ..++.
T Consensus       656 RPDiI  660 (802)
T KOG0733|consen  656 RPDII  660 (802)
T ss_pred             CCccc
Confidence            77776

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=94.41  E-value=0.14  Score=56.62  Aligned_cols=88  Identities=14%  Similarity=0.030  Sum_probs=55.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHHhCCch--------h---------
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKFLMPSS--------R---------  250 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~--------~---------  250 (821)
                      .-..++|+|..|+|||||++.+.+...    -+.++++-+.+.. .+.++.++.+..-+...        +         
T Consensus       157 ~Gqri~I~G~sG~GKTtLL~~I~~~~~----~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a  232 (442)
T PRK08927        157 RGQRMGIFAGSGVGKSVLLSMLARNAD----ADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQA  232 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccC----CCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHH
Confidence            356899999999999999999997322    2455556666554 34455555544322210        1         


Q ss_pred             ---HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHH
Q 045113          251 ---LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIR  280 (821)
Q Consensus       251 ---~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~  280 (821)
                         +-.+.+++  +++.+|+++||+-.. ....++.
T Consensus       233 ~~~a~tiAEyfrd~G~~Vll~~DslTr~A~A~REis  268 (442)
T PRK08927        233 AYLTLAIAEYFRDQGKDVLCLMDSVTRFAMAQREIG  268 (442)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCcHHHHhhhhHHH
Confidence               33444555  589999999999543 3344443

>PRK03839 putative kinase; Provisional

Probab=94.40  E-value=0.028  Score=54.93  Aligned_cols=22  Identities=18%  Similarity=0.200  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .|.|+|++|+||||+|+.+.+.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999983

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=94.39  E-value=0.08  Score=58.52  Aligned_cols=91  Identities=11%  Similarity=0.197  Sum_probs=60.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC-HHHHHHHHHHHhCCch--------h----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY-ADQILDIIIKFLMPSS--------R----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~--------~----------  250 (821)
                      -+.++|.|-+|+|||+|+.++..... +.+-+.++++-+.+... +.++.+++...-....        +          
T Consensus       138 GQr~~Ifg~~G~GKt~l~~~~~~~~~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~  216 (449)
T TIGR03305       138 GGKAGLFGGAGVGKTVLLTEMIHNMV-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVG  216 (449)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHH-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHH
Confidence            46899999999999999999876422 23346888888877654 5566666655321110        1          


Q ss_pred             --HHHHHHHh---CCCcEEEEEecCCCH-HHHHHHHH
Q 045113          251 --LIILHEYL---MTKRYLIVIDDVWSI-EVWDIIRE  281 (821)
Q Consensus       251 --~~~l~~~l---~~kr~LlVlDdv~~~-~~~~~l~~  281 (821)
                        +-.+.+++   +++++|+++||+-.- ..+.++..
T Consensus       217 ~~a~tiAEyfrd~~G~~VLl~~DslTR~A~A~REisl  253 (449)
T TIGR03305       217 HTALTMAEYFRDDEKQDVLLLIDNIFRFIQAGSEVSG  253 (449)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecChHHHHHHHHHHHH
Confidence              44555665   469999999999543 34444443

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=94.38  E-value=0.058  Score=49.25  Aligned_cols=40  Identities=15%  Similarity=0.186  Sum_probs=29.3

Q ss_pred             hhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          174 DRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       174 ~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ++.+++-+.|...-..-.+|.+.|.-|.||||+++.+.+.
T Consensus         6 ~~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150         6 KAMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            4445555555543223458999999999999999999974

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.

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.37  E-value=0.2  Score=55.08  Aligned_cols=75  Identities=21%  Similarity=0.160  Sum_probs=47.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh------HHHHHHHhCCC
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR------LIILHEYLMTK  261 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~------~~~l~~~l~~k  261 (821)
                      .....+-+.|.+|+|||+||..+..    ...|..+=-++....             ++.++.      .....+..+..
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~----~S~FPFvKiiSpe~m-------------iG~sEsaKc~~i~k~F~DAYkS~  598 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIAL----SSDFPFVKIISPEDM-------------IGLSESAKCAHIKKIFEDAYKSP  598 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHh----hcCCCeEEEeChHHc-------------cCccHHHHHHHHHHHHHHhhcCc
Confidence            3567777899999999999999987    455754433321111             111111      23344555677


Q ss_pred             cEEEEEecCCCHHHHHHH
Q 045113          262 RYLIVIDDVWSIEVWDII  279 (821)
Q Consensus       262 r~LlVlDdv~~~~~~~~l  279 (821)
                      --.||+||+..-.+|-.+
T Consensus       599 lsiivvDdiErLiD~vpI  616 (744)
T KOG0741|consen  599 LSIIVVDDIERLLDYVPI  616 (744)
T ss_pred             ceEEEEcchhhhhccccc
Confidence            789999999766565433

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=94.37  E-value=0.11  Score=53.59  Aligned_cols=20  Identities=20%  Similarity=0.355  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045113          193 VTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~  212 (821)
                      |.++|.+|+||||+|+.+..
T Consensus         2 Ivl~G~pGSGKST~a~~La~   21 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAK   21 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            77899999999999999986

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>PRK05922 type III secretion system ATPase; Validated

Probab=94.36  E-value=0.18  Score=55.63  Aligned_cols=87  Identities=10%  Similarity=0.106  Sum_probs=52.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC-CCHHHHHHHHHHHhCCchh------------------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT-CYADQILDIIIKFLMPSSR------------------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~------------------  250 (821)
                      -..++|+|..|+|||||.+.+....    .-+..+.+-+... ..+.+...+..........                  
T Consensus       157 GqrigI~G~nG~GKSTLL~~Ia~~~----~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~  232 (434)
T PRK05922        157 GQRIGVFSEPGSGKSSLLSTIAKGS----KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAG  232 (434)
T ss_pred             CcEEEEECCCCCChHHHHHHHhccC----CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHH
Confidence            4579999999999999999998732    1233333333332 3344555444443322210                  


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHH
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIR  280 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~  280 (821)
                        +-.+.+++  +++++|+++||+-.. ....++.
T Consensus       233 ~~a~tiAEyfrd~G~~VLl~~DslTR~A~A~REis  267 (434)
T PRK05922        233 RAAMTIAEYFRDQGHRVLFIMDSLSRWIAALQEVA  267 (434)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHH
Confidence              34455555  579999999999543 3344443

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=94.36  E-value=0.18  Score=53.69  Aligned_cols=79  Identities=13%  Similarity=0.089  Sum_probs=49.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC-CCCHHHHHHHHHHHhCCch--------h----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY-TCYADQILDIIIKFLMPSS--------R----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~--------~----------  250 (821)
                      -..++|+|..|+|||||.+.+.....    -+..+..-+.. .-.+.++.......-....        +          
T Consensus        69 Gqri~I~G~sG~GKTtLl~~Ia~~~~----~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~  144 (326)
T cd01136          69 GQRLGIFAGSGVGKSTLLGMIARGTT----ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAA  144 (326)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHH
Confidence            46889999999999999999997322    12333343332 3455666555554422210        0          


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCC
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                        +-.+.+++  ++|.+|+++||+-.
T Consensus       145 ~~a~~~AEyfr~~g~~Vll~~Dsltr  170 (326)
T cd01136         145 YTATAIAEYFRDQGKDVLLLMDSLTR  170 (326)
T ss_pred             HHHHHHHHHHHHcCCCeEEEeccchH
Confidence              23333444  58999999999954

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.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=94.36  E-value=0.2  Score=48.92  Aligned_cols=110  Identities=15%  Similarity=0.193  Sum_probs=59.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccc-cc--ccc--------------eeEEEEcCCC------CCHHHHHHHHHHH--
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYV-KH--YFD--------------CHAWVQEPYT------CYADQILDIIIKF--  244 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~--~F~--------------~~~wv~~s~~------~~~~~~~~~i~~~--  244 (821)
                      -.+++|+|..|.|||||++.+..-... .+  .|+              ..+.+ +.+.      +....+.+.+...  
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~~~i~~-~~q~~~~~~~~~~~t~~e~l~~~~~  104 (182)
T cd03215          26 GEIVGIAGLVGNGQTELAEALFGLRPPASGEITLDGKPVTRRSPRDAIRAGIAY-VPEDRKREGLVLDLSVAENIALSSL  104 (182)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEECCccCHHHHHhCCeEE-ecCCcccCcccCCCcHHHHHHHHhh
Confidence            458999999999999999999864211 11  011              11111 1221      1111222222211  


Q ss_pred             hCCchh-HHHHHHHhCCCcEEEEEecCCC---HHHHHHHHHhCCC-CCCCcEEEEEecchh
Q 045113          245 LMPSSR-LIILHEYLMTKRYLIVIDDVWS---IEVWDIIREILPD-NQNGSRVLITLAKID  300 (821)
Q Consensus       245 l~~~~~-~~~l~~~l~~kr~LlVlDdv~~---~~~~~~l~~~l~~-~~~gs~iiiTtr~~~  300 (821)
                      +...+. .-.+.+.+-.++-++++|+.-.   ....+.+...+.. ...|..||++|.+..
T Consensus       105 LS~G~~qrl~la~al~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  165 (182)
T cd03215         105 LSGGNQQKVVLARWLARDPRVLILDEPTRGVDVGAKAEIYRLIRELADAGKAVLLISSELD  165 (182)
T ss_pred             cCHHHHHHHHHHHHHccCCCEEEECCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            222222 3456677778888999999853   3333333333321 123677888888754

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=94.35  E-value=0.042  Score=54.20  Aligned_cols=30  Identities=20%  Similarity=0.132  Sum_probs=25.3

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhcCcccccc
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHY  219 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~  219 (821)
                      ..+.+|||-|.+|+||||+|+.++.  .+...
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~--~~~~~   35 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSE--QLGVE   35 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHH--HhCcC
Confidence            3578999999999999999999998  44433

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=94.34  E-value=0.025  Score=50.75  Aligned_cols=28  Identities=21%  Similarity=0.170  Sum_probs=19.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcCcccccccce
Q 045113          193 VTILDSIGLDKTAFAAEAYSGNYVKHYFDC  222 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~~~~~~~F~~  222 (821)
                      |-|+|.+|+||||+|+.+..  .+...|..
T Consensus         2 vLleg~PG~GKT~la~~lA~--~~~~~f~R   29 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALAR--SLGLSFKR   29 (131)
T ss_dssp             EEEES---HHHHHHHHHHHH--HTT--EEE
T ss_pred             EeeECCCccHHHHHHHHHHH--HcCCceeE
Confidence            56899999999999999998  67777753

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.

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=94.33  E-value=0.16  Score=50.15  Aligned_cols=111  Identities=14%  Similarity=0.123  Sum_probs=58.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCc---ccccc--cc----------eeEEEEcCCC-CCHHHHHHHHHH-----HhCCc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGN---YVKHY--FD----------CHAWVQEPYT-CYADQILDIIIK-----FLMPS  248 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~---~~~~~--F~----------~~~wv~~s~~-~~~~~~~~~i~~-----~l~~~  248 (821)
                      -.+++|+|..|.|||||++.+....   ...+.  |+          ...|+.-... +....+.+.+..     ++...
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~~~G~i~~~g~~~~~~~~~~i~~~~q~~~~~~~~tv~~~l~~~~~~~~LSgG  112 (192)
T cd03232          33 GTLTALMGESGAGKTTLLDVLAGRKTAGVITGEILINGRPLDKNFQRSTGYVEQQDVHSPNLTVREALRFSALLRGLSVE  112 (192)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCCcceEEEECCEehHHHhhhceEEecccCccccCCcHHHHHHHHHHHhcCCHH
Confidence            4699999999999999999998531   11111  11          1223321111 111122222221     22222


Q ss_pred             hh-HHHHHHHhCCCcEEEEEecCCC---HHHHHHHHHhCCC-CCCCcEEEEEecchh
Q 045113          249 SR-LIILHEYLMTKRYLIVIDDVWS---IEVWDIIREILPD-NQNGSRVLITLAKID  300 (821)
Q Consensus       249 ~~-~~~l~~~l~~kr~LlVlDdv~~---~~~~~~l~~~l~~-~~~gs~iiiTtr~~~  300 (821)
                      +. .-.+.+.+..++-++++|+.-.   ......+...+.. ...|..||++|.+.+
T Consensus       113 e~qrv~la~al~~~p~vlllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiiivtH~~~  169 (192)
T cd03232         113 QRKRLTIGVELAAKPSILFLDEPTSGLDSQAAYNIVRFLKKLADSGQAILCTIHQPS  169 (192)
T ss_pred             HhHHHHHHHHHhcCCcEEEEeCCCcCCCHHHHHHHHHHHHHHHHcCCEEEEEEcCCh
Confidence            22 4455667777888999999853   2222222222221 123667888887754

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.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=94.33  E-value=0.32  Score=51.92  Aligned_cols=131  Identities=13%  Similarity=0.136  Sum_probs=73.0

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCc---c---------c-ccccceeEEEEcCCCCC
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGN---Y---------V-KHYFDCHAWVQEPYTCY  233 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~---~---------~-~~~F~~~~wv~~s~~~~  233 (821)
                      .+++|-+..++.+...+..+. -....-++|..|+||+++|..+.+.-   .         + ...+....|+.-....+
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~r-l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~   82 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNR-IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQ   82 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEecccccc
Confidence            468999999999999887753 23788999999999999887665420   0         0 12223345553210000


Q ss_pred             HHHHHHHHHHHhC--C----c---hhHHHHHHHhC-----CCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEec
Q 045113          234 ADQILDIIIKFLM--P----S---SRLIILHEYLM-----TKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLA  297 (821)
Q Consensus       234 ~~~~~~~i~~~l~--~----~---~~~~~l~~~l~-----~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr  297 (821)
                      -..+-.+-++..+  .    .   +..+.+.+.+.     +.+-++|+|++...  ...+.+...+.... .+.+|++|.
T Consensus        83 g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~fILi~~  161 (314)
T PRK07399         83 GKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTLILIAP  161 (314)
T ss_pred             ccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeEEEEEC
Confidence            0000001111111  0    0   11344555543     46668999998654  56777777776555 345555554


Q ss_pred             ch
Q 045113          298 KI  299 (821)
Q Consensus       298 ~~  299 (821)
                      +.
T Consensus       162 ~~  163 (314)
T PRK07399        162 SP  163 (314)
T ss_pred             Ch
Confidence            43

>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=94.33  E-value=0.019  Score=34.32  Aligned_cols=17  Identities=18%  Similarity=0.171  Sum_probs=7.1

Q ss_pred             ceEEecCCcccccchhh
Q 045113          567 LYTLDMPFSYIDHTADE  583 (821)
Q Consensus       567 L~~L~L~~~~l~~lp~~  583 (821)
                      |++||+++|.++.+|++
T Consensus         2 L~~Ldls~n~l~~ip~~   18 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPSS   18 (22)
T ss_dssp             ESEEEETSSEESEEGTT
T ss_pred             ccEEECCCCcCEeCChh
Confidence            34444444444444433

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 ....

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=94.31  E-value=0.26  Score=51.13  Aligned_cols=89  Identities=18%  Similarity=0.055  Sum_probs=57.3

Q ss_pred             HHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHH-hCC---c-----hh
Q 045113          180 LDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKF-LMP---S-----SR  250 (821)
Q Consensus       180 ~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~-l~~---~-----~~  250 (821)
                      -+.|..+-+.-+++=|+|..|.||||+|.+++-.  ....-..++|++....++...+..- +.. +..   .     +.
T Consensus        50 D~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~--aq~~g~~a~fIDtE~~l~p~r~~~l-~~~~~d~l~v~~~~~~e~  126 (279)
T COG0468          50 DEALGGGLPRGRITEIYGPESSGKTTLALQLVAN--AQKPGGKAAFIDTEHALDPERAKQL-GVDLLDNLLVSQPDTGEQ  126 (279)
T ss_pred             HHHhcCCcccceEEEEecCCCcchhhHHHHHHHH--hhcCCCeEEEEeCCCCCCHHHHHHH-HHhhhcceeEecCCCHHH
Confidence            3344455566899999999999999999887763  3333448999999999988765433 332 111   1     11


Q ss_pred             ----HHHHHHHhCCCcEEEEEecCC
Q 045113          251 ----LIILHEYLMTKRYLIVIDDVW  271 (821)
Q Consensus       251 ----~~~l~~~l~~kr~LlVlDdv~  271 (821)
                          ++.+.+....+--|+|+|.|-
T Consensus       127 q~~i~~~~~~~~~~~i~LvVVDSva  151 (279)
T COG0468         127 QLEIAEKLARSGAEKIDLLVVDSVA  151 (279)
T ss_pred             HHHHHHHHHHhccCCCCEEEEecCc
Confidence                233333333345688888884

>PRK04040 adenylate kinase; Provisional

Probab=94.31  E-value=0.032  Score=54.74  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|+|+|++|+||||+++.+..
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~   24 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALE   24 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHH
Confidence            36899999999999999999987

>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=94.29  E-value=0.23  Score=48.07  Aligned_cols=21  Identities=24%  Similarity=0.251  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++.++|++|+||||++..+..
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~   22 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLAL   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999988876

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.

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=94.29  E-value=0.094  Score=62.30  Aligned_cols=47  Identities=13%  Similarity=0.090  Sum_probs=38.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ..++|.+..+.++.+.+..-...-.-|-|+|..|+||+++|+.+.+.
T Consensus       325 ~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~  371 (638)
T PRK11388        325 DHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNE  371 (638)
T ss_pred             cceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHh
Confidence            46899999999998888764333445789999999999999999973

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=94.29  E-value=0.2  Score=47.88  Aligned_cols=52  Identities=17%  Similarity=0.322  Sum_probs=37.4

Q ss_pred             HHHHHHHhCCCcEEEEEecCC----CHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          251 LIILHEYLMTKRYLIVIDDVW----SIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       251 ~~~l~~~l~~kr~LlVlDdv~----~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      .-.|.+.+-+++-+++=|.--    ....|+.+...-.-+..|..|+++|.+.++.
T Consensus       145 RvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~ATHd~~lv  200 (223)
T COG2884         145 RVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMATHDLELV  200 (223)
T ss_pred             HHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEEeccHHHH
Confidence            345667778899999999753    3456765554444466799999999988765

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=94.29  E-value=0.1  Score=56.62  Aligned_cols=107  Identities=15%  Similarity=0.112  Sum_probs=64.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC-CCCHHHHHHHHHH--HhCCc-hh-HHHHHHHhCCCcEE
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY-TCYADQILDIIIK--FLMPS-SR-LIILHEYLMTKRYL  264 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~--~l~~~-~~-~~~l~~~l~~kr~L  264 (821)
                      -..|.|.|..|.||||+.+.+.+  .+......+++..-.. .+.... ...+..  +++.. .+ ...++..|+..+=.
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~--~i~~~~~~~i~tiEdp~E~~~~~-~~~~i~q~evg~~~~~~~~~l~~~lr~~pd~  198 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMID--YINKNAAGHIITIEDPIEYVHRN-KRSLINQREVGLDTLSFANALRAALREDPDV  198 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH--hhCcCCCCEEEEEcCChhhhccC-ccceEEccccCCCCcCHHHHHHHhhccCCCE
Confidence            46899999999999999999887  4444445555543211 110000 000011  11111 11 56778888889999


Q ss_pred             EEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          265 IVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       265 lVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      |++|.+.+.+.+.......   ..|-.|+.|+-..++.
T Consensus       199 i~vgEird~~~~~~~l~aa---~tGh~v~~T~Ha~~~~  233 (343)
T TIGR01420       199 ILIGEMRDLETVELALTAA---ETGHLVFGTLHTNSAA  233 (343)
T ss_pred             EEEeCCCCHHHHHHHHHHH---HcCCcEEEEEcCCCHH
Confidence            9999999887766533332   2355577776665555

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=94.22  E-value=0.46  Score=48.15  Aligned_cols=24  Identities=8%  Similarity=0.011  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|+|||||++.+...
T Consensus        48 Ge~~~i~G~nGsGKSTLl~~l~G~   71 (224)
T cd03220          48 GERIGLIGRNGAGKSTLLRLLAGI   71 (224)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999974

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=94.21  E-value=0.28  Score=49.82  Aligned_cols=24  Identities=17%  Similarity=-0.056  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|+|||||++.+...
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~   56 (225)
T PRK10247         33 GEFKLITGPSGCGKSTLLKIVASL   56 (225)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            469999999999999999999864

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=94.20  E-value=0.037  Score=54.35  Aligned_cols=24  Identities=13%  Similarity=0.122  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +..+|.|+|.+|+||||+|+.+..
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999986

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.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=94.18  E-value=0.057  Score=51.99  Aligned_cols=22  Identities=27%  Similarity=0.289  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..|-+.|.+|+||||+|+.+..
T Consensus         2 pLiIlTGyPgsGKTtfakeLak   23 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAK   23 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHH
Confidence            3577889999999999999887

>PRK06936 type III secretion system ATPase; Provisional

Probab=94.16  E-value=0.17  Score=55.91  Aligned_cols=88  Identities=15%  Similarity=0.071  Sum_probs=56.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHHhCCch--------h----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKFLMPSS--------R----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~--------~----------  250 (821)
                      -..++|.|..|+|||||.+.+++...    -+.++++-+.+.. .+.++.+..+..-....        +          
T Consensus       162 Gq~~~I~G~sG~GKStLl~~Ia~~~~----~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a~  237 (439)
T PRK06936        162 GQRMGIFAAAGGGKSTLLASLIRSAE----VDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKAG  237 (439)
T ss_pred             CCEEEEECCCCCChHHHHHHHhcCCC----CCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHHH
Confidence            56899999999999999999998422    2567777676654 34555544333211110        1          


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHHH
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIRE  281 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~~  281 (821)
                        +-.+.+++  +++++|+++||+-.. ....++..
T Consensus       238 ~~a~tiAEyfrd~G~~Vll~~DslTR~A~A~REisl  273 (439)
T PRK06936        238 FVATSIAEYFRDQGKRVLLLMDSVTRFARAQREIGL  273 (439)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHHH
Confidence              33344444  589999999999543 33444443

>PRK00625 shikimate kinase; Provisional

Probab=94.15  E-value=0.033  Score=53.76  Aligned_cols=21  Identities=14%  Similarity=0.142  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|.++||+|+||||+++.+.+
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999987

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=94.13  E-value=0.14  Score=56.51  Aligned_cols=80  Identities=13%  Similarity=0.027  Sum_probs=48.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCch--------h-----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS--------R-----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~--------~-----------  250 (821)
                      -..++|+|..|+|||||++.+....  . ....++...-.+.-.+.++.++.+..-....        +           
T Consensus       140 Gq~i~I~G~sG~GKTtLl~~I~~~~--~-~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~  216 (418)
T TIGR03498       140 GQRLGIFAGSGVGKSTLLSMLARNT--D-ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAY  216 (418)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCC--C-CCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHH
Confidence            4689999999999999999998732  2 1222332222223345555555444322211        0           


Q ss_pred             -HHHHHHHh--CCCcEEEEEecCCC
Q 045113          251 -LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 -~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                       +-.+.+++  +++.+|+++||+-.
T Consensus       217 ~a~~iAEyfrd~G~~Vll~~DslTr  241 (418)
T TIGR03498       217 TATAIAEYFRDQGKDVLLLMDSVTR  241 (418)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchhH
Confidence             33445555  57999999999954

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.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=94.10  E-value=0.1  Score=56.92  Aligned_cols=78  Identities=14%  Similarity=0.230  Sum_probs=50.3

Q ss_pred             CCCeeechhhHHHHHHHHhcC------------CCCceEEEEEcCCCChHHHHHHHHhcCccccccc---ceeEEEEcCC
Q 045113          166 NRDTVGLDDRMEELLDLLIEG------------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF---DCHAWVQEPY  230 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~------------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F---~~~~wv~~s~  230 (821)
                      +..++|.+..++.+...+...            +....-|-++|.+|+||||||+.+..  .....|   +...|.....
T Consensus        14 d~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk--~l~~~fi~vD~t~f~e~Gy   91 (443)
T PRK05201         14 DKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAK--LANAPFIKVEATKFTEVGY   91 (443)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHH--HhCChheeecchhhccCCc
Confidence            346899999999998888541            11246789999999999999999987  333333   3322322221


Q ss_pred             -CCCHHHHHHHHHHHh
Q 045113          231 -TCYADQILDIIIKFL  245 (821)
Q Consensus       231 -~~~~~~~~~~i~~~l  245 (821)
                       ..+...+.+++....
T Consensus        92 vG~d~e~~ir~L~~~A  107 (443)
T PRK05201         92 VGRDVESIIRDLVEIA  107 (443)
T ss_pred             ccCCHHHHHHHHHHHH
Confidence             225556666665554

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=94.09  E-value=0.24  Score=50.36  Aligned_cols=111  Identities=13%  Similarity=0.108  Sum_probs=67.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcc-----cc------ccc---ceeEEEEc----CCCC--CH---------------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNY-----VK------HYF---DCHAWVQE----PYTC--YA---------------  234 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~-----~~------~~F---~~~~wv~~----s~~~--~~---------------  234 (821)
                      -.+++|+|+.|.|||||.+.+..-..     +.      ..+   ..+.||.-    ...|  ++               
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~~  109 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWF  109 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCccccccc
Confidence            36999999999999999999987211     11      001   23455531    1111  11               


Q ss_pred             -------HHHHHHHHHHhCCchh--------------HHHHHHHhCCCcEEEEEecCCCH------HHHHHHHHhCCCCC
Q 045113          235 -------DQILDIIIKFLMPSSR--------------LIILHEYLMTKRYLIVIDDVWSI------EVWDIIREILPDNQ  287 (821)
Q Consensus       235 -------~~~~~~i~~~l~~~~~--------------~~~l~~~l~~kr~LlVlDdv~~~------~~~~~l~~~l~~~~  287 (821)
                             .+...+.++.++...-              .-.|.+.|..++=|+|||.--..      ...-++...+... 
T Consensus       110 ~~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~e-  188 (254)
T COG1121         110 RRLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQE-  188 (254)
T ss_pred             ccccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHHC-
Confidence                   1334444555544310              45667888999999999986432      3344444444433 


Q ss_pred             CCcEEEEEecchhhh
Q 045113          288 NGSRVLITLAKIDTV  302 (821)
Q Consensus       288 ~gs~iiiTtr~~~v~  302 (821)
                       |.-|+++|-+-+..
T Consensus       189 -g~tIl~vtHDL~~v  202 (254)
T COG1121         189 -GKTVLMVTHDLGLV  202 (254)
T ss_pred             -CCEEEEEeCCcHHh
Confidence             78899999887665

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=94.05  E-value=0.55  Score=50.04  Aligned_cols=156  Identities=13%  Similarity=0.039  Sum_probs=81.7

Q ss_pred             hhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC-----ccc-----------ccccceeEEEEc-CCCCCH--
Q 045113          174 DRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG-----NYV-----------KHYFDCHAWVQE-PYTCYA--  234 (821)
Q Consensus       174 ~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~-----~~~-----------~~~F~~~~wv~~-s~~~~~--  234 (821)
                      ...+.+...+..+. -...+-++|..|+||+|+|..+.+.     +..           .+......||.. ....+.  
T Consensus        11 ~~~~~l~~~~~~~r-l~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~   89 (319)
T PRK08769         11 RAYDQTVAALDAGR-LGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKL   89 (319)
T ss_pred             HHHHHHHHHHHcCC-cceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccc
Confidence            34555555555442 2457889999999999999776542     110           011122334421 110000  


Q ss_pred             -HHHHHHHHHHhCCchhHHHHHHHh-----CCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecchhhh----
Q 045113          235 -DQILDIIIKFLMPSSRLIILHEYL-----MTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKIDTV----  302 (821)
Q Consensus       235 -~~~~~~i~~~l~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~~v~----  302 (821)
                       ..|.-         +....+.+.+     .+++-++|+|++...  ..-+.+...+.....++.+|++|.+.+-.    
T Consensus        90 ~~~I~i---------dqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTI  160 (319)
T PRK08769         90 RTEIVI---------EQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATI  160 (319)
T ss_pred             cccccH---------HHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHH
Confidence             00000         0122333333     245669999999754  56677777777666678777777654333    


Q ss_pred             ----cccccccCCc--------CCCCccchHHHHHHHcCCchHHHHHhh
Q 045113          303 ----TLFQFENGQN--------IRLDLVPTGGPLRVTYQGWPFHILYHG  339 (821)
Q Consensus       303 ----~lf~~~~~~~--------~~~~~~~~~~~i~~~c~glPLai~~~g  339 (821)
                          ..+.|..-..        ....-...+..++..++|.|+.+..+.
T Consensus       161 rSRCq~i~~~~~~~~~~~~~L~~~~~~~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        161 RSRCQRLEFKLPPAHEALAWLLAQGVSERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             HhhheEeeCCCcCHHHHHHHHHHcCCChHHHHHHHHHcCCCHHHHHHHh
Confidence                2222322110        000111224577889999998766554

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=94.02  E-value=0.056  Score=54.28  Aligned_cols=107  Identities=15%  Similarity=0.065  Sum_probs=55.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccc--ccccc----------eeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYV--KHYFD----------CHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEY  257 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~--~~~F~----------~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~  257 (821)
                      .+++.|+|..|.||||+.+.+......  .+.|-          ..++......-++.+-.....      .+.+++...
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~~~la~~G~~v~a~~~~~~~~d~i~~~l~~~~si~~~~S~f~------~el~~l~~~  102 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIVFLAHIGSFVPADSATIGLVDKIFTRMSSRESVSSGQSAFM------IDLYQVSKA  102 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHHHHHHhCCCeeEcCCcEEeeeeeeeeeeCCccChhhccchHH------HHHHHHHHH
Confidence            488999999999999999888732111  11110          011111111111111100000      012333333


Q ss_pred             h--CCCcEEEEEecCCCH---HHH----HHHHHhCCC-CCCCcEEEEEecchhhh
Q 045113          258 L--MTKRYLIVIDDVWSI---EVW----DIIREILPD-NQNGSRVLITLAKIDTV  302 (821)
Q Consensus       258 l--~~kr~LlVlDdv~~~---~~~----~~l~~~l~~-~~~gs~iiiTtr~~~v~  302 (821)
                      +  ..++.|+++|..-..   .+.    ..+...+.. +..+..+|+||.+...+
T Consensus       103 l~~~~~~slvllDE~~~gtd~~~~~~~~~ail~~l~~~~~~~~~vli~TH~~~l~  157 (213)
T cd03281         103 LRLATRRSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPECPRVIVSTHFHELF  157 (213)
T ss_pred             HHhCCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEcChHHHH
Confidence            3  468899999998643   111    122223322 23346899999988887

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

>PTZ00185 ATPase alpha subunit; Provisional

Probab=94.00  E-value=0.23  Score=55.32  Aligned_cols=90  Identities=14%  Similarity=0.146  Sum_probs=55.4

Q ss_pred             CceEEEEEcCCCChHHHHH-HHHhcCccc-----ccccceeEEEEcCCCCC-HHHHHHHHHHHhC-Cc---------hh-
Q 045113          189 QLSAVTILDSIGLDKTAFA-AEAYSGNYV-----KHYFDCHAWVQEPYTCY-ADQILDIIIKFLM-PS---------SR-  250 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa-~~v~~~~~~-----~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~-~~---------~~-  250 (821)
                      +-+.++|.|-.|+|||+|| -.+.+...+     .++-+.++++-+.+..+ +.+ ..+.+++-+ ..         ++ 
T Consensus       188 RGQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~e-i~~~L~e~GaL~~TvVV~AtAdep  266 (574)
T PTZ00185        188 RGQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVAR-IHRLLRSYGALRYTTVMAATAAEP  266 (574)
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHH-HHHHHHhcCCccceEEEEECCCCC
Confidence            3567899999999999997 556664322     13445678888887754 334 333343333 11         01 


Q ss_pred             ----------HHHHHHHh--CCCcEEEEEecCCCH-HHHHHH
Q 045113          251 ----------LIILHEYL--MTKRYLIVIDDVWSI-EVWDII  279 (821)
Q Consensus       251 ----------~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l  279 (821)
                                +-.+.+++  +++.+|+|+||+... ..+.++
T Consensus       267 ~~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr~A~A~REI  308 (574)
T PTZ00185        267 AGLQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSKQAVAYRQI  308 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCEEEEEcCchHHHHHHHHH
Confidence                      33344444  579999999999653 334443

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=93.99  E-value=0.48  Score=47.38  Aligned_cols=53  Identities=11%  Similarity=0.236  Sum_probs=34.9

Q ss_pred             HHHHHHHhCCCcEEEEEecCCC---HHHHHHHHHhCCC--CCCCcEEEEEecchhhhc
Q 045113          251 LIILHEYLMTKRYLIVIDDVWS---IEVWDIIREILPD--NQNGSRVLITLAKIDTVT  303 (821)
Q Consensus       251 ~~~l~~~l~~kr~LlVlDdv~~---~~~~~~l~~~l~~--~~~gs~iiiTtr~~~v~~  303 (821)
                      .-.+.+.|-..+-+|+-|.--.   ...=+.+...+..  ...|.-||+.|.+..+|.
T Consensus       150 RVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~  207 (226)
T COG1136         150 RVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAK  207 (226)
T ss_pred             HHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHH
Confidence            4567788889999999998742   2222222222221  234788999999999984

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.98  E-value=0.33  Score=57.30  Aligned_cols=23  Identities=17%  Similarity=0.255  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -+||+++|..|+||||.+..+..
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~  207 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAA  207 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHh
Confidence            46999999999999998888776

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=93.93  E-value=0.42  Score=48.24  Aligned_cols=24  Identities=17%  Similarity=0.008  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|.|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (220)
T cd03263          28 GEIFGLLGHNGAGKTTTLKMLTGE   51 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999864

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>PRK09099 type III secretion system ATPase; Provisional

Probab=93.91  E-value=0.19  Score=55.73  Aligned_cols=81  Identities=12%  Similarity=0.110  Sum_probs=50.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCch--------h----------
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS--------R----------  250 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~--------~----------  250 (821)
                      .-..++|.|..|+|||||++.+.......   ..+++..-.+.-.+.++.+.+...-....        +          
T Consensus       162 ~Gq~~~I~G~sG~GKTtLl~~ia~~~~~d---~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~  238 (441)
T PRK09099        162 EGQRMGIFAPAGVGKSTLMGMFARGTQCD---VNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAA  238 (441)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCC---eEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHH
Confidence            35689999999999999999998743221   23444333334455565555544322110        1          


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCC
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                        +-.+.+++  +++.+|+++||+-.
T Consensus       239 ~~a~tiAEyfrd~G~~VLl~~DslTr  264 (441)
T PRK09099        239 YVATAIAEYFRDRGLRVLLMMDSLTR  264 (441)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchhH
Confidence              33444444  47999999999954

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=93.90  E-value=0.22  Score=58.75  Aligned_cols=46  Identities=26%  Similarity=0.307  Sum_probs=32.3

Q ss_pred             CCeeechhhHHHHHHHHh---cCC-------CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLI---EGP-------PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~---~~~-------~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .++.|.+..++++.+.+.   ...       .-.+-|.++|.+|.||||+|+.+.+
T Consensus       152 ~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~  207 (644)
T PRK10733        152 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG  207 (644)
T ss_pred             HHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHH
Confidence            357787777666655443   211       1123488999999999999999988

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=93.86  E-value=0.46  Score=48.13  Aligned_cols=24  Identities=17%  Similarity=0.058  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|.|||||++.+...
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G~   49 (223)
T TIGR03740        26 NSVYGLLGPNGAGKSTLLKMITGI   49 (223)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            459999999999999999999863

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK10867 signal recognition particle protein; Provisional

Probab=93.86  E-value=0.68  Score=51.45  Aligned_cols=24  Identities=17%  Similarity=0.174  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|.++|.+|+||||.|..+..
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~  122 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAK  122 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHH
Confidence            368999999999999997766655

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=93.85  E-value=0.18  Score=55.68  Aligned_cols=87  Identities=16%  Similarity=0.140  Sum_probs=53.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC-CCHHHHHHHHHHHhCCc---------hh---------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT-CYADQILDIIIKFLMPS---------SR---------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~---------~~---------  250 (821)
                      -..++|+|..|+|||||++.+.+..    +.+..+++.+... ..+.+...+....=...         .+         
T Consensus       155 GqrigI~G~sG~GKSTLL~~I~~~~----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a~  230 (433)
T PRK07594        155 GQRVGIFSAPGVGKSTLLAMLCNAP----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRAL  230 (433)
T ss_pred             CCEEEEECCCCCCccHHHHHhcCCC----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHHH
Confidence            5689999999999999999998732    2344555555543 34445555543211110         00         


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHH
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIR  280 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~  280 (821)
                        +-.+.+++  +++++|+++||+-.. ....++.
T Consensus       231 ~~a~tiAEyfrd~G~~VLl~~Dsltr~A~A~REis  265 (433)
T PRK07594        231 FVATTIAEFFRDNGKRVVLLADSLTRYARAAREIA  265 (433)
T ss_pred             HHHHHHHHHHHHCCCcEEEEEeCHHHHHHHHHHHH
Confidence              33444444  579999999999543 3344443

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=93.84  E-value=0.6  Score=51.57  Aligned_cols=24  Identities=13%  Similarity=0.113  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|.++|.+|+||||+|..+..
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~  122 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAY  122 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            368999999999999999887765

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.

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=93.84  E-value=0.23  Score=55.09  Aligned_cols=87  Identities=11%  Similarity=0.030  Sum_probs=53.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC-CCHHHHHHHHHHHhCCch---------h---------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT-CYADQILDIIIKFLMPSS---------R---------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~---------~---------  250 (821)
                      -..++|+|..|+|||||++.+....    ..+.++...+... ..+.++...+...-....         +         
T Consensus       168 GqrigI~G~sG~GKSTLl~~I~g~~----~~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~  243 (451)
T PRK05688        168 GQRLGLFAGTGVGKSVLLGMMTRFT----EADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAA  243 (451)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC----CCCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHH
Confidence            4679999999999999999998732    1234444444433 345555555554432221         1         


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHH
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIR  280 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~  280 (821)
                        +-.+.+++  +++++|+++||+-.. ....++.
T Consensus       244 ~~a~aiAEyfrd~G~~VLl~~DslTR~A~A~REis  278 (451)
T PRK05688        244 MYCTRIAEYFRDKGKNVLLLMDSLTRFAQAQREIA  278 (451)
T ss_pred             HHHHHHHHHHHHCCCCEEEEecchhHHHHHHHHHH
Confidence              33344554  589999999999543 3344444

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=93.81  E-value=0.39  Score=49.41  Aligned_cols=113  Identities=14%  Similarity=0.138  Sum_probs=61.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccc-cc--ccc--eeEEEEcC----CCCCHHHHH--------------HHHHHHhC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYV-KH--YFD--CHAWVQEP----YTCYADQIL--------------DIIIKFLM  246 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~--~F~--~~~wv~~s----~~~~~~~~~--------------~~i~~~l~  246 (821)
                      -.+++|+|..|+|||||++.+...... .+  .|+  .+.++.-.    ...++.+.+              .++++.++
T Consensus        25 Ge~~~i~G~NGsGKSTLlk~L~G~~~p~~G~i~~~g~~i~~~~q~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~~l~~l~  104 (246)
T cd03237          25 SEVIGILGPNGIGKTTFIKMLAGVLKPDEGDIEIELDTVSYKPQYIKADYEGTVRDLLSSITKDFYTHPYFKTEIAKPLQ  104 (246)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcCCCCeEEECCceEEEecccccCCCCCCHHHHHHHHhhhccccHHHHHHHHHHcC
Confidence            468999999999999999999874211 11  122  12222111    011233222              22333333


Q ss_pred             Cchh--------------HHHHHHHhCCCcEEEEEecCCCH---HHHHHHHHhCCC--CCCCcEEEEEecchhhh
Q 045113          247 PSSR--------------LIILHEYLMTKRYLIVIDDVWSI---EVWDIIREILPD--NQNGSRVLITLAKIDTV  302 (821)
Q Consensus       247 ~~~~--------------~~~l~~~l~~kr~LlVlDdv~~~---~~~~~l~~~l~~--~~~gs~iiiTtr~~~v~  302 (821)
                      ....              .-.+...|....=+++||..-..   ..-..+...+..  ...|..||++|.+...+
T Consensus       105 l~~~~~~~~~~LSgGe~qrv~iaraL~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tiiivsHd~~~~  179 (246)
T cd03237         105 IEQILDREVPELSGGELQRVAIAACLSKDADIYLLDEPSAYLDVEQRLMASKVIRRFAENNEKTAFVVEHDIIMI  179 (246)
T ss_pred             CHHHhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            3210              34455667788889999998643   222233222222  12356788888887655

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=93.77  E-value=0.19  Score=55.50  Aligned_cols=92  Identities=14%  Similarity=0.134  Sum_probs=61.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccccc--ccc---------eeEEEEcCCCCCHHHHHHHHHHHhC-Cch--------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKH--YFD---------CHAWVQEPYTCYADQILDIIIKFLM-PSS--------  249 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~--~F~---------~~~wv~~s~~~~~~~~~~~i~~~l~-~~~--------  249 (821)
                      -+.++|.|-.|+|||||+.++.+..+...  ..|         .++++-+.+.....+.+.+.+..-+ ...        
T Consensus       141 GQRigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~ats  220 (466)
T TIGR01040       141 GQKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLA  220 (466)
T ss_pred             CCeeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEECC
Confidence            56899999999999999999887543100  022         6677778887666666666666554 211        


Q ss_pred             h------------HHHHHHHhC---CCcEEEEEecCCCH-HHHHHHHH
Q 045113          250 R------------LIILHEYLM---TKRYLIVIDDVWSI-EVWDIIRE  281 (821)
Q Consensus       250 ~------------~~~l~~~l~---~kr~LlVlDdv~~~-~~~~~l~~  281 (821)
                      +            +-.+.++++   ++++|+++||+... ..+.++..
T Consensus       221 d~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr~A~A~REisl  268 (466)
T TIGR01040       221 NDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSSYADALREVSA  268 (466)
T ss_pred             CCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHHHHHHHHHHHH
Confidence            1            444566665   59999999999543 34444443

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=93.74  E-value=0.66  Score=49.40  Aligned_cols=24  Identities=17%  Similarity=-0.024  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|.|||||.+.+...
T Consensus        28 Gei~~l~G~NGaGKTTLl~~l~Gl   51 (301)
T TIGR03522        28 GRIVGFLGPNGAGKSTTMKIITGY   51 (301)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999864

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>KOG0473 consensus Leucine-rich repeat protein [Function unknown]

Probab=93.73  E-value=0.0022  Score=62.52  Aligned_cols=88  Identities=17%  Similarity=0.042  Sum_probs=73.9

Q ss_pred             hccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCcee
Q 045113          514 CEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHL  593 (821)
Q Consensus       514 ~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L  593 (821)
                      +..++..++||++.+.+..+-..+..++.|..|+++.+.+.-+|...+ .+..+..+++..|+.+..|.++++++.++++
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 IASFKRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAK-QQRETVNAASHKNNHSQQPKSQKKEPHPKKN  116 (326)
T ss_pred             hhccceeeeehhhhhHHHhhccchHHHHHHHHHhccHhhHhhChhhHH-HHHHHHHHHhhccchhhCCccccccCCcchh
Confidence            456778888999988887777777888888888999888888998888 8888888888888888889888999999998


Q ss_pred             ecCCcccCC
Q 045113          594 NFGSITLPA  602 (821)
Q Consensus       594 ~L~~~~~~~  602 (821)
                      ++-.|.+..
T Consensus       117 e~k~~~~~~  125 (326)
T KOG0473|consen  117 EQKKTEFFR  125 (326)
T ss_pred             hhccCcchH
Confidence            888777643

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=93.73  E-value=0.039  Score=54.82  Aligned_cols=21  Identities=29%  Similarity=0.294  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +|+|.|..|+||||||+.+..
T Consensus         1 iigi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999977

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.

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.71  E-value=0.16  Score=52.44  Aligned_cols=39  Identities=8%  Similarity=0.045  Sum_probs=29.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccc--cccceeEEEEc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVK--HYFDCHAWVQE  228 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~--~~F~~~~wv~~  228 (821)
                      -++|-++|+||.|||+|++++++.-.++  +.|....-+.+
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEi  217 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEI  217 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEE
Confidence            4788999999999999999999965554  44554444443

>PTZ00088 adenylate kinase 1; Provisional

Probab=93.70  E-value=0.076  Score=53.80  Aligned_cols=20  Identities=20%  Similarity=0.358  Sum_probs=19.0

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045113          193 VTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~  212 (821)
                      |.|+|++|+||||+|+.+.+
T Consensus         9 Ivl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            88999999999999999987

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=93.69  E-value=0.2  Score=52.75  Aligned_cols=23  Identities=17%  Similarity=0.248  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .++|+++|.+|+||||++..+..
T Consensus       194 ~~vi~~vGptGvGKTTt~~kLa~  216 (282)
T TIGR03499       194 GGVIALVGPTGVGKTTTLAKLAA  216 (282)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            57999999999999999988876

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=93.69  E-value=0.4  Score=49.56  Aligned_cols=24  Identities=17%  Similarity=0.144  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|.|||||++.++..
T Consensus        30 Ge~~~I~G~NGsGKSTLl~~i~Gl   53 (251)
T PRK09544         30 GKILTLLGPNGAGKSTLVRVVLGL   53 (251)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999964

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.65  E-value=0.63  Score=46.76  Aligned_cols=24  Identities=17%  Similarity=0.012  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|.|||||++.+...
T Consensus        37 Ge~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         37 GEALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            458999999999999999999864

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=93.65  E-value=0.042  Score=53.66  Aligned_cols=21  Identities=24%  Similarity=0.077  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +|+|.|.+|+||||+|+.+..
T Consensus         1 ii~i~G~sgsGKTtla~~l~~   21 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQR   21 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999988

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.

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=93.61  E-value=0.56  Score=52.08  Aligned_cols=50  Identities=10%  Similarity=0.107  Sum_probs=36.3

Q ss_pred             hhhHHHHHHHHh-----cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEE
Q 045113          173 DDRMEELLDLLI-----EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWV  226 (821)
Q Consensus       173 ~~~~~~i~~~L~-----~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  226 (821)
                      ..-++++..||.     .+.-+-+|.-|.|++|+||||-++.+...    ..+..+-|.
T Consensus        88 kkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLske----lg~~~~Ew~  142 (634)
T KOG1970|consen   88 KKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKE----LGYQLIEWS  142 (634)
T ss_pred             HHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHh----hCceeeeec
Confidence            445667788887     33445679999999999999999988872    224455565

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=93.60  E-value=0.35  Score=51.45  Aligned_cols=90  Identities=18%  Similarity=0.100  Sum_probs=57.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHHhC----Cc-----------hh---
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKFLM----PS-----------SR---  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~----~~-----------~~---  250 (821)
                      -..++|.|..|+|||+|++++.+..    +-+.++++-+.+.. .+.++++++-+...    ..           .+   
T Consensus       157 Gqr~~I~G~~G~GKT~L~~~Iak~~----~~dvvVyv~iGERg~Ev~e~l~ef~~l~~~~~~~~~m~rtvlV~nts~~p~  232 (369)
T cd01134         157 GGTAAIPGPFGCGKTVIQQSLSKYS----NSDIVIYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPV  232 (369)
T ss_pred             CCEEEEECCCCCChHHHHHHHHhCC----CCCEEEEEEeCCChHHHHHHHHHHHhhccccccCCccceEEEEEECCCCCH
Confidence            4589999999999999999999842    23578888777664 35566666543211    10           00   


Q ss_pred             ---------HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHHHhC
Q 045113          251 ---------LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIREIL  283 (821)
Q Consensus       251 ---------~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~~~l  283 (821)
                               .-.+.+++  +++.+|+++|++..- +...++...+
T Consensus       233 ~~R~~s~yta~tiAEYfrd~G~dVll~~Ds~tR~A~A~REIs~~l  277 (369)
T cd01134         233 AAREASIYTGITIAEYFRDMGYNVALMADSTSRWAEALREISGRL  277 (369)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEcChhHHHHHHHHHHHhc
Confidence                     33444444  579999999999432 3444444433

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.

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=93.60  E-value=0.047  Score=51.82  Aligned_cols=28  Identities=11%  Similarity=0.211  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCccccccc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYF  220 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F  220 (821)
                      +-|.++||.|+||||+.+.+.+  ...-.|
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk--~L~~~F   30 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAK--ALNLPF   30 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHH--HcCCCc
Confidence            3478899999999999999987  444444

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=93.60  E-value=0.04  Score=55.58  Aligned_cols=21  Identities=19%  Similarity=0.208  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +|||.|..|+||||+|+.+..
T Consensus         1 IigI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHH
Confidence            589999999999999999987

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>TIGR00416 sms DNA repair protein RadA

Probab=93.59  E-value=0.33  Score=54.58  Aligned_cols=57  Identities=16%  Similarity=0.063  Sum_probs=38.8

Q ss_pred             chhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC
Q 045113          172 LDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY  230 (821)
Q Consensus       172 r~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~  230 (821)
                      ...-..++-+.|..+=..-.++.|.|.+|+|||||+..+...  ....=..++||+...
T Consensus        76 i~TGi~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~--~a~~g~kvlYvs~EE  132 (454)
T TIGR00416        76 FSSGFGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQ--LAKNQMKVLYVSGEE  132 (454)
T ss_pred             cccCcHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHH--HHhcCCcEEEEECcC
Confidence            344456666666665455789999999999999999888652  222213577876544

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=93.59  E-value=0.095  Score=52.98  Aligned_cols=64  Identities=14%  Similarity=0.047  Sum_probs=38.0

Q ss_pred             hHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHH
Q 045113          175 RMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQIL  238 (821)
Q Consensus       175 ~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~  238 (821)
                      ...++++.+.....+..+|||.|.||+||+||.-.+...-+-+++==.++=|+-|.+++=-.++
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlL   77 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALL   77 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCccc
Confidence            5566777776655568899999999999999988877622212222245555556666544433

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.

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=93.57  E-value=0.61  Score=51.56  Aligned_cols=106  Identities=10%  Similarity=0.041  Sum_probs=61.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCch--------h-----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS--------R-----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~--------~-----------  250 (821)
                      -..++|+|..|+|||||++.+....+.   ...++...-.+...+.+..+..+..-+...        +           
T Consensus       156 Gqri~I~G~sG~GKTtLl~~Ia~~~~~---~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra~~  232 (432)
T PRK06793        156 GQKIGIFAGSGVGKSTLLGMIAKNAKA---DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAAK  232 (432)
T ss_pred             CcEEEEECCCCCChHHHHHHHhccCCC---CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHHHH
Confidence            568899999999999999999874321   122333322333566666665554422210        1           


Q ss_pred             -HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHHHhC---CCCCCCcEEEEEecchh
Q 045113          251 -LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIREIL---PDNQNGSRVLITLAKID  300 (821)
Q Consensus       251 -~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~~~l---~~~~~gs~iiiTtr~~~  300 (821)
                       +-.+.+++  +++..||++||+-.. ....++...+   |.  .|.-..+.|....
T Consensus       233 ~a~~iAEyfr~~G~~VLlilDslTr~a~A~reisl~~~e~p~--~G~~~~~~s~l~~  287 (432)
T PRK06793        233 LATSIAEYFRDQGNNVLLMMDSVTRFADARRSVDIAVKELPI--GGKTLLMESYMKK  287 (432)
T ss_pred             HHHHHHHHHHHcCCcEEEEecchHHHHHHHHHHHHHhcCCCC--CCeeeeeeccchh
Confidence             33444444  479999999999654 3334443332   32  2444455444333

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=93.57  E-value=0.91  Score=53.14  Aligned_cols=127  Identities=17%  Similarity=0.206  Sum_probs=72.6

Q ss_pred             CCCCeeechhhHHHH---HHHHhcCC-------CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCH
Q 045113          165 KNRDTVGLDDRMEEL---LDLLIEGP-------PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYA  234 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i---~~~L~~~~-------~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~  234 (821)
                      .-.++.|-|+.+++|   +++|..++       .-.+=+-++|++|.|||-||+++.-...       +-|+++|.+   
T Consensus       309 ~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAg-------VPF~svSGS---  378 (774)
T KOG0731|consen  309 KFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAG-------VPFFSVSGS---  378 (774)
T ss_pred             ccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccC-------CceeeechH---
Confidence            345688877766665   55555431       2356678999999999999999998433       334454443   


Q ss_pred             HHHHHHHHHHhCCchh--HHHHHHHh-CCCcEEEEEecCCCH-----------------HHHHHHHHhCCCCCCCc--EE
Q 045113          235 DQILDIIIKFLMPSSR--LIILHEYL-MTKRYLIVIDDVWSI-----------------EVWDIIREILPDNQNGS--RV  292 (821)
Q Consensus       235 ~~~~~~i~~~l~~~~~--~~~l~~~l-~~kr~LlVlDdv~~~-----------------~~~~~l~~~l~~~~~gs--~i  292 (821)
                           +..+.+.....  ...+...- ...++.|.+|+++..                 ..++++...+.....++  -+
T Consensus       379 -----EFvE~~~g~~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~  453 (774)
T KOG0731|consen  379 -----EFVEMFVGVGASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIV  453 (774)
T ss_pred             -----HHHHHhcccchHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEE
Confidence                 11111111110  22233222 357789999987521                 23666666666444333  33


Q ss_pred             EEEecchhhh--cccc
Q 045113          293 LITLAKIDTV--TLFQ  306 (821)
Q Consensus       293 iiTtr~~~v~--~lf~  306 (821)
                      +-+|+..++.  .|++
T Consensus       454 ~a~tnr~d~ld~allr  469 (774)
T KOG0731|consen  454 LAATNRPDILDPALLR  469 (774)
T ss_pred             EeccCCccccCHHhcC
Confidence            4457777776  4444

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=93.57  E-value=0.05  Score=54.55  Aligned_cols=26  Identities=19%  Similarity=0.225  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .+..+|.++||+|.||||..|.++.+
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~h   42 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSH   42 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHH
Confidence            34678888999999999999999973

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=93.56  E-value=0.91  Score=49.13  Aligned_cols=94  Identities=17%  Similarity=0.087  Sum_probs=48.5

Q ss_pred             ceEEEEEcCCCChHHH-HHHHHhcCcccccccceeEEEEcCC-CCCHHHHHHHHHHHhCCch----hHHHHHHH---hCC
Q 045113          190 LSAVTILDSIGLDKTA-FAAEAYSGNYVKHYFDCHAWVQEPY-TCYADQILDIIIKFLMPSS----RLIILHEY---LMT  260 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTt-La~~v~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~----~~~~l~~~---l~~  260 (821)
                      -++|.+||+.|||||| ||+..+.-....++ ..+..++... .-...+=++.-++-++.+-    +.+.+.+.   +++
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~-~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~  281 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKK-KKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRD  281 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccC-cceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhc
Confidence            7899999999999995 77776652211222 2455555432 2223333344444444441    13333333   333


Q ss_pred             CcEEEEEecCCC----HHHHHHHHHhCCC
Q 045113          261 KRYLIVIDDVWS----IEVWDIIREILPD  285 (821)
Q Consensus       261 kr~LlVlDdv~~----~~~~~~l~~~l~~  285 (821)
                      . =+|.+|=+..    ....+++...+..
T Consensus       282 ~-d~ILVDTaGrs~~D~~~i~el~~~~~~  309 (407)
T COG1419         282 C-DVILVDTAGRSQYDKEKIEELKELIDV  309 (407)
T ss_pred             C-CEEEEeCCCCCccCHHHHHHHHHHHhc
Confidence            4 3555566642    2445555555543

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=93.55  E-value=0.05  Score=52.99  Aligned_cols=24  Identities=21%  Similarity=0.209  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ..+|+|-||=|+||||||+++.+.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~   27 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEH   27 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHH
Confidence            468999999999999999999983

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=93.54  E-value=0.085  Score=54.92  Aligned_cols=47  Identities=26%  Similarity=0.125  Sum_probs=37.9

Q ss_pred             HhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC
Q 045113          183 LIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT  231 (821)
Q Consensus       183 L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~  231 (821)
                      |..+=+.-+++.|+|.+|+|||++|.++..  +.......++||+....
T Consensus        16 l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~--~~~~~ge~vlyvs~~e~   62 (260)
T COG0467          16 LGGGLPRGSVVLITGPPGTGKTIFALQFLY--EGAREGEPVLYVSTEES   62 (260)
T ss_pred             hcCCCcCCcEEEEEcCCCCcHHHHHHHHHH--HHHhcCCcEEEEEecCC
Confidence            334445688999999999999999988777  45566889999987765

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=93.51  E-value=0.073  Score=52.97  Aligned_cols=109  Identities=15%  Similarity=0.080  Sum_probs=55.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCch-----------hHHHHHHHh
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS-----------RLIILHEYL  258 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~-----------~~~~l~~~l  258 (821)
                      ..++.|.|..|.||||+.+.+.-..-..   ...++|.+.. ..+ .+.+.|...+...+           +..++...+
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~~~~la---~~G~~vpa~~-~~l-~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~il  103 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALLAIMA---QIGCFVPAEY-ATL-PIFNRLLSRLSNDDSMERNLSTFASEMSETAYIL  103 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHH---HcCCCcchhh-cCc-cChhheeEecCCccccchhhhHHHHHHHHHHHHH
Confidence            4789999999999999988886421000   0111111100 000 11112222221111           012222222


Q ss_pred             --CCCcEEEEEecCCC---HHH----HHHHHHhCCCCCCCcEEEEEecchhhhccc
Q 045113          259 --MTKRYLIVIDDVWS---IEV----WDIIREILPDNQNGSRVLITLAKIDTVTLF  305 (821)
Q Consensus       259 --~~kr~LlVlDdv~~---~~~----~~~l~~~l~~~~~gs~iiiTtr~~~v~~lf  305 (821)
                        ..++-|+++|....   ..+    ...+...+..  .|+.+|+||-+..+++.+
T Consensus       104 ~~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~~~~i~~TH~~~l~~~~  157 (204)
T cd03282         104 DYADGDSLVLIDELGRGTSSADGFAISLAILECLIK--KESTVFFATHFRDIAAIL  157 (204)
T ss_pred             HhcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cCCEEEEECChHHHHHHh
Confidence              35788999999843   322    1222233322  278999999998887443

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

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=93.51  E-value=0.092  Score=55.63  Aligned_cols=47  Identities=15%  Similarity=0.315  Sum_probs=41.9

Q ss_pred             CCCeeechhhHHHHHHHHhcC----CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLIEG----PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~----~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...|+|.++.++++++.+...    +..-+|+-++|+.|.||||||..+.+
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            457999999999999999864    45689999999999999999999887

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=93.48  E-value=0.46  Score=44.65  Aligned_cols=21  Identities=14%  Similarity=0.104  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ||.|+|.+|+||||+|+.+..
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~   21 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEE   21 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            578999999999999999887

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=93.45  E-value=0.53  Score=52.88  Aligned_cols=23  Identities=17%  Similarity=0.245  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.|++++|..|+||||++..+..
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~  278 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAA  278 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHH
Confidence            36999999999999999988886

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=93.45  E-value=0.19  Score=55.96  Aligned_cols=92  Identities=16%  Similarity=0.129  Sum_probs=59.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccc--eeEEEEcCCCC-CHHHHHHHHHHHhCCch--------h--------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFD--CHAWVQEPYTC-YADQILDIIIKFLMPSS--------R--------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~--~~~wv~~s~~~-~~~~~~~~i~~~l~~~~--------~--------  250 (821)
                      -+.++|.|-.|+|||||+.++.+.....+.+.  .++++-+.+.. .+.++.+++...=....        +        
T Consensus       141 GQR~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~  220 (458)
T TIGR01041       141 GQKLPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIV  220 (458)
T ss_pred             CCEEEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHH
Confidence            46899999999999999999988543322221  56666666654 45667776664422211        1        


Q ss_pred             ----HHHHHHHhC---CCcEEEEEecCCCH-HHHHHHHH
Q 045113          251 ----LIILHEYLM---TKRYLIVIDDVWSI-EVWDIIRE  281 (821)
Q Consensus       251 ----~~~l~~~l~---~kr~LlVlDdv~~~-~~~~~l~~  281 (821)
                          +-.+.++++   ++++|+++||+-.. ..+.++..
T Consensus       221 a~~~a~tiAEyfr~d~G~~VLli~DslTR~A~A~REIsl  259 (458)
T TIGR01041       221 TPRMALTAAEYLAFEKDMHVLVILTDMTNYCEALREISA  259 (458)
T ss_pred             HHHHHHHHHHHHHHccCCcEEEEEcChhHHHHHHHHHHH
Confidence                444566664   68999999999543 34444443

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=93.44  E-value=1.4  Score=43.92  Aligned_cols=123  Identities=19%  Similarity=0.275  Sum_probs=75.4

Q ss_pred             Cee-echhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHH
Q 045113          168 DTV-GLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYAD  235 (821)
Q Consensus       168 ~~v-Gr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~  235 (821)
                      ++| |.|..+++|.+.+.-+           -.+.+=+-++|.+|.|||-||++|++       ...+.|+.||..   +
T Consensus       147 eMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVah-------ht~c~firvsgs---e  216 (404)
T KOG0728|consen  147 EMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAH-------HTDCTFIRVSGS---E  216 (404)
T ss_pred             HHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHh-------hcceEEEEechH---H
Confidence            344 5788888888877643           13567788999999999999999998       334556667654   2


Q ss_pred             HHHHHHHHHhCCchhHHHHHHHh----CCCcEEEEEecCCCH-------------HHH---HHHHHhCC--CCCCCcEEE
Q 045113          236 QILDIIIKFLMPSSRLIILHEYL----MTKRYLIVIDDVWSI-------------EVW---DIIREILP--DNQNGSRVL  293 (821)
Q Consensus       236 ~~~~~i~~~l~~~~~~~~l~~~l----~~kr~LlVlDdv~~~-------------~~~---~~l~~~l~--~~~~gs~ii  293 (821)
                      -+++-|.+      ....+++..    ..-+..|..|.+++.             +.-   -++...+.  ...+.-|||
T Consensus       217 lvqk~ige------gsrmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvi  290 (404)
T KOG0728|consen  217 LVQKYIGE------GSRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVI  290 (404)
T ss_pred             HHHHHhhh------hHHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEE
Confidence            22222221      122222222    346788999988631             111   12223333  234567999


Q ss_pred             EEecchhhh--cccc
Q 045113          294 ITLAKIDTV--TLFQ  306 (821)
Q Consensus       294 iTtr~~~v~--~lf~  306 (821)
                      ..|..-++.  .|+.
T Consensus       291 matnridild~allr  305 (404)
T KOG0728|consen  291 MATNRIDILDPALLR  305 (404)
T ss_pred             EeccccccccHhhcC
Confidence            999888877  4555

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=93.41  E-value=0.52  Score=54.73  Aligned_cols=24  Identities=21%  Similarity=0.144  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-..++|+|..|.|||||++.+..
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL~g  383 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLLTG  383 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            457999999999999999999975

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=93.40  E-value=0.17  Score=45.94  Aligned_cols=101  Identities=19%  Similarity=0.229  Sum_probs=56.5

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccHHHHhcccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLSFFNYLLN  566 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~  566 (821)
                      .+++|+.+.+...-.     .+....|..++.|+.+.+..+ +..++ ..+.++..|+++.+.. .+..++......+++
T Consensus        10 ~~~~l~~i~~~~~~~-----~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~   82 (129)
T PF13306_consen   10 NCSNLESITFPNTIK-----KIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTN   82 (129)
T ss_dssp             T-TT--EEEETST-------EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TT
T ss_pred             CCCCCCEEEECCCee-----EeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccccccccccc
Confidence            567888887754221     255677888888999998875 66555 3567777899999976 566666555535889


Q ss_pred             ceEEecCCcccccchh-hhccCccCceeecCC
Q 045113          567 LYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGS  597 (821)
Q Consensus       567 L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~  597 (821)
                      |+.+++..+ +..++. .+.++ +|+.+.+..
T Consensus        83 l~~i~~~~~-~~~i~~~~f~~~-~l~~i~~~~  112 (129)
T PF13306_consen   83 LKNIDIPSN-ITEIGSSSFSNC-NLKEINIPS  112 (129)
T ss_dssp             ECEEEETTT--BEEHTTTTTT--T--EEE-TT
T ss_pred             ccccccCcc-ccEEchhhhcCC-CceEEEECC
Confidence            999988664 555644 45555 788876654

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=93.38  E-value=0.059  Score=52.52  Aligned_cols=23  Identities=13%  Similarity=0.164  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .++.|+|+.|+|||||++.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999998773

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.

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=93.37  E-value=0.22  Score=55.07  Aligned_cols=91  Identities=11%  Similarity=0.140  Sum_probs=58.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHHhCCch--------h----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKFLMPSS--------R----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~--------~----------  250 (821)
                      -+.++|.|-.|+|||||+.++..... +++=..++++-+.+.. .+.++.+++...=....        +          
T Consensus       143 GQr~~If~~~G~GKt~L~~~~~~~~~-~~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~  221 (461)
T TIGR01039       143 GGKIGLFGGAGVGKTVLIQELINNIA-KEHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVA  221 (461)
T ss_pred             CCEEEeecCCCCChHHHHHHHHHHHH-hcCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence            56899999999999999999776311 1121367777776654 45677777754321110        1          


Q ss_pred             --HHHHHHHh---CCCcEEEEEecCCCH-HHHHHHHH
Q 045113          251 --LIILHEYL---MTKRYLIVIDDVWSI-EVWDIIRE  281 (821)
Q Consensus       251 --~~~l~~~l---~~kr~LlVlDdv~~~-~~~~~l~~  281 (821)
                        +-.+.+++   +++.+|+++||+-.- ..+.++..
T Consensus       222 ~~a~tiAEyfrd~~G~~VLll~DslTR~A~A~REisl  258 (461)
T TIGR01039       222 LTGLTMAEYFRDEQGQDVLLFIDNIFRFTQAGSEVSA  258 (461)
T ss_pred             HHHHHHHHHHHHhcCCeeEEEecchhHHHHHHHHHHH
Confidence              44555555   568999999999543 33444443

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=93.37  E-value=0.062  Score=51.97  Aligned_cols=23  Identities=9%  Similarity=0.144  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...|.++|++|+||||+|+.+..
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~   26 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAK   26 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHH
Confidence            45899999999999999999998

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=93.37  E-value=0.12  Score=53.11  Aligned_cols=64  Identities=16%  Similarity=0.029  Sum_probs=44.9

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHH
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILD  239 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~  239 (821)
                      -.+++..+....++..+|||.|.||+||+||.-.+.....-+++==.++=|+-|.+++--.++.
T Consensus        37 a~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLG  100 (323)
T COG1703          37 ARELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILG  100 (323)
T ss_pred             HHHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccc
Confidence            4566777766666788999999999999999887776333334434566667777776555443

>PRK11823 DNA repair protein RadA; Provisional

Probab=93.37  E-value=0.35  Score=54.31  Aligned_cols=54  Identities=19%  Similarity=0.076  Sum_probs=36.7

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT  231 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~  231 (821)
                      ..++-+.|..+=..-.++-|.|.+|+|||||+..+...  ....=..++|++....
T Consensus        66 i~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~--~a~~g~~vlYvs~Ees  119 (446)
T PRK11823         66 IGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAAR--LAAAGGKVLYVSGEES  119 (446)
T ss_pred             cHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEEcccc
Confidence            34555556555344679999999999999999888763  3222235778775543

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=93.36  E-value=0.068  Score=49.80  Aligned_cols=23  Identities=26%  Similarity=0.200  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+++.|+|.+|+||||+.+.+-.
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~   26 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALK   26 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHH
Confidence            68999999999999999888776

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=93.33  E-value=0.28  Score=54.61  Aligned_cols=81  Identities=12%  Similarity=0.064  Sum_probs=46.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHH--hCC-------chh---------
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKF--LMP-------SSR---------  250 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~--l~~-------~~~---------  250 (821)
                      .-.+++|+|..|+|||||++.+......   -..++++.--+.-++.++..+.+..  +..       .++         
T Consensus       157 ~Gq~i~I~G~sG~GKStLl~~I~~~~~~---~~gvI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~~~  233 (438)
T PRK07721        157 KGQRVGIFAGSGVGKSTLMGMIARNTSA---DLNVIALIGERGREVREFIERDLGPEGLKRSIVVVATSDQPALMRIKGA  233 (438)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcccCC---CeEEEEEEecCCccHHHHHHhhcChhhhcCeEEEEECCCCCHHHHHHHH
Confidence            3579999999999999999998873221   1233443322333344443321111  100       000         


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCC
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                        +-.+.+++  +++.+|+++||+-.
T Consensus       234 ~~a~~iAEyfr~~g~~Vll~~Dsltr  259 (438)
T PRK07721        234 YTATAIAEYFRDQGLNVMLMMDSVTR  259 (438)
T ss_pred             HHHHHHHHHHHHCCCcEEEEEeChHH
Confidence              33444454  57999999999954

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=93.33  E-value=0.062  Score=50.55  Aligned_cols=20  Identities=20%  Similarity=0.225  Sum_probs=18.6

Q ss_pred             EEEEEcCCCChHHHHHHHHh
Q 045113          192 AVTILDSIGLDKTAFAAEAY  211 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~  211 (821)
                      .|+|.|.||+||||+++.+-
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999887

>PLN02318 phosphoribulokinase/uridine kinase

Probab=93.32  E-value=0.097  Score=59.27  Aligned_cols=33  Identities=21%  Similarity=0.288  Sum_probs=27.4

Q ss_pred             HHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          180 LDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       180 ~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+.+....++..+|+|.|..|+||||||+.+..
T Consensus        55 ~qlL~~~~~~riIIGIaGpSGSGKTTLAk~Lag   87 (656)
T PLN02318         55 CQLLAQKNDGIILVGVAGPSGAGKTVFTEKVLN   87 (656)
T ss_pred             HHHHHhcCCCeEEEEEECCCCCcHHHHHHHHHh
Confidence            444554555689999999999999999999987

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.31  E-value=1.1  Score=49.13  Aligned_cols=117  Identities=12%  Similarity=0.057  Sum_probs=60.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccc--cccceeEEEEcCCCCCH--HHHHHHHHHHhCCch----hHHHHHHHhC-
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVK--HYFDCHAWVQEPYTCYA--DQILDIIIKFLMPSS----RLIILHEYLM-  259 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~--~~F~~~~wv~~s~~~~~--~~~~~~i~~~l~~~~----~~~~l~~~l~-  259 (821)
                      ..++|.++|..|+||||.+..+.......  .+=..+..+++. ++..  .+-++..++.++.+-    ....+.+.+. 
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            35799999999999999887777522211  111234445544 3332  223555566555441    1233333221 


Q ss_pred             -CCcEEEEEecCCC----HHHHHHHHHhCCCCCCC-cEEEE---Eecchhhhcccc
Q 045113          260 -TKRYLIVIDDVWS----IEVWDIIREILPDNQNG-SRVLI---TLAKIDTVTLFQ  306 (821)
Q Consensus       260 -~kr~LlVlDdv~~----~~~~~~l~~~l~~~~~g-s~iii---Ttr~~~v~~lf~  306 (821)
                       ...-+|++|-...    ...+.++...+...... -.++|   ||...++.+.|.
T Consensus       252 ~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~  307 (388)
T PRK12723        252 SKDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFH  307 (388)
T ss_pred             hCCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHH
Confidence             3456888888853    22445555544432222 23333   344444445555

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=93.30  E-value=0.26  Score=54.31  Aligned_cols=88  Identities=13%  Similarity=0.025  Sum_probs=53.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHHhCCc--------hh----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKFLMPS--------SR----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~----------  250 (821)
                      -..++|+|..|+|||||++.+.+...    -+..+.+.+.... .+.++.+.....-...        .+          
T Consensus       137 Gq~~~I~G~sG~GKTtLl~~I~~~~~----~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~  212 (411)
T TIGR03496       137 GQRMGIFAGSGVGKSTLLGMMARYTE----ADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAA  212 (411)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCCC----CCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHH
Confidence            46899999999999999999887322    2334445555543 3555555544432111        01          


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHHH
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIRE  281 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~~  281 (821)
                        +-.+.+++  +++++|+++||+-.- ....++..
T Consensus       213 ~~a~tiAEyfr~~G~~Vll~~Dsltr~A~A~REisl  248 (411)
T TIGR03496       213 FYATAIAEYFRDQGKDVLLLMDSLTRFAMAQREIAL  248 (411)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEeChHHHHHHHHHHHH
Confidence              33344444  589999999999543 33444433

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.

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=93.30  E-value=0.57  Score=47.43  Aligned_cols=24  Identities=17%  Similarity=0.099  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|.|||||++.+...
T Consensus         6 Ge~~~l~G~nGsGKSTLl~~l~G~   29 (223)
T TIGR03771         6 GELLGLLGPNGAGKTTLLRAILGL   29 (223)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999864

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=93.29  E-value=0.53  Score=48.72  Aligned_cols=24  Identities=8%  Similarity=0.044  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|.|||||.+.+.--
T Consensus        26 Ge~~~IvG~nGsGKSTLlk~l~Gl   49 (255)
T cd03236          26 GQVLGLVGPNGIGKSTALKILAGK   49 (255)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            459999999999999999999863

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI s are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLIs 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.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=93.28  E-value=0.41  Score=45.85  Aligned_cols=25  Identities=8%  Similarity=0.157  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGN  214 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~  214 (821)
                      -..+.|.|+.|+||+||+++++.+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4678999999999999999999853

>PRK13947 shikimate kinase; Provisional

Probab=93.25  E-value=0.058  Score=52.12  Aligned_cols=21  Identities=14%  Similarity=0.317  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -|.|+|++|+||||+|+.+.+
T Consensus         3 ~I~l~G~~GsGKst~a~~La~   23 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVAT   23 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            488999999999999999988

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=93.23  E-value=0.1  Score=55.41  Aligned_cols=49  Identities=16%  Similarity=0.058  Sum_probs=34.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDI  240 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~  240 (821)
                      .+++-+.|.|||||||+|.+..-  ........++-|++....++.+++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~--~lA~~g~kvLlvStDPAhsL~d~f~~   50 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAV--KLAESGKKVLLVSTDPAHSLGDVFDL   50 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHH--HHHHcCCcEEEEEeCCCCchHhhhcc
Confidence            47899999999999999988554  23333345677776666666665543

>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=93.23  E-value=0.055  Score=52.71  Aligned_cols=21  Identities=33%  Similarity=0.363  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +|+|.|.+|+||||||+.+..
T Consensus         1 ii~i~G~sgsGKttla~~l~~   21 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSN   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999987

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PF14516 AAA_35: AAA-like domain

Probab=93.23  E-value=2.2  Score=46.11  Aligned_cols=103  Identities=13%  Similarity=0.120  Sum_probs=66.8

Q ss_pred             CCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC----C-CCHH----
Q 045113          165 KNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY----T-CYAD----  235 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~----~-~~~~----  235 (821)
                      +.+-.|.|...-+++.+.|..+.   ..+.|.|.-.+|||+|...+.+..+- ..|. +++++...    . .+..    
T Consensus         9 ~~~~Yi~R~~~e~~~~~~i~~~G---~~~~I~apRq~GKTSll~~l~~~l~~-~~~~-~v~id~~~~~~~~~~~~~~f~~   83 (331)
T PF14516_consen    9 DSPFYIERPPAEQECYQEIVQPG---SYIRIKAPRQMGKTSLLLRLLERLQQ-QGYR-CVYIDLQQLGSAIFSDLEQFLR   83 (331)
T ss_pred             CCCcccCchHHHHHHHHHHhcCC---CEEEEECcccCCHHHHHHHHHHHHHH-CCCE-EEEEEeecCCCcccCCHHHHHH
Confidence            34456788877777888887642   48999999999999999998873222 2343 44666543    1 2344    


Q ss_pred             HHHHHHHHHhCCchh---------------HHHHHHHh---CCCcEEEEEecCCC
Q 045113          236 QILDIIIKFLMPSSR---------------LIILHEYL---MTKRYLIVIDDVWS  272 (821)
Q Consensus       236 ~~~~~i~~~l~~~~~---------------~~~l~~~l---~~kr~LlVlDdv~~  272 (821)
                      .+...|.+++.....               ..-+.+.+   .+++.+|+||+|+.
T Consensus        84 ~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~  138 (331)
T PF14516_consen   84 WFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDR  138 (331)
T ss_pred             HHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhh
Confidence            455566666665421               22333332   26899999999974

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=93.20  E-value=0.28  Score=58.06  Aligned_cols=88  Identities=20%  Similarity=0.085  Sum_probs=57.2

Q ss_pred             HHHHHHHh-cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh-----
Q 045113          177 EELLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR-----  250 (821)
Q Consensus       177 ~~i~~~L~-~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~-----  250 (821)
                      ..+-++|. .+=+.-+++-|+|.+|+||||||..+...  ....=..++|+.....++.     ..+++++...+     
T Consensus        46 ~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~--a~~~G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~  118 (790)
T PRK09519         46 IALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVAN--AQAAGGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVS  118 (790)
T ss_pred             HHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchhH-----HHHHHcCCChhHeEEe
Confidence            34445565 44455789999999999999999776542  2222256789988877774     25666665422     


Q ss_pred             --------HHHHHHHhC-CCcEEEEEecCC
Q 045113          251 --------LIILHEYLM-TKRYLIVIDDVW  271 (821)
Q Consensus       251 --------~~~l~~~l~-~kr~LlVlDdv~  271 (821)
                              ...+...++ ++--|||+|.+-
T Consensus       119 ~~~~~E~~l~~i~~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        119 QPDTGEQALEIADMLIRSGALDIVVIDSVA  148 (790)
T ss_pred             cCCCHHHHHHHHHHHhhcCCCeEEEEcchh
Confidence                    333444443 356689999985

>PRK00889 adenylylsulfate kinase; Provisional

Probab=93.14  E-value=0.078  Score=51.49  Aligned_cols=23  Identities=22%  Similarity=0.037  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|.|+|.+|+||||+|+.+..
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~   26 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAE   26 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            56999999999999999999987

>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=93.13  E-value=0.15  Score=47.26  Aligned_cols=84  Identities=15%  Similarity=0.107  Sum_probs=47.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh--HHHHHHHhCCCcEEEEEecC
Q 045113          193 VTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR--LIILHEYLMTKRYLIVIDDV  270 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~--~~~l~~~l~~kr~LlVlDdv  270 (821)
                      |-++|.+|+|||+||+.++.  ....   ...-+.++...+..++....--. .....  ...+.+.+ .+..++|||++
T Consensus         2 vlL~G~~G~GKt~l~~~la~--~~~~---~~~~i~~~~~~~~~dl~g~~~~~-~~~~~~~~~~l~~a~-~~~~il~lDEi   74 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAA--LLGR---PVIRINCSSDTTEEDLIGSYDPS-NGQFEFKDGPLVRAM-RKGGILVLDEI   74 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHH--HHTC---EEEEEE-TTTSTHHHHHCEEET--TTTTCEEE-CCCTTH-HEEEEEEESSC
T ss_pred             EEEECCCCCCHHHHHHHHHH--Hhhc---ceEEEEeccccccccceeeeeec-ccccccccccccccc-cceeEEEECCc
Confidence            57899999999999999997  3321   22335677777777665432221 11100  00000000 18899999999


Q ss_pred             CC--HHHHHHHHHhC
Q 045113          271 WS--IEVWDIIREIL  283 (821)
Q Consensus       271 ~~--~~~~~~l~~~l  283 (821)
                      ..  ..-++.+...+
T Consensus        75 n~a~~~v~~~L~~ll   89 (139)
T PF07728_consen   75 NRAPPEVLESLLSLL   89 (139)
T ss_dssp             GG--HHHHHTTHHHH
T ss_pred             ccCCHHHHHHHHHHH
Confidence            74  34444444443

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.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=93.12  E-value=0.13  Score=50.96  Aligned_cols=43  Identities=16%  Similarity=0.129  Sum_probs=28.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCcccccc-cceeEEEEcCCCCCHHH
Q 045113          192 AVTILDSIGLDKTAFAAEAYSGNYVKHY-FDCHAWVQEPYTCYADQ  236 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~~~~~~~-F~~~~wv~~s~~~~~~~  236 (821)
                      .|+|+|-||+||||+|..+... -.+.+ |+ +.=|+...++++..
T Consensus         2 kIaI~GKGG~GKTtiaalll~~-l~~~~~~~-VLvVDaDpd~nL~~   45 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKR-LLSKGGYN-VLVVDADPDSNLPE   45 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHH-HHhcCCce-EEEEeCCCCCChHH
Confidence            6899999999999999885441 12222 32 44456666665543

>TIGR00959 ffh signal recognition particle protein

Probab=93.11  E-value=0.7  Score=51.34  Aligned_cols=24  Identities=13%  Similarity=0.098  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...++.++|.+|+||||.|..+..
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~  121 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAY  121 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHH
Confidence            367999999999999999877765

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.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=93.11  E-value=0.36  Score=49.34  Aligned_cols=55  Identities=13%  Similarity=0.219  Sum_probs=35.0

Q ss_pred             HHHHHHHhCCCcEEEEEecCCCHHH----HH--HHHHhCCCCCCCcEEEEEecchhhhcccc
Q 045113          251 LIILHEYLMTKRYLIVIDDVWSIEV----WD--IIREILPDNQNGSRVLITLAKIDTVTLFQ  306 (821)
Q Consensus       251 ~~~l~~~l~~kr~LlVlDdv~~~~~----~~--~l~~~l~~~~~gs~iiiTtr~~~v~~lf~  306 (821)
                      .-.+.+.|.++.=+|+||.--+.-|    .+  ++...+. ...|.-||+++.+-+.|--|+
T Consensus       146 rv~iArALaQ~~~iLLLDEPTs~LDi~~Q~evl~ll~~l~-~~~~~tvv~vlHDlN~A~rya  206 (258)
T COG1120         146 RVLIARALAQETPILLLDEPTSHLDIAHQIEVLELLRDLN-REKGLTVVMVLHDLNLAARYA  206 (258)
T ss_pred             HHHHHHHHhcCCCEEEeCCCccccCHHHHHHHHHHHHHHH-HhcCCEEEEEecCHHHHHHhC
Confidence            4566677888888999999754321    11  1222222 234678999999998884443

>PRK13949 shikimate kinase; Provisional

Probab=93.10  E-value=0.072  Score=51.34  Aligned_cols=22  Identities=14%  Similarity=0.259  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +-|.|+|++|+||||+++.+.+
T Consensus         2 ~~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999997

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=93.08  E-value=0.087  Score=50.54  Aligned_cols=24  Identities=17%  Similarity=0.177  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+++|+|..|+|||||++.+..
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~   28 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIP   28 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHH
Confidence            467999999999999999999987

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=93.08  E-value=0.1  Score=49.02  Aligned_cols=36  Identities=11%  Similarity=-0.174  Sum_probs=26.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEE
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQ  227 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~  227 (821)
                      ..||=+.|.+|+||||||+++..  +....-..+.++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~--~L~~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALER--RLFARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHH--HHHHTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH--HHHHcCCcEEEec
Confidence            35888999999999999999998  5554444555553

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 ....

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=93.07  E-value=0.58  Score=46.73  Aligned_cols=23  Identities=13%  Similarity=0.248  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|.|..|.|||||++.+..
T Consensus        34 G~~~~i~G~nGsGKSTLl~~l~G   56 (207)
T cd03369          34 GEKIGIVGRTGAGKSTLILALFR   56 (207)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999975

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.

>TIGR03263 guanyl_kin guanylate kinase

Probab=93.06  E-value=0.074  Score=51.85  Aligned_cols=22  Identities=14%  Similarity=0.228  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++|.|+|..|+||||||+.+..
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~   23 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLE   23 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHc
Confidence            5799999999999999999998

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.

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.04  E-value=0.0082  Score=57.62  Aligned_cols=83  Identities=17%  Similarity=0.142  Sum_probs=38.5

Q ss_pred             cceEEEecccCCCCCcccccCCCCCCEEEEeccccCC-CeeeecCCCCcccceeeeccCCCccce-eeccccccccceeE
Q 045113          690 LTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG-RKLTCGSDGFPRLKVLHLKSMLWLEEW-TMGTGAMPKLECLI  767 (821)
Q Consensus       690 L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~-~~~~~~~~~~~~L~~L~L~~~~~l~~~-~~~~~~l~~L~~L~  767 (821)
                      ++.++-+++.+....+.-+.+++.++.|.+.+|..-+ ..+....+.+++|+.|+|++|+.+++- ...+..+++|+.|.
T Consensus       103 IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~  182 (221)
T KOG3864|consen  103 IEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLH  182 (221)
T ss_pred             EEEEecCCchHHHHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHHHH
Confidence            3444555555544445555555555555555443221 122222234555555555555555432 11234455555555


Q ss_pred             EeecC
Q 045113          768 INPCA  772 (821)
Q Consensus       768 i~~c~  772 (821)
                      |.+-+
T Consensus       183 l~~l~  187 (221)
T KOG3864|consen  183 LYDLP  187 (221)
T ss_pred             hcCch
Confidence            55433

>PTZ00494 tuzin-like protein; Provisional

Probab=93.01  E-value=2.9  Score=45.64  Aligned_cols=80  Identities=16%  Similarity=0.067  Sum_probs=58.7

Q ss_pred             CCCCCCCCeeechhhHHHHHHHHhcC-CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHH
Q 045113          161 SLSFKNRDTVGLDDRMEELLDLLIEG-PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILD  239 (821)
Q Consensus       161 ~~~~~~~~~vGr~~~~~~i~~~L~~~-~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~  239 (821)
                      ........+|.|+.+-..+-..|..- ....+++.+.|.-|.||++|.+.....+.+-     .++|.|-..   ++-++
T Consensus       365 ~a~a~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE~~p-----aV~VDVRg~---EDtLr  436 (664)
T PTZ00494        365 LAAAAEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVEGVA-----LVHVDVGGT---EDTLR  436 (664)
T ss_pred             ccccccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHcCCC-----eEEEEecCC---cchHH
Confidence            33455677899998888877777664 3458999999999999999999887643333     456766544   45567


Q ss_pred             HHHHHhCCc
Q 045113          240 IIIKFLMPS  248 (821)
Q Consensus       240 ~i~~~l~~~  248 (821)
                      .|.+.++-+
T Consensus       437 sVVKALgV~  445 (664)
T PTZ00494        437 SVVRALGVS  445 (664)
T ss_pred             HHHHHhCCC
Confidence            777887765

>PHA02774 E1; Provisional

Probab=93.01  E-value=0.3  Score=55.24  Aligned_cols=51  Identities=20%  Similarity=0.238  Sum_probs=33.8

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC
Q 045113          177 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC  232 (821)
Q Consensus       177 ~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~  232 (821)
                      ..+..+| .+.+.-..+.|+|.+|.|||.+|..+.+-  ..  -..+.||.....|
T Consensus       422 ~~lk~~l-~~~PKknciv~~GPP~TGKS~fa~sL~~~--L~--G~vi~fvN~~s~F  472 (613)
T PHA02774        422 TALKDFL-KGIPKKNCLVIYGPPDTGKSMFCMSLIKF--LK--GKVISFVNSKSHF  472 (613)
T ss_pred             HHHHHHH-hcCCcccEEEEECCCCCCHHHHHHHHHHH--hC--CCEEEEEECcccc
Confidence            4444444 34445678999999999999999999982  22  2235566654333

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=93.00  E-value=0.064  Score=50.20  Aligned_cols=21  Identities=19%  Similarity=0.137  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +|.|.|.+|+||||+|+.+..
T Consensus         1 ~I~i~G~~GsGKst~a~~la~   21 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAK   21 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999987

>PRK05439 pantothenate kinase; Provisional

Probab=92.99  E-value=0.14  Score=54.03  Aligned_cols=26  Identities=15%  Similarity=0.063  Sum_probs=23.0

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          187 PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       187 ~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ....-+|||.|.+|+||||+|+.+..
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~  108 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQA  108 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34578999999999999999998876

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=92.98  E-value=0.46  Score=52.67  Aligned_cols=51  Identities=18%  Similarity=0.092  Sum_probs=33.6

Q ss_pred             HHHHHHHhCCCcEEEEEecCCCHHH---HHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          251 LIILHEYLMTKRYLIVIDDVWSIEV---WDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       251 ~~~l~~~l~~kr~LlVlDdv~~~~~---~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      ...|.+.|=.++.|+.||+-.+.-+   ...+-..+.....+ .++|++|+++-.
T Consensus       229 R~aLAr~Lf~kP~LLLLDEPtnhLDleA~~wLee~L~k~d~~-~lVi~sh~QDfl  282 (614)
T KOG0927|consen  229 RAALARALFQKPDLLLLDEPTNHLDLEAIVWLEEYLAKYDRI-ILVIVSHSQDFL  282 (614)
T ss_pred             HHHHHHHHhcCCCEEEecCCccCCCHHHHHHHHHHHHhccCc-eEEEEecchhhh
Confidence            4556666677899999999875433   22334444433333 799999998765

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=92.94  E-value=0.062  Score=47.38  Aligned_cols=20  Identities=25%  Similarity=0.345  Sum_probs=18.0

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045113          193 VTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~  212 (821)
                      |-|+|.+|+|||++|+.+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~   20 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAK   20 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999887

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

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=92.94  E-value=0.066  Score=50.45  Aligned_cols=22  Identities=9%  Similarity=0.175  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      +|.++|.+|+||||+|+.+.+.
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            4678999999999999999873

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>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=92.93  E-value=0.16  Score=52.78  Aligned_cols=22  Identities=18%  Similarity=0.001  Sum_probs=17.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..|.|+|.||+||||+|+.+..
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~   23 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKK   23 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHH
Confidence            4688999999999999999987

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=92.90  E-value=0.45  Score=54.35  Aligned_cols=131  Identities=18%  Similarity=0.197  Sum_probs=72.4

Q ss_pred             CCCCCeeechhhHHH---HHHHHhcCC-------CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC
Q 045113          164 FKNRDTVGLDDRMEE---LLDLLIEGP-------PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY  233 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~---i~~~L~~~~-------~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~  233 (821)
                      +...++-|.|+.+++   ++++|.++.       .=.+=+..+|.+|.|||.||+++.....+-  |     .+.|.+--
T Consensus       147 v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VP--F-----f~iSGS~F  219 (596)
T COG0465         147 VTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP--F-----FSISGSDF  219 (596)
T ss_pred             cChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCC--c-----eeccchhh
Confidence            445678898776665   566666542       225667889999999999999999954443  2     11111100


Q ss_pred             HHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH------------H----HHHHHHHhCCCCC--CCcEEEEE
Q 045113          234 ADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI------------E----VWDIIREILPDNQ--NGSRVLIT  295 (821)
Q Consensus       234 ~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~------------~----~~~~l~~~l~~~~--~gs~iiiT  295 (821)
                      +     +|.-.++...-.+...+..++-++.|++|.++..            +    .++++........  .|--|+..
T Consensus       220 V-----emfVGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gviviaa  294 (596)
T COG0465         220 V-----EMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAA  294 (596)
T ss_pred             h-----hhhcCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEEec
Confidence            0     0011111000022333445567899999998621            2    3444544444333  34445555


Q ss_pred             ecchhhh--cccc
Q 045113          296 LAKIDTV--TLFQ  306 (821)
Q Consensus       296 tr~~~v~--~lf~  306 (821)
                      |-..+|.  .|++
T Consensus       295 TNRpdVlD~ALlR  307 (596)
T COG0465         295 TNRPDVLDPALLR  307 (596)
T ss_pred             CCCcccchHhhcC
Confidence            7777777  4444

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=92.87  E-value=0.12  Score=50.48  Aligned_cols=37  Identities=11%  Similarity=0.089  Sum_probs=30.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQE  228 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~  228 (821)
                      .++|.|+|..|+|||||++++..  .....|...++.+-
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~--~~~~~~~~~v~~TT   38 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQ--EFPDKFGRVVSHTT   38 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHH--HSTTTEEEEEEEES
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH--hcccccccceeecc
Confidence            47899999999999999999998  66677866666553

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>PRK00279 adk adenylate kinase; Reviewed

Probab=92.87  E-value=0.16  Score=51.19  Aligned_cols=21  Identities=19%  Similarity=0.101  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|.|+|++|+||||+|+.+..
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~   22 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAE   22 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999886

>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=92.86  E-value=0.11  Score=50.11  Aligned_cols=40  Identities=13%  Similarity=-0.036  Sum_probs=29.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccc-cccceeEEEEcCCC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVK-HYFDCHAWVQEPYT  231 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~-~~F~~~~wv~~s~~  231 (821)
                      ..++-+.|..|+|||.||+.+.+  .+. +.....+-+..+.-
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~--~l~~~~~~~~~~~d~s~~   43 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAE--LLFVGSERPLIRIDMSEY   43 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHH--HHT-SSCCEEEEEEGGGH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHH--HhccCCccchHHHhhhcc
Confidence            56788999999999999999987  444 44445555555543

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 ....

>PRK12678 transcription termination factor Rho; Provisional

Probab=92.85  E-value=0.19  Score=56.52  Aligned_cols=81  Identities=12%  Similarity=0.058  Sum_probs=47.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccccc-ccceeEE-EEcCCCCC-HHHHHHHHHHHh-----CCchh--------HHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKH-YFDCHAW-VQEPYTCY-ADQILDIIIKFL-----MPSSR--------LII  253 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~-~F~~~~w-v~~s~~~~-~~~~~~~i~~~l-----~~~~~--------~~~  253 (821)
                      -...+|+|.+|+|||||++.|.+  .+.. +=++.++ +-|.+.+. +.++.+.+-..+     ..+..        +-.
T Consensus       416 GQR~LIvgpp~aGKTtLL~~IAn--~i~~n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~~~~~a~~ai~  493 (672)
T PRK12678        416 GQRGLIVSPPKAGKTTILQNIAN--AITTNNPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDHTTVAELAIE  493 (672)
T ss_pred             CCEeEEeCCCCCCHHHHHHHHHH--HHhhcCCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHHHHHHHHHHHH
Confidence            46789999999999999999998  3432 2233333 33444432 334433330000     00000        334


Q ss_pred             HHHHh--CCCcEEEEEecCCC
Q 045113          254 LHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       254 l~~~l--~~kr~LlVlDdv~~  272 (821)
                      +.+++  +++.+||++|++..
T Consensus       494 ~Ae~fre~G~dVlillDSlTR  514 (672)
T PRK12678        494 RAKRLVELGKDVVVLLDSITR  514 (672)
T ss_pred             HHHHHHHcCCCEEEEEeCchH
Confidence            44555  68999999999954

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=92.85  E-value=4  Score=45.31  Aligned_cols=23  Identities=22%  Similarity=0.196  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|.||||||+.+.-
T Consensus       362 G~~lgIIGPSgSGKSTLaR~lvG  384 (580)
T COG4618         362 GEALGIIGPSGSGKSTLARLLVG  384 (580)
T ss_pred             CceEEEECCCCccHHHHHHHHHc
Confidence            35899999999999999999864

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=92.81  E-value=0.19  Score=52.23  Aligned_cols=25  Identities=20%  Similarity=0.256  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+..+|.|+|.+|+|||||+..+.+
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~  126 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLM  126 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999999988

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=92.81  E-value=0.078  Score=51.49  Aligned_cols=23  Identities=13%  Similarity=0.059  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ++|.+.|++|+||||+|+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999873

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=92.80  E-value=0.31  Score=56.13  Aligned_cols=47  Identities=13%  Similarity=0.089  Sum_probs=37.7

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -..++|....+.++++.+..-...-..|-|+|..|+||+++|+++..
T Consensus       203 f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~  249 (520)
T PRK10820        203 FSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHL  249 (520)
T ss_pred             ccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHH
Confidence            34799999999999888864322244578999999999999999876

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=92.78  E-value=0.48  Score=52.64  Aligned_cols=79  Identities=14%  Similarity=0.136  Sum_probs=47.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC-CCCHHHHHHHHHHHhCCch--------h----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY-TCYADQILDIIIKFLMPSS--------R----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~--------~----------  250 (821)
                      -..++|+|..|+|||||.+.+....  .  -+..+.+.+.. ...+.+..++.........        +          
T Consensus       145 Gq~~~I~G~sG~GKStLl~~I~~~~--~--~~~~vi~~iG~~~~ev~~~~~~~~~~~~~~~tvvv~~~s~~p~~~r~~~~  220 (422)
T TIGR02546       145 GQRIGIFAGAGVGKSTLLGMIARGA--S--ADVNVIALIGERGREVREFIEHHLGEEGRKRSVLVVSTSDRPSLERLKAA  220 (422)
T ss_pred             CCEEEEECCCCCChHHHHHHHhCCC--C--CCEEEEEEEccCCcCHHHHHHHHhccccccceEEEeccccCCHHHHHHHH
Confidence            5688999999999999999999732  2  22333333333 3445555544433221110        0          


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCC
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                        +..+.+++  +++++|+++|++-.
T Consensus       221 ~~a~~~AE~f~~~g~~Vl~~~Dsltr  246 (422)
T TIGR02546       221 YTATAIAEYFRDQGKRVLLMMDSLTR  246 (422)
T ss_pred             HHHHHHHHHHHHCCCcEEEEEeCchH
Confidence              22334444  47899999999954

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=92.75  E-value=0.088  Score=47.19  Aligned_cols=22  Identities=23%  Similarity=0.478  Sum_probs=19.8

Q ss_pred             EEEEcCCCChHHHHHHHHhcCc
Q 045113          193 VTILDSIGLDKTAFAAEAYSGN  214 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~~  214 (821)
                      |.|+|..|+|||||.+.+...+
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            7899999999999999998654

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.

>PRK14738 gmk guanylate kinase; Provisional

Probab=92.75  E-value=0.098  Score=52.29  Aligned_cols=30  Identities=27%  Similarity=0.292  Sum_probs=24.9

Q ss_pred             HhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          183 LIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       183 L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +..+....+.|.|+|.+|+|||||++.+.+
T Consensus         6 ~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~   35 (206)
T PRK14738          6 LFNKPAKPLLVVISGPSGVGKDAVLARMRE   35 (206)
T ss_pred             ccCCCCCCeEEEEECcCCCCHHHHHHHHHh
Confidence            334445678999999999999999999976

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=92.71  E-value=0.51  Score=52.61  Aligned_cols=88  Identities=16%  Similarity=0.091  Sum_probs=55.2

Q ss_pred             ceEEEEEcCCCChHHHHH-HHHhcCccccccccee-EEEEcCCCC-CHHHHHHHHHHHhCCch---------h-------
Q 045113          190 LSAVTILDSIGLDKTAFA-AEAYSGNYVKHYFDCH-AWVQEPYTC-YADQILDIIIKFLMPSS---------R-------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa-~~v~~~~~~~~~F~~~-~wv~~s~~~-~~~~~~~~i~~~l~~~~---------~-------  250 (821)
                      -+.++|.|-.|+|||||| ..+.+.    ..-+.+ +++-+.+.. .+.++.+.+...=....         +       
T Consensus       141 GQR~~I~g~~g~GKt~Lal~~I~~q----~~~dv~cV~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atad~~~~~r~~  216 (485)
T CHL00059        141 GQRELIIGDRQTGKTAVATDTILNQ----KGQNVICVYVAIGQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQYL  216 (485)
T ss_pred             CCEEEeecCCCCCHHHHHHHHHHhc----ccCCeEEEEEEecCCchHHHHHHHHhhcccchhceEEEEeCCCCCHHHHHH
Confidence            568999999999999995 556652    123444 777776654 45666666655322210         0       


Q ss_pred             ----HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHHH
Q 045113          251 ----LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIRE  281 (821)
Q Consensus       251 ----~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~~  281 (821)
                          +-.+.+++  +++.+|+|+||+... ..+.++.-
T Consensus       217 ap~~a~aiAEyfr~~G~~VLlv~DdlTr~A~A~REisl  254 (485)
T CHL00059        217 APYTGAALAEYFMYRGRHTLIIYDDLSKQAQAYRQMSL  254 (485)
T ss_pred             HHHHHhhHHHHHHHcCCCEEEEEcChhHHHHHHHHHHH
Confidence                23344444  579999999999653 44555543

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=92.71  E-value=0.091  Score=48.65  Aligned_cols=22  Identities=9%  Similarity=0.215  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .|.|+|..|+|||||++.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhc
Confidence            3789999999999999999983

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.

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=92.69  E-value=3.1  Score=44.34  Aligned_cols=156  Identities=10%  Similarity=-0.006  Sum_probs=83.0

Q ss_pred             hhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC-----ccc-------------ccccceeEEEEcC---CCC
Q 045113          174 DRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG-----NYV-------------KHYFDCHAWVQEP---YTC  232 (821)
Q Consensus       174 ~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~-----~~~-------------~~~F~~~~wv~~s---~~~  232 (821)
                      ...+++...+..+. -...+-+.|..|+||+++|..+..-     +..             .+......|+.-.   +..
T Consensus        10 ~~~~~l~~~~~~~r-l~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I   88 (319)
T PRK06090         10 PVWQNWKAGLDAGR-IPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSI   88 (319)
T ss_pred             HHHHHHHHHHHcCC-cceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcC
Confidence            34455555554432 3558889999999999999877541     100             0111223333321   122


Q ss_pred             CHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecchh-hh-------
Q 045113          233 YADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKID-TV-------  302 (821)
Q Consensus       233 ~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~~-v~-------  302 (821)
                      .++++ +++.+.+...        -..+.+=.+|+|++...  ...+.+...+.....++.+|++|.+.+ +.       
T Consensus        89 ~vdqi-R~l~~~~~~~--------~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRC  159 (319)
T PRK06090         89 TVEQI-RQCNRLAQES--------SQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRC  159 (319)
T ss_pred             CHHHH-HHHHHHHhhC--------cccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcc
Confidence            33333 1222111110        01244558889999754  678888888887777787777766654 33       


Q ss_pred             cccccccCCc--CC----CCccchHHHHHHHcCCchHHHHHhh
Q 045113          303 TLFQFENGQN--IR----LDLVPTGGPLRVTYQGWPFHILYHG  339 (821)
Q Consensus       303 ~lf~~~~~~~--~~----~~~~~~~~~i~~~c~glPLai~~~g  339 (821)
                      ..+.|.....  ..    ..-.+.+..++..++|.|+.+..+.
T Consensus       160 q~~~~~~~~~~~~~~~L~~~~~~~~~~~l~l~~G~p~~A~~~~  202 (319)
T PRK06090        160 QQWVVTPPSTAQAMQWLKGQGITVPAYALKLNMGSPLKTLAMM  202 (319)
T ss_pred             eeEeCCCCCHHHHHHHHHHcCCchHHHHHHHcCCCHHHHHHHh
Confidence            2222322111  00    0001124567788899998776554

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=92.66  E-value=0.21  Score=52.12  Aligned_cols=39  Identities=13%  Similarity=0.051  Sum_probs=27.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcC
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEP  229 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s  229 (821)
                      ..++|.++|.+|+||||++..+..  .....=..+.+++..
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~--~l~~~g~~V~li~~D  109 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLAN--KLKKQGKSVLLAAGD  109 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH--HHHhcCCEEEEEeCC
Confidence            478999999999999998877775  233322345555544

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.

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=92.66  E-value=0.091  Score=51.85  Aligned_cols=23  Identities=17%  Similarity=0.205  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|||+|+.|+||||.|+.+-+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            46899999999999999998876

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=92.64  E-value=0.58  Score=45.91  Aligned_cols=110  Identities=12%  Similarity=0.093  Sum_probs=64.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEc-------------------CCCCC-----------------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQE-------------------PYTCY-----------------  233 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~-------------------s~~~~-----------------  233 (821)
                      -.|+.|+|..|+|||||.+-+..-+++.   +..+||.-                   =|.|+                 
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN~LE~~~---~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap~~  104 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLNGLEEPD---SGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAPVK  104 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCcCCC---CceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhhHH
Confidence            4599999999999999999998743332   23444421                   12221                 


Q ss_pred             --------HHHHHHHHHHHhCCchh--------------HHHHHHHhCCCcEEEEEecCCCH---HHHHHHHHhCCC-CC
Q 045113          234 --------ADQILDIIIKFLMPSSR--------------LIILHEYLMTKRYLIVIDDVWSI---EVWDIIREILPD-NQ  287 (821)
Q Consensus       234 --------~~~~~~~i~~~l~~~~~--------------~~~l~~~l~~kr~LlVlDdv~~~---~~~~~l~~~l~~-~~  287 (821)
                              .++...++++.++..+.              .-.|.+.|.-++-++.||..-+.   +-..++...... ..
T Consensus       105 v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~  184 (240)
T COG1126         105 VKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAE  184 (240)
T ss_pred             HcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHH
Confidence                    12233344444444321              45677888888899999999754   323333322221 23


Q ss_pred             CCcEEEEEecchhhh
Q 045113          288 NGSRVLITLAKIDTV  302 (821)
Q Consensus       288 ~gs~iiiTtr~~~v~  302 (821)
                      .|--+|+.|....-|
T Consensus       185 eGmTMivVTHEM~FA  199 (240)
T COG1126         185 EGMTMIIVTHEMGFA  199 (240)
T ss_pred             cCCeEEEEechhHHH
Confidence            455666666665444

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=92.63  E-value=0.59  Score=46.83  Aligned_cols=125  Identities=19%  Similarity=0.146  Sum_probs=70.5

Q ss_pred             CCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC
Q 045113          165 KNRDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY  233 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~  233 (821)
                      .-.++-|-.+.++++.+....+           -+..+=|-.+|.+|.|||-+|++|.|  +....|-.++        .
T Consensus       175 ty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravan--rtdacfirvi--------g  244 (435)
T KOG0729|consen  175 TYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVAN--RTDACFIRVI--------G  244 (435)
T ss_pred             ccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhc--ccCceEEeeh--------h
Confidence            3456777788888877766532           13466788999999999999999999  5555553222        1


Q ss_pred             HHHHHHHHHHHhCCchhHHHHHHHhCC-CcEEEEEecCCCH-------------HH---HHHHHHhCCCC--CCCcEEEE
Q 045113          234 ADQILDIIIKFLMPSSRLIILHEYLMT-KRYLIVIDDVWSI-------------EV---WDIIREILPDN--QNGSRVLI  294 (821)
Q Consensus       234 ~~~~~~~i~~~l~~~~~~~~l~~~l~~-kr~LlVlDdv~~~-------------~~---~~~l~~~l~~~--~~gs~iii  294 (821)
                      .+-+|+-+.+....   ..++.+--++ |-++|.||.++..             +.   .-++...+...  ...-||+.
T Consensus       245 selvqkyvgegarm---vrelf~martkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikvlm  321 (435)
T KOG0729|consen  245 SELVQKYVGEGARM---VRELFEMARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVLM  321 (435)
T ss_pred             HHHHHHHhhhhHHH---HHHHHHHhcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEEe
Confidence            11222221111000   3334444444 5578888887521             11   11222233321  22368888


Q ss_pred             Eecchhhh
Q 045113          295 TLAKIDTV  302 (821)
Q Consensus       295 Ttr~~~v~  302 (821)
                      .|...+..
T Consensus       322 atnrpdtl  329 (435)
T KOG0729|consen  322 ATNRPDTL  329 (435)
T ss_pred             ecCCCCCc
Confidence            88877766

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=92.61  E-value=0.091  Score=48.78  Aligned_cols=38  Identities=11%  Similarity=0.093  Sum_probs=26.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccc-cccceeEEEEcCC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVK-HYFDCHAWVQEPY  230 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~-~~F~~~~wv~~s~  230 (821)
                      .+|.|+|..|+|||||++.+.+  +.. ..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~--~l~~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLIN--ELKRRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHH--HHHHTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHH--HHhHcCCceEEEEEccC
Confidence            4899999999999999999998  443 4455555555444

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=92.60  E-value=0.35  Score=53.52  Aligned_cols=25  Identities=12%  Similarity=0.117  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcC
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .-..++|+|..|+|||||++.+...
T Consensus       154 ~GQ~igI~G~sGaGKSTLl~~I~g~  178 (434)
T PRK07196        154 KGQRVGLMAGSGVGKSVLLGMITRY  178 (434)
T ss_pred             cceEEEEECCCCCCccHHHHHHhcc
Confidence            3578999999999999999998873

>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=92.58  E-value=0.069  Score=53.25  Aligned_cols=21  Identities=10%  Similarity=-0.066  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHh
Q 045113          191 SAVTILDSIGLDKTAFAAEAY  211 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~  211 (821)
                      .++.|+|..|.||||+.+.+.
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~   50 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIG   50 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHH
Confidence            699999999999999999988

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

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=92.57  E-value=0.19  Score=45.07  Aligned_cols=46  Identities=13%  Similarity=0.125  Sum_probs=34.1

Q ss_pred             CCeeechhhHHHHHHHHhc----C-CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIE----G-PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~----~-~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|..-..+.|++.+.+    . +...-|++..|.+|+|||.+++.+.+
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~   75 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAE   75 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHH
Confidence            3577877666666666653    2 45688999999999999997766665

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

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=92.56  E-value=0.37  Score=53.23  Aligned_cols=87  Identities=15%  Similarity=0.072  Sum_probs=50.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHHhCCc--------hh---------
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKFLMPS--------SR---------  250 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~---------  250 (821)
                      .-..++|+|..|+|||||++.+.....  .  +..+..-+.+.. .+.++..+.+.+-...        .+         
T Consensus       136 ~Gqri~I~G~sG~GKTtLl~~i~~~~~--~--~~gvi~~~Ger~~ev~e~~~~~l~~~~~~~~v~v~~tsd~~~~~r~~~  211 (413)
T TIGR03497       136 KGQRVGIFAGSGVGKSTLLGMIARNAK--A--DINVIALIGERGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLKA  211 (413)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC--C--CeEEEEEEccchHHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHH
Confidence            357899999999999999998887322  1  222222233332 3444444433321111        00         


Q ss_pred             ---HHHHHHHh--CCCcEEEEEecCCCH-HHHHHH
Q 045113          251 ---LIILHEYL--MTKRYLIVIDDVWSI-EVWDII  279 (821)
Q Consensus       251 ---~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l  279 (821)
                         +-.+.+++  +++.+|+++||+-.. ..+.++
T Consensus       212 ~~~a~tiAEyfr~~G~~Vll~~Dsltr~A~A~rEi  246 (413)
T TIGR03497       212 AFTATAIAEYFRDQGKDVLLMMDSVTRFAMAQREI  246 (413)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEcCcHHHHHHHHHH
Confidence               33444444  479999999999543 334444

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.

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=92.55  E-value=0.18  Score=52.66  Aligned_cols=89  Identities=20%  Similarity=0.142  Sum_probs=49.3

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHH
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILH  255 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~  255 (821)
                      ...+++.+...   -+-+-++|..|+|||++++.....-. ...| ...-++.|..-+...+++-|-..+....  ....
T Consensus        22 ~~~ll~~l~~~---~~pvLl~G~~GtGKT~li~~~l~~l~-~~~~-~~~~~~~s~~Tts~~~q~~ie~~l~k~~--~~~~   94 (272)
T PF12775_consen   22 YSYLLDLLLSN---GRPVLLVGPSGTGKTSLIQNFLSSLD-SDKY-LVITINFSAQTTSNQLQKIIESKLEKRR--GRVY   94 (272)
T ss_dssp             HHHHHHHHHHC---TEEEEEESSTTSSHHHHHHHHHHCST-TCCE-EEEEEES-TTHHHHHHHHCCCTTECECT--TEEE
T ss_pred             HHHHHHHHHHc---CCcEEEECCCCCchhHHHHhhhccCC-cccc-ceeEeeccCCCCHHHHHHHHhhcEEcCC--CCCC
Confidence            45566777665   35678999999999999999886311 1222 2334455554444444432222221110  0000


Q ss_pred             HHhCCCcEEEEEecCC
Q 045113          256 EYLMTKRYLIVIDDVW  271 (821)
Q Consensus       256 ~~l~~kr~LlVlDdv~  271 (821)
                      .--.+|+.++.+||+-
T Consensus        95 gP~~~k~lv~fiDDlN  110 (272)
T PF12775_consen   95 GPPGGKKLVLFIDDLN  110 (272)
T ss_dssp             EEESSSEEEEEEETTT
T ss_pred             CCCCCcEEEEEecccC
Confidence            0013688999999995

>PRK03846 adenylylsulfate kinase; Provisional

Probab=92.52  E-value=0.11  Score=51.72  Aligned_cols=24  Identities=13%  Similarity=-0.003  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|.|+|++|+||||||+.+..
T Consensus        23 ~~~~i~i~G~~GsGKSTla~~l~~   46 (198)
T PRK03846         23 KGVVLWFTGLSGSGKSTVAGALEE   46 (198)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999987

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=92.52  E-value=0.29  Score=52.25  Aligned_cols=106  Identities=14%  Similarity=0.140  Sum_probs=56.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHH--HH-HHh-CCc--hh-HHHHHHHhCCCc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDI--II-KFL-MPS--SR-LIILHEYLMTKR  262 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~--i~-~~l-~~~--~~-~~~l~~~l~~kr  262 (821)
                      -..+.|+|..|.|||||++.+...  +.... .++.+.-........ -..  +. ..- ...  .+ .+.+...|+...
T Consensus       144 ~~~ili~G~tGsGKTTll~al~~~--~~~~~-~iv~ied~~El~~~~-~~~~~l~~~~~~~~~~~~~~~~~l~~~Lr~~p  219 (308)
T TIGR02788       144 RKNIIISGGTGSGKTTFLKSLVDE--IPKDE-RIITIEDTREIFLPH-PNYVHLFYSKGGQGLAKVTPKDLLQSCLRMRP  219 (308)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcc--CCccc-cEEEEcCccccCCCC-CCEEEEEecCCCCCcCccCHHHHHHHHhcCCC
Confidence            469999999999999999988863  22111 111121111111000 000  00 000 000  01 456666777888


Q ss_pred             EEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          263 YLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       263 ~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      =.||+|.+...+.++.+... ..++.|  ++.|+...+++
T Consensus       220 d~ii~gE~r~~e~~~~l~a~-~~g~~~--~i~T~Ha~~~~  256 (308)
T TIGR02788       220 DRIILGELRGDEAFDFIRAV-NTGHPG--SITTLHAGSPE  256 (308)
T ss_pred             CeEEEeccCCHHHHHHHHHH-hcCCCe--EEEEEeCCCHH
Confidence            88999999987777654443 333322  46666554443

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=92.52  E-value=0.7  Score=48.23  Aligned_cols=133  Identities=17%  Similarity=0.127  Sum_probs=78.0

Q ss_pred             CCeeechhhHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHHhcC-cccccccceeEEEEcCCCCCHH-HHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEG--PPQLSAVTILDSIGLDKTAFAAEAYSG-NYVKHYFDCHAWVQEPYTCYAD-QILDIII  242 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~--~~~~~vi~i~G~gGiGKTtLa~~v~~~-~~~~~~F~~~~wv~~s~~~~~~-~~~~~i~  242 (821)
                      ..++|-.++..++-+++...  .+...-+.|+|+.|.|||+|...+..+ .++..+|   +-|........+ -.++.|.
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~---l~v~Lng~~~~dk~al~~I~  100 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENF---LLVRLNGELQTDKIALKGIT  100 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeE---EEEEECccchhhHHHHHHHH
Confidence            45899999999998888753  233667889999999999998877765 2334444   344444443332 2455555


Q ss_pred             HHhCCch------------hHHHHHHHhC------CCcEEEEEecCCCH-----H--HHHHHHHhCCCCCCCcEEEEEec
Q 045113          243 KFLMPSS------------RLIILHEYLM------TKRYLIVIDDVWSI-----E--VWDIIREILPDNQNGSRVLITLA  297 (821)
Q Consensus       243 ~~l~~~~------------~~~~l~~~l~------~kr~LlVlDdv~~~-----~--~~~~l~~~l~~~~~gs~iiiTtr  297 (821)
                      .++...-            ....+-..|+      +-++..|+|..+-.     .  -++-+-..-....+-+-|-+|||
T Consensus       101 rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttr  180 (408)
T KOG2228|consen  101 RQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTR  180 (408)
T ss_pred             HHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeecc
Confidence            5554321            1334444443      24578888877532     1  11222222223445677788888


Q ss_pred             chhhh
Q 045113          298 KIDTV  302 (821)
Q Consensus       298 ~~~v~  302 (821)
                      -....
T Consensus       181 ld~lE  185 (408)
T KOG2228|consen  181 LDILE  185 (408)
T ss_pred             ccHHH
Confidence            65443

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=92.52  E-value=1  Score=51.03  Aligned_cols=24  Identities=17%  Similarity=0.048  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|.|||||++.+...
T Consensus        50 GEivgIiGpNGSGKSTLLkiLaGL   73 (549)
T PRK13545         50 GEIVGIIGLNGSGKSTLSNLIAGV   73 (549)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            469999999999999999999874

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=92.50  E-value=3.3  Score=46.19  Aligned_cols=126  Identities=15%  Similarity=0.093  Sum_probs=70.6

Q ss_pred             eechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcc-----cccc----cc-----------eeEEEE--
Q 045113          170 VGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNY-----VKHY----FD-----------CHAWVQ--  227 (821)
Q Consensus       170 vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~-----~~~~----F~-----------~~~wv~--  227 (821)
                      +|.+... .|..-|.-+-+--..|++||..|+|||||.+.++-+..     ++.+    |.           ...|..  
T Consensus       397 F~y~~~~-~iy~~l~fgid~~srvAlVGPNG~GKsTLlKl~~gdl~p~~G~vs~~~H~~~~~y~Qh~~e~ldl~~s~le~  475 (614)
T KOG0927|consen  397 FGYSDNP-MIYKKLNFGIDLDSRVALVGPNGAGKSTLLKLITGDLQPTIGMVSRHSHNKLPRYNQHLAEQLDLDKSSLEF  475 (614)
T ss_pred             cCCCCcc-hhhhhhhcccCcccceeEecCCCCchhhhHHHHhhccccccccccccccccchhhhhhhHhhcCcchhHHHH
Confidence            4555544 55555555544457899999999999999999997631     1111    11           111110  


Q ss_pred             cCCC---CCHHHHHHHHHHHhCCchh--------------HHHHHHHh-CCCcEEEEEecCCCH---HHHHHHHHhCCCC
Q 045113          228 EPYT---CYADQILDIIIKFLMPSSR--------------LIILHEYL-MTKRYLIVIDDVWSI---EVWDIIREILPDN  286 (821)
Q Consensus       228 ~s~~---~~~~~~~~~i~~~l~~~~~--------------~~~l~~~l-~~kr~LlVlDdv~~~---~~~~~l~~~l~~~  286 (821)
                      +-..   -...+..+.|+...+...+              ...+..++ -..+-++|||...+.   +..+.+..++...
T Consensus       476 ~~~~~~~~~~~e~~r~ilgrfgLtgd~q~~p~~~LS~Gqr~rVlFa~l~~kqP~lLlLDEPtnhLDi~tid~laeaiNe~  555 (614)
T KOG0927|consen  476 MMPKFPDEKELEEMRSILGRFGLTGDAQVVPMSQLSDGQRRRVLFARLAVKQPHLLLLDEPTNHLDIETIDALAEAINEF  555 (614)
T ss_pred             HHHhccccchHHHHHHHHHHhCCCccccccchhhcccccchhHHHHHHHhcCCcEEEecCCCcCCCchhHHHHHHHHhcc
Confidence            0000   1234556666766666532              23333333 478889999998654   3455555555543


Q ss_pred             CCCcEEEEEecc
Q 045113          287 QNGSRVLITLAK  298 (821)
Q Consensus       287 ~~gs~iiiTtr~  298 (821)
                      . |. ||++|.+
T Consensus       556 ~-Gg-vv~vSHD  565 (614)
T KOG0927|consen  556 P-GG-VVLVSHD  565 (614)
T ss_pred             C-Cc-eeeeech
Confidence            3 44 4455544

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=92.48  E-value=0.26  Score=46.04  Aligned_cols=107  Identities=12%  Similarity=0.084  Sum_probs=64.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDV  270 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv  270 (821)
                      --+.|+|-||+||+++.+..|.. -....+...|||+.-..    ++.-.+        +.-+++              .
T Consensus        21 iK~vivGng~VGKssmiqryCkg-ifTkdykktIgvdfler----qi~v~~--------Edvr~m--------------l   73 (246)
T KOG4252|consen   21 IKFVIVGNGSVGKSSMIQRYCKG-IFTKDYKKTIGVDFLER----QIKVLI--------EDVRSM--------------L   73 (246)
T ss_pred             EEEEEECCCccchHHHHHHHhcc-ccccccccccchhhhhH----HHHhhH--------HHHHHH--------------H
Confidence            34678999999999999999973 22455677888853221    111000        000000              1


Q ss_pred             CCH---HHHHHHHHhCCCCCCCcEEEEEecchhhhcccccccCCcCCCCccchHHHHHHHcCCchHHHH
Q 045113          271 WSI---EVWDIIREILPDNQNGSRVLITLAKIDTVTLFQFENGQNIRLDLVPTGGPLRVTYQGWPFHIL  336 (821)
Q Consensus       271 ~~~---~~~~~l~~~l~~~~~gs~iiiTtr~~~v~~lf~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  336 (821)
                      |+.   ++.+.|-.+...+...|..+..|.+..-            -....++-++|.+.|+..|..++
T Consensus        74 WdtagqeEfDaItkAyyrgaqa~vLVFSTTDr~S------------Fea~~~w~~kv~~e~~~IPtV~v  130 (246)
T KOG4252|consen   74 WDTAGQEEFDAITKAYYRGAQASVLVFSTTDRYS------------FEATLEWYNKVQKETERIPTVFV  130 (246)
T ss_pred             HHhccchhHHHHHHHHhccccceEEEEecccHHH------------HHHHHHHHHHHHHHhccCCeEEe
Confidence            432   5677777777777767766655543321            12334567889999999997654

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=92.48  E-value=0.23  Score=49.21  Aligned_cols=55  Identities=20%  Similarity=0.164  Sum_probs=42.2

Q ss_pred             CCCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhcCccccccc
Q 045113          164 FKNRDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF  220 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F  220 (821)
                      +.-.++-|.|..+++|.+...-+           -+..+=|-.+|.+|.|||.||++|.++  ....|
T Consensus       152 vsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~--t~a~f  217 (408)
T KOG0727|consen  152 VSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANH--TTAAF  217 (408)
T ss_pred             ccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhc--cchhe
Confidence            44457889999999988877543           134677889999999999999999993  44445

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=92.46  E-value=0.47  Score=48.43  Aligned_cols=90  Identities=20%  Similarity=0.227  Sum_probs=58.8

Q ss_pred             CCeeechhhHHHHHHHHhcC----------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEG----------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQ  236 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~----------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~  236 (821)
                      .++-|.+..++.+.+...-+          ....+-|-++|.+|.||+.||++|....  ...|     ++||..     
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA--nSTF-----FSvSSS-----  200 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA--NSTF-----FSVSSS-----  200 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc--CCce-----EEeehH-----
Confidence            46789999998888876542          1247889999999999999999999842  2322     344433     


Q ss_pred             HHHHHHHHhCCchh--HHHHHHHh-CCCcEEEEEecCC
Q 045113          237 ILDIIIKFLMPSSR--LIILHEYL-MTKRYLIVIDDVW  271 (821)
Q Consensus       237 ~~~~i~~~l~~~~~--~~~l~~~l-~~kr~LlVlDdv~  271 (821)
                         +++....+..+  ...|.+.- .+|+..|.+|.|+
T Consensus       201 ---DLvSKWmGESEkLVknLFemARe~kPSIIFiDEiD  235 (439)
T KOG0739|consen  201 ---DLVSKWMGESEKLVKNLFEMARENKPSIIFIDEID  235 (439)
T ss_pred             ---HHHHHHhccHHHHHHHHHHHHHhcCCcEEEeehhh
Confidence               22222222222  33333333 3699999999995

>TIGR01026 fliI_yscN ATPase FliI/YscN family

Probab=92.45  E-value=0.42  Score=53.27  Aligned_cols=87  Identities=13%  Similarity=0.064  Sum_probs=49.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC-CCHHHHHHHHHHHhCCc---------hh---------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT-CYADQILDIIIKFLMPS---------SR---------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~---------~~---------  250 (821)
                      -..++|+|..|+|||||++.+.....   . +..+...+... -.+.++..+....-...         ++         
T Consensus       163 Gq~~~I~G~sG~GKStLl~~I~~~~~---~-~~~vi~~iG~r~~ev~~~~~~~~~~~~l~~tvvv~~~~d~~p~~r~~~~  238 (440)
T TIGR01026       163 GQRIGIFAGSGVGKSTLLGMIARNTE---A-DVNVIALIGERGREVREFIEHDLGEEGLKRSVVVVATSDQSPLLRLKGA  238 (440)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCC---C-CEEEEEEEeecchHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHHH
Confidence            45789999999999999999987321   1 22233333332 23444444433321111         00         


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHH
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIR  280 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~  280 (821)
                        +-.+.+++  +++.+|+++||+-.- ....++.
T Consensus       239 ~~a~t~AE~frd~G~~Vll~~DslTr~A~A~REis  273 (440)
T TIGR01026       239 YVATAIAEYFRDQGKDVLLLMDSVTRFAMAQREIG  273 (440)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEeChHHHHHHHHHHH
Confidence              23333444  589999999999543 3344443

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=92.43  E-value=0.062  Score=52.70  Aligned_cols=21  Identities=14%  Similarity=-0.001  Sum_probs=18.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++.|.|..|.||||+.+.+.-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999999883

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=92.42  E-value=0.11  Score=54.49  Aligned_cols=24  Identities=17%  Similarity=0.123  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|||.|..|+||||+|+.+..
T Consensus        61 ~p~IIGIaG~~GSGKSTlar~L~~   84 (290)
T TIGR00554        61 IPYIISIAGSVAVGKSTTARILQA   84 (290)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999987754

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.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=92.41  E-value=0.16  Score=50.67  Aligned_cols=23  Identities=17%  Similarity=0.137  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.++||+|..|+|||||++.+.-
T Consensus        33 Ge~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          33 GETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhc
Confidence            45899999999999999999875

>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit

Probab=92.39  E-value=0.59  Score=52.82  Aligned_cols=88  Identities=18%  Similarity=0.106  Sum_probs=56.9

Q ss_pred             CceEEEEEcCCCChHHHHH-HHHhcCccccccccee-EEEEcCCCC-CHHHHHHHHHHHhCCch--------h-------
Q 045113          189 QLSAVTILDSIGLDKTAFA-AEAYSGNYVKHYFDCH-AWVQEPYTC-YADQILDIIIKFLMPSS--------R-------  250 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa-~~v~~~~~~~~~F~~~-~wv~~s~~~-~~~~~~~~i~~~l~~~~--------~-------  250 (821)
                      .-+.++|.|-.|+|||||| .++.+.    ..-+.+ +++-+.+.. .+.++.+.+...=....        +       
T Consensus       160 rGQr~~I~g~~g~GKt~Lal~~i~~~----~~~dv~~V~~~IGer~rev~e~~~~~~~~~~l~~tvvV~atsd~p~~~r~  235 (501)
T TIGR00962       160 RGQRELIIGDRQTGKTAVAIDTIINQ----KDSDVYCVYVAIGQKASTVAQVVRKLEEHGAMDYTIVVAATASDSASLQY  235 (501)
T ss_pred             cCCEEEeecCCCCCccHHHHHHHHhh----cCCCeEEEEEEccCChHHHHHHHHHHHhcCccceeEEEEecCCCCHHHHH
Confidence            3568999999999999996 667663    134554 777777764 45667766665422210        1       


Q ss_pred             -----HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHH
Q 045113          251 -----LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIR  280 (821)
Q Consensus       251 -----~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~  280 (821)
                           +-.+.+++  +++.+|||+||+... ..+.++.
T Consensus       236 ~a~~~a~aiAEyfrd~G~~VLlv~Ddltr~A~A~REis  273 (501)
T TIGR00962       236 LAPYTGCTMAEYFRDNGKHALIIYDDLSKHAVAYRQIS  273 (501)
T ss_pred             HHHHHHHHHHHHHHHcCCCEEEEecchHHHHHHHHHHH
Confidence                 33334444  479999999999653 3455544

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.

>PRK14530 adenylate kinase; Provisional

Probab=92.38  E-value=0.093  Score=52.89  Aligned_cols=21  Identities=14%  Similarity=0.194  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|.|+|++|+||||+|+.+..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999986

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=92.37  E-value=0.11  Score=49.10  Aligned_cols=33  Identities=12%  Similarity=0.096  Sum_probs=24.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCccccc-ccceeEEE
Q 045113          192 AVTILDSIGLDKTAFAAEAYSGNYVKH-YFDCHAWV  226 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~~~~~~-~F~~~~wv  226 (821)
                      ||+|+|..|+|||||+.++..  ..+. .+...+.-
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~--~l~~~G~~V~viK   34 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVK--ALKARGYRVATIK   34 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHH--HHHhcCCeEEEEe
Confidence            589999999999999999998  3332 35444443

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=92.36  E-value=0.15  Score=59.36  Aligned_cols=78  Identities=10%  Similarity=-0.038  Sum_probs=57.7

Q ss_pred             CCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHH
Q 045113          165 KNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      .-.+++|.+..++.+...+...    +.+-++|.+|+||||+|+.+.+.. ...+|+..+|..- ...+...+++.++.+
T Consensus        29 ~~~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l-~~~~~~~~~~~~n-p~~~~~~~~~~v~~~  102 (637)
T PRK13765         29 LIDQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELL-PKEELQDILVYPN-PEDPNNPKIRTVPAG  102 (637)
T ss_pred             cHHHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHc-ChHhHHHheEeeC-CCcchHHHHHHHHHh
Confidence            3457899988888887777654    368889999999999999998731 2234677888655 334677788888877


Q ss_pred             hCCc
Q 045113          245 LMPS  248 (821)
Q Consensus       245 l~~~  248 (821)
                      ++..
T Consensus       103 ~G~~  106 (637)
T PRK13765        103 KGKQ  106 (637)
T ss_pred             cCHH
Confidence            7665

>PRK06820 type III secretion system ATPase; Validated

Probab=92.35  E-value=0.37  Score=53.36  Aligned_cols=79  Identities=14%  Similarity=0.152  Sum_probs=46.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHHhCCc--------hh----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKFLMPS--------SR----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~----------  250 (821)
                      -..++|+|..|+|||||++.+....    +-+..+..-+.... .+.++.+.....=...        .+          
T Consensus       163 Gqri~I~G~sG~GKStLl~~I~~~~----~~dv~V~~~iGergrEv~ef~e~~l~~~~~~rtvvv~atsd~p~~~r~~a~  238 (440)
T PRK06820        163 GQRIGIFAAAGVGKSTLLGMLCADS----AADVMVLALIGERGREVREFLEQVLTPEARARTVVVVATSDRPALERLKGL  238 (440)
T ss_pred             CCEEEEECCCCCChHHHHHHHhccC----CCCEEEEEEEccChHHHHHHHHHhhccCCceeEEEEEeCCCCCHHHHHHHH
Confidence            4588999999999999999998732    12344444454442 2223333222110000        00          


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCC
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                        +-.+.+++  +++.+|+++||+-.
T Consensus       239 ~~a~tiAEyfrd~G~~VLl~~Dsltr  264 (440)
T PRK06820        239 STATTIAEYFRDRGKKVLLMADSLTR  264 (440)
T ss_pred             HHHHHHHHHHHHcCCCEEEEccchhH
Confidence              33444444  58999999999954

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=92.34  E-value=0.32  Score=56.60  Aligned_cols=101  Identities=19%  Similarity=0.226  Sum_probs=60.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccccccc---ceeEEEEcCCCCCHHHHHHHHHHHhCC---c--------hhHHHHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYF---DCHAWVQEPYTCYADQILDIIIKFLMP---S--------SRLIILH  255 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F---~~~~wv~~s~~~~~~~~~~~i~~~l~~---~--------~~~~~l~  255 (821)
                      -++..|.|.+|.||||+++.+..  .+....   ..++.+......-...+.+.+...+..   .        ..+.-+.
T Consensus       167 ~~~~vItGgpGTGKTt~v~~ll~--~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~TiH  244 (615)
T PRK10875        167 RRISVISGGPGTGKTTTVAKLLA--ALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEASTLH  244 (615)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH--HHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHHHH
Confidence            35888999999999999988876  222211   246777776666666666665543321   1        1245555


Q ss_pred             HHhCC------------Cc---EEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEE
Q 045113          256 EYLMT------------KR---YLIVIDDVWSI--EVWDIIREILPDNQNGSRVLIT  295 (821)
Q Consensus       256 ~~l~~------------kr---~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiT  295 (821)
                      +.|..            .+   =++|+|.....  .....+...++   +++|+|+-
T Consensus       245 rlLg~~~~~~~~~~~~~~~l~~dvlIvDEaSMvd~~lm~~ll~al~---~~~rlIlv  298 (615)
T PRK10875        245 RLLGAQPGSQRLRYHAGNPLHLDVLVVDEASMVDLPMMARLIDALP---PHARVIFL  298 (615)
T ss_pred             HHhCcCCCccchhhccccCCCCCeEEEChHhcccHHHHHHHHHhcc---cCCEEEEe
Confidence            55532            11   28999998532  33445555554   46787743

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=92.32  E-value=0.094  Score=49.55  Aligned_cols=20  Identities=15%  Similarity=0.262  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045113          193 VTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~  212 (821)
                      |.|+|++|+||||+|+.+..
T Consensus         2 i~l~G~~GsGKstla~~la~   21 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAK   21 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            68999999999999999987

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=92.26  E-value=0.11  Score=51.02  Aligned_cols=23  Identities=13%  Similarity=0.163  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .++.|+|+.|+|||||++.+...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            47899999999999999999873

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=92.26  E-value=1.1  Score=52.00  Aligned_cols=24  Identities=13%  Similarity=0.095  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|+|||||.+.+...
T Consensus        27 Ge~~~liG~NGsGKSTLl~~l~Gl   50 (530)
T PRK15064         27 GNRYGLIGANGCGKSTFMKILGGD   50 (530)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999864

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=92.25  E-value=0.49  Score=50.80  Aligned_cols=93  Identities=22%  Similarity=0.128  Sum_probs=59.4

Q ss_pred             hhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh--
Q 045113          173 DDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR--  250 (821)
Q Consensus       173 ~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~--  250 (821)
                      ...+.++-..|..+--.-.+|.|-|-+|||||||.-++..  +....- .+++|+-.+.  ..++- --++.++...+  
T Consensus        76 ~tg~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~--~lA~~~-~vLYVsGEES--~~Qik-lRA~RL~~~~~~l  149 (456)
T COG1066          76 STGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAA--RLAKRG-KVLYVSGEES--LQQIK-LRADRLGLPTNNL  149 (456)
T ss_pred             cCChHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHH--HHHhcC-cEEEEeCCcC--HHHHH-HHHHHhCCCccce
Confidence            4445555555655533467999999999999999988887  454333 6777654443  33322 22344543222  


Q ss_pred             -------HHHHHHHhC-CCcEEEEEecCC
Q 045113          251 -------LIILHEYLM-TKRYLIVIDDVW  271 (821)
Q Consensus       251 -------~~~l~~~l~-~kr~LlVlDdv~  271 (821)
                             .+.+.+.+. .++-++|+|-+.
T Consensus       150 ~l~aEt~~e~I~~~l~~~~p~lvVIDSIQ  178 (456)
T COG1066         150 YLLAETNLEDIIAELEQEKPDLVVIDSIQ  178 (456)
T ss_pred             EEehhcCHHHHHHHHHhcCCCEEEEeccc
Confidence                   666666665 477899999984

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=92.23  E-value=1.3  Score=47.26  Aligned_cols=24  Identities=17%  Similarity=0.008  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        33 Gei~gllGpNGaGKSTLl~~l~Gl   56 (306)
T PRK13537         33 GECFGLLGPNGAGKTTTLRMLLGL   56 (306)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999999874

>PRK13948 shikimate kinase; Provisional

Probab=92.21  E-value=0.12  Score=50.33  Aligned_cols=24  Identities=17%  Similarity=0.177  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+.|.++||.|+||||+++.+.+
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~   32 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSR   32 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999987

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=92.20  E-value=0.57  Score=52.45  Aligned_cols=88  Identities=14%  Similarity=0.054  Sum_probs=57.7

Q ss_pred             CceEEEEEcCCCChHHHHH-HHHhcCcccccccce-eEEEEcCCCC-CHHHHHHHHHHHhCCch---------h------
Q 045113          189 QLSAVTILDSIGLDKTAFA-AEAYSGNYVKHYFDC-HAWVQEPYTC-YADQILDIIIKFLMPSS---------R------  250 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa-~~v~~~~~~~~~F~~-~~wv~~s~~~-~~~~~~~~i~~~l~~~~---------~------  250 (821)
                      .-+.++|.|-.|+|||||| .++.+.    ..-+. ++++-+.+.. .+.++.+.+...=....         +      
T Consensus       161 rGQR~~Ifg~~g~GKT~Lal~~I~~q----~~~dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r~  236 (497)
T TIGR03324       161 RGQRELILGDRQTGKTAIAIDTILNQ----KGRNVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQY  236 (497)
T ss_pred             cCCEEEeecCCCCCHHHHHHHHHHHh----cCCCcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHHH
Confidence            3568999999999999996 577773    23354 6777777764 45667766665422211         1      


Q ss_pred             -----HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHH
Q 045113          251 -----LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIR  280 (821)
Q Consensus       251 -----~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~  280 (821)
                           +-.+.+++  +++.+|||+||+... ..+.++.
T Consensus       237 ~ap~~a~aiAEyfrd~G~~VLlv~DdlTr~A~A~REis  274 (497)
T TIGR03324       237 IAPYAATSIGEHFMEQGRDVLIVYDDLTQHARAYRELS  274 (497)
T ss_pred             HHHHHHHHHHHHHHhCCCCEEEEEcChhHHHHHHHHHH
Confidence                 33455555  579999999999643 3444443

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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=92.18  E-value=0.099  Score=50.67  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .|.|.|.+|+||||+|+.+.+.
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999984

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=92.18  E-value=0.21  Score=53.47  Aligned_cols=37  Identities=24%  Similarity=0.280  Sum_probs=28.6

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+++.+....+...+|+|.|.+|+|||||+..+..
T Consensus        42 ~~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~   78 (332)
T PRK09435         42 AQELLDALLPHTGNALRIGITGVPGVGKSTFIEALGM   78 (332)
T ss_pred             HHHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            3455666554344578999999999999999998766

>cd01878 HflX HflX subfamily

Probab=92.18  E-value=0.37  Score=47.94  Aligned_cols=25  Identities=8%  Similarity=0.189  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGN  214 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~  214 (821)
                      ...|+|+|.+|+|||||.+.+.+..
T Consensus        41 ~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          41 IPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             CCeEEEECCCCCCHHHHHHHHhcch
Confidence            5689999999999999999988753

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PRK00300 gmk guanylate kinase; Provisional

Probab=92.17  E-value=0.11  Score=51.98  Aligned_cols=24  Identities=8%  Similarity=0.076  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+|+|+|..|+||||||+.+...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999973

>PRK07960 fliI flagellum-specific ATP synthase; Validated

Probab=92.17  E-value=0.34  Score=53.59  Aligned_cols=87  Identities=9%  Similarity=-0.009  Sum_probs=49.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC-CCCHHHHHHHHHHHhCCch--------h----------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY-TCYADQILDIIIKFLMPSS--------R----------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~--------~----------  250 (821)
                      -..++|+|..|+|||||++.+......    +.++...+.. .-.+.++.+.+...-....        +          
T Consensus       175 Gqri~I~G~sG~GKTTLL~~Ia~~~~~----d~iv~g~Igerg~ev~e~~~~~~~~~~~~~tvVv~~~ad~~~~~r~~~~  250 (455)
T PRK07960        175 GQRMGLFAGSGVGKSVLLGMMARYTQA----DVIVVGLIGERGREVKDFIENILGAEGRARSVVIAAPADVSPLLRMQGA  250 (455)
T ss_pred             CcEEEEECCCCCCccHHHHHHhCCCCC----CEEEEEEEEECCeEHHHHHHhhcCcCCCceEEEEEECCCCCHHHHHHHH
Confidence            568999999999999999999873221    2222222222 2234444444332211110        0          


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHH
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIR  280 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~  280 (821)
                        +-.+.+++  +++.+|+++||+-.. ..+.++.
T Consensus       251 ~~a~tiAEyfrd~G~~Vll~~DslTr~A~A~rEis  285 (455)
T PRK07960        251 AYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIA  285 (455)
T ss_pred             HHHHHHHHHHHHcCCCeEEEecchhHHHHHHHHHH
Confidence              23344444  479999999999543 3344443

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=92.16  E-value=0.78  Score=52.41  Aligned_cols=112  Identities=13%  Similarity=0.121  Sum_probs=61.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCc-cccccc-----ceeEEEEcCC---------------CC-C-HHHHHHHHHHHh
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGN-YVKHYF-----DCHAWVQEPY---------------TC-Y-ADQILDIIIKFL  245 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~-~~~~~F-----~~~~wv~~s~---------------~~-~-~~~~~~~i~~~l  245 (821)
                      .-..|+|+|..|+|||||.+.+.... ...+..     -.+.++.-..               .+ + .+.-.+..+..+
T Consensus       347 ~g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f  426 (530)
T COG0488         347 RGDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRF  426 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHc
Confidence            34689999999999999999995421 111111     0111221111               01 1 123334444444


Q ss_pred             CCchh---------------HHHHHHHhCCCcEEEEEecCCCH---HHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          246 MPSSR---------------LIILHEYLMTKRYLIVIDDVWSI---EVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       246 ~~~~~---------------~~~l~~~l~~kr~LlVlDdv~~~---~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      ....+               .-.+...+..+.=+||||.--+.   +..+.+...+.... |+ ||+.|.++.-.
T Consensus       427 ~F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f~-Gt-vl~VSHDr~Fl  499 (530)
T COG0488         427 GFTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDFE-GT-VLLVSHDRYFL  499 (530)
T ss_pred             CCChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhCC-Ce-EEEEeCCHHHH
Confidence            44322               33455566778889999998754   44455555555433 54 66666665443

>PRK13975 thymidylate kinase; Provisional

Probab=92.15  E-value=0.11  Score=51.44  Aligned_cols=22  Identities=18%  Similarity=-0.029  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|.|+.|+||||+|+.+.+
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~   24 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAE   24 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999998

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=92.14  E-value=0.74  Score=47.44  Aligned_cols=116  Identities=16%  Similarity=0.061  Sum_probs=77.5

Q ss_pred             CCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHH
Q 045113          165 KNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      ..++|+|-... .+++.++......-+.+.|+|+.|+|||+-++.+++.      ....+-+..+..++...++..+...
T Consensus        70 ~~~~~l~tkt~-r~~~~~~~~A~k~g~l~~vyg~~g~gKt~a~~~y~~s------~p~~~l~~~~p~~~a~~~i~~i~~~  142 (297)
T COG2842          70 LAPDFLETKTV-RRIFFRTRPASKTGSLVVVYGYAGLGKTQAAKNYAPS------NPNALLIEADPSYTALVLILIICAA  142 (297)
T ss_pred             ccccccccchh-HhHhhhhhhhhhcCceEEEeccccchhHHHHHhhccc------CccceeecCChhhHHHHHHHHHHHH
Confidence            34456665443 3345555443333458889999999999999999983      2223345677788877777777777


Q ss_pred             hCCchh------HHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCC
Q 045113          245 LMPSSR------LIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQ  287 (821)
Q Consensus       245 l~~~~~------~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~  287 (821)
                      .....+      ...+...+++..-+|+.|.....  ..++.++......+
T Consensus       143 ~~~~~~~~~~d~~~~~~~~l~~~~~~iivDEA~~L~~~ale~lr~i~d~~G  193 (297)
T COG2842         143 AFGATDGTINDLTERLMIRLRDTVRLIIVDEADRLPYRALEELRRIHDKTG  193 (297)
T ss_pred             HhcccchhHHHHHHHHHHHHccCcceeeeehhhccChHHHHHHHHHHHhhC
Confidence            666543      66777777888889999988653  56666665544333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	821
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-28
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-25
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-13
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-09
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-13
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-11
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-06
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-13
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-13
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-13
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-13
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	7e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	9e-09
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-12
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	6e-08
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	5e-12
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	9e-12
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-08
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-11
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-10
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	4e-08
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-11
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	6e-07
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	9e-06
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	9e-11
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-06
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	4e-10
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	6e-09
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-09
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	9e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-09
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-06
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-09
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-09
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-08
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-09
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-08
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-08
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-08
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	8e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-09
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	8e-07
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	6e-09
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-05
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-08
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-08
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-08
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-08
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-07
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-08
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-07
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	5e-08
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	6e-05
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	9e-08
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	4e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-07
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-04
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-07
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	5e-07
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-06
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-06
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	6e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	6e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-04
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	8e-06
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-05
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	9e-06
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	4e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-05
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	2e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	7e-05
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	3e-04
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	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 =  119 bits (301), Expect = 2e-28
 Identities = 74/593 (12%), Positives = 162/593 (27%), Gaps = 116/593 (19%)

Query: 64  LLQKIAEDENDNPDLRTVMDEI---NCFTYESEKVIDTFISSITQ--------QKSQSGC 112
            L +  E    +     +MD +      T   E+ +    +   +         K  +  
Sbjct: 8   CLLQHREALEKDIKTSYIMDHMISDGFLTISEEEKVRNEPTQQQRAAMLIKMILKKDNDS 67

Query: 113 REDICDALQGLQSKIIDIKQRMQ----QLEHIDSRIINELKSIKAQAGNFPASLSFKNRD 168
                +AL        D+   +      +     +      +   +       +  +   
Sbjct: 68  YVSFYNALLH--EGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVV 125

Query: 169 TVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAY-SGNYVKHYFDCH-AWV 226
            V     +  +   L +   +   VTI    G  K+  AAEA    + ++  F     WV
Sbjct: 126 FVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWV 185

Query: 227 ---QEPYTCYADQILDIIIKFLMPSSRLII-----------LHEYLM--TKRYLIVIDDV 270
              ++  +    ++ ++  +     S               L   ++    R L+++DDV
Sbjct: 186 SVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDV 245

Query: 271 WSIEVWDIIREILPDNQNGSRVLIT----------------------LAKIDTVTLFQ-- 306
           W   V            +  ++L+T                      L K   + +    
Sbjct: 246 WDSWVLK-------AFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLF 298

Query: 307 -FENGQNIR--------------LDLVPTGGPLRVTYQGWPFHILYHGSISLEENKREAI 351
                 ++               L +   G  LR     W +++    +   +  ++ + 
Sbjct: 299 VNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSS 358

Query: 352 A-----KPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEA 406
                       S    ML   +K     L +    +++ T+ L  LW  E         
Sbjct: 359 YDYEALDEAMSIS--VEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDMETEE------ 410

Query: 407 TAEKYLEQLINRGFVEVKKRRAGGTINTCS----IRSRCWPSLLVVTLNAEFVFSPILDP 462
             E  L++ +N+  +   +    G                    +   N   +       
Sbjct: 411 -VEDILQEFVNKSLLFCDRN---GKSFRYYLHDLQVD------FLTEKNCSQLQDLHKKI 460

Query: 463 KGESRKNVKRFFALEQQSDFAYLDDYYP-HLHSLLYFTSESDHLDHIDWQKI-CEMYKLL 520
             + ++  +       Q D  Y  ++   H+ S          +  +DW K   E+    
Sbjct: 461 ITQFQRYHQPHTLSPDQEDCMYWYNFLAYHMASAKMHKELCALMFSLDWIKAKTELVGPA 520

Query: 521 RVL----DLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYT 569
            ++    +   ++  +  +  EN     +L LN   L   P      L     
Sbjct: 521 HLIHEFVEYRHILDEKDCAVSEN--FQEFLSLNGHLLGRQPFPNIVQLGLCEP 571

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score =  112 bits (280), Expect = 2e-25
 Identities = 96/609 (15%), Positives = 178/609 (29%), Gaps = 183/609 (30%)

Query: 82  MD-EINCFTYESEKVIDTFISSITQQKSQSGCREDICDALQGLQSK-----IIDIKQRMQ 135
           MD E     Y+ + ++  F  +         C+ D+ D  + + SK     II  K  + 
Sbjct: 7   MDFETGEHQYQYKDILSVFEDAF---VDNFDCK-DVQDMPKSILSKEEIDHIIMSKDAVS 62

Query: 136 QLEHIDSRIINELKSIKAQ------AGNFP---ASLSFKNRDTVGLDDRMEELLDLLIEG 186
               +   ++++ + +  +        N+    + +  + R    +     E  D L   
Sbjct: 63  GTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYND 122

Query: 187 PPQLSA--VTILDSI----------------------GLDKTAFAAEAYSGNYVKHYFDC 222
               +   V+ L                         G  KT  A +      V+   D 
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF 182

Query: 223 HA-WVQEPYTCYADQILDIIIKFLM-----------PSSRLII--------LHEYLMTKR 262
              W+        + +L+++ K L             SS + +        L   L +K 
Sbjct: 183 KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP 242

Query: 263 Y---LIVIDDVWSIEVWDIIREILPDNQNGSRVLIT------------------------ 295
           Y   L+V+ +V + + W+             ++L+T                        
Sbjct: 243 YENCLLVLLNVQNAKAWNAF-------NLSCKILLTTRFKQVTDFLSAATTTHISLDHHS 295

Query: 296 --LAKIDTVTLFQFENGQNIRLDLVP----TGGPLRV------------TYQGWPFHILY 337
             L   +  +L       + R   +P    T  P R+            T+  W  H+  
Sbjct: 296 MTLTPDEVKSL--LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK-HVNC 352

Query: 338 HGSISLEENKREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAE 397
                  +     I       S+   + P   +     L VFP    I T  L  +W   
Sbjct: 353 -------DKLTTIIES-----SLN-VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW--- 396

Query: 398 GFIPDNSEATAEKYLEQLINRGFVEVKKRRAGGT--INTCSIRSRCWPSLLVVTLNAEFV 455
               D  ++     + +L     VE  K+    T  I +  +  +         L+   V
Sbjct: 397 ---FDVIKSDVMVVVNKLHKYSLVE--KQPKESTISIPSIYLELKV-KLENEYALHRSIV 450

Query: 456 FSPILDPKGESRKNVKRFFALEQQSDFA--YLDDY-YPHLHSLLYFTSESDHLDHID-WQ 511
                    +     K F       D    YLD Y Y H+           HL +I+  +
Sbjct: 451 ---------DHYNIPKTF----DSDDLIPPYLDQYFYSHI---------GHHLKNIEHPE 488

Query: 512 KICEMYKLLRVLDLG---------SLVLNQYPSEIENLSLLR----YLKLNIPSLKSLPL 558
           ++     +   LD           S   N   S +  L  L+    Y+  N P  + L  
Sbjct: 489 RMTLFRMVF--LDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVN 546

Query: 559 SFFNYLLNL 567
           +  ++L  +
Sbjct: 547 AILDFLPKI 555

>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 = 65.6 bits (159), Expect = 5e-11
 Identities = 75/511 (14%), Positives = 151/511 (29%), Gaps = 152/511 (29%)

Query: 3   GSDRGDMDINFRLFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSW 62
            +      +   L  ++L   +     +  D +      +H+    +   L+   Y+   
Sbjct: 190 KNCNSPETVLEML--QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC- 246

Query: 63  LLLQKIAEDENDNPDLRTVMDEINCFTYESEKVIDTF-ISS----ITQQKSQSGCREDIC 117
           LL                V+  +      + K  + F +S      T+ K        + 
Sbjct: 247 LL----------------VLLNVQ-----NAKAWNAFNLSCKILLTTRFKQ-------VT 278

Query: 118 DALQGLQSKIIDIKQRMQQLEHIDSRIINELKSIKAQAGNFPASLSFKNRDTVGLDDRME 177
           D L    +  I +      L        +E+KS+  +                 LD R +
Sbjct: 279 DFLSAATTTHISLDHHSMTLTP------DEVKSLLLKY----------------LDCRPQ 316

Query: 178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG----NYVKHYFDCHAWVQEPYTCY 233
           +L       P ++        + +     A     G    +  KH               
Sbjct: 317 DL-------PREVLTTNPR-RLSI----IAESIRDGLATWDNWKHVN------------- 351

Query: 234 ADQILDIIIKFLMPSSRLIILHEYLMTKRYL-IVI--DDV----------WSIEVWDIIR 280
            D++  II       S L +L      K +  + +               W   +   + 
Sbjct: 352 CDKLTTII------ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM 405

Query: 281 EILPD-------NQNGSRVLITLAKIDTVTLFQFENGQNIRLDLV---------PTGGPL 324
            ++          +      I++  I      + EN   +   +V          +   +
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465

Query: 325 RVTYQG-WPFHILYHGSISLEENKREAIAKPIFLQSVAYCMLPFPL--KLCCLYLPVFPA 381
                  +  HI +H   ++E  +R  + + +FL         F L  K+         +
Sbjct: 466 PPYLDQYFYSHIGHHLK-NIEHPERMTLFRMVFLD------FRF-LEQKIRHDSTAWNAS 517

Query: 382 HLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVKKRRAGGTINTCSIRSRC 441
              ++T  L QL   + +I DN +   E+ +  +++  F+          I    I S+ 
Sbjct: 518 GSILNT--LQQLKFYKPYICDN-DPKYERLVNAILD--FLP--------KIEENLICSKY 564

Query: 442 WPSLLVVTLNAEFVFSPILDPKGESRKNVKR 472
              LL + L AE     I +   E+ K V+R
Sbjct: 565 -TDLLRIALMAE--DEAIFE---EAHKQVQR 589

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.9 bits (113), Expect = 1e-05
 Identities = 68/515 (13%), Positives = 134/515 (26%), Gaps = 165/515 (32%)

Query: 387 TRQLYQLWIAEGFIPDNSEATAEKYLEQLI--NRGFV-----EVKKRRAGGTINTCSIRS 439
           +  L   W          E   +K++E+++  N  F+       +++ +  T      R 
Sbjct: 62  SGTLRLFWTLL----SKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD 117

Query: 440 RCWPSLLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAYLDDYYPHLH------ 493
           R +        N   VF+     + +    +++  AL +      +      +       
Sbjct: 118 RLY--------NDNQVFAKYNVSRLQPYLKLRQ--ALLELRPAKNVL-----IDGVLGSG 162

Query: 494 -SLLYFTSESDHL------DHIDWQKICEMYKLLRVLD-LGSLVLNQYPSEIENLSLLRY 545
            + +       +         I W  +        VL+ L  L+    P+          
Sbjct: 163 KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN 222

Query: 546 LKLNIPSLKSLPLSFF------NYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSIT 599
           +KL I S+++            N LL L                    K     N     
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLVL--------------LNVQNAKAWNAFNLSCKI 268

Query: 600 L-------------PAHPGNYCGSLENLNF-------ISALYPCCCTKDL----LGRLP- 634
           L              A   +      ++         +   Y  C  +DL    L   P 
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR 328

Query: 635 -------NLRN--LRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKM-------PRLSK 678
                  ++R+           N   L+  +   S L  L+ A   KM       P  + 
Sbjct: 329 RLSIIAESIRDGLATWDNWKHVNCDKLTTII--ESSLNVLEPAEYRKMFDRLSVFPPSAH 386

Query: 679 I------IL---AEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQ-------- 721
           I      ++           + +     + +   P  +   +P + +    +        
Sbjct: 387 IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH 446

Query: 722 ----NSYSGRKLTCGSDGFPRLK--------VLHLKSMLWLEEWTMGTGAMPKLECLIIN 769
               + Y+  K     D  P             HLK++   E  T+       +      
Sbjct: 447 RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL----FRMV------ 496

Query: 770 PCAYLKKMPEQLWCIKSLNNFNCWWPQPELRQKLR 804
              +L              +F  +     L QK+R
Sbjct: 497 ---FL--------------DFR-F-----LEQKIR 508

>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 = 73.1 bits (180), Expect = 2e-13
 Identities = 44/228 (19%), Positives = 75/228 (32%), Gaps = 37/228 (16%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
           +  + L  + +      +      + L +    LK  P      L  L +L +  +    
Sbjct: 287 VSAMSLAGVSIKYLED-VPKHFKWQSLSIIRCQLKQFP---TLDLPFLKSLTLTMNKGS- 341

Query: 580 TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNL 639
            + +   +  L +L+                    N +S    CC   DL     +LR+L
Sbjct: 342 ISFKKVALPSLSYLDLSR-----------------NALSFS-GCCSYSDL--GTNSLRHL 381

Query: 640 RIQGDLSYNQ-SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPH--SLTHLSFS 696
               DLS+N   ++S +   L  L+ L   +      L ++      F     L +L  S
Sbjct: 382 ----DLSFNGAIIMSANFMGLEELQHLDFQHS----TLKRVT-EFSAFLSLEKLLYLDIS 432

Query: 697 NTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
            T+   D       L  L  LK+  NS+    L+        L  L L
Sbjct: 433 YTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDL 480

>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 = 68.5 bits (168), Expect = 5e-12
 Identities = 58/314 (18%), Positives = 96/314 (30%), Gaps = 57/314 (18%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM---PFSY 576
            + L +    L Q+P+   +L  L+ L L +    S+       L +L  LD+     S+
Sbjct: 309 WQSLSIIRCQLKQFPTL--DLPFLKSLTLTMNKG-SISFKKVA-LPSLSYLDLSRNALSF 364

Query: 577 IDHTADEFWKMKKLRHLNFGSITLPAHPGNYCG--SLENL----NFISALYPCCCTKDLL 630
               +        LRHL+           N+ G   L++L    + +  +          
Sbjct: 365 SGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEF----SAF 420

Query: 631 GRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLAN-----------ESKMPRLS 677
             L  L  L    D+SY             L+ L +LK+A             +    L+
Sbjct: 421 LSLEKLLYL----DISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLT 476

Query: 678 KIILA--------EYVFP--HSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGR 727
            + L+          VF   H L  L+ S+ +L+        +L  L  L    N     
Sbjct: 477 FLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRIETS 536

Query: 728 KLTCGSDGFPRLKVLHLK--------SMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPE 779
           K          L   +L               +W         L  +    CA   +M  
Sbjct: 537 KGILQH-FPKSLAFFNLTNNSVACICEHQKFLQWVKEQK--QFLVNVEQMTCATPVEMNT 593

Query: 780 QLWCIKSLNNFNCW 793
            L  +   NN  C+
Sbjct: 594 SL--VLDFNNSTCY 605

>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 = 58.9 bits (143), Expect = 5e-09
 Identities = 39/247 (15%), Positives = 76/247 (30%), Gaps = 28/247 (11%)

Query: 517 YKLLRVLDLGSLVLNQ----YPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM 572
           +  L+ LDL      +           L  L  L L    ++S     F+ L +L  L  
Sbjct: 55  FSELQWLDLSR---CEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVA 111

Query: 573 PFSYIDH-TADEFWKMKKLRHLN-----FGSITLPAHPGNYCGSLENL----NFISALYP 622
             + +    +    ++  L+ LN       S  LPA+  N   +L ++    N+I  +  
Sbjct: 112 VETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSN-LTNLVHVDLSYNYIQTITV 170

Query: 623 CCCTKDLLGRLPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLESLKLAN---ESKMPRLSK 678
                + L  L     + +  D+S N    +     +   L  L L      S + +   
Sbjct: 171 -----NDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCL 225

Query: 679 IILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGS-DGFP 737
             LA       +        +L       +E L  + + + +    +             
Sbjct: 226 QNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLA 285

Query: 738 RLKVLHL 744
            +  + L
Sbjct: 286 NVSAMSL 292

>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 = 6e-06
 Identities = 28/163 (17%), Positives = 47/163 (28%), Gaps = 24/163 (14%)

Query: 590 LRHLNFGSITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGRLPNLRNLRIQGDL 645
                   +     P +   S +N+    N +  L               L+ L    DL
Sbjct: 18  CMDQKLSKV-----PDDIPSSTKNIDLSFNPLKILKS-----YSFSNFSELQWL----DL 63

Query: 646 SYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDD 703
           S  +  ++  K+   L  L +L L        +       +    SL +L    T L   
Sbjct: 64  SRCEIETIEDKAWHGLHHLSNLILTG----NPIQSFSPGSFSGLTSLENLVAVETKLASL 119

Query: 704 PMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKS 746
               + +L  L+ L +  N     KL         L  + L  
Sbjct: 120 ESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSY 162

>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 = 72.7 bits (179), Expect = 2e-13
 Identities = 55/233 (23%), Positives = 92/233 (39%), Gaps = 37/233 (15%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYI-- 577
           L+ LDL +  L++ PS +  LS L+ L L+    ++L     +   +L  L +  +    
Sbjct: 280 LQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRL 339

Query: 578 DHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLR 637
           +        ++ LR L+                    + I     C      L  L +L+
Sbjct: 340 ELGTGCLENLENLRELDLSH-----------------DDIETSDCC---NLQLRNLSHLQ 379

Query: 638 NLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVF--PHSLTHL 693
           +L    +LSYN+  SL +++      LE L LA      RL     A+  F   H L  L
Sbjct: 380 SL----NLSYNEPLSLKTEAFKECPQLELLDLAFT----RLKVKD-AQSPFQNLHLLKVL 430

Query: 694 SFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGS--DGFPRLKVLHL 744
           + S++ L        + LP LQ L L+ N +    +   +      RL++L L
Sbjct: 431 NLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVL 483

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 65.0 bits (159), Expect = 5e-11
 Identities = 33/233 (14%), Positives = 67/233 (28%), Gaps = 38/233 (16%)

Query: 520 LRVLDLGSLVLNQYPSEIEN---LSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSY 576
           L +     +        +        +  + L      ++  + F+    L  LD+  ++
Sbjct: 230 LWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATH 289

Query: 577 IDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNL 636
           +         +  L+ L   +                 N    L             P+L
Sbjct: 290 LSELPSGLVGLSTLKKLVLSA-----------------NKFENLCQ-----ISASNFPSL 327

Query: 637 RNLRIQGDLSYNQ---SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPH--SLT 691
            +L     +  N     L +  L  L  L  L L+++     +           +   L 
Sbjct: 328 THL----SIKGNTKRLELGTGCLENLENLRELDLSHD----DIETSDCCNLQLRNLSHLQ 379

Query: 692 HLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
            L+ S  + +     A ++ P L++L L       +           LKVL+L
Sbjct: 380 SLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNL 432

>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 = 56.2 bits (136), Expect = 3e-08
 Identities = 35/242 (14%), Positives = 68/242 (28%), Gaps = 32/242 (13%)

Query: 520 LRVLDLGSLVLNQ----YPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFS 575
              L+      N       +    L  L +L L    +  +    F     L TL +  +
Sbjct: 35  TECLEFSF---NVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTAN 91

Query: 576 YIDH-TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENL-------NFISALYPCCCTK 627
            +           K L+HL F    + +       + + L       N IS++       
Sbjct: 92  PLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKL----- 146

Query: 628 DLLGRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYV 685
                   L+ L    D   N    L  + +  L    +L L N +    ++ I    + 
Sbjct: 147 PKGFPTEKLKVL----DFQNNAIHYLSKEDMSSLQQATNLSL-NLNGND-IAGIEPGAFD 200

Query: 686 FPHSLTHLSFSNTDLMDDPMPALEKLPL--LQVLKLKQNSYSG-RKLTCGSDGFPRLKVL 742
                  L+F  T  +      L+   +  L +   +                   ++ +
Sbjct: 201 SAV-FQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESI 259

Query: 743 HL 744
           +L
Sbjct: 260 NL 261

>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 = 56.2 bits (136), Expect = 3e-08
 Identities = 41/268 (15%), Positives = 69/268 (25%), Gaps = 60/268 (22%)

Query: 520 LRVLDLGSLVLNQ----YPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM--- 572
           L+ L                 + N   L  L L    + S+ L        L  LD    
Sbjct: 107 LKHLFFIQ---TGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNN 163

Query: 573 PFSYIDHTA-----------------------DEFWKMKKLRHLNFGS-----ITLPAHP 604
              Y+                              +     + LNFG      +      
Sbjct: 164 AIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLK 223

Query: 605 GNYCGSLENLNF----ISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQ--SLLSKSLCR 658
            +   SL    F       +     +  +   L  +    I  +L  +   ++ S +   
Sbjct: 224 NSTIQSLWLGTFEDMDDEDI-----SPAVFEGLCEMSVESI--NLQKHYFFNISSNTFHC 276

Query: 659 LSCLESLKLANESKMPRLSKIILAEYVFPH--SLTHLSFSNTDLMDDPMPALEKLPLLQV 716
            S L+ L L        LS++           +L  L  S     +    +    P L  
Sbjct: 277 FSGLQELDLTAT----HLSEL---PSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTH 329

Query: 717 LKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
           L +K N+      T   +    L+ L L
Sbjct: 330 LSIKGNTKRLELGTGCLENLENLRELDL 357

>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 = 49.6 bits (119), Expect = 3e-06
 Identities = 40/164 (24%), Positives = 55/164 (33%), Gaps = 27/164 (16%)

Query: 590 LRHLNFGSITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGRLPNLRNLRIQGDL 645
             +L    I     PG    S E L    N +  +           RL NL  L    DL
Sbjct: 19  CENLGLNEI-----PGTLPNSTECLEFSFNVLPTIQN-----TTFSRLINLTFL----DL 64

Query: 646 SYNQ--SLLSKSLCRLSCLESLKLA-NESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMD 702
           +  Q   +   +      L++L L  N      L  +       P +L HL F  T +  
Sbjct: 65  TRCQIYWIHEDTFQSQHRLDTLVLTAN-----PLIFMAETALSGPKALKHLFFIQTGISS 119

Query: 703 DPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKS 746
                L     L+ L L  N  S  KL  G     +LKVL  ++
Sbjct: 120 IDFIPLHNQKTLESLYLGSNHISSIKLPKGF-PTEKLKVLDFQN 162

>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 = 70.7 bits (174), Expect = 3e-13
 Identities = 42/292 (14%), Positives = 91/292 (31%), Gaps = 43/292 (14%)

Query: 510 WQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFN-YLLNLY 568
            +   ++    +                 N +  +       +LK+      +       
Sbjct: 25  LRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRV 84

Query: 569 TLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKD 628
            L++    +    D+ +++  L+H+   +                   +  L        
Sbjct: 85  ALELRSVPLPQFPDQAFRLSHLQHMTIDA-----------------AGLMELPDT----- 122

Query: 629 LLGRLPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLESLKLANESKMPRL-----SKIILA 682
            + +   L  L     L+ N    L  S+  L+ L  L +    ++  L     S     
Sbjct: 123 -MQQFAGLETL----TLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASG 177

Query: 683 EYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGF---PRL 739
           E+    +L  L    T +   P  ++  L  L+ LK++ +      L+         P+L
Sbjct: 178 EHQGLVNLQSLRLEWTGIRSLP-ASIANLQNLKSLKIRNS-----PLSALGPAIHHLPKL 231

Query: 740 KVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFN 791
           + L L+    L  +    G    L+ LI+  C+ L  +P  +  +  L   +
Sbjct: 232 EELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLD 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 = 70.0 bits (172), Expect = 5e-13
 Identities = 44/225 (19%), Positives = 81/225 (36%), Gaps = 40/225 (17%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
              L+L S+ L Q+P +   LS L+++ ++   L  LP +       L TL +  + +  
Sbjct: 83  RVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQ-FAGLETLTLARNPLRA 141

Query: 580 TADEFWKMKKLRHLN-------------FGSITLPAHPGNYCGSLENL----NFISALYP 622
                  + +LR L+               S            +L++L      I +L P
Sbjct: 142 LPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQG-LVNLQSLRLEWTGIRSL-P 199

Query: 623 CCCTKDLLGRLPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLESLKLANESKMPRLSKII- 680
                  +  L NL++L     +  +  S L  ++  L  LE L L   + +     I  
Sbjct: 200 -----ASIANLQNLKSL----KIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFG 250

Query: 681 -LAEYVFPHSLTHLSFSN-TDLMDDPMPALEKLPLLQVLKLKQNS 723
                     L  L   + ++L+  P   + +L  L+ L L+   
Sbjct: 251 GR------APLKRLILKDCSNLLTLP-LDIHRLTQLEKLDLRGCV 288

>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 = 46.1 bits (110), Expect = 2e-05
 Identities = 31/138 (22%), Positives = 50/138 (36%), Gaps = 14/138 (10%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMP-FSYID 578
           L+ L L    +   P+ I NL  L+ LK+    L +L  +  + L  L  LD+   + + 
Sbjct: 185 LQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHH-LPKLEELDLRGCTALR 243

Query: 579 HTADEFWKMKKLRHLNFGS----ITLPAHPGNYCGSLENLNFISALYPCCCTKDL---LG 631
           +    F     L+ L        +TLP         LE L+    L  C     L   + 
Sbjct: 244 NYPPIFGGRAPLKRLILKDCSNLLTLPLDIHR-LTQLEKLD----LRGCVNLSRLPSLIA 298

Query: 632 RLPNLRNLRIQGDLSYNQ 649
           +LP    + +   L    
Sbjct: 299 QLPANCIILVPPHLQAQL 316

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 72.4 bits (178), Expect = 3e-13
 Identities = 41/222 (18%), Positives = 73/222 (32%), Gaps = 16/222 (7%)

Query: 527 SLVLNQYPSEIENLSLLRYLKLNIPSLKSL-PLSFFNYLLNLYTLDMPFSYIDHTADEFW 585
              L+        L+ +    L   +++ +   S+     +L  ++  F        +  
Sbjct: 268 DYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFP--TLKLK 325

Query: 586 KMKKLRHLNFGSITLPAHPGNYCGSLENLNFIS-ALYPCCCTKDLLGRLPNLRNLRIQGD 644
            +K+L   +       +       SLE L+     L    C         +L+ L    D
Sbjct: 326 SLKRLTFTSNKGGNAFSEVD--LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYL----D 379

Query: 645 LSYNQ-SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEY-VFPHSLTHLSFSNTDLMD 702
           LS+N    +S +   L  LE L   +      L ++      +   +L +L  S+T    
Sbjct: 380 LSFNGVITMSSNFLGLEQLEHLDFQHS----NLKQMSEFSVFLSLRNLIYLDISHTHTRV 435

Query: 703 DPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
                   L  L+VLK+  NS+    L         L  L L
Sbjct: 436 AFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDL 477

>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 = 71.6 bits (176), Expect = 4e-13
 Identities = 47/257 (18%), Positives = 79/257 (30%), Gaps = 39/257 (15%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKL---NIPSLKSLPLSFFNYLLNLYTLDMPFSY 576
           L+ L   S       SE+ +L  L +L L    +        S F    +L  LD+ F+ 
Sbjct: 327 LKRLTFTSNKGGNAFSEV-DLPSLEFLDLSRNGLSFKGCCSQSDFG-TTSLKYLDLSFNG 384

Query: 577 IDHTADEFWKMKKLRHLNFG----SITLPAHPGNYCGSLENL----NFISALYPCCCTKD 628
           +   +  F  +++L HL+F                  +L  L          +       
Sbjct: 385 VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFN-----G 439

Query: 629 LLGRLPNLRNLRIQGDLSYNQ---SLLSKSLCRLSCLESLKLA-NESKMPRLSKIILAEY 684
           +   L +L  L     ++ N    + L      L  L  L L+       +L ++    +
Sbjct: 440 IFNGLSSLEVL----KMAGNSFQENFLPDIFTELRNLTFLDLSQC-----QLEQLSPTAF 490

Query: 685 VFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
               SL  L+ S+ +         + L  LQVL    N     K          L  L+L
Sbjct: 491 NSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL 550

Query: 745 K--------SMLWLEEW 753
                          +W
Sbjct: 551 TQNDFACTCEHQSFLQW 567

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 58.1 bits (141), Expect = 7e-09
 Identities = 46/245 (18%), Positives = 83/245 (33%), Gaps = 31/245 (12%)

Query: 520 LRVLDLGSLVLNQ----YPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFS 575
            + LDL     N           +   L+ L L+   ++++    +  L +L TL +  +
Sbjct: 30  TKNLDLSF---NPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN 86

Query: 576 YIDH-TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENL-------NFISALYPCCCTK 627
            I       F  +  L+ L      L +      G L+ L       N I +        
Sbjct: 87  PIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLP---- 142

Query: 628 DLLGRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYV 685
           +    L NL +L    DLS N+  S+    L  L  +  L L+ +  +  ++ I      
Sbjct: 143 EYFSNLTNLEHL----DLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPG--A 196

Query: 686 FPH-SLTHLSFS-NTDLMDDPMPALEKLPLLQVLKLKQNSYSG--RKLTCGSDGFPRLKV 741
           F    L  L+   N D ++     ++ L  L+V +L    +                L  
Sbjct: 197 FKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCN 256

Query: 742 LHLKS 746
           L ++ 
Sbjct: 257 LTIEE 261

>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 = 52.7 bits (127), Expect = 3e-07
 Identities = 39/164 (23%), Positives = 55/164 (33%), Gaps = 26/164 (15%)

Query: 590 LRHLNFGSITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGRLPNLRNLRIQGDL 645
              LNF  I     P N   S +NL    N +  L             P L+ L    DL
Sbjct: 14  CMELNFYKI-----PDNLPFSTKNLDLSFNPLRHLGS-----YSFFSFPELQVL----DL 59

Query: 646 SYNQ--SLLSKSLCRLSCLESLKLA-NESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMD 702
           S  +  ++   +   LS L +L L  N      +  + L  +    SL  L    T+L  
Sbjct: 60  SRCEIQTIEDGAYQSLSHLSTLILTGN-----PIQSLALGAFSGLSSLQKLVAVETNLAS 114

Query: 703 DPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKS 746
                +  L  L+ L +  N     KL         L+ L L S
Sbjct: 115 LENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 158

>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 = 52.3 bits (126), Expect = 5e-07
 Identities = 43/241 (17%), Positives = 82/241 (34%), Gaps = 28/241 (11%)

Query: 520 LRVLDLGS--LVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL----YTLDMP 573
           L+ L++    +   + P    NL+ L +L L+   ++S+  +    L  +     +LD+ 
Sbjct: 126 LKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLS 185

Query: 574 FSYIDHTADEFWKMKKLRHL----NFGSITLPAHPGNYCGSLENLNFISALYPCC--CTK 627
            + ++      +K  +L  L    NF S+ +          LE    +   +       K
Sbjct: 186 LNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEK 245

Query: 628 DLLGRLPNLRNLRIQG-DLSYN---QSLLSKSLCRLSCLESLKLANESKMPRLSKIILAE 683
                L  L NL I+   L+Y       +      L+ + S  L +      + ++   +
Sbjct: 246 FDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVS----VTIERVK--D 299

Query: 684 YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLH 743
           + +     HL   N      P   L+ L  L     K  +             P L+ L 
Sbjct: 300 FSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAF------SEVDLPSLEFLD 353

Query: 744 L 744
           L
Sbjct: 354 L 354

>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 = 72.0 bits (177), Expect = 4e-13
 Identities = 51/242 (21%), Positives = 84/242 (34%), Gaps = 31/242 (12%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
             V D   L L Q P ++   + +  L L    L+ LP + F     L +LD+ F+ I  
Sbjct: 6   HEVADCSHLKLTQVPDDL--PTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISK 63

Query: 580 -TADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLG 631
              +   K+  L+ LN        L      +C +L  L    N I  +       +   
Sbjct: 64  LEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKN-----NPFV 118

Query: 632 RLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLA-NESKMPRLSKIILAE--YVF 686
           +  NL  L    DLS+N   S    +  +L  L+ L L+ N     ++  +   E     
Sbjct: 119 KQKNLITL----DLSHNGLSSTKLGTQVQLENLQELLLSNN-----KIQALKSEELDIFA 169

Query: 687 PHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGR--KLTCGSDGFPRLKVLHL 744
             SL  L  S+  + +        +  L  L L          +  C       ++ L L
Sbjct: 170 NSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSL 229

Query: 745 KS 746
            +
Sbjct: 230 SN 231

>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 = 69.3 bits (170), Expect = 3e-12
 Identities = 47/258 (18%), Positives = 79/258 (30%), Gaps = 54/258 (20%)

Query: 520 LRVLDLGS--LVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM---PF 574
           L VLDLG   +       E   L  +  + L+      L  + F  + +L  L +     
Sbjct: 407 LEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVAL 466

Query: 575 SYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLP 634
             +D +   F  ++ L  L+  +                 N I+ +       D+L  L 
Sbjct: 467 KNVDSSPSPFQPLRNLTILDLSN-----------------NNIANIND-----DMLEGLE 504

Query: 635 NLRNLRIQGDLSYNQ----------SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEY 684
            L  L    DL +N                 L  LS L  L L +        +I +  +
Sbjct: 505 KLEIL----DLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESN----GFDEIPVEVF 556

Query: 685 VFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
                L  +     +L   P         L+ L L++N  +  +       F  L  L +
Sbjct: 557 KDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTELDM 616

Query: 745 ---------KSMLWLEEW 753
                    +S+ W   W
Sbjct: 617 RFNPFDCTCESIAWFVNW 634

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 66.9 bits (164), Expect = 2e-11
 Identities = 49/248 (19%), Positives = 83/248 (33%), Gaps = 33/248 (13%)

Query: 520 LRVLDLGSLVLNQ-YPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYID 578
           L +LDL    LN         L  L Y  L   +++ L     + L N+  L++  S+  
Sbjct: 250 LTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTK 309

Query: 579 HT----------ADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENL-------NFISALY 621
            +             F  +K L HLN     +P    N    L NL       +F S   
Sbjct: 310 QSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRT 369

Query: 622 PCCCTKDLLGRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKI 679
               T   L     L  L    +L+ N+   + S +   L  LE L L        + + 
Sbjct: 370 LTNETFVSLA-HSPLHIL----NLTKNKISKIESDAFSWLGHLEVLDLGLN----EIGQE 420

Query: 680 ILAEYVFPH--SLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGS-DGF 736
           +  +  +    ++  +  S    +     +   +P LQ L L++ +      +       
Sbjct: 421 LTGQ-EWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPL 479

Query: 737 PRLKVLHL 744
             L +L L
Sbjct: 480 RNLTILDL 487

>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 = 58.1 bits (141), Expect = 9e-09
 Identities = 61/269 (22%), Positives = 90/269 (33%), Gaps = 54/269 (20%)

Query: 517 YKLLRVLDLGSLVLNQY----PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM 572
           Y  L  LD+G    N      P   + L +L+ L L    L  L    F +  NL  L +
Sbjct: 48  YSQLTSLDVGF---NTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHL 104

Query: 573 PFSYIDH-TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENL-------NFISALYPCC 624
             + I     + F K K L  L+     L +        LENL       N I AL    
Sbjct: 105 MSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKS-- 162

Query: 625 CTKDL-LGRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLAN------------ 669
             ++L +    +L+ L    +LS NQ           +  L  L L N            
Sbjct: 163 --EELDIFANSSLKKL----ELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLC 216

Query: 670 -ESKMPRLSKIILA--------EYVFPH----SLTHLSFSNTDLMDDPMPALEKLPLLQV 716
            E     +  + L+           F      +LT L  S  +L      +   LP L+ 
Sbjct: 217 LELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEY 276

Query: 717 LKLKQNSYSGRKLTCGS-DGFPRLKVLHL 744
             L+ N+     L   S  G   ++ L+L
Sbjct: 277 FFLEYNNIQH--LFSHSLHGLFNVRYLNL 303

>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 = 70.0 bits (171), Expect = 1e-12
 Identities = 37/262 (14%), Positives = 68/262 (25%), Gaps = 49/262 (18%)

Query: 74  DNPDLRTVMDEINCFTYESEKVIDTFISSITQQKSQSGCREDICDALQGLQSKIIDIKQR 133
            + + R  +  +      +E   +      T+ +  +            L   I      
Sbjct: 19  HDFEPRDALTYLEGKNIFTEDHSELISKMSTRLERIANFLRIYRRQASELGPLIDFFNYN 78

Query: 134 MQQ-----LEHIDSRIINELKSIKAQAGNFPASLSFKNR-----------DTVGLDDRME 177
            Q      LE      INE   ++        S    +R                +  ++
Sbjct: 79  NQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIREYHVD 138

Query: 178 ELLDLLIEGPPQLSAVTILDSI----GLDKTAFAAEAY--SGNYVKHYFDCHAWV---QE 228
            ++  L E     S       +    G  K+  A++A   S   +   +D   W+     
Sbjct: 139 RVIKKLDEMCDLDSFFL---FLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGT 195

Query: 229 PYTCYADQILDIIIKFLMPSSRL---------------IILHEYLMTKRYLIVIDDVWSI 273
                 D   DI++        L               +I +  +     L V DDV   
Sbjct: 196 APKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE 255

Query: 274 EVWDIIREILPDNQNGSRVLIT 295
           E            +   R L+T
Sbjct: 256 ETIR------WAQELRLRCLVT 271

>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 = 55.0 bits (132), Expect = 6e-08
 Identities = 12/102 (11%), Positives = 28/102 (27%), Gaps = 7/102 (6%)

Query: 338 HGSISLEENKREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAE 397
              +                +     +L    +    +  V P  ++I  +    +   +
Sbjct: 360 LVGVECITPYSYKSLAMALQRC--VEVLSDEDRSALAFAVVMPPGVDIPVKLWSCVIPVD 417

Query: 398 GFIPDN--SEATAEKYLEQLINRGFVEVKKRRAGGTINTCSI 437
               +    +      L++L  RG +   KR     + T  I
Sbjct: 418 ICSNEEEQLDDEVADRLKRLSKRGALLSGKR---MPVLTFKI 456

>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 = 67.8 bits (166), Expect = 5e-12
 Identities = 55/245 (22%), Positives = 94/245 (38%), Gaps = 31/245 (12%)

Query: 517 YKLLRVLDLGSLVLNQYPSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM--- 572
           +  L  L+L   +++        NL  LR L L    LK +PL  F  L NL  LD+   
Sbjct: 55  FPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISEN 114

Query: 573 PFSYIDHTADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENL----NFISALYPCCC 625
               +      F  +  L+ L  G    + +     +   SLE L      ++++     
Sbjct: 115 KIVILLDYM--FQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSI----- 167

Query: 626 TKDLLGRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAE 683
             + L  L  L  LR    L +    ++   S  RL  L+ L++++   +  ++   L  
Sbjct: 168 PTEALSHLHGLIVLR----LRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCL-- 221

Query: 684 YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGS-DGFPRLKVL 742
             +  +LT LS ++ +L   P  A+  L  L+ L L  N  S   +         RL+ +
Sbjct: 222 --YGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPIS--TIEGSMLHELLRLQEI 277

Query: 743 HLKSM 747
            L   
Sbjct: 278 QLVGG 282

>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 = 67.4 bits (165), Expect = 9e-12
 Identities = 51/250 (20%), Positives = 82/250 (32%), Gaps = 26/250 (10%)

Query: 504 HLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLP-LSFFN 562
             D    + +C +      L      L+        L+ +    L   +++ +   S+  
Sbjct: 245 KFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNF 304

Query: 563 YLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHP-GNYCGSLENL----NFI 617
              +L  ++  F           K+K L+ L F S             SLE L    N +
Sbjct: 305 GWQHLELVNCKFGQFP-----TLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGL 359

Query: 618 SALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLESLKLANESKMPRL 676
           S      C         +L+ L    DLS+N    +S +   L  LE L   +      L
Sbjct: 360 SFKG---CCSQSDFGTTSLKYL----DLSFNGVITMSSNFLGLEQLEHLDFQH----SNL 408

Query: 677 SKIILAEYVF--PHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSD 734
            ++     VF    +L +L  S+T            L  L+VLK+  NS+    L     
Sbjct: 409 KQMS-EFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFT 467

Query: 735 GFPRLKVLHL 744
               L  L L
Sbjct: 468 ELRNLTFLDL 477

>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 = 62.0 bits (151), Expect = 4e-10
 Identities = 46/221 (20%), Positives = 78/221 (35%), Gaps = 37/221 (16%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKL--NIPSLKSLPLSFFNYLLNLYTLDMPFSYI 577
           L+ L   S       SE+ +L  L +L L  N  S K           +L  LD+ F+ +
Sbjct: 327 LKRLTFTSNKGGNAFSEV-DLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGV 385

Query: 578 DHTADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENL-------NFISALYPCCCTK 627
              +  F  +++L HL+F       +     +   SL NL             +      
Sbjct: 386 ITMSSNFLGLEQLEHLDFQHSNLKQMS--EFSVFLSLRNLIYLDISHTHTRVAFN----- 438

Query: 628 DLLGRLPNLRNLRIQGDLSYNQ---SLLSKSLCRLSCLESLKLA-NESKMPRLSKIILAE 683
            +   L +L  L     ++ N    + L      L  L  L L+       +L ++  + 
Sbjct: 439 GIFNGLSSLEVL----KMAGNSFQENFLPDIFTELRNLTFLDLSQC-----QLEQL--SP 487

Query: 684 YVFP--HSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQN 722
             F    SL  L+ ++  L   P    ++L  LQ + L  N
Sbjct: 488 TAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLHTN 528

>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 = 56.3 bits (136), Expect = 3e-08
 Identities = 51/255 (20%), Positives = 85/255 (33%), Gaps = 37/255 (14%)

Query: 517 YKLLRVLDLGSLVLNQYPSE-IENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFS 575
           +  L+VLDL    +        ++LS L  L L    ++SL L  F+ L +L  L    +
Sbjct: 51  FPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVET 110

Query: 576 YIDHTADE-FWKMKKLRHLN-----FGSITLPAHPGNYCGSLENL----NFISALYPCCC 625
            +    +     +K L+ LN       S  LP +  N   +LE+L    N I ++Y    
Sbjct: 111 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSN-LTNLEHLDLSSNKIQSIYC--- 166

Query: 626 TKDLLGRLPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEY 684
               L  L  +  L +  DLS N  + +     +   L  L L N      + K  +   
Sbjct: 167 --TDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCI--- 221

Query: 685 VFPHSLTHLSFSN------------TDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCG 732
                L  L                       +  L  L + +  +L    Y    +   
Sbjct: 222 ---QGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEE-FRLAYLDYYLDDIIDL 277

Query: 733 SDGFPRLKVLHLKSM 747
            +    +    L S+
Sbjct: 278 FNCLTNVSSFSLVSV 292

>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 = 53.2 bits (128), Expect = 2e-07
 Identities = 47/246 (19%), Positives = 85/246 (34%), Gaps = 31/246 (12%)

Query: 520 LRVLDLGSLVLNQ----YPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFS 575
            + LDL     N           +   L+ L L+   ++++    +  L +L TL +  +
Sbjct: 30  TKNLDLSF---NPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN 86

Query: 576 YIDH-TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENL-------NFISALYPCCCTK 627
            I       F  +  L+ L      L +      G L+ L       N I +        
Sbjct: 87  PIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLP---- 142

Query: 628 DLLGRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYV 685
           +    L NL +L    DLS N+  S+    L  L  +  L L+ +  +  ++ I      
Sbjct: 143 EYFSNLTNLEHL----DLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFI--QPGA 196

Query: 686 FPH-SLTHLSFS-NTDLMDDPMPALEKLPLLQVLKLKQNSY-SGRKLTCGSDG-FPRLKV 741
           F    L  L+   N D ++     ++ L  L+V +L    + +   L          L  
Sbjct: 197 FKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCN 256

Query: 742 LHLKSM 747
           L ++  
Sbjct: 257 LTIEEF 262

>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 = 48.2 bits (115), Expect = 1e-05
 Identities = 38/163 (23%), Positives = 54/163 (33%), Gaps = 24/163 (14%)

Query: 590 LRHLNFGSITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGRLPNLRNLRIQGDL 645
              LNF  I     P N   S +NL    N +  L             P L+ L    DL
Sbjct: 14  CMELNFYKI-----PDNLPFSTKNLDLSFNPLRHLGS-----YSFFSFPELQVL----DL 59

Query: 646 SYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDD 703
           S  +  ++   +   LS L +L L        +  + L  +    SL  L    T+L   
Sbjct: 60  SRCEIQTIEDGAYQSLSHLSTLILTGN----PIQSLALGAFSGLSSLQKLVAVETNLASL 115

Query: 704 PMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKS 746
               +  L  L+ L +  N     KL         L+ L L S
Sbjct: 116 ENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 158

>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 = 67.1 bits (164), Expect = 1e-11
 Identities = 39/233 (16%), Positives = 74/233 (31%), Gaps = 39/233 (16%)

Query: 520 LRVLDLGSLVLNQYPSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM---PFS 575
           +R L +    L    S +   L  ++ + +    +  +P SF  +L +L  LD+      
Sbjct: 288 IRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMV 347

Query: 576 YID-HTADEFWKMKKLRHLNFGS---ITLPAHPGNYCG--SLENL----NFISALYPCCC 625
                 +        L+ L        ++           +L +L    N    +   C 
Sbjct: 348 EEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQ 407

Query: 626 TKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLAN------ESKMPRLSKI 679
                     +R L    +LS    +     C    LE L ++N         +PRL ++
Sbjct: 408 ------WPEKMRFL----NLSSTG-IRVVKTCIPQTLEVLDVSNNNLDSFSLFLPRLQEL 456

Query: 680 ILA--------EYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSY 724
            ++        +      L  +  S   L   P    ++L  LQ + L  N +
Sbjct: 457 YISRNKLKTLPDASLFPVLLVMKISRNQLKSVPDGIFDRLTSLQKIWLHTNPW 509

>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 = 61.3 bits (149), Expect = 8e-10
 Identities = 50/254 (19%), Positives = 89/254 (35%), Gaps = 31/254 (12%)

Query: 517 YKLLRVLDLGSLVLNQYPSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFS 575
              L+VL L S  +N    +   +L  L +L L+   L SL  S+F  L +L  L++  +
Sbjct: 49  CANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGN 108

Query: 576 YID--HTADEFWKMKKLRHLNFGSI----TLPAHPGNYCGSLENL----NFISALYPCCC 625
                     F  +  L+ L  G++     +         SL  L      +        
Sbjct: 109 PYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQS--- 165

Query: 626 TKDLLGRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAE 683
               L  + ++ +L     L  ++   LL      LS +  L+L + + + R     L  
Sbjct: 166 --QSLKSIRDIHHL----TLHLSESAFLLEIFADILSSVRYLELRD-TNLARFQFSPLPV 218

Query: 684 YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTC-------GSDGF 736
                 +  L+F  + L D+    L KL    +L+L +  +    L          SD  
Sbjct: 219 DEVSSPMKKLAFRGSVLTDESFNELLKLLRY-ILELSEVEFDDCTLNGLGDFNPSESDVV 277

Query: 737 PRLKVLHLKSMLWL 750
             L  +   ++  L
Sbjct: 278 SELGKVETVTIRRL 291

>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 = 57.8 bits (140), Expect = 8e-09
 Identities = 43/238 (18%), Positives = 81/238 (34%), Gaps = 35/238 (14%)

Query: 521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH- 579
            +L L   +L     E ++ +L      N      +        + +  L +P  Y+ + 
Sbjct: 242 ELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYD 301

Query: 580 TADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGR 632
            +  +  ++K++ +   +     +P     +  SLE L    N +   Y         G 
Sbjct: 302 LSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEY--LKNSACKGA 359

Query: 633 LPNLRNLRIQGDLSYNQ----SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVF-- 686
            P+L+ L     LS N         + L  L  L SL ++        +           
Sbjct: 360 WPSLQTL----VLSQNHLRSMQKTGEILLTLKNLTSLDISR-------NTFHPMPDSCQW 408

Query: 687 PHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
           P  +  L+ S+T +        + L   +VL +  N      L   S   PRL+ L++
Sbjct: 409 PEKMRFLNLSSTGIRVVKTCIPQTL---EVLDVSNN-----NLDSFSLFLPRLQELYI 458

>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 = 55.9 bits (135), Expect = 4e-08
 Identities = 33/216 (15%), Positives = 78/216 (36%), Gaps = 24/216 (11%)

Query: 520 LRVLDLGSLVLNQ----YPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFS 575
           ++ LDL     N+       ++   + L+ L L    + ++    F  L +L  LD+  +
Sbjct: 28  MKSLDLSF---NKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDN 84

Query: 576 YIDH-TADEFWKMKKLRHLN-----FGSITLPAHPGNYCGSLENLNFISALYPCCCTKDL 629
           ++   ++  F  +  L++LN     + ++ + +   N   +L+ L   +        +  
Sbjct: 85  HLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPN-LTNLQTLRIGNVETFSEIRRID 143

Query: 630 LGRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFP 687
              L +L  L    ++      +  S+SL  +  +  L L         + ++       
Sbjct: 144 FAGLTSLNEL----EIKALSLRNYQSQSLKSIRDIHHLTLHL----SESAFLLEIFADIL 195

Query: 688 HSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNS 723
            S+ +L   +T+L       L    +   +K     
Sbjct: 196 SSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFR 231

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 64.0 bits (156), Expect = 9e-11
 Identities = 65/301 (21%), Positives = 96/301 (31%), Gaps = 65/301 (21%)

Query: 517 YKLLRVLDLGSLVLNQYPSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM--- 572
            + L +L L    +          L+ L  L+L    L ++P   F YL  L  L +   
Sbjct: 87  LRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNN 146

Query: 573 PFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGR 632
           P   I   A  F ++  LR L+                L  L  +S +     ++     
Sbjct: 147 PIESIPSYA--FNRIPSLRRLD----------------LGELKRLSYI-----SEGAFEG 183

Query: 633 LPNLRNLRIQGDLSYNQSLLSK--SLCRLSCLESLKLANESKMPRLSKIILAEYVFP--H 688
           L NLR L    +L+     L +  +L  L  L+ L L+       LS I      F    
Sbjct: 184 LSNLRYL----NLAMCN--LREIPNLTPLIKLDELDLSGN----HLSAI--RPGSFQGLM 231

Query: 689 SLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGS-DGFPRLKVLHLKS- 746
            L  L    + +      A + L  L  + L  N+ +   L          L+ +HL   
Sbjct: 232 HLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLT--LLPHDLFTPLHHLERIHLHHN 289

Query: 747 -------MLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQL--WCIKSL--NNFNCWWP 795
                  +LWL  W           C     C      P  L    I  L  N F C+ P
Sbjct: 290 PWNCNCDILWLSWWIKDMAPSNTACCAR---CNT----PPNLKGRYIGELDQNYFTCYAP 342

Query: 796 Q 796
            
Sbjct: 343 V 343

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 60.5 bits (147), Expect = 1e-09
 Identities = 49/240 (20%), Positives = 83/240 (34%), Gaps = 43/240 (17%)

Query: 514 CEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMP 573
           C        +      L + P  I   +  R L L+   ++ + ++ F +L +L  L + 
Sbjct: 39  CSCSNQFSKVICVRKNLREVPDGI--STNTRLLNLHENQIQIIKVNSFKHLRHLEILQLS 96

Query: 574 FSYIDH-TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGR 632
            ++I       F  +  L  L                     N ++ +            
Sbjct: 97  RNHIRTIEIGAFNGLANLNTLELFD-----------------NRLTTIPN-----GAFVY 134

Query: 633 LPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPH-- 688
           L  L+ L     L  N   S+ S +  R+  L  L L     + RLS I  +E  F    
Sbjct: 135 LSKLKEL----WLRNNPIESIPSYAFNRIPSLRRLDLGE---LKRLSYI--SEGAFEGLS 185

Query: 689 SLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGS-DGFPRLKVLHLKSM 747
           +L +L+ +  +L +  +P L  L  L  L L  N  S   +  GS  G   L+ L +   
Sbjct: 186 NLRYLNLAMCNLRE--IPNLTPLIKLDELDLSGNHLS--AIRPGSFQGLMHLQKLWMIQS 241

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 63.1 bits (154), Expect = 2e-10
 Identities = 39/242 (16%), Positives = 75/242 (30%), Gaps = 30/242 (12%)

Query: 520 LRVLDLGSLVLNQYPSEI------ENLSLLRYLKLN-IPSLKSLPLSFFNYLLNLYTLDM 572
               +    +   Y          E+ S L    +N  P  KS+  S     L    +  
Sbjct: 132 NMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRI-TLKDTQIGQ 190

Query: 573 PFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGR 632
             + I   +    ++ KLR    G+    A         EN  +                
Sbjct: 191 LSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKT---EDLKWDN 247

Query: 633 LPNLRNLRIQGDLSYNQSL--LSKSLCRLSCLESLKLAN----ESKMPRLSKIILAEYVF 686
           L +L ++    ++    +L  L   L  L  ++ + +A       +  +     LA+   
Sbjct: 248 LKDLTDV----EVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPV 303

Query: 687 PHSLTHLSFSNTDLMDDPMPA-LEKLPLLQVLKLKQNSYSGRKLTCGSDGF---PRLKVL 742
              +  +     +L   P+   L+K+  L +L+   N     +L      F    +L  L
Sbjct: 304 GEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYN-----QLEGKLPAFGSEIKLASL 358

Query: 743 HL 744
           +L
Sbjct: 359 NL 360

>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 = 55.4 bits (134), Expect = 5e-08
 Identities = 32/259 (12%), Positives = 73/259 (28%), Gaps = 55/259 (21%)

Query: 513 ICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKL-NIPSLKSLPLSFFNYLLNLYTLD 571
           ICE ++                 + +NL  L  +++ N P+L  LP      L  +  ++
Sbjct: 223 ICEAWENENSEYAQQYKTE--DLKWDNLKDLTDVEVYNCPNLTKLPTFLKA-LPEMQLIN 279

Query: 572 MPFSYIDHTAD---------EFWKMKKLRHL-----NFGSITLPAHPGNYCGSLENL--- 614
           +  +                +    +K++ +     N  +  +          L  L   
Sbjct: 280 VACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQK-MKKLGMLECL 338

Query: 615 -NFISALYP--CCCTK----------------DLLGRLPNLRNLRIQGDLSYNQSLLSK- 654
            N +    P      K                +  G    + NL      ++N+  L   
Sbjct: 339 YNQLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENL----SFAHNK--LKYI 392

Query: 655 ----SLCRLSCLESLKLAN---ESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPA 707
                   +S + ++  +     S   +    +        +++ ++ SN  +   P   
Sbjct: 393 PNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKEL 452

Query: 708 LEKLPLLQVLKLKQNSYSG 726
                 L  + L  N  + 
Sbjct: 453 FSTGSPLSSINLMGNMLTE 471

>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 = 50.8 bits (122), Expect = 1e-06
 Identities = 31/220 (14%), Positives = 62/220 (28%), Gaps = 34/220 (15%)

Query: 520 LRVLDLGSLVLNQY-PSEIENLSLLRYLKLN---------IPSLKSLPLSFFNYLLNLYT 569
           +  L L     +   P  I  L+ L  L L          +   K +  +  +       
Sbjct: 83  VTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMR 142

Query: 570 LDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALY------PC 623
           +    +++D+   E      L      S                   I  L         
Sbjct: 143 MHYQKTFVDYDPRE--DFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVS- 199

Query: 624 CCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAE 683
                 + RL  LR       +  +   +++++C     E+ + A         K    +
Sbjct: 200 ----KAVMRLTKLRQF----YMGNSP-FVAENICEAWENENSEYAQ------QYKTEDLK 244

Query: 684 YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNS 723
           +     LT +   N   +      L+ LP +Q++ +  N 
Sbjct: 245 WDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNR 284

>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 = 63.0 bits (154), Expect = 2e-10
 Identities = 50/244 (20%), Positives = 82/244 (33%), Gaps = 38/244 (15%)

Query: 520 LRVLDLGSLVLNQY----PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFS 575
           +  +DL S  LN       S + +L+ L  L L+   + +  +S F    +L +LD+  +
Sbjct: 52  VTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHI-NGSVSGFKCSASLTSLDLSRN 110

Query: 576 YID---HTADEFWKMKKLRHL----NFGSITLPAHPGNYCGSLENL----NFISALYPCC 624
            +     T         L+ L    N          G    SLE L    N IS      
Sbjct: 111 SLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVG 170

Query: 625 CTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLAN---ESKMPRLSKIIL 681
               L      L++L     +S N+      + R   LE L +++    + +P L     
Sbjct: 171 WV--LSDGCGELKHL----AISGNKISGDVDVSRCVNLEFLDVSSNNFSTGIPFLGDC-- 222

Query: 682 AEYVFPHSLTHLSFSNTDLMDDPMPA-LEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLK 740
                  +L HL  S   L        +     L++L +  N + G            L+
Sbjct: 223 ------SALQHLDISGNKL-SGDFSRAISTCTELKLLNISSNQFVG---PIPPLPLKSLQ 272

Query: 741 VLHL 744
            L L
Sbjct: 273 YLSL 276

>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 = 58.8 bits (143), Expect = 5e-09
 Identities = 55/247 (22%), Positives = 84/247 (34%), Gaps = 46/247 (18%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLN-------IPSLKSLPLSFFNYLLNLYTLDM 572
           L  L L +  +N   S  +  + L  L L+       + +L SL          L  L++
Sbjct: 79  LESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSL-----GSCSGLKFLNV 133

Query: 573 PFSYIDHT--ADEFWKMKKLRHLNF------GSITLPAHPGNYCGSLENL----NFISAL 620
             + +D         K+  L  L+       G+  +     + CG L++L    N IS  
Sbjct: 134 SSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGD 193

Query: 621 YPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSK---SLCRLSCLESLKLANESKMPRLS 677
                    + R  NL  L    D+S N    S     L   S L+ L ++       LS
Sbjct: 194 VD-------VSRCVNLEFL----DVSSNN--FSTGIPFLGDCSALQHLDISGNK----LS 236

Query: 678 KIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFP 737
                       L  L+ S+      P+P    L  LQ L L +N ++G      S    
Sbjct: 237 GDFSRAISTCTELKLLNISSNQF-VGPIPP-LPLKSLQYLSLAENKFTGEIPDFLSGACD 294

Query: 738 RLKVLHL 744
            L  L L
Sbjct: 295 TLTGLDL 301

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 56.8 bits (138), Expect = 2e-08
 Identities = 48/245 (19%), Positives = 80/245 (32%), Gaps = 51/245 (20%)

Query: 520 LRVLDLGSLVLNQY--PSEIENLSLLRYLKL-----------------NIPSLKSLPLSF 560
           L+ L++ S  L+     S    L+ L  L L                     LK L +S 
Sbjct: 128 LKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISG 187

Query: 561 --------FNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFG----SITLPAHPGNYC 608
                    +  +NL  LD+  +              L+HL+      S          C
Sbjct: 188 NKISGDVDVSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAIST-C 246

Query: 609 GSLENLNFISALYPCCCTKDLLGRLP--NLRNLRIQGDLSYNQ---SLLSKSLCRLSCLE 663
             L+ LN    +         +G +P   L++L+    L+ N+    +          L 
Sbjct: 247 TELKLLN----ISSN----QFVGPIPPLPLKSLQYL-SLAENKFTGEIPDFLSGACDTLT 297

Query: 664 SLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDD-PMPALEKLPLLQVLKLKQN 722
            L L+           +   +     L  L+ S+ +   + PM  L K+  L+VL L  N
Sbjct: 298 GLDLSGNH----FYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFN 353

Query: 723 SYSGR 727
            +SG 
Sbjct: 354 EFSGE 358

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 53.8 bits (130), Expect = 2e-07
 Identities = 66/267 (24%), Positives = 89/267 (33%), Gaps = 94/267 (35%)

Query: 520 LRVLDLGSLVLNQY----PSEIENLSLLRYLKL---------------NIPSLKSL---- 556
           L  LDL     N +    P    + SLL  L L                +  LK L    
Sbjct: 296 LTGLDLSG---NHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSF 352

Query: 557 -------PLSFFNYLLNLYTLDM---------PFSYIDHTADEFWKMKK--LRHLNF--- 595
                  P S  N   +L TLD+                      +  K  L+ L     
Sbjct: 353 NEFSGELPESLTNLSASLLTLDLSSNNFSGPIL--------PNLCQNPKNTLQELYLQNN 404

Query: 596 ---GSITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYN 648
              G I  P    N C  L +L    N++S   P       LG L  LR+L     L  N
Sbjct: 405 GFTGKI--PPTLSN-CSELVSLHLSFNYLSGTIPSS-----LGSLSKLRDL----KLWLN 452

Query: 649 QSLLS----KSLCRLSCLESLKLAN---ESKMPR-LSKIILAEYVFPHSLTHLSFSNTDL 700
              L     + L  +  LE+L L       ++P  LS           +L  +S SN  L
Sbjct: 453 M--LEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNC--------TNLNWISLSNNRL 502

Query: 701 MDDPMPA-LEKLPLLQVLKLKQNSYSG 726
               +P  + +L  L +LKL  NS+SG
Sbjct: 503 -TGEIPKWIGRLENLAILKLSNNSFSG 528

>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 = 49.9 bits (120), Expect = 3e-06
 Identities = 49/251 (19%), Positives = 74/251 (29%), Gaps = 66/251 (26%)

Query: 520 LRVLDLGSLVLNQY----PSEIENLSLLRYLKLNIPSLK-SLPLSFFNYLLNLYTLDM-- 572
           L+ L L +   N +    P  + N S L  L L+   L  ++P S  + L  L  L +  
Sbjct: 396 LQELYLQN---NGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGS-LSKLRDLKLWL 451

Query: 573 -------PFSYIDHTADEFWKMKKLRHLNFG--SIT--LPAHPGNYCGSLENL----NFI 617
                  P         E   +K L  L      +T  +P+   N C +L  +    N +
Sbjct: 452 NMLEGEIP--------QELMYVKTLETLILDFNDLTGEIPSGLSN-CTNLNWISLSNNRL 502

Query: 618 SALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSL---LSKSLCRLSCLESLKLA-NE--- 670
           +   P       +GRL NL  L     LS N S    +   L     L  L L  N    
Sbjct: 503 TGEIPKW-----IGRLENLAIL----KLSNN-SFSGNIPAELGDCRSLIWLDLNTNLFNG 552

Query: 671 ------SKMPRLSKIILAEYVFPHSLT--------HLSFSNTDLMDDPMPALEKLPLLQV 716
                  K                 +         H + +  +        L +L     
Sbjct: 553 TIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNP 612

Query: 717 LKLKQNSYSGR 727
             +    Y G 
Sbjct: 613 CNITSRVYGGH 623

>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 = 62.1 bits (151), Expect = 4e-10
 Identities = 58/250 (23%), Positives = 82/250 (32%), Gaps = 52/250 (20%)

Query: 520 LRVLDLGSLVLNQYPSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM---PFS 575
           L VL LG   + Q        L+ L  L+L    L  +P   F YL  L  L +   P  
Sbjct: 101 LEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIE 160

Query: 576 YIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPN 635
            I   A  F ++  L  L+                L  L  +  +     ++     L N
Sbjct: 161 SIPSYA--FNRVPSLMRLD----------------LGELKKLEYI-----SEGAFEGLFN 197

Query: 636 LRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLA-NESKMPRLSKIILAEYVFP--HSLTH 692
           L+ L    +L         +L  L  LE L+++ N        +I      F    SL  
Sbjct: 198 LKYL----NLGMCNIKDMPNLTPLVGLEELEMSGN-----HFPEI--RPGSFHGLSSLKK 246

Query: 693 LSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGS-DGFPRLKVLHLKS----- 746
           L   N+ +      A + L  L  L L  N+ S   L          L  LHL       
Sbjct: 247 LWVMNSQVSLIERNAFDGLASLVELNLAHNNLS--SLPHDLFTPLRYLVELHLHHNPWNC 304

Query: 747 ---MLWLEEW 753
              +LWL  W
Sbjct: 305 DCDILWLAWW 314

>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 = 58.2 bits (141), Expect = 6e-09
 Identities = 50/240 (20%), Positives = 85/240 (35%), Gaps = 43/240 (17%)

Query: 514 CEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMP 573
           C        +      L++ P  I   S  RYL L   +++ +    F +L +L  L + 
Sbjct: 50  CSCSNQFSKVVCTRRGLSEVPQGI--PSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLG 107

Query: 574 FSYIDH-TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGR 632
            + I       F  +  L  L                     N+++ +            
Sbjct: 108 RNSIRQIEVGAFNGLASLNTLELFD-----------------NWLTVIPS-----GAFEY 145

Query: 633 LPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPH-- 688
           L  LR L     L  N   S+ S +  R+  L  L L     + +L  I  +E  F    
Sbjct: 146 LSKLREL----WLRNNPIESIPSYAFNRVPSLMRLDLGE---LKKLEYI--SEGAFEGLF 196

Query: 689 SLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGS-DGFPRLKVLHLKSM 747
           +L +L+    ++ D  MP L  L  L+ L++  N +   ++  GS  G   LK L + + 
Sbjct: 197 NLKYLNLGMCNIKD--MPNLTPLVGLEELEMSGNHF--PEIRPGSFHGLSSLKKLWVMNS 252

>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 = 59.3 bits (144), Expect = 1e-09
 Identities = 49/258 (18%), Positives = 80/258 (31%), Gaps = 39/258 (15%)

Query: 520 LRVLDLGSLVLNQYPSEI-ENLSLLRYLKL--NIPSLKSLPLSFFNYLLNLYTLDMPFSY 576
              L+L S  L   P  + + L+ L  L L  N  S K           +L  LD+ F+ 
Sbjct: 30  ATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNG 89

Query: 577 IDHTADEFWKMKKLRHLNFGS---ITLPAHPG-NYCGSLENL----NFISALYPCCCTKD 628
           +   +  F  +++L HL+F       +          +L  L                  
Sbjct: 90  VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVA-----FNG 144

Query: 629 LLGRLPNLRNLRIQGDLSYNQ---SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYV 685
           +   L +L  L     ++ N    + L      L  L  L L+      +L ++  +   
Sbjct: 145 IFNGLSSLEVL----KMAGNSFQENFLPDIFTELRNLTFLDLSQC----QLEQL--SPTA 194

Query: 686 FP--HSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLH 743
           F    SL  L+ S+ +         + L  LQVL    N     K          L  L+
Sbjct: 195 FNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLN 254

Query: 744 LK--------SMLWLEEW 753
           L               +W
Sbjct: 255 LTQNDFACTCEHQSFLQW 272

>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 = 47.3 bits (113), Expect = 9e-06
 Identities = 41/197 (20%), Positives = 66/197 (33%), Gaps = 36/197 (18%)

Query: 552 SLKSLPLSFFNYLLNLYTLDMPFSYIDH-TADEFWKMKKLRHLNFGSITLPAHPGNYCGS 610
            L S+P    +   +   L++  + +       F K+ +L  L+  S             
Sbjct: 18  GLTSVPTGIPS---SATRLELESNKLQSLPHGVFDKLTQLTKLSLSS------------- 61

Query: 611 LENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLESLKLAN 669
               N +S      C         +L+ L    DLS+N    +S +   L  LE L   +
Sbjct: 62  ----NGLSFKG---CCSQSDFGTTSLKYL----DLSFNGVITMSSNFLGLEQLEHLDFQH 110

Query: 670 ESKMPRLSKIILAEYVFPH--SLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGR 727
                 L ++     VF    +L +L  S+T            L  L+VLK+  NS+   
Sbjct: 111 S----NLKQMS-EFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQEN 165

Query: 728 KLTCGSDGFPRLKVLHL 744
            L         L  L L
Sbjct: 166 FLPDIFTELRNLTFLDL 182

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 60.7 bits (147), Expect = 1e-09
 Identities = 37/280 (13%), Positives = 74/280 (26%), Gaps = 67/280 (23%)

Query: 519 LLRVLDLGSLVLNQYPSEIENLSLLRYLKL-NIPSLKSLPLSFFNYLLNLYTLDM----- 572
                   +           NL  L  ++L N P++  LP   ++ L  L +L++     
Sbjct: 469 WEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYD-LPELQSLNIACNRG 527

Query: 573 -----PFSYIDHTADEFWKMKKLRHL-----NFGSITLPAHPGNYCGSLENL----NFIS 618
                  +     AD+     K++       N       A        L  L    N + 
Sbjct: 528 ISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQK-MVKLGLLDCVHNKVR 586

Query: 619 ALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQ-SLLSKSLCR-LSCLESLKLAN------- 669
            L       +  G    L +L     L YNQ   + +  C     +E L  ++       
Sbjct: 587 HL-------EAFGTNVKLTDL----KLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIP 635

Query: 670 ----ESKMPRLSKIILA---------------EYVFPHSLTHLSFSNTDLMDDPMPALEK 710
                  +  +  +  +               +     + + ++ S  ++   P      
Sbjct: 636 NIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFAT 695

Query: 711 LPLLQVLKLKQN------SYSGRKLTCGSDGFPRLKVLHL 744
              +  + L  N        S +           L  + L
Sbjct: 696 GSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDL 735

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 51.0 bits (122), Expect = 1e-06
 Identities = 31/242 (12%), Positives = 67/242 (27%), Gaps = 28/242 (11%)

Query: 520 LRVLDLGSLVLNQY-PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYI- 577
           +  L L         P  I  L+ L+ L     S       F +  L     +     I 
Sbjct: 325 VTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIR 384

Query: 578 -DHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDL------L 630
             +        ++L   +     +  +P       ++   +        T  +      +
Sbjct: 385 MHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAI 444

Query: 631 GRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSL 690
            RL  L+ +      + +    +     +   ++          +  +     +     L
Sbjct: 445 QRLTKLQII----YFANSP--FTYDNIAVDWEDANSDYA-----KQYENEELSWSNLKDL 493

Query: 691 THLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG--------RKLTCGSDGFPRLKVL 742
           T +   N   M      L  LP LQ L +  N             +L    D  P++++ 
Sbjct: 494 TDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIF 553

Query: 743 HL 744
           ++
Sbjct: 554 YM 555

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 58.9 bits (143), Expect = 2e-09
 Identities = 49/238 (20%), Positives = 87/238 (36%), Gaps = 36/238 (15%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
           LRV+    L L + P ++        L L    +  +    F  L NL+TL +  + I  
Sbjct: 33  LRVVQCSDLGLEKVPKDL--PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISK 90

Query: 580 TADE-FWKMKKLRHLNFGSITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGRLP 634
            +   F  + KL  L      L   P     +L+ L    N I+ +      K +   L 
Sbjct: 91  ISPGAFAPLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEITKV-----RKSVFNGLN 145

Query: 635 NLRNLRIQGDLSYNQ----SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSL 690
            +  +    +L  N      + + +   +  L  +++A+      ++ I   + + P SL
Sbjct: 146 QMIVV----ELGTNPLKSSGIENGAFQGMKKLSYIRIAD----TNITTI--PQGLPP-SL 194

Query: 691 THLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDG----FPRLKVLHL 744
           T L      +      +L+ L  L  L L  N      ++   +G     P L+ LHL
Sbjct: 195 TELHLDGNKITKVDAASLKGLNNLAKLGLSFN-----SISAVDNGSLANTPHLRELHL 247

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 58.8 bits (143), Expect = 2e-09
 Identities = 46/330 (13%), Positives = 95/330 (28%), Gaps = 66/330 (20%)

Query: 520 LRVLDLGSLVLNQYPSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYID 578
            ++  +    L Q  + + ++   ++ L L+   L  +  +       L  L++  + + 
Sbjct: 12  YKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVL- 70

Query: 579 HTADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLG 631
           +   +   +  LR L+  +     L   P     S+E L    N IS +           
Sbjct: 71  YETLDLESLSTLRTLDLNNNYVQELLVGP-----SIETLHAANNNISRVSC--------S 117

Query: 632 RLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLAN-----------ESKMPRLSK 678
           R    +N+     L+ N+   L        S ++ L L              +    L  
Sbjct: 118 RGQGKKNI----YLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEH 173

Query: 679 IILA--------EYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLT 730
           + L           V    L  L  S+  L     P  +    +  + L+ N     KL 
Sbjct: 174 LNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMG-PEFQSAAGVTWISLRNN-----KLV 227

Query: 731 CGSDGF---PRLKVLHLK----SMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWC 783
                      L+   L+        L ++        +++ +       L    E+   
Sbjct: 228 LIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSK---NQRVQTVAKQTVKKLTGQNEEECT 284

Query: 784 IKSL---NNFNCWWPQPELRQKLREFEDKE 810
           + +L     + C         +L       
Sbjct: 285 VPTLGHYGAYCCEDLPAPFADRLIALGHHH 314

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 55.8 bits (135), Expect = 2e-08
 Identities = 39/212 (18%), Positives = 66/212 (31%), Gaps = 39/212 (18%)

Query: 534 PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH-TADEFWKMKKLRH 592
               +N +  +  K+   SLK    S      N+  LD+  + +   +A +     KL  
Sbjct: 3   HEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLEL 62

Query: 593 LNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLL 652
           LN  S                 N +            L  L  LR L    DL+ N   +
Sbjct: 63  LNLSS-----------------NVLYETLD-------LESLSTLRTL----DLNNNY--V 92

Query: 653 SKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLP 712
              L     +E+L  AN      +S++  +         ++  +N  +            
Sbjct: 93  Q-ELLVGPSIETLHAANN----NISRV--SCSRGQ-GKKNIYLANNKITMLRDLDEGCRS 144

Query: 713 LLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
            +Q L LK N          +     L+ L+L
Sbjct: 145 RVQYLDLKLNEIDTVNFAELAASSDTLEHLNL 176

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 60.2 bits (146), Expect = 2e-09
 Identities = 49/259 (18%), Positives = 93/259 (35%), Gaps = 41/259 (15%)

Query: 492 LHSLLYFTSESDHLDHIDWQKICEMYKL-LRVLDLGSLVLNQYPSEI-ENLSLLRYLKLN 549
            H ++       ++   D      + +  +R LDL    +    S + E L  L+ L L 
Sbjct: 239 AHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLA 298

Query: 550 IPSLKSLPLSFFNYLLNLYTLDMPFSYIDH-TADEFWKMKKLRHLNFGSITLPAHPGNYC 608
              +  +    F  L NL  L++ ++ +    +  F+ + K+ +++              
Sbjct: 299 YNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQK----------- 347

Query: 609 GSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLA 668
                 N I+ +            L  L+ L    DL  N      ++  +  +  + L+
Sbjct: 348 ------NHIAII-----QDQTFKFLEKLQTL----DLRDNA---LTTIHFIPSIPDIFLS 389

Query: 669 NESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMD-DPMPALEKLPLLQVLKLKQNSYSGR 727
             +K+  L KI L       +   +  S   L + D +  L ++P LQ+L L QN +S  
Sbjct: 390 G-NKLVTLPKINL-------TANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSC 441

Query: 728 KLTCGSDGFPRLKVLHLKS 746
                    P L+ L L  
Sbjct: 442 SGDQTPSENPSLEQLFLGE 460

>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 = 57.5 bits (139), Expect = 1e-08
 Identities = 42/204 (20%), Positives = 70/204 (34%), Gaps = 28/204 (13%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
           L+ LDL    L    + I  +  +  + L+   L +LP         ++  +     +D 
Sbjct: 364 LQTLDLRDNAL----TTIHFIPSIPDIFLSGNKLVTLPKINLT-ANLIHLSENRLENLDI 418

Query: 580 TADEFWKMKKLRHL-----NFGSITLPAHPGNYCGSLENL----NFISALYPCCCTKDLL 630
                 ++  L+ L      F S +    P     SLE L    N +   +      D+ 
Sbjct: 419 LYF-LLRVPHLQILILNQNRFSSCSGDQTPSE-NPSLEQLFLGENMLQLAWETELCWDVF 476

Query: 631 GRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPH 688
             L +L+ L     L++N   SL       L+ L  L L +     RL+   L+    P 
Sbjct: 477 EGLSHLQVL----YLNHNYLNSLPPGVFSHLTALRGLSLNSN----RLTV--LSHNDLPA 526

Query: 689 SLTHLSFSNTDLMDDPMPALEKLP 712
           +L  L  S   L+         L 
Sbjct: 527 NLEILDISRNQLLAPNPDVFVSLS 550

>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 = 57.1 bits (138), Expect = 2e-08
 Identities = 53/278 (19%), Positives = 92/278 (33%), Gaps = 53/278 (19%)

Query: 517 YKLLRVLDLGS--LVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPF 574
            + L++L+LGS    L        NL  LR L L    +  L    F  L +L+ L + F
Sbjct: 47  LEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYF 106

Query: 575 SYIDHT---ADEFWKMKKLRHLN-----FGSITLPAHPGNYCGSLENL----NFISALYP 622
             +         F  +K L  L+       S+ L    G    SL+++    N I  +  
Sbjct: 107 CGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGK-LNSLKSIDFSSNQIFLVCE 165

Query: 623 ----------------------CCCTKDLLGRLPNLRNLRIQG-DLSYNQSLLSKSLCRL 659
                                    + D    +   RN+ ++  D+S N   +  +    
Sbjct: 166 HELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFS 225

Query: 660 SCLESLKLANESKMPRLSKIILA--------EYVFPH----SLTHLSFSNTDLMDDPMPA 707
           + +   +  +      +              +  F      S+ HL  S+  +       
Sbjct: 226 NAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRV 285

Query: 708 LEKLPLLQVLKLKQNSYSGRKLTCGS-DGFPRLKVLHL 744
            E L  L+VL L  N  +  K+   +  G   L+VL+L
Sbjct: 286 FETLKDLKVLNLAYNKIN--KIADEAFYGLDNLQVLNL 321

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 56.0 bits (135), Expect = 4e-08
 Identities = 49/247 (19%), Positives = 85/247 (34%), Gaps = 24/247 (9%)

Query: 521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHT 580
           R+       L Q P     L+    L L+   ++++  S F +L  L  L++   Y   T
Sbjct: 7   RIAFYRFCNLTQVPQ---VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLT 63

Query: 581 --ADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENLNFIS-ALYPCCCTKDLLGRLP 634
              + F  +  LR L+ GS     L          L  L      L            L 
Sbjct: 64  IDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLK 123

Query: 635 NLRNLRIQGDLSYNQ--SL-LSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLT 691
            L  L    DLS NQ  SL L  S  +L+ L+S+  ++ +++  + +  L        L+
Sbjct: 124 ALTRL----DLSKNQIRSLYLHPSFGKLNSLKSIDFSS-NQIFLVCEHELEPLQGKT-LS 177

Query: 692 HLSFSNTDLMDDPMPALEKLP------LLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLK 745
             S +   L         K        +L++L +  N ++       S+   + +   L 
Sbjct: 178 FFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLI 237

Query: 746 SMLWLEE 752
               +  
Sbjct: 238 LAHHIMG 244

>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 = 45.2 bits (107), Expect = 8e-05
 Identities = 34/162 (20%), Positives = 51/162 (31%), Gaps = 7/162 (4%)

Query: 491 HLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY------PSEIENLSLLR 544
            +  L       +        +       L  L LG  +L             E LS L+
Sbjct: 424 RVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQ 483

Query: 545 YLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHP 604
            L LN   L SLP   F++L  L  L +  + +   +        L  L+     L A  
Sbjct: 484 VLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLTVLSHNDLP-ANLEILDISRNQLLAPN 542

Query: 605 GNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLS 646
            +   SL  L+     + C C         N  N+ I G  +
Sbjct: 543 PDVFVSLSVLDITHNKFICECELSTFINWLNHTNVTIAGPPA 584

>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 = 58.3 bits (142), Expect = 4e-09
 Identities = 45/212 (21%), Positives = 80/212 (37%), Gaps = 35/212 (16%)

Query: 520 LRVLDLGSLVLNQ--YPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYI 577
           L  L +G+   N+    S ++NL+ LR L LN  ++  +       L  +Y+L++  ++ 
Sbjct: 90  LTNLYIGT---NKITDISALQNLTNLRELYLNEDNISDIS--PLANLTKMYSLNLGANHN 144

Query: 578 DHTADEFWKMKKLRHLNFGS--ITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLG 631
                    M  L +L      +       N    L +L    N I  + P       L 
Sbjct: 145 LSDLSPLSNMTGLNYLTVTESKVKDVTPIAN-LTDLYSLSLNYNQIEDISP-------LA 196

Query: 632 RLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKII-LAEYVFPHSL 690
            L +L           NQ      +  ++ L SLK+ N     +++ +  LA       L
Sbjct: 197 SLTSLHYF----TAYVNQITDITPVANMTRLNSLKIGNN----KITDLSPLANLS---QL 245

Query: 691 THLSFSNTDLMDDPMPALEKLPLLQVLKLKQN 722
           T L      + D  + A++ L  L++L +  N
Sbjct: 246 TWLEIGTNQISD--INAVKDLTKLKMLNVGSN 275

>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 = 52.5 bits (127), Expect = 2e-07
 Identities = 46/257 (17%), Positives = 81/257 (31%), Gaps = 58/257 (22%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLP--------------------LS 559
              L      +NQ      +L+      L   S+  +                     + 
Sbjct: 2   AATLATLPAPINQI-FPDADLAEGIRAVLQKASVTDVVTQEELESITKLVVAGEKVASIQ 60

Query: 560 FFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGS--ITLPAHPGNYCGSLENL--- 614
              YL NL  L++  + I         + KL +L  G+  IT  +   N   +L  L   
Sbjct: 61  GIEYLTNLEYLNLNGNQI-TDISPLSNLVKLTNLYIGTNKITDISALQN-LTNLRELYLN 118

Query: 615 -NFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSL-LSKSLCRLSCLESLKLANESK 672
            + IS + P       L  L  + +L    +L  N +L     L  ++ L  L +     
Sbjct: 119 EDNISDISP-------LANLTKMYSL----NLGANHNLSDLSPLSNMTGLNYLTVTES-- 165

Query: 673 MPRLSKII-LAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTC 731
             ++  +  +A       L  LS +   + D  +  L  L  L       N     ++T 
Sbjct: 166 --KVKDVTPIANL---TDLYSLSLNYNQIED--ISPLASLTSLHYFTAYVN-----QITD 213

Query: 732 GS--DGFPRLKVLHLKS 746
            +      RL  L + +
Sbjct: 214 ITPVANMTRLNSLKIGN 230

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 51.0 bits (123), Expect = 8e-07
 Identities = 44/212 (20%), Positives = 79/212 (37%), Gaps = 33/212 (15%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
           +  L+LG+       S + N++ L YL +    +K +       L +LY+L + ++ I  
Sbjct: 134 MYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVT--PIANLTDLYSLSLNYNQI-E 190

Query: 580 TADEFWKMKKLRHLNFGSITLPAHPG-NYCGSLENL----NFISALYPCCCTKDLLGRLP 634
                  +  L +       +           L +L    N I+ L P       L  L 
Sbjct: 191 DISPLASLTSLHYFTAYVNQITDITPVANMTRLNSLKIGNNKITDLSP-------LANLS 243

Query: 635 NLRNLRIQGDLSYNQSLLSK--SLCRLSCLESLKLANE--SKMPRLSKIILAEYVFPHSL 690
            L  L    ++  NQ  +S   ++  L+ L+ L + +   S +  L+ +          L
Sbjct: 244 QLTWL----EIGTNQ--ISDINAVKDLTKLKMLNVGSNQISDISVLNNL--------SQL 289

Query: 691 THLSFSNTDLMDDPMPALEKLPLLQVLKLKQN 722
             L  +N  L ++ M  +  L  L  L L QN
Sbjct: 290 NSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN 321

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 57.8 bits (140), Expect = 6e-09
 Identities = 44/250 (17%), Positives = 76/250 (30%), Gaps = 40/250 (16%)

Query: 520 LRVLDLGSLVLNQ----YPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM--- 572
           ++ LDL +   N+      S+++    L+ L L    + ++    F+ L +L  LD+   
Sbjct: 54  VKSLDLSN---NRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYN 110

Query: 573 PFSYIDHTADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENLNFISALYPCCCTK-- 627
             S +  +   F  +  L  LN       TL     +    L  L  +        TK  
Sbjct: 111 YLSNLSSSW--FKPLSSLTFLNLLGNPYKTLG--ETSLFSHLTKLQILRVGNMDTFTKIQ 166

Query: 628 -DLLGRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEY 684
                 L  L  L    ++  +   S   KSL  +  +  L L       +   +   E 
Sbjct: 167 RKDFAGLTFLEEL----EIDASDLQSYEPKSLKSIQNVSHLILHM----KQHILL--LEI 216

Query: 685 VFP--HSLTHLSFSNTDLMDDPMPALEKLP---LLQVLKLKQNSYSGRKLTCGSDGF--- 736
                 S+  L   +TDL       L       L++    +    +   L          
Sbjct: 217 FVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQI 276

Query: 737 PRLKVLHLKS 746
             L  L    
Sbjct: 277 SGLLELEFSR 286

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 45.9 bits (109), Expect = 3e-05
 Identities = 20/140 (14%), Positives = 50/140 (35%), Gaps = 21/140 (15%)

Query: 520 LRVLDLGSLVLNQYPSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYID 578
           L  L++ +  L  Y  +  +++  + +L L++     L   F +   ++  L++  + +D
Sbjct: 176 LEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLD 235

Query: 579 H---------TADEFWKMKKLRHLNFGSITLPAHPG--NYCGSLENLNF----ISALYPC 623
                       +   K    R++     +L       N    L  L F    + ++   
Sbjct: 236 TFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQLKSVPD- 294

Query: 624 CCTKDLLGRLPNLRNLRIQG 643
                +  RL +L+ + +  
Sbjct: 295 ----GIFDRLTSLQKIWLHT 310

>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 = 57.5 bits (139), Expect = 1e-08
 Identities = 42/273 (15%), Positives = 80/273 (29%), Gaps = 59/273 (21%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
           LR LDL +   N    E+     +  L     ++  +  S      N+Y  +   + +  
Sbjct: 82  LRTLDLNN---NY-VQELLVGPSIETLHAANNNISRVSCSRGQGKKNIYLANNKITMLR- 136

Query: 580 TADEFWKMKKLRHLN-----FGSITLPAHPGNYCGSLENL----NFISALYPCCCTKDL- 629
              +     ++++L+       ++       +   +LE+L    NFI  +        L 
Sbjct: 137 -DLDEGCRSRVQYLDLKLNEIDTVNFAELAAS-SDTLEHLNLQYNFIYDVKGQVVFAKLK 194

Query: 630 ---------------LGRLPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLESLKLAN---- 669
                                +  +     L  N+  L+ K+L     LE   L      
Sbjct: 195 TLDLSSNKLAFMGPEFQSAAGVTWI----SLRNNKLVLIEKALRFSQNLEHFDLRGNGFH 250

Query: 670 -------ESKMPRLSKI------ILAEYVFPH--SLTHLSFSNTDLMDDPMPALEKLPLL 714
                   SK  R+  +       L           T   +      D P P  ++L  L
Sbjct: 251 CGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLIAL 310

Query: 715 QVLKLKQNSYSG---RKLTCGSDGFPRLKVLHL 744
           +  +    S  G    +L C  +   R + +  
Sbjct: 311 KRKEHALLSGQGSETERLECERENQARQREIDA 343

>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 = 57.5 bits (139), Expect = 1e-08
 Identities = 32/241 (13%), Positives = 68/241 (28%), Gaps = 15/241 (6%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM---PFSY 576
           L+ LDL S  L     E ++ + + ++ L    L  +  +      NL   D+    F  
Sbjct: 193 LKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRF-SQNLEHFDLRGNGFHC 251

Query: 577 IDHTADEFWKMKKLRHLNFGSIT-LPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPN 635
                D F K ++++ +   ++  L       C      +   A            RL  
Sbjct: 252 GTLR-DFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGH-YGAYCCEDLPAPFADRLIA 309

Query: 636 LRNLRIQG-DLSYNQ-SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHL 693
           L+           ++   L       +    +    E    +   +I    +   +   L
Sbjct: 310 LKRKEHALLSGQGSETERLECERENQARQREIDALKE----QYRTVIDQVTLRKQAKITL 365

Query: 694 SFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW 753
                 L +           L     +       +L   ++    L++L      + E +
Sbjct: 366 EQKKKALDEQVSNGRRAHAELDGTLQQAVGQI--ELQHATEEQSPLQLLRAIVKRYEEMY 423

Query: 754 T 754
            
Sbjct: 424 V 424

>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 = 56.8 bits (137), Expect = 2e-08
 Identities = 40/247 (16%), Positives = 71/247 (28%), Gaps = 47/247 (19%)

Query: 537 IENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH-TADEFWKMKKLRHLNF 595
            +N +  +  K+   SLK    S      N+  LD+  + +   +A +     KL  LN 
Sbjct: 6   KQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNL 65

Query: 596 GS--ITLPAHPGNYCGSLENL----NFISALYPCCCTKDL-----------LGRLPNLRN 638
            S  +       +   +L  L    N++  L      + L             R    +N
Sbjct: 66  SSNVLYETLDLESL-STLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRGQGKKN 124

Query: 639 LRIQGDLSYNQ--SLLSKSLCRLSCLESLKLAN-----------ESKMPRLSKIILA--- 682
           +     L+ N+   L        S ++ L L              +    L  + L    
Sbjct: 125 I----YLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNF 180

Query: 683 -----EYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFP 737
                  V    L  L  S+  L     P  +    +  + L+ N      +        
Sbjct: 181 IYDVKGQVVFAKLKTLDLSSNKLAFMG-PEFQSAAGVTWISLRNNKLV--LIEKALRFSQ 237

Query: 738 RLKVLHL 744
            L+   L
Sbjct: 238 NLEHFDL 244

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 56.6 bits (137), Expect = 2e-08
 Identities = 40/216 (18%), Positives = 74/216 (34%), Gaps = 35/216 (16%)

Query: 539 NLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH-TADEFWKMKKLRHLNFGS 597
            L+  + +     +++ LP +  +    +  L++    I+      F     ++ L  G 
Sbjct: 43  TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGF 102

Query: 598 --IT-LPAHPGNYCGSLENL----NFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQ- 649
             I  LP H       L  L    N +S+L        +    P L  L     +S N  
Sbjct: 103 NAIRYLPPHVFQNVPLLTVLVLERNDLSSLPR-----GIFHNTPKLTTL----SMSNNNL 153

Query: 650 -SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAL 708
             +   +    + L++L+L++     RL+ + L+      SL H + S   L       L
Sbjct: 154 ERIEDDTFQATTSLQNLQLSSN----RLTHVDLS---LIPSLFHANVSYNLL-----STL 201

Query: 709 EKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
                ++ L    NS +             L +L L
Sbjct: 202 AIPIAVEELDASHNSIN----VVRGPVNVELTILKL 233

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 53.5 bits (129), Expect = 2e-07
 Identities = 47/230 (20%), Positives = 80/230 (34%), Gaps = 50/230 (21%)

Query: 520 LRVLDLGSLVLNQYPSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM---PFS 575
           ++ L +G   +   P  + +N+ LL  L L    L SLP   F+    L TL M      
Sbjct: 95  IQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLE 154

Query: 576 YIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPN 635
            I+     F     L++L   S                 N ++ +         L  +P+
Sbjct: 155 RIEDDT--FQATTSLQNLQLSS-----------------NRLTHV--------DLSLIPS 187

Query: 636 LRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSF 695
           L +     ++SYN      +L     +E L  ++      ++ +     V    LT L  
Sbjct: 188 LFHA----NVSYNL---LSTLAIPIAVEELDASHN----SINVV--RGPVNV-ELTILKL 233

Query: 696 SNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGS-DGFPRLKVLHL 744
            + +L D     L   P L  + L  N     K+         RL+ L++
Sbjct: 234 QHNNLTD--TAWLLNYPGLVEVDLSYNELE--KIMYHPFVKMQRLERLYI 279

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 43.5 bits (103), Expect = 2e-04
 Identities = 26/137 (18%), Positives = 44/137 (32%), Gaps = 21/137 (15%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
           L +L L    L      + N   L  + L+   L+ +    F  +  L  L +  + +  
Sbjct: 228 LTILKLQHNNLTDTAW-LLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVA 286

Query: 580 TADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGR 632
                  +  L+ L+      + +  +       LENL    N I  L            
Sbjct: 287 LNLYGQPIPTLKVLDLSHNHLLHVERNQPQ-FDRLENLYLDHNSIVTLKL--------ST 337

Query: 633 LPNLRNLRIQGDLSYNQ 649
              L+NL     LS+N 
Sbjct: 338 HHTLKNL----TLSHND 350

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 56.5 bits (136), Expect = 2e-08
 Identities = 40/216 (18%), Positives = 75/216 (34%), Gaps = 35/216 (16%)

Query: 539 NLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH-TADEFWKMKKLRHLNFGS 597
            L+  + +     +++ LP +  +    +  L++    I+      F     ++ L  G 
Sbjct: 49  TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGF 108

Query: 598 ---ITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQ- 649
                LP H       L  L    N +S+L        +    P L  L     +S N  
Sbjct: 109 NAIRYLPPHVFQNVPLLTVLVLERNDLSSLPR-----GIFHNTPKLTTL----SMSNNNL 159

Query: 650 -SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAL 708
             +   +    + L++L+L++     RL+ + L+  + P SL H + S   L       L
Sbjct: 160 ERIEDDTFQATTSLQNLQLSSN----RLTHVDLS--LIP-SLFHANVSYNLL-----STL 207

Query: 709 EKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
                ++ L    NS +             L +L L
Sbjct: 208 AIPIAVEELDASHNSIN----VVRGPVNVELTILKL 239

>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 = 51.9 bits (124), Expect = 7e-07
 Identities = 56/246 (22%), Positives = 84/246 (34%), Gaps = 36/246 (14%)

Query: 520 LRVLDLGSLVLNQYPSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM---PFS 575
           ++ L +G   +   P  + +N+ LL  L L    L SLP   F+    L TL M      
Sbjct: 101 IQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLE 160

Query: 576 YIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENL----NFISALYPCCCTKDL-- 629
            I+     F     L++L   S  L     +   SL +     N +S L      ++L  
Sbjct: 161 RIEDDT--FQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDA 218

Query: 630 ---------LGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKII 680
                          L  L     L +N    +  L     L  + L+       L KI 
Sbjct: 219 SHNSINVVRGPVNVELTIL----KLQHNNLTDTAWLLNYPGLVEVDLSYN----ELEKI- 269

Query: 681 LAEYVFPH--SLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPR 738
              + F     L  L  SN  L+       + +P L+VL L  N      +      F R
Sbjct: 270 -MYHPFVKMQRLERLYISNNRLVALN-LYGQPIPTLKVLDLSHNHL--LHVERNQPQFDR 325

Query: 739 LKVLHL 744
           L+ L+L
Sbjct: 326 LENLYL 331

>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 = 45.3 bits (107), Expect = 7e-05
 Identities = 48/328 (14%), Positives = 90/328 (27%), Gaps = 43/328 (13%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
           L +L L    L      + N   L  + L+   L+ +    F  +  L  L +  + +  
Sbjct: 234 LTILKLQHNNLTDTAW-LLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVA 292

Query: 580 TADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENL----NFISALYP---------- 622
                  +  L+ L+      + +  +       LENL    N I  L            
Sbjct: 293 LNLYGQPIPTLKVLDLSHNHLLHVERNQPQ-FDRLENLYLDHNSIVTLKLSTHHTLKNLT 351

Query: 623 -------CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLS-------CLESLKLA 668
                  C   + L   +              +  L     C+ S        L+ + L 
Sbjct: 352 LSHNDWDCNSLRALFRNVARPAVDDADQHCKIDYQLEHGLCCKESDKPYLDRLLQYIALT 411

Query: 669 NESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRK 728
           +  +  + ++   +     +S+  LS   T     P+   E+L        + N      
Sbjct: 412 SVVEKVQRAQGRCSATDTINSVQSLSHYITQQGGVPLQGNEQLE------AEVNELRAEV 465

Query: 729 LTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLN 788
               ++   + ++L                    L     N       + E+        
Sbjct: 466 QQLTNEQIQQEQLLQGLHAEIDTNLRRYRLPKDGLARSSDNLNKVFTHLKERQAFKLRET 525

Query: 789 NFNCWWPQPELRQKLREFEDKEQCGIQL 816
                  + E   K +E ED EQ  I L
Sbjct: 526 QAR----RTEADAKQKETEDLEQENIAL 549

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 54.2 bits (131), Expect = 5e-08
 Identities = 49/235 (20%), Positives = 71/235 (30%), Gaps = 43/235 (18%)

Query: 543 LRYLKLNIPSLKSLPLSFFNYLLNLYTLDM---PFSYIDHTADEFWKMKKLRHL----NF 595
            + + L+   +  +P + F    NL  L +     + ID  A  F  +  L  L    N 
Sbjct: 34  SQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAA--FTGLALLEQLDLSDNA 91

Query: 596 GSITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQ-- 649
              ++     +  G L  L      +  L P      L   L  L+ L     L  N   
Sbjct: 92  QLRSVDPATFHGLGRLHTLHLDRCGLQELGP-----GLFRGLAALQYL----YLQDNALQ 142

Query: 650 SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPH--SLTHLSFSNTDLMDDPMPA 707
           +L   +   L  L  L L       R+S +   E  F    SL  L      +      A
Sbjct: 143 ALPDDTFRDLGNLTHLFLHG----NRISSV--PERAFRGLHSLDRLLLHQNRVAHVHPHA 196

Query: 708 LEKLPLLQVLKLKQNSYSGRKLTCGS-DGFPRLKVLHLKS--------MLWLEEW 753
              L  L  L L  N+ S   L   +      L+ L L             L  W
Sbjct: 197 FRDLGRLMTLYLFANNLS--ALPTEALAPLRALQYLRLNDNPWVCDCRARPLWAW 249

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 44.6 bits (106), Expect = 6e-05
 Identities = 35/135 (25%), Positives = 50/135 (37%), Gaps = 18/135 (13%)

Query: 520 LRVLDLGSLVLNQYPSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM---PFS 575
           L  L L    L +    +   L+ L+YL L   +L++LP   F  L NL  L +     S
Sbjct: 107 LHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRIS 166

Query: 576 YIDHTADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENL----NFISALYPCCCTKD 628
            +   A  F  +  L  L         +  H     G L  L    N +SAL       +
Sbjct: 167 SVPERA--FRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPT-----E 219

Query: 629 LLGRLPNLRNLRIQG 643
            L  L  L+ LR+  
Sbjct: 220 ALAPLRALQYLRLND 234

>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 = 54.5 bits (131), Expect = 9e-08
 Identities = 48/225 (21%), Positives = 74/225 (32%), Gaps = 38/225 (16%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
             VL++G   L   P  +   + +  L +   +L SLP         L TL++  + +  
Sbjct: 42  NAVLNVGESGLTTLPDCL--PAHITTLVIPDNNLTSLPALPPE----LRTLEVSGNQLTS 95

Query: 580 TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNL 639
                  + +L   +     LPA P      L  L     ++    T  L    P L+ L
Sbjct: 96  LPVLPPGLLELSIFSNPLTHLPALPSG----LCKLW----IFGNQLT-SLPVLPPGLQEL 146

Query: 640 RIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTD 699
                +S NQ  L+      S L  L   N +++  L  +          L  LS S+  
Sbjct: 147 ----SVSDNQ--LASLPALPSELCKLWAYN-NQLTSLPMLP-------SGLQELSVSDNQ 192

Query: 700 LMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
           L   P         L  L    N     +LT        LK L +
Sbjct: 193 LASLP----TLPSELYKLWAYNN-----RLTSLPALPSGLKELIV 228

>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 = 52.6 bits (126), Expect = 4e-07
 Identities = 43/234 (18%), Positives = 70/234 (29%), Gaps = 53/234 (22%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLN-------IPSLKSLPL------SFFNYLLN 566
           LR L++    L   P     L  L                L  L +      S       
Sbjct: 83  LRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPG 142

Query: 567 LYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENL----NFISALYP 622
           L  L +  + +        ++ KL   N    +LP  P      L+ L    N +++L P
Sbjct: 143 LQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPMLPSG----LQELSVSDNQLASL-P 197

Query: 623 CCCTKDLLGRLPNLR--NLRIQG-----------DLSYNQ-SLLSKSLCRLSCLESLKLA 668
                 L   L  L   N R+              +S N+ + L         L+ L ++
Sbjct: 198 -----TLPSELYKLWAYNNRLTSLPALPSGLKELIVSGNRLTSLPVLPSE---LKELMVS 249

Query: 669 NESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQN 722
             +++  L  +          L  LS     L   P  +L  L     + L+ N
Sbjct: 250 G-NRLTSLPMLP-------SGLLSLSVYRNQLTRLP-ESLIHLSSETTVNLEGN 294

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 48.0 bits (114), Expect = 1e-05
 Identities = 47/249 (18%), Positives = 73/249 (29%), Gaps = 57/249 (22%)

Query: 515 EMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPF 574
            +   +  L +    L   P+       LR L+++   L SLP+     LL L     P 
Sbjct: 58  CLPAHITTLVIPDNNLTSLPALPPE---LRTLEVSGNQLTSLPVLPPG-LLELSIFSNPL 113

Query: 575 SYIDHTADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENL----NFISALYPCCCT- 626
           +++            L  L        +LP  P      L+ L    N +++L       
Sbjct: 114 THLPALPS------GLCKLWIFGNQLTSLPVLPPG----LQELSVSDNQLASLPALPSEL 163

Query: 627 ----------KDLLGRLPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLESLKLANESKMPR 675
                       L      L+ L     +S NQ + L      L  L +          R
Sbjct: 164 CKLWAYNNQLTSLPMLPSGLQEL----SVSDNQLASLPTLPSELYKLWAYNN-------R 212

Query: 676 LSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDG 735
           L+ +       P  L  L  S   L   P         L+ L +  N     +LT     
Sbjct: 213 LTSLP----ALPSGLKELIVSGNRLTSLP----VLPSELKELMVSGN-----RLTSLPML 259

Query: 736 FPRLKVLHL 744
              L  L +
Sbjct: 260 PSGLLSLSV 268

>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 = 53.8 bits (130), Expect = 1e-07
 Identities = 48/232 (20%), Positives = 71/232 (30%), Gaps = 47/232 (20%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
           L  L      L + P   ++L  L     N+ +L  LP      L  L   +     +  
Sbjct: 93  LESLVASCNSLTELPELPQSLKSLLVDNNNLKALSDLP----PLLEYLGVSNNQLEKL-- 146

Query: 580 TADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGR 632
              E      L+ ++  +     LP  P +    LE +    N +  L         L  
Sbjct: 147 --PELQNSSFLKIIDVDNNSLKKLPDLPPS----LEFIAAGNNQLEELPE-------LQN 193

Query: 633 LPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTH 692
           LP L  +        N   L K       LES+   N      L    L E      LT 
Sbjct: 194 LPFLTAI----YADNNS--LKKLPDLPLSLESIVAGNN----ILE--ELPELQNLPFLTT 241

Query: 693 LSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
           +   N  L   P    +  P L+ L ++ N      LT   +    L  L +
Sbjct: 242 IYADNNLLKTLP----DLPPSLEALNVRDN-----YLTDLPELPQSLTFLDV 284

>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 = 2e-07
 Identities = 43/219 (19%), Positives = 69/219 (31%), Gaps = 43/219 (19%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
           L  L++    L   P   ++L+ L   +     L  LP        NLY L+   + I  
Sbjct: 259 LEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELP-------PNLYYLNASSNEIRS 311

Query: 580 TADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGR 632
             D       L  LN  +   I LPA P      LE L    N ++ +            
Sbjct: 312 LCDL---PPSLEELNVSNNKLIELPALPPR----LERLIASFNHLAEVPEL--------- 355

Query: 633 LPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLESLKLANE--SKMPRLSKIILAE---YVF 686
             NL+ L     + YN           +  L       E       L ++ +       F
Sbjct: 356 PQNLKQL----HVEYNPLREFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVETNPLREF 411

Query: 687 P---HSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQN 722
           P    S+  L  ++  ++D    A E    L+    + +
Sbjct: 412 PDIPESVEDLRMNSERVVDPYEFAHETTDKLEDDVFEHH 450

>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 = 46.1 bits (110), Expect = 4e-05
 Identities = 42/247 (17%), Positives = 71/247 (28%), Gaps = 55/247 (22%)

Query: 518 KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYI 577
             L+     S  L + P E EN+             +            +    +     
Sbjct: 11  TFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDC-- 68

Query: 578 DHTADEFWKMKKLRHLNFGS---ITLPAHPGNYCGSLENL----NFISALYPCCCTKDLL 630
                     ++   L   +    +LP  P +    LE+L    N ++ L       +L 
Sbjct: 69  --------LDRQAHELELNNLGLSSLPELPPH----LESLVASCNSLTEL------PELP 110

Query: 631 GRLPNLRNLRIQG-------------DLSYNQSLLSKSLCRLSCLESLKLANESKMPRLS 677
             L +L                     +S NQ      L   S L+ + + N      L 
Sbjct: 111 QSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDN----NSLK 166

Query: 678 KIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFP 737
           K+       P SL  ++  N  L +  +P L+ LP L  +    N      L    D   
Sbjct: 167 KLP----DLPPSLEFIAAGNNQLEE--LPELQNLPFLTAIYADNN-----SLKKLPDLPL 215

Query: 738 RLKVLHL 744
            L+ +  
Sbjct: 216 SLESIVA 222

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 53.2 bits (128), Expect = 2e-07
 Identities = 36/203 (17%), Positives = 69/203 (33%), Gaps = 24/203 (11%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
           L  LD  +  +      IE L+ L  L     ++ +L LS      NL  L    + +  
Sbjct: 44  LTSLDCHNSSITDMT-GIEKLTGLTKLICTSNNITTLDLS---QNTNLTYLACDSNKL-- 97

Query: 580 TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNL 639
           T  +   + KL +LN  +  L     +    L  LN          T+  +     L  L
Sbjct: 98  TNLDVTPLTKLTYLNCDTNKLTKLDVSQNPLLTYLN----CARNTLTEIDVSHNTQLTEL 153

Query: 640 RIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTD 699
               D   N+ +    +   + L +L  +      +++++ +++      L  L+    +
Sbjct: 154 ----DCHLNKKITKLDVTPQTQLTTLDCSFN----KITELDVSQNK---LLNRLNCDTNN 202

Query: 700 LMDDPMPALEKLPLLQVLKLKQN 722
           +       L +   L  L    N
Sbjct: 203 ITK---LDLNQNIQLTFLDCSSN 222

>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 = 2e-04
 Identities = 41/247 (16%), Positives = 71/247 (28%), Gaps = 51/247 (20%)

Query: 520 LRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYID 578
           L  L   S   N+  + ++  L+ L YL  +   L  L +S    L  L       + ID
Sbjct: 87  LTYLACDS---NKLTNLDVTPLTKLTYLNCDTNKLTKLDVSQNPLLTYLNCARNTLTEID 143

Query: 579 HTADEFWKMKKLRHLNFGSIT-LPAHPGNYCGSLENL----NFISALYPCCCTKDLLGRL 633
                     +L  L+      +          L  L    N I+ L         + + 
Sbjct: 144 -----VSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELD--------VSQN 190

Query: 634 PNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLAN-------ESKMPRLSKIILAE--- 683
             L  L    +   N  +    L +   L  L  ++        + + +L+    +    
Sbjct: 191 KLLNRL----NCDTNN-ITKLDLNQNIQLTFLDCSSNKLTEIDVTPLTQLTYFDCSVNPL 245

Query: 684 ----YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSD--GFP 737
                     LT L    TD        L ++ L    +L      G +     D     
Sbjct: 246 TELDVSTLSKLTTLHCIQTD--------LLEIDLTHNTQLIYFQAEGCRKIKELDVTHNT 297

Query: 738 RLKVLHL 744
           +L +L  
Sbjct: 298 QLYLLDC 304

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 52.3 bits (126), Expect = 3e-07
 Identities = 54/239 (22%), Positives = 85/239 (35%), Gaps = 39/239 (16%)

Query: 520 LRVLDLGSLVLNQYPSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYID 578
           LRV+    L L   P EI  + +LL  L+ N   +  L    F  L +LY L +  + I 
Sbjct: 35  LRVVQCSDLGLKAVPKEISPDTTLL-DLQNN--DISELRKDDFKGLQHLYALVLVNNKIS 91

Query: 579 H-TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGRL 633
                 F  ++KL+ L      L   P N   SL  L    N I  +        +   L
Sbjct: 92  KIHEKAFSPLRKLQKLYISKNHLVEIPPNLPSSLVELRIHDNRIRKVPK-----GVFSGL 146

Query: 634 PNLRNLRIQGDLSYNQ----SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHS 689
            N+  +    ++  N          +   L  L  L+++      +L+ I       P +
Sbjct: 147 RNMNCI----EMGGNPLENSGFEPGAFDGLK-LNYLRISE----AKLTGI---PKDLPET 194

Query: 690 LTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTC---GS-DGFPRLKVLHL 744
           L  L   +  +    +  L +   L  L L  N     ++     GS    P L+ LHL
Sbjct: 195 LNELHLDHNKIQAIELEDLLRYSKLYRLGLGHN-----QIRMIENGSLSFLPTLRELHL 248

>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 = 51.2 bits (123), Expect = 5e-07
 Identities = 35/205 (17%), Positives = 63/205 (30%), Gaps = 44/205 (21%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
              +  G   +        +L  +  L      + ++      YL NL  L++  + I  
Sbjct: 21  AIKIAAGKSNVTD-TVTQADLDGITTLSAFGTGVTTI--EGVQYLNNLIGLELKDNQITD 77

Query: 580 TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNL 639
                  + K+  L                     N +  +         +  L +++ L
Sbjct: 78  L-APLKNLTKITELELSG-----------------NPLKNVSA-------IAGLQSIKTL 112

Query: 640 RIQGDLSYNQSLLSKSLCRLSCLESLKLANE--SKMPRLSKIILAEYVFPHSLTHLSFSN 697
               DL+  Q      L  LS L+ L L     + +  L+ +         +L +LS  N
Sbjct: 113 ----DLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLT--------NLQYLSIGN 160

Query: 698 TDLMDDPMPALEKLPLLQVLKLKQN 722
             + D  +  L  L  L  LK   N
Sbjct: 161 AQVSD--LTPLANLSKLTTLKADDN 183

>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 = 51.0 bits (122), Expect = 1e-06
 Identities = 38/218 (17%), Positives = 75/218 (34%), Gaps = 24/218 (11%)

Query: 518 KLLRVLDLGSLVLNQYPSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSY 576
           K L +  + S V     S I E  S +      +   + + +   + +     LD   + 
Sbjct: 276 KALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNL 335

Query: 577 I-DHTADEFWKMKKLRHLNFGSI---TLPAHPGNYCG--SLENL----NFISALYPCCCT 626
           + D   +    + +L  L         L           SL+ L    N +S        
Sbjct: 336 LTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEK---- 391

Query: 627 KDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVF 686
           K       +L +L    ++S N    +   C    ++ L L + +K+  + K ++     
Sbjct: 392 KGDCSWTKSLLSL----NMSSNILTDTIFRCLPPRIKVLDLHS-NKIKSIPKQVVKL--- 443

Query: 687 PHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSY 724
             +L  L+ ++  L   P    ++L  LQ + L  N +
Sbjct: 444 -EALQELNVASNQLKSVPDGIFDRLTSLQKIWLHTNPW 480

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 42.5 bits (100), Expect = 5e-04
 Identities = 38/233 (16%), Positives = 73/233 (31%), Gaps = 32/233 (13%)

Query: 520 LRVLDLGSLVLNQY----PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM--- 572
             +L++     N       S+I +LS LR L ++   ++ L +S F +   L  LD+   
Sbjct: 23  TTILNISQ---NYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHN 79

Query: 573 ---------------------PFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSL 611
                                 F  +     EF  M +L+ L   +  L          L
Sbjct: 80  KLVKISCHPTVNLKHLDLSFNAFDALPICK-EFGNMSQLKFLGLSTTHLEKSSVLPIAHL 138

Query: 612 ENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANES 671
                +  L      K+    L +     +      N+         +  + +L+L+N  
Sbjct: 139 NISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIK 198

Query: 672 KMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSY 724
            +   +K      +     T+   SN  L +        + +LQ++      Y
Sbjct: 199 CVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWY 251

>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 = 51.1 bits (123), Expect = 1e-06
 Identities = 56/237 (23%), Positives = 85/237 (35%), Gaps = 46/237 (19%)

Query: 520 LRVLDLGSLVLNQ--YPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYI 577
           L  L L +   NQ      ++NL+ L  L+L+  ++  +     + L +L  L   F   
Sbjct: 114 LTGLTLFN---NQITDIDPLKNLTNLNRLELSSNTISDIS--ALSGLTSLQQLS--FGNQ 166

Query: 578 DHTADEFWKMKKLRHLNFGS--ITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLG 631
                    +  L  L+  S  ++  +       +LE+L    N IS + P       LG
Sbjct: 167 VTDLKPLANLTTLERLDISSNKVSDISVLAK-LTNLESLIATNNQISDITP-------LG 218

Query: 632 RLPNLRNLRIQGDLSYNQSLLSK--SLCRLSCLESLKLANE--SKMPRLSKIILAEYVFP 687
            L NL  L     L+ NQ  L    +L  L+ L  L LAN   S +  LS +        
Sbjct: 219 ILTNLDEL----SLNGNQ--LKDIGTLASLTNLTDLDLANNQISNLAPLSGLT------- 265

Query: 688 HSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
             LT L      + +  +  L  L  L  L+L +N                L  L L
Sbjct: 266 -KLTELKLGANQISN--ISPLAGLTALTNLELNENQLEDIS---PISNLKNLTYLTL 316

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 49.6 bits (119), Expect = 2e-06
 Identities = 42/197 (21%), Positives = 74/197 (37%), Gaps = 25/197 (12%)

Query: 539 NLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM---PFSYIDHTADEFWKMKKLRHLNF 595
           +   L+ L L+   ++++    +  L +L TL +   P   +   A  F  +  L+ L  
Sbjct: 50  SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGA--FSGLSSLQKLVA 107

Query: 596 GS---ITLPAHPGNYCGSLENL----NFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYN 648
                 +L   P  +  +L+ L    N I +        +    L NL +L    DLS N
Sbjct: 108 VETNLASLENFPIGHLKTLKELNVAHNLIQSFK----LPEYFSNLTNLEHL----DLSSN 159

Query: 649 Q--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPH-SLTHLSFSNTDLMDDPM 705
           +  S+    L  L  +  L L+ +  +  ++ I      F    L  L+     L   P 
Sbjct: 160 KIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFI--QPGAFKEIRLKELALDTNQLKSVPD 217

Query: 706 PALEKLPLLQVLKLKQN 722
              ++L  LQ + L  N
Sbjct: 218 GIFDRLTSLQKIWLHTN 234

>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 = 49.0 bits (116), Expect = 6e-06
 Identities = 53/326 (16%), Positives = 99/326 (30%), Gaps = 62/326 (19%)

Query: 434 TCSIRSRCWPSLLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAYLDDYYPHLH 493
           +  +        L++ ++   +      P G +R +      L   S    L  +   + 
Sbjct: 262 SRPLTVGSRMGTLLLMVDEAPLSVEWRTPDGRNRPSHVWLCDLPAASLNDQLPQHTFRVI 321

Query: 494 SLLYFTSESDHLDHIDWQKICE---MYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKL-N 549
                + +   L     +  C      + L   +L         SE+E+   L+ L+  N
Sbjct: 322 WTGSDSQKECVLLKDRPECWCRDSATDEQLFRCELSVEKSTVLQSELESCKELQELEPEN 381

Query: 550 IPSLKSLP-----LSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHP 604
              L ++      L    Y             +D     +    + + L   S+    + 
Sbjct: 382 KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYA 441

Query: 605 GNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLE 663
                 L +   ++ L         L +L  + +L    DLS+N+   L  +L  L CLE
Sbjct: 442 DVRVLHLAH-KDLTVLCH-------LEQLLLVTHL----DLSHNRLRALPPALAALRCLE 489

Query: 664 SLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNS 723
            L+ ++      L  +                            +  LP LQ L L  N 
Sbjct: 490 VLQASDN----ALENV--------------------------DGVANLPRLQELLLCNN- 518

Query: 724 YSGRKLTCGSD-----GFPRLKVLHL 744
               +L   +        PRL +L+L
Sbjct: 519 ----RLQQSAAIQPLVSCPRLVLLNL 540

>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 = 48.7 bits (116), Expect = 6e-06
 Identities = 47/330 (14%), Positives = 94/330 (28%), Gaps = 41/330 (12%)

Query: 444 SLLVVTLNAEFVFSPILDPKGESRKNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESD 503
           ++L +  +   +FS  ++    +  +++         +   L  +   L       + + 
Sbjct: 197 TVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTL 256

Query: 504 HLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNY 563
                 W+   ++++      +  L        I NL++   +     +     L     
Sbjct: 257 QHIETTWKCSVKLFQFFWPRPVEYL-------NIYNLTITERIDREEFTYSETALKSL-M 308

Query: 564 LLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPC 623
           + ++      FS  +     F +M         +  +         S   LN        
Sbjct: 309 IEHVKNQVFLFS-KEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFLN----FTQN 363

Query: 624 CCTKDLLGRLPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLESLKLANESKMP-------- 674
             T  +      L+ L+    L  N      K       + SL+  + S           
Sbjct: 364 VFTDSVFQGCSTLKRLQTL-ILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDR 422

Query: 675 -----------RLSKIILAEYVF---PHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLK 720
                       LS  +L   VF   P  +  L   N  +M  P   +  L  LQ L + 
Sbjct: 423 TCAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIMSIPK-DVTHLQALQELNVA 481

Query: 721 QNSYSGRKLTCGS-DGFPRLKVLHLKSMLW 749
            N    + +  G  D    L+ + L    W
Sbjct: 482 SNQL--KSVPDGVFDRLTSLQYIWLHDNPW 509

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 44.5 bits (105), Expect = 1e-04
 Identities = 38/286 (13%), Positives = 73/286 (25%), Gaps = 64/286 (22%)

Query: 520 LRVLDLGSLVLNQ----YPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM--- 572
            + L L     N        +I  LS LR L+L+   ++SL    F +  +L  LD+   
Sbjct: 54  TKALSLSQ---NSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHN 110

Query: 573 -----PFSYIDH---------------TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLE 612
                    +                    EF  + KL  L   +             L 
Sbjct: 111 RLQNISCCPMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLH 170

Query: 613 NLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLAN--- 669
               +  L            L       +      N     +    ++ L  L+L+N   
Sbjct: 171 LSCILLDLVSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKL 230

Query: 670 --------------ESKMPRLSKIILA-------------EYVFPHSLTHLSFSNTDLMD 702
                          ++ P L  + L              ++ +P  + +L+  N  + +
Sbjct: 231 NDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITE 290

Query: 703 DPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDG----FPRLKVLHL 744
                        +  L       +      +     F  + +  L
Sbjct: 291 RIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKML 336

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 47.6 bits (113), Expect = 8e-06
 Identities = 43/244 (17%), Positives = 75/244 (30%), Gaps = 37/244 (15%)

Query: 515 EMYKLLRVLDLGSLVLNQYPSEIENLSL----LRYLKLNIPSLKSLPLSFFNY--LLNLY 568
            +  LL+ +D     L Q+   I++LSL    +R  ++    L    L       L  L 
Sbjct: 44  SLEYLLKRVDT-EADLGQFTDIIKSLSLKRLTVRAARIPSRILFGA-LRVLGISGLQELT 101

Query: 569 TLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKD 628
             ++  +              L  LN  +++                +++ L        
Sbjct: 102 LENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRD----------AWLAELQQW----- 146

Query: 629 LLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPH 688
                P L+ L I    +++ +   + +     L +L L   S  P L +  L   + P 
Sbjct: 147 ---LKPGLKVLSIAQ--AHSLNFSCEQVRVFPALSTLDL---SDNPELGERGLISALCPL 198

Query: 689 ---SLTHLSFSN---TDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVL 742
              +L  L+  N                   LQ L L  NS          D   +L  L
Sbjct: 199 KFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSL 258

Query: 743 HLKS 746
           +L  
Sbjct: 259 NLSF 262

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 46.4 bits (110), Expect = 2e-05
 Identities = 40/221 (18%), Positives = 68/221 (30%), Gaps = 47/221 (21%)

Query: 520 LRVLDLGSLVLNQYPSEIENLS-----LLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM-- 572
           L +L+L ++      + +  L       L+ L +      +           L TLD+  
Sbjct: 123 LNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSD 182

Query: 573 ----PFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKD 628
                   +        K   L+ L   +                   +      C    
Sbjct: 183 NPELGERGLISALCPL-KFPTLQVLALRN-----------------AGMETPSGVCSA-- 222

Query: 629 LLGRLPNLRNLRIQGDLSYNQ--SLLSKSLCR-LSCLESLKLANESKMPRLSKIILAEYV 685
           L      L+ L    DLS+N          C   S L SL L+  + + ++ K +     
Sbjct: 223 LAAARVQLQGL----DLSHNSLRDAAGAPSCDWPSQLNSLNLSF-TGLKQVPKGL----- 272

Query: 686 FPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG 726
            P  L+ L  S   L     P+ ++LP +  L LK N +  
Sbjct: 273 -PAKLSVLDLSYNRLDR--NPSPDELPQVGNLSLKGNPFLD 310

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 43.0 bits (101), Expect = 2e-04
 Identities = 38/219 (17%), Positives = 61/219 (27%), Gaps = 27/219 (12%)

Query: 529 VLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMK 588
             N    + +  S    L      L     S    L  + T      + D       K  
Sbjct: 14  SCNFSDPKPDWSSAFNCLGAADVELYGGGRSLEYLLKRVDTEADLGQFTD-----IIKSL 68

Query: 589 KLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYN 648
            L+ L   +  +P+        +  ++ +  L               L NL + G     
Sbjct: 69  SLKRLTVRAARIPSRILFGALRVLGISGLQEL--------------TLENLEVTGT---- 110

Query: 649 QSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAL 708
            +           L  L L N S   R + +   +      L  LS +    ++     +
Sbjct: 111 -APPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQV 169

Query: 709 EKLPLLQVLKLKQNSYSGRK---LTCGSDGFPRLKVLHL 744
              P L  L L  N   G +          FP L+VL L
Sbjct: 170 RVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLAL 208

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 47.8 bits (114), Expect = 9e-06
 Identities = 45/260 (17%), Positives = 71/260 (27%), Gaps = 54/260 (20%)

Query: 517 YKLLRVLDLGSLVLNQYPSEIE-----NLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLD 571
            + L+ L +           I       LS L  LKL+      L    FN L NL  L 
Sbjct: 53  LQDLQFLKVEQ---QTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLT 109

Query: 572 MPFSYIDHT---ADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKD 628
           +    +D      + F  +  L  L                     N I  + P      
Sbjct: 110 LTQCNLDGAVLSGNFFKPLTSLEMLVLRD-----------------NNIKKIQP----AS 148

Query: 629 LLGRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLSC--LESLKLANE--SKMPRLSKIILA 682
               +     L    DL++N+  S+  + L          L+L++     M         
Sbjct: 149 FFLNMRRFHVL----DLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEK 204

Query: 683 EYVF--PHSLTHLSFSN---TDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGS---- 733
                   S+T L  S     + M            +Q L L  +   G      +    
Sbjct: 205 CGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDP 264

Query: 734 --DGFPRLKVLHLKSMLWLE 751
               F  L+   +K+   L 
Sbjct: 265 DNFTFKGLEASGVKT-CDLS 283

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 42.8 bits (101), Expect = 4e-04
 Identities = 37/218 (16%), Positives = 62/218 (28%), Gaps = 64/218 (29%)

Query: 543 LRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPA 602
           + Y+ L++ S+  L  + F+ L +L  L +                         + +  
Sbjct: 32  VNYVDLSLNSIAELNETSFSRLQDLQFLKV-------------------EQQTPGLVIRN 72

Query: 603 HPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQ--SLLSKSLCRLS 660
                                    +    L +L  L     L YNQ   L + +   L+
Sbjct: 73  -------------------------NTFRGLSSLIIL----KLDYNQFLQLETGAFNGLA 103

Query: 661 CLESLKLANESKMPRLSKIILAEYVFPH--SLTHLSFSNTDLMD-DPMPALEKLPLLQVL 717
            LE L L        L   +L+   F    SL  L   + ++    P      +    VL
Sbjct: 104 NLEVLTLTQC----NLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVL 159

Query: 718 KLKQNSYSGRKLTC-GSDGFPRLKVLHLKSMLWLEEWT 754
            L  N     K+     +     +  H    L L   T
Sbjct: 160 DLTFN-----KVKSICEEDLLNFQGKHFTL-LRLSSIT 191

>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 = 2e-05
 Identities = 30/175 (17%), Positives = 61/175 (34%), Gaps = 32/175 (18%)

Query: 515 EMYKLLRVLDLGSLVLNQYPSEIENLSLL--RYLKLN-----IPSLKSLPLSFFNYL--- 564
            +   + VL++    L   P    +L  L     +L+       SLK L +   N L   
Sbjct: 77  NLPPQITVLEITQNALISLPELPASLEYLDACDNRLSTLPELPASLKHLDVD-NNQLTML 135

Query: 565 ----LNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSIT-LPAHPGNYCGSLENL----N 615
                 L  ++   + +    +    ++ L  +    +T LP  P +    LE L    N
Sbjct: 136 PELPALLEYINADNNQLTMLPELPTSLEVL-SVRNNQLTFLPELPES----LEALDVSTN 190

Query: 616 FISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLESLKLAN 669
            + +L P      +  R  +     I      N+ + + +++  L    ++ L +
Sbjct: 191 LLESL-P-----AVPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILED 239

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis} Length = 362

 Score = 46.5 bits (109), Expect = 2e-05
 Identities = 37/268 (13%), Positives = 73/268 (27%), Gaps = 25/268 (9%)

Query: 499 TSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPL 558
              +  L     +K           ++         S  E    +  +   +   K   L
Sbjct: 50  EKAAGKLIAEKTKKGYVETLEEVAKEMKVEAKKYALSYDEAEEGVNLMDKILKDKKLPSL 109

Query: 559 SFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYC---------G 609
                    Y  +      D   +   K      L +G I       ++           
Sbjct: 110 KQITIGXWGYEGEDCSDIADGIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLD 169

Query: 610 SLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLA- 668
           ++  LN +  +             PNL++L I      +  +       L  LE L L  
Sbjct: 170 AMPLLNNLK-IKGTNNLSIGKKPRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYV 228

Query: 669 ------NESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPAL---EKLPLLQVLKL 719
                  +  M     +   +  FP +L  L   + +  +  +      + LP L+ + +
Sbjct: 229 GVEDYGFDGDMNVFRPLFSKDR-FP-NLKWLGIVDAEEQNVVVEMFLESDILPQLETMDI 286

Query: 720 KQNSYS---GRKLTCGSDGFPRLKVLHL 744
                +    R L    D    LK +++
Sbjct: 287 SAGVLTDEGARLLLDHVDKIKHLKFINM 314

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 46.4 bits (111), Expect = 2e-05
 Identities = 45/239 (18%), Positives = 78/239 (32%), Gaps = 64/239 (26%)

Query: 520 LRVLDLGSLVLN---QYPSEIENLSLLRYLKL-NIPSLK-SLPLSFFNYLLNLYTLDM-- 572
           +  LDL  L L      PS + NL  L +L +  I +L   +P +    L  L+ L +  
Sbjct: 52  VNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAK-LTQLHYLYITH 110

Query: 573 -------PFSYIDHTADEFWKMKKLRHLNF------GSITLPAHPGNYCGSLENL----N 615
                  P        D   ++K L  L+F      G++  P    +   +L  +    N
Sbjct: 111 TNVSGAIP--------DFLSQIKTLVTLDFSYNALSGTL--PPSISS-LPNLVGITFDGN 159

Query: 616 FISALYPCCCTKDLLGRLP----NLRNLRIQGDLSYNQSLLS----KSLCRLSCLESLKL 667
            IS            G +P    +   L     +S N+  L+     +   L+ L  + L
Sbjct: 160 RIS------------GAIPDSYGSFSKLFTSMTISRNR--LTGKIPPTFANLN-LAFVDL 204

Query: 668 ANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG 726
           +       L       +    +   +  +   L    +  +     L  L L+ N   G
Sbjct: 205 SRN----MLEGDASVLFGSDKNTQKIHLAKNSL-AFDLGKVGLSKNLNGLDLRNNRIYG 258

>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 = 44.8 bits (106), Expect = 7e-05
 Identities = 39/238 (16%), Positives = 66/238 (27%), Gaps = 47/238 (19%)

Query: 517 YKLLRVLDLGSLVLNQYPSEIE-----NLSLLRYLKL-NIPSLKSLPLSFFNYLLNLYTL 570
           +  L  +++     N     IE     NL  L  +++    +L  +    F  L NL  L
Sbjct: 53  FGDLEKIEISQ---NDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYL 109

Query: 571 DMPFSYIDH-TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDL 629
            +  + I H          +   L+                +++   I  +         
Sbjct: 110 LISNTGIKHLPDVHKIHSLQKVLLD----------------IQDNINIHTIER----NSF 149

Query: 630 LGRLPNLRNLRIQGDLSYNQ-SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPH 688
           +G       L     L+ N    +  S    + L+ L L   S    L ++     VF  
Sbjct: 150 VGLSFESVIL----WLNKNGIQEIHNSAFNGTQLDELNL---SDNNNLEEL--PNDVFHG 200

Query: 689 --SLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL 744
                 L  S T +   P   LE L  L+                  +    L    L
Sbjct: 201 ASGPVILDISRTRIHSLPSYGLENLKKLRARSTYNLKKLPT-----LEKLVALMEASL 253

>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 = 43.0 bits (102), Expect = 1e-04
 Identities = 25/151 (16%), Positives = 55/151 (36%), Gaps = 29/151 (19%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
           ++ L + ++    Y + I  LS L  L++    + S  +   + L +L  LD+  S  D 
Sbjct: 68  IKDLTINNIHATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDD 126

Query: 580 TA-DEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRN 638
           +   +   + K+  ++                L     I+ + P       L  LP L++
Sbjct: 127 SILTKINTLPKVNSID----------------LSYNGAITDIMP-------LKTLPELKS 163

Query: 639 LRIQGDLSYNQSLLSKSLCRLSCLESLKLAN 669
           L    ++ ++     + +     L  L   +
Sbjct: 164 L----NIQFDGVHDYRGIEDFPKLNQLYAFS 190

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 42.9 bits (101), Expect = 3e-04
 Identities = 55/286 (19%), Positives = 88/286 (30%), Gaps = 79/286 (27%)

Query: 520 LRVLDLGSLVLNQYPSEI--ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM---PF 574
             +LDL    L++  +E     L+ L  L L+   L  +    F  + NL  LD+     
Sbjct: 41  TALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHL 100

Query: 575 SYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLP 634
             +D     F  ++ L  L                 L N N I  +      ++    + 
Sbjct: 101 HTLDEFL--FSDLQALEVLL----------------LYN-NHIVVV-----DRNAFEDMA 136

Query: 635 NLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLS 694
            L+ L     LS NQ         +S      + + +K+P               L  L 
Sbjct: 137 QLQKL----YLSQNQ---------ISRFPVELIKDGNKLP--------------KLMLLD 169

Query: 695 FSNTDLMDDPMPALEKLPLLQV--LKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEE 752
            S+  L   P+  L+KLP      L L  N      L C               +  L  
Sbjct: 170 LSSNKLKKLPLTDLQKLPAWVKNGLYLHNNP-----LECDC------------KLYQLFS 212

Query: 753 WTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQPE 798
                     ++      C +     ++L  I SL+ FNC   +  
Sbjct: 213 HWQYRQLSSVMDFQEDLYCMH----SKKLHNIFSLDFFNCSEYKES 254

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 42.0 bits (99), Expect = 5e-04
 Identities = 47/249 (18%), Positives = 76/249 (30%), Gaps = 56/249 (22%)

Query: 520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH 579
              ++     L   P ++        L L+   L +  L+       L  L++  + +  
Sbjct: 12  HLEVNCDKRNLTALPPDL--PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAEL-T 68

Query: 580 TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNL 639
                  +  L  L+                    N + +L P      L   LP L  L
Sbjct: 69  KLQVDGTLPVLGTLDLSH-----------------NQLQSL-P-----LLGQTLPALTVL 105

Query: 640 RIQGDLSYNQ--SLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPH--SLTHLSF 695
               D+S+N+  SL   +L  L  L+ L L        L    L   +      L  LS 
Sbjct: 106 ----DVSFNRLTSLPLGALRGLGELQELYLKGN----ELK--TLPPGLLTPTPKLEKLSL 155

Query: 696 SNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDG-FPRLKVLHLK--------- 745
           +N +L + P   L  L  L  L L++N      L     G F    +             
Sbjct: 156 ANNNLTELPAGLLNGLENLDTLLLQEN-----SLYTIPKGFFGSHLLPFAFLHGNPWLCN 210

Query: 746 -SMLWLEEW 753
             +L+   W
Sbjct: 211 CEILYFRRW 219

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	821
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.97
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.94
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.93
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.93
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.93
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.93
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.93
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.92
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.92
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.92
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.92
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.92
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.92
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.92
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.91
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.91
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.91
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.91
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.91
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.91
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.91
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.91
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.9
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.9
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.9
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.9
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.9
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.89
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.89
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.89
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.89
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.89
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.89
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.89
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.88
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.88
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.88
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.88
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.88
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.88
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.88
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.87
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.86
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.86
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.85
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.84
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.83
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.83
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.82
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.82
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.81
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.81
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.8
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.8
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.8
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.8
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.8
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.79
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.79
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.79
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.78
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.78
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.78
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.78
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.78
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.77
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.77
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.76
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.75
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.75
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.75
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.74
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.72
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.71
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.7
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.7
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.69
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.69
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.68
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.68
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.68
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.68
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.67
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.66
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.65
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.65
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.64
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.62
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.61
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.6
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.6
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.6
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.58
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.58
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.56
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.55
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.55
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.54
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.52
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.51
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.5
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.5
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.49
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.48
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.45
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.44
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.44
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.42
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.41
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.39
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.37
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.37
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.37
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.37
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.36
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.36
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.36
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.35
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.32
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.32
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.31
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.3
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.28
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.27
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.27
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.26
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.24
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.22
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.21
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.19
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.18
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.17
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.17
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.12
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.1
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.09
2fna_A	357	Conserved hypothetical protein; structural genomic	99.09
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.05
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.04
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.99
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.99
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.96
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.96
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.94
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.93
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.92
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.88
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.87
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.86
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.82
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.8
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.72
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.63
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.61
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.57
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.54
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.51
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.46
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.44
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.35
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.31
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.3
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.26
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.16
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.13
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.11
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.06
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.99
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.98
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.96
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.95
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.85
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.81
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.74
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.71
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.6
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.59
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.59
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.57
3co5_A	143	Putative two-component system transcriptional RES	97.57
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.52
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.52
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.51
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.41
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.4
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.39
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.37
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.35
3bos_A	242	Putative DNA replication factor; P-loop containing	97.34
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.3
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.3
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.29
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.27
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.19
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.18
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.11
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.1
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.08
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.06
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.06
3pvs_A	447	Replication-associated recombination protein A; ma	97.03
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.02
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.02
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.99
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.93
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.93
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.91
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.86
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.84
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.83
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.83
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.81
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	96.72
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.69
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.67
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	96.64
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	96.38
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.36
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.17
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.17
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.16
2qgz_A	308	Helicase loader, putative primosome component; str	96.11
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.05
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	95.92
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	95.87
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.85
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.81
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	95.79
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	95.77
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.76
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	95.73
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.64
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.57
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.49
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.45
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.41
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	95.39
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.17
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.16
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.15
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	95.08
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.07
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.07
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	95.06
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.02
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.01
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	94.94
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	94.93
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	94.93
3io5_A	333	Recombination and repair protein; storage dimer, i	94.8
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	94.78
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.63
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.59
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	94.55
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	94.46
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	94.42
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	94.41
1xp8_A	366	RECA protein, recombinase A; recombination, radior	94.38
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	94.37
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	94.29
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	94.26
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.25
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	94.25
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.24
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.22
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	94.19
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	94.13
2r44_A	331	Uncharacterized protein; putative ATPase, structur	94.05
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	94.03
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	93.98
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	93.98
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	93.93
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	93.93
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	93.88
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	93.79
1u94_A	356	RECA protein, recombinase A; homologous recombinat	93.76
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	93.75
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	93.69
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	93.67
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	93.65
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	93.6
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	93.57
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	93.56
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	93.44
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	93.4
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	93.34
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	93.34
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	93.32
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	93.3
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	93.29
3fwy_A	314	Light-independent protochlorophyllide reductase I	93.29
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	93.28
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	93.28
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	93.28
3ice_A	422	Transcription termination factor RHO; transcriptio	93.27
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	93.22
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	93.21
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	93.21
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	93.2
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	93.17
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	93.15
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	93.14
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	93.13
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	93.12
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	93.12
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	93.11
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	93.08
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	93.07
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	93.05
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	93.04
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	93.02
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	92.99
1via_A	175	Shikimate kinase; structural genomics, transferase	92.98
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	92.9
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	92.9
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	92.89
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	92.88
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	92.88
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	92.86
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	92.84
2hf9_A	226	Probable hydrogenase nickel incorporation protein	92.83
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	92.83
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	92.8
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	92.77
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	92.76
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	92.75
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	92.74
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	92.73
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	92.62
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	92.61
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	92.6
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	92.57
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	92.55
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	92.54
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	92.53
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	92.53
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	92.53
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	92.51
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	92.45
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	92.45
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	92.37
2vli_A	183	Antibiotic resistance protein; transferase, tunica	92.35
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	92.29
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	92.27
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	92.23
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	92.21
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	92.11
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	92.09
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	91.99
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	91.97
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	91.95
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	91.91
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	91.82
2ewv_A	372	Twitching motility protein PILT; pilus retraction	91.82
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	91.81
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	91.77
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	91.72
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	91.72
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	91.64
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	91.64
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	91.59
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	91.59
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	91.57
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	91.57
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	91.53
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	91.53
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	91.51
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	91.49
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	91.49
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	91.48
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	91.46
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	91.41
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	91.38
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	91.37
1tue_A	212	Replication protein E1; helicase, replication, E1E	91.28
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	91.22
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	91.2
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	91.19
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	91.17
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	91.16
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	91.16
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	91.13
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	91.06
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	91.04
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	90.97
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	90.96
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	90.94
3l0o_A	427	Transcription termination factor RHO; helicase, RH	90.88
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	90.87
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	90.83
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	90.81
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	90.75
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	90.66
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	90.63
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	90.47
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	90.46
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	90.45
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	90.4
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	90.39
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	90.32
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	90.32
1b0u_A	262	Histidine permease; ABC transporter, transport pro	90.24
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	90.19
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	90.19
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	90.16
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	90.15
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	90.12
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	90.11
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	90.08
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	90.02
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	90.01
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	90.01
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	89.96
2wji_A	165	Ferrous iron transport protein B homolog; membrane	89.95
2xxa_A	433	Signal recognition particle protein; protein trans	89.93
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	89.85
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	89.8
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	89.75
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	89.73
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	89.72
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	89.7
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	89.64
1ji0_A	240	ABC transporter; ATP binding protein, structural g	89.63
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	89.58
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	89.57
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	89.57
1g6h_A	257	High-affinity branched-chain amino acid transport	89.56
1sgw_A	214	Putative ABC transporter; structural genomics, P p	89.56
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	89.55
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	89.53
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	89.51
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	89.47
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	89.46
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	89.45
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	89.43
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	89.43
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	89.33
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	89.25
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	89.25
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	89.22
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	89.21
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	89.21
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	89.18
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	89.14
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	89.13
3end_A	307	Light-independent protochlorophyllide reductase ir	89.1
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	89.09
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	89.08
2ghi_A	260	Transport protein; multidrug resistance protein, M	89.06
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	89.01
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	88.99
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	88.94
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	88.91
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	88.9
2og2_A	359	Putative signal recognition particle receptor; nuc	88.86
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	88.83
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	88.83
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	88.78
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	88.76
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	88.68
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	88.61
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	88.5
2ged_A	193	SR-beta, signal recognition particle receptor beta	88.49
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	88.46
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	88.35
2eyu_A	261	Twitching motility protein PILT; pilus retraction	88.32
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	88.28
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	88.27
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	88.27
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	88.27
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	88.24
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	88.23
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	88.21
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	88.2
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	88.17
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	88.11
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	88.08
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	88.08
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	88.01
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	87.99
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	87.99
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	87.97
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	87.95
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	87.93
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	87.89
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	87.86
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	87.78
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	87.74
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	87.71
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	87.67
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	87.63
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	87.54
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	87.5
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	87.49
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	87.43
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	87.39
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	87.34

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=100.00  E-value=1.4e-44  Score=416.98  Aligned_cols=268  Identities=17%  Similarity=0.188  Sum_probs=220.0

Q ss_pred             eechhhHHHHHHHHhcC-CCCceEEEEEcCCCChHHHHHHHHhc--CcccccccceeEEEEcCCCC--CHHHHHHHHHHH
Q 045113          170 VGLDDRMEELLDLLIEG-PPQLSAVTILDSIGLDKTAFAAEAYS--GNYVKHYFDCHAWVQEPYTC--YADQILDIIIKF  244 (821)
Q Consensus       170 vGr~~~~~~i~~~L~~~-~~~~~vi~i~G~gGiGKTtLa~~v~~--~~~~~~~F~~~~wv~~s~~~--~~~~~~~~i~~~  244 (821)
                      |||+.++++|.++|..+ ++..++|+|+|||||||||||+.+|+  +.+++.+|+.++||++++.+  +...+++.|+.+
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~  210 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  210 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHH
Confidence            59999999999999765 44689999999999999999999998  67899999999999999985  899999999999


Q ss_pred             hCCch---------h------HHHHHHHhCCC-cEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh------
Q 045113          245 LMPSS---------R------LIILHEYLMTK-RYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV------  302 (821)
Q Consensus       245 l~~~~---------~------~~~l~~~l~~k-r~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~------  302 (821)
                      ++...         +      ...+++.|+++ ||||||||||+.+++ .+..     .+||+||||||++.|+      
T Consensus       211 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~~-----~~gs~ilvTTR~~~v~~~~~~~  284 (549)
T 2a5y_B          211 LKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWAQ-----ELRLRCLVTTRDVEISNAASQT  284 (549)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHHH-----HTTCEEEEEESBGGGGGGCCSC
T ss_pred             HhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-cccc-----cCCCEEEEEcCCHHHHHHcCCC
Confidence            87641         1      57888999996 999999999998765 2211     1699999999998887      


Q ss_pred             ---------------cccc-cccCCcCCCCccchHHHHHHHcCCchHHHHHhhcc----ccccc----------chhccc
Q 045113          303 ---------------TLFQ-FENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSI----SLEEN----------KREAIA  352 (821)
Q Consensus       303 ---------------~lf~-~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~----~~~~~----------~~~~i~  352 (821)
                                     +||. .......++.+.+++++|+++|+|+||||+++|+.    .|+..          ...++.
T Consensus       285 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~w~~~~~l~~~l~~~~~~~i~  364 (549)
T 2a5y_B          285 CEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVE  364 (549)
T ss_dssp             EEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCSSTTC
T ss_pred             CeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhccchHHHHHHhHHHhhcccHHHHH
Confidence                           4555 11111124677889999999999999999999943    22111          235677


Q ss_pred             cchhHHHHhhhcCChhhHHHHh-----------hcccCCCCceechhhHHHHHHHc--CCCCC-----ChHHHHHHHHHH
Q 045113          353 KPIFLQSVAYCMLPFPLKLCCL-----------YLPVFPAHLEISTRQLYQLWIAE--GFIPD-----NSEATAEKYLEQ  414 (821)
Q Consensus       353 ~~~~~l~~sy~~L~~~~k~cfl-----------~~s~Fp~~~~i~~~~Li~~W~ae--g~i~~-----~~~~~~~~~~~~  414 (821)
                         +++.+||++||+++|.||+           |||+||+++.|+    +++|+|+  ||+..     +.+++++ ||++
T Consensus       365 ---~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~~~~~-~l~~  436 (549)
T 2a5y_B          365 ---CITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDDEVAD-RLKR  436 (549)
T ss_dssp             ---CCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCTHHHHH-HHHH
T ss_pred             ---HHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCHHHHHH-HHHH
Confidence               8999999999999999999           999999999999    8999999  99975     4788888 9999


Q ss_pred             HHhCCceeeeecCCCCCEEEEEeCcchHHHHHHhccccCcce
Q 045113          415 LINRGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTLNAEFVF  456 (821)
Q Consensus       415 L~~r~ll~~~~~~~~~~~~~~~mHdlv~dla~~~~~~~~e~f  456 (821)
                      |+++||++....+   ...+|+|||++|++|++++.  ++++
T Consensus       437 L~~rsLl~~~~~~---~~~~~~mHdlv~~~a~~~~~--~~~~  473 (549)
T 2a5y_B          437 LSKRGALLSGKRM---PVLTFKIDHIIHMFLKHVVD--AQTI  473 (549)
T ss_dssp             TTTBSSCSEEECS---SSCEEECCHHHHHHHHTTSC--THHH
T ss_pred             HHHcCCeeEecCC---CceEEEeChHHHHHHHHHHH--HHHH
Confidence            9999999987643   33679999999999999998  6543

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=100.00  E-value=1.8e-35  Score=376.85  Aligned_cols=266  Identities=20%  Similarity=0.206  Sum_probs=213.8

Q ss_pred             CCCCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc-cccc-ceeEEEEcCCCCC--HHHHH
Q 045113          163 SFKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV-KHYF-DCHAWVQEPYTCY--ADQIL  238 (821)
Q Consensus       163 ~~~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~~F-~~~~wv~~s~~~~--~~~~~  238 (821)
                      +.....||||++++++|.++|...++..++|+|+||||+||||||+++|++.+. ..+| +.++||++++..+  ....+
T Consensus       120 p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  199 (1249)
T 3sfz_A          120 PQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKL  199 (1249)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHH
T ss_pred             CCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHH
Confidence            345567999999999999999877677999999999999999999999997544 4545 5778999998654  34456


Q ss_pred             HHHHHHhCCch--------h----HHHHHHHhCCC--cEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh--
Q 045113          239 DIIIKFLMPSS--------R----LIILHEYLMTK--RYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV--  302 (821)
Q Consensus       239 ~~i~~~l~~~~--------~----~~~l~~~l~~k--r~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~--  302 (821)
                      ..++..+....        +    ...++..+.++  ||||||||||+..+|..+       .+||+||||||++.++  
T Consensus       200 ~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~  272 (1249)
T 3sfz_A          200 QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDS  272 (1249)
T ss_dssp             HHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTT
T ss_pred             HHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHh
Confidence            67777776532        1    56677777766  999999999998877653       5789999999999887  


Q ss_pred             --------------------cccc-cccCCcCCCCccchHHHHHHHcCCchHHHHHhhcc------cc------------
Q 045113          303 --------------------TLFQ-FENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSI------SL------------  343 (821)
Q Consensus       303 --------------------~lf~-~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~------~~------------  343 (821)
                                          +||. +..  ...+...+.+++|+++|+|+||||+++|..      .|            
T Consensus       273 ~~~~~~~~~~~~~l~~~~a~~l~~~~~~--~~~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~~~~~~~l~~l~~~~~  350 (1249)
T 3sfz_A          273 VMGPKHVVPVESGLGREKGLEILSLFVN--MKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQF  350 (1249)
T ss_dssp             CCSCBCCEECCSSCCHHHHHHHHHHHHT--SCSTTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSSSCHHHHHHHHHSCCC
T ss_pred             hcCCceEEEecCCCCHHHHHHHHHHhhC--CChhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcChhHHHHHHHHHhhhhh
Confidence                                2232 111  134566788999999999999999999921      11            


Q ss_pred             -ccc-----chhccccchhHHHHhhhcCChhhHHHHhhcccCCCCceechhhHHHHHHHcCCCCCChHHHHHHHHHHHHh
Q 045113          344 -EEN-----KREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLIN  417 (821)
Q Consensus       344 -~~~-----~~~~i~~~~~~l~~sy~~L~~~~k~cfl~~s~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~L~~  417 (821)
                       .+.     ..+.+.   .++.+||+.||+++|.||+|||+||+++.|+.+.++.+|.++       ++.++.++++|++
T Consensus       351 ~~~~~~~~~~~~~~~---~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~-------~~~~~~~l~~L~~  420 (1249)
T 3sfz_A          351 KRIRKSSSYDYEALD---EAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLE-------TEEVEDILQEFVN  420 (1249)
T ss_dssp             CCSSCTTCTTHHHHH---HHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCC-------HHHHHHHHHHHHH
T ss_pred             hhcccccccchHHHH---HHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCC-------HHHHHHHHHHHHh
Confidence             000     224577   999999999999999999999999999999999999999754       5678999999999


Q ss_pred             CCceeeeecCCCCCEEEEEeCcchHHHHHHhcc
Q 045113          418 RGFVEVKKRRAGGTINTCSIRSRCWPSLLVVTL  450 (821)
Q Consensus       418 r~ll~~~~~~~~~~~~~~~mHdlv~dla~~~~~  450 (821)
                      +||++....   +...+|+|||++|++++..+.
T Consensus       421 ~sl~~~~~~---~~~~~~~~h~l~~~~~~~~~~  450 (1249)
T 3sfz_A          421 KSLLFCNRN---GKSFCYYLHDLQVDFLTEKNR  450 (1249)
T ss_dssp             TTSCEEEES---SSSEEEECCHHHHHHHHHHTG
T ss_pred             ccceEEecC---CCceEEEecHHHHHHHHhhhh
Confidence            999997653   344679999999999999876

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=100.00  E-value=4.3e-35  Score=340.72  Aligned_cols=254  Identities=17%  Similarity=0.150  Sum_probs=199.2

Q ss_pred             CeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccce-eEEEEcCCCCCHHHHHHHHHHHhC
Q 045113          168 DTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDC-HAWVQEPYTCYADQILDIIIKFLM  246 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~-~~wv~~s~~~~~~~~~~~i~~~l~  246 (821)
                      ..|||+.++++|.++|...+ ..++|+|+||||+||||||+++|++.+++.+|+. ++||++++.++...++..|+..+.
T Consensus       129 ~~VGRe~eLeeL~elL~~~d-~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~  207 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELR-PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY  207 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCC-SSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccC-CCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHh
Confidence            35999999999999998643 3899999999999999999999988788999996 999999999998888888777421


Q ss_pred             C-------c--------hh----HHHHHHHh---CCCcEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhhcc
Q 045113          247 P-------S--------SR----LIILHEYL---MTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTVTL  304 (821)
Q Consensus       247 ~-------~--------~~----~~~l~~~l---~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~~l  304 (821)
                      .       .        .+    ...+++.|   .++|+||||||||+.+.|+.+.       +||+||||||++.++..
T Consensus       208 ~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~~  280 (1221)
T 1vt4_I          208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTDF  280 (1221)
T ss_dssp             HHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHHH
T ss_pred             hcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHHh
Confidence            1       0        01    45566655   6899999999999998888762       68999999999987721


Q ss_pred             ------cccc--c-------CCc-------CCCCccchHHHHHHHcCCchHHHHHhhccc---------ccccchhcccc
Q 045113          305 ------FQFE--N-------GQN-------IRLDLVPTGGPLRVTYQGWPFHILYHGSIS---------LEENKREAIAK  353 (821)
Q Consensus       305 ------f~~~--~-------~~~-------~~~~~~~~~~~i~~~c~glPLai~~~g~~~---------~~~~~~~~i~~  353 (821)
                            +...  .       ++.       ......++..+   .|+|+||||+++|+..         |.......+. 
T Consensus       281 l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~~eeL~~e---ICgGLPLALkLaGs~Lr~k~~s~eeW~~~~~~~I~-  356 (1221)
T 1vt4_I          281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE---VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLT-  356 (1221)
T ss_dssp             HHHHSSCEEEECSSSSCCCHHHHHHHHHHHHCCCTTTHHHH---HCCCCHHHHHHHHHHHHHSCSSHHHHHHCSCHHHH-
T ss_pred             cCCCeEEEecCccccCCcCHHHHHHHHHHHcCCCHHHHHHH---HhCCCHHHHHHHHHHHhCCCCCHHHHhcCChhHHH-
Confidence                  1111  0       000       00112333333   4999999999999321         2111346788 


Q ss_pred             chhHHHHhhhcCChhh-HHHHhhcccCCCCceechhhHHHHHHHcCCCCCChHHHHHHHHHHHHhCCceeeeecCCCCCE
Q 045113          354 PIFLQSVAYCMLPFPL-KLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINRGFVEVKKRRAGGTI  432 (821)
Q Consensus       354 ~~~~l~~sy~~L~~~~-k~cfl~~s~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~L~~r~ll~~~~~~~~~~~  432 (821)
                        .+|.+||+.||++. |.||+|||+||+++.|+.+.++.+|+++|      ++.++.++++|+++||++...     ..
T Consensus       357 --aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeG------eedAe~~L~eLvdRSLLq~d~-----~~  423 (1221)
T 1vt4_I          357 --TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI------KSDVMVVVNKLHKYSLVEKQP-----KE  423 (1221)
T ss_dssp             --HHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC------SHHHHHHHHHHHTSSSSSBCS-----SS
T ss_pred             --HHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC------HHHHHHHHHHHHhhCCEEEeC-----CC
Confidence              99999999999999 99999999999999999999999999987      245889999999999999842     12


Q ss_pred             EEEEeCcchHHHHH
Q 045113          433 NTCSIRSRCWPSLL  446 (821)
Q Consensus       433 ~~~~mHdlv~dla~  446 (821)
                      .+|+|||++++++.
T Consensus       424 ~rYrMHDLllELr~  437 (1221)
T 1vt4_I          424 STISIPSIYLELKV  437 (1221)
T ss_dssp             SEEBCCCHHHHHHH
T ss_pred             CEEEehHHHHHHhc
Confidence            57999999999663

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.97  E-value=1.6e-30  Score=304.16  Aligned_cols=263  Identities=19%  Similarity=0.222  Sum_probs=202.3

Q ss_pred             CCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc-cccc-ceeEEEEcCCCCCHHHHHHH--
Q 045113          165 KNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV-KHYF-DCHAWVQEPYTCYADQILDI--  240 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~~F-~~~~wv~~s~~~~~~~~~~~--  240 (821)
                      ....||||+.++++|.++|....+..++|+|+||||+||||||+.++++.++ +.+| +.++|++++.. +...+...  
T Consensus       122 ~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~  200 (591)
T 1z6t_A          122 RPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQ  200 (591)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHHHH
T ss_pred             CCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHHHH
Confidence            4567999999999999999865556899999999999999999999997666 7889 58999999876 33333333  


Q ss_pred             -HHHHhCCc--------hh----HHHHHHHhCC--CcEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh---
Q 045113          241 -IIKFLMPS--------SR----LIILHEYLMT--KRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV---  302 (821)
Q Consensus       241 -i~~~l~~~--------~~----~~~l~~~l~~--kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~---  302 (821)
                       ++..++..        .+    ...+...+.+  +++||||||+|+...+..    +   .+|++||||||+..++   
T Consensus       201 ~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~----l---~~~~~ilvTsR~~~~~~~~  273 (591)
T 1z6t_A          201 NLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKA----F---DSQCQILLTTRDKSVTDSV  273 (591)
T ss_dssp             HHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHT----T---CSSCEEEEEESCGGGGTTC
T ss_pred             HHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHH----h---cCCCeEEEECCCcHHHHhc
Confidence             34444421        11    4566666655  799999999999766543    2   4689999999998866   


Q ss_pred             -------------------cccc-cccCCcCCCCccchHHHHHHHcCCchHHHHHhhcc------cccc--c--------
Q 045113          303 -------------------TLFQ-FENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSI------SLEE--N--------  346 (821)
Q Consensus       303 -------------------~lf~-~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~------~~~~--~--------  346 (821)
                                         ++|. ....  ......+.+.+|+++|+|+||||..+|..      .|..  .        
T Consensus       274 ~~~~~~v~~l~~L~~~ea~~L~~~~~~~--~~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~~~w~~~l~~l~~~~~~  351 (591)
T 1z6t_A          274 MGPKYVVPVESSLGKEKGLEILSLFVNM--KKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFK  351 (591)
T ss_dssp             CSCEEEEECCSSCCHHHHHHHHHHHHTS--CGGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHSTTCHHHHHHHHHSCCCC
T ss_pred             CCCceEeecCCCCCHHHHHHHHHHHhCC--CcccccHHHHHHHHHhCCCcHHHHHHHHHHhcCchhHHHHHHHHHHhHHH
Confidence                               2333 1111  12234678999999999999999999921      1210  0        


Q ss_pred             --------chhccccchhHHHHhhhcCChhhHHHHhhcccCCCCceechhhHHHHHHHcCCCCCChHHHHHHHHHHHHhC
Q 045113          347 --------KREAIAKPIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINR  418 (821)
Q Consensus       347 --------~~~~i~~~~~~l~~sy~~L~~~~k~cfl~~s~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~L~~r  418 (821)
                              ....+.   .++..||+.||++.|.||++||+||+++.|+.+.++.+|.++       .+.+..++++|+++
T Consensus       352 ~~~~~~~~~~~~l~---~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~-------~~~~~~~l~~L~~~  421 (591)
T 1z6t_A          352 RIRKSSSYDYEALD---EAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME-------TEEVEDILQEFVNK  421 (591)
T ss_dssp             CSSCCCSSCCHHHH---HHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCC-------HHHHHHHHHHHHHT
T ss_pred             HhhhccccchHHHH---HHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccC-------HHHHHHHHHHHHhC
Confidence                    123567   899999999999999999999999999999999999999653       34578999999999


Q ss_pred             CceeeeecCCCCCEEEEEeCcchHHHHHHhcc
Q 045113          419 GFVEVKKRRAGGTINTCSIRSRCWPSLLVVTL  450 (821)
Q Consensus       419 ~ll~~~~~~~~~~~~~~~mHdlv~dla~~~~~  450 (821)
                      ||++....   +....|+||+++++++.....
T Consensus       422 ~Ll~~~~~---~~~~~~~~H~lv~~~~~~~~~  450 (591)
T 1z6t_A          422 SLLFCDRN---GKSFRYYLHDLQVDFLTEKNC  450 (591)
T ss_dssp             TSSEEEEE---TTEEEEECCHHHHHHHHHHTG
T ss_pred             cCeEEecC---CCccEEEEcHHHHHHHHhhhh
Confidence            99986543   344689999999999988743

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=99.94  E-value=3.7e-27  Score=283.70  Aligned_cols=320  Identities=18%  Similarity=0.140  Sum_probs=149.0

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC-cccccccCC--------------------------
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN-QYPSEIENL--------------------------  540 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~-~lp~~i~~l--------------------------  540 (821)
                      .+++|++|.+.++...   ...+...+..+++|++|+|++|.+. .+|..+.++                          
T Consensus       316 ~l~~L~~L~L~~n~l~---~~ip~~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~  392 (768)
T 3rgz_A          316 SCSLLESLALSSNNFS---GELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNP  392 (768)
T ss_dssp             GCTTCCEEECCSSEEE---EECCHHHHTTCTTCCEEECCSSEEEECCCTTHHHHTTTCSEEECCSSEEEEECCTTTTCST
T ss_pred             cCCCccEEECCCCccc---CcCCHHHHhcCCCCCEEeCcCCccCccccHHHHhhhcCCcEEEccCCCcCCCcChhhhhcc
Confidence            5555555555555432   1133334555555555555555544 444443333                          


Q ss_pred             -CCceEEeecCCCCc-cccHHHHhccccceEEecCCcccc-cchhhhccCccCceeecCCcccCCCCCCCcCCCCCccee
Q 045113          541 -SLLRYLKLNIPSLK-SLPLSFFNYLLNLYTLDMPFSYID-HTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFI  617 (821)
Q Consensus       541 -~~Lr~L~L~~~~i~-~lp~~i~~~L~~L~~L~L~~~~l~-~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L  617 (821)
                       ++|++|++++|.+. .+|..+. ++++|++|++++|.+. .+|..++++++|++|++++|.+.+.+|..++.+++|++|
T Consensus       393 ~~~L~~L~L~~n~l~~~~p~~l~-~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L  471 (768)
T 3rgz_A          393 KNTLQELYLQNNGFTGKIPPTLS-NCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETL  471 (768)
T ss_dssp             TCCCCEEECCSSEEEEECCGGGG-GCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEE
T ss_pred             cCCccEEECCCCccccccCHHHh-cCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEE
Confidence             33444444444443 4444454 5555555555555443 335555555555555555555555555555555555555


Q ss_pred             ccccC---CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEE
Q 045113          618 SALYP---CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLS  694 (821)
Q Consensus       618 ~~~~~---~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~  694 (821)
                      ++..|   +..+.. +.++++|+.|++++|  ...+.+|..++.+++|+.|+++.|    .+.......+..+++|+.|+
T Consensus       472 ~L~~N~l~~~~p~~-l~~l~~L~~L~L~~N--~l~~~~p~~~~~l~~L~~L~L~~N----~l~~~~p~~l~~l~~L~~L~  544 (768)
T 3rgz_A          472 ILDFNDLTGEIPSG-LSNCTNLNWISLSNN--RLTGEIPKWIGRLENLAILKLSNN----SFSGNIPAELGDCRSLIWLD  544 (768)
T ss_dssp             ECCSSCCCSCCCGG-GGGCTTCCEEECCSS--CCCSCCCGGGGGCTTCCEEECCSS----CCEEECCGGGGGCTTCCEEE
T ss_pred             EecCCcccCcCCHH-HhcCCCCCEEEccCC--ccCCcCChHHhcCCCCCEEECCCC----cccCcCCHHHcCCCCCCEEE
Confidence            55552   233334 555555555555555  233344445555555555555543    11111111134445555555


Q ss_pred             EecccCCCCCccc-------------------------------------------------------------------
Q 045113          695 FSNTDLMDDPMPA-------------------------------------------------------------------  707 (821)
Q Consensus       695 L~~~~l~~~~~~~-------------------------------------------------------------------  707 (821)
                      +++|.+++..|..                                                                   
T Consensus       545 Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~  624 (768)
T 3rgz_A          545 LNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHT  624 (768)
T ss_dssp             CCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEEC
T ss_pred             CCCCccCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccC
Confidence            5555443322221                                                                   


Q ss_pred             ---ccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccccCCC
Q 045113          708 ---LEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCI  784 (821)
Q Consensus       708 ---l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l  784 (821)
                         ++.+++|+.|+|++|.+.+.. +...+.+++|+.|+|++|.....+|..++.+++|+.|++++|.....+|..+.++
T Consensus       625 ~~~~~~l~~L~~LdLs~N~l~g~i-p~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l  703 (768)
T 3rgz_A          625 SPTFDNNGSMMFLDMSYNMLSGYI-PKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSAL  703 (768)
T ss_dssp             CCSCSSSBCCCEEECCSSCCBSCC-CGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEECCCGGGGGC
T ss_pred             chhhhccccccEEECcCCcccccC-CHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCCCcccCcCChHHhCC
Confidence               222344555555555554432 2224455555555555554333555555555556666665555444555555555


Q ss_pred             CCCCEEEEeCCc---------------------------HHHHHHHhhcccCccceeeeccCC
Q 045113          785 KSLNNFNCWWPQ---------------------------PELRQKLREFEDKEQCGIQLYPYG  820 (821)
Q Consensus       785 ~~L~~L~l~~c~---------------------------~~~~~~~~~~~~~~~~~i~~ip~~  820 (821)
                      ++|++|++++|+                           ..+ ..+....+++|++|+|+|.+
T Consensus       704 ~~L~~L~ls~N~l~g~iP~~~~~~~~~~~~~~gN~~Lcg~~l-~~C~~~~~~~~~~~~~~~~~  765 (768)
T 3rgz_A          704 TMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGLCGYPL-PRCDPSNADGYAHHQRSHHH  765 (768)
T ss_dssp             CCCSEEECCSSEEEEECCSSSSGGGSCGGGGCSCTEEESTTS-CCCCSCC-------------
T ss_pred             CCCCEEECcCCcccccCCCchhhccCCHHHhcCCchhcCCCC-cCCCCCccCCCCCCCCcccc
Confidence            666666555442                           111 13455677899999999864

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.93  E-value=6.5e-26  Score=266.21  Aligned_cols=322  Identities=18%  Similarity=0.135  Sum_probs=199.1

Q ss_pred             CCCceeEEEEEcCCCccccc--C-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCC
Q 045113          467 RKNVKRFFALEQQSDFAYLD--D-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSL  542 (821)
Q Consensus       467 ~~~~~r~lsl~~~~~~~~~~--~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~  542 (821)
                      .+..++++.+.++.......  . .+++|++|.+.++....    ..+..|..+++|++|+|++|.++.+ |..++++++
T Consensus        30 ~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~----i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~  105 (606)
T 3vq2_A           30 IPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIET----IEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTS  105 (606)
T ss_dssp             SCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCE----ECTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTT
T ss_pred             CCCCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCcccc----cCHHHhhchhhcCEeECCCCcccccChhhcCCccc
Confidence            45678888888776654433  2 78888888888876643    4556778888888888888888765 677888888


Q ss_pred             ceEEeecCCCCcccc-HHHHhccccceEEecCCcccc--cchhhhccCccCceeecCCcccCCCCCCCcCCCC-------
Q 045113          543 LRYLKLNIPSLKSLP-LSFFNYLLNLYTLDMPFSYID--HTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLE-------  612 (821)
Q Consensus       543 Lr~L~L~~~~i~~lp-~~i~~~L~~L~~L~L~~~~l~--~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~-------  612 (821)
                      |++|++++|.+..+| ..++ ++++|++|++++|.+.  .+|..++++++|++|++++|.+.+..|..++.++       
T Consensus       106 L~~L~L~~n~l~~~~~~~~~-~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~~l~  184 (606)
T 3vq2_A          106 LENLVAVETKLASLESFPIG-QLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNL  184 (606)
T ss_dssp             CCEEECTTSCCCCSSSSCCT-TCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSCCCEECTTTTHHHHHCTTCCC
T ss_pred             CCEEEccCCccccccccccC-CCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccCCcceecChhhhhhhhccccccc
Confidence            888888888887666 5566 8888888888888776  3677888888888888887766443332222111       


Q ss_pred             --------------------Ccceec------------------------------------------------------
Q 045113          613 --------------------NLNFIS------------------------------------------------------  618 (821)
Q Consensus       613 --------------------~L~~L~------------------------------------------------------  618 (821)
                                          +|+.|+                                                      
T Consensus       185 ~L~l~~n~l~~~~~~~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~l~~~~~~~~~~l~~l~l~  264 (606)
T 3vq2_A          185 SLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTID  264 (606)
T ss_dssp             EEECTTCCCCEECTTTTTTCEEEEEEEESCCSCHHHHHHHHHTTTTCEEEEEEEECCTTSCCCSCCCGGGGTTGGGSEEE
T ss_pred             eeeccCCCcceeCcccccCceeeeeeccCCccchhHHHHHhccccccccccccccccccCCcccccChHHhhhhhhccHh
Confidence                                122222                                                      


Q ss_pred             -------------------------------------------------cccC-CcchhhhcCCCCCCCeEEEecc----
Q 045113          619 -------------------------------------------------ALYP-CCCTKDLLGRLPNLRNLRIQGD----  644 (821)
Q Consensus       619 -------------------------------------------------~~~~-~~~~~~~l~~l~~L~~L~l~~~----  644 (821)
                                                                       +..+ -..++. + .+++|+.|+++++    
T Consensus       265 ~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~l~~~~~L~~L~l~~n~l~~lp~-~-~l~~L~~L~l~~n~~~~  342 (606)
T 3vq2_A          265 EFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPT-L-DLPFLKSLTLTMNKGSI  342 (606)
T ss_dssp             EEEECCCTTCCGGGGSCGGGTTCSEEEEESCCCCCCCCCCTTCCCSEEEEESCCCSSCCC-C-CCSSCCEEEEESCSSCE
T ss_pred             heeccccccccccccccccCCCCCEEEecCccchhhhhccccccCCEEEcccccCccccc-C-CCCccceeeccCCcCcc
Confidence                                                             1110 000001 1 2333333333333    


Q ss_pred             ------------------cccchhHHHHHccCCCCcCEEEeecCC---------CCCCCCeeEecc-----------cCC
Q 045113          645 ------------------LSYNQSLLSKSLCRLSCLESLKLANES---------KMPRLSKIILAE-----------YVF  686 (821)
Q Consensus       645 ------------------~~~~~~~l~~~l~~~~~L~~L~l~~~~---------~~~~L~~l~l~~-----------~~~  686 (821)
                                        .-......+..+..+++|+.|+++.|.         .+++|+.|.+.+           +..
T Consensus       343 ~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~  422 (606)
T 3vq2_A          343 SFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLS  422 (606)
T ss_dssp             ECCCCCCTTCCEEECCSSCEEEEEECCHHHHCCSCCCEEECCSCSEEEECCCCTTCTTCCEEECTTSEEESTTTTTTTTT
T ss_pred             chhhccCCCCCEEECcCCccCCCcchhhhhccCCcccEeECCCCccccchhhccCCCCCCeeECCCCccCCccChhhhhc
Confidence                              100111124455566667777666531         345666666654           345


Q ss_pred             CCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce-eeccccccccce
Q 045113          687 PHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW-TMGTGAMPKLEC  765 (821)
Q Consensus       687 ~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~-~~~~~~l~~L~~  765 (821)
                      +++|+.|++++|.+.+..+..++.+++|+.|++++|.+.+..++..+..+++|+.|++++|. +..+ +..+..+++|+.
T Consensus       423 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~  501 (606)
T 3vq2_A          423 LEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQ-LEQISWGVFDTLHRLQL  501 (606)
T ss_dssp             CTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSC-CCEECTTTTTTCTTCCE
T ss_pred             cccCCEEECcCCCCCccchhhhcCCCCCCEEECCCCcCCCcchHHhhccCCCCCEEECCCCc-CCccChhhhcccccCCE
Confidence            67777777777776666666677777777777777766654444445666777777777763 3333 334556666666


Q ss_pred             eEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          766 LIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       766 L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      |++++|......|..+.++++|+.|++++|.
T Consensus       502 L~Ls~N~l~~~~~~~~~~l~~L~~L~l~~N~  532 (606)
T 3vq2_A          502 LNMSHNNLLFLDSSHYNQLYSLSTLDCSFNR  532 (606)
T ss_dssp             EECCSSCCSCEEGGGTTTCTTCCEEECTTSC
T ss_pred             EECCCCcCCCcCHHHccCCCcCCEEECCCCc
Confidence            6666665444445566666666666666654

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.93  E-value=1.4e-25  Score=248.32  Aligned_cols=290  Identities=16%  Similarity=0.166  Sum_probs=220.1

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccHH-HHhccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLS-FFNYLL  565 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~-i~~~L~  565 (821)
                      ..++++.|.+.++....    .+..+|..+++|++|+|++|.++.++ ..++.+++|++|++++|.+..+|+. +. +++
T Consensus        43 ~l~~l~~l~l~~~~l~~----l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~-~l~  117 (390)
T 3o6n_A           43 TLNNQKIVTFKNSTMRK----LPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQ-NVP  117 (390)
T ss_dssp             GGCCCSEEEEESCEESE----ECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTT-TCT
T ss_pred             ccCCceEEEecCCchhh----CChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhc-CCC
Confidence            56788888887776543    55667788888888888888887665 4778888888888888888866544 55 888


Q ss_pred             cceEEecCCcccccchhhh-ccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecc
Q 045113          566 NLYTLDMPFSYIDHTADEF-WKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       566 ~L~~L~L~~~~l~~lp~~i-~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      +|++|++++|.+..+|..+ .++++|++|++++|.+....|..++.+++|++|++..+.-.... ++.+++|+.|+++++
T Consensus       118 ~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~l~~L~~L~l~~n  196 (390)
T 3o6n_A          118 LLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD-LSLIPSLFHANVSYN  196 (390)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSBCC-GGGCTTCSEEECCSS
T ss_pred             CCCEEECCCCccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCCccc-cccccccceeecccc
Confidence            8888888888888887764 77888888888888886666667888888888888774211113 556677777777776


Q ss_pred             cccchhHHHHHccCCCCcCEEEeecCC-------CCCCCCeeEecc--------cCCCCCcceEEEecccCCCCCccccc
Q 045113          645 LSYNQSLLSKSLCRLSCLESLKLANES-------KMPRLSKIILAE--------YVFPHSLTHLSFSNTDLMDDPMPALE  709 (821)
Q Consensus       645 ~~~~~~~l~~~l~~~~~L~~L~l~~~~-------~~~~L~~l~l~~--------~~~~~~L~~L~L~~~~l~~~~~~~l~  709 (821)
                      .  ..     .+....+|+.|+++++.       ..++|+.|.+.+        +..+++|+.|+|++|.+.+..+..++
T Consensus       197 ~--l~-----~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~~  269 (390)
T 3o6n_A          197 L--LS-----TLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFV  269 (390)
T ss_dssp             C--CS-----EEECCSSCSEEECCSSCCCEEECCCCSSCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCEEESGGGT
T ss_pred             c--cc-----ccCCCCcceEEECCCCeeeeccccccccccEEECCCCCCcccHHHcCCCCccEEECCCCcCCCcChhHcc
Confidence            3  11     12334566666666532       234566666555        66789999999999998877788899


Q ss_pred             CCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccccCCCCCCCE
Q 045113          710 KLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNN  789 (821)
Q Consensus       710 ~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~  789 (821)
                      .+++|+.|+|++|.+.+  ++.....+++|++|++++| .+..++..+..+++|+.|++++|+ +..+|  +..+++|+.
T Consensus       270 ~l~~L~~L~L~~n~l~~--~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~l~~L~~L~L~~N~-i~~~~--~~~~~~L~~  343 (390)
T 3o6n_A          270 KMQRLERLYISNNRLVA--LNLYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLYLDHNS-IVTLK--LSTHHTLKN  343 (390)
T ss_dssp             TCSSCCEEECCSSCCCE--EECSSSCCTTCCEEECCSS-CCCCCGGGHHHHTTCSEEECCSSC-CCCCC--CCTTCCCSE
T ss_pred             ccccCCEEECCCCcCcc--cCcccCCCCCCCEEECCCC-cceecCccccccCcCCEEECCCCc-cceeC--chhhccCCE
Confidence            99999999999888765  3444567899999999998 577888778889999999999997 45565  678999999


Q ss_pred             EEEeCCc
Q 045113          790 FNCWWPQ  796 (821)
Q Consensus       790 L~l~~c~  796 (821)
                      |+++++|
T Consensus       344 L~l~~N~  350 (390)
T 3o6n_A          344 LTLSHND  350 (390)
T ss_dssp             EECCSSC
T ss_pred             EEcCCCC
Confidence            9999987

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.93  E-value=1.9e-25  Score=261.04  Aligned_cols=290  Identities=16%  Similarity=0.165  Sum_probs=234.8

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccHHH-Hhccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLSF-FNYLL  565 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~i-~~~L~  565 (821)
                      .+++++.|.+.++....    ++..+|..+++|++|+|++|.++.+| ..++.+++|++|+|++|.+..+|+.. + +++
T Consensus        49 ~l~~l~~l~l~~~~l~~----lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~-~l~  123 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMRK----LPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQ-NVP  123 (597)
T ss_dssp             GGCCCSEEEESSCEESE----ECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTT-TCT
T ss_pred             cCCCceEEEeeCCCCCC----cCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHc-CCC
Confidence            67888999888876643    66778889999999999999988665 48899999999999999998777654 5 899


Q ss_pred             cceEEecCCcccccchhh-hccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecc
Q 045113          566 NLYTLDMPFSYIDHTADE-FWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       566 ~L~~L~L~~~~l~~lp~~-i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      +|++|+|++|.+..+|.. ++++++|++|++++|.+.+..|..++.+++|++|++..|.-.... ++.+++|+.|+++++
T Consensus       124 ~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~-~~~l~~L~~L~l~~n  202 (597)
T 3oja_B          124 LLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD-LSLIPSLFHANVSYN  202 (597)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBCC-GGGCTTCSEEECCSS
T ss_pred             CCCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCCcC-hhhhhhhhhhhcccC
Confidence            999999999999888876 488999999999999987777778999999999998885311123 566788888888887


Q ss_pred             cccchhHHHHHccCCCCcCEEEeecCC-------CCCCCCeeEecc--------cCCCCCcceEEEecccCCCCCccccc
Q 045113          645 LSYNQSLLSKSLCRLSCLESLKLANES-------KMPRLSKIILAE--------YVFPHSLTHLSFSNTDLMDDPMPALE  709 (821)
Q Consensus       645 ~~~~~~~l~~~l~~~~~L~~L~l~~~~-------~~~~L~~l~l~~--------~~~~~~L~~L~L~~~~l~~~~~~~l~  709 (821)
                      .  ..     .+....+|+.|++++|.       .+++|+.|.+.+        +..+++|+.|+|++|.+.+..|..++
T Consensus       203 ~--l~-----~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~~~~l~~l~~L~~L~Ls~N~l~~~~~~~~~  275 (597)
T 3oja_B          203 L--LS-----TLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFV  275 (597)
T ss_dssp             C--CS-----EEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCEEESGGGT
T ss_pred             c--cc-----cccCCchhheeeccCCcccccccccCCCCCEEECCCCCCCCChhhccCCCCCEEECCCCccCCCCHHHhc
Confidence            3  11     23445677888877642       334677777665        67789999999999999888888999


Q ss_pred             CCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccccCCCCCCCE
Q 045113          710 KLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNN  789 (821)
Q Consensus       710 ~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~  789 (821)
                      .+++|+.|+|++|.+.+  ++.....+++|+.|+|++| .+..+|..++.+++|+.|++++|. +..+|  +..+++|+.
T Consensus       276 ~l~~L~~L~Ls~N~l~~--l~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~l~~L~~L~L~~N~-l~~~~--~~~~~~L~~  349 (597)
T 3oja_B          276 KMQRLERLYISNNRLVA--LNLYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLYLDHNS-IVTLK--LSTHHTLKN  349 (597)
T ss_dssp             TCSSCCEEECTTSCCCE--EECSSSCCTTCCEEECCSS-CCCCCGGGHHHHTTCSEEECCSSC-CCCCC--CCTTCCCSE
T ss_pred             CccCCCEEECCCCCCCC--CCcccccCCCCcEEECCCC-CCCccCcccccCCCCCEEECCCCC-CCCcC--hhhcCCCCE
Confidence            99999999999888876  3445577999999999998 567788778899999999999997 44554  678899999


Q ss_pred             EEEeCCc
Q 045113          790 FNCWWPQ  796 (821)
Q Consensus       790 L~l~~c~  796 (821)
                      |+++++|
T Consensus       350 L~l~~N~  356 (597)
T 3oja_B          350 LTLSHND  356 (597)
T ss_dssp             EECCSSC
T ss_pred             EEeeCCC
Confidence            9999987

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.93  E-value=2.3e-25  Score=266.73  Aligned_cols=268  Identities=18%  Similarity=0.190  Sum_probs=127.7

Q ss_pred             cCCceeEEEeCCCCCC-cccccccCCCCceEEeecCCC-Cc--cccHHHHhccc-------cceEEecCCcccccchh--
Q 045113          516 MYKLLRVLDLGSLVLN-QYPSEIENLSLLRYLKLNIPS-LK--SLPLSFFNYLL-------NLYTLDMPFSYIDHTAD--  582 (821)
Q Consensus       516 ~~~~Lr~L~L~~~~l~-~lp~~i~~l~~Lr~L~L~~~~-i~--~lp~~i~~~L~-------~L~~L~L~~~~l~~lp~--  582 (821)
                      ++++|++|+|++|.+. .+|..++++++|++|+|++|. +.  .+|..++ ++.       +|++|++++|.+..+|.  
T Consensus       489 ~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~-~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~  567 (876)
T 4ecn_A          489 NLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWT-RLADDEDTGPKIQIFYMGYNNLEEFPASA  567 (876)
T ss_dssp             GCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHH-HHHHCTTTTTTCCEEECCSSCCCBCCCHH
T ss_pred             cCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcccccchHHHH-hhhhcccccCCccEEEeeCCcCCccCChh
Confidence            5555555555555433 445555555555555555554 44  2554444 444       55555555555445554  


Q ss_pred             hhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCC-CCeEEEecccccchhHHHHHccCC
Q 045113          583 EFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPN-LRNLRIQGDLSYNQSLLSKSLCRL  659 (821)
Q Consensus       583 ~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~-L~~L~l~~~~~~~~~~l~~~l~~~  659 (821)
                      .++++++|++|++++|.+. .+| .++.+++|+.|++..|  ...+.. +..+++ |+.|++++|.   ...+|..+..+
T Consensus       568 ~l~~L~~L~~L~Ls~N~l~-~lp-~~~~L~~L~~L~Ls~N~l~~lp~~-l~~l~~~L~~L~Ls~N~---L~~lp~~~~~~  641 (876)
T 4ecn_A          568 SLQKMVKLGLLDCVHNKVR-HLE-AFGTNVKLTDLKLDYNQIEEIPED-FCAFTDQVEGLGFSHNK---LKYIPNIFNAK  641 (876)
T ss_dssp             HHTTCTTCCEEECTTSCCC-BCC-CCCTTSEESEEECCSSCCSCCCTT-SCEECTTCCEEECCSSC---CCSCCSCCCTT
T ss_pred             hhhcCCCCCEEECCCCCcc-cch-hhcCCCcceEEECcCCccccchHH-HhhccccCCEEECcCCC---CCcCchhhhcc
Confidence            4555555555555555543 444 4555555555555442  223333 444444 5555555442   11233333222


Q ss_pred             -------------------------------CCcCEEEeecCC----------CCCCCCeeEecc----------cC---
Q 045113          660 -------------------------------SCLESLKLANES----------KMPRLSKIILAE----------YV---  685 (821)
Q Consensus       660 -------------------------------~~L~~L~l~~~~----------~~~~L~~l~l~~----------~~---  685 (821)
                                                     ++|+.|+++.|.          .+++|+.|.+++          +.   
T Consensus       642 ~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~L~~ip~~~~~~~~  721 (876)
T 4ecn_A          642 SVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKD  721 (876)
T ss_dssp             CSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSCCCSCCCTTSSSCTT
T ss_pred             ccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCCccCHHHHccCCCCCEEECCCCcCCccChHHhcccc
Confidence                                           244445544421          233444444443          00   


Q ss_pred             ----CCCCcceEEEecccCCCCCccccc--CCCCCCEEEEeccccCCCeeeecCCCCcccceeeecc------CCCccce
Q 045113          686 ----FPHSLTHLSFSNTDLMDDPMPALE--KLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKS------MLWLEEW  753 (821)
Q Consensus       686 ----~~~~L~~L~L~~~~l~~~~~~~l~--~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~------~~~l~~~  753 (821)
                          ++++|+.|+|++|.++ .+|..+.  .+++|+.|+|++|.+.+  ++.....+++|+.|+|++      |.....+
T Consensus       722 ~~l~nl~~L~~L~Ls~N~L~-~lp~~l~~~~l~~L~~L~Ls~N~L~~--lp~~l~~L~~L~~L~Ls~N~~ls~N~l~~~i  798 (876)
T 4ecn_A          722 GNYKNTYLLTTIDLRFNKLT-SLSDDFRATTLPYLSNMDVSYNCFSS--FPTQPLNSSQLKAFGIRHQRDAEGNRILRQW  798 (876)
T ss_dssp             SCCTTGGGCCEEECCSSCCC-CCCGGGSTTTCTTCCEEECCSSCCSS--CCCGGGGCTTCCEEECCCCBCTTCCBCCCCC
T ss_pred             ccccccCCccEEECCCCCCc-cchHHhhhccCCCcCEEEeCCCCCCc--cchhhhcCCCCCEEECCCCCCcccccccccC
Confidence                1115555555555544 3444444  55555555555555544  233334555555555544      2223344


Q ss_pred             eeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          754 TMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       754 ~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      |..+..+++|+.|++++|.. ..+|..+.  ++|+.|++++|+
T Consensus       799 p~~l~~L~~L~~L~Ls~N~L-~~Ip~~l~--~~L~~LdLs~N~  838 (876)
T 4ecn_A          799 PTGITTCPSLIQLQIGSNDI-RKVDEKLT--PQLYILDIADNP  838 (876)
T ss_dssp             CTTGGGCSSCCEEECCSSCC-CBCCSCCC--SSSCEEECCSCT
T ss_pred             hHHHhcCCCCCEEECCCCCC-CccCHhhc--CCCCEEECCCCC
Confidence            44455555555555555543 55555433  455555555554

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.93  E-value=4.1e-25  Score=249.88  Aligned_cols=320  Identities=16%  Similarity=0.110  Sum_probs=249.8

Q ss_pred             CCCceeEEEEEcCCCccc-cc-C-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCC
Q 045113          467 RKNVKRFFALEQQSDFAY-LD-D-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSL  542 (821)
Q Consensus       467 ~~~~~r~lsl~~~~~~~~-~~-~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~  542 (821)
                      .+..++++.+..+..... +. . .+++|++|.+.++...   ....+..|..+++|++|+|++|.++.+ |..++++++
T Consensus        28 l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~---~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  104 (455)
T 3v47_A           28 LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPG---LVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLAN  104 (455)
T ss_dssp             CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTT---CEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTT
T ss_pred             CCCccCEEEecCCccCcCChhHhccCccccEEECcCCccc---ceECcccccccccCCEEeCCCCccCccChhhccCccc
Confidence            457799999998876554 22 2 8999999999988764   124467789999999999999999855 778999999


Q ss_pred             ceEEeecCCCCcc-ccHH--HHhccccceEEecCCcccccc-hhh-hccCccCceeecCCcccCCCCCCCcCCC--CCcc
Q 045113          543 LRYLKLNIPSLKS-LPLS--FFNYLLNLYTLDMPFSYIDHT-ADE-FWKMKKLRHLNFGSITLPAHPGNYCGSL--ENLN  615 (821)
Q Consensus       543 Lr~L~L~~~~i~~-lp~~--i~~~L~~L~~L~L~~~~l~~l-p~~-i~~l~~L~~L~L~~~~~~~~~p~~i~~l--~~L~  615 (821)
                      |++|++++|.+.. .|..  +. .+++|++|++++|.+..+ |.. +.++++|++|++++|.+.+..|..+..+  .+|+
T Consensus       105 L~~L~L~~n~l~~~~~~~~~~~-~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~~~L~  183 (455)
T 3v47_A          105 LEVLTLTQCNLDGAVLSGNFFK-PLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFT  183 (455)
T ss_dssp             CCEEECTTSCCBTHHHHSSTTT-TCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTTTSGGGTTCEEE
T ss_pred             CCEEeCCCCCCCccccCccccc-CcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCcccccChhhhhcccccccc
Confidence            9999999999884 4444  77 899999999999988887 554 7899999999999999988778777766  6788


Q ss_pred             eeccccC--Ccch---------hhhcCCCCCCCeEEEecccccchhHHHHHccC---CCCcCEEEeecCC----------
Q 045113          616 FISALYP--CCCT---------KDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCR---LSCLESLKLANES----------  671 (821)
Q Consensus       616 ~L~~~~~--~~~~---------~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~---~~~L~~L~l~~~~----------  671 (821)
                      .|++..+  ....         .. +..+++|+.|+++++  ...+..+..+..   .++|+.|+++.+.          
T Consensus       184 ~L~l~~n~l~~~~~~~~~~~~~~~-~~~~~~L~~L~Ls~n--~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  260 (455)
T 3v47_A          184 LLRLSSITLQDMNEYWLGWEKCGN-PFKNTSITTLDLSGN--GFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTN  260 (455)
T ss_dssp             EEECTTCBCTTCSTTCTTHHHHCC-TTTTCEEEEEECTTS--CCCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCS
T ss_pred             ccccccCcccccchhhcccccccc-ccccceeeeEecCCC--cccccchhhhhccccccceeeEeeccccccccccchhh
Confidence            8887773  1111         11 345678999999998  455555555433   3677777776431          


Q ss_pred             ------------CCCCCCeeEecc----------cCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCee
Q 045113          672 ------------KMPRLSKIILAE----------YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKL  729 (821)
Q Consensus       672 ------------~~~~L~~l~l~~----------~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~  729 (821)
                                  ..++|+.+.+++          +..+++|+.|+|++|.+.+..+..++.+++|+.|+|++|.+.+. .
T Consensus       261 ~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~  339 (455)
T 3v47_A          261 FKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSI-D  339 (455)
T ss_dssp             SCCCCTTTTGGGTTSCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEE-C
T ss_pred             hccCcccccccccccCceEEEecCccccccchhhcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCc-C
Confidence                        124566666655          67889999999999999877788999999999999998877543 3


Q ss_pred             eecCCCCcccceeeeccCCCccce-eeccccccccceeEEeecCCCCCCcc-ccCCCCCCCEEEEeCCc
Q 045113          730 TCGSDGFPRLKVLHLKSMLWLEEW-TMGTGAMPKLECLIINPCAYLKKMPE-QLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       730 ~~~~~~~~~L~~L~L~~~~~l~~~-~~~~~~l~~L~~L~i~~c~~l~~lp~-~l~~l~~L~~L~l~~c~  796 (821)
                      +..+..+++|++|+|++|. +..+ +..+..+++|+.|++++|. ++.+|. .+..+++|++|+++++|
T Consensus       340 ~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N~  406 (455)
T 3v47_A          340 SRMFENLDKLEVLDLSYNH-IRALGDQSFLGLPNLKELALDTNQ-LKSVPDGIFDRLTSLQKIWLHTNP  406 (455)
T ss_dssp             GGGGTTCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             hhHhcCcccCCEEECCCCc-ccccChhhccccccccEEECCCCc-cccCCHhHhccCCcccEEEccCCC
Confidence            4456789999999999984 5555 6678899999999999986 445655 56899999999999754

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=99.92  E-value=1.7e-25  Score=269.14  Aligned_cols=315  Identities=17%  Similarity=0.115  Sum_probs=202.0

Q ss_pred             CceeEEEEEcCCCccccc-C-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC---------------
Q 045113          469 NVKRFFALEQQSDFAYLD-D-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN---------------  531 (821)
Q Consensus       469 ~~~r~lsl~~~~~~~~~~-~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~---------------  531 (821)
                      ...+++.+..+....... . .+++|++|.+.++....    ..+..+..+++|++|+|++|.+.               
T Consensus       200 ~~L~~L~Ls~n~l~~~~~~l~~l~~L~~L~Ls~n~l~~----~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~  275 (768)
T 3rgz_A          200 VNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSG----DFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLS  275 (768)
T ss_dssp             TTCCEEECCSSCCCSCCCBCTTCCSCCEEECCSSCCCS----CHHHHTTTCSSCCEEECCSSCCEESCCCCCCTTCCEEE
T ss_pred             CcCCEEECcCCcCCCCCcccccCCCCCEEECcCCcCCC----cccHHHhcCCCCCEEECCCCcccCccCccccCCCCEEE
Confidence            455666666554432211 2 56666666666665432    34455566666666666666554               


Q ss_pred             --------cccccccCC-CCceEEeecCCCCc-cccHHHHhccccceEEecCCcccc-cchhh-hccCccCceeecCCcc
Q 045113          532 --------QYPSEIENL-SLLRYLKLNIPSLK-SLPLSFFNYLLNLYTLDMPFSYID-HTADE-FWKMKKLRHLNFGSIT  599 (821)
Q Consensus       532 --------~lp~~i~~l-~~Lr~L~L~~~~i~-~lp~~i~~~L~~L~~L~L~~~~l~-~lp~~-i~~l~~L~~L~L~~~~  599 (821)
                              .+|..+..+ ++|++|++++|.+. .+|..+. ++++|++|++++|.+. .+|.. +.++++|++|++++|.
T Consensus       276 L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~~~~-~l~~L~~L~L~~n~l~~~ip~~~l~~l~~L~~L~Ls~n~  354 (768)
T 3rgz_A          276 LAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFG-SCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNE  354 (768)
T ss_dssp             CCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCGGGG-GCTTCCEEECCSSEEEEECCHHHHTTCTTCCEEECCSSE
T ss_pred             CcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccchHHh-cCCCccEEECCCCcccCcCCHHHHhcCCCCCEEeCcCCc
Confidence                    334444332 45555555555544 4444444 5555555555555443 44443 4555555555555555


Q ss_pred             cCCCCCCCcCCCC-CcceeccccC---CcchhhhcCC--CCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCC
Q 045113          600 LPAHPGNYCGSLE-NLNFISALYP---CCCTKDLLGR--LPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKM  673 (821)
Q Consensus       600 ~~~~~p~~i~~l~-~L~~L~~~~~---~~~~~~~l~~--l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~  673 (821)
                      +.+.+|..+..++ +|++|++..+   +..+.. +..  +++|+.|++++|  ...+.+|..+..+++|+.|+++.|   
T Consensus       355 l~~~~p~~l~~l~~~L~~L~Ls~N~l~~~~~~~-~~~~~~~~L~~L~L~~n--~l~~~~p~~l~~l~~L~~L~Ls~N---  428 (768)
T 3rgz_A          355 FSGELPESLTNLSASLLTLDLSSNNFSGPILPN-LCQNPKNTLQELYLQNN--GFTGKIPPTLSNCSELVSLHLSFN---  428 (768)
T ss_dssp             EEECCCTTHHHHTTTCSEEECCSSEEEEECCTT-TTCSTTCCCCEEECCSS--EEEEECCGGGGGCTTCCEEECCSS---
T ss_pred             cCccccHHHHhhhcCCcEEEccCCCcCCCcChh-hhhcccCCccEEECCCC--ccccccCHHHhcCCCCCEEECcCC---
Confidence            5445555555544 5555555542   223333 333  455666666655  233345555666666666666543   


Q ss_pred             CCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce
Q 045113          674 PRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW  753 (821)
Q Consensus       674 ~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~  753 (821)
                       .+.......+..+++|+.|++++|.+.+..|..++.+++|+.|+|++|.+.+.. +.....+++|++|+|++|.....+
T Consensus       429 -~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~-p~~l~~l~~L~~L~L~~N~l~~~~  506 (768)
T 3rgz_A          429 -YLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEI-PSGLSNCTNLNWISLSNNRLTGEI  506 (768)
T ss_dssp             -EEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCC-CGGGGGCTTCCEEECCSSCCCSCC
T ss_pred             -cccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcC-CHHHhcCCCCCEEEccCCccCCcC
Confidence             233333333677899999999999998889999999999999999988887754 344678899999999999766678


Q ss_pred             eeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          754 TMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       754 ~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      |..++.+++|+.|++++|.....+|..+.++++|+.|++++|+
T Consensus       507 p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~  549 (768)
T 3rgz_A          507 PKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNL  549 (768)
T ss_dssp             CGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSE
T ss_pred             ChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCc
Confidence            8888999999999999998877899999999999999999875

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.92  E-value=2.6e-25  Score=261.53  Aligned_cols=308  Identities=17%  Similarity=0.196  Sum_probs=217.7

Q ss_pred             CceeEEEEEcCCCc-cccc-C-CCCCceEEEeecCC-CCccchhhhHHhhcc------CCceeEEEeCCCCCCcccc--c
Q 045113          469 NVKRFFALEQQSDF-AYLD-D-YYPHLHSLLYFTSE-SDHLDHIDWQKICEM------YKLLRVLDLGSLVLNQYPS--E  536 (821)
Q Consensus       469 ~~~r~lsl~~~~~~-~~~~-~-~~~~LrsL~l~~~~-~~~~~~~~~~~~~~~------~~~Lr~L~L~~~~l~~lp~--~  536 (821)
                      ...+++.+..+... ..+. . .+++|++|.+.++. ..   ....+..+..      +++|++|+|++|.++.+|.  .
T Consensus       249 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~---~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~~~  325 (636)
T 4eco_A          249 KDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGIS---GEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETS  325 (636)
T ss_dssp             TTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSC---HHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCHHH
T ss_pred             CCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCc---cccchHHHHhhhccccCCCCCEEECCCCcCCccCchhh
Confidence            45667777765432 2222 2 67777777777765 32   1012333333      3777788888777777777  7


Q ss_pred             ccCCCCceEEeecCCCCc-cccHHHHhccccceEEecCCcccccchhhhccCcc-CceeecCCcccCCCCCCCcCCCC--
Q 045113          537 IENLSLLRYLKLNIPSLK-SLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKK-LRHLNFGSITLPAHPGNYCGSLE--  612 (821)
Q Consensus       537 i~~l~~Lr~L~L~~~~i~-~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~-L~~L~L~~~~~~~~~p~~i~~l~--  612 (821)
                      ++++++|++|++++|.+. .+| .+. .+++|++|++++|.+..+|..+.++++ |++|++++|.+. .+|..++.+.  
T Consensus       326 l~~l~~L~~L~L~~N~l~g~ip-~~~-~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~-~lp~~~~~~~l~  402 (636)
T 4eco_A          326 LQKMKKLGMLECLYNQLEGKLP-AFG-SEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLK-YIPNIFDAKSVS  402 (636)
T ss_dssp             HTTCTTCCEEECCSCCCEEECC-CCE-EEEEESEEECCSSEEEECCTTSEEECTTCCEEECCSSCCS-SCCSCCCTTCSS
T ss_pred             hccCCCCCEEeCcCCcCccchh-hhC-CCCCCCEEECCCCccccccHhhhhhcccCcEEEccCCcCc-ccchhhhhcccC
Confidence            777778888888877777 777 666 777888888887777777777777777 888888877775 6777666554  


Q ss_pred             CcceeccccC---CcchhhhcC-------CCCCCCeEEEecccccchhHHHHH-ccCCCCcCEEEeecCCCCCCCCeeEe
Q 045113          613 NLNFISALYP---CCCTKDLLG-------RLPNLRNLRIQGDLSYNQSLLSKS-LCRLSCLESLKLANESKMPRLSKIIL  681 (821)
Q Consensus       613 ~L~~L~~~~~---~~~~~~~l~-------~l~~L~~L~l~~~~~~~~~~l~~~-l~~~~~L~~L~l~~~~~~~~L~~l~l  681 (821)
                      +|+.|++..|   +..+.. +.       .+++|+.|++++|.  .. .+|.. +..+++|+.|+++.|    .+..+..
T Consensus       403 ~L~~L~Ls~N~l~~~~p~~-l~~~~~~~~~~~~L~~L~Ls~N~--l~-~lp~~~~~~l~~L~~L~Ls~N----~l~~i~~  474 (636)
T 4eco_A          403 VMSAIDFSYNEIGSVDGKN-FDPLDPTPFKGINVSSINLSNNQ--IS-KFPKELFSTGSPLSSINLMGN----MLTEIPK  474 (636)
T ss_dssp             CEEEEECCSSCTTTTTTCS-SCTTCSSCCCCCCEEEEECCSSC--CC-SCCTHHHHTTCCCSEEECCSS----CCSBCCS
T ss_pred             ccCEEECcCCcCCCcchhh-hcccccccccCCCCCEEECcCCc--cC-cCCHHHHccCCCCCEEECCCC----CCCCcCH
Confidence            7777777774   233344 55       66677788887773  22 33333 345677888888764    3332222


Q ss_pred             ccc-------CCCCCcceEEEecccCCCCCccccc--CCCCCCEEEEeccccCCCeeeecCCCCcccceeeecc------
Q 045113          682 AEY-------VFPHSLTHLSFSNTDLMDDPMPALE--KLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKS------  746 (821)
Q Consensus       682 ~~~-------~~~~~L~~L~L~~~~l~~~~~~~l~--~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~------  746 (821)
                      ..+       ..+++|+.|+|++|.++ .+|..+.  .+++|+.|+|++|.+.+  ++.....+++|+.|+|++      
T Consensus       475 ~~~~~~~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~~~l~~L~~L~Ls~N~l~~--ip~~~~~l~~L~~L~Ls~N~~ls~  551 (636)
T 4eco_A          475 NSLKDENENFKNTYLLTSIDLRFNKLT-KLSDDFRATTLPYLVGIDLSYNSFSK--FPTQPLNSSTLKGFGIRNQRDAQG  551 (636)
T ss_dssp             SSSEETTEECTTGGGCCEEECCSSCCC-BCCGGGSTTTCTTCCEEECCSSCCSS--CCCGGGGCSSCCEEECCSCBCTTC
T ss_pred             HHhccccccccccCCccEEECcCCcCC-ccChhhhhccCCCcCEEECCCCCCCC--cChhhhcCCCCCEEECCCCccccc
Confidence            111       22339999999999987 6777776  99999999999998887  455567899999999954      


Q ss_pred             CCCccceeeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          747 MLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       747 ~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      |.....+|..++.+++|+.|++++|.. +.+|..+.  ++|+.|++++|+
T Consensus       552 N~l~~~~p~~l~~l~~L~~L~Ls~N~l-~~ip~~~~--~~L~~L~Ls~N~  598 (636)
T 4eco_A          552 NRTLREWPEGITLCPSLTQLQIGSNDI-RKVNEKIT--PNISVLDIKDNP  598 (636)
T ss_dssp             CBCCCCCCTTGGGCSSCCEEECCSSCC-CBCCSCCC--TTCCEEECCSCT
T ss_pred             CcccccChHHHhcCCCCCEEECCCCcC-CccCHhHh--CcCCEEECcCCC
Confidence            444557788888999999999999986 88998765  899999999996

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.92  E-value=1.1e-24  Score=247.93  Aligned_cols=296  Identities=22%  Similarity=0.197  Sum_probs=237.7

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCCceEEeecCCCCccccHHHHhcccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLN  566 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~  566 (821)
                      -.++++.|.+.++....    ..+..|..+++|++|+|++|.++.+ |..++++++|++|+|++|.+..+|.....++++
T Consensus        30 ~~~~l~~L~L~~n~l~~----~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  105 (477)
T 2id5_A           30 IPTETRLLDLGKNRIKT----LNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSN  105 (477)
T ss_dssp             CCTTCSEEECCSSCCCE----ECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTT
T ss_pred             CCCCCcEEECCCCccce----ECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCC
Confidence            45689999999888753    4567789999999999999999865 778999999999999999999998764338999


Q ss_pred             ceEEecCCcccccc-hhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEec
Q 045113          567 LYTLDMPFSYIDHT-ADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQG  643 (821)
Q Consensus       567 L~~L~L~~~~l~~l-p~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~  643 (821)
                      |++|++++|.+..+ |..+.++++|++|++++|.+....|..++.+++|++|++..+  ...+...+.++++|+.|++.+
T Consensus       106 L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~  185 (477)
T 2id5_A          106 LTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRH  185 (477)
T ss_dssp             CCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEES
T ss_pred             CCEEECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCC
Confidence            99999999988777 567889999999999999997777788999999999999884  344444489999999999999


Q ss_pred             ccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccc
Q 045113          644 DLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNS  723 (821)
Q Consensus       644 ~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~  723 (821)
                      +.  .....+..+..+++|+.|+++.   ++.+..+... .....+|+.|+|++|.++......+..+++|+.|+|++|.
T Consensus       186 n~--i~~~~~~~~~~l~~L~~L~l~~---~~~~~~~~~~-~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~  259 (477)
T 2id5_A          186 LN--INAIRDYSFKRLYRLKVLEISH---WPYLDTMTPN-CLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNP  259 (477)
T ss_dssp             CC--CCEECTTCSCSCTTCCEEEEEC---CTTCCEECTT-TTTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECCSSC
T ss_pred             Cc--CcEeChhhcccCcccceeeCCC---CccccccCcc-cccCccccEEECcCCcccccCHHHhcCccccCeeECCCCc
Confidence            84  3333344678889999999984   3344444322 3344599999999999886655678999999999999888


Q ss_pred             cCCCeeeecCCCCcccceeeeccCCCccce-eeccccccccceeEEeecCCCCCCcc-ccCCCCCCCEEEEeCCc
Q 045113          724 YSGRKLTCGSDGFPRLKVLHLKSMLWLEEW-TMGTGAMPKLECLIINPCAYLKKMPE-QLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       724 ~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~-~~~~~~l~~L~~L~i~~c~~l~~lp~-~l~~l~~L~~L~l~~c~  796 (821)
                      +.+.. ...+..+++|+.|+|++|. +..+ +..+..+++|+.|++++|. ++.+|. .+..+++|++|+++++|
T Consensus       260 l~~~~-~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N~  331 (477)
T 2id5_A          260 ISTIE-GSMLHELLRLQEIQLVGGQ-LAVVEPYAFRGLNYLRVLNVSGNQ-LTTLEESVFHSVGNLETLILDSNP  331 (477)
T ss_dssp             CCEEC-TTSCTTCTTCCEEECCSSC-CSEECTTTBTTCTTCCEEECCSSC-CSCCCGGGBSCGGGCCEEECCSSC
T ss_pred             CCccC-hhhccccccCCEEECCCCc-cceECHHHhcCcccCCEEECCCCc-CceeCHhHcCCCcccCEEEccCCC
Confidence            76432 2346788999999999984 5544 5567889999999999996 455554 57889999999998765

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.92  E-value=4.4e-25  Score=257.14  Aligned_cols=323  Identities=18%  Similarity=0.101  Sum_probs=208.5

Q ss_pred             CCCceeEEEEEcCCCccccc--C-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCC
Q 045113          467 RKNVKRFFALEQQSDFAYLD--D-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSL  542 (821)
Q Consensus       467 ~~~~~r~lsl~~~~~~~~~~--~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~  542 (821)
                      .+..++++.+..+.......  . .+++|++|.+.++....    ..+..|..+++|++|+|++|.++.+| ..++++++
T Consensus        26 l~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~----i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  101 (570)
T 2z63_A           26 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQT----IEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSS  101 (570)
T ss_dssp             SCSSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCCCCE----ECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTT
T ss_pred             ccccccEEEccCCccCccChhHhhCCCCceEEECCCCcCCc----cCcccccCchhCCEEeCcCCcCCccCHhhhcCccc
Confidence            34567777777766544322  2 77788888887776542    44556777777777777777776554 56777777


Q ss_pred             ceEEeecCCCCccccH-HHHhccccceEEecCCccccc--chhhhccCccCceeecCCcccCCCCCCCcC----------
Q 045113          543 LRYLKLNIPSLKSLPL-SFFNYLLNLYTLDMPFSYIDH--TADEFWKMKKLRHLNFGSITLPAHPGNYCG----------  609 (821)
Q Consensus       543 Lr~L~L~~~~i~~lp~-~i~~~L~~L~~L~L~~~~l~~--lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~----------  609 (821)
                      |++|++++|.+..+|. .++ ++++|++|++++|.+..  +|..++++++|++|++++|.+....|..++          
T Consensus       102 L~~L~L~~n~l~~l~~~~~~-~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~~~~  180 (570)
T 2z63_A          102 LQKLVAVETNLASLENFPIG-HLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNL  180 (570)
T ss_dssp             CCEEECTTSCCCCSTTCSCT-TCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSCCCEECGGGGHHHHTCTTCCC
T ss_pred             cccccccccccccCCCcccc-ccccccEEecCCCccceecChhhhcccCCCCEEeCcCCccceecHHHccchhccchhhh
Confidence            7777777777776664 355 77777777777776654  466777777777777776655332222222          


Q ss_pred             --------------------------------------------------------------------------------
Q 045113          610 --------------------------------------------------------------------------------  609 (821)
Q Consensus       610 --------------------------------------------------------------------------------  609 (821)
                                                                                                      
T Consensus       181 ~L~l~~n~l~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~l~~l~l~  260 (570)
T 2z63_A          181 SLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIE  260 (570)
T ss_dssp             EEECTTCCCCEECTTTTTTCEEEEEEEESCCSCTTHHHHHHHTTTTCEEEEEEEEECCCCSSCEECCTTTTGGGGGSEEE
T ss_pred             hcccCCCCceecCHHHhccCcceeEecccccccccchhhhhcCccccceeeeccccccCchhhhhcchhhhccccccchh
Confidence                                                                                            


Q ss_pred             -------------------CCCCcceeccccC--Ccchhhhc--------------------------------------
Q 045113          610 -------------------SLENLNFISALYP--CCCTKDLL--------------------------------------  630 (821)
Q Consensus       610 -------------------~l~~L~~L~~~~~--~~~~~~~l--------------------------------------  630 (821)
                                         .+++|++|++..+  ...+.. +                                      
T Consensus       261 ~l~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~l~~l~~~-~~~~~L~~L~l~~n~~~~l~~~~l~~L~~L~l~~n~~~~  339 (570)
T 2z63_A          261 EFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDF-SYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGN  339 (570)
T ss_dssp             EEEEEETTEEESCSTTTTGGGTTCSEEEEESCEECSCCBC-CSCCCCSEEEEESCBCSSCCBCBCSSCCEEEEESCBSCC
T ss_pred             hhhhhcchhhhhhchhhhcCcCcccEEEecCccchhhhhh-hccCCccEEeeccCcccccCcccccccCEEeCcCCcccc
Confidence                               2233333333221  111111 1                                      


Q ss_pred             ----CCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCC---------CCCCCCeeEecc-----------cCC
Q 045113          631 ----GRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANES---------KMPRLSKIILAE-----------YVF  686 (821)
Q Consensus       631 ----~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~---------~~~~L~~l~l~~-----------~~~  686 (821)
                          ..+++|+.|+++++........+..+..+++|+.|+++.|.         .+++|+.|.+.+           +..
T Consensus       340 ~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~  419 (570)
T 2z63_A          340 AFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLS  419 (570)
T ss_dssp             BCCCCBCTTCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESCTTSCTTTT
T ss_pred             ccccccCCCCCEEeCcCCccCccccccccccccCccCEEECCCCccccccccccccCCCCEEEccCCccccccchhhhhc
Confidence                12233333333333110111113445556666666666532         456677777655           456


Q ss_pred             CCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce-eeccccccccce
Q 045113          687 PHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW-TMGTGAMPKLEC  765 (821)
Q Consensus       687 ~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~-~~~~~~l~~L~~  765 (821)
                      +++|+.|++++|.+.+..+..+.++++|+.|++++|.+.+..++.....+++|+.|++++|. +..+ +..+..+++|+.
T Consensus       420 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~  498 (570)
T 2z63_A          420 LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTAFNSLSSLQV  498 (570)
T ss_dssp             CTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSC-CCEECTTTTTTCTTCCE
T ss_pred             CCCCCEEeCcCCcccccchhhhhcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCCCc-cccCChhhhhcccCCCE
Confidence            78888888888887777777888899999999998887644455667889999999999985 5555 667889999999


Q ss_pred             eEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          766 LIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       766 L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      |++++|......|..+.++++|+.|+++++|
T Consensus       499 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~  529 (570)
T 2z63_A          499 LNMASNQLKSVPDGIFDRLTSLQKIWLHTNP  529 (570)
T ss_dssp             EECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             EeCCCCcCCCCCHHHhhcccCCcEEEecCCc
Confidence            9999996544445568899999999999854

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.92  E-value=1.8e-25  Score=262.93  Aligned_cols=299  Identities=15%  Similarity=0.105  Sum_probs=207.8

Q ss_pred             CCCCceEEEeecCCCCcc--c-hh----------hhHHhhc--cCCceeEEEeCCCCCC-cccccccCCCCceEEeecCC
Q 045113          488 YYPHLHSLLYFTSESDHL--D-HI----------DWQKICE--MYKLLRVLDLGSLVLN-QYPSEIENLSLLRYLKLNIP  551 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~--~-~~----------~~~~~~~--~~~~Lr~L~L~~~~l~-~lp~~i~~l~~Lr~L~L~~~  551 (821)
                      .+++|++|.+.++.....  . .+          ..+..+.  ++++|++|+|++|.+. .+|..++++++|++|++++|
T Consensus       204 ~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n  283 (636)
T 4eco_A          204 RLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACN  283 (636)
T ss_dssp             GCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTC
T ss_pred             cccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCC
Confidence            677777777777765420  0 00          0344445  7777888888777755 67777777777888888777


Q ss_pred             C-Cc--cccHHHHhcc------ccceEEecCCcccccchh--hhccCccCceeecCCcccCCCCCCCcCCCCCcceeccc
Q 045113          552 S-LK--SLPLSFFNYL------LNLYTLDMPFSYIDHTAD--EFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISAL  620 (821)
Q Consensus       552 ~-i~--~lp~~i~~~L------~~L~~L~L~~~~l~~lp~--~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~  620 (821)
                      . +.  .+|..++ ++      ++|++|++++|.+..+|.  .++++++|++|++++|.+.+.+| .++.+++|++|++.
T Consensus       284 ~~l~~~~lp~~~~-~L~~~~~l~~L~~L~L~~n~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~~~~l~~L~~L~L~  361 (636)
T 4eco_A          284 RGISGEQLKDDWQ-ALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLP-AFGSEIKLASLNLA  361 (636)
T ss_dssp             TTSCHHHHHHHHH-HHHHSGGGGTCCEEECCSSCCSSCCCHHHHTTCTTCCEEECCSCCCEEECC-CCEEEEEESEEECC
T ss_pred             CCCccccchHHHH-hhhccccCCCCCEEECCCCcCCccCchhhhccCCCCCEEeCcCCcCccchh-hhCCCCCCCEEECC
Confidence            6 66  4777776 65      777888887777777777  77777778888877777766777 67777777777777


Q ss_pred             cC--CcchhhhcCCCCC-CCeEEEecccccchhHHHHHccCCC--CcCEEEeecCC-----------------CCCCCCe
Q 045113          621 YP--CCCTKDLLGRLPN-LRNLRIQGDLSYNQSLLSKSLCRLS--CLESLKLANES-----------------KMPRLSK  678 (821)
Q Consensus       621 ~~--~~~~~~~l~~l~~-L~~L~l~~~~~~~~~~l~~~l~~~~--~L~~L~l~~~~-----------------~~~~L~~  678 (821)
                      .|  ...+.. +..+++ |+.|++++|.   ...+|..+..++  +|+.|+++.|.                 ..++|+.
T Consensus       362 ~N~l~~lp~~-l~~l~~~L~~L~Ls~N~---l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~  437 (636)
T 4eco_A          362 YNQITEIPAN-FCGFTEQVENLSFAHNK---LKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSS  437 (636)
T ss_dssp             SSEEEECCTT-SEEECTTCCEEECCSSC---CSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEE
T ss_pred             CCccccccHh-hhhhcccCcEEEccCCc---CcccchhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCCCCCE
Confidence            64  344445 667777 7777777763   224555555443  67777777642                 1124555


Q ss_pred             eEecc----------cCCCCCcceEEEecccCCCCCccc-ccC-------CCCCCEEEEeccccCCCeeeecCC--CCcc
Q 045113          679 IILAE----------YVFPHSLTHLSFSNTDLMDDPMPA-LEK-------LPLLQVLKLKQNSYSGRKLTCGSD--GFPR  738 (821)
Q Consensus       679 l~l~~----------~~~~~~L~~L~L~~~~l~~~~~~~-l~~-------l~~L~~L~L~~~~~~~~~~~~~~~--~~~~  738 (821)
                      |.+++          +..+++|+.|+|++|.++ .++.. +..       +++|+.|+|++|.+..  ++....  .+++
T Consensus       438 L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N~l~-~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~--lp~~~~~~~l~~  514 (636)
T 4eco_A          438 INLSNNQISKFPKELFSTGSPLSSINLMGNMLT-EIPKNSLKDENENFKNTYLLTSIDLRFNKLTK--LSDDFRATTLPY  514 (636)
T ss_dssp             EECCSSCCCSCCTHHHHTTCCCSEEECCSSCCS-BCCSSSSEETTEECTTGGGCCEEECCSSCCCB--CCGGGSTTTCTT
T ss_pred             EECcCCccCcCCHHHHccCCCCCEEECCCCCCC-CcCHHHhccccccccccCCccEEECcCCcCCc--cChhhhhccCCC
Confidence            55554          335788889999988876 33333 222       3389999998887773  333343  7889


Q ss_pred             cceeeeccCCCccceeeccccccccceeEEee------cCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          739 LKVLHLKSMLWLEEWTMGTGAMPKLECLIINP------CAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       739 L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~------c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      |+.|+|++| .+..+|..+..+++|+.|++++      |.....+|..+.++++|++|++++|.
T Consensus       515 L~~L~Ls~N-~l~~ip~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~  577 (636)
T 4eco_A          515 LVGIDLSYN-SFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSND  577 (636)
T ss_dssp             CCEEECCSS-CCSSCCCGGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSC
T ss_pred             cCEEECCCC-CCCCcChhhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCCc
Confidence            999999997 4556888888899999999954      44566788888899999999999887

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.92  E-value=2.2e-24  Score=234.64  Aligned_cols=299  Identities=16%  Similarity=0.166  Sum_probs=228.2

Q ss_pred             CceeEEEEEcCCCcccccC-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEe
Q 045113          469 NVKRFFALEQQSDFAYLDD-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLK  547 (821)
Q Consensus       469 ~~~r~lsl~~~~~~~~~~~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~  547 (821)
                      ..++++.+.++........ .+++|++|.+.++....    ...  +..+++|++|++++|.++.+| .+.++++|++|+
T Consensus        44 ~~L~~L~l~~~~i~~~~~~~~~~~L~~L~l~~n~i~~----~~~--~~~l~~L~~L~L~~n~i~~~~-~~~~l~~L~~L~  116 (347)
T 4fmz_A           44 ESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITD----ISP--LSNLVKLTNLYIGTNKITDIS-ALQNLTNLRELY  116 (347)
T ss_dssp             TTCSEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCC----CGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSEEE
T ss_pred             ccccEEEEeCCccccchhhhhcCCccEEEccCCcccc----chh--hhcCCcCCEEEccCCcccCch-HHcCCCcCCEEE
Confidence            4577788877766555445 78899999998887653    222  788899999999999888775 588899999999


Q ss_pred             ecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC-Ccch
Q 045113          548 LNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP-CCCT  626 (821)
Q Consensus       548 L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~  626 (821)
                      +++|.+..+|. +. .+++|++|++++|.....+..+..+++|++|++++|.+... +. ++.+++|++|++..+ -...
T Consensus       117 l~~n~i~~~~~-~~-~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~-~~~l~~L~~L~l~~n~l~~~  192 (347)
T 4fmz_A          117 LNEDNISDISP-LA-NLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDV-TP-IANLTDLYSLSLNYNQIEDI  192 (347)
T ss_dssp             CTTSCCCCCGG-GT-TCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCC-GG-GGGCTTCSEEECTTSCCCCC
T ss_pred             CcCCcccCchh-hc-cCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCc-hh-hccCCCCCEEEccCCccccc
Confidence            99998888876 66 88999999999884333344488899999999998887443 33 788888999988884 2334


Q ss_pred             hhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcc
Q 045113          627 KDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMP  706 (821)
Q Consensus       627 ~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~  706 (821)
                      .. +..+++|+.|+++++....   ++. +..+++|+.|+++++    .+..+..  +..+++|+.|++++|.+..  .+
T Consensus       193 ~~-~~~l~~L~~L~l~~n~l~~---~~~-~~~~~~L~~L~l~~n----~l~~~~~--~~~l~~L~~L~l~~n~l~~--~~  259 (347)
T 4fmz_A          193 SP-LASLTSLHYFTAYVNQITD---ITP-VANMTRLNSLKIGNN----KITDLSP--LANLSQLTWLEIGTNQISD--IN  259 (347)
T ss_dssp             GG-GGGCTTCCEEECCSSCCCC---CGG-GGGCTTCCEEECCSS----CCCCCGG--GTTCTTCCEEECCSSCCCC--CG
T ss_pred             cc-ccCCCccceeecccCCCCC---Cch-hhcCCcCCEEEccCC----ccCCCcc--hhcCCCCCEEECCCCccCC--Ch
Confidence            44 7788889999988874211   111 677888999998865    3443322  6688999999999998765  36


Q ss_pred             cccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccccCCCCC
Q 045113          707 ALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKS  786 (821)
Q Consensus       707 ~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~  786 (821)
                      .+..+++|+.|++++|.+.+..   ....+++|+.|++++|......+..++.+++|+.|++++|+. ..++. +..+++
T Consensus       260 ~~~~l~~L~~L~l~~n~l~~~~---~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n~l-~~~~~-~~~l~~  334 (347)
T 4fmz_A          260 AVKDLTKLKMLNVGSNQISDIS---VLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHI-TDIRP-LASLSK  334 (347)
T ss_dssp             GGTTCTTCCEEECCSSCCCCCG---GGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSSSC-CCCGG-GGGCTT
T ss_pred             hHhcCCCcCEEEccCCccCCCh---hhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCCcc-ccccC-hhhhhc
Confidence            7889999999999988877642   356789999999999864444455677899999999999984 44544 788999


Q ss_pred             CCEEEEeCCc
Q 045113          787 LNNFNCWWPQ  796 (821)
Q Consensus       787 L~~L~l~~c~  796 (821)
                      |++|++++|+
T Consensus       335 L~~L~l~~N~  344 (347)
T 4fmz_A          335 MDSADFANQV  344 (347)
T ss_dssp             CSEESSSCC-
T ss_pred             cceeehhhhc
Confidence            9999999987

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.92  E-value=8.8e-25  Score=261.64  Aligned_cols=314  Identities=14%  Similarity=0.111  Sum_probs=217.5

Q ss_pred             CceeEEEEEcCCCc-cccc-C-CCCCceEEEeecCC-CCccchhhhHHh-------hccCCceeEEEeCCCCCCcccc--
Q 045113          469 NVKRFFALEQQSDF-AYLD-D-YYPHLHSLLYFTSE-SDHLDHIDWQKI-------CEMYKLLRVLDLGSLVLNQYPS--  535 (821)
Q Consensus       469 ~~~r~lsl~~~~~~-~~~~-~-~~~~LrsL~l~~~~-~~~~~~~~~~~~-------~~~~~~Lr~L~L~~~~l~~lp~--  535 (821)
                      ...+.|.+..+... ..+. . .+++|+.|.+.++. ..   ....+..       +..+++|+.|+|++|.++.+|.  
T Consensus       491 ~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~ls---g~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~  567 (876)
T 4ecn_A          491 KDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGIS---AAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASA  567 (876)
T ss_dssp             TTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSC---HHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHH
T ss_pred             CCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcc---cccchHHHHhhhhcccccCCccEEEeeCCcCCccCChh
Confidence            45677777665432 2222 2 67777777777765 32   1012222       2344578888888888777777  


Q ss_pred             cccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCcc-CceeecCCcccCCCCCCCcCCCCC-
Q 045113          536 EIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKK-LRHLNFGSITLPAHPGNYCGSLEN-  613 (821)
Q Consensus       536 ~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~-L~~L~L~~~~~~~~~p~~i~~l~~-  613 (821)
                      .++++++|++|+|++|.+..+| .+. .+++|+.|++++|.+..+|..+.++++ |++|++++|.+. .+|..++.++. 
T Consensus       568 ~l~~L~~L~~L~Ls~N~l~~lp-~~~-~L~~L~~L~Ls~N~l~~lp~~l~~l~~~L~~L~Ls~N~L~-~lp~~~~~~~~~  644 (876)
T 4ecn_A          568 SLQKMVKLGLLDCVHNKVRHLE-AFG-TNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLK-YIPNIFNAKSVY  644 (876)
T ss_dssp             HHTTCTTCCEEECTTSCCCBCC-CCC-TTSEESEEECCSSCCSCCCTTSCEECTTCCEEECCSSCCC-SCCSCCCTTCSS
T ss_pred             hhhcCCCCCEEECCCCCcccch-hhc-CCCcceEEECcCCccccchHHHhhccccCCEEECcCCCCC-cCchhhhccccC
Confidence            7788888888888888777777 666 788888888888877777777888887 888888888775 67776666654 


Q ss_pred             -cceeccccCC--cchhh---hcC--CCCCCCeEEEecccccchhHHHHHc-cCCCCcCEEEeecCC---------CC--
Q 045113          614 -LNFISALYPC--CCTKD---LLG--RLPNLRNLRIQGDLSYNQSLLSKSL-CRLSCLESLKLANES---------KM--  673 (821)
Q Consensus       614 -L~~L~~~~~~--~~~~~---~l~--~l~~L~~L~l~~~~~~~~~~l~~~l-~~~~~L~~L~l~~~~---------~~--  673 (821)
                       |+.|++..|.  ..++.   .++  .+++|+.|++++|.   ...+|..+ ..+++|+.|+++.|.         ..  
T Consensus       645 ~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~---L~~lp~~~~~~l~~L~~L~Ls~N~L~~ip~~~~~~~~  721 (876)
T 4ecn_A          645 VMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNE---IQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKD  721 (876)
T ss_dssp             CEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSC---CCSCCHHHHHTTCCCSEEECCSCCCSCCCTTSSSCTT
T ss_pred             CCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCc---CCccCHHHHccCCCCCEEECCCCcCCccChHHhcccc
Confidence             8888877741  11111   022  34578899998883   22455554 478999999999852         11  


Q ss_pred             ------CCCCeeEecc---------cC--CCCCcceEEEecccCCCCCcccccCCCCCCEEEEec------cccCCCeee
Q 045113          674 ------PRLSKIILAE---------YV--FPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQ------NSYSGRKLT  730 (821)
Q Consensus       674 ------~~L~~l~l~~---------~~--~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~------~~~~~~~~~  730 (821)
                            ++|+.|.+++         +.  .+++|+.|+|++|.+++ +|..++.+++|+.|+|++      |.+.+. ++
T Consensus       722 ~~l~nl~~L~~L~Ls~N~L~~lp~~l~~~~l~~L~~L~Ls~N~L~~-lp~~l~~L~~L~~L~Ls~N~~ls~N~l~~~-ip  799 (876)
T 4ecn_A          722 GNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSS-FPTQPLNSSQLKAFGIRHQRDAEGNRILRQ-WP  799 (876)
T ss_dssp             SCCTTGGGCCEEECCSSCCCCCCGGGSTTTCTTCCEEECCSSCCSS-CCCGGGGCTTCCEEECCCCBCTTCCBCCCC-CC
T ss_pred             ccccccCCccEEECCCCCCccchHHhhhccCCCcCEEEeCCCCCCc-cchhhhcCCCCCEEECCCCCCccccccccc-Ch
Confidence                  1788998877         33  78999999999999886 788899999999999986      444443 34


Q ss_pred             ecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCcccc--------CCCCCCCEEEEeCCc
Q 045113          731 CGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQL--------WCIKSLNNFNCWWPQ  796 (821)
Q Consensus       731 ~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l--------~~l~~L~~L~l~~c~  796 (821)
                      .....+++|+.|+|++|. +..+|..+.  ++|+.|+|++|+...--+..+        ..+..-+..++.+||
T Consensus       800 ~~l~~L~~L~~L~Ls~N~-L~~Ip~~l~--~~L~~LdLs~N~l~~i~~~~~~~~~~~~~~~L~~n~~~~I~gC~  870 (876)
T 4ecn_A          800 TGITTCPSLIQLQIGSND-IRKVDEKLT--PQLYILDIADNPNISIDVTSVCPYIEAGMYVLLYDKTQDIRGCD  870 (876)
T ss_dssp             TTGGGCSSCCEEECCSSC-CCBCCSCCC--SSSCEEECCSCTTCEEECGGGHHHHHTTCCEEECCTTSEEESCG
T ss_pred             HHHhcCCCCCEEECCCCC-CCccCHhhc--CCCCEEECCCCCCCccChHHccccccchheeecCCCccccCCCC
Confidence            446779999999999985 588887644  799999999998654222211        122222344677888

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=99.91  E-value=5.2e-24  Score=249.97  Aligned_cols=272  Identities=18%  Similarity=0.139  Sum_probs=169.2

Q ss_pred             ceeEEEeCCCCCCcccc-cccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccc-hhhhccCccCceeecC
Q 045113          519 LLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHT-ADEFWKMKKLRHLNFG  596 (821)
Q Consensus       519 ~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~l-p~~i~~l~~L~~L~L~  596 (821)
                      .|+.|++++|.++.++. .++++++|++|++++|.+..+|..+. .+++|++|++++|.+..+ |..+.++++|++|+++
T Consensus       255 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~lp~~l~-~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  333 (606)
T 3t6q_A          255 SVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLV-GLSTLKKLVLSANKFENLCQISASNFPSLTHLSIK  333 (606)
T ss_dssp             EEEEEECTTCCCSSCCTTTTTTCTTCSEEECTTSCCSCCCSSCC-SCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECC
T ss_pred             ceeEEEeecCccCccCHHHhccccCCCEEeccCCccCCCChhhc-ccccCCEEECccCCcCcCchhhhhccCcCCEEECC
Confidence            45556666666554443 36677777777777777777777776 777777777777776666 4467777777777777


Q ss_pred             CcccCCCCCCC-cCCCCCcceeccccCC--cc---hhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecC
Q 045113          597 SITLPAHPGNY-CGSLENLNFISALYPC--CC---TKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANE  670 (821)
Q Consensus       597 ~~~~~~~~p~~-i~~l~~L~~L~~~~~~--~~---~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~  670 (821)
                      +|.+.+.+|.. ++.+++|++|++..+.  ..   +.. +..+++|+.|+++++.  .....+..+..+++|+.|+++.|
T Consensus       334 ~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~-~~~l~~L~~L~l~~n~--l~~~~~~~~~~l~~L~~L~l~~n  410 (606)
T 3t6q_A          334 GNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQ-LRNLSHLQSLNLSYNE--PLSLKTEAFKECPQLELLDLAFT  410 (606)
T ss_dssp             SCSSCCBCCSSTTTTCTTCCEEECCSSCCCEEEESTTT-TTTCTTCCEEECCSCS--CEEECTTTTTTCTTCSEEECTTC
T ss_pred             CCCcccccchhhhhccCcCCEEECCCCccccccCcchh-cccCCCCCEEECCCCc--CCcCCHHHhcCCccCCeEECCCC
Confidence            77766555544 6777777777777631  11   334 6777777777777762  33334556667777777777763


Q ss_pred             C-----------CCCCCCeeEecc----------cCCCCCcceEEEecccCCCC---CcccccCCCCCCEEEEeccccCC
Q 045113          671 S-----------KMPRLSKIILAE----------YVFPHSLTHLSFSNTDLMDD---PMPALEKLPLLQVLKLKQNSYSG  726 (821)
Q Consensus       671 ~-----------~~~~L~~l~l~~----------~~~~~~L~~L~L~~~~l~~~---~~~~l~~l~~L~~L~L~~~~~~~  726 (821)
                      .           .+++|+.|.+++          +..+++|+.|++++|.+.+.   .+..++.+++|+.|+|++|.+.+
T Consensus       411 ~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~  490 (606)
T 3t6q_A          411 RLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSS  490 (606)
T ss_dssp             CEECCTTCCTTTTCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSCCCE
T ss_pred             cCCCcccchhhhCcccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCCccCc
Confidence            1           234555555544          34455666666666655431   12345566666666666555443


Q ss_pred             CeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          727 RKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       727 ~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      .. +..+..+++|+.|++++|......+..+..+++| .|++++|......|..+..+++|+.|++++||
T Consensus       491 ~~-~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~L-~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~  558 (606)
T 3t6q_A          491 ID-QHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKGI-YLNLASNHISIILPSLLPILSQQRTINLRQNP  558 (606)
T ss_dssp             EC-TTTTTTCTTCCEEECCSSCCCGGGGGGGTTCCSC-EEECCSSCCCCCCGGGHHHHHTSSEEECTTCC
T ss_pred             cC-hhhhccccCCCEEECCCCccCcCChhHhCccccc-EEECcCCcccccCHhhcccCCCCCEEeCCCCC
Confidence            21 2234556666666666664333334455666666 67777666554445556777788888887755

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.91  E-value=4.5e-24  Score=232.25  Aligned_cols=280  Identities=17%  Similarity=0.181  Sum_probs=232.8

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      .+++|++|.+.++....     . ..+..+++|++|++++|.++.+|. +.++++|++|++++|.+..+| .+. .+++|
T Consensus        42 ~l~~L~~L~l~~~~i~~-----~-~~~~~~~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~L~~n~i~~~~-~~~-~l~~L  112 (347)
T 4fmz_A           42 ELESITKLVVAGEKVAS-----I-QGIEYLTNLEYLNLNGNQITDISP-LSNLVKLTNLYIGTNKITDIS-ALQ-NLTNL  112 (347)
T ss_dssp             HHTTCSEEECCSSCCCC-----C-TTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCG-GGT-TCTTC
T ss_pred             hcccccEEEEeCCcccc-----c-hhhhhcCCccEEEccCCccccchh-hhcCCcCCEEEccCCcccCch-HHc-CCCcC
Confidence            78899999999987753     2 237889999999999999998887 999999999999999999887 577 99999


Q ss_pred             eEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEecccc
Q 045113          568 YTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQGDLS  646 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~~~~  646 (821)
                      ++|++++|.+..+|. +..+++|++|++++|.....++. +..+++|++|++..+ -..... +..+++|+.|++++|.-
T Consensus       113 ~~L~l~~n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~-~~~l~~L~~L~l~~n~l  189 (347)
T 4fmz_A          113 RELYLNEDNISDISP-LANLTKMYSLNLGANHNLSDLSP-LSNMTGLNYLTVTESKVKDVTP-IANLTDLYSLSLNYNQI  189 (347)
T ss_dssp             SEEECTTSCCCCCGG-GTTCTTCCEEECTTCTTCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GGGCTTCSEEECTTSCC
T ss_pred             CEEECcCCcccCchh-hccCCceeEEECCCCCCcccccc-hhhCCCCcEEEecCCCcCCchh-hccCCCCCEEEccCCcc
Confidence            999999999999887 89999999999999976555554 899999999999884 333444 78899999999999842


Q ss_pred             cchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCC
Q 045113          647 YNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG  726 (821)
Q Consensus       647 ~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~  726 (821)
                         ..++. +..+++|+.|+++.+    .+.....  +..+++|+.|++++|.++...+  +..+++|+.|++++|.+.+
T Consensus       190 ---~~~~~-~~~l~~L~~L~l~~n----~l~~~~~--~~~~~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~  257 (347)
T 4fmz_A          190 ---EDISP-LASLTSLHYFTAYVN----QITDITP--VANMTRLNSLKIGNNKITDLSP--LANLSQLTWLEIGTNQISD  257 (347)
T ss_dssp             ---CCCGG-GGGCTTCCEEECCSS----CCCCCGG--GGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCC
T ss_pred             ---ccccc-ccCCCccceeecccC----CCCCCch--hhcCCcCCEEEccCCccCCCcc--hhcCCCCCEEECCCCccCC
Confidence               22222 778899999999864    3333322  5678999999999999865433  8999999999999888776


Q ss_pred             CeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          727 RKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       727 ~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      .   .....+++|++|++++| .+..++ .+..+++|+.|++++|......|..+..+++|++|++++|+
T Consensus       258 ~---~~~~~l~~L~~L~l~~n-~l~~~~-~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n~  322 (347)
T 4fmz_A          258 I---NAVKDLTKLKMLNVGSN-QISDIS-VLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNH  322 (347)
T ss_dssp             C---GGGTTCTTCCEEECCSS-CCCCCG-GGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSSS
T ss_pred             C---hhHhcCCCcCEEEccCC-ccCCCh-hhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCCc
Confidence            3   23678999999999998 566664 47789999999999998666667788999999999999998

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.91  E-value=2e-23  Score=240.33  Aligned_cols=313  Identities=16%  Similarity=0.115  Sum_probs=205.6

Q ss_pred             CCceeEEEEEcCCCccccc-C--CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCce
Q 045113          468 KNVKRFFALEQQSDFAYLD-D--YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLR  544 (821)
Q Consensus       468 ~~~~r~lsl~~~~~~~~~~-~--~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr  544 (821)
                      +..++++.+..+....... .  .+++|++|.+.++....    ..+..|..+++|++|+|++|.++.+|..  .+++|+
T Consensus        20 ~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~----~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~   93 (520)
T 2z7x_B           20 SQKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQY----LDISVFKFNQELEYLDLSHNKLVKISCH--PTVNLK   93 (520)
T ss_dssp             CTTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCE----EEGGGGTTCTTCCEEECCSSCCCEEECC--CCCCCS
T ss_pred             cccccEEECCCCcccccChhhccccccccEEecCCCccCC----cChHHhhcccCCCEEecCCCceeecCcc--ccCCcc
Confidence            4678899998887655432 2  88999999999887753    5567889999999999999999988876  899999


Q ss_pred             EEeecCCCCcc--ccHHHHhccccceEEecCCcccccchhhhccCccC--ceeecCCccc--CCCCCCCcCC--------
Q 045113          545 YLKLNIPSLKS--LPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKL--RHLNFGSITL--PAHPGNYCGS--------  610 (821)
Q Consensus       545 ~L~L~~~~i~~--lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L--~~L~L~~~~~--~~~~p~~i~~--------  610 (821)
                      +|++++|.+..  +|..++ ++++|++|++++|.+..  ..+..+++|  ++|++++|.+  .+..|..++.        
T Consensus        94 ~L~L~~N~l~~~~~p~~~~-~l~~L~~L~L~~n~l~~--~~~~~l~~L~L~~L~l~~n~l~~~~~~~~~l~~l~~~~l~l  170 (520)
T 2z7x_B           94 HLDLSFNAFDALPICKEFG-NMSQLKFLGLSTTHLEK--SSVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHI  170 (520)
T ss_dssp             EEECCSSCCSSCCCCGGGG-GCTTCCEEEEEESSCCG--GGGGGGTTSCEEEEEEEECTTTTSSCCTTTTTTCCEEEEEE
T ss_pred             EEeccCCccccccchhhhc-cCCcceEEEecCcccch--hhccccccceeeEEEeecccccccccccccccccccceEEE
Confidence            99999999885  678888 99999999999997765  356677777  8888888777  4555544444        


Q ss_pred             ------------------CCCcceeccccC--------------------------------------------------
Q 045113          611 ------------------LENLNFISALYP--------------------------------------------------  622 (821)
Q Consensus       611 ------------------l~~L~~L~~~~~--------------------------------------------------  622 (821)
                                        +++|+.|++..+                                                  
T Consensus       171 ~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~~~~~~~~~L~  250 (520)
T 2z7x_B          171 VFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVW  250 (520)
T ss_dssp             ECCSSSCCCCCCCCCCTTCSEEEECCEEECCSTTTTHHHHHHHHGGGGCTTCCEEEEEEEEEEHHHHHHHHHHHHTSSCS
T ss_pred             EeccCcchhhhhhhhhhcccceeeccccccccccccceeecchhhhccccchhhccccccccCHHHHHHHHHHhhhCccc
Confidence                              334444433321                                                  


Q ss_pred             ----------Ccchhhhc-----CCCCCCCeEEEecccccch-hHHHHH---------------------ccCCCCcCEE
Q 045113          623 ----------CCCTKDLL-----GRLPNLRNLRIQGDLSYNQ-SLLSKS---------------------LCRLSCLESL  665 (821)
Q Consensus       623 ----------~~~~~~~l-----~~l~~L~~L~l~~~~~~~~-~~l~~~---------------------l~~~~~L~~L  665 (821)
                                +..+.. +     +++++|+.++++++..... ..+...                     ...+++|+.|
T Consensus       251 ~L~l~~n~l~~~~p~~-~~~~~~~~l~~L~~l~l~~n~~~~p~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~l~~L~~L  329 (520)
T 2z7x_B          251 YFSISNVKLQGQLDFR-DFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHL  329 (520)
T ss_dssp             EEEEEEEEEESCCCCC-CCCCCSCCCCEEEEEEEEECCCCSCTHHHHHHHHTCCCSEEEEESSCCCCCCCCSSCCCCCEE
T ss_pred             EEEeecccccCccccc-hhhcccccCceeEeccccccceecchhhhhcccccCceeEEEcCCCccccccchhhCCcccEE
Confidence                      112222 2     3333333333333210000 011111                     0344555555


Q ss_pred             EeecCC----------CCCCCCeeEecc------------cCCCCCcceEEEecccCCCCCcc-cccCCCCCCEEEEecc
Q 045113          666 KLANES----------KMPRLSKIILAE------------YVFPHSLTHLSFSNTDLMDDPMP-ALEKLPLLQVLKLKQN  722 (821)
Q Consensus       666 ~l~~~~----------~~~~L~~l~l~~------------~~~~~~L~~L~L~~~~l~~~~~~-~l~~l~~L~~L~L~~~  722 (821)
                      ++++|.          ..++|+.|.+++            +..+++|+.|++++|.+.+..+. .+..+++|+.|++++|
T Consensus       330 ~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~L~Ls~N  409 (520)
T 2z7x_B          330 DFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSN  409 (520)
T ss_dssp             ECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCEEECCSS
T ss_pred             EeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCccCCEEECcCC
Confidence            555421          233444444443            34556666666666665543333 3556666666666666


Q ss_pred             ccCCCeeeecCCCC-cccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccc-cCCCCCCCEEEEeCCc
Q 045113          723 SYSGRKLTCGSDGF-PRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQ-LWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       723 ~~~~~~~~~~~~~~-~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~-l~~l~~L~~L~l~~c~  796 (821)
                      .+.+..+    ..+ ++|+.|++++| .+..+|.....+++|+.|++++|. ++.+|.. +.++++|++|+++++|
T Consensus       410 ~l~~~~~----~~l~~~L~~L~Ls~N-~l~~ip~~~~~l~~L~~L~L~~N~-l~~l~~~~~~~l~~L~~L~l~~N~  479 (520)
T 2z7x_B          410 ILTDTIF----RCLPPRIKVLDLHSN-KIKSIPKQVVKLEALQELNVASNQ-LKSVPDGIFDRLTSLQKIWLHTNP  479 (520)
T ss_dssp             CCCGGGG----GSCCTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCCcchh----hhhcccCCEEECCCC-cccccchhhhcCCCCCEEECCCCc-CCccCHHHhccCCcccEEECcCCC
Confidence            5544321    122 68888888887 577888777799999999999996 5678876 8899999999999865

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.91  E-value=2.9e-23  Score=235.26  Aligned_cols=303  Identities=17%  Similarity=0.169  Sum_probs=183.3

Q ss_pred             CceeEEEEEcCCCcccccC-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEe
Q 045113          469 NVKRFFALEQQSDFAYLDD-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLK  547 (821)
Q Consensus       469 ~~~r~lsl~~~~~~~~~~~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~  547 (821)
                      ..++.+.+........+.. .+++|++|.+.++....    .++  +..+++|++|++++|.+..++. ++++++|++|+
T Consensus        46 ~~l~~L~l~~~~i~~l~~~~~l~~L~~L~Ls~n~l~~----~~~--~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~  118 (466)
T 1o6v_A           46 DQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTD----ITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGLT  118 (466)
T ss_dssp             HTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCC----CGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEE
T ss_pred             ccccEEecCCCCCccCcchhhhcCCCEEECCCCccCC----chh--hhccccCCEEECCCCccccChh-hcCCCCCCEEE
Confidence            3466666666555444344 67777777777776542    222  6777777777777777776665 77777777777


Q ss_pred             ecCCCCccccHHHHhccccceEEecCCcccccchh--------------------hhccCccCceeecCCcccCCCCCCC
Q 045113          548 LNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTAD--------------------EFWKMKKLRHLNFGSITLPAHPGNY  607 (821)
Q Consensus       548 L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~--------------------~i~~l~~L~~L~L~~~~~~~~~p~~  607 (821)
                      +++|.+..+|. +. ++++|++|++++|.+..+|.                    .+.++++|++|++++|.+.. ++ .
T Consensus       119 L~~n~l~~~~~-~~-~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~-~~-~  194 (466)
T 1o6v_A          119 LFNNQITDIDP-LK-NLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSD-IS-V  194 (466)
T ss_dssp             CCSSCCCCCGG-GT-TCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCC-CG-G
T ss_pred             CCCCCCCCChH-Hc-CCCCCCEEECCCCccCCChhhccCCcccEeecCCcccCchhhccCCCCCEEECcCCcCCC-Ch-h
Confidence            77777777664 55 77777777777776665543                    13445555555555555422 22 2


Q ss_pred             cCCCCCcceeccccCC-cchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCC--------CCCCCCe
Q 045113          608 CGSLENLNFISALYPC-CCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANES--------KMPRLSK  678 (821)
Q Consensus       608 i~~l~~L~~L~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~--------~~~~L~~  678 (821)
                      +..+++|++|++..+. ..... ++.+++|+.|+++++.-.   .+ ..+..+++|+.|++++|.        .+++|+.
T Consensus       195 l~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n~l~---~~-~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~  269 (466)
T 1o6v_A          195 LAKLTNLESLIATNNQISDITP-LGILTNLDELSLNGNQLK---DI-GTLASLTNLTDLDLANNQISNLAPLSGLTKLTE  269 (466)
T ss_dssp             GGGCTTCSEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCC---CC-GGGGGCTTCSEEECCSSCCCCCGGGTTCTTCSE
T ss_pred             hccCCCCCEEEecCCccccccc-ccccCCCCEEECCCCCcc---cc-hhhhcCCCCCEEECCCCccccchhhhcCCCCCE
Confidence            4555555555555531 11222 445566666666655311   11 234556666666666531        3455666


Q ss_pred             eEecc--------cCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCc
Q 045113          679 IILAE--------YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWL  750 (821)
Q Consensus       679 l~l~~--------~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l  750 (821)
                      |.+++        +..+++|+.|++++|.+.+.  +.++.+++|+.|++++|.+.+...   ...+++|+.|++++| .+
T Consensus       270 L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l~~~--~~~~~l~~L~~L~L~~n~l~~~~~---~~~l~~L~~L~l~~n-~l  343 (466)
T 1o6v_A          270 LKLGANQISNISPLAGLTALTNLELNENQLEDI--SPISNLKNLTYLTLYFNNISDISP---VSSLTKLQRLFFYNN-KV  343 (466)
T ss_dssp             EECCSSCCCCCGGGTTCTTCSEEECCSSCCSCC--GGGGGCTTCSEEECCSSCCSCCGG---GGGCTTCCEEECCSS-CC
T ss_pred             EECCCCccCccccccCCCccCeEEcCCCcccCc--hhhcCCCCCCEEECcCCcCCCchh---hccCccCCEeECCCC-cc
Confidence            66554        44566666677766665442  226667777777777666655432   356677777777776 34


Q ss_pred             cceeeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          751 EEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       751 ~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      ..++ .+..+++|+.|++++|......|  +..+++|+.|++++|+
T Consensus       344 ~~~~-~l~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~  386 (466)
T 1o6v_A          344 SDVS-SLANLTNINWLSAGHNQISDLTP--LANLTRITQLGLNDQA  386 (466)
T ss_dssp             CCCG-GGTTCTTCCEEECCSSCCCBCGG--GTTCTTCCEEECCCEE
T ss_pred             CCch-hhccCCCCCEEeCCCCccCccch--hhcCCCCCEEeccCCc
Confidence            4443 45677778888887776443333  6777888888887776

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.91  E-value=1.2e-23  Score=238.49  Aligned_cols=283  Identities=19%  Similarity=0.180  Sum_probs=184.0

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      .++++++|.+.++....    . + .+..+++|++|+|++|.++.+|. ++++++|++|++++|.+..++. +. ++++|
T Consensus        44 ~l~~l~~L~l~~~~i~~----l-~-~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~-~~-~l~~L  114 (466)
T 1o6v_A           44 DLDQVTTLQADRLGIKS----I-D-GVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITP-LA-NLTNL  114 (466)
T ss_dssp             HHHTCCEEECCSSCCCC----C-T-TGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GT-TCTTC
T ss_pred             HhccccEEecCCCCCcc----C-c-chhhhcCCCEEECCCCccCCchh-hhccccCCEEECCCCccccChh-hc-CCCCC
Confidence            57889999999887653    2 2 37889999999999999998887 9999999999999999998887 77 99999


Q ss_pred             eEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEeccccc
Q 045113          568 YTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSY  647 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  647 (821)
                      ++|++++|.+..+|. +.++++|++|++++|.+.. ++ .++.+++|+.|++..+-..... +.++++|+.|+++++.-.
T Consensus       115 ~~L~L~~n~l~~~~~-~~~l~~L~~L~l~~n~l~~-~~-~~~~l~~L~~L~l~~~~~~~~~-~~~l~~L~~L~l~~n~l~  190 (466)
T 1o6v_A          115 TGLTLFNNQITDIDP-LKNLTNLNRLELSSNTISD-IS-ALSGLTSLQQLSFGNQVTDLKP-LANLTTLERLDISSNKVS  190 (466)
T ss_dssp             CEEECCSSCCCCCGG-GTTCTTCSEEEEEEEEECC-CG-GGTTCTTCSEEEEEESCCCCGG-GTTCTTCCEEECCSSCCC
T ss_pred             CEEECCCCCCCCChH-HcCCCCCCEEECCCCccCC-Ch-hhccCCcccEeecCCcccCchh-hccCCCCCEEECcCCcCC
Confidence            999999999999876 8999999999999998854 43 3666666666665432222233 555666666666655311


Q ss_pred             chhHHHHHccCCCCcCEEEeecCC------------------------------CCCCCCeeEecc--------cCCCCC
Q 045113          648 NQSLLSKSLCRLSCLESLKLANES------------------------------KMPRLSKIILAE--------YVFPHS  689 (821)
Q Consensus       648 ~~~~l~~~l~~~~~L~~L~l~~~~------------------------------~~~~L~~l~l~~--------~~~~~~  689 (821)
                         .+ ..+..+++|++|+++++.                              .+++|+.|.+++        +..+++
T Consensus       191 ---~~-~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~  266 (466)
T 1o6v_A          191 ---DI-SVLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLSGLTK  266 (466)
T ss_dssp             ---CC-GGGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGGGTTCTT
T ss_pred             ---CC-hhhccCCCCCEEEecCCcccccccccccCCCCEEECCCCCcccchhhhcCCCCCEEECCCCccccchhhhcCCC
Confidence               11 123444555555554421                              233444444433        334445


Q ss_pred             cceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEe
Q 045113          690 LTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIIN  769 (821)
Q Consensus       690 L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~  769 (821)
                      |+.|++++|.+.+..  .+..+++|+.|++++|.+.+...   ...+++|+.|++++|. +..++. +..+++|+.|+++
T Consensus       267 L~~L~l~~n~l~~~~--~~~~l~~L~~L~L~~n~l~~~~~---~~~l~~L~~L~L~~n~-l~~~~~-~~~l~~L~~L~l~  339 (466)
T 1o6v_A          267 LTELKLGANQISNIS--PLAGLTALTNLELNENQLEDISP---ISNLKNLTYLTLYFNN-ISDISP-VSSLTKLQRLFFY  339 (466)
T ss_dssp             CSEEECCSSCCCCCG--GGTTCTTCSEEECCSSCCSCCGG---GGGCTTCSEEECCSSC-CSCCGG-GGGCTTCCEEECC
T ss_pred             CCEEECCCCccCccc--cccCCCccCeEEcCCCcccCchh---hcCCCCCCEEECcCCc-CCCchh-hccCccCCEeECC
Confidence            555555555443321  14455555555555554444221   3455666666666653 333322 4566777777777


Q ss_pred             ecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          770 PCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       770 ~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      +|. +..++ .+.++++|+.|++++|+
T Consensus       340 ~n~-l~~~~-~l~~l~~L~~L~l~~n~  364 (466)
T 1o6v_A          340 NNK-VSDVS-SLANLTNINWLSAGHNQ  364 (466)
T ss_dssp             SSC-CCCCG-GGTTCTTCCEEECCSSC
T ss_pred             CCc-cCCch-hhccCCCCCEEeCCCCc
Confidence            664 34443 56677777777777775

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.91  E-value=6.5e-24  Score=246.05  Aligned_cols=321  Identities=18%  Similarity=0.124  Sum_probs=221.2

Q ss_pred             CCceeEEEEEcCCCcccc-c-C-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccccc-ccCCCCc
Q 045113          468 KNVKRFFALEQQSDFAYL-D-D-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSE-IENLSLL  543 (821)
Q Consensus       468 ~~~~r~lsl~~~~~~~~~-~-~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~-i~~l~~L  543 (821)
                      +..++++.+..+...... . . .+++|++|.+.++....    ..+..|..+++|++|+|++|.++.+|.. ++++++|
T Consensus        25 ~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~----~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  100 (549)
T 2z81_A           25 TAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINT----IEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSL  100 (549)
T ss_dssp             CTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCE----ECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTC
T ss_pred             CCCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCc----cChhhccccccCCEEECCCCccCccCHHHhccCCCC
Confidence            467899999988765432 2 2 89999999999987753    5557789999999999999999977754 9999999


Q ss_pred             eEEeecCCCCcc--ccHHHHhccccceEEecCCcc-cccch-hhhccCccCceeecCCcccCCCCCCCcCCCCCcceecc
Q 045113          544 RYLKLNIPSLKS--LPLSFFNYLLNLYTLDMPFSY-IDHTA-DEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISA  619 (821)
Q Consensus       544 r~L~L~~~~i~~--lp~~i~~~L~~L~~L~L~~~~-l~~lp-~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~  619 (821)
                      ++|++++|.+..  .|..+. ++++|++|++++|. +..+| ..+.++++|++|++++|.+.+..|..++.+++|++|++
T Consensus       101 ~~L~Ls~n~l~~~~~~~~~~-~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l  179 (549)
T 2z81_A          101 KYLNLMGNPYQTLGVTSLFP-NLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTL  179 (549)
T ss_dssp             CEEECTTCCCSSSCSSCSCT-TCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEE
T ss_pred             cEEECCCCcccccchhhhhh-ccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCceEec
Confidence            999999999884  466787 99999999999996 77786 57899999999999999998878888888777777766


Q ss_pred             ccC--CcchhhhcCCCCCCCeEEEeccccc-------------------------c------------------------
Q 045113          620 LYP--CCCTKDLLGRLPNLRNLRIQGDLSY-------------------------N------------------------  648 (821)
Q Consensus       620 ~~~--~~~~~~~l~~l~~L~~L~l~~~~~~-------------------------~------------------------  648 (821)
                      ..+  ...+...+..+++|+.|+++++.-.                         .                        
T Consensus       180 ~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~~~~~~~L~~l~l~  259 (549)
T 2z81_A          180 HLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFD  259 (549)
T ss_dssp             ECSBSTTHHHHHHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEHHHHHHHHGGGGGCTTCCEEEEE
T ss_pred             ccCcccccchhhHhhcccccEEEccCCccccccccccchhhhhhcccceeccccccchhHHHHHHHHhhhhccccccccc
Confidence            552  1222221223344444444333100                         0                        


Q ss_pred             --------------------------------------------------------------hhHHHHHc-cCCCCcCEE
Q 045113          649 --------------------------------------------------------------QSLLSKSL-CRLSCLESL  665 (821)
Q Consensus       649 --------------------------------------------------------------~~~l~~~l-~~~~~L~~L  665 (821)
                                                                                    ...+|..+ ..+++|+.|
T Consensus       260 ~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~i~~~~~~~~l~~~~~~~~~L~~L~l~~n~l~~ip~~~~~~l~~L~~L  339 (549)
T 2z81_A          260 DCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFL  339 (549)
T ss_dssp             SCEEECCSCCCCCTTTCCCCCTTCCEEEEESCBCSCGGGSCCCCHHHHHSTTCCEEEEESSCCCCCCHHHHHHCTTCCEE
T ss_pred             cccccccccccccchhhhhhhcccccccccccccchhhhcccchhhhhhcccceEEEeccCccccCCHHHHhcCccccEE
Confidence                                                                          00012222 235566666


Q ss_pred             EeecCC-------------CCCCCCeeEecc------------cCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEe
Q 045113          666 KLANES-------------KMPRLSKIILAE------------YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLK  720 (821)
Q Consensus       666 ~l~~~~-------------~~~~L~~l~l~~------------~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~  720 (821)
                      +++.|.             ..++|+.|.+++            +..+++|+.|++++|.++ ..|..++.+++|++|+++
T Consensus       340 ~Ls~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~~~~L~~L~Ls  418 (549)
T 2z81_A          340 DLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFH-PMPDSCQWPEKMRFLNLS  418 (549)
T ss_dssp             ECCSSCCCHHHHHHHTCTTSSTTCCEEECTTSCCCCHHHHHHHGGGCTTCCEEECTTCCCC-CCCSCCCCCTTCCEEECT
T ss_pred             EccCCccccccccchhhhhccccCcEEEccCCcccccccchhhhhcCCCCCEEECCCCCCc-cCChhhcccccccEEECC
Confidence            665531             234566666544            345667777777777665 455566666777777776


Q ss_pred             ccccCCCee----------------eecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccccCCC
Q 045113          721 QNSYSGRKL----------------TCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCI  784 (821)
Q Consensus       721 ~~~~~~~~~----------------~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l  784 (821)
                      +|.+.....                ......+++|++|+|++| .+..+|. ...+++|+.|++++|......|..+..+
T Consensus       419 ~N~l~~l~~~~~~~L~~L~Ls~N~l~~~~~~l~~L~~L~Ls~N-~l~~ip~-~~~l~~L~~L~Ls~N~l~~~~~~~~~~l  496 (549)
T 2z81_A          419 STGIRVVKTCIPQTLEVLDVSNNNLDSFSLFLPRLQELYISRN-KLKTLPD-ASLFPVLLVMKISRNQLKSVPDGIFDRL  496 (549)
T ss_dssp             TSCCSCCCTTSCTTCSEEECCSSCCSCCCCCCTTCCEEECCSS-CCSSCCC-GGGCTTCCEEECCSSCCCCCCTTGGGGC
T ss_pred             CCCcccccchhcCCceEEECCCCChhhhcccCChhcEEECCCC-ccCcCCC-cccCccCCEEecCCCccCCcCHHHHhcC
Confidence            665432110                001135778888888887 5667765 4578999999999986554445568999


Q ss_pred             CCCCEEEEeCCc
Q 045113          785 KSLNNFNCWWPQ  796 (821)
Q Consensus       785 ~~L~~L~l~~c~  796 (821)
                      ++|+.|++++||
T Consensus       497 ~~L~~L~l~~N~  508 (549)
T 2z81_A          497 TSLQKIWLHTNP  508 (549)
T ss_dssp             TTCCEEECCSSC
T ss_pred             cccCEEEecCCC
Confidence            999999998876

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=99.91  E-value=6.2e-24  Score=249.33  Aligned_cols=324  Identities=17%  Similarity=0.085  Sum_probs=207.6

Q ss_pred             CCCceeEEEEEcCCCccccc-C--CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCC
Q 045113          467 RKNVKRFFALEQQSDFAYLD-D--YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSL  542 (821)
Q Consensus       467 ~~~~~r~lsl~~~~~~~~~~-~--~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~  542 (821)
                      .+..++++.+..+....... .  .+++|++|.+.++....    ..+..|..+++|++|+|++|.+..+ |..++++++
T Consensus        31 l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~----~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  106 (606)
T 3t6q_A           31 LPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYW----IHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKA  106 (606)
T ss_dssp             SCTTCCEEECTTCCCSEECTTTSTTCTTCSEEECTTCCCCE----ECTTTTTTCTTCCEEECTTCCCSEECTTTTSSCTT
T ss_pred             CCCcCcEEEccCCccCcCChhHhccCccceEEECCCCccce----eChhhccCccccCeeeCCCCcccccChhhhccccc
Confidence            45678899988877655432 2  88999999998887643    5567788999999999999998754 678889999


Q ss_pred             ceEEeecCCCCccc-cHHHHhccccceEEecCCcccccch-hhhccCccCceeecCCcccCCCCCCCcCCCCCcc--eec
Q 045113          543 LRYLKLNIPSLKSL-PLSFFNYLLNLYTLDMPFSYIDHTA-DEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLN--FIS  618 (821)
Q Consensus       543 Lr~L~L~~~~i~~l-p~~i~~~L~~L~~L~L~~~~l~~lp-~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~--~L~  618 (821)
                      |++|++++|.+..+ |..+. ++++|++|++++|.+..++ +.+..+++|++|++++|.+....|..++.+++|+  +|+
T Consensus       107 L~~L~L~~n~i~~l~~~~~~-~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~l~L~  185 (606)
T 3t6q_A          107 LKHLFFIQTGISSIDFIPLH-NQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLN  185 (606)
T ss_dssp             CCEEECTTSCCSCGGGSCCT-TCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSCCCEECHHHHHTTTTCCSEEEE
T ss_pred             ccEeeccccCcccCCcchhc-cCCcccEEECCCCcccccCcccccCCcccCEEEcccCcccccChhhhhhhcccceeEEe
Confidence            99999999998876 45666 8999999999999887762 3445588999999999888666666678888888  666


Q ss_pred             cccC--CcchhhhcCCCCCCCeEEEecccc--------------------------------------------------
Q 045113          619 ALYP--CCCTKDLLGRLPNLRNLRIQGDLS--------------------------------------------------  646 (821)
Q Consensus       619 ~~~~--~~~~~~~l~~l~~L~~L~l~~~~~--------------------------------------------------  646 (821)
                      +..+  ...+.. .....+|+.|++.++..                                                  
T Consensus       186 l~~n~l~~~~~~-~~~~~~L~~L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~~L~~L~l~~n  264 (606)
T 3t6q_A          186 LNGNDIAGIEPG-AFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKH  264 (606)
T ss_dssp             CTTCCCCEECTT-TTTTCEEEEEECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGGGGGGSEEEEEECTTC
T ss_pred             cCCCccCccChh-HhhhccccccccCCchhHHHHhhhccccchhheechhhccccccccChhHhchhhcCceeEEEeecC
Confidence            6663  222222 22223344444433210                                                  


Q ss_pred             cchhHHHHHccCCCCcCEEEeecCC---------CCCCCCeeEecc----------cCCCCCcceEEEecccCCCCCcc-
Q 045113          647 YNQSLLSKSLCRLSCLESLKLANES---------KMPRLSKIILAE----------YVFPHSLTHLSFSNTDLMDDPMP-  706 (821)
Q Consensus       647 ~~~~~l~~~l~~~~~L~~L~l~~~~---------~~~~L~~l~l~~----------~~~~~~L~~L~L~~~~l~~~~~~-  706 (821)
                      ......+..+..+++|+.|+++++.         .+++|+.|.+.+          +..+++|+.|++++|.+.+..+. 
T Consensus       265 ~l~~~~~~~~~~l~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~  344 (606)
T 3t6q_A          265 YFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTG  344 (606)
T ss_dssp             CCSSCCTTTTTTCTTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSS
T ss_pred             ccCccCHHHhccccCCCEEeccCCccCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchh
Confidence            1111112235566677777776631         234455555544          34456666666666655433332 


Q ss_pred             cccCCCCCCEEEEeccccCCCee-eecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCcc-ccCCC
Q 045113          707 ALEKLPLLQVLKLKQNSYSGRKL-TCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPE-QLWCI  784 (821)
Q Consensus       707 ~l~~l~~L~~L~L~~~~~~~~~~-~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~-~l~~l  784 (821)
                      .++.+++|+.|++++|.+.+... ......+++|++|++++|......+..+..+++|+.|++++|......|. .+.++
T Consensus       345 ~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l  424 (606)
T 3t6q_A          345 CLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNL  424 (606)
T ss_dssp             TTTTCTTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTC
T ss_pred             hhhccCcCCEEECCCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCc
Confidence            35566666666666555544221 22345566777777776632222244456677777777777665444333 36677


Q ss_pred             CCCCEEEEeCCc
Q 045113          785 KSLNNFNCWWPQ  796 (821)
Q Consensus       785 ~~L~~L~l~~c~  796 (821)
                      ++|++|++++|.
T Consensus       425 ~~L~~L~l~~n~  436 (606)
T 3t6q_A          425 HLLKVLNLSHSL  436 (606)
T ss_dssp             TTCCEEECTTCC
T ss_pred             ccCCEEECCCCc
Confidence            777777777765

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.91  E-value=1e-23  Score=242.69  Aligned_cols=313  Identities=19%  Similarity=0.180  Sum_probs=206.7

Q ss_pred             eEEEEEcCCCcccccCCCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCCceEEeecC
Q 045113          472 RFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNI  550 (821)
Q Consensus       472 r~lsl~~~~~~~~~~~~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~  550 (821)
                      +++.+.++.....+..-.++|+.|.+.++....    .++..|..+++|++|+|++|.++.+ |..++++++|++|+|++
T Consensus         3 ~~l~ls~n~l~~ip~~~~~~L~~L~Ls~n~i~~----~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~   78 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLSQKTTILNISQNYISE----LWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSH   78 (520)
T ss_dssp             CEEECTTSCCSSCCCSCCTTCSEEECCSSCCCC----CCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCS
T ss_pred             ceEecCCCCcccccccccccccEEECCCCcccc----cChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCC
Confidence            345555555554433334899999999998754    5667899999999999999999966 77899999999999999


Q ss_pred             CCCccccHHHHhccccceEEecCCccccc--chhhhccCccCceeecCCcccCCCCCCCcCCCCCc--ceeccccCC---
Q 045113          551 PSLKSLPLSFFNYLLNLYTLDMPFSYIDH--TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENL--NFISALYPC---  623 (821)
Q Consensus       551 ~~i~~lp~~i~~~L~~L~~L~L~~~~l~~--lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L--~~L~~~~~~---  623 (821)
                      |.+..+|..   .+++|++|++++|.+..  +|..++++++|++|++++|.+.+   ..++.+++|  ++|++..+.   
T Consensus        79 N~l~~lp~~---~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~---~~~~~l~~L~L~~L~l~~n~l~~  152 (520)
T 2z7x_B           79 NKLVKISCH---PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEK---SSVLPIAHLNISKVLLVLGETYG  152 (520)
T ss_dssp             SCCCEEECC---CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEESSCCG---GGGGGGTTSCEEEEEEEECTTTT
T ss_pred             CceeecCcc---ccCCccEEeccCCccccccchhhhccCCcceEEEecCcccch---hhccccccceeeEEEeecccccc
Confidence            999999976   69999999999998876  57899999999999999999865   346667777  888876631   


Q ss_pred             --cchhh-------------------------hcCCCCCCCeEEEeccc-----ccchhHHHHHccCCC-----------
Q 045113          624 --CCTKD-------------------------LLGRLPNLRNLRIQGDL-----SYNQSLLSKSLCRLS-----------  660 (821)
Q Consensus       624 --~~~~~-------------------------~l~~l~~L~~L~l~~~~-----~~~~~~l~~~l~~~~-----------  660 (821)
                        ..+..                         .+.++++|+.|+++++.     ....+.++ .+..++           
T Consensus       153 ~~~~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~-~l~~l~~L~~L~l~~~~  231 (520)
T 2z7x_B          153 EKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILA-KLQTNPKLSNLTLNNIE  231 (520)
T ss_dssp             SSCCTTTTTTCCEEEEEEECCSSSCCCCCCCCCCTTCSEEEECCEEECCSTTTTHHHHHHHH-GGGGCTTCCEEEEEEEE
T ss_pred             cccccccccccccceEEEEeccCcchhhhhhhhhhcccceeeccccccccccccceeecchh-hhccccchhhccccccc
Confidence              11222                         01224444444444431     00111111 222222           


Q ss_pred             ----------------CcCEEEeec-----------------------------CC---C---------CCCCCeeEecc
Q 045113          661 ----------------CLESLKLAN-----------------------------ES---K---------MPRLSKIILAE  683 (821)
Q Consensus       661 ----------------~L~~L~l~~-----------------------------~~---~---------~~~L~~l~l~~  683 (821)
                                      +|+.|+++.                             +.   +         ..+++.|.+++
T Consensus       232 l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~~~l~~L~~l~l~~n~~~~p~~~~~~~~~~~~L~~L~l~~  311 (520)
T 2z7x_B          232 TTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSG  311 (520)
T ss_dssp             EEHHHHHHHHHHHHTSSCSEEEEEEEEEESCCCCCCCCCCSCCCCEEEEEEEEECCCCSCTHHHHHHHHTCCCSEEEEES
T ss_pred             cCHHHHHHHHHHhhhCcccEEEeecccccCccccchhhcccccCceeEeccccccceecchhhhhcccccCceeEEEcCC
Confidence                            333333332                             10   0         02345555544


Q ss_pred             --------cCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCC-eeeecCCCCcccceeeeccCCCcccee
Q 045113          684 --------YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGR-KLTCGSDGFPRLKVLHLKSMLWLEEWT  754 (821)
Q Consensus       684 --------~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~-~~~~~~~~~~~L~~L~L~~~~~l~~~~  754 (821)
                              ...+++|++|++++|.+++..+..++.+++|+.|++++|.+.+. .++.....+++|++|++++|.....++
T Consensus       312 n~l~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~  391 (520)
T 2z7x_B          312 TRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEK  391 (520)
T ss_dssp             SCCCCCCCCSSCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGG
T ss_pred             CccccccchhhCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccc
Confidence                    15678888888888888777777888888888888887777642 122234567777777777764322244


Q ss_pred             ec-cccc----------------------cccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          755 MG-TGAM----------------------PKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       755 ~~-~~~l----------------------~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      .. +..+                      ++|+.|++++|. ++.+|..+..+++|++|++++|.
T Consensus       392 ~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N~-l~~ip~~~~~l~~L~~L~L~~N~  455 (520)
T 2z7x_B          392 KGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNK-IKSIPKQVVKLEALQELNVASNQ  455 (520)
T ss_dssp             GCSCCCCTTCCEEECCSSCCCGGGGGSCCTTCCEEECCSSC-CCCCCGGGGGCTTCCEEECCSSC
T ss_pred             cchhccCccCCEEECcCCCCCcchhhhhcccCCEEECCCCc-ccccchhhhcCCCCCEEECCCCc
Confidence            32 2333                      456666666553 34666666677777777777765

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.90  E-value=8.8e-24  Score=248.04  Aligned_cols=130  Identities=18%  Similarity=0.101  Sum_probs=116.1

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCCceEEeecCCCCccc-cHHHHhccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNIPSLKSL-PLSFFNYLL  565 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~~~i~~l-p~~i~~~L~  565 (821)
                      -.+++++|.+.++....    ..+..|.++++|++|+|++|.++.+ |..++++++|++|+|++|.+..+ |..+. +++
T Consensus        30 ~~~~l~~L~Ls~n~l~~----~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~-~l~  104 (606)
T 3vq2_A           30 IPSSTKNIDLSFNPLKI----LKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFS-GLT  104 (606)
T ss_dssp             SCTTCCEEECTTSCCCE----ECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCCCCTTSST-TCT
T ss_pred             CCCCcCEEECCCCCcCE----eChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCCcccccChhhcC-Ccc
Confidence            45889999999988753    5566899999999999999999966 56799999999999999999977 77788 999


Q ss_pred             cceEEecCCcccccch-hhhccCccCceeecCCcccCC-CCCCCcCCCCCcceeccccC
Q 045113          566 NLYTLDMPFSYIDHTA-DEFWKMKKLRHLNFGSITLPA-HPGNYCGSLENLNFISALYP  622 (821)
Q Consensus       566 ~L~~L~L~~~~l~~lp-~~i~~l~~L~~L~L~~~~~~~-~~p~~i~~l~~L~~L~~~~~  622 (821)
                      +|++|++++|.+..+| ..++++++|++|++++|.+.+ .+|..++++++|++|++..+
T Consensus       105 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n  163 (606)
T 3vq2_A          105 SLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYN  163 (606)
T ss_dssp             TCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSS
T ss_pred             cCCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccCC
Confidence            9999999999998886 679999999999999999965 67999999999999998874

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.90  E-value=1.7e-23  Score=243.14  Aligned_cols=311  Identities=17%  Similarity=0.137  Sum_probs=196.3

Q ss_pred             CCceeEEEEEcCCCccccc--C-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCce
Q 045113          468 KNVKRFFALEQQSDFAYLD--D-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLR  544 (821)
Q Consensus       468 ~~~~r~lsl~~~~~~~~~~--~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr  544 (821)
                      +..++++.+..+.......  . .+++|++|.+.++....    ..+..|..+++|++|+|++|.++.+|..  .+++|+
T Consensus        51 ~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~----~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~  124 (562)
T 3a79_B           51 PPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRS----LDFHVFLFNQDLEYLDVSHNRLQNISCC--PMASLR  124 (562)
T ss_dssp             CTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCE----ECTTTTTTCTTCCEEECTTSCCCEECSC--CCTTCS
T ss_pred             CCCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCc----CCHHHhCCCCCCCEEECCCCcCCccCcc--ccccCC
Confidence            4567777777776554432  2 77788888887776643    4456677788888888888888777765  678888


Q ss_pred             EEeecCCCCcccc--HHHHhccccceEEecCCcccccchhhhccCccC--ceeecCCccc--CCCCCCCcCCC-------
Q 045113          545 YLKLNIPSLKSLP--LSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKL--RHLNFGSITL--PAHPGNYCGSL-------  611 (821)
Q Consensus       545 ~L~L~~~~i~~lp--~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L--~~L~L~~~~~--~~~~p~~i~~l-------  611 (821)
                      +|++++|.+..+|  ..+. ++++|++|++++|.+...  .+..+++|  ++|++++|.+  .+..|..+..+       
T Consensus       125 ~L~Ls~N~l~~l~~p~~~~-~l~~L~~L~L~~n~l~~~--~~~~l~~L~L~~L~L~~n~l~~~~~~~~~l~~l~~~~l~l  201 (562)
T 3a79_B          125 HLDLSFNDFDVLPVCKEFG-NLTKLTFLGLSAAKFRQL--DLLPVAHLHLSCILLDLVSYHIKGGETESLQIPNTTVLHL  201 (562)
T ss_dssp             EEECCSSCCSBCCCCGGGG-GCTTCCEEEEECSBCCTT--TTGGGTTSCEEEEEEEESSCCCCSSSCCEEEECCEEEEEE
T ss_pred             EEECCCCCccccCchHhhc-ccCcccEEecCCCccccC--chhhhhhceeeEEEeecccccccccCcccccccCcceEEE
Confidence            8888888877544  6677 788888888888766542  34444454  7777776665  44334333322       


Q ss_pred             -------------------CCcceeccccCC-------cchhhhcCC---------------------------CCCCCe
Q 045113          612 -------------------ENLNFISALYPC-------CCTKDLLGR---------------------------LPNLRN  638 (821)
Q Consensus       612 -------------------~~L~~L~~~~~~-------~~~~~~l~~---------------------------l~~L~~  638 (821)
                                         ++|+.|++..+.       ..+.. +..                           .++|+.
T Consensus       202 ~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~l~~~~~~-l~~l~~L~~L~L~~~~l~~~~~~~~~~~~~~~~L~~  280 (562)
T 3a79_B          202 VFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSE-LTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEY  280 (562)
T ss_dssp             EECSSSCCCCCCEEEESSEEEEEEEEEECCSTTHHHHHHHHHH-HHSCSSCEEEEEEEEEECHHHHHHHHHHHTTSSEEE
T ss_pred             EecCccchhhhhhhcccccceEEEecccccccccchHHHHHHH-HhccCcceEEEecCCcCcHHHHHHHHHhhhcccccE
Confidence                               222222222110       00000 000                           012222


Q ss_pred             EEEecccccchhHHH-------------------------------HHc----------------------cCCCCcCEE
Q 045113          639 LRIQGDLSYNQSLLS-------------------------------KSL----------------------CRLSCLESL  665 (821)
Q Consensus       639 L~l~~~~~~~~~~l~-------------------------------~~l----------------------~~~~~L~~L  665 (821)
                      |+++++.  ..+.+|                               ..+                      ..+++|+.|
T Consensus       281 L~l~~n~--l~~~ip~~~~~~~~~~L~~L~~~~~~~~~~~~p~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~l~~L~~L  358 (562)
T 3a79_B          281 LNIYNLT--ITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFL  358 (562)
T ss_dssp             EEEEEEE--ECSCCCCCCCCCCSCSCCEEEEEEEEECCCSSCHHHHHHHHHTCCCSEEEEESSCCCCCCCCSSCCCCCEE
T ss_pred             EEEeccE--eeccccchhhhcccccchheehhhcccceeecChhhhhhhhccCcceEEEccCCCcccccCccCCCCceEE
Confidence            2222221  000000                               000                      345566666


Q ss_pred             EeecCC----------CCCCCCeeEecc------------cCCCCCcceEEEecccCCCCCc-ccccCCCCCCEEEEecc
Q 045113          666 KLANES----------KMPRLSKIILAE------------YVFPHSLTHLSFSNTDLMDDPM-PALEKLPLLQVLKLKQN  722 (821)
Q Consensus       666 ~l~~~~----------~~~~L~~l~l~~------------~~~~~~L~~L~L~~~~l~~~~~-~~l~~l~~L~~L~L~~~  722 (821)
                      +++.|.          ..++|+.|.+++            +..+++|+.|++++|.+.+..+ ..+..+++|+.|++++|
T Consensus       359 ~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~L~~L~l~~n  438 (562)
T 3a79_B          359 NFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSN  438 (562)
T ss_dssp             ECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTTCCEEECCSS
T ss_pred             ECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCcccCCEEECCCC
Confidence            665531          234455555543            4567888888888888776344 34778888888888888


Q ss_pred             ccCCCeeeecCCCC-cccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccc-cCCCCCCCEEEEeCCc
Q 045113          723 SYSGRKLTCGSDGF-PRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQ-LWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       723 ~~~~~~~~~~~~~~-~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~-l~~l~~L~~L~l~~c~  796 (821)
                      .+.+..+    ..+ ++|+.|++++| .+..+|.....+++|+.|++++|. ++.+|.. +..+++|+.|+++++|
T Consensus       439 ~l~~~~~----~~l~~~L~~L~L~~N-~l~~ip~~~~~l~~L~~L~L~~N~-l~~l~~~~~~~l~~L~~L~l~~N~  508 (562)
T 3a79_B          439 MLTGSVF----RCLPPKVKVLDLHNN-RIMSIPKDVTHLQALQELNVASNQ-LKSVPDGVFDRLTSLQYIWLHDNP  508 (562)
T ss_dssp             CCCGGGG----SSCCTTCSEEECCSS-CCCCCCTTTTSSCCCSEEECCSSC-CCCCCTTSTTTCTTCCCEECCSCC
T ss_pred             CCCcchh----hhhcCcCCEEECCCC-cCcccChhhcCCCCCCEEECCCCC-CCCCCHHHHhcCCCCCEEEecCCC
Confidence            7765432    234 69999999998 688888877899999999999986 5578887 8999999999999865

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.90  E-value=1.9e-23  Score=236.22  Aligned_cols=301  Identities=15%  Similarity=0.120  Sum_probs=240.4

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC-cc-cccccCCCCceEEeecCCCCccc-cHHHHhcc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN-QY-PSEIENLSLLRYLKLNIPSLKSL-PLSFFNYL  564 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~-~l-p~~i~~l~~Lr~L~L~~~~i~~l-p~~i~~~L  564 (821)
                      -.++|++|.+.++....    ..+..|..+++|++|+|++|.+. .+ |..+.++++|++|+|++|.+..+ |..+. ++
T Consensus        28 l~~~l~~L~Ls~n~i~~----~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~-~l  102 (455)
T 3v47_A           28 LPAHVNYVDLSLNSIAE----LNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFN-GL  102 (455)
T ss_dssp             CCTTCCEEECCSSCCCE----ECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTT-TC
T ss_pred             CCCccCEEEecCCccCc----CChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCccCccChhhcc-Cc
Confidence            34789999999988753    55677899999999999999986 55 56799999999999999999865 67788 99


Q ss_pred             ccceEEecCCccccc-chhh--hccCccCceeecCCcccCCCCCCC-cCCCCCcceeccccC---CcchhhhcCCC--CC
Q 045113          565 LNLYTLDMPFSYIDH-TADE--FWKMKKLRHLNFGSITLPAHPGNY-CGSLENLNFISALYP---CCCTKDLLGRL--PN  635 (821)
Q Consensus       565 ~~L~~L~L~~~~l~~-lp~~--i~~l~~L~~L~L~~~~~~~~~p~~-i~~l~~L~~L~~~~~---~~~~~~~l~~l--~~  635 (821)
                      ++|++|++++|.+.. +|..  +.++++|++|++++|.+.+..|.. ++.+++|++|++..|   +..+.. +..+  .+
T Consensus       103 ~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-l~~l~~~~  181 (455)
T 3v47_A          103 ANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEED-LLNFQGKH  181 (455)
T ss_dssp             TTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTTT-SGGGTTCE
T ss_pred             ccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCcccccChhh-hhcccccc
Confidence            999999999998876 3554  889999999999999997776765 899999999999884   233333 5544  67


Q ss_pred             CCeEEEecccccc------hhHHHHHccCCCCcCEEEeecCC-------------CCCCCCeeEecccC-----------
Q 045113          636 LRNLRIQGDLSYN------QSLLSKSLCRLSCLESLKLANES-------------KMPRLSKIILAEYV-----------  685 (821)
Q Consensus       636 L~~L~l~~~~~~~------~~~l~~~l~~~~~L~~L~l~~~~-------------~~~~L~~l~l~~~~-----------  685 (821)
                      |+.|+++++....      .......+..+++|+.|++++|.             ...+++.+.+.+..           
T Consensus       182 L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~  261 (455)
T 3v47_A          182 FTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNF  261 (455)
T ss_dssp             EEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSS
T ss_pred             ccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeeccccccccccchhhh
Confidence            8899988874111      11122234566899999999852             23678888876510           


Q ss_pred             -----------CCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce-
Q 045113          686 -----------FPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW-  753 (821)
Q Consensus       686 -----------~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~-  753 (821)
                                 .+++|+.|++++|.+.+..+..++.+++|+.|+|++|.+.+.. +..+..+++|++|++++| .+..+ 
T Consensus       262 ~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~-~~~~~~l~~L~~L~Ls~N-~l~~~~  339 (455)
T 3v47_A          262 KDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKID-DNAFWGLTHLLKLNLSQN-FLGSID  339 (455)
T ss_dssp             CCCCTTTTGGGTTSCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEEC-TTTTTTCTTCCEEECCSS-CCCEEC
T ss_pred             ccCcccccccccccCceEEEecCccccccchhhcccCCCCCEEECCCCcccccC-hhHhcCcccCCEEECCCC-ccCCcC
Confidence                       2368999999999998888888999999999999988876532 334678899999999998 45655 


Q ss_pred             eeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          754 TMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       754 ~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      +..++.+++|+.|++++|......|..+.++++|++|++++|.
T Consensus       340 ~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~  382 (455)
T 3v47_A          340 SRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTNQ  382 (455)
T ss_dssp             GGGGTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             hhHhcCcccCCEEECCCCcccccChhhccccccccEEECCCCc
Confidence            5567889999999999997655557889999999999999986

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.90  E-value=3.6e-23  Score=228.92  Aligned_cols=269  Identities=16%  Similarity=0.141  Sum_probs=225.5

Q ss_pred             cCCceeEEEeCCCCCCccccc-ccCCCCceEEeecCCCCccccH-HHHhccccceEEecCCcccccch-hhhccCccCce
Q 045113          516 MYKLLRVLDLGSLVLNQYPSE-IENLSLLRYLKLNIPSLKSLPL-SFFNYLLNLYTLDMPFSYIDHTA-DEFWKMKKLRH  592 (821)
Q Consensus       516 ~~~~Lr~L~L~~~~l~~lp~~-i~~l~~Lr~L~L~~~~i~~lp~-~i~~~L~~L~~L~L~~~~l~~lp-~~i~~l~~L~~  592 (821)
                      .++++++|+++++.++.+|.. +..+++|++|++++|.+..+|. .+. .+++|++|++++|.+..+| ..+.++++|++
T Consensus        43 ~l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~-~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  121 (390)
T 3o6n_A           43 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFA-YAHTIQKLYMGFNAIRYLPPHVFQNVPLLTV  121 (390)
T ss_dssp             GGCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTT-TCTTCCEEECCSSCCCCCCTTTTTTCTTCCE
T ss_pred             ccCCceEEEecCCchhhCChhHhcccccCcEEECCCCcccccChhhcc-CCCCcCEEECCCCCCCcCCHHHhcCCCCCCE
Confidence            468999999999999999875 6889999999999999998775 677 9999999999999998885 45899999999


Q ss_pred             eecCCcccCCCCCCC-cCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeec
Q 045113          593 LNFGSITLPAHPGNY-CGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLAN  669 (821)
Q Consensus       593 L~L~~~~~~~~~p~~-i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~  669 (821)
                      |++++|.+. .+|.. ++.+++|++|++..+  ...+...+..+++|+.|+++++.-  .. +  .+..+++|+.|+++.
T Consensus       122 L~L~~n~l~-~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l--~~-~--~~~~l~~L~~L~l~~  195 (390)
T 3o6n_A          122 LVLERNDLS-SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL--TH-V--DLSLIPSLFHANVSY  195 (390)
T ss_dssp             EECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCC--SB-C--CGGGCTTCSEEECCS
T ss_pred             EECCCCccC-cCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcC--Cc-c--ccccccccceeeccc
Confidence            999999995 56655 699999999999985  333333388999999999999842  11 1  356788999999998


Q ss_pred             CC-----CCCCCCeeEecc-------cCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCc
Q 045113          670 ES-----KMPRLSKIILAE-------YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFP  737 (821)
Q Consensus       670 ~~-----~~~~L~~l~l~~-------~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~  737 (821)
                      |.     .+++|+.+.+.+       ...+++|+.|++++|.+++  ++.++.+++|+.|+|++|.+.+. .+..+..++
T Consensus       196 n~l~~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~--~~~l~~l~~L~~L~Ls~n~l~~~-~~~~~~~l~  272 (390)
T 3o6n_A          196 NLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTD--TAWLLNYPGLVEVDLSYNELEKI-MYHPFVKMQ  272 (390)
T ss_dssp             SCCSEEECCSSCSEEECCSSCCCEEECCCCSSCCEEECCSSCCCC--CGGGGGCTTCSEEECCSSCCCEE-ESGGGTTCS
T ss_pred             ccccccCCCCcceEEECCCCeeeeccccccccccEEECCCCCCcc--cHHHcCCCCccEEECCCCcCCCc-ChhHccccc
Confidence            53     456788888776       3346799999999999865  47899999999999998887663 344567899


Q ss_pred             ccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          738 RLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       738 ~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      +|++|++++| .+..++.....+|+|+.|++++|. +..+|..+..+++|++|++++|+
T Consensus       273 ~L~~L~L~~n-~l~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~l~~L~~L~L~~N~  329 (390)
T 3o6n_A          273 RLERLYISNN-RLVALNLYGQPIPTLKVLDLSHNH-LLHVERNQPQFDRLENLYLDHNS  329 (390)
T ss_dssp             SCCEEECCSS-CCCEEECSSSCCTTCCEEECCSSC-CCCCGGGHHHHTTCSEEECCSSC
T ss_pred             cCCEEECCCC-cCcccCcccCCCCCCCEEECCCCc-ceecCccccccCcCCEEECCCCc
Confidence            9999999997 678888778889999999999995 66888888899999999999987

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.90  E-value=2.2e-23  Score=242.17  Aligned_cols=314  Identities=17%  Similarity=0.149  Sum_probs=216.8

Q ss_pred             eEEEEEcCCCcccccCCCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCCceEEeecC
Q 045113          472 RFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNI  550 (821)
Q Consensus       472 r~lsl~~~~~~~~~~~~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~  550 (821)
                      +++.+.++.....+..-.+++++|.+.++....    .++..|..+++|++|+|++|.++.+ |..++++++|++|++++
T Consensus        34 ~~l~ls~~~L~~ip~~~~~~L~~L~Ls~N~i~~----~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~  109 (562)
T 3a79_B           34 SMVDYSNRNLTHVPKDLPPRTKALSLSQNSISE----LRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSH  109 (562)
T ss_dssp             CEEECTTSCCCSCCTTSCTTCCEEECCSSCCCC----CCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTT
T ss_pred             cEEEcCCCCCccCCCCCCCCcCEEECCCCCccc----cChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCC
Confidence            667776666555433345899999999998764    5567889999999999999999966 67899999999999999


Q ss_pred             CCCccccHHHHhccccceEEecCCcccccch--hhhccCccCceeecCCcccCCCCCCCcCCCCCc--ceeccccCCc--
Q 045113          551 PSLKSLPLSFFNYLLNLYTLDMPFSYIDHTA--DEFWKMKKLRHLNFGSITLPAHPGNYCGSLENL--NFISALYPCC--  624 (821)
Q Consensus       551 ~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp--~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L--~~L~~~~~~~--  624 (821)
                      |.+..+|..   .+++|++|++++|.+..+|  ..++++++|++|++++|.+...   .+..+++|  ++|++..+..  
T Consensus       110 N~l~~lp~~---~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~~~---~~~~l~~L~L~~L~L~~n~l~~  183 (562)
T 3a79_B          110 NRLQNISCC---PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQL---DLLPVAHLHLSCILLDLVSYHI  183 (562)
T ss_dssp             SCCCEECSC---CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECSBCCTT---TTGGGTTSCEEEEEEEESSCCC
T ss_pred             CcCCccCcc---ccccCCEEECCCCCccccCchHhhcccCcccEEecCCCccccC---chhhhhhceeeEEEeecccccc
Confidence            999999976   6999999999999988764  7899999999999999998653   34455555  8888766311  


Q ss_pred             ---chhh-------------------------hcCCCCCCCeEEEecccc--cchhHHHHHccC----------------
Q 045113          625 ---CTKD-------------------------LLGRLPNLRNLRIQGDLS--YNQSLLSKSLCR----------------  658 (821)
Q Consensus       625 ---~~~~-------------------------~l~~l~~L~~L~l~~~~~--~~~~~l~~~l~~----------------  658 (821)
                         .+..                         .+..+++|+.|+++++..  .........+..                
T Consensus       184 ~~~~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~l~~~~~~l~~l~~L~~L~L~~~~l~~  263 (562)
T 3a79_B          184 KGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTW  263 (562)
T ss_dssp             CSSSCCEEEECCEEEEEEEECSSSCCCCCCEEEESSEEEEEEEEEECCSTTHHHHHHHHHHHHSCSSCEEEEEEEEEECH
T ss_pred             cccCcccccccCcceEEEEecCccchhhhhhhcccccceEEEecccccccccchHHHHHHHHhccCcceEEEecCCcCcH
Confidence               1111                         133566788888877520  001111112222                


Q ss_pred             -----------CCCcCEEEeecCC-----CC-------CC-----------------------------CCeeEecc---
Q 045113          659 -----------LSCLESLKLANES-----KM-------PR-----------------------------LSKIILAE---  683 (821)
Q Consensus       659 -----------~~~L~~L~l~~~~-----~~-------~~-----------------------------L~~l~l~~---  683 (821)
                                 ..+|+.|+++.+.     +.       ++                             ++.|.+.+   
T Consensus       264 ~~~~~~~~~~~~~~L~~L~l~~n~l~~~ip~~~~~~~~~~L~~L~~~~~~~~~~~~p~~~~~~~~~~~~L~~L~l~~n~~  343 (562)
T 3a79_B          264 KCSVKLFQFFWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPF  343 (562)
T ss_dssp             HHHHHHHHHHTTSSEEEEEEEEEEECSCCCCCCCCCCSCSCCEEEEEEEEECCCSSCHHHHHHHHHTCCCSEEEEESSCC
T ss_pred             HHHHHHHHhhhcccccEEEEeccEeeccccchhhhcccccchheehhhcccceeecChhhhhhhhccCcceEEEccCCCc
Confidence                       2366666666521     11       22                             34444433   


Q ss_pred             -----cCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCe-eeecCCCCcccceeeeccCCCccceeec-
Q 045113          684 -----YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRK-LTCGSDGFPRLKVLHLKSMLWLEEWTMG-  756 (821)
Q Consensus       684 -----~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~-~~~~~~~~~~L~~L~L~~~~~l~~~~~~-  756 (821)
                           ...+++|+.|++++|.+++..+..++++++|+.|++++|.+.+.. .+..+..+++|++|++++|.....++.. 
T Consensus       344 ~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~  423 (562)
T 3a79_B          344 IHMVCPPSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRT  423 (562)
T ss_dssp             CCCCCCSSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCC
T ss_pred             ccccCccCCCCceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccChhh
Confidence                 156788889999988888777788888888888888877776521 2233566777777777776432223322 


Q ss_pred             cccc----------------------cccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          757 TGAM----------------------PKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       757 ~~~l----------------------~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      +..+                      ++|+.|++++| .++.+|..+.++++|++|+++++.
T Consensus       424 ~~~l~~L~~L~l~~n~l~~~~~~~l~~~L~~L~L~~N-~l~~ip~~~~~l~~L~~L~L~~N~  484 (562)
T 3a79_B          424 CAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNN-RIMSIPKDVTHLQALQELNVASNQ  484 (562)
T ss_dssp             CCCCTTCCEEECCSSCCCGGGGSSCCTTCSEEECCSS-CCCCCCTTTTSSCCCSEEECCSSC
T ss_pred             hcCcccCCEEECCCCCCCcchhhhhcCcCCEEECCCC-cCcccChhhcCCCCCCEEECCCCC
Confidence            2222                      46777777766 355677777788888888888776

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=99.89  E-value=1.9e-23  Score=225.05  Aligned_cols=232  Identities=22%  Similarity=0.193  Sum_probs=192.1

Q ss_pred             cCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeec
Q 045113          516 MYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNF  595 (821)
Q Consensus       516 ~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L  595 (821)
                      ..+.++.|+|+++.++.+|..++++++|++|+|++|.+..+|..++ ++++|++|++++|.+..+|..+.++++|++|++
T Consensus        79 ~~~~l~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~l~~lp~~~~-~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L  157 (328)
T 4fcg_A           79 TQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQ-QFAGLETLTLARNPLRALPASIASLNRLRELSI  157 (328)
T ss_dssp             TSTTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGG-GGTTCSEEEEESCCCCCCCGGGGGCTTCCEEEE
T ss_pred             cccceeEEEccCCCchhcChhhhhCCCCCEEECCCCCccchhHHHh-ccCCCCEEECCCCccccCcHHHhcCcCCCEEEC
Confidence            4588999999999999999999999999999999999999999998 999999999999999999999999999999999


Q ss_pred             CCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCC
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPR  675 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~  675 (821)
                      ++|.+.+.+|..++...            .... +..+++|+.|++++|.   ...+|..                    
T Consensus       158 ~~n~~~~~~p~~~~~~~------------~~~~-~~~l~~L~~L~L~~n~---l~~lp~~--------------------  201 (328)
T 4fcg_A          158 RACPELTELPEPLASTD------------ASGE-HQGLVNLQSLRLEWTG---IRSLPAS--------------------  201 (328)
T ss_dssp             EEETTCCCCCSCSEEEC-------------CCC-EEESTTCCEEEEEEEC---CCCCCGG--------------------
T ss_pred             CCCCCccccChhHhhcc------------chhh-hccCCCCCEEECcCCC---cCcchHh--------------------
Confidence            99988888887654311            0111 5567778888887762   1122222                    


Q ss_pred             CCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceee
Q 045113          676 LSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTM  755 (821)
Q Consensus       676 L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~  755 (821)
                              +..+++|+.|+|++|.++ ..++.++.+++|+.|+|++|.+.+.. +..+..+++|++|+|++|.....+|.
T Consensus       202 --------l~~l~~L~~L~L~~N~l~-~l~~~l~~l~~L~~L~Ls~n~~~~~~-p~~~~~l~~L~~L~L~~n~~~~~~p~  271 (328)
T 4fcg_A          202 --------IANLQNLKSLKIRNSPLS-ALGPAIHHLPKLEELDLRGCTALRNY-PPIFGGRAPLKRLILKDCSNLLTLPL  271 (328)
T ss_dssp             --------GGGCTTCCEEEEESSCCC-CCCGGGGGCTTCCEEECTTCTTCCBC-CCCTTCCCCCCEEECTTCTTCCBCCT
T ss_pred             --------hcCCCCCCEEEccCCCCC-cCchhhccCCCCCEEECcCCcchhhh-HHHhcCCCCCCEEECCCCCchhhcch
Confidence                    345567777777788776 45667889999999999988877654 44577899999999999988888888


Q ss_pred             ccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeC
Q 045113          756 GTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWW  794 (821)
Q Consensus       756 ~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~  794 (821)
                      .++.+++|+.|++++|+.++.+|..+.++++|+.+.+..
T Consensus       272 ~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~l~l~~  310 (328)
T 4fcg_A          272 DIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPP  310 (328)
T ss_dssp             TGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCEEECCG
T ss_pred             hhhcCCCCCEEeCCCCCchhhccHHHhhccCceEEeCCH
Confidence            889999999999999999999999999999999998764

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.89  E-value=3.9e-23  Score=239.54  Aligned_cols=297  Identities=18%  Similarity=0.141  Sum_probs=228.2

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccHH-HHhccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLS-FFNYLL  565 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~-i~~~L~  565 (821)
                      -.++|++|.+.++....    ..+..|..+++|++|+|++|.++.++ ..++++++|++|++++|.+..+|.. ++ +++
T Consensus        24 ~~~~L~~L~Ls~n~l~~----~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~-~l~   98 (549)
T 2z81_A           24 LTAAMKSLDLSFNKITY----IGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFG-PLS   98 (549)
T ss_dssp             CCTTCCEEECCSSCCCE----ECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHT-TCT
T ss_pred             CCCCccEEECcCCccCc----cChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhc-cCC
Confidence            34789999999988653    44567899999999999999999665 6899999999999999999988876 77 999


Q ss_pred             cceEEecCCcccccc--hhhhccCccCceeecCCcccCCCCC-CCcCCCCCcceeccccC---CcchhhhcCCCCCCCeE
Q 045113          566 NLYTLDMPFSYIDHT--ADEFWKMKKLRHLNFGSITLPAHPG-NYCGSLENLNFISALYP---CCCTKDLLGRLPNLRNL  639 (821)
Q Consensus       566 ~L~~L~L~~~~l~~l--p~~i~~l~~L~~L~L~~~~~~~~~p-~~i~~l~~L~~L~~~~~---~~~~~~~l~~l~~L~~L  639 (821)
                      +|++|++++|.+..+  |..+.++++|++|++++|...+.+| ..++.+++|++|++..+   +..+.. ++.+++|+.|
T Consensus        99 ~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-l~~l~~L~~L  177 (549)
T 2z81_A           99 SLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQS-LKSIRDIHHL  177 (549)
T ss_dssp             TCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTT-TTTCSEEEEE
T ss_pred             CCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhh-hhccccCceE
Confidence            999999999988754  6789999999999999998556665 57999999999999884   245556 9999999999


Q ss_pred             EEecccccchhHHHHH-ccCCCCcCEEEeecCC-------------CCCCCCeeEecc--------------cCC-----
Q 045113          640 RIQGDLSYNQSLLSKS-LCRLSCLESLKLANES-------------KMPRLSKIILAE--------------YVF-----  686 (821)
Q Consensus       640 ~l~~~~~~~~~~l~~~-l~~~~~L~~L~l~~~~-------------~~~~L~~l~l~~--------------~~~-----  686 (821)
                      +++.+.   ...++.. +..+++|+.|+++.|.             .+++|+.+.+.+              ...     
T Consensus       178 ~l~~n~---~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~~~~~~~L~  254 (549)
T 2z81_A          178 TLHLSE---SAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELS  254 (549)
T ss_dssp             EEECSB---STTHHHHHHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEHHHHHHHHGGGGGCTTCC
T ss_pred             ecccCc---ccccchhhHhhcccccEEEccCCccccccccccchhhhhhcccceeccccccchhHHHHHHHHhhhhcccc
Confidence            999883   2334443 3568889999998742             133455554432              011     


Q ss_pred             ------------------------------------------------------CCCcceEEEecccCCCCCcccc-cCC
Q 045113          687 ------------------------------------------------------PHSLTHLSFSNTDLMDDPMPAL-EKL  711 (821)
Q Consensus       687 ------------------------------------------------------~~~L~~L~L~~~~l~~~~~~~l-~~l  711 (821)
                                                                            +++|+.|++++|.+. ..|..+ ..+
T Consensus       255 ~l~l~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~i~~~~~~~~l~~~~~~~~~L~~L~l~~n~l~-~ip~~~~~~l  333 (549)
T 2z81_A          255 EVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVF-LVPCSFSQHL  333 (549)
T ss_dssp             EEEEESCEEECCSCCCCCTTTCCCCCTTCCEEEEESCBCSCGGGSCCCCHHHHHSTTCCEEEEESSCCC-CCCHHHHHHC
T ss_pred             ccccccccccccccccccchhhhhhhcccccccccccccchhhhcccchhhhhhcccceEEEeccCccc-cCCHHHHhcC
Confidence                                                                  134556666666553 344444 578


Q ss_pred             CCCCEEEEeccccCCCee--eecCCCCcccceeeeccCCCcccee---eccccccccceeEEeecCCCCCCccccCCCCC
Q 045113          712 PLLQVLKLKQNSYSGRKL--TCGSDGFPRLKVLHLKSMLWLEEWT---MGTGAMPKLECLIINPCAYLKKMPEQLWCIKS  786 (821)
Q Consensus       712 ~~L~~L~L~~~~~~~~~~--~~~~~~~~~L~~L~L~~~~~l~~~~---~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~  786 (821)
                      ++|+.|++++|.+.+..+  ....+.+++|++|++++| .+..++   ..+..+++|+.|++++|. ++.+|..+..+++
T Consensus       334 ~~L~~L~Ls~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~lp~~~~~~~~  411 (549)
T 2z81_A          334 KSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQN-HLRSMQKTGEILLTLKNLTSLDISRNT-FHPMPDSCQWPEK  411 (549)
T ss_dssp             TTCCEEECCSSCCCHHHHHHHTCTTSSTTCCEEECTTS-CCCCHHHHHHHGGGCTTCCEEECTTCC-CCCCCSCCCCCTT
T ss_pred             ccccEEEccCCccccccccchhhhhccccCcEEEccCC-cccccccchhhhhcCCCCCEEECCCCC-CccCChhhccccc
Confidence            899999999888766432  122567899999999998 465554   236788999999999884 6688888888899


Q ss_pred             CCEEEEeCCc
Q 045113          787 LNNFNCWWPQ  796 (821)
Q Consensus       787 L~~L~l~~c~  796 (821)
                      |++|++++|.
T Consensus       412 L~~L~Ls~N~  421 (549)
T 2z81_A          412 MRFLNLSSTG  421 (549)
T ss_dssp             CCEEECTTSC
T ss_pred             ccEEECCCCC
Confidence            9999998886

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.89  E-value=1.3e-22  Score=230.85  Aligned_cols=269  Identities=18%  Similarity=0.135  Sum_probs=226.4

Q ss_pred             CceeEEEeCCCCCCcc-cccccCCCCceEEeecCCCCccc-cHHHHhccccceEEecCCcccccchhh-hccCccCceee
Q 045113          518 KLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNIPSLKSL-PLSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHLN  594 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~~~i~~l-p~~i~~~L~~L~~L~L~~~~l~~lp~~-i~~l~~L~~L~  594 (821)
                      +.+++|+|++|.++.+ |..+.++++|++|+|++|.+..+ |..+. ++++|++|+|++|.+..+|.. +.++++|++|+
T Consensus        32 ~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~-~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  110 (477)
T 2id5_A           32 TETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFN-NLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLD  110 (477)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTT-TCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEE
T ss_pred             CCCcEEECCCCccceECHhHccCCCCCCEEECCCCccCEeChhhhh-CCccCCEEECCCCcCCccCcccccCCCCCCEEE
Confidence            5899999999999976 46899999999999999999966 66777 999999999999999999764 68999999999


Q ss_pred             cCCcccCCCCCCCcCCCCCcceeccccC--Ccc-hhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCC
Q 045113          595 FGSITLPAHPGNYCGSLENLNFISALYP--CCC-TKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANES  671 (821)
Q Consensus       595 L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~-~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~  671 (821)
                      +++|.+....|..+..+++|++|++..|  ... +.. +..+++|+.|+++++.  .....+..+..+++|+.|+++.+ 
T Consensus       111 Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-~~~l~~L~~L~l~~n~--l~~~~~~~l~~l~~L~~L~l~~n-  186 (477)
T 2id5_A          111 ISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRA-FSGLNSLEQLTLEKCN--LTSIPTEALSHLHGLIVLRLRHL-  186 (477)
T ss_dssp             CTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTS-STTCTTCCEEEEESCC--CSSCCHHHHTTCTTCCEEEEESC-
T ss_pred             CCCCccccCChhHccccccCCEEECCCCccceeChhh-ccCCCCCCEEECCCCc--CcccChhHhcccCCCcEEeCCCC-
Confidence            9999998878888999999999999885  233 344 8999999999999983  33333456889999999999965 


Q ss_pred             CCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCcc
Q 045113          672 KMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLE  751 (821)
Q Consensus       672 ~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~  751 (821)
                         .+..+....+..+++|+.|++++|...+..++.....++|+.|+|++|.+.... ...+..+++|+.|+|++|. +.
T Consensus       187 ---~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~Ls~n~-l~  261 (477)
T 2id5_A          187 ---NINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVP-YLAVRHLVYLRFLNLSYNP-IS  261 (477)
T ss_dssp             ---CCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCSCC-HHHHTTCTTCCEEECCSSC-CC
T ss_pred             ---cCcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCcccccC-HHHhcCccccCeeECCCCc-CC
Confidence               566666556788999999999999877777777777789999999988877532 2345789999999999985 66


Q ss_pred             ceee-ccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          752 EWTM-GTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       752 ~~~~-~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      .++. .+..+++|+.|++++|......|..+..+++|+.|++++|.
T Consensus       262 ~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~  307 (477)
T 2id5_A          262 TIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQ  307 (477)
T ss_dssp             EECTTSCTTCTTCCEEECCSSCCSEECTTTBTTCTTCCEEECCSSC
T ss_pred             ccChhhccccccCCEEECCCCccceECHHHhcCcccCCEEECCCCc
Confidence            5543 47789999999999997655557789999999999999985

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.89  E-value=1.4e-22  Score=246.39  Aligned_cols=312  Identities=20%  Similarity=0.152  Sum_probs=216.6

Q ss_pred             CCCceeEEEEEcCCCccccc-C--CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCC
Q 045113          467 RKNVKRFFALEQQSDFAYLD-D--YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSL  542 (821)
Q Consensus       467 ~~~~~r~lsl~~~~~~~~~~-~--~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~  542 (821)
                      .+..+++|.+..+....... .  .+++|++|.+.++...   ..+.+..|.++++|++|+|++|.+..+ |..++++++
T Consensus        22 lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~---~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~   98 (844)
T 3j0a_A           22 VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTP---LTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFH   98 (844)
T ss_dssp             SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCC---CEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSS
T ss_pred             CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCc---cccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcc
Confidence            56789999999887655422 2  8999999999988543   224467789999999999999999855 788999999


Q ss_pred             ceEEeecCCCCcc-ccHH--HHhccccceEEecCCcccccc--hhhhccCccCceeecCCcccCCCCCCCcCCC--CCcc
Q 045113          543 LRYLKLNIPSLKS-LPLS--FFNYLLNLYTLDMPFSYIDHT--ADEFWKMKKLRHLNFGSITLPAHPGNYCGSL--ENLN  615 (821)
Q Consensus       543 Lr~L~L~~~~i~~-lp~~--i~~~L~~L~~L~L~~~~l~~l--p~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l--~~L~  615 (821)
                      |++|+|++|.+.. +|..  +. ++++|++|++++|.+..+  +..++++++|++|++++|.+.+..|..++.+  ++|+
T Consensus        99 L~~L~Ls~n~l~~~~~~~~~~~-~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l~~~~L~  177 (844)
T 3j0a_A           99 LFELRLYFCGLSDAVLKDGYFR-NLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLS  177 (844)
T ss_dssp             CCCEECTTCCCSSCCSTTCCCS-SCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGGGHHHHHCSSC
T ss_pred             cCEeeCcCCCCCcccccCcccc-ccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHHcccccCCccc
Confidence            9999999999884 5554  77 999999999999988776  3578999999999999999887777777776  7888


Q ss_pred             eeccccC---CcchhhhcCCCCC------CCeEEEecccccchhHHHHHcc---CC------------------------
Q 045113          616 FISALYP---CCCTKDLLGRLPN------LRNLRIQGDLSYNQSLLSKSLC---RL------------------------  659 (821)
Q Consensus       616 ~L~~~~~---~~~~~~~l~~l~~------L~~L~l~~~~~~~~~~l~~~l~---~~------------------------  659 (821)
                      .|++..+   +..+.. ++.+++      |+.|+++++.  .....+..+.   ..                        
T Consensus       178 ~L~L~~n~l~~~~~~~-~~~~~~~~~~~~L~~L~Ls~n~--l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~~  254 (844)
T 3j0a_A          178 FFSLAANSLYSRVSVD-WGKCMNPFRNMVLEILDVSGNG--WTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKD  254 (844)
T ss_dssp             CCEECCSBSCCCCCCC-CCSSSCTTTTCCBSEEBCSSCC--SSTTTTSGGGGTSCSCCBSEEECCSSCCBCSSSCSSSTT
T ss_pred             eEECCCCccccccccc-hhhcCCccccCceeEEecCCCc--CchhHHHHHHhhcCcccccceecccccccccccccccCC
Confidence            8888774   233333 555554      8888888773  2222221111   11                        


Q ss_pred             -----------CCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCe
Q 045113          660 -----------SCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRK  728 (821)
Q Consensus       660 -----------~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~  728 (821)
                                 ++|+.|+++.|    .+..+....+..+++|+.|+|++|.+.+..+..+..+++|++|+|++|.+.+..
T Consensus       255 ~~~~~f~~l~~~~L~~L~Ls~n----~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~  330 (844)
T 3j0a_A          255 PDQNTFAGLARSSVRHLDLSHG----FVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELY  330 (844)
T ss_dssp             GGGTTTTTTTTSCCCEEECTTC----CCCEECSCCSSSCCCCCEEEEESCCCCEECTTTTTTCSSCCEEEEESCCCSCCC
T ss_pred             CChhhhhccccCCccEEECCCC----cccccChhhhhcCCCCCEEECCCCcCCCCChHHhcCCCCCCEEECCCCCCCccC
Confidence                       34444444432    222222222566777778888877776666667777778888888777665432


Q ss_pred             eeecCCCCcccceeeeccCCCccceee-ccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          729 LTCGSDGFPRLKVLHLKSMLWLEEWTM-GTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       729 ~~~~~~~~~~L~~L~L~~~~~l~~~~~-~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                       +..+..+++|+.|++++| .+..++. .+..+++|+.|++++|. ++.++.    +++|+.|+++++.
T Consensus       331 -~~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~Ls~N~-l~~i~~----~~~L~~L~l~~N~  392 (844)
T 3j0a_A          331 -SSNFYGLPKVAYIDLQKN-HIAIIQDQTFKFLEKLQTLDLRDNA-LTTIHF----IPSIPDIFLSGNK  392 (844)
T ss_dssp             -SCSCSSCTTCCEEECCSC-CCCCCCSSCSCSCCCCCEEEEETCC-SCCCSS----CCSCSEEEEESCC
T ss_pred             -HHHhcCCCCCCEEECCCC-CCCccChhhhcCCCCCCEEECCCCC-CCcccC----CCCcchhccCCCC
Confidence             334566777777777776 3454433 35667777777777765 333332    5566666666554

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=99.89  E-value=7.5e-23  Score=243.50  Aligned_cols=321  Identities=17%  Similarity=0.126  Sum_probs=197.8

Q ss_pred             CCCceeEEEEEcCCCccccc--C-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccc-cccCCCC
Q 045113          467 RKNVKRFFALEQQSDFAYLD--D-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPS-EIENLSL  542 (821)
Q Consensus       467 ~~~~~r~lsl~~~~~~~~~~--~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~-~i~~l~~  542 (821)
                      .+..++++.+..+.......  . .+++|++|.+.++....    ..+..|..+++|++|+|++|.++.+|. .++++++
T Consensus        23 ~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~----~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~   98 (680)
T 1ziw_A           23 LPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISK----LEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTN   98 (680)
T ss_dssp             SCTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCC----CCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             cCCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCc----cCHHHHhcccCcCEEECCCCccCccChhhhccCCC
Confidence            45678899988876654433  2 78899999998877643    456778888999999999988888876 5888889


Q ss_pred             ceEEeecCCCCcccc-HHHHhccccceEEecCCcccccc-hhhhccCccCceeecCCcccCCCCCCCcC--CCCCcceec
Q 045113          543 LRYLKLNIPSLKSLP-LSFFNYLLNLYTLDMPFSYIDHT-ADEFWKMKKLRHLNFGSITLPAHPGNYCG--SLENLNFIS  618 (821)
Q Consensus       543 Lr~L~L~~~~i~~lp-~~i~~~L~~L~~L~L~~~~l~~l-p~~i~~l~~L~~L~L~~~~~~~~~p~~i~--~l~~L~~L~  618 (821)
                      |++|++++|.+..+| ..+. ++++|++|++++|.+..+ |..+.++++|++|++++|.+.+..+..++  .+++|+.|+
T Consensus        99 L~~L~L~~n~l~~~~~~~~~-~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~  177 (680)
T 1ziw_A           99 LTELHLMSNSIQKIKNNPFV-KQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLE  177 (680)
T ss_dssp             CSEEECCSSCCCCCCSCTTT-TCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHHHHGGGTTCEESEEE
T ss_pred             CCEEECCCCccCccChhHcc-ccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccccCHHHhhccccccccEEE
Confidence            999999988888776 4566 888888888888877665 45567788888888887776543333222  335566665


Q ss_pred             cccC---Ccchhh--------------------------------------------------hcCCCC--CCCeEEEec
Q 045113          619 ALYP---CCCTKD--------------------------------------------------LLGRLP--NLRNLRIQG  643 (821)
Q Consensus       619 ~~~~---~~~~~~--------------------------------------------------~l~~l~--~L~~L~l~~  643 (821)
                      +..+   +..+..                                                  .+..++  +|+.|++++
T Consensus       178 L~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l~~~~~~~~~~l~~~~L~~L~Ls~  257 (680)
T 1ziw_A          178 LSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSY  257 (680)
T ss_dssp             CTTCCCCCBCTTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTSCCCEECTTTTGGGGGSCCCEEECTT
T ss_pred             CCCCcccccChhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCCcccccChhHhhccCcCCCCEEECCC
Confidence            5542   111111                                                  022222  256666655


Q ss_pred             ccccchhHHHHHccCCCCcCEEEeecCC----------CCCCCCeeEec-------------------ccCCCCCcceEE
Q 045113          644 DLSYNQSLLSKSLCRLSCLESLKLANES----------KMPRLSKIILA-------------------EYVFPHSLTHLS  694 (821)
Q Consensus       644 ~~~~~~~~l~~~l~~~~~L~~L~l~~~~----------~~~~L~~l~l~-------------------~~~~~~~L~~L~  694 (821)
                      |.  .....+..+..+++|+.|+++.|.          .+++|+.+.+.                   .+..+++|+.|+
T Consensus       258 n~--l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~lp~i~~~~~~~l~~L~~L~  335 (680)
T 1ziw_A          258 NN--LNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLN  335 (680)
T ss_dssp             SC--CCEECTTTTTTCTTCCEEECCSCCBSEECTTTTTTCTTCCEEECTTCBCCC------CCEECTTTTTTCTTCCEEE
T ss_pred             CC--cCccCcccccCcccccEeeCCCCccCccChhhhcCCCCccEEeccchhhhcccccccccccChhhcccCCCCCEEE
Confidence            52  222223456667777777777641          34566666664                   245677888888


Q ss_pred             EecccCCCCCcccccCCCCCCEEEEeccccCCCeeeec-C--CCCcccceeeeccCCCccce-eeccccccccceeEEee
Q 045113          695 FSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCG-S--DGFPRLKVLHLKSMLWLEEW-TMGTGAMPKLECLIINP  770 (821)
Q Consensus       695 L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~-~--~~~~~L~~L~L~~~~~l~~~-~~~~~~l~~L~~L~i~~  770 (821)
                      +++|.+.+..+..+.++++|++|++++|.+....+... +  ...++|+.|++++|. +..+ +..+..+++|+.|++++
T Consensus       336 l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~~~~~~l~~~~f~~~~~~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~  414 (680)
T 1ziw_A          336 MEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNK-ISKIESDAFSWLGHLEVLDLGL  414 (680)
T ss_dssp             CCSCCBCCCCTTTTTTCTTCCEEECTTCBSCCCEECTTTTGGGTTSCCCEEECTTSC-CCEECTTTTTTCTTCCEEECCS
T ss_pred             CCCCccCCCChhHhccccCCcEEECCCCchhhhhcchhhhcccccCcCceEECCCCC-CCeEChhhhhCCCCCCEEeCCC
Confidence            88888877767778888888888887665433221110 0  011345555555442 2222 23344455555555555


Q ss_pred             cCCCCCCc-cccCCCCCCCEEEEeCC
Q 045113          771 CAYLKKMP-EQLWCIKSLNNFNCWWP  795 (821)
Q Consensus       771 c~~l~~lp-~~l~~l~~L~~L~l~~c  795 (821)
                      |.....+| ..+.++++|++|++++|
T Consensus       415 N~l~~~~~~~~~~~l~~L~~L~Ls~n  440 (680)
T 1ziw_A          415 NEIGQELTGQEWRGLENIFEIYLSYN  440 (680)
T ss_dssp             SCCEEECCSGGGTTCTTCCEEECCSC
T ss_pred             CcCccccCcccccCcccccEEecCCC
Confidence            54333333 23444444555544444

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.89  E-value=5.9e-23  Score=239.98  Aligned_cols=270  Identities=16%  Similarity=0.154  Sum_probs=226.2

Q ss_pred             cCCceeEEEeCCCCCCccccc-ccCCCCceEEeecCCCCccccH-HHHhccccceEEecCCcccccchh-hhccCccCce
Q 045113          516 MYKLLRVLDLGSLVLNQYPSE-IENLSLLRYLKLNIPSLKSLPL-SFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRH  592 (821)
Q Consensus       516 ~~~~Lr~L~L~~~~l~~lp~~-i~~l~~Lr~L~L~~~~i~~lp~-~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~  592 (821)
                      .++++++|+++++.+..+|.. +.++++|++|+|++|.+..+|. .+. .+++|++|+|++|.+..+|+ .++++++|++
T Consensus        49 ~l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~-~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  127 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFA-YAHTIQKLYMGFNAIRYLPPHVFQNVPLLTV  127 (597)
T ss_dssp             GGCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTT-TCTTCCEEECCSSCCCCCCTTTTTTCTTCCE
T ss_pred             cCCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCCCCCCCChHHhc-CCCCCCEEECCCCcCCCCCHHHHcCCCCCCE
Confidence            467899999999999988865 6789999999999999997775 777 99999999999999988865 5689999999


Q ss_pred             eecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecC
Q 045113          593 LNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANE  670 (821)
Q Consensus       593 L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~  670 (821)
                      |++++|.+....+..++.+++|++|++.+|  ...+...++.+++|+.|++++|.  ... +  .+..+++|+.|++++|
T Consensus       128 L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~--l~~-~--~~~~l~~L~~L~l~~n  202 (597)
T 3oja_B          128 LVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNR--LTH-V--DLSLIPSLFHANVSYN  202 (597)
T ss_dssp             EECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSC--CSB-C--CGGGCTTCSEEECCSS
T ss_pred             EEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCC--CCC-c--ChhhhhhhhhhhcccC
Confidence            999999996444444699999999999985  33333338999999999999984  211 1  3566889999999986


Q ss_pred             C-----CCCCCCeeEecc-------cCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcc
Q 045113          671 S-----KMPRLSKIILAE-------YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPR  738 (821)
Q Consensus       671 ~-----~~~~L~~l~l~~-------~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~  738 (821)
                      .     .+++|+.|.+++       ...+++|+.|+|++|.+++  +++++.+++|+.|+|++|.+.+. .+..+..+++
T Consensus       203 ~l~~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~--~~~l~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~  279 (597)
T 3oja_B          203 LLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTD--TAWLLNYPGLVEVDLSYNELEKI-MYHPFVKMQR  279 (597)
T ss_dssp             CCSEEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCC--CGGGGGCTTCSEEECCSSCCCEE-ESGGGTTCSS
T ss_pred             ccccccCCchhheeeccCCcccccccccCCCCCEEECCCCCCCC--ChhhccCCCCCEEECCCCccCCC-CHHHhcCccC
Confidence            4     566788888876       2345789999999999875  57899999999999998888764 3445778999


Q ss_pred             cceeeeccCCCccceeeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          739 LKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       739 L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      |+.|+|++| .+..++.....+|+|+.|++++|. +..+|..+..+++|+.|++++|+
T Consensus       280 L~~L~Ls~N-~l~~l~~~~~~l~~L~~L~Ls~N~-l~~i~~~~~~l~~L~~L~L~~N~  335 (597)
T 3oja_B          280 LERLYISNN-RLVALNLYGQPIPTLKVLDLSHNH-LLHVERNQPQFDRLENLYLDHNS  335 (597)
T ss_dssp             CCEEECTTS-CCCEEECSSSCCTTCCEEECCSSC-CCCCGGGHHHHTTCSEEECCSSC
T ss_pred             CCEEECCCC-CCCCCCcccccCCCCcEEECCCCC-CCccCcccccCCCCCEEECCCCC
Confidence            999999997 678888888889999999999996 55799889999999999999987

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.89  E-value=5e-23  Score=239.71  Aligned_cols=130  Identities=20%  Similarity=0.133  Sum_probs=114.1

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCcccc-HHHHhccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLP-LSFFNYLL  565 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp-~~i~~~L~  565 (821)
                      -.+++++|.+.++....    .....|..+++|++|+|++|.++.++ ..++++++|++|++++|.+..+| ..+. .++
T Consensus        26 l~~~l~~L~Ls~n~l~~----~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~-~l~  100 (570)
T 2z63_A           26 LPFSTKNLDLSFNPLRH----LGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFS-GLS  100 (570)
T ss_dssp             SCSSCCEEECCSCCCCE----ECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTT-TCT
T ss_pred             ccccccEEEccCCccCc----cChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCCcCCccCHhhhc-Ccc
Confidence            34679999999988753    44567899999999999999999765 57899999999999999999776 5677 999


Q ss_pred             cceEEecCCcccccchh-hhccCccCceeecCCcccCC-CCCCCcCCCCCcceeccccC
Q 045113          566 NLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSITLPA-HPGNYCGSLENLNFISALYP  622 (821)
Q Consensus       566 ~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~~~-~~p~~i~~l~~L~~L~~~~~  622 (821)
                      +|++|++++|.+..+|. .++++++|++|++++|.+.. .+|..++++++|++|++..+
T Consensus       101 ~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n  159 (570)
T 2z63_A          101 SLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN  159 (570)
T ss_dssp             TCCEEECTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTS
T ss_pred             ccccccccccccccCCCccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCC
Confidence            99999999999998876 68999999999999999866 57999999999999998874

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=99.88  E-value=1.8e-22  Score=240.21  Aligned_cols=301  Identities=18%  Similarity=0.144  Sum_probs=220.3

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCCceEEeecCCCCccccHH-HHhccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNIPSLKSLPLS-FFNYLL  565 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~~~i~~lp~~-i~~~L~  565 (821)
                      -.+++++|.+.++....    .+...|.++++|++|+|++|.++.+ |..++++++|++|++++|.+..+|.. +. +++
T Consensus        23 ~~~~l~~L~Ls~n~l~~----~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~-~l~   97 (680)
T 1ziw_A           23 LPTNITVLNLTHNQLRR----LPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFA-FCT   97 (680)
T ss_dssp             SCTTCSEEECCSSCCCC----CCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTT-TCT
T ss_pred             cCCCCcEEECCCCCCCC----cCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCccCccChhhhc-cCC
Confidence            34789999999987653    5667799999999999999999855 67789999999999999999999974 77 999


Q ss_pred             cceEEecCCcccccch-hhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC--Ccchhhhc--CCCCCCCeEE
Q 045113          566 NLYTLDMPFSYIDHTA-DEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLL--GRLPNLRNLR  640 (821)
Q Consensus       566 ~L~~L~L~~~~l~~lp-~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l--~~l~~L~~L~  640 (821)
                      +|++|++++|.+..+| ..++++++|++|++++|.+.+..|..++++++|++|++..+  ...+...+  ..+++|+.|+
T Consensus        98 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~  177 (680)
T 1ziw_A           98 NLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLE  177 (680)
T ss_dssp             TCSEEECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHHHHGGGTTCEESEEE
T ss_pred             CCCEEECCCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccccCHHHhhccccccccEEE
Confidence            9999999999998886 57899999999999999998888888999999999999884  22222213  3568999999


Q ss_pred             EecccccchhHHHHHccCCCCcCEEEeecCC-------------CCCCCCeeEecc----------cCCC--CCcceEEE
Q 045113          641 IQGDLSYNQSLLSKSLCRLSCLESLKLANES-------------KMPRLSKIILAE----------YVFP--HSLTHLSF  695 (821)
Q Consensus       641 l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~-------------~~~~L~~l~l~~----------~~~~--~~L~~L~L  695 (821)
                      ++++.  ..+..+..+..+.+|+.|++..+.             ..++|+.|.+.+          +..+  ++|+.|+|
T Consensus       178 L~~n~--l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l~~~~~~~~~~l~~~~L~~L~L  255 (680)
T 1ziw_A          178 LSSNQ--IKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDL  255 (680)
T ss_dssp             CTTCC--CCCBCTTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTSCCCEECTTTTGGGGGSCCCEEEC
T ss_pred             CCCCc--ccccChhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCCcccccChhHhhccCcCCCCEEEC
Confidence            99873  333334455556666666654321             124555555544          2233  34888888


Q ss_pred             ecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCcc-----ceee----cccccccccee
Q 045113          696 SNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLE-----EWTM----GTGAMPKLECL  766 (821)
Q Consensus       696 ~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~-----~~~~----~~~~l~~L~~L  766 (821)
                      ++|.+.+..+..++.+++|+.|++++|.+.+. .+..+.++++|+.|+++++..-.     .+|.    .+..+++|+.|
T Consensus       256 s~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L~L~~~~~~~~~~~~~lp~i~~~~~~~l~~L~~L  334 (680)
T 1ziw_A          256 SYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHL-FSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHL  334 (680)
T ss_dssp             TTSCCCEECTTTTTTCTTCCEEECCSCCBSEE-CTTTTTTCTTCCEEECTTCBCCC------CCEECTTTTTTCTTCCEE
T ss_pred             CCCCcCccCcccccCcccccEeeCCCCccCcc-ChhhhcCCCCccEEeccchhhhcccccccccccChhhcccCCCCCEE
Confidence            88887766667778888888888887766543 23345677788888887643211     2221    45567778888


Q ss_pred             EEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          767 IINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       767 ~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      ++++|......|..+.++++|++|++++|.
T Consensus       335 ~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~  364 (680)
T 1ziw_A          335 NMEDNDIPGIKSNMFTGLINLKYLSLSNSF  364 (680)
T ss_dssp             ECCSCCBCCCCTTTTTTCTTCCEEECTTCB
T ss_pred             ECCCCccCCCChhHhccccCCcEEECCCCc
Confidence            887776554445567777777777777664

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.88  E-value=7.7e-22  Score=222.07  Aligned_cols=289  Identities=17%  Similarity=0.091  Sum_probs=170.0

Q ss_pred             CceeEEEEEcCCCcccccC-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEe
Q 045113          469 NVKRFFALEQQSDFAYLDD-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLK  547 (821)
Q Consensus       469 ~~~r~lsl~~~~~~~~~~~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~  547 (821)
                      ..++++.+..+.....+.. .+++|++|.+.++....    . +  +..+++|++|++++|.++.+|  ++++++|++|+
T Consensus        42 ~~L~~L~Ls~n~l~~~~~l~~l~~L~~L~Ls~n~l~~----~-~--~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L~~L~  112 (457)
T 3bz5_A           42 ATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITT----L-D--LSQNTNLTYLACDSNKLTNLD--VTPLTKLTYLN  112 (457)
T ss_dssp             TTCCEEECCSSCCCCCTTGGGCTTCSEEECCSSCCSC----C-C--CTTCTTCSEEECCSSCCSCCC--CTTCTTCCEEE
T ss_pred             CCCCEEEccCCCcccChhhcccCCCCEEEccCCcCCe----E-c--cccCCCCCEEECcCCCCceee--cCCCCcCCEEE
Confidence            3455555555544333333 56666666666665442    1 1  556666666666666666554  66666666666


Q ss_pred             ecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCC-cch
Q 045113          548 LNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPC-CCT  626 (821)
Q Consensus       548 L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~-~~~  626 (821)
                      +++|.+..+|  +. .+++|++|++++|.+..+|  ++.+++|++|++++|...+.+  .++.+++|++|++..+. ..+
T Consensus       113 L~~N~l~~l~--~~-~l~~L~~L~l~~N~l~~l~--l~~l~~L~~L~l~~n~~~~~~--~~~~l~~L~~L~ls~n~l~~l  185 (457)
T 3bz5_A          113 CDTNKLTKLD--VS-QNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKL--DVTPQTQLTTLDCSFNKITEL  185 (457)
T ss_dssp             CCSSCCSCCC--CT-TCTTCCEEECTTSCCSCCC--CTTCTTCCEEECTTCSCCCCC--CCTTCTTCCEEECCSSCCCCC
T ss_pred             CCCCcCCeec--CC-CCCcCCEEECCCCccceec--cccCCcCCEEECCCCCccccc--ccccCCcCCEEECCCCcccee
Confidence            6666666654  45 6666666666666665553  556666666666666443444  25566666666666531 111


Q ss_pred             hhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcc
Q 045113          627 KDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMP  706 (821)
Q Consensus       627 ~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~  706 (821)
                       . ++.+++|+.|+++++.  .. .+  .+..+++|+.|+++.|    .+..+.   +..+++|+.|++++|.+++..+ 
T Consensus       186 -~-l~~l~~L~~L~l~~N~--l~-~~--~l~~l~~L~~L~Ls~N----~l~~ip---~~~l~~L~~L~l~~N~l~~~~~-  250 (457)
T 3bz5_A          186 -D-VSQNKLLNRLNCDTNN--IT-KL--DLNQNIQLTFLDCSSN----KLTEID---VTPLTQLTYFDCSVNPLTELDV-  250 (457)
T ss_dssp             -C-CTTCTTCCEEECCSSC--CS-CC--CCTTCTTCSEEECCSS----CCSCCC---CTTCTTCSEEECCSSCCSCCCC-
T ss_pred             -c-cccCCCCCEEECcCCc--CC-ee--ccccCCCCCEEECcCC----cccccC---ccccCCCCEEEeeCCcCCCcCH-
Confidence             2 5566666666666653  11 11  2556666666666644    344332   4567778888888887765433 


Q ss_pred             cccCCCCCCEE----------EEeccccCCCeeeecCCCCcccceeeeccCCCccceeec--------cccccccceeEE
Q 045113          707 ALEKLPLLQVL----------KLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMG--------TGAMPKLECLII  768 (821)
Q Consensus       707 ~l~~l~~L~~L----------~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~--------~~~l~~L~~L~i  768 (821)
                        +.+++|+.|          ++++|.+.+..   ..+.+++|+.|++++|+.+..++..        +..+++|+.|++
T Consensus       251 --~~l~~L~~L~l~~n~L~~L~l~~n~~~~~~---~~~~l~~L~~L~Ls~n~~l~~l~~~~~~L~~L~l~~~~~L~~L~L  325 (457)
T 3bz5_A          251 --STLSKLTTLHCIQTDLLEIDLTHNTQLIYF---QAEGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLVYLYL  325 (457)
T ss_dssp             --TTCTTCCEEECTTCCCSCCCCTTCTTCCEE---ECTTCTTCCCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEEC
T ss_pred             --HHCCCCCEEeccCCCCCEEECCCCccCCcc---cccccccCCEEECCCCcccceeccCCCcceEechhhcccCCEEEC
Confidence              344444444          34433333322   2456788888888888776666532        345566777777


Q ss_pred             eecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          769 NPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       769 ~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      ++|. ++.+|  +.++++|+.|+++++.
T Consensus       326 ~~N~-l~~l~--l~~l~~L~~L~l~~N~  350 (457)
T 3bz5_A          326 NNTE-LTELD--VSHNTKLKSLSCVNAH  350 (457)
T ss_dssp             TTCC-CSCCC--CTTCTTCSEEECCSSC
T ss_pred             CCCc-ccccc--cccCCcCcEEECCCCC
Confidence            7664 34453  7788899999888765

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.88  E-value=4.1e-22  Score=224.29  Aligned_cols=271  Identities=17%  Similarity=0.065  Sum_probs=219.3

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      .+++|++|.+.++....    . + .+..+++|++|+|++|.++.+|  ++.+++|++|++++|.+..+|  ++ .+++|
T Consensus        40 ~l~~L~~L~Ls~n~l~~----~-~-~l~~l~~L~~L~Ls~n~l~~~~--~~~l~~L~~L~Ls~N~l~~~~--~~-~l~~L  108 (457)
T 3bz5_A           40 QLATLTSLDCHNSSITD----M-T-GIEKLTGLTKLICTSNNITTLD--LSQNTNLTYLACDSNKLTNLD--VT-PLTKL  108 (457)
T ss_dssp             HHTTCCEEECCSSCCCC----C-T-TGGGCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSCCC--CT-TCTTC
T ss_pred             HcCCCCEEEccCCCccc----C-h-hhcccCCCCEEEccCCcCCeEc--cccCCCCCEEECcCCCCceee--cC-CCCcC
Confidence            68999999999987653    2 2 5789999999999999999886  899999999999999999886  77 99999


Q ss_pred             eEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEecccc
Q 045113          568 YTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQGDLS  646 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~~~~  646 (821)
                      ++|++++|.+..+|  ++.+++|++|++++|.+.+ ++  ++.+++|++|++..+ ...... ++.+++|+.|+++++. 
T Consensus       109 ~~L~L~~N~l~~l~--~~~l~~L~~L~l~~N~l~~-l~--l~~l~~L~~L~l~~n~~~~~~~-~~~l~~L~~L~ls~n~-  181 (457)
T 3bz5_A          109 TYLNCDTNKLTKLD--VSQNPLLTYLNCARNTLTE-ID--VSHNTQLTELDCHLNKKITKLD-VTPQTQLTTLDCSFNK-  181 (457)
T ss_dssp             CEEECCSSCCSCCC--CTTCTTCCEEECTTSCCSC-CC--CTTCTTCCEEECTTCSCCCCCC-CTTCTTCCEEECCSSC-
T ss_pred             CEEECCCCcCCeec--CCCCCcCCEEECCCCccce-ec--cccCCcCCEEECCCCCcccccc-cccCCcCCEEECCCCc-
Confidence            99999999998886  8899999999999999865 43  889999999999885 211124 8889999999999984 


Q ss_pred             cchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCC
Q 045113          647 YNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG  726 (821)
Q Consensus       647 ~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~  726 (821)
                        ...++  +..+++|+.|+++.|    .++.+.   +..+++|+.|++++|.+++ .|  ++.+++|+.|++++|.+.+
T Consensus       182 --l~~l~--l~~l~~L~~L~l~~N----~l~~~~---l~~l~~L~~L~Ls~N~l~~-ip--~~~l~~L~~L~l~~N~l~~  247 (457)
T 3bz5_A          182 --ITELD--VSQNKLLNRLNCDTN----NITKLD---LNQNIQLTFLDCSSNKLTE-ID--VTPLTQLTYFDCSVNPLTE  247 (457)
T ss_dssp             --CCCCC--CTTCTTCCEEECCSS----CCSCCC---CTTCTTCSEEECCSSCCSC-CC--CTTCTTCSEEECCSSCCSC
T ss_pred             --cceec--cccCCCCCEEECcCC----cCCeec---cccCCCCCEEECcCCcccc-cC--ccccCCCCEEEeeCCcCCC
Confidence              22233  788899999999865    455542   5678999999999999876 33  8899999999999998887


Q ss_pred             CeeeecCCCCcccc----------eeeeccCCCccceeeccccccccceeEEeecCCCCCCcc--------ccCCCCCCC
Q 045113          727 RKLTCGSDGFPRLK----------VLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPE--------QLWCIKSLN  788 (821)
Q Consensus       727 ~~~~~~~~~~~~L~----------~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~--------~l~~l~~L~  788 (821)
                      ..    .+.+++|+          .|++++|+.+..+|  .+.+++|+.|++++|+.++.+|.        .+.++++|+
T Consensus       248 ~~----~~~l~~L~~L~l~~n~L~~L~l~~n~~~~~~~--~~~l~~L~~L~Ls~n~~l~~l~~~~~~L~~L~l~~~~~L~  321 (457)
T 3bz5_A          248 LD----VSTLSKLTTLHCIQTDLLEIDLTHNTQLIYFQ--AEGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLV  321 (457)
T ss_dssp             CC----CTTCTTCCEEECTTCCCSCCCCTTCTTCCEEE--CTTCTTCCCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCC
T ss_pred             cC----HHHCCCCCEEeccCCCCCEEECCCCccCCccc--ccccccCCEEECCCCcccceeccCCCcceEechhhcccCC
Confidence            43    34555554          55566665555555  46789999999999988777664        245667788


Q ss_pred             EEEEeCCc
Q 045113          789 NFNCWWPQ  796 (821)
Q Consensus       789 ~L~l~~c~  796 (821)
                      +|+++++.
T Consensus       322 ~L~L~~N~  329 (457)
T 3bz5_A          322 YLYLNNTE  329 (457)
T ss_dssp             EEECTTCC
T ss_pred             EEECCCCc
Confidence            88777765

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.88  E-value=2.2e-23  Score=223.01  Aligned_cols=243  Identities=19%  Similarity=0.149  Sum_probs=133.1

Q ss_pred             CceeEEEeCCCCCC---cccccccCCCCceEEeecC-CCCc-cccHHHHhccccceEEecCCcccc-cchhhhccCccCc
Q 045113          518 KLLRVLDLGSLVLN---QYPSEIENLSLLRYLKLNI-PSLK-SLPLSFFNYLLNLYTLDMPFSYID-HTADEFWKMKKLR  591 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~---~lp~~i~~l~~Lr~L~L~~-~~i~-~lp~~i~~~L~~L~~L~L~~~~l~-~lp~~i~~l~~L~  591 (821)
                      ..++.|+|+++.++   .+|..++++++|++|++++ |.+. .+|..+. ++++|++|++++|.+. .+|..+.++++|+
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~-~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~  128 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIA-KLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGG-GCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChhHh-cCCCCCEEECcCCeeCCcCCHHHhCCCCCC
Confidence            35666666666665   4666666777777777763 5554 5666666 6777777777766665 5566666677777


Q ss_pred             eeecCCcccCCCCCCCcCCCCCcceeccccC---CcchhhhcCCCC-CCCeEEEecccccchhHHHHHccCCCCcCEEEe
Q 045113          592 HLNFGSITLPAHPGNYCGSLENLNFISALYP---CCCTKDLLGRLP-NLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKL  667 (821)
Q Consensus       592 ~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~---~~~~~~~l~~l~-~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l  667 (821)
                      +|++++|.+.+.+|..++.+++|++|++..|   +..+.. +..++ +|+.|+++++  ...+.+|..+..++ |+.|++
T Consensus       129 ~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~-l~~l~~~L~~L~L~~N--~l~~~~~~~~~~l~-L~~L~L  204 (313)
T 1ogq_A          129 TLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS-YGSFSKLFTSMTISRN--RLTGKIPPTFANLN-LAFVDL  204 (313)
T ss_dssp             EEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGCCCTTCCEEECCSS--EEEEECCGGGGGCC-CSEEEC
T ss_pred             EEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHH-HhhhhhcCcEEECcCC--eeeccCChHHhCCc-ccEEEC
Confidence            7777777666566666666666666665553   133344 66665 7777777776  23333444444443 555555


Q ss_pred             ecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccC
Q 045113          668 ANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSM  747 (821)
Q Consensus       668 ~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~  747 (821)
                      +                            +|.+.+..+..++.+++|+.|+|++|.+.+....  ...+++|++|++++|
T Consensus       205 s----------------------------~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~--~~~l~~L~~L~Ls~N  254 (313)
T 1ogq_A          205 S----------------------------RNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGK--VGLSKNLNGLDLRNN  254 (313)
T ss_dssp             C----------------------------SSEEEECCGGGCCTTSCCSEEECCSSEECCBGGG--CCCCTTCCEEECCSS
T ss_pred             c----------------------------CCcccCcCCHHHhcCCCCCEEECCCCceeeecCc--ccccCCCCEEECcCC
Confidence            4                            4444444444444555555555554444332211  233445555555554


Q ss_pred             CCccceeeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          748 LWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       748 ~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      .....+|..+..+++|+.|++++|.....+|.. .++++|+.++++++|
T Consensus       255 ~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~-~~l~~L~~l~l~~N~  302 (313)
T 1ogq_A          255 RIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG-GNLQRFDVSAYANNK  302 (313)
T ss_dssp             CCEECCCGGGGGCTTCCEEECCSSEEEEECCCS-TTGGGSCGGGTCSSS
T ss_pred             cccCcCChHHhcCcCCCEEECcCCcccccCCCC-ccccccChHHhcCCC
Confidence            322234444444555555555555433344433 444555555544443

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=99.88  E-value=2e-22  Score=217.53  Aligned_cols=262  Identities=15%  Similarity=0.140  Sum_probs=156.3

Q ss_pred             CceeEEEeCCCCCCcccc-cccCCCCceEEeecCCCCccc-cHHHHhccccceEEecCCcccccchhhhccCccCceeec
Q 045113          518 KLLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLKSL-PLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNF  595 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~i~~l-p~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L  595 (821)
                      +.|++|+|++|.++.+|. .++++++|++|++++|.+..+ |..+. .+++|++|++++|.+..+|..+.  ++|++|++
T Consensus        52 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~-~l~~L~~L~Ls~n~l~~l~~~~~--~~L~~L~l  128 (330)
T 1xku_A           52 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFA-PLVKLERLYLSKNQLKELPEKMP--KTLQELRV  128 (330)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTT-TCTTCCEEECCSSCCSBCCSSCC--TTCCEEEC
T ss_pred             CCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhc-CCCCCCEEECCCCcCCccChhhc--ccccEEEC
Confidence            456666666666665543 466666666666666666644 44555 66666666666666666655443  56666666


Q ss_pred             CCcccCCCCCCCcCCCCCcceeccccCC-----cchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecC
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALYPC-----CCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANE  670 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~~~-----~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~  670 (821)
                      ++|.+....+..++.+++|++|++..+.     ..+.. +..+++|+.|+++++.   ...+|..+  .++|+.|++++|
T Consensus       129 ~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~-~~~l~~L~~L~l~~n~---l~~l~~~~--~~~L~~L~l~~n  202 (330)
T 1xku_A          129 HENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGA-FQGMKKLSYIRIADTN---ITTIPQGL--PPSLTELHLDGN  202 (330)
T ss_dssp             CSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTG-GGGCTTCCEEECCSSC---CCSCCSSC--CTTCSEEECTTS
T ss_pred             CCCcccccCHhHhcCCccccEEECCCCcCCccCcChhh-ccCCCCcCEEECCCCc---cccCCccc--cccCCEEECCCC
Confidence            6666644444445666666666665531     22223 5666677777776652   11222222  256777777644


Q ss_pred             CCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCc
Q 045113          671 SKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWL  750 (821)
Q Consensus       671 ~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l  750 (821)
                          .+..+....+..+++|+.|+|++|.+.+..+..+..+++|+.|+|++|.+..  ++.....+++|++|++++| .+
T Consensus       203 ----~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~--lp~~l~~l~~L~~L~l~~N-~i  275 (330)
T 1xku_A          203 ----KITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVK--VPGGLADHKYIQVVYLHNN-NI  275 (330)
T ss_dssp             ----CCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCSS--CCTTTTTCSSCCEEECCSS-CC
T ss_pred             ----cCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCCcCcc--CChhhccCCCcCEEECCCC-cC
Confidence                4555544556667777777777777766555567777777777777776653  3334566777777777776 35


Q ss_pred             cceeec-c------ccccccceeEEeecCCCC--CCccccCCCCCCCEEEEeCC
Q 045113          751 EEWTMG-T------GAMPKLECLIINPCAYLK--KMPEQLWCIKSLNNFNCWWP  795 (821)
Q Consensus       751 ~~~~~~-~------~~l~~L~~L~i~~c~~l~--~lp~~l~~l~~L~~L~l~~c  795 (821)
                      ..++.. +      ...+.|+.|++.+|+...  ..|..+..+++|+.++++++
T Consensus       276 ~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~~~~i~~~~f~~~~~l~~l~L~~N  329 (330)
T 1xku_A          276 SAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLGNY  329 (330)
T ss_dssp             CCCCTTSSSCSSCCTTSCCCSEEECCSSSSCGGGSCGGGGTTCCCGGGEEC---
T ss_pred             CccChhhcCCcccccccccccceEeecCcccccccCccccccccceeEEEeccc
Confidence            544322 1      124677778888777532  33556777778888877664

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.88  E-value=3.3e-22  Score=243.13  Aligned_cols=298  Identities=21%  Similarity=0.224  Sum_probs=231.8

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCC-Ccc-cccccCCCCceEEeecCCCCccc-cHHHHhcc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVL-NQY-PSEIENLSLLRYLKLNIPSLKSL-PLSFFNYL  564 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l-~~l-p~~i~~l~~Lr~L~L~~~~i~~l-p~~i~~~L  564 (821)
                      ..+++++|.++++....    ..+..|..+++|++|+|++|.. ..+ |..++++++|++|+|++|.+..+ |..+. ++
T Consensus        22 lp~~l~~LdLs~N~i~~----i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~-~l   96 (844)
T 3j0a_A           22 VLNTTERLLLSFNYIRT----VTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQ-GL   96 (844)
T ss_dssp             SCTTCCEEEEESCCCCE----ECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSC-SC
T ss_pred             CCCCcCEEECCCCcCCc----cChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhHcc-CC
Confidence            56789999999887753    4556789999999999999964 456 67899999999999999999865 67777 99


Q ss_pred             ccceEEecCCccccc-chhh--hccCccCceeecCCcccCCCCC-CCcCCCCCcceeccccC---CcchhhhcCCC--CC
Q 045113          565 LNLYTLDMPFSYIDH-TADE--FWKMKKLRHLNFGSITLPAHPG-NYCGSLENLNFISALYP---CCCTKDLLGRL--PN  635 (821)
Q Consensus       565 ~~L~~L~L~~~~l~~-lp~~--i~~l~~L~~L~L~~~~~~~~~p-~~i~~l~~L~~L~~~~~---~~~~~~~l~~l--~~  635 (821)
                      ++|++|+|++|.+.. +|..  +.++++|++|++++|.+.+..+ ..++++++|++|++..|   ...+.. +..+  ++
T Consensus        97 ~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~-l~~l~~~~  175 (844)
T 3j0a_A           97 FHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHE-LEPLQGKT  175 (844)
T ss_dssp             SSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGG-GHHHHHCS
T ss_pred             cccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHH-cccccCCc
Confidence            999999999998765 4554  8899999999999999866544 56899999999998884   233344 5555  78


Q ss_pred             CCeEEEecccccchhHHHHHccCCC------CcCEEEeecCC-------------CCCCCCeeEecc-------------
Q 045113          636 LRNLRIQGDLSYNQSLLSKSLCRLS------CLESLKLANES-------------KMPRLSKIILAE-------------  683 (821)
Q Consensus       636 L~~L~l~~~~~~~~~~l~~~l~~~~------~L~~L~l~~~~-------------~~~~L~~l~l~~-------------  683 (821)
                      |+.|+++++.  .....+..+..+.      .|+.|++++|.             ....+..+.+..             
T Consensus       176 L~~L~L~~n~--l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~  253 (844)
T 3j0a_A          176 LSFFSLAANS--LYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIK  253 (844)
T ss_dssp             SCCCEECCSB--SCCCCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBCSSSCSSST
T ss_pred             cceEECCCCc--cccccccchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccccccccccccC
Confidence            9999999883  3333333444443      39999998751             224455555431             


Q ss_pred             ------cCC--CCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce-e
Q 045113          684 ------YVF--PHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW-T  754 (821)
Q Consensus       684 ------~~~--~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~-~  754 (821)
                            +..  +++|+.|+|++|.+....+..++.+++|+.|+|++|.+.+.. +..+.++++|++|+|++|. +..+ +
T Consensus       254 ~~~~~~f~~l~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~-~~~~~~l~~L~~L~Ls~N~-l~~~~~  331 (844)
T 3j0a_A          254 DPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIA-DEAFYGLDNLQVLNLSYNL-LGELYS  331 (844)
T ss_dssp             TGGGTTTTTTTTSCCCEEECTTCCCCEECSCCSSSCCCCCEEEEESCCCCEEC-TTTTTTCSSCCEEEEESCC-CSCCCS
T ss_pred             CCChhhhhccccCCccEEECCCCcccccChhhhhcCCCCCEEECCCCcCCCCC-hHHhcCCCCCCEEECCCCC-CCccCH
Confidence                  111  378999999999988777888999999999999988876532 3346789999999999985 5544 6


Q ss_pred             eccccccccceeEEeecCCCCCC-ccccCCCCCCCEEEEeCCc
Q 045113          755 MGTGAMPKLECLIINPCAYLKKM-PEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       755 ~~~~~l~~L~~L~i~~c~~l~~l-p~~l~~l~~L~~L~l~~c~  796 (821)
                      ..+..+++|+.|++++|.. ..+ |..+.++++|+.|++++|.
T Consensus       332 ~~~~~l~~L~~L~L~~N~i-~~~~~~~~~~l~~L~~L~Ls~N~  373 (844)
T 3j0a_A          332 SNFYGLPKVAYIDLQKNHI-AIIQDQTFKFLEKLQTLDLRDNA  373 (844)
T ss_dssp             CSCSSCTTCCEEECCSCCC-CCCCSSCSCSCCCCCEEEEETCC
T ss_pred             HHhcCCCCCCEEECCCCCC-CccChhhhcCCCCCCEEECCCCC
Confidence            6788999999999999964 445 4468899999999999987

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.88  E-value=1.2e-22  Score=219.55  Aligned_cols=282  Identities=17%  Similarity=0.142  Sum_probs=187.7

Q ss_pred             CceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccc-cHHHHhccccce
Q 045113          491 HLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSL-PLSFFNYLLNLY  568 (821)
Q Consensus       491 ~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~l-p~~i~~~L~~L~  568 (821)
                      +++.+.+.++....    ++..+   .+.|++|+|++|.++.++ ..++++++|++|++++|.+..+ |..+. ++++|+
T Consensus        34 ~l~~l~~~~~~l~~----ip~~~---~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~-~l~~L~  105 (332)
T 2ft3_A           34 HLRVVQCSDLGLKA----VPKEI---SPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFS-PLRKLQ  105 (332)
T ss_dssp             ETTEEECCSSCCSS----CCSCC---CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGST-TCTTCC
T ss_pred             cCCEEECCCCCccc----cCCCC---CCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhh-CcCCCC
Confidence            46666666555432    22111   256777777777776553 4677777777777777777755 45565 777777


Q ss_pred             EEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCC-----cchhhhcCCCCCCCeEEEec
Q 045113          569 TLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPC-----CCTKDLLGRLPNLRNLRIQG  643 (821)
Q Consensus       569 ~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~-----~~~~~~l~~l~~L~~L~l~~  643 (821)
                      +|++++|.+..+|..+.  ++|++|++++|.+....+..++.+++|++|++..+.     ..+.. +..+ +|+.|++++
T Consensus       106 ~L~L~~n~l~~l~~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~-~~~l-~L~~L~l~~  181 (332)
T 2ft3_A          106 KLYISKNHLVEIPPNLP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGA-FDGL-KLNYLRISE  181 (332)
T ss_dssp             EEECCSSCCCSCCSSCC--TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTS-SCSC-CCSCCBCCS
T ss_pred             EEECCCCcCCccCcccc--ccCCEEECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCccc-ccCC-ccCEEECcC
Confidence            77777777777766554  677777777777754434446777777777776631     22233 5555 777777777


Q ss_pred             ccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccc
Q 045113          644 DLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNS  723 (821)
Q Consensus       644 ~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~  723 (821)
                      +.   ...+|..+.  ++|+.|++++|    .+..+....+..+++|+.|+|++|.+.+..+..++.+++|+.|+|++|.
T Consensus       182 n~---l~~l~~~~~--~~L~~L~l~~n----~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  252 (332)
T 2ft3_A          182 AK---LTGIPKDLP--ETLNELHLDHN----KIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNK  252 (332)
T ss_dssp             SB---CSSCCSSSC--SSCSCCBCCSS----CCCCCCTTSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSSC
T ss_pred             CC---CCccCcccc--CCCCEEECCCC----cCCccCHHHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCCc
Confidence            63   222333322  57888888754    4555554556778899999999998887777788899999999999887


Q ss_pred             cCCCeeeecCCCCcccceeeeccCCCccceeec-cc------cccccceeEEeecCCC--CCCccccCCCCCCCEEEEeC
Q 045113          724 YSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMG-TG------AMPKLECLIINPCAYL--KKMPEQLWCIKSLNNFNCWW  794 (821)
Q Consensus       724 ~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~-~~------~l~~L~~L~i~~c~~l--~~lp~~l~~l~~L~~L~l~~  794 (821)
                      +..  ++.....+++|+.|++++| .+..++.. +.      .+++|+.|++.+|+..  ...|..+..+++|+.|++++
T Consensus       253 l~~--lp~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L~~l~l~~  329 (332)
T 2ft3_A          253 LSR--VPAGLPDLKLLQVVYLHTN-NITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQFGN  329 (332)
T ss_dssp             CCB--CCTTGGGCTTCCEEECCSS-CCCBCCTTSSSCSSCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBCCSTTEEC--
T ss_pred             Cee--cChhhhcCccCCEEECCCC-CCCccChhHccccccccccccccceEeecCcccccccCcccccccchhhhhhccc
Confidence            763  3344667889999999987 46655432 21      2578999999999865  34566788899999999988


Q ss_pred             Cc
Q 045113          795 PQ  796 (821)
Q Consensus       795 c~  796 (821)
                      +.
T Consensus       330 n~  331 (332)
T 2ft3_A          330 YK  331 (332)
T ss_dssp             --
T ss_pred             cc
Confidence            75

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.87  E-value=6.7e-23  Score=219.29  Aligned_cols=245  Identities=16%  Similarity=0.165  Sum_probs=175.6

Q ss_pred             CCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCC-CCCC-cccccccCCCCceEEeecCCCCc-cccHHHHhcccc
Q 045113          490 PHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGS-LVLN-QYPSEIENLSLLRYLKLNIPSLK-SLPLSFFNYLLN  566 (821)
Q Consensus       490 ~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~-~~l~-~lp~~i~~l~~Lr~L~L~~~~i~-~lp~~i~~~L~~  566 (821)
                      .+++.|.+.++....  ....+..|..+++|++|+|++ +.+. .+|..++++++|++|++++|.+. .+|..+. ++++
T Consensus        50 ~~l~~L~L~~~~l~~--~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~-~l~~  126 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPK--PYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLS-QIKT  126 (313)
T ss_dssp             CCEEEEEEECCCCSS--CEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGG-GCTT
T ss_pred             ceEEEEECCCCCccC--CcccChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHh-CCCC
Confidence            577888887776541  002345788899999999995 7766 78888999999999999999988 8888888 9999


Q ss_pred             ceEEecCCcccc-cchhhhccCccCceeecCCcccCCCCCCCcCCCC-CcceeccccC---CcchhhhcCCCCCCCeEEE
Q 045113          567 LYTLDMPFSYID-HTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLE-NLNFISALYP---CCCTKDLLGRLPNLRNLRI  641 (821)
Q Consensus       567 L~~L~L~~~~l~-~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~-~L~~L~~~~~---~~~~~~~l~~l~~L~~L~l  641 (821)
                      |++|++++|.+. .+|..+..+++|++|++++|.+.+.+|..++.++ +|++|++..|   +..+.. +..++ |+.|++
T Consensus       127 L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~-~~~l~-L~~L~L  204 (313)
T 1ogq_A          127 LVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPT-FANLN-LAFVDL  204 (313)
T ss_dssp             CCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGG-GGGCC-CSEEEC
T ss_pred             CCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChH-HhCCc-ccEEEC
Confidence            999999999877 6788899999999999999999878898898888 8999998885   345555 77776 999999


Q ss_pred             ecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEec
Q 045113          642 QGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQ  721 (821)
Q Consensus       642 ~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~  721 (821)
                      +++  ...+..+..+..+++|+.|+++.|    .+... +..+..+++|+.|+|++|.+++..|..+..+++|+.|+|++
T Consensus       205 s~N--~l~~~~~~~~~~l~~L~~L~L~~N----~l~~~-~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~  277 (313)
T 1ogq_A          205 SRN--MLEGDASVLFGSDKNTQKIHLAKN----SLAFD-LGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSF  277 (313)
T ss_dssp             CSS--EEEECCGGGCCTTSCCSEEECCSS----EECCB-GGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCS
T ss_pred             cCC--cccCcCCHHHhcCCCCCEEECCCC----ceeee-cCcccccCCCCEEECcCCcccCcCChHHhcCcCCCEEECcC
Confidence            988  344445566667777777777643    22211 11134456666666666666555566666666666666666


Q ss_pred             cccCCCeeeecCCCCcccceeeeccCC
Q 045113          722 NSYSGRKLTCGSDGFPRLKVLHLKSML  748 (821)
Q Consensus       722 ~~~~~~~~~~~~~~~~~L~~L~L~~~~  748 (821)
                      |.+.+..+.  ...+++|+.|++.+|+
T Consensus       278 N~l~~~ip~--~~~l~~L~~l~l~~N~  302 (313)
T 1ogq_A          278 NNLCGEIPQ--GGNLQRFDVSAYANNK  302 (313)
T ss_dssp             SEEEEECCC--STTGGGSCGGGTCSSS
T ss_pred             CcccccCCC--CccccccChHHhcCCC
Confidence            655543322  1445555555555554

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.86  E-value=7.5e-22  Score=213.22  Aligned_cols=284  Identities=17%  Similarity=0.122  Sum_probs=218.2

Q ss_pred             eeEEEEEcCCCcccccCCCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCCceEEeec
Q 045113          471 KRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLN  549 (821)
Q Consensus       471 ~r~lsl~~~~~~~~~~~~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~  549 (821)
                      .+.+.+........+..-.+++++|.+.++....    ..+..|..+++|++|+|++|.++.+ |..++++++|++|+++
T Consensus        35 l~~l~~~~~~l~~ip~~~~~~l~~L~l~~n~i~~----~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~  110 (332)
T 2ft3_A           35 LRVVQCSDLGLKAVPKEISPDTTLLDLQNNDISE----LRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYIS  110 (332)
T ss_dssp             TTEEECCSSCCSSCCSCCCTTCCEEECCSSCCCE----ECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECC
T ss_pred             CCEEECCCCCccccCCCCCCCCeEEECCCCcCCc----cCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECC
Confidence            4555555554444433345799999999887653    4556789999999999999999966 7789999999999999


Q ss_pred             CCCCccccHHHHhccccceEEecCCcccccchh-hhccCccCceeecCCcccCC--CCCCCcCCCCCcceeccccC--Cc
Q 045113          550 IPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSITLPA--HPGNYCGSLENLNFISALYP--CC  624 (821)
Q Consensus       550 ~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~~~--~~p~~i~~l~~L~~L~~~~~--~~  624 (821)
                      +|.+..+|..+.   ++|++|++++|.+..+|. .+.++++|++|++++|.+..  ..|..+..+ +|+.|++..+  ..
T Consensus       111 ~n~l~~l~~~~~---~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~  186 (332)
T 2ft3_A          111 KNHLVEIPPNLP---SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLTG  186 (332)
T ss_dssp             SSCCCSCCSSCC---TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSS
T ss_pred             CCcCCccCcccc---ccCCEEECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCCCCc
Confidence            999999997764   799999999999998876 48899999999999999853  566777777 9999998884  33


Q ss_pred             chhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCC
Q 045113          625 CTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDP  704 (821)
Q Consensus       625 ~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~  704 (821)
                      .+.. +.  ++|+.|+++++.  .....+..+..+++|+.|++++|    .+..+....+..+++|+.|+|++|.++ ..
T Consensus       187 l~~~-~~--~~L~~L~l~~n~--i~~~~~~~l~~l~~L~~L~L~~N----~l~~~~~~~~~~l~~L~~L~L~~N~l~-~l  256 (332)
T 2ft3_A          187 IPKD-LP--ETLNELHLDHNK--IQAIELEDLLRYSKLYRLGLGHN----QIRMIENGSLSFLPTLRELHLDNNKLS-RV  256 (332)
T ss_dssp             CCSS-SC--SSCSCCBCCSSC--CCCCCTTSSTTCTTCSCCBCCSS----CCCCCCTTGGGGCTTCCEEECCSSCCC-BC
T ss_pred             cCcc-cc--CCCCEEECCCCc--CCccCHHHhcCCCCCCEEECCCC----cCCcCChhHhhCCCCCCEEECCCCcCe-ec
Confidence            4433 33  789999999983  33333457888999999999865    566555445678899999999999987 67


Q ss_pred             cccccCCCCCCEEEEeccccCCCeeeec-----CCCCcccceeeeccCCCc--cceeeccccccccceeEEeecC
Q 045113          705 MPALEKLPLLQVLKLKQNSYSGRKLTCG-----SDGFPRLKVLHLKSMLWL--EEWTMGTGAMPKLECLIINPCA  772 (821)
Q Consensus       705 ~~~l~~l~~L~~L~L~~~~~~~~~~~~~-----~~~~~~L~~L~L~~~~~l--~~~~~~~~~l~~L~~L~i~~c~  772 (821)
                      |..+..+++|+.|++++|.+.+......     ...+++|+.|++.+|+..  ...+..+..+++|+.|++++|.
T Consensus       257 p~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L~~l~l~~n~  331 (332)
T 2ft3_A          257 PAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQFGNYK  331 (332)
T ss_dssp             CTTGGGCTTCCEEECCSSCCCBCCTTSSSCSSCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBCCSTTEEC----
T ss_pred             ChhhhcCccCCEEECCCCCCCccChhHccccccccccccccceEeecCcccccccCcccccccchhhhhhccccc
Confidence            7789999999999999988765432111     122678999999999743  2234457789999999999885

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=99.86  E-value=2.1e-21  Score=209.59  Aligned_cols=264  Identities=18%  Similarity=0.180  Sum_probs=214.2

Q ss_pred             CCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccH-HHHhccccceEEecCCcccccc-hhhhccCccCceee
Q 045113          517 YKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPL-SFFNYLLNLYTLDMPFSYIDHT-ADEFWKMKKLRHLN  594 (821)
Q Consensus       517 ~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~-~i~~~L~~L~~L~L~~~~l~~l-p~~i~~l~~L~~L~  594 (821)
                      ..++++++++++.++.+|..+.  ++|++|++++|.+..+|. .+. ++++|++|++++|.+..+ |..+.++++|++|+
T Consensus        30 ~c~l~~l~~~~~~l~~lp~~~~--~~l~~L~L~~n~i~~~~~~~~~-~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  106 (330)
T 1xku_A           30 QCHLRVVQCSDLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFK-NLKNLHTLILINNKISKISPGAFAPLVKLERLY  106 (330)
T ss_dssp             EEETTEEECTTSCCCSCCCSCC--TTCCEEECCSSCCCCBCTTTTT-TCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEE
T ss_pred             cCCCeEEEecCCCccccCccCC--CCCeEEECCCCcCCEeChhhhc-cCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEE
Confidence            3478999999999999997665  689999999999998886 577 999999999999999888 78899999999999


Q ss_pred             cCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCC
Q 045113          595 FGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESK  672 (821)
Q Consensus       595 L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~  672 (821)
                      +++|.+. .+|..+.  ++|++|++..+  ...+...+.++++|+.|+++++.....+..+..+..+++|+.|+++.+  
T Consensus       107 Ls~n~l~-~l~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n--  181 (330)
T 1xku_A          107 LSKNQLK-ELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADT--  181 (330)
T ss_dssp             CCSSCCS-BCCSSCC--TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSS--
T ss_pred             CCCCcCC-ccChhhc--ccccEEECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCC--
Confidence            9999984 6776665  79999999884  344444489999999999999853223345567888999999999865  


Q ss_pred             CCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccc
Q 045113          673 MPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEE  752 (821)
Q Consensus       673 ~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~  752 (821)
                        .+..+..   ..+++|+.|++++|.+.+..+..+..+++|+.|+|++|.+.+.. ......+++|++|++++| .+..
T Consensus       182 --~l~~l~~---~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~-~~~~~~l~~L~~L~L~~N-~l~~  254 (330)
T 1xku_A          182 --NITTIPQ---GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVD-NGSLANTPHLRELHLNNN-KLVK  254 (330)
T ss_dssp             --CCCSCCS---SCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEEC-TTTGGGSTTCCEEECCSS-CCSS
T ss_pred             --ccccCCc---cccccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeC-hhhccCCCCCCEEECCCC-cCcc
Confidence              3443321   23489999999999988777889999999999999988876532 223567899999999998 5778


Q ss_pred             eeeccccccccceeEEeecCCCCCCcc-ccC------CCCCCCEEEEeCCc
Q 045113          753 WTMGTGAMPKLECLIINPCAYLKKMPE-QLW------CIKSLNNFNCWWPQ  796 (821)
Q Consensus       753 ~~~~~~~l~~L~~L~i~~c~~l~~lp~-~l~------~l~~L~~L~l~~c~  796 (821)
                      +|..+..+++|+.|++++|. ++.+|. .+.      ..++|+.|+++++|
T Consensus       255 lp~~l~~l~~L~~L~l~~N~-i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~  304 (330)
T 1xku_A          255 VPGGLADHKYIQVVYLHNNN-ISAIGSNDFCPPGYNTKKASYSGVSLFSNP  304 (330)
T ss_dssp             CCTTTTTCSSCCEEECCSSC-CCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             CChhhccCCCcCEEECCCCc-CCccChhhcCCcccccccccccceEeecCc
Confidence            88888999999999999997 444543 222      35789999999998

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.85  E-value=7.3e-21  Score=224.24  Aligned_cols=322  Identities=16%  Similarity=0.071  Sum_probs=216.7

Q ss_pred             CCCceeEEEEEcCCCccccc--C-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccc-cccCCCC
Q 045113          467 RKNVKRFFALEQQSDFAYLD--D-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPS-EIENLSL  542 (821)
Q Consensus       467 ~~~~~r~lsl~~~~~~~~~~--~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~-~i~~l~~  542 (821)
                      .|..+++|.+..+.......  . .+++|++|.+.++....    +.+.+|..+++|++|+|++|.++.+|. .|.++++
T Consensus        50 lp~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~----i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~  125 (635)
T 4g8a_A           50 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQT----IEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSS  125 (635)
T ss_dssp             SCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCE----ECTTTTTTCTTCCEEECTTCCCCEECGGGGTTCTT
T ss_pred             CCcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCC----cChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCCC
Confidence            46789999999887766543  2 89999999999987753    566789999999999999999998875 5899999


Q ss_pred             ceEEeecCCCCccccHH-HHhccccceEEecCCccccc--chhhhccCccCceeecCCcccCCCCCCCcCC---------
Q 045113          543 LRYLKLNIPSLKSLPLS-FFNYLLNLYTLDMPFSYIDH--TADEFWKMKKLRHLNFGSITLPAHPGNYCGS---------  610 (821)
Q Consensus       543 Lr~L~L~~~~i~~lp~~-i~~~L~~L~~L~L~~~~l~~--lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~---------  610 (821)
                      |++|++++|.+..+|.. ++ ++++|++|++++|.+..  +|..+..+++|++|++++|.+.+..|..+..         
T Consensus       126 L~~L~Ls~N~l~~l~~~~~~-~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~l~~~~~  204 (635)
T 4g8a_A          126 LQKLVAVETNLASLENFPIG-HLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNL  204 (635)
T ss_dssp             CCEEECTTSCCCCSTTCCCT-TCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCC
T ss_pred             CCEEECCCCcCCCCChhhhh-cCcccCeeccccCccccCCCchhhccchhhhhhcccCccccccccccccchhhhhhhhh
Confidence            99999999999988865 66 99999999999998765  4788899999999999988764221111100         


Q ss_pred             -------------------------------------------CCC----------------------------------
Q 045113          611 -------------------------------------------LEN----------------------------------  613 (821)
Q Consensus       611 -------------------------------------------l~~----------------------------------  613 (821)
                                                                 +..                                  
T Consensus       205 ~~~ls~n~l~~i~~~~~~~~~~~~l~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~~~~l~~~  284 (635)
T 4g8a_A          205 SLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIE  284 (635)
T ss_dssp             EEECTTCCCCEECTTTTTTCEEEEEEEESCCSSHHHHHHHHHTTTTCEEEEEEEECCTTSCCCSCCCTTTTGGGGGSEEE
T ss_pred             hhhcccCcccccCcccccchhhhhhhhhcccccccccchhhcCCcccccccccccccccccccccccccccccccchhhh
Confidence                                                       000                                  


Q ss_pred             ---------------------------------------------cceeccccC--Cc--------------------ch
Q 045113          614 ---------------------------------------------LNFISALYP--CC--------------------CT  626 (821)
Q Consensus       614 ---------------------------------------------L~~L~~~~~--~~--------------------~~  626 (821)
                                                                   |+.|++..+  ..                    .+
T Consensus       285 ~l~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~L~~l~l~~n~~~~~  364 (635)
T 4g8a_A          285 EFRLAYLDYYLDGIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNA  364 (635)
T ss_dssp             EEEEECCCSCEEECTTTTGGGTTCSEEEEESCEEEECGGGGSCCCCSEEEEESCEESSCCCCBCTTCCEEEEESCCSCCB
T ss_pred             hhhhhhhcccccchhhhhhhhcccccccccccccccccccccchhhhhhhcccccccCcCcccchhhhhcccccccCCCC
Confidence                                                         111111000  00                    00


Q ss_pred             hhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCC---------C-------------------------
Q 045113          627 KDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANES---------K-------------------------  672 (821)
Q Consensus       627 ~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~---------~-------------------------  672 (821)
                      .. ...+++|+.|+++.+........+.....+.+|+.|++..+.         .                         
T Consensus       365 ~~-~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~  443 (635)
T 4g8a_A          365 FS-EVDLPSLEFLDLSRNGLSFKGCCSQSDFGTISLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLS  443 (635)
T ss_dssp             CC-CCBCTTCCEEECCSSCCBEEEECCHHHHSCSCCCEEECCSCSEEEECSCCTTCTTCCEEECTTSEEESTTSSCTTTT
T ss_pred             cc-cccccccccchhhccccccccccccchhhhhhhhhhhccccccccccccccccccccchhhhhcccccccccccccc
Confidence            00 112344555555444211111122222333444444443310         1                         


Q ss_pred             CCCCCeeEecc----------cCCCCCcceEEEecccCCC-CCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccce
Q 045113          673 MPRLSKIILAE----------YVFPHSLTHLSFSNTDLMD-DPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKV  741 (821)
Q Consensus       673 ~~~L~~l~l~~----------~~~~~~L~~L~L~~~~l~~-~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~  741 (821)
                      ..++..+.+..          +..+++|+.|+|++|.... ..+..+..+++|+.|+|++|.+.+. .+..+.++++|++
T Consensus       444 l~~l~~l~ls~n~l~~~~~~~~~~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N~L~~l-~~~~f~~l~~L~~  522 (635)
T 4g8a_A          444 LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQL-SPTAFNSLSSLQV  522 (635)
T ss_dssp             CTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEE-CTTTTTTCTTCCE
T ss_pred             ccccccccccccccccccccccccchhhhhhhhhhcccccccCchhhhhccccCEEECCCCccCCc-ChHHHcCCCCCCE
Confidence            22333333322          4556778888888876432 3556788899999999998877653 2344678899999


Q ss_pred             eeeccCCCcccee-eccccccccceeEEeecCCCCCCccccCCC-CCCCEEEEeCCc
Q 045113          742 LHLKSMLWLEEWT-MGTGAMPKLECLIINPCAYLKKMPEQLWCI-KSLNNFNCWWPQ  796 (821)
Q Consensus       742 L~L~~~~~l~~~~-~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l-~~L~~L~l~~c~  796 (821)
                      |+|++| .+..++ ..+..+++|+.|++++|......|..+.++ ++|+.|+++++|
T Consensus       523 L~Ls~N-~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~~L~~L~L~~Np  578 (635)
T 4g8a_A          523 LNMSHN-NFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQND  578 (635)
T ss_dssp             EECTTS-CCCBCCCGGGTTCTTCCEEECTTSCCCBCCSSCTTCCCTTCCEEECTTCC
T ss_pred             EECCCC-cCCCCChhHHhCCCCCCEEECCCCcCCCCCHHHHHhhhCcCCEEEeeCCC
Confidence            999998 566664 457889999999999997666567778887 689999998744

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=99.84  E-value=2.1e-21  Score=208.96  Aligned_cols=219  Identities=15%  Similarity=0.118  Sum_probs=146.9

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      ..+++++|.+.++....    + +..+..+++|++|+|++|.++.+|..++++++|++|+|++|.+..+|..+. ++++|
T Consensus        79 ~~~~l~~L~L~~n~l~~----l-p~~l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~l~-~l~~L  152 (328)
T 4fcg_A           79 TQPGRVALELRSVPLPQ----F-PDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPASIA-SLNRL  152 (328)
T ss_dssp             TSTTCCEEEEESSCCSS----C-CSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCCCCCCCGGGG-GCTTC
T ss_pred             cccceeEEEccCCCchh----c-ChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCccccCcHHHh-cCcCC
Confidence            45778888888877652    2 334566999999999999999999999999999999999999999999998 99999


Q ss_pred             eEEecCCc-ccccchhhhcc---------CccCceeecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCC
Q 045113          568 YTLDMPFS-YIDHTADEFWK---------MKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPN  635 (821)
Q Consensus       568 ~~L~L~~~-~l~~lp~~i~~---------l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~  635 (821)
                      ++|++++| .+..+|..+..         +++|++|++++|.+. .+|..++.+++|++|++..|  ...+.. ++.+++
T Consensus       153 ~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~-~lp~~l~~l~~L~~L~L~~N~l~~l~~~-l~~l~~  230 (328)
T 4fcg_A          153 RELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIR-SLPASIANLQNLKSLKIRNSPLSALGPA-IHHLPK  230 (328)
T ss_dssp             CEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCC-CCCGGGGGCTTCCEEEEESSCCCCCCGG-GGGCTT
T ss_pred             CEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcC-cchHhhcCCCCCCEEEccCCCCCcCchh-hccCCC
Confidence            99999997 56777877654         899999999998885 77777777777777776663  234444 666666


Q ss_pred             CCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCC
Q 045113          636 LRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQ  715 (821)
Q Consensus       636 L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~  715 (821)
                      |+.|++++|  ...+.+|..+..+++|+.|+++.|    ++.......+..+++|+.|+|++|.+.+.+|..++++++|+
T Consensus       231 L~~L~Ls~n--~~~~~~p~~~~~l~~L~~L~L~~n----~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~  304 (328)
T 4fcg_A          231 LEELDLRGC--TALRNYPPIFGGRAPLKRLILKDC----SNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANC  304 (328)
T ss_dssp             CCEEECTTC--TTCCBCCCCTTCCCCCCEEECTTC----TTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTC
T ss_pred             CCEEECcCC--cchhhhHHHhcCCCCCCEEECCCC----CchhhcchhhhcCCCCCEEeCCCCCchhhccHHHhhccCce
Confidence            666666665  233334444444455555554421    11111112233444455555555444444444555555555


Q ss_pred             EEEEe
Q 045113          716 VLKLK  720 (821)
Q Consensus       716 ~L~L~  720 (821)
                      .+.+.
T Consensus       305 ~l~l~  309 (328)
T 4fcg_A          305 IILVP  309 (328)
T ss_dssp             EEECC
T ss_pred             EEeCC
Confidence            44444

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.83  E-value=9.9e-21  Score=206.29  Aligned_cols=248  Identities=16%  Similarity=0.186  Sum_probs=158.5

Q ss_pred             CceeEEEeCCCCCCcccc-cccCCCCceEEeecCCCCcccc-HHHHhccccceEEecCCcccccchhh-hccCccCceee
Q 045113          518 KLLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLKSLP-LSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHLN  594 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~i~~lp-~~i~~~L~~L~~L~L~~~~l~~lp~~-i~~l~~L~~L~  594 (821)
                      ++|++|++++|.++.+|. .+.++++|++|++++|.+..++ ..+. ++++|++|++++|.+..+|.. +.++++|++|+
T Consensus        52 ~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~-~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~  130 (353)
T 2z80_A           52 EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFS-SLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLN  130 (353)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTT-TCTTCCEEECCSSCCSSCCHHHHTTCTTCSEEE
T ss_pred             ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcC-CCCCCCEEECCCCcCCcCCHhHhCCCccCCEEE
Confidence            467777777777776654 6777777777777777777554 3455 777777777777777777654 66777777777


Q ss_pred             cCCcccCCCCCC--CcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCC
Q 045113          595 FGSITLPAHPGN--YCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESK  672 (821)
Q Consensus       595 L~~~~~~~~~p~--~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~  672 (821)
                      +++|.+. .+|.  .                      +..+++|+.|+++++. ......+..+..+++|+.|++++|  
T Consensus       131 L~~n~l~-~l~~~~~----------------------~~~l~~L~~L~l~~n~-~~~~~~~~~~~~l~~L~~L~l~~n--  184 (353)
T 2z80_A          131 LLGNPYK-TLGETSL----------------------FSHLTKLQILRVGNMD-TFTKIQRKDFAGLTFLEELEIDAS--  184 (353)
T ss_dssp             CTTCCCS-SSCSSCS----------------------CTTCTTCCEEEEEESS-SCCEECTTTTTTCCEEEEEEEEET--
T ss_pred             CCCCCCc-ccCchhh----------------------hccCCCCcEEECCCCc-cccccCHHHccCCCCCCEEECCCC--
Confidence            7777663 3333  3                      4445555555555541 011111234455566666666643  


Q ss_pred             CCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeee--cCCCCcccceeeeccCCCc
Q 045113          673 MPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTC--GSDGFPRLKVLHLKSMLWL  750 (821)
Q Consensus       673 ~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~--~~~~~~~L~~L~L~~~~~l  750 (821)
                        .+.......+..+++|+.|++++|.+.......+..+++|+.|++++|.+.+..+..  .....+.++.+++.++. +
T Consensus       185 --~l~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~-l  261 (353)
T 2z80_A          185 --DLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVK-I  261 (353)
T ss_dssp             --TCCEECTTTTTTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESCBCTTCCCC------CCCCCCEEEEESCB-C
T ss_pred             --CcCccCHHHHhccccCCeecCCCCccccchhhhhhhcccccEEECCCCccccccccccccccccchhhcccccccc-c
Confidence              445544445666778888888888764332233456788888888877776533211  12235667777777763 3


Q ss_pred             c-----ceeeccccccccceeEEeecCCCCCCcccc-CCCCCCCEEEEeCCc
Q 045113          751 E-----EWTMGTGAMPKLECLIINPCAYLKKMPEQL-WCIKSLNNFNCWWPQ  796 (821)
Q Consensus       751 ~-----~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l-~~l~~L~~L~l~~c~  796 (821)
                      .     .++..+..+++|+.|++++|. ++.+|..+ .++++|++|+++++|
T Consensus       262 ~~~~l~~l~~~l~~l~~L~~L~Ls~N~-l~~i~~~~~~~l~~L~~L~L~~N~  312 (353)
T 2z80_A          262 TDESLFQVMKLLNQISGLLELEFSRNQ-LKSVPDGIFDRLTSLQKIWLHTNP  312 (353)
T ss_dssp             CHHHHHHHHHHHHTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cCcchhhhHHHHhcccCCCEEECCCCC-CCccCHHHHhcCCCCCEEEeeCCC
Confidence            2     345556788999999999885 55788764 889999999998875

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.83  E-value=7.2e-20  Score=205.80  Aligned_cols=289  Identities=20%  Similarity=0.177  Sum_probs=171.8

Q ss_pred             CCceeEEEEEcCCCcccccCCCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEe
Q 045113          468 KNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLK  547 (821)
Q Consensus       468 ~~~~r~lsl~~~~~~~~~~~~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~  547 (821)
                      +..++.+.+..+.....+ ...++|++|.+.++.....     +   ...++|++|++++|.++.+| .++++++|++|+
T Consensus        90 ~~~L~~L~l~~n~l~~lp-~~~~~L~~L~l~~n~l~~l-----~---~~~~~L~~L~L~~n~l~~lp-~~~~l~~L~~L~  159 (454)
T 1jl5_A           90 PPHLESLVASCNSLTELP-ELPQSLKSLLVDNNNLKAL-----S---DLPPLLEYLGVSNNQLEKLP-ELQNSSFLKIID  159 (454)
T ss_dssp             CTTCSEEECCSSCCSSCC-CCCTTCCEEECCSSCCSCC-----C---SCCTTCCEEECCSSCCSSCC-CCTTCTTCCEEE
T ss_pred             cCCCCEEEccCCcCCccc-cccCCCcEEECCCCccCcc-----c---CCCCCCCEEECcCCCCCCCc-ccCCCCCCCEEE
Confidence            456777777665544321 2456777777777655421     0   11257778888887777777 477777888888


Q ss_pred             ecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC-Ccch
Q 045113          548 LNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP-CCCT  626 (821)
Q Consensus       548 L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~  626 (821)
                      +++|.+..+|..    ..+|++|++++|.+..+| .++++++|++|++++|.+.+ +|...   ++|++|++..+ -..+
T Consensus       160 l~~N~l~~lp~~----~~~L~~L~L~~n~l~~l~-~~~~l~~L~~L~l~~N~l~~-l~~~~---~~L~~L~l~~n~l~~l  230 (454)
T 1jl5_A          160 VDNNSLKKLPDL----PPSLEFIAAGNNQLEELP-ELQNLPFLTAIYADNNSLKK-LPDLP---LSLESIVAGNNILEEL  230 (454)
T ss_dssp             CCSSCCSCCCCC----CTTCCEEECCSSCCSSCC-CCTTCTTCCEEECCSSCCSS-CCCCC---TTCCEEECCSSCCSSC
T ss_pred             CCCCcCcccCCC----cccccEEECcCCcCCcCc-cccCCCCCCEEECCCCcCCc-CCCCc---CcccEEECcCCcCCcc
Confidence            887777776643    247777777777777776 47777777777777777643 44422   46777777663 1233


Q ss_pred             hhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCC------CCCCCCeeEecc-----c-CCCCCcceEE
Q 045113          627 KDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANES------KMPRLSKIILAE-----Y-VFPHSLTHLS  694 (821)
Q Consensus       627 ~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~------~~~~L~~l~l~~-----~-~~~~~L~~L~  694 (821)
                      +. ++.+++|+.|+++++.   ...+|.   .+++|+.|+++.|.      .+++|+.+.+++     + ..+++|+.|+
T Consensus       231 p~-~~~l~~L~~L~l~~N~---l~~l~~---~~~~L~~L~l~~N~l~~l~~~~~~L~~L~ls~N~l~~l~~~~~~L~~L~  303 (454)
T 1jl5_A          231 PE-LQNLPFLTTIYADNNL---LKTLPD---LPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLN  303 (454)
T ss_dssp             CC-CTTCTTCCEEECCSSC---CSSCCS---CCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSEESCCCTTCCEEE
T ss_pred             cc-cCCCCCCCEEECCCCc---CCcccc---cccccCEEECCCCcccccCcccCcCCEEECcCCccCcccCcCCcCCEEE
Confidence            34 6777777777777763   111221   23567777776542      224555555554     1 2235677777


Q ss_pred             EecccCCCCCcccccCC-CCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCC
Q 045113          695 FSNTDLMDDPMPALEKL-PLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAY  773 (821)
Q Consensus       695 L~~~~l~~~~~~~l~~l-~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~  773 (821)
                      +++|.+++     +..+ ++|+.|++++|.+.+.  +   ..+++|+.|++++| .+..+|.   .+++|+.|++++|..
T Consensus       304 l~~N~l~~-----i~~~~~~L~~L~Ls~N~l~~l--p---~~~~~L~~L~L~~N-~l~~lp~---~l~~L~~L~L~~N~l  369 (454)
T 1jl5_A          304 ASSNEIRS-----LCDLPPSLEELNVSNNKLIEL--P---ALPPRLERLIASFN-HLAEVPE---LPQNLKQLHVEYNPL  369 (454)
T ss_dssp             CCSSCCSE-----ECCCCTTCCEEECCSSCCSCC--C---CCCTTCCEEECCSS-CCSCCCC---CCTTCCEEECCSSCC
T ss_pred             CcCCcCCc-----ccCCcCcCCEEECCCCccccc--c---ccCCcCCEEECCCC-ccccccc---hhhhccEEECCCCCC
Confidence            77776543     2233 4777788877766651  1   23577888888776 4556654   467788888887765


Q ss_pred             CC--CCccccCCC-------------CCCCEEEEeCCc
Q 045113          774 LK--KMPEQLWCI-------------KSLNNFNCWWPQ  796 (821)
Q Consensus       774 l~--~lp~~l~~l-------------~~L~~L~l~~c~  796 (821)
                      ..  .+|..+.++             ++|+.|++++++
T Consensus       370 ~~l~~ip~~l~~L~~n~~~~~i~~~~~~L~~L~ls~N~  407 (454)
T 1jl5_A          370 REFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVETNP  407 (454)
T ss_dssp             SSCCCCCTTCCEEECCC---------------------
T ss_pred             CcCCCChHHHHhhhhcccccccccccCcCCEEECCCCc
Confidence            54  566666666             677888777765

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.82  E-value=3.8e-22  Score=225.84  Aligned_cols=153  Identities=14%  Similarity=0.092  Sum_probs=70.8

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCC----ceeEEEeCCCCCC-----cccccccCCCCceEEeecCCCCcc-cc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYK----LLRVLDLGSLVLN-----QYPSEIENLSLLRYLKLNIPSLKS-LP  557 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~----~Lr~L~L~~~~l~-----~lp~~i~~l~~Lr~L~L~~~~i~~-lp  557 (821)
                      .+++|++|.+.++...   ...+..++..++    +|++|+|++|.++     .+|..+.++++|++|++++|.+.. -+
T Consensus        54 ~~~~L~~L~Ls~n~l~---~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~  130 (461)
T 1z7x_W           54 VNPALAELNLRSNELG---DVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGL  130 (461)
T ss_dssp             TCTTCCEEECTTCCCH---HHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHH
T ss_pred             hCCCcCEEeCCCCcCC---hHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHH
Confidence            4455555555554432   112222333333    4555555555554     234555555555555555555541 12


Q ss_pred             HHHHh----ccccceEEecCCccccc-----chhhhccCccCceeecCCcccCCCCCCCcC-----CCCCcceeccccCC
Q 045113          558 LSFFN----YLLNLYTLDMPFSYIDH-----TADEFWKMKKLRHLNFGSITLPAHPGNYCG-----SLENLNFISALYPC  623 (821)
Q Consensus       558 ~~i~~----~L~~L~~L~L~~~~l~~-----lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~-----~l~~L~~L~~~~~~  623 (821)
                      ..+..    .+++|++|++++|.+..     ++..+..+++|++|++++|.+....+..+.     .+++|++|++..+.
T Consensus       131 ~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~  210 (461)
T 1z7x_W          131 QLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCG  210 (461)
T ss_dssp             HHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSC
T ss_pred             HHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCC
Confidence            22221    12345555555554432     244445555666666655554322111111     23455555555521


Q ss_pred             --c-----chhhhcCCCCCCCeEEEecc
Q 045113          624 --C-----CTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       624 --~-----~~~~~l~~l~~L~~L~l~~~  644 (821)
                        .     .+.. +..+++|+.|++++|
T Consensus       211 l~~~~~~~l~~~-l~~~~~L~~L~Ls~n  237 (461)
T 1z7x_W          211 VTSDNCRDLCGI-VASKASLRELALGSN  237 (461)
T ss_dssp             CBTTHHHHHHHH-HHHCTTCCEEECCSS
T ss_pred             CcHHHHHHHHHH-HHhCCCccEEeccCC
Confidence              1     1222 455566666666655

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.82  E-value=3e-20  Score=198.22  Aligned_cols=222  Identities=23%  Similarity=0.242  Sum_probs=150.4

Q ss_pred             CceeEEEeCCCCCCccccc-ccCCCCceEEeecCCCCccc---cHHHHhccccceEEecCCcccccchhhhccCccCcee
Q 045113          518 KLLRVLDLGSLVLNQYPSE-IENLSLLRYLKLNIPSLKSL---PLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHL  593 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~~-i~~l~~Lr~L~L~~~~i~~l---p~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L  593 (821)
                      ++|++|+|++|.++.+|.. +.++++|++|++++|.+..+   |..+. .+++|++|++++|.+..+|..+..+++|++|
T Consensus        28 ~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~-~~~~L~~L~Ls~n~i~~l~~~~~~l~~L~~L  106 (306)
T 2z66_A           28 SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDF-GTTSLKYLDLSFNGVITMSSNFLGLEQLEHL  106 (306)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHH-SCSCCCEEECCSCSEEEEEEEEETCTTCCEE
T ss_pred             CCCCEEECCCCccCccCHhHhhccccCCEEECCCCccCcccCcccccc-cccccCEEECCCCccccChhhcCCCCCCCEE
Confidence            4677777777777777654 57777788888877777644   56666 7777888888777777777777777788888


Q ss_pred             ecCCcccCCCCC-CCcCCCCCcceeccccC--C-cchhhhcCCCCCCCeEEEecccccchh-HHHHHccCCCCcCEEEee
Q 045113          594 NFGSITLPAHPG-NYCGSLENLNFISALYP--C-CCTKDLLGRLPNLRNLRIQGDLSYNQS-LLSKSLCRLSCLESLKLA  668 (821)
Q Consensus       594 ~L~~~~~~~~~p-~~i~~l~~L~~L~~~~~--~-~~~~~~l~~l~~L~~L~l~~~~~~~~~-~l~~~l~~~~~L~~L~l~  668 (821)
                      ++++|.+....+ ..+..+++|++|++..+  . ..+.. +..+++|+.|+++++.  ..+ .+|..+..+++|+.|+++
T Consensus       107 ~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-~~~l~~L~~L~l~~n~--l~~~~~~~~~~~l~~L~~L~Ls  183 (306)
T 2z66_A          107 DFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGI-FNGLSSLEVLKMAGNS--FQENFLPDIFTELRNLTFLDLS  183 (306)
T ss_dssp             ECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTT-TTTCTTCCEEECTTCE--EGGGEECSCCTTCTTCCEEECT
T ss_pred             ECCCCcccccccchhhhhccCCCEEECCCCcCCccchhh-cccCcCCCEEECCCCc--cccccchhHHhhCcCCCEEECC
Confidence            887777744333 45677777777777663  1 22333 6677777777777762  222 345566677777777776


Q ss_pred             cCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCC-cccceeeeccC
Q 045113          669 NESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGF-PRLKVLHLKSM  747 (821)
Q Consensus       669 ~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~-~~L~~L~L~~~  747 (821)
                      +|    .+..+....+..+++|+.|+|++|.+++..+..+..+++|+.|+|++|.+.+... .....+ ++|++|++++|
T Consensus       184 ~n----~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~-~~~~~~~~~L~~L~L~~N  258 (306)
T 2z66_A          184 QC----QLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKK-QELQHFPSSLAFLNLTQN  258 (306)
T ss_dssp             TS----CCCEECTTTTTTCTTCCEEECTTSCCSBCCSGGGTTCTTCCEEECTTSCCCBCSS-SSCCCCCTTCCEEECTTC
T ss_pred             CC----CcCCcCHHHhcCCCCCCEEECCCCccCccChhhccCcccCCEeECCCCCCcccCH-HHHHhhhccCCEEEccCC
Confidence            54    5555555556677778888888887766555567777888888888776665432 223445 37888888776


Q ss_pred             C
Q 045113          748 L  748 (821)
Q Consensus       748 ~  748 (821)
                      +
T Consensus       259 ~  259 (306)
T 2z66_A          259 D  259 (306)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.81  E-value=3.5e-20  Score=197.68  Aligned_cols=228  Identities=19%  Similarity=0.203  Sum_probs=192.8

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc---cccccCCCCceEEeecCCCCccccHHHHhcc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY---PSEIENLSLLRYLKLNIPSLKSLPLSFFNYL  564 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l---p~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L  564 (821)
                      -.++++.|.+.++....    .+..+|..+++|++|+|++|.++.+   |..+..+++|++|++++|.+..+|..+. .+
T Consensus        26 ~~~~l~~L~L~~n~l~~----i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~l~~~~~-~l  100 (306)
T 2z66_A           26 IPSSATRLELESNKLQS----LPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFL-GL  100 (306)
T ss_dssp             CCTTCCEEECCSSCCCC----CCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCSEEEEEEEEE-TC
T ss_pred             CCCCCCEEECCCCccCc----cCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCCCccccChhhcC-CC
Confidence            45789999999887653    5566789999999999999998744   6777789999999999999999998888 99


Q ss_pred             ccceEEecCCcccccchh--hhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC---C-cchhhhcCCCCCCCe
Q 045113          565 LNLYTLDMPFSYIDHTAD--EFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP---C-CCTKDLLGRLPNLRN  638 (821)
Q Consensus       565 ~~L~~L~L~~~~l~~lp~--~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~---~-~~~~~~l~~l~~L~~  638 (821)
                      ++|++|++++|.+..++.  .+..+++|++|++++|.+....|..++.+++|++|++..+   + ..+.. +..+++|+.
T Consensus       101 ~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~-~~~l~~L~~  179 (306)
T 2z66_A          101 EQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDI-FTELRNLTF  179 (306)
T ss_dssp             TTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSC-CTTCTTCCE
T ss_pred             CCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhH-HhhCcCCCE
Confidence            999999999999888864  7889999999999999998788888999999999999885   2 24455 899999999


Q ss_pred             EEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCC-CCCEE
Q 045113          639 LRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLP-LLQVL  717 (821)
Q Consensus       639 L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~-~L~~L  717 (821)
                      |+++++.  .....+..+..+++|+.|++++|    .+..+....+..+++|+.|+|++|.+.+..+..+..+| +|+.|
T Consensus       180 L~Ls~n~--l~~~~~~~~~~l~~L~~L~L~~N----~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L  253 (306)
T 2z66_A          180 LDLSQCQ--LEQLSPTAFNSLSSLQVLNMSHN----NFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFL  253 (306)
T ss_dssp             EECTTSC--CCEECTTTTTTCTTCCEEECTTS----CCSBCCSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEE
T ss_pred             EECCCCC--cCCcCHHHhcCCCCCCEEECCCC----ccCccChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEE
Confidence            9999983  33344667888999999999865    56665555577899999999999999888888999985 99999


Q ss_pred             EEeccccCCC
Q 045113          718 KLKQNSYSGR  727 (821)
Q Consensus       718 ~L~~~~~~~~  727 (821)
                      +|++|.+.+.
T Consensus       254 ~L~~N~~~~~  263 (306)
T 2z66_A          254 NLTQNDFACT  263 (306)
T ss_dssp             ECTTCCEECS
T ss_pred             EccCCCeecc
Confidence            9999887653

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.81  E-value=4.2e-20  Score=201.27  Aligned_cols=247  Identities=19%  Similarity=0.151  Sum_probs=180.9

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCCceEEeecCCCCccccHH-HHhccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNIPSLKSLPLS-FFNYLL  565 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~~~i~~lp~~-i~~~L~  565 (821)
                      -.++|++|.+.++....    .+...|..+++|++|+|++|.++.+ |..++++++|++|++++|.+..+|.. +. +++
T Consensus        50 ~~~~L~~L~l~~n~i~~----~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~-~l~  124 (353)
T 2z80_A           50 LTEAVKSLDLSNNRITY----ISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFK-PLS  124 (353)
T ss_dssp             CCTTCCEEECTTSCCCE----ECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHT-TCT
T ss_pred             ccccCcEEECCCCcCcc----cCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhC-CCc
Confidence            45689999999888753    5556789999999999999999966 46799999999999999999999987 56 999


Q ss_pred             cceEEecCCcccccchh--hhccCccCceeecCCcc-cCCCCCCCcCCCCCcceeccccC--C-cchhhhcCCCCCCCeE
Q 045113          566 NLYTLDMPFSYIDHTAD--EFWKMKKLRHLNFGSIT-LPAHPGNYCGSLENLNFISALYP--C-CCTKDLLGRLPNLRNL  639 (821)
Q Consensus       566 ~L~~L~L~~~~l~~lp~--~i~~l~~L~~L~L~~~~-~~~~~p~~i~~l~~L~~L~~~~~--~-~~~~~~l~~l~~L~~L  639 (821)
                      +|++|++++|.+..+|.  .+.++++|++|++++|. +....+..++.+++|++|++..+  . ..+.. +..+++|+.|
T Consensus       125 ~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-l~~l~~L~~L  203 (353)
T 2z80_A          125 SLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKS-LKSIQNVSHL  203 (353)
T ss_dssp             TCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTT-TTTCSEEEEE
T ss_pred             cCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHH-HhccccCCee
Confidence            99999999999999987  78899999999999985 54444667889999999998884  2 33455 8889999999


Q ss_pred             EEecccccchhHHHHH-ccCCCCcCEEEeecCCCCCCCCeeEecc---cCCCCCcceEEEecccCCC----CCcccccCC
Q 045113          640 RIQGDLSYNQSLLSKS-LCRLSCLESLKLANESKMPRLSKIILAE---YVFPHSLTHLSFSNTDLMD----DPMPALEKL  711 (821)
Q Consensus       640 ~l~~~~~~~~~~l~~~-l~~~~~L~~L~l~~~~~~~~L~~l~l~~---~~~~~~L~~L~L~~~~l~~----~~~~~l~~l  711 (821)
                      +++++.   ...++.. +..+++|+.|++++|    .+..+....   ...++.++.++|+++.+.+    ..+..++.+
T Consensus       204 ~l~~n~---l~~~~~~~~~~~~~L~~L~L~~n----~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l  276 (353)
T 2z80_A          204 ILHMKQ---HILLLEIFVDVTSSVECLELRDT----DLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQI  276 (353)
T ss_dssp             EEECSC---STTHHHHHHHHTTTEEEEEEESC----BCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHHHHTC
T ss_pred             cCCCCc---cccchhhhhhhcccccEEECCCC----ccccccccccccccccchhhccccccccccCcchhhhHHHHhcc
Confidence            999883   2344443 345778888888764    222222111   2345566677777766544    234556677


Q ss_pred             CCCCEEEEeccccCCCeeeecCCCCcccceeeeccCC
Q 045113          712 PLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSML  748 (821)
Q Consensus       712 ~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~  748 (821)
                      ++|+.|+|++|.+.. .....+..+++|++|++++|+
T Consensus       277 ~~L~~L~Ls~N~l~~-i~~~~~~~l~~L~~L~L~~N~  312 (353)
T 2z80_A          277 SGLLELEFSRNQLKS-VPDGIFDRLTSLQKIWLHTNP  312 (353)
T ss_dssp             TTCCEEECCSSCCCC-CCTTTTTTCTTCCEEECCSSC
T ss_pred             cCCCEEECCCCCCCc-cCHHHHhcCCCCCEEEeeCCC
Confidence            777777777666653 111223566677777777764

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.80  E-value=5.7e-19  Score=204.68  Aligned_cols=254  Identities=18%  Similarity=0.091  Sum_probs=127.0

Q ss_pred             eeEEEEEcCCCcccccCCCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecC
Q 045113          471 KRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNI  550 (821)
Q Consensus       471 ~r~lsl~~~~~~~~~~~~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~  550 (821)
                      ++.+.+.++.....+..-.++|++|.+.++....    ++.    .+++|++|+|++|.++.+|.   .+++|++|++++
T Consensus        42 l~~L~ls~n~L~~lp~~l~~~L~~L~L~~N~l~~----lp~----~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~  110 (622)
T 3g06_A           42 NAVLNVGESGLTTLPDCLPAHITTLVIPDNNLTS----LPA----LPPELRTLEVSGNQLTSLPV---LPPGLLELSIFS  110 (622)
T ss_dssp             CCEEECCSSCCSCCCSCCCTTCSEEEECSCCCSC----CCC----CCTTCCEEEECSCCCSCCCC---CCTTCCEEEECS
T ss_pred             CcEEEecCCCcCccChhhCCCCcEEEecCCCCCC----CCC----cCCCCCEEEcCCCcCCcCCC---CCCCCCEEECcC
Confidence            4455555544443322223556666666555432    111    34556666666666655554   455566666666


Q ss_pred             CCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhc
Q 045113          551 PSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLL  630 (821)
Q Consensus       551 ~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l  630 (821)
                      |.+..+|.    .+.+|++|++++|.+..+|..   +++|++|++++|.+. .+|..   +.+|+.|             
T Consensus       111 N~l~~l~~----~l~~L~~L~L~~N~l~~lp~~---l~~L~~L~Ls~N~l~-~l~~~---~~~L~~L-------------  166 (622)
T 3g06_A          111 NPLTHLPA----LPSGLCKLWIFGNQLTSLPVL---PPGLQELSVSDNQLA-SLPAL---PSELCKL-------------  166 (622)
T ss_dssp             CCCCCCCC----CCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCCS-CCCCC---CTTCCEE-------------
T ss_pred             CcCCCCCC----CCCCcCEEECCCCCCCcCCCC---CCCCCEEECcCCcCC-CcCCc---cCCCCEE-------------
Confidence            66655554    345566666666655555542   355666666666552 23321   2334444             


Q ss_pred             CCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccC
Q 045113          631 GRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEK  710 (821)
Q Consensus       631 ~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~  710 (821)
                               ++++|.   ...+|   ..+++|+.|+++.|    .+..+.    ..+++|+.|++++|.++. .+.   .
T Consensus       167 ---------~L~~N~---l~~l~---~~~~~L~~L~Ls~N----~l~~l~----~~~~~L~~L~L~~N~l~~-l~~---~  219 (622)
T 3g06_A          167 ---------WAYNNQ---LTSLP---MLPSGLQELSVSDN----QLASLP----TLPSELYKLWAYNNRLTS-LPA---L  219 (622)
T ss_dssp             ---------ECCSSC---CSCCC---CCCTTCCEEECCSS----CCSCCC----CCCTTCCEEECCSSCCSS-CCC---C
T ss_pred             ---------ECCCCC---CCCCc---ccCCCCcEEECCCC----CCCCCC----CccchhhEEECcCCcccc-cCC---C
Confidence                     444431   11111   22344555555433    222211    123555666666665442 221   2


Q ss_pred             CCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccccCCCCCCCEE
Q 045113          711 LPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNF  790 (821)
Q Consensus       711 l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L  790 (821)
                      +++|+.|+|++|.+.+.  +   ..+++|+.|+|++| .+..+|.   .+++|+.|++++|. ++.+|..+.++++|+.|
T Consensus       220 ~~~L~~L~Ls~N~L~~l--p---~~l~~L~~L~Ls~N-~L~~lp~---~~~~L~~L~Ls~N~-L~~lp~~l~~l~~L~~L  289 (622)
T 3g06_A          220 PSGLKELIVSGNRLTSL--P---VLPSELKELMVSGN-RLTSLPM---LPSGLLSLSVYRNQ-LTRLPESLIHLSSETTV  289 (622)
T ss_dssp             CTTCCEEECCSSCCSCC--C---CCCTTCCEEECCSS-CCSCCCC---CCTTCCEEECCSSC-CCSCCGGGGGSCTTCEE
T ss_pred             CCCCCEEEccCCccCcC--C---CCCCcCcEEECCCC-CCCcCCc---ccccCcEEeCCCCC-CCcCCHHHhhccccCEE
Confidence            35566666665555441  1   34556666666665 4444443   45566666666653 34556666666666666


Q ss_pred             EEeCCc
Q 045113          791 NCWWPQ  796 (821)
Q Consensus       791 ~l~~c~  796 (821)
                      ++++|+
T Consensus       290 ~L~~N~  295 (622)
T 3g06_A          290 NLEGNP  295 (622)
T ss_dssp             ECCSCC
T ss_pred             EecCCC
Confidence            666654

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.80  E-value=6.7e-20  Score=193.33  Aligned_cols=247  Identities=19%  Similarity=0.150  Sum_probs=136.9

Q ss_pred             CceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccc-cHHHHhccccceEEecCCcc-cccc-hhhhccCccCcee
Q 045113          518 KLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSL-PLSFFNYLLNLYTLDMPFSY-IDHT-ADEFWKMKKLRHL  593 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~l-p~~i~~~L~~L~~L~L~~~~-l~~l-p~~i~~l~~L~~L  593 (821)
                      +.|+.|+|+++.++.+| ..+.++++|++|++++|.+..+ |..+. .+++|++|++++|. +..+ |..+..+++|++|
T Consensus        32 ~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~-~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L  110 (285)
T 1ozn_A           32 AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFT-GLALLEQLDLSDNAQLRSVDPATFHGLGRLHTL  110 (285)
T ss_dssp             TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTT-TCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEE
T ss_pred             CCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcC-CccCCCEEeCCCCCCccccCHHHhcCCcCCCEE
Confidence            46666666666666554 3466666666666666666654 44555 66666666666664 6665 4556666666666


Q ss_pred             ecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCC
Q 045113          594 NFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKM  673 (821)
Q Consensus       594 ~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~  673 (821)
                      ++++|.+....|..+..+++|++|++..                      +.  .....+..+..+++|+.|++++|   
T Consensus       111 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~----------------------n~--l~~~~~~~~~~l~~L~~L~l~~n---  163 (285)
T 1ozn_A          111 HLDRCGLQELGPGLFRGLAALQYLYLQD----------------------NA--LQALPDDTFRDLGNLTHLFLHGN---  163 (285)
T ss_dssp             ECTTSCCCCCCTTTTTTCTTCCEEECCS----------------------SC--CCCCCTTTTTTCTTCCEEECCSS---
T ss_pred             ECCCCcCCEECHhHhhCCcCCCEEECCC----------------------Cc--ccccCHhHhccCCCccEEECCCC---
Confidence            6666666544455455555555555444                      31  11111122344455555555433   


Q ss_pred             CCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce
Q 045113          674 PRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW  753 (821)
Q Consensus       674 ~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~  753 (821)
                       .++.+....+..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+.+.. ......+++|+.|++++|+.....
T Consensus       164 -~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~l~~N~~~c~~  241 (285)
T 1ozn_A          164 -RISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALP-TEALAPLRALQYLRLNDNPWVCDC  241 (285)
T ss_dssp             -CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCC-HHHHTTCTTCCEEECCSSCEECSG
T ss_pred             -cccccCHHHhcCccccCEEECCCCcccccCHhHccCcccccEeeCCCCcCCcCC-HHHcccCcccCEEeccCCCccCCC
Confidence             344443333555677777777777766665667777777777777776666532 222456777777777776422211


Q ss_pred             eeccccccccceeEEeecCCCCCCccccCC--CCCCCEEEEeCC
Q 045113          754 TMGTGAMPKLECLIINPCAYLKKMPEQLWC--IKSLNNFNCWWP  795 (821)
Q Consensus       754 ~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~--l~~L~~L~l~~c  795 (821)
                      +. ...+..|+.+....+...-..|..+.+  +..|...++.+|
T Consensus       242 ~~-~~~~~~l~~~~~~~~~~~c~~p~~l~g~~l~~l~~~~l~~C  284 (285)
T 1ozn_A          242 RA-RPLWAWLQKFRGSSSEVPCSLPQRLAGRDLKRLAANDLQGC  284 (285)
T ss_dssp             GG-HHHHHHHHHCCSEECCCBEEESGGGTTCBGGGSCGGGSCCC
T ss_pred             Cc-HHHHHHHHhcccccCccccCCchHhCCcChhhcCHHHhccC
Confidence            11 111233444444444433345554432  445555566666

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.80  E-value=2.3e-20  Score=200.07  Aligned_cols=249  Identities=14%  Similarity=0.065  Sum_probs=188.9

Q ss_pred             hhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccC
Q 045113          509 DWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKM  587 (821)
Q Consensus       509 ~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l  587 (821)
                      .+...+..+++|+.|+|++|.++.++ ..++++++|++|++++|.+...++ +. .+++|++|++++|.+..+|    .+
T Consensus        25 ~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~-~l~~L~~L~Ls~n~l~~l~----~~   98 (317)
T 3o53_A           25 ALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD-LE-SLSTLRTLDLNNNYVQELL----VG   98 (317)
T ss_dssp             HHHHHHTTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEE-ET-TCTTCCEEECCSSEEEEEE----EC
T ss_pred             hHHHHhccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchh-hh-hcCCCCEEECcCCcccccc----CC
Confidence            45567778889999999999988665 678899999999999999886664 66 8999999999999888776    34


Q ss_pred             ccCceeecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHc-cCCCCcCE
Q 045113          588 KKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSL-CRLSCLES  664 (821)
Q Consensus       588 ~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l-~~~~~L~~  664 (821)
                      ++|++|++++|.+....+.   .+++|++|++..|  ...+...++.+++|+.|++++|.  .....+..+ ..+++|+.
T Consensus        99 ~~L~~L~l~~n~l~~~~~~---~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~--l~~~~~~~~~~~l~~L~~  173 (317)
T 3o53_A           99 PSIETLHAANNNISRVSCS---RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNE--IDTVNFAELAASSDTLEH  173 (317)
T ss_dssp             TTCCEEECCSSCCSEEEEC---CCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSC--CCEEEGGGGGGGTTTCCE
T ss_pred             CCcCEEECCCCccCCcCcc---ccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCC--CCcccHHHHhhccCcCCE
Confidence            8899999999988554333   3677888888884  23333227778899999998873  222223333 46788999


Q ss_pred             EEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeee
Q 045113          665 LKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHL  744 (821)
Q Consensus       665 L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L  744 (821)
                      |++++|    .++.+  .+...+++|+.|+|++|.+++ .++.+..+++|+.|+|++|.+..  ++.....+++|+.|++
T Consensus       174 L~L~~N----~l~~~--~~~~~l~~L~~L~Ls~N~l~~-l~~~~~~l~~L~~L~L~~N~l~~--l~~~~~~l~~L~~L~l  244 (317)
T 3o53_A          174 LNLQYN----FIYDV--KGQVVFAKLKTLDLSSNKLAF-MGPEFQSAAGVTWISLRNNKLVL--IEKALRFSQNLEHFDL  244 (317)
T ss_dssp             EECTTS----CCCEE--ECCCCCTTCCEEECCSSCCCE-ECGGGGGGTTCSEEECTTSCCCE--ECTTCCCCTTCCEEEC
T ss_pred             EECCCC----cCccc--ccccccccCCEEECCCCcCCc-chhhhcccCcccEEECcCCcccc--hhhHhhcCCCCCEEEc
Confidence            999865    56655  334468999999999999864 45568899999999999888764  3444677899999999


Q ss_pred             ccCCCc-cceeeccccccccceeEEeecCCCCCC
Q 045113          745 KSMLWL-EEWTMGTGAMPKLECLIINPCAYLKKM  777 (821)
Q Consensus       745 ~~~~~l-~~~~~~~~~l~~L~~L~i~~c~~l~~l  777 (821)
                      ++|+.. ..++..+..+++|+.|++.+|..++..
T Consensus       245 ~~N~~~~~~~~~~~~~~~~L~~l~l~~~~~l~~~  278 (317)
T 3o53_A          245 RGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQ  278 (317)
T ss_dssp             TTCCCBHHHHHHHHHTCHHHHHHHHHHHHHHHSS
T ss_pred             cCCCccCcCHHHHHhccccceEEECCCchhccCC
Confidence            998654 355666778999999999977766543

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.80  E-value=3.4e-19  Score=200.90  Aligned_cols=239  Identities=19%  Similarity=0.182  Sum_probs=125.6

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCccc-cHHHHhccccceEEecCCcccccch-hhhccCccCceeecCCc
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSL-PLSFFNYLLNLYTLDMPFSYIDHTA-DEFWKMKKLRHLNFGSI  598 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~l-p~~i~~~L~~L~~L~L~~~~l~~lp-~~i~~l~~L~~L~L~~~  598 (821)
                      +.++.++..++.+|..+.  ++|++|+|++|.+..+ |..+. ++++|++|+|++|.+..++ ..+.++++|++|+|++|
T Consensus        57 ~~v~c~~~~l~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~-~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n  133 (452)
T 3zyi_A           57 SKVVCTRRGLSEVPQGIP--SNTRYLNLMENNIQMIQADTFR-HLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDN  133 (452)
T ss_dssp             CEEECCSSCCSSCCSCCC--TTCSEEECCSSCCCEECTTTTT-TCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             cEEEECCCCcCccCCCCC--CCccEEECcCCcCceECHHHcC-CCCCCCEEECCCCccCCcChhhccCcccCCEEECCCC
Confidence            445555555555554443  4566666666665544 23344 5666666666666555553 44555666666666666


Q ss_pred             ccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCC
Q 045113          599 TLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRL  676 (821)
Q Consensus       599 ~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L  676 (821)
                      .+....+..++.+++|++|++..|  ...+...+.++++|+.|+++++                             ..+
T Consensus       134 ~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~-----------------------------~~l  184 (452)
T 3zyi_A          134 WLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGEL-----------------------------KKL  184 (452)
T ss_dssp             CCSBCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCC-----------------------------TTC
T ss_pred             cCCccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCC-----------------------------CCc
Confidence            554333333444444444444432  1111211455555555555543                             122


Q ss_pred             CeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce-ee
Q 045113          677 SKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW-TM  755 (821)
Q Consensus       677 ~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~-~~  755 (821)
                      ..+....+..+++|+.|+|++|.+++  .+.+..+++|+.|+|++|.+.+.. +..+..+++|+.|+|++|. +..+ +.
T Consensus       185 ~~i~~~~~~~l~~L~~L~L~~n~l~~--~~~~~~l~~L~~L~Ls~N~l~~~~-~~~~~~l~~L~~L~L~~n~-l~~~~~~  260 (452)
T 3zyi_A          185 EYISEGAFEGLFNLKYLNLGMCNIKD--MPNLTPLVGLEELEMSGNHFPEIR-PGSFHGLSSLKKLWVMNSQ-VSLIERN  260 (452)
T ss_dssp             CEECTTTTTTCTTCCEEECTTSCCSS--CCCCTTCTTCCEEECTTSCCSEEC-GGGGTTCTTCCEEECTTSC-CCEECTT
T ss_pred             cccChhhccCCCCCCEEECCCCcccc--cccccccccccEEECcCCcCcccC-cccccCccCCCEEEeCCCc-CceECHH
Confidence            22222224445566666666665543  234566666666666666554421 2334556666666666653 3333 33


Q ss_pred             ccccccccceeEEeecCCCCCCc-cccCCCCCCCEEEEeCCc
Q 045113          756 GTGAMPKLECLIINPCAYLKKMP-EQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       756 ~~~~l~~L~~L~i~~c~~l~~lp-~~l~~l~~L~~L~l~~c~  796 (821)
                      .+..+++|+.|++++|. ++.+| ..+..+++|+.|+++++|
T Consensus       261 ~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          261 AFDGLASLVELNLAHNN-LSSLPHDLFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             TTTTCTTCCEEECCSSC-CSCCCTTSSTTCTTCCEEECCSSC
T ss_pred             HhcCCCCCCEEECCCCc-CCccChHHhccccCCCEEEccCCC
Confidence            45566677777777664 33443 345666777777776644

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.80  E-value=5.7e-20  Score=214.91  Aligned_cols=322  Identities=11%  Similarity=0.022  Sum_probs=168.9

Q ss_pred             CceeEEEEEcCCCccc--ccC--CCCC-ceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCc-----cccccc
Q 045113          469 NVKRFFALEQQSDFAY--LDD--YYPH-LHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQ-----YPSEIE  538 (821)
Q Consensus       469 ~~~r~lsl~~~~~~~~--~~~--~~~~-LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~-----lp~~i~  538 (821)
                      ..++.+.+..+.....  ...  .+++ |++|.+.++...  ....+..+...+++|++|+|++|.++.     ++..+.
T Consensus       112 ~~L~~L~L~~~~i~~~~~~~l~~~~~~~L~~L~L~~~~~~--~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~  189 (592)
T 3ogk_B          112 RQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSGF--TTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQ  189 (592)
T ss_dssp             TTCCEEEEESCBCCHHHHHHHHHHHGGGCCEEEEESCEEE--EHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHHHH
T ss_pred             CCCCeEEeeccEecHHHHHHHHHhccccCcEEECcCCCCc--CHHHHHHHHhhCCCCCEEECccccccCcchhHHHHHHh
Confidence            3466666665532211  011  1334 777777766531  122344555677788888888776542     333445


Q ss_pred             CCCCceEEeecCCCCc-----cccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccC---CCCCCCcCC
Q 045113          539 NLSLLRYLKLNIPSLK-----SLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLP---AHPGNYCGS  610 (821)
Q Consensus       539 ~l~~Lr~L~L~~~~i~-----~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~---~~~p~~i~~  610 (821)
                      .+++|++|++++|.+.     .++..+. ++++|++|++++|.+..+|..+.++++|++|+++.+...   ...+..+..
T Consensus       190 ~~~~L~~L~L~~n~~~~~~~~~l~~~~~-~~~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~  268 (592)
T 3ogk_B          190 HNTSLEVLNFYMTEFAKISPKDLETIAR-NCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVF  268 (592)
T ss_dssp             HCCCCCEEECTTCCCSSCCHHHHHHHHH-HCTTCCEEECSSCBGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCC
T ss_pred             cCCCccEEEeeccCCCccCHHHHHHHHh-hCCCCcEEeccCccHHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhc
Confidence            6777788888777764     4444455 777888888888777777777777777777777643221   122233444


Q ss_pred             CCC-----------------------cceeccccCC---cchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCE
Q 045113          611 LEN-----------------------LNFISALYPC---CCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLES  664 (821)
Q Consensus       611 l~~-----------------------L~~L~~~~~~---~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~  664 (821)
                      +++                       |++|++.++.   ..+...+..+++|+.|++.++  .....++.....+++|++
T Consensus       269 ~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~--~~~~~l~~~~~~~~~L~~  346 (592)
T 3ogk_B          269 PRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNV--IGDRGLEVLAQYCKQLKR  346 (592)
T ss_dssp             CTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEEEGG--GHHHHHHHHHHHCTTCCE
T ss_pred             cccccccCccccchhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEeccCc--cCHHHHHHHHHhCCCCCE
Confidence            444                       4444444421   111111344555555555432  222333333344455555


Q ss_pred             EEeec-----------C-C----------CCCCCCeeEecc----------cC-CCCCcceEEEec----ccCCCC----
Q 045113          665 LKLAN-----------E-S----------KMPRLSKIILAE----------YV-FPHSLTHLSFSN----TDLMDD----  703 (821)
Q Consensus       665 L~l~~-----------~-~----------~~~~L~~l~l~~----------~~-~~~~L~~L~L~~----~~l~~~----  703 (821)
                      |+++.           + +          .+++|+.|.+..          +. .+++|+.|++++    +.+++.    
T Consensus       347 L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~  426 (592)
T 3ogk_B          347 LRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDN  426 (592)
T ss_dssp             EEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEESCCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSSCCCHH
T ss_pred             EEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeecCCccHHHHHHHHhhCCCCcEEEEeecCCCccccCchHHH
Confidence            55551           1 1          244555555422          11 245555555542    222221    


Q ss_pred             -CcccccCCCCCCEEEEeccc--cCCCeeeecCCCCcccceeeeccCCCccc--eeeccccccccceeEEeecCCCC-CC
Q 045113          704 -PMPALEKLPLLQVLKLKQNS--YSGRKLTCGSDGFPRLKVLHLKSMLWLEE--WTMGTGAMPKLECLIINPCAYLK-KM  777 (821)
Q Consensus       704 -~~~~l~~l~~L~~L~L~~~~--~~~~~~~~~~~~~~~L~~L~L~~~~~l~~--~~~~~~~l~~L~~L~i~~c~~l~-~l  777 (821)
                       .+..+.++++|+.|+|++|.  +++..+......+++|++|+|++|. +..  ++.....+++|++|+|++|+... .+
T Consensus       427 ~~~~~~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~  505 (592)
T 3ogk_B          427 GVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVG-ESDEGLMEFSRGCPNLQKLEMRGCCFSERAI  505 (592)
T ss_dssp             HHHHHHHHCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCC-SSHHHHHHHHTCCTTCCEEEEESCCCBHHHH
T ss_pred             HHHHHHHhCCCCCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCC-CCHHHHHHHHhcCcccCeeeccCCCCcHHHH
Confidence             11123345555666554322  2222222212346677777777664 332  23334567888888888887321 24


Q ss_pred             ccccCCCCCCCEEEEeCCc
Q 045113          778 PEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       778 p~~l~~l~~L~~L~l~~c~  796 (821)
                      +....++++|++|++++|+
T Consensus       506 ~~~~~~l~~L~~L~ls~n~  524 (592)
T 3ogk_B          506 AAAVTKLPSLRYLWVQGYR  524 (592)
T ss_dssp             HHHHHHCSSCCEEEEESCB
T ss_pred             HHHHHhcCccCeeECcCCc
Confidence            4445677888888888887

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.79  E-value=5.3e-21  Score=216.44  Aligned_cols=327  Identities=15%  Similarity=0.072  Sum_probs=224.3

Q ss_pred             CCceeEEEEEcCCCccc--cc-C-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCc-ccccc-cCCC
Q 045113          468 KNVKRFFALEQQSDFAY--LD-D-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQ-YPSEI-ENLS  541 (821)
Q Consensus       468 ~~~~r~lsl~~~~~~~~--~~-~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~-lp~~i-~~l~  541 (821)
                      +..++++.+.++.....  .. . .+++|++|.+.++.........+...+..+++|++|+|++|.++. .+..+ ..+.
T Consensus         2 ~~~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~   81 (461)
T 1z7x_W            2 SLDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQ   81 (461)
T ss_dssp             CEEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTC
T ss_pred             CccceehhhhhcccCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHHHHHHh
Confidence            34677888876654322  11 2 688999999998886532222456778888999999999998863 22222 2344


Q ss_pred             ----CceEEeecCCCCc-----cccHHHHhccccceEEecCCcccccc-hhhhc-----cCccCceeecCCcccCCC---
Q 045113          542 ----LLRYLKLNIPSLK-----SLPLSFFNYLLNLYTLDMPFSYIDHT-ADEFW-----KMKKLRHLNFGSITLPAH---  603 (821)
Q Consensus       542 ----~Lr~L~L~~~~i~-----~lp~~i~~~L~~L~~L~L~~~~l~~l-p~~i~-----~l~~L~~L~L~~~~~~~~---  603 (821)
                          +|++|++++|.+.     .+|..+. .+++|++|++++|.+... +..+.     ..++|++|++++|.+...   
T Consensus        82 ~~~~~L~~L~L~~n~i~~~~~~~l~~~l~-~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~  160 (461)
T 1z7x_W           82 TPSCKIQKLSLQNCCLTGAGCGVLSSTLR-TLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCE  160 (461)
T ss_dssp             STTCCCCEEECTTSCCBGGGHHHHHHHTT-SCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHH
T ss_pred             hCCCceeEEEccCCCCCHHHHHHHHHHHc-cCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHH
Confidence                6999999999887     4677777 899999999999976543 22222     356799999999987653   


Q ss_pred             -CCCCcCCCCCcceeccccCC---cchhh---hc-CCCCCCCeEEEeccccc--chhHHHHHccCCCCcCEEEeecCC--
Q 045113          604 -PGNYCGSLENLNFISALYPC---CCTKD---LL-GRLPNLRNLRIQGDLSY--NQSLLSKSLCRLSCLESLKLANES--  671 (821)
Q Consensus       604 -~p~~i~~l~~L~~L~~~~~~---~~~~~---~l-~~l~~L~~L~l~~~~~~--~~~~l~~~l~~~~~L~~L~l~~~~--  671 (821)
                       ++..+..+++|++|++..+.   ..+..   .+ ..+++|+.|++++|.-.  ....++..+..+++|++|++++|.  
T Consensus       161 ~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~  240 (461)
T 1z7x_W          161 PLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLG  240 (461)
T ss_dssp             HHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCH
T ss_pred             HHHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCC
Confidence             35556778899999988842   12222   01 13668999999988421  123577788888999999998742  


Q ss_pred             -------------CCCCCCeeEecc--------------cCCCCCcceEEEecccCCCCCccccc-----CCCCCCEEEE
Q 045113          672 -------------KMPRLSKIILAE--------------YVFPHSLTHLSFSNTDLMDDPMPALE-----KLPLLQVLKL  719 (821)
Q Consensus       672 -------------~~~~L~~l~l~~--------------~~~~~~L~~L~L~~~~l~~~~~~~l~-----~l~~L~~L~L  719 (821)
                                   .+++|+.|.+++              +..+++|+.|++++|.+.+..+..+.     ..++|+.|++
T Consensus       241 ~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L  320 (461)
T 1z7x_W          241 DVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWV  320 (461)
T ss_dssp             HHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEEC
T ss_pred             hHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEc
Confidence                         356788887765              22367888888888876543333333     2368888888


Q ss_pred             eccccCCCe---eeecCCCCcccceeeeccCCCccce-eeccc-----cccccceeEEeecCCCC----CCccccCCCCC
Q 045113          720 KQNSYSGRK---LTCGSDGFPRLKVLHLKSMLWLEEW-TMGTG-----AMPKLECLIINPCAYLK----KMPEQLWCIKS  786 (821)
Q Consensus       720 ~~~~~~~~~---~~~~~~~~~~L~~L~L~~~~~l~~~-~~~~~-----~l~~L~~L~i~~c~~l~----~lp~~l~~l~~  786 (821)
                      ++|.+.+..   +......+++|++|++++|. +... +..+.     .+++|++|++++|....    .+|..+..+++
T Consensus       321 ~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~  399 (461)
T 1z7x_W          321 KSCSFTAACCSHFSSVLAQNRFLLELQISNNR-LEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHS  399 (461)
T ss_dssp             TTSCCBGGGHHHHHHHHHHCSSCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCC
T ss_pred             CCCCCchHHHHHHHHHHhhCCCccEEEccCCc-cccccHHHHHHHHcCCCCceEEEECCCCCCChhhHHHHHHHHHhCCC
Confidence            877765542   12223456889999999884 4432 11111     26799999999996443    67888888999


Q ss_pred             CCEEEEeCCc
Q 045113          787 LNNFNCWWPQ  796 (821)
Q Consensus       787 L~~L~l~~c~  796 (821)
                      |++|++++|+
T Consensus       400 L~~L~l~~N~  409 (461)
T 1z7x_W          400 LRELDLSNNC  409 (461)
T ss_dssp             CCEEECCSSS
T ss_pred             ccEEECCCCC
Confidence            9999999987

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.79  E-value=9e-19  Score=206.35  Aligned_cols=299  Identities=19%  Similarity=0.178  Sum_probs=207.1

Q ss_pred             CCCceeEEEEEcCCCccccc--C-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccc-cccCCCC
Q 045113          467 RKNVKRFFALEQQSDFAYLD--D-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPS-EIENLSL  542 (821)
Q Consensus       467 ~~~~~r~lsl~~~~~~~~~~--~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~-~i~~l~~  542 (821)
                      .-...++|.+..+.....+.  . .+++|++|.+.++....    .+...|.++++|++|+|++|.++.+|+ .++++++
T Consensus        74 ~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~----l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~  149 (635)
T 4g8a_A           74 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQS----LALGAFSGLSSLQKLVAVETNLASLENFPIGHLKT  149 (635)
T ss_dssp             TCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCE----ECGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTT
T ss_pred             CCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCC----CCHHHhcCCCCCCEEECCCCcCCCCChhhhhcCcc
Confidence            45678999998887665433  2 79999999999987653    566789999999999999999998875 5899999


Q ss_pred             ceEEeecCCCCc--cccHHHHhccccceEEecCCcccccch-hhhccCcc------------------------------
Q 045113          543 LRYLKLNIPSLK--SLPLSFFNYLLNLYTLDMPFSYIDHTA-DEFWKMKK------------------------------  589 (821)
Q Consensus       543 Lr~L~L~~~~i~--~lp~~i~~~L~~L~~L~L~~~~l~~lp-~~i~~l~~------------------------------  589 (821)
                      |++|++++|.+.  .+|..+. .+++|++|++++|.+..++ ..+..+.+                              
T Consensus       150 L~~L~Ls~N~l~~~~~~~~~~-~l~~L~~L~L~~N~l~~~~~~~l~~L~~l~~~~~~~~ls~n~l~~i~~~~~~~~~~~~  228 (635)
T 4g8a_A          150 LKELNVAHNLIQSFKLPEYFS-NLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHK  228 (635)
T ss_dssp             CCEEECCSSCCCCCCCCGGGG-GCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCCEEECTTCCCCEECTTTTTTCEEEE
T ss_pred             cCeeccccCccccCCCchhhc-cchhhhhhcccCccccccccccccchhhhhhhhhhhhcccCcccccCcccccchhhhh
Confidence            999999999987  4677888 9999999999998766552 22222111                              


Q ss_pred             --------------------------------------------------------------------------------
Q 045113          590 --------------------------------------------------------------------------------  589 (821)
Q Consensus       590 --------------------------------------------------------------------------------  589 (821)
                                                                                                      
T Consensus       229 l~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~l  308 (635)
T 4g8a_A          229 LTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDGIIDLFNCLTNV  308 (635)
T ss_dssp             EEEESCCSSHHHHHHHHHTTTTCEEEEEEEECCTTSCCCSCCCTTTTGGGGGSEEEEEEEECCCSCEEECTTTTGGGTTC
T ss_pred             hhhhcccccccccchhhcCCcccccccccccccccccccccccccccccccchhhhhhhhhhhcccccchhhhhhhhccc
Confidence                                                                                            


Q ss_pred             ---------------------CceeecCCcccCCCC-------------------CCCcCCCCCcceeccccCC-----c
Q 045113          590 ---------------------LRHLNFGSITLPAHP-------------------GNYCGSLENLNFISALYPC-----C  624 (821)
Q Consensus       590 ---------------------L~~L~L~~~~~~~~~-------------------p~~i~~l~~L~~L~~~~~~-----~  624 (821)
                                           |++|++.+|.+....                   +.....+++|+.|++..+.     .
T Consensus       309 ~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~~~~  388 (635)
T 4g8a_A          309 SSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGC  388 (635)
T ss_dssp             SEEEEESCEEEECGGGGSCCCCSEEEEESCEESSCCCCBCTTCCEEEEESCCSCCBCCCCBCTTCCEEECCSSCCBEEEE
T ss_pred             ccccccccccccccccccchhhhhhhcccccccCcCcccchhhhhcccccccCCCCcccccccccccchhhccccccccc
Confidence                                 112222222111000                   0112346677777776531     1


Q ss_pred             chhh----------------------hcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCC----------C
Q 045113          625 CTKD----------------------LLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANES----------K  672 (821)
Q Consensus       625 ~~~~----------------------~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~----------~  672 (821)
                      .+..                      .+..+++|+.+++..+.. ....-+..+..+++++.++++.|.          .
T Consensus       389 ~~~~~~~~~~L~~L~~~~~~~~~~~~~~~~l~~L~~l~l~~~~~-~~~~~~~~~~~l~~l~~l~ls~n~l~~~~~~~~~~  467 (635)
T 4g8a_A          389 CSQSDFGTISLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNL-KQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNG  467 (635)
T ss_dssp             CCHHHHSCSCCCEEECCSCSEEEECSCCTTCTTCCEEECTTSEE-ESTTSSCTTTTCTTCCEEECTTSCCEECCTTTTTT
T ss_pred             cccchhhhhhhhhhhccccccccccccccccccccchhhhhccc-ccccccccccccccccccccccccccccccccccc
Confidence            1112                      023344444444443310 000111234566777888877642          4


Q ss_pred             CCCCCeeEecc-----------cCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccce
Q 045113          673 MPRLSKIILAE-----------YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKV  741 (821)
Q Consensus       673 ~~~L~~l~l~~-----------~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~  741 (821)
                      .+.++.+.+.+           +..+++|+.|+|++|.+++..+..++++++|+.|+|++|.+.+.. +..+.++++|+.
T Consensus       468 ~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N~L~~l~~~~f~~l~~L~~L~Ls~N~l~~l~-~~~~~~l~~L~~  546 (635)
T 4g8a_A          468 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLD-TFPYKCLNSLQV  546 (635)
T ss_dssp             CTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCBCC-CGGGTTCTTCCE
T ss_pred             chhhhhhhhhhcccccccCchhhhhccccCEEECCCCccCCcChHHHcCCCCCCEEECCCCcCCCCC-hhHHhCCCCCCE
Confidence            56777777765           667899999999999998888889999999999999999887643 344678999999


Q ss_pred             eeeccCCCccce-eeccccc-cccceeEEeecCC
Q 045113          742 LHLKSMLWLEEW-TMGTGAM-PKLECLIINPCAY  773 (821)
Q Consensus       742 L~L~~~~~l~~~-~~~~~~l-~~L~~L~i~~c~~  773 (821)
                      |+|++|. +..+ +..+..+ ++|+.|++++||.
T Consensus       547 L~Ls~N~-l~~~~~~~l~~l~~~L~~L~L~~Np~  579 (635)
T 4g8a_A          547 LDYSLNH-IMTSKKQELQHFPSSLAFLNLTQNDF  579 (635)
T ss_dssp             EECTTSC-CCBCCSSCTTCCCTTCCEEECTTCCB
T ss_pred             EECCCCc-CCCCCHHHHHhhhCcCCEEEeeCCCC
Confidence            9999985 5544 5556677 5899999999874

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.79  E-value=7e-19  Score=197.62  Aligned_cols=239  Identities=19%  Similarity=0.170  Sum_probs=108.8

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCcccc-HHHHhccccceEEecCCcccccch-hhhccCccCceeecCCc
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLP-LSFFNYLLNLYTLDMPFSYIDHTA-DEFWKMKKLRHLNFGSI  598 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp-~~i~~~L~~L~~L~L~~~~l~~lp-~~i~~l~~L~~L~L~~~  598 (821)
                      +.++.++..++.+|..+.  .++++|+|++|.+..++ ..+. ++++|++|+|++|.+..++ ..+.++++|++|++++|
T Consensus        46 ~~v~c~~~~l~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~-~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n  122 (440)
T 3zyj_A           46 SKVICVRKNLREVPDGIS--TNTRLLNLHENQIQIIKVNSFK-HLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDN  122 (440)
T ss_dssp             CEEECCSCCCSSCCSCCC--TTCSEEECCSCCCCEECTTTTS-SCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSS
T ss_pred             CEEEeCCCCcCcCCCCCC--CCCcEEEccCCcCCeeCHHHhh-CCCCCCEEECCCCcCCccChhhccCCccCCEEECCCC
Confidence            344555555555554433  34555555555555443 2333 5555555555555555443 34455555555555555


Q ss_pred             ccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCC
Q 045113          599 TLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRL  676 (821)
Q Consensus       599 ~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L  676 (821)
                      .+....+..+..+++|++|++..|  ...+...+.++++|+.|+++++.                             .+
T Consensus       123 ~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~-----------------------------~l  173 (440)
T 3zyj_A          123 RLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELK-----------------------------RL  173 (440)
T ss_dssp             CCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCT-----------------------------TC
T ss_pred             cCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCC-----------------------------Cc
Confidence            553322233444444444444432  11122125556666666665541                             11


Q ss_pred             CeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce-ee
Q 045113          677 SKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW-TM  755 (821)
Q Consensus       677 ~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~-~~  755 (821)
                      ..+....+..+++|+.|+|++|.++.  .+.+..+++|+.|+|++|.+.+. .+..+.++++|+.|+|++| .+..+ +.
T Consensus       174 ~~i~~~~~~~l~~L~~L~L~~n~l~~--~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~L~~n-~l~~~~~~  249 (440)
T 3zyj_A          174 SYISEGAFEGLSNLRYLNLAMCNLRE--IPNLTPLIKLDELDLSGNHLSAI-RPGSFQGLMHLQKLWMIQS-QIQVIERN  249 (440)
T ss_dssp             CEECTTTTTTCSSCCEEECTTSCCSS--CCCCTTCSSCCEEECTTSCCCEE-CTTTTTTCTTCCEEECTTC-CCCEECTT
T ss_pred             ceeCcchhhcccccCeecCCCCcCcc--ccccCCCcccCEEECCCCccCcc-ChhhhccCccCCEEECCCC-ceeEEChh
Confidence            11111123334444444444444432  22344555555555554444331 1222344555555555554 23333 22


Q ss_pred             ccccccccceeEEeecCCCCCCc-cccCCCCCCCEEEEeCCc
Q 045113          756 GTGAMPKLECLIINPCAYLKKMP-EQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       756 ~~~~l~~L~~L~i~~c~~l~~lp-~~l~~l~~L~~L~l~~c~  796 (821)
                      .+..+++|+.|++++|. ++.+| ..+..+++|+.|+++++|
T Consensus       250 ~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          250 AFDNLQSLVEINLAHNN-LTLLPHDLFTPLHHLERIHLHHNP  290 (440)
T ss_dssp             SSTTCTTCCEEECTTSC-CCCCCTTTTSSCTTCCEEECCSSC
T ss_pred             hhcCCCCCCEEECCCCC-CCccChhHhccccCCCEEEcCCCC
Confidence            34455555555555553 22333 234555555666555533

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.78  E-value=1.7e-18  Score=194.66  Aligned_cols=288  Identities=18%  Similarity=0.136  Sum_probs=189.3

Q ss_pred             CCceeEEEEEcCCCcccccCCCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEe
Q 045113          468 KNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLK  547 (821)
Q Consensus       468 ~~~~r~lsl~~~~~~~~~~~~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~  547 (821)
                      ....+.+.+..+...... ...++|++|.+.++....    .+  .|..+++|++|++++|.++.+|..+   .+|++|+
T Consensus       110 ~~~L~~L~l~~n~l~~l~-~~~~~L~~L~L~~n~l~~----lp--~~~~l~~L~~L~l~~N~l~~lp~~~---~~L~~L~  179 (454)
T 1jl5_A          110 PQSLKSLLVDNNNLKALS-DLPPLLEYLGVSNNQLEK----LP--ELQNSSFLKIIDVDNNSLKKLPDLP---PSLEFIA  179 (454)
T ss_dssp             CTTCCEEECCSSCCSCCC-SCCTTCCEEECCSSCCSS----CC--CCTTCTTCCEEECCSSCCSCCCCCC---TTCCEEE
T ss_pred             cCCCcEEECCCCccCccc-CCCCCCCEEECcCCCCCC----Cc--ccCCCCCCCEEECCCCcCcccCCCc---ccccEEE
Confidence            356788888766543321 123689999999887653    32  3888999999999999988887654   4899999


Q ss_pred             ecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCC-cch
Q 045113          548 LNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPC-CCT  626 (821)
Q Consensus       548 L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~-~~~  626 (821)
                      +++|.+..+| .+. ++++|++|++++|.+..+|...   ++|++|++++|.+. .+|. ++.+++|++|++..|. ..+
T Consensus       180 L~~n~l~~l~-~~~-~l~~L~~L~l~~N~l~~l~~~~---~~L~~L~l~~n~l~-~lp~-~~~l~~L~~L~l~~N~l~~l  252 (454)
T 1jl5_A          180 AGNNQLEELP-ELQ-NLPFLTAIYADNNSLKKLPDLP---LSLESIVAGNNILE-ELPE-LQNLPFLTTIYADNNLLKTL  252 (454)
T ss_dssp             CCSSCCSSCC-CCT-TCTTCCEEECCSSCCSSCCCCC---TTCCEEECCSSCCS-SCCC-CTTCTTCCEEECCSSCCSSC
T ss_pred             CcCCcCCcCc-ccc-CCCCCCEEECCCCcCCcCCCCc---CcccEEECcCCcCC-cccc-cCCCCCCCEEECCCCcCCcc
Confidence            9999998888 677 8999999999999888777533   58999999999885 6774 8899999999988742 112


Q ss_pred             hhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCC------CCCCCCeeEecc-----cCCC-CCcceEE
Q 045113          627 KDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANES------KMPRLSKIILAE-----YVFP-HSLTHLS  694 (821)
Q Consensus       627 ~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~------~~~~L~~l~l~~-----~~~~-~~L~~L~  694 (821)
                      +.   .+++|+.|++++|.   ...+|.   ..++|+.|++++|.      .+++|+.|.+++     +..+ ++|+.|+
T Consensus       253 ~~---~~~~L~~L~l~~N~---l~~l~~---~~~~L~~L~ls~N~l~~l~~~~~~L~~L~l~~N~l~~i~~~~~~L~~L~  323 (454)
T 1jl5_A          253 PD---LPPSLEALNVRDNY---LTDLPE---LPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELN  323 (454)
T ss_dssp             CS---CCTTCCEEECCSSC---CSCCCC---CCTTCCEEECCSSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEE
T ss_pred             cc---cccccCEEECCCCc---ccccCc---ccCcCCEEECcCCccCcccCcCCcCCEEECcCCcCCcccCCcCcCCEEE
Confidence            22   24788899988873   112222   23678888888752      235788887766     2233 6999999


Q ss_pred             EecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCcc--ceeeccccc------------
Q 045113          695 FSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLE--EWTMGTGAM------------  760 (821)
Q Consensus       695 L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~--~~~~~~~~l------------  760 (821)
                      +++|.+++ .+..   +++|+.|++++|.+...  +.   .+++|++|++++|+...  .+|..++.+            
T Consensus       324 Ls~N~l~~-lp~~---~~~L~~L~L~~N~l~~l--p~---~l~~L~~L~L~~N~l~~l~~ip~~l~~L~~n~~~~~i~~~  394 (454)
T 1jl5_A          324 VSNNKLIE-LPAL---PPRLERLIASFNHLAEV--PE---LPQNLKQLHVEYNPLREFPDIPESVEDLRMNSHLAEVPEL  394 (454)
T ss_dssp             CCSSCCSC-CCCC---CTTCCEEECCSSCCSCC--CC---CCTTCCEEECCSSCCSSCCCCCTTCCEEECCC--------
T ss_pred             CCCCcccc-cccc---CCcCCEEECCCCccccc--cc---hhhhccEEECCCCCCCcCCCChHHHHhhhhcccccccccc
Confidence            99999875 3433   68999999998887752  22   57899999999986444  456666666            


Q ss_pred             -cccceeEEeecCCCC--CCccccCCCCCCCEEEEeCCc
Q 045113          761 -PKLECLIINPCAYLK--KMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       761 -~~L~~L~i~~c~~l~--~lp~~l~~l~~L~~L~l~~c~  796 (821)
                       ++|+.|++++|+...  .+|.      +|+.|.+.+|.
T Consensus       395 ~~~L~~L~ls~N~l~~~~~iP~------sl~~L~~~~~~  427 (454)
T 1jl5_A          395 PQNLKQLHVETNPLREFPDIPE------SVEDLRMNSER  427 (454)
T ss_dssp             ---------------------------------------
T ss_pred             cCcCCEEECCCCcCCccccchh------hHhheeCcCcc
Confidence             899999999998654  5554      34555555543

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.78  E-value=1e-18  Score=197.02  Aligned_cols=226  Identities=22%  Similarity=0.223  Sum_probs=142.2

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccHHHHhcccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLSFFNYLLN  566 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~  566 (821)
                      -.++++.|.+.++....    ..+..|..+++|++|+|++|.++.++ ..+.++++|++|+|++|.+..+|......+++
T Consensus        73 ~~~~l~~L~L~~n~i~~----~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  148 (452)
T 3zyi_A           73 IPSNTRYLNLMENNIQM----IQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSK  148 (452)
T ss_dssp             CCTTCSEEECCSSCCCE----ECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTT
T ss_pred             CCCCccEEECcCCcCce----ECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCccChhhhcccCC
Confidence            34567777777766542    44456677777777777777776544 56677777777777777777666553326777


Q ss_pred             ceEEecCCcccccchh-hhccCccCceeecCCcccCCCCCC-CcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEec
Q 045113          567 LYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSITLPAHPGN-YCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQG  643 (821)
Q Consensus       567 L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~~~~~p~-~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~  643 (821)
                      |++|+|++|.+..+|. .+.++++|++|++++|...+.++. .+..+++|+.|++..| -..+.. +..+++|+.|++++
T Consensus       149 L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~Ls~  227 (452)
T 3zyi_A          149 LRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPN-LTPLVGLEELEMSG  227 (452)
T ss_dssp             CCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCC-CTTCTTCCEEECTT
T ss_pred             CCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccccccc-ccccccccEEECcC
Confidence            7777777777776654 566777777777776554454443 3666777777776663 222334 66666777777766


Q ss_pred             ccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccc
Q 045113          644 DLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNS  723 (821)
Q Consensus       644 ~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~  723 (821)
                      |  ...+..+..+..+++|+.|++++|    .+..+....+..+++|+.|+|++|.++...+..+..+++|+.|+|++|.
T Consensus       228 N--~l~~~~~~~~~~l~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          228 N--HFPEIRPGSFHGLSSLKKLWVMNS----QVSLIERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             S--CCSEECGGGGTTCTTCCEEECTTS----CCCEECTTTTTTCTTCCEEECCSSCCSCCCTTSSTTCTTCCEEECCSSC
T ss_pred             C--cCcccCcccccCccCCCEEEeCCC----cCceECHHHhcCCCCCCEEECCCCcCCccChHHhccccCCCEEEccCCC
Confidence            6  233333455666666666666543    4555544445566666666666666665555556666666666666654


Q ss_pred             c
Q 045113          724 Y  724 (821)
Q Consensus       724 ~  724 (821)
                      +
T Consensus       302 ~  302 (452)
T 3zyi_A          302 W  302 (452)
T ss_dssp             E
T ss_pred             c
Confidence            3

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.78  E-value=9.6e-19  Score=196.52  Aligned_cols=224  Identities=19%  Similarity=0.226  Sum_probs=134.4

Q ss_pred             CCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccHH-HHhcccc
Q 045113          489 YPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLS-FFNYLLN  566 (821)
Q Consensus       489 ~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~-i~~~L~~  566 (821)
                      .++++.|.+.++....    .....|..+++|++|+|++|.++.++ ..+.++++|++|+|++|.+..+|.. +. .+++
T Consensus        63 ~~~l~~L~L~~n~i~~----~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~-~l~~  137 (440)
T 3zyj_A           63 STNTRLLNLHENQIQI----IKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFV-YLSK  137 (440)
T ss_dssp             CTTCSEEECCSCCCCE----ECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSC-SCSS
T ss_pred             CCCCcEEEccCCcCCe----eCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCeeCHhHhh-cccc
Confidence            4566666666665542    33455666777777777777766444 4566677777777777776666653 44 6677


Q ss_pred             ceEEecCCcccccchh-hhccCccCceeecCCcccCCCCCC-CcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEec
Q 045113          567 LYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSITLPAHPGN-YCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQG  643 (821)
Q Consensus       567 L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~~~~~p~-~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~  643 (821)
                      |++|++++|.+..+|. .+.++++|++|++++|.....++. .+..+++|++|++..| -..++. +..+++|+.|++++
T Consensus       138 L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~Ls~  216 (440)
T 3zyj_A          138 LKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPN-LTPLIKLDELDLSG  216 (440)
T ss_dssp             CCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCCC-CTTCSSCCEEECTT
T ss_pred             CceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCccccc-cCCCcccCEEECCC
Confidence            7777777776666644 556677777777766544444443 4566666666666663 223334 56666666666666


Q ss_pred             ccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccc
Q 045113          644 DLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNS  723 (821)
Q Consensus       644 ~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~  723 (821)
                      |.  .....+..+..+++|+.|+++.|    .++.+....+..+++|+.|+|++|.++...+..+..+++|+.|+|++|.
T Consensus       217 N~--l~~~~~~~~~~l~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          217 NH--LSAIRPGSFQGLMHLQKLWMIQS----QIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHHNP  290 (440)
T ss_dssp             SC--CCEECTTTTTTCTTCCEEECTTC----CCCEECTTSSTTCTTCCEEECTTSCCCCCCTTTTSSCTTCCEEECCSSC
T ss_pred             Cc--cCccChhhhccCccCCEEECCCC----ceeEEChhhhcCCCCCCEEECCCCCCCccChhHhccccCCCEEEcCCCC
Confidence            52  22233445556666666666543    4555544445566666666666666655555555666666666666554


Q ss_pred             c
Q 045113          724 Y  724 (821)
Q Consensus       724 ~  724 (821)
                      +
T Consensus       291 ~  291 (440)
T 3zyj_A          291 W  291 (440)
T ss_dssp             E
T ss_pred             c
Confidence            3

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.78  E-value=1.7e-19  Score=210.94  Aligned_cols=305  Identities=15%  Similarity=0.072  Sum_probs=193.4

Q ss_pred             CCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCC----ccccHHHHhcc
Q 045113          489 YPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSL----KSLPLSFFNYL  564 (821)
Q Consensus       489 ~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i----~~lp~~i~~~L  564 (821)
                      +++|++|.+.++.........+...+..+++|+.|+|++|.+..+|..+.++++|++|+++....    ...+..+. .+
T Consensus       191 ~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~-~~  269 (592)
T 3ogk_B          191 NTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLV-FP  269 (592)
T ss_dssp             CCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCC-CC
T ss_pred             CCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccHHHHHHHHhhhhHHHhhcccccccccchHHHHHHhh-cc
Confidence            44444444443333211112333344444444444444444444444444444444444443211    12223333 44


Q ss_pred             ccceEEecCCcccccchhhhccCccCceeecCCcccCCCCC-CCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEE
Q 045113          565 LNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPG-NYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRI  641 (821)
Q Consensus       565 ~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p-~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l  641 (821)
                      ++|+.|+++++....+|..+..+++|++|++++|.+..... ..+..+++|++|++..+  ...+......+++|++|++
T Consensus       270 ~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~L  349 (592)
T 3ogk_B          270 RKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRI  349 (592)
T ss_dssp             TTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEEEGGGHHHHHHHHHHHCTTCCEEEE
T ss_pred             ccccccCccccchhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEeccCccCHHHHHHHHHhCCCCCEEEe
Confidence            45555555555455677778889999999999998644322 34688999999998752  2333342567899999999


Q ss_pred             ec----------ccccchhHHHHHccCCCCcCEEEeecCC-----------CCCCCCeeEecc-----------------
Q 045113          642 QG----------DLSYNQSLLSKSLCRLSCLESLKLANES-----------KMPRLSKIILAE-----------------  683 (821)
Q Consensus       642 ~~----------~~~~~~~~l~~~l~~~~~L~~L~l~~~~-----------~~~~L~~l~l~~-----------------  683 (821)
                      ++          +.......++.....+++|++|+++.+.           .+++|+.|.+.+                 
T Consensus       350 ~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~  429 (592)
T 3ogk_B          350 ERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVR  429 (592)
T ss_dssp             ECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEESCCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHH
T ss_pred             ecCccccccccccCccCHHHHHHHHhhCccCeEEEeecCCccHHHHHHHHhhCCCCcEEEEeecCCCccccCchHHHHHH
Confidence            94          4323444555556678999999996632           378999999962                 


Q ss_pred             --cCCCCCcceEEEeccc--CCCCCccccc-CCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccc--eeec
Q 045113          684 --YVFPHSLTHLSFSNTD--LMDDPMPALE-KLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEE--WTMG  756 (821)
Q Consensus       684 --~~~~~~L~~L~L~~~~--l~~~~~~~l~-~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~--~~~~  756 (821)
                        +..+++|+.|++++|.  +++..+..++ .+++|+.|+|++|.+++..+.....++++|++|+|++|+ +..  ++..
T Consensus       430 ~~~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~  508 (592)
T 3ogk_B          430 SLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVGESDEGLMEFSRGCPNLQKLEMRGCC-FSERAIAAA  508 (592)
T ss_dssp             HHHHHCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCCSSHHHHHHHHTCCTTCCEEEEESCC-CBHHHHHHH
T ss_pred             HHHHhCCCCCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCCCCHHHHHHHHhcCcccCeeeccCCC-CcHHHHHHH
Confidence              2348999999998764  5555555554 589999999998887765544445778999999999997 442  3334


Q ss_pred             cccccccceeEEeecCCCCC-CccccCCCCCCCEEEEeCC
Q 045113          757 TGAMPKLECLIINPCAYLKK-MPEQLWCIKSLNNFNCWWP  795 (821)
Q Consensus       757 ~~~l~~L~~L~i~~c~~l~~-lp~~l~~l~~L~~L~l~~c  795 (821)
                      ...+|+|+.|++++|..... +......+|.|....+...
T Consensus       509 ~~~l~~L~~L~ls~n~it~~~~~~l~~~~p~l~~~~~~~~  548 (592)
T 3ogk_B          509 VTKLPSLRYLWVQGYRASMTGQDLMQMARPYWNIELIPSR  548 (592)
T ss_dssp             HHHCSSCCEEEEESCBCCTTCTTGGGGCCTTEEEEEECCC
T ss_pred             HHhcCccCeeECcCCcCCHHHHHHHHHhCCCcEEEEecCc
Confidence            45799999999999984332 2222346777777766654

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.78  E-value=3.3e-19  Score=188.04  Aligned_cols=247  Identities=20%  Similarity=0.187  Sum_probs=175.5

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCCceEEeecCCC-Cccc-cHHHHhcc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNIPS-LKSL-PLSFFNYL  564 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~~~-i~~l-p~~i~~~L  564 (821)
                      -.++++.|.+.++....    .....|..+++|++|+|++|.++.+ |..+.++++|++|++++|. +..+ |..+. .+
T Consensus        30 ~~~~l~~L~l~~n~i~~----~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~-~l  104 (285)
T 1ozn_A           30 IPAASQRIFLHGNRISH----VPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFH-GL  104 (285)
T ss_dssp             CCTTCSEEECTTSCCCE----ECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTT-TC
T ss_pred             CCCCceEEEeeCCcCCc----cCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhc-CC
Confidence            56799999999988753    5556789999999999999999966 6789999999999999997 8877 56677 99


Q ss_pred             ccceEEecCCcccccc-hhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEE
Q 045113          565 LNLYTLDMPFSYIDHT-ADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRI  641 (821)
Q Consensus       565 ~~L~~L~L~~~~l~~l-p~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l  641 (821)
                      ++|++|++++|.+..+ |..+.++++|++|++++|.+....+..++.+++|++|++..|  ...+.              
T Consensus       105 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~--------------  170 (285)
T 1ozn_A          105 GRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPE--------------  170 (285)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECT--------------
T ss_pred             cCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCH--------------
Confidence            9999999999998888 567889999999999999986544444666666666665542  11111              


Q ss_pred             ecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEec
Q 045113          642 QGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQ  721 (821)
Q Consensus       642 ~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~  721 (821)
                                  ..+..+++|+.|++++|    .+..+....+..+++|+.|++++|.+++..+..+..+++|+.|+|++
T Consensus       171 ------------~~~~~l~~L~~L~l~~n----~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  234 (285)
T 1ozn_A          171 ------------RAFRGLHSLDRLLLHQN----RVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLND  234 (285)
T ss_dssp             ------------TTTTTCTTCCEEECCSS----CCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCS
T ss_pred             ------------HHhcCccccCEEECCCC----cccccCHhHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEeccC
Confidence                        12444555555555543    45555445566788899999999998876667789999999999998


Q ss_pred             cccCCCeeeecCCCCcccceeeeccCCCccceeecc--ccccccceeEEeec
Q 045113          722 NSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGT--GAMPKLECLIINPC  771 (821)
Q Consensus       722 ~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~--~~l~~L~~L~i~~c  771 (821)
                      |.+.......  .....|+.+....+......|...  ..+..++..++.+|
T Consensus       235 N~~~c~~~~~--~~~~~l~~~~~~~~~~~c~~p~~l~g~~l~~l~~~~l~~C  284 (285)
T 1ozn_A          235 NPWVCDCRAR--PLWAWLQKFRGSSSEVPCSLPQRLAGRDLKRLAANDLQGC  284 (285)
T ss_dssp             SCEECSGGGH--HHHHHHHHCCSEECCCBEEESGGGTTCBGGGSCGGGSCCC
T ss_pred             CCccCCCCcH--HHHHHHHhcccccCccccCCchHhCCcChhhcCHHHhccC
Confidence            8775432110  011234444444433222344332  23556666666666

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.77  E-value=4.2e-20  Score=198.05  Aligned_cols=265  Identities=17%  Similarity=0.118  Sum_probs=205.8

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      .+++|+.|.+.++....    ..+..|..+++|++|+|++|.++..++ +..+++|++|++++|.+..+|     .+++|
T Consensus        32 ~~~~L~~L~L~~n~l~~----~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls~n~l~~l~-----~~~~L  101 (317)
T 3o53_A           32 SAWNVKELDLSGNPLSQ----ISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNNYVQELL-----VGPSI  101 (317)
T ss_dssp             TGGGCSEEECTTSCCCC----CCHHHHTTCTTCCEEECTTSCCEEEEE-ETTCTTCCEEECCSSEEEEEE-----ECTTC
T ss_pred             cCCCCCEEECcCCccCc----CCHHHhhCCCcCCEEECCCCcCCcchh-hhhcCCCCEEECcCCcccccc-----CCCCc
Confidence            56799999999988754    566788999999999999999987665 999999999999999998777     56899


Q ss_pred             eEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC---CcchhhhcCCCCCCCeEEEecc
Q 045113          568 YTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP---CCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~---~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      ++|++++|.+..++..  .+++|++|++++|.+....|..++.+++|++|++..|   ...+......+++|+.|++++|
T Consensus       102 ~~L~l~~n~l~~~~~~--~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N  179 (317)
T 3o53_A          102 ETLHAANNNISRVSCS--RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYN  179 (317)
T ss_dssp             CEEECCSSCCSEEEEC--CCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTS
T ss_pred             CEEECCCCccCCcCcc--ccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCC
Confidence            9999999999888653  4789999999999997766778899999999999985   2334442357899999999998


Q ss_pred             cccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEecccc
Q 045113          645 LSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSY  724 (821)
Q Consensus       645 ~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~  724 (821)
                      .   ...++ ....+++|+.|++++|    .++.+... +..+++|+.|+|++|.++ ..+..+..+++|+.|++++|.+
T Consensus       180 ~---l~~~~-~~~~l~~L~~L~Ls~N----~l~~l~~~-~~~l~~L~~L~L~~N~l~-~l~~~~~~l~~L~~L~l~~N~~  249 (317)
T 3o53_A          180 F---IYDVK-GQVVFAKLKTLDLSSN----KLAFMGPE-FQSAAGVTWISLRNNKLV-LIEKALRFSQNLEHFDLRGNGF  249 (317)
T ss_dssp             C---CCEEE-CCCCCTTCCEEECCSS----CCCEECGG-GGGGTTCSEEECTTSCCC-EECTTCCCCTTCCEEECTTCCC
T ss_pred             c---Ccccc-cccccccCCEEECCCC----cCCcchhh-hcccCcccEEECcCCccc-chhhHhhcCCCCCEEEccCCCc
Confidence            4   22222 3345889999999875    66665433 678899999999999987 5677889999999999999988


Q ss_pred             CCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCC
Q 045113          725 SGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYL  774 (821)
Q Consensus       725 ~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l  774 (821)
                      ....++.....+++|+.|++.+++.+..........+.+....-..|..+
T Consensus       250 ~~~~~~~~~~~~~~L~~l~l~~~~~l~~~~~~~~~~~~~~~~~~~cc~~l  299 (317)
T 3o53_A          250 HCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDL  299 (317)
T ss_dssp             BHHHHHHHHHTCHHHHHHHHHHHHHHHSSSSCCCSSTTCEEETTEEEBCC
T ss_pred             cCcCHHHHHhccccceEEECCCchhccCCchhccCCCceecccceeeccC
Confidence            74344445677899999999977666544333333333333333345444

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.77  E-value=2e-18  Score=200.10  Aligned_cols=236  Identities=17%  Similarity=0.033  Sum_probs=160.2

Q ss_pred             CCCceeEEEEEcCCCcccccCCCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEE
Q 045113          467 RKNVKRFFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYL  546 (821)
Q Consensus       467 ~~~~~r~lsl~~~~~~~~~~~~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L  546 (821)
                      .+..++.|.+.++....++. .+++|++|.+.++....    ++.    .+++|++|+|++|.++.+|.   .+++|++|
T Consensus        59 l~~~L~~L~L~~N~l~~lp~-~l~~L~~L~Ls~N~l~~----lp~----~l~~L~~L~Ls~N~l~~l~~---~l~~L~~L  126 (622)
T 3g06_A           59 LPAHITTLVIPDNNLTSLPA-LPPELRTLEVSGNQLTS----LPV----LPPGLLELSIFSNPLTHLPA---LPSGLCKL  126 (622)
T ss_dssp             CCTTCSEEEECSCCCSCCCC-CCTTCCEEEECSCCCSC----CCC----CCTTCCEEEECSCCCCCCCC---CCTTCCEE
T ss_pred             hCCCCcEEEecCCCCCCCCC-cCCCCCEEEcCCCcCCc----CCC----CCCCCCEEECcCCcCCCCCC---CCCCcCEE
Confidence            34679999999887664433 78999999999988653    222    78999999999999999887   67899999


Q ss_pred             eecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCC-cc
Q 045113          547 KLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPC-CC  625 (821)
Q Consensus       547 ~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~-~~  625 (821)
                      ++++|.+..+|..    +++|++|++++|.+..+|.   .+++|+.|++++|.+. .+|   ..+++|+.|++..|. ..
T Consensus       127 ~L~~N~l~~lp~~----l~~L~~L~Ls~N~l~~l~~---~~~~L~~L~L~~N~l~-~l~---~~~~~L~~L~Ls~N~l~~  195 (622)
T 3g06_A          127 WIFGNQLTSLPVL----PPGLQELSVSDNQLASLPA---LPSELCKLWAYNNQLT-SLP---MLPSGLQELSVSDNQLAS  195 (622)
T ss_dssp             ECCSSCCSCCCCC----CTTCCEEECCSSCCSCCCC---CCTTCCEEECCSSCCS-CCC---CCCTTCCEEECCSSCCSC
T ss_pred             ECCCCCCCcCCCC----CCCCCEEECcCCcCCCcCC---ccCCCCEEECCCCCCC-CCc---ccCCCCcEEECCCCCCCC
Confidence            9999999999853    5899999999999998876   4578999999999984 466   456778888877742 11


Q ss_pred             hhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCc
Q 045113          626 TKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPM  705 (821)
Q Consensus       626 ~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~  705 (821)
                      ++.   .+++|+.|++++|.   ...+|   ..+++|+.|++++|    .++.+.    ..+++|+.|+|++|.++. +|
T Consensus       196 l~~---~~~~L~~L~L~~N~---l~~l~---~~~~~L~~L~Ls~N----~L~~lp----~~l~~L~~L~Ls~N~L~~-lp  257 (622)
T 3g06_A          196 LPT---LPSELYKLWAYNNR---LTSLP---ALPSGLKELIVSGN----RLTSLP----VLPSELKELMVSGNRLTS-LP  257 (622)
T ss_dssp             CCC---CCTTCCEEECCSSC---CSSCC---CCCTTCCEEECCSS----CCSCCC----CCCTTCCEEECCSSCCSC-CC
T ss_pred             CCC---ccchhhEEECcCCc---ccccC---CCCCCCCEEEccCC----ccCcCC----CCCCcCcEEECCCCCCCc-CC
Confidence            111   24667777777763   11222   12355666666543    333321    234566666666665542 22


Q ss_pred             ccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCC
Q 045113          706 PALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSML  748 (821)
Q Consensus       706 ~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~  748 (821)
                      .   .+++|+.|+|++|.+..  ++.....+++|+.|+|++|+
T Consensus       258 ~---~~~~L~~L~Ls~N~L~~--lp~~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          258 M---LPSGLLSLSVYRNQLTR--LPESLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             C---CCTTCCEEECCSSCCCS--CCGGGGGSCTTCEEECCSCC
T ss_pred             c---ccccCcEEeCCCCCCCc--CCHHHhhccccCEEEecCCC
Confidence            2   45566666666555542  22334555666666666654

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.76  E-value=1.8e-19  Score=204.51  Aligned_cols=235  Identities=15%  Similarity=0.083  Sum_probs=170.8

Q ss_pred             ccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCcee
Q 045113          515 EMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHL  593 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L  593 (821)
                      ..+++|+.|+|++|.++.++ ..++++++|++|+|++|.+...++ +. .+++|++|+|++|.+..+|.    .++|++|
T Consensus        31 ~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-l~-~l~~L~~L~Ls~N~l~~l~~----~~~L~~L  104 (487)
T 3oja_A           31 QSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD-LE-SLSTLRTLDLNNNYVQELLV----GPSIETL  104 (487)
T ss_dssp             TTGGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEE-CT-TCTTCCEEECCSSEEEEEEE----CTTCCEE
T ss_pred             ccCCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc-cc-cCCCCCEEEecCCcCCCCCC----CCCcCEE
Confidence            34457888888888887554 577888888888888888775554 66 78888888888887777653    3778888


Q ss_pred             ecCCcccCCCCCCCcCCCCCcceeccccC--Cc-chhhhcCCCCCCCeEEEecccccchhHHHHHcc-CCCCcCEEEeec
Q 045113          594 NFGSITLPAHPGNYCGSLENLNFISALYP--CC-CTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLC-RLSCLESLKLAN  669 (821)
Q Consensus       594 ~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~-~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~-~~~~L~~L~l~~  669 (821)
                      ++++|.+.+..+.   .+++|++|++..|  .. .+.. ++.+++|+.|++++|.  ..+..|..+. .+++|+.|++++
T Consensus       105 ~L~~N~l~~~~~~---~l~~L~~L~L~~N~l~~~~~~~-~~~l~~L~~L~Ls~N~--l~~~~~~~l~~~l~~L~~L~Ls~  178 (487)
T 3oja_A          105 HAANNNISRVSCS---RGQGKKNIYLANNKITMLRDLD-EGCRSRVQYLDLKLNE--IDTVNFAELAASSDTLEHLNLQY  178 (487)
T ss_dssp             ECCSSCCCCEEEC---CCSSCEEEECCSSCCCSGGGBC-GGGGSSEEEEECTTSC--CCEEEGGGGGGGTTTCCEEECTT
T ss_pred             ECcCCcCCCCCcc---ccCCCCEEECCCCCCCCCCchh-hcCCCCCCEEECCCCC--CCCcChHHHhhhCCcccEEecCC
Confidence            8888887554433   3567788887774  22 2334 6778888888888873  3333445554 678888888886


Q ss_pred             CCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCC
Q 045113          670 ESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLW  749 (821)
Q Consensus       670 ~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~  749 (821)
                      |    .+..+  .+...+++|+.|+|++|.+++ .++.++.+++|+.|+|++|.+.+  ++.....+++|+.|++++|+.
T Consensus       179 N----~l~~~--~~~~~l~~L~~L~Ls~N~l~~-~~~~~~~l~~L~~L~Ls~N~l~~--lp~~l~~l~~L~~L~l~~N~l  249 (487)
T 3oja_A          179 N----FIYDV--KGQVVFAKLKTLDLSSNKLAF-MGPEFQSAAGVTWISLRNNKLVL--IEKALRFSQNLEHFDLRGNGF  249 (487)
T ss_dssp             S----CCCEE--ECCCCCTTCCEEECCSSCCCE-ECGGGGGGTTCSEEECTTSCCCE--ECTTCCCCTTCCEEECTTCCB
T ss_pred             C----ccccc--cccccCCCCCEEECCCCCCCC-CCHhHcCCCCccEEEecCCcCcc--cchhhccCCCCCEEEcCCCCC
Confidence            5    55555  234468999999999999875 45568899999999999888875  444467789999999999865


Q ss_pred             c-cceeeccccccccceeEEee
Q 045113          750 L-EEWTMGTGAMPKLECLIINP  770 (821)
Q Consensus       750 l-~~~~~~~~~l~~L~~L~i~~  770 (821)
                      . ..++..+..++.|+.|.+..
T Consensus       250 ~c~~~~~~~~~l~~L~~l~~~~  271 (487)
T 3oja_A          250 HCGTLRDFFSKNQRVQTVAKQT  271 (487)
T ss_dssp             CHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCcchHHHHHhCCCCcEEeccc
Confidence            4 25555677888888888863

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.75  E-value=1.2e-19  Score=194.05  Aligned_cols=246  Identities=16%  Similarity=0.137  Sum_probs=137.6

Q ss_pred             hhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCc--cccHHHH------hccccceEEecCCcccc-cchhh
Q 045113          513 ICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLK--SLPLSFF------NYLLNLYTLDMPFSYID-HTADE  583 (821)
Q Consensus       513 ~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~--~lp~~i~------~~L~~L~~L~L~~~~l~-~lp~~  583 (821)
                      ++...+.|+.|++++|.+ .+|..+...  |++|++++|.+.  .+|..+.      .++++|++|++++|.+. .+|..
T Consensus        38 ~~~~~~~L~~l~l~~n~l-~~p~~~~~~--L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~  114 (312)
T 1wwl_A           38 LYGGGRSLEYLLKRVDTE-ADLGQFTDI--IKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPP  114 (312)
T ss_dssp             EEEEEEECTTHHHHCCTT-CCCHHHHHH--HHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCC
T ss_pred             EEccCCCceeEeeccccc-ccHHHHHHH--HhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHH
Confidence            345556677777777776 666655543  667777776664  3454331      03667777777777665 45665


Q ss_pred             h--ccCccCceeecCCcccCCCCCCCcCCC-----CCcceeccccC--Ccch-hhhcCCCCCCCeEEEecccccchhH--
Q 045113          584 F--WKMKKLRHLNFGSITLPAHPGNYCGSL-----ENLNFISALYP--CCCT-KDLLGRLPNLRNLRIQGDLSYNQSL--  651 (821)
Q Consensus       584 i--~~l~~L~~L~L~~~~~~~~~p~~i~~l-----~~L~~L~~~~~--~~~~-~~~l~~l~~L~~L~l~~~~~~~~~~--  651 (821)
                      +  ..+++|++|++++|.+.+. |..++.+     ++|++|++.+|  ...+ .. ++.+++|+.|++++|.  ..+.  
T Consensus       115 ~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~-~~~l~~L~~L~Ls~N~--l~~~~~  190 (312)
T 1wwl_A          115 LLEATGPDLNILNLRNVSWATR-DAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQ-VRVFPALSTLDLSDNP--ELGERG  190 (312)
T ss_dssp             SSSCCSCCCSEEEEESCBCSSS-SSHHHHHHTTCCTTCCEEEEESCSCCCCCTTT-CCCCSSCCEEECCSCT--TCHHHH
T ss_pred             HHHhcCCCccEEEccCCCCcch-hHHHHHHHHhhcCCCcEEEeeCCCCccchHHH-hccCCCCCEEECCCCC--cCcchH
Confidence            4  6677777777777776544 5555544     56666666553  2222 33 5566666666666652  1221  


Q ss_pred             HHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCC--CCc-ccccCCCCCCEEEEeccccCCCe
Q 045113          652 LSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMD--DPM-PALEKLPLLQVLKLKQNSYSGRK  728 (821)
Q Consensus       652 l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~--~~~-~~l~~l~~L~~L~L~~~~~~~~~  728 (821)
                      ++..+.                          +..+++|+.|+|++|.++.  ..+ ..+..+++|+.|+|++|.+.+..
T Consensus       191 ~~~~~~--------------------------~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~  244 (312)
T 1wwl_A          191 LISALC--------------------------PLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAA  244 (312)
T ss_dssp             HHHHSC--------------------------TTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSC
T ss_pred             HHHHHH--------------------------hccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCccc
Confidence            233330                          1334555555555555442  111 12245566666666666655533


Q ss_pred             eeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          729 LTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       729 ~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      .......+++|++|++++| .+..+|....  ++|+.|++++|. ++.+|. +..+++|++|++++++
T Consensus       245 ~~~~~~~l~~L~~L~Ls~N-~l~~ip~~~~--~~L~~L~Ls~N~-l~~~p~-~~~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          245 GAPSCDWPSQLNSLNLSFT-GLKQVPKGLP--AKLSVLDLSYNR-LDRNPS-PDELPQVGNLSLKGNP  307 (312)
T ss_dssp             CCSCCCCCTTCCEEECTTS-CCSSCCSSCC--SEEEEEECCSSC-CCSCCC-TTTSCEEEEEECTTCT
T ss_pred             chhhhhhcCCCCEEECCCC-ccChhhhhcc--CCceEEECCCCC-CCCChh-HhhCCCCCEEeccCCC
Confidence            2222344566777777665 3455554443  667777777664 444555 6667777777776665

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.75  E-value=1e-18  Score=204.30  Aligned_cols=323  Identities=14%  Similarity=0.074  Sum_probs=205.7

Q ss_pred             CceeEEEEEcCCCccc--ccC--CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCc-----ccccccC
Q 045113          469 NVKRFFALEQQSDFAY--LDD--YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQ-----YPSEIEN  539 (821)
Q Consensus       469 ~~~r~lsl~~~~~~~~--~~~--~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~-----lp~~i~~  539 (821)
                      ..++++.+..+.....  ...  .+++|++|.+.++....  ...+..++..+++|++|+|++|.++.     ++.....
T Consensus       105 ~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~--~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~  182 (594)
T 2p1m_B          105 TWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFS--TDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDT  182 (594)
T ss_dssp             TTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEE--HHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTT
T ss_pred             CCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCC--HHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhc
Confidence            4677888887653221  111  58899999998874321  23456677789999999999998652     3343447


Q ss_pred             CCCceEEeecCCC--Cc--cccHHHHhccccceEEecCCc-ccccchhhhccCccCceeecCCccc--------------
Q 045113          540 LSLLRYLKLNIPS--LK--SLPLSFFNYLLNLYTLDMPFS-YIDHTADEFWKMKKLRHLNFGSITL--------------  600 (821)
Q Consensus       540 l~~Lr~L~L~~~~--i~--~lp~~i~~~L~~L~~L~L~~~-~l~~lp~~i~~l~~L~~L~L~~~~~--------------  600 (821)
                      +++|++|++++|.  +.  .++..+. ++++|++|++++| .+..+|..+.++++|++|+++++..              
T Consensus       183 ~~~L~~L~l~~~~~~~~~~~l~~l~~-~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~l~~~l  261 (594)
T 2p1m_B          183 YTSLVSLNISCLASEVSFSALERLVT-RCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVAL  261 (594)
T ss_dssp             CCCCCEEECTTCCSCCCHHHHHHHHH-HCTTCCEEECCTTSCHHHHHHHHHHCTTCSEEECSBCCCCCCHHHHHHHHHHH
T ss_pred             CCcCcEEEecccCCcCCHHHHHHHHH-hCCCCcEEecCCCCcHHHHHHHHhcCCcceEcccccccCccchhhHHHHHHHH
Confidence            7899999999986  32  3433344 7899999999998 6777888888899999998765521              


Q ss_pred             ------------C----CCCCCCcCCCCCcceeccccCC---cchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCC
Q 045113          601 ------------P----AHPGNYCGSLENLNFISALYPC---CCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSC  661 (821)
Q Consensus       601 ------------~----~~~p~~i~~l~~L~~L~~~~~~---~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~  661 (821)
                                  .    ..++..+..+++|++|++..+.   ..+...+.++++|+.|++.++  .....++.....+++
T Consensus       262 ~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~L~L~~~~l~~~~l~~~~~~~~~L~~L~l~~~--~~~~~l~~l~~~~~~  339 (594)
T 2p1m_B          262 SGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDY--IEDAGLEVLASTCKD  339 (594)
T ss_dssp             HTCTTCCEEECCBTCCGGGGGGGHHHHTTCCEEECTTCCCCHHHHHHHHTTCTTCCEEEEEGG--GHHHHHHHHHHHCTT
T ss_pred             hcCCCcccccCCcccchhhHHHHHHhhCCCCEEEccCCCCCHHHHHHHHhcCCCcCEEeCcCc--cCHHHHHHHHHhCCC
Confidence                        0    1122222355677777776632   222333567788888888776  333444444455777


Q ss_pred             cCEEEeec----------CC----------CCCCCCeeEecc-----------cCCCCCcceEEEe--c----ccCCCCC
Q 045113          662 LESLKLAN----------ES----------KMPRLSKIILAE-----------YVFPHSLTHLSFS--N----TDLMDDP  704 (821)
Q Consensus       662 L~~L~l~~----------~~----------~~~~L~~l~l~~-----------~~~~~~L~~L~L~--~----~~l~~~~  704 (821)
                      |+.|+++.          .+          .+++|+.|.+..           ...+++|+.|+++  +    +.+++..
T Consensus       340 L~~L~L~~~~~~g~~~~~~l~~~~l~~l~~~~~~L~~L~~~~~~l~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~  419 (594)
T 2p1m_B          340 LRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEP  419 (594)
T ss_dssp             CCEEEEECSCTTCSSCSSCCCHHHHHHHHHHCTTCCEEEEEESCCCHHHHHHHHHHCTTCCEEEEEESSTTCCCTTTCCC
T ss_pred             CCEEEEecCcccccccCCCCCHHHHHHHHHhchhHHHHHHhcCCcCHHHHHHHHhhCCCcceeEeecccCCCcccccCCc
Confidence            88887732          11          256777775543           1246777888877  2    2333211


Q ss_pred             c-----ccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeec-cccccccceeEEeecCCCCC-C
Q 045113          705 M-----PALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMG-TGAMPKLECLIINPCAYLKK-M  777 (821)
Q Consensus       705 ~-----~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~-~~~l~~L~~L~i~~c~~l~~-l  777 (821)
                      .     ..+..+++|+.|+|++ .+.+..+......+++|+.|+|++|......... ...+|+|+.|++++|+.... +
T Consensus       420 ~~~~~~~l~~~~~~L~~L~L~~-~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~~~~~~~  498 (594)
T 2p1m_B          420 LDIGFGAIVEHCKDLRRLSLSG-LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKAL  498 (594)
T ss_dssp             THHHHHHHHHHCTTCCEEECCS-SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHHHHHHHCTTCCEEEEESCSCCHHHH
T ss_pred             hhhHHHHHHhhCCCccEEeecC-cccHHHHHHHHHhchhccEeeccCCCCcHHHHHHHHhcCCCcCEEECcCCCCcHHHH
Confidence            1     1245677788887764 3333222221223788999999988532222222 25689999999999987322 2


Q ss_pred             ccccCCCCCCCEEEEeCCcH
Q 045113          778 PEQLWCIKSLNNFNCWWPQP  797 (821)
Q Consensus       778 p~~l~~l~~L~~L~l~~c~~  797 (821)
                      +..+.++++|+.|++++|+.
T Consensus       499 ~~~~~~l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          499 LANASKLETMRSLWMSSCSV  518 (594)
T ss_dssp             HHTGGGGGGSSEEEEESSCC
T ss_pred             HHHHHhCCCCCEEeeeCCCC
Confidence            23456789999999999983

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.75  E-value=3.9e-19  Score=201.75  Aligned_cols=240  Identities=13%  Similarity=0.084  Sum_probs=159.6

Q ss_pred             cccccccCCC----CceEEeecCCCCcccc-HHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCC
Q 045113          532 QYPSEIENLS----LLRYLKLNIPSLKSLP-LSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGN  606 (821)
Q Consensus       532 ~lp~~i~~l~----~Lr~L~L~~~~i~~lp-~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~  606 (821)
                      .+|..+..+.    +|++|+|++|.+..+| ..+. .+++|++|+|++|.+..+++ +..+++|++|++++|.+.+ +| 
T Consensus        21 ~l~~~l~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~-~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~l~~-l~-   96 (487)
T 3oja_A           21 SLKQALASLRQSAWNVKELDLSGNPLSQISAADLA-PFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNNYVQE-LL-   96 (487)
T ss_dssp             THHHHHHTTSTTGGGCCEEECCSSCCCCCCGGGGT-TCTTCCEEECTTSCCEEEEE-CTTCTTCCEEECCSSEEEE-EE-
T ss_pred             hhHHHHHHhcccCCCccEEEeeCCcCCCCCHHHHh-CCCCCCEEEeeCCCCCCCcc-cccCCCCCEEEecCCcCCC-CC-
Confidence            4555555444    8999999999999775 5677 99999999999998887765 8999999999999998843 32 


Q ss_pred             CcCCCCCcceeccccCC--cchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEeccc
Q 045113          607 YCGSLENLNFISALYPC--CCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEY  684 (821)
Q Consensus       607 ~i~~l~~L~~L~~~~~~--~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~  684 (821)
                         ..++|++|++..|.  ..+   ...+++|+.|++++|.  ..+..|..+..+++|+.|++++|    .+....+..+
T Consensus        97 ---~~~~L~~L~L~~N~l~~~~---~~~l~~L~~L~L~~N~--l~~~~~~~~~~l~~L~~L~Ls~N----~l~~~~~~~l  164 (487)
T 3oja_A           97 ---VGPSIETLHAANNNISRVS---CSRGQGKKNIYLANNK--ITMLRDLDEGCRSRVQYLDLKLN----EIDTVNFAEL  164 (487)
T ss_dssp             ---ECTTCCEEECCSSCCCCEE---ECCCSSCEEEECCSSC--CCSGGGBCGGGGSSEEEEECTTS----CCCEEEGGGG
T ss_pred             ---CCCCcCEEECcCCcCCCCC---ccccCCCCEEECCCCC--CCCCCchhhcCCCCCCEEECCCC----CCCCcChHHH
Confidence               33788888887742  222   2346778888888772  33333445566677777777654    5555555444


Q ss_pred             C-CCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeecccccccc
Q 045113          685 V-FPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKL  763 (821)
Q Consensus       685 ~-~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L  763 (821)
                      . .+++|+.|+|++|.+++.  +.+..+++|+.|+|++|.+.+.  +..+..+++|+.|+|++| .+..+|..+..+++|
T Consensus       165 ~~~l~~L~~L~Ls~N~l~~~--~~~~~l~~L~~L~Ls~N~l~~~--~~~~~~l~~L~~L~Ls~N-~l~~lp~~l~~l~~L  239 (487)
T 3oja_A          165 AASSDTLEHLNLQYNFIYDV--KGQVVFAKLKTLDLSSNKLAFM--GPEFQSAAGVTWISLRNN-KLVLIEKALRFSQNL  239 (487)
T ss_dssp             GGGTTTCCEEECTTSCCCEE--ECCCCCTTCCEEECCSSCCCEE--CGGGGGGTTCSEEECTTS-CCCEECTTCCCCTTC
T ss_pred             hhhCCcccEEecCCCccccc--cccccCCCCCEEECCCCCCCCC--CHhHcCCCCccEEEecCC-cCcccchhhccCCCC
Confidence            3 567777777777766532  3344567777777776666542  222455667777777775 455566666666777


Q ss_pred             ceeEEeecCCC-CCCccccCCCCCCCEEEE
Q 045113          764 ECLIINPCAYL-KKMPEQLWCIKSLNNFNC  792 (821)
Q Consensus       764 ~~L~i~~c~~l-~~lp~~l~~l~~L~~L~l  792 (821)
                      +.|++++|+.. ..+|..+..++.|+.+++
T Consensus       240 ~~L~l~~N~l~c~~~~~~~~~l~~L~~l~~  269 (487)
T 3oja_A          240 EHFDLRGNGFHCGTLRDFFSKNQRVQTVAK  269 (487)
T ss_dssp             CEEECTTCCBCHHHHHHHHTTCHHHHHHHH
T ss_pred             CEEEcCCCCCcCcchHHHHHhCCCCcEEec
Confidence            77777776654 244555555555555544

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.74  E-value=1e-18  Score=186.83  Aligned_cols=240  Identities=18%  Similarity=0.160  Sum_probs=149.8

Q ss_pred             CCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC--ccccccc-------CCCCceEEeecCCCCc-cccH
Q 045113          489 YPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN--QYPSEIE-------NLSLLRYLKLNIPSLK-SLPL  558 (821)
Q Consensus       489 ~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~--~lp~~i~-------~l~~Lr~L~L~~~~i~-~lp~  558 (821)
                      .++|+.|.+.++.. .    .+..+...   |+.|+|+++.+.  .+|..+.       ++++|++|++++|.+. .+|.
T Consensus        42 ~~~L~~l~l~~n~l-~----~p~~~~~~---L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~  113 (312)
T 1wwl_A           42 GRSLEYLLKRVDTE-A----DLGQFTDI---IKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPP  113 (312)
T ss_dssp             EEECTTHHHHCCTT-C----CCHHHHHH---HHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCC
T ss_pred             CCCceeEeeccccc-c----cHHHHHHH---HhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHH
Confidence            34455555555544 2    23333322   778888888875  4666555       7888888888888887 6777


Q ss_pred             HH--HhccccceEEecCCcccccchhhhccC-----ccCceeecCCcccCCCCCCCcCCCCCcceeccccCC-c----ch
Q 045113          559 SF--FNYLLNLYTLDMPFSYIDHTADEFWKM-----KKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPC-C----CT  626 (821)
Q Consensus       559 ~i--~~~L~~L~~L~L~~~~l~~lp~~i~~l-----~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~-~----~~  626 (821)
                      .+  . .+++|++|++++|.+..+|..+..+     ++|++|++++|.+.+..|..++.+++|++|++.+|. .    .+
T Consensus       114 ~~~~~-~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~  192 (312)
T 1wwl_A          114 PLLEA-TGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLI  192 (312)
T ss_dssp             CSSSC-CSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHH
T ss_pred             HHHHh-cCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEECCCCCcCcchHHH
Confidence            65  6 8888888888888888777777776     888889888888876666788888888888888853 1    23


Q ss_pred             hhhc--CCCCCCCeEEEecccccchhHHHHH-ccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCC
Q 045113          627 KDLL--GRLPNLRNLRIQGDLSYNQSLLSKS-LCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDD  703 (821)
Q Consensus       627 ~~~l--~~l~~L~~L~l~~~~~~~~~~l~~~-l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~  703 (821)
                      .. +  +.+++|+.|++++|.-.....++.. +..+++|+.|++++                            |.+.+.
T Consensus       193 ~~-~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~----------------------------N~l~~~  243 (312)
T 1wwl_A          193 SA-LCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSH----------------------------NSLRDA  243 (312)
T ss_dssp             HH-SCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTT----------------------------SCCCSS
T ss_pred             HH-HHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCC----------------------------CcCCcc
Confidence            34 4  8899999999999842222344433 34556666666654                            443332


Q ss_pred             Cc-ccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecC
Q 045113          704 PM-PALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCA  772 (821)
Q Consensus       704 ~~-~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~  772 (821)
                      .+ +.+..+++|+.|+|++|.+..  ++...  +++|++|++++| .+..+|. +..+++|+.|++++|+
T Consensus       244 ~~~~~~~~l~~L~~L~Ls~N~l~~--ip~~~--~~~L~~L~Ls~N-~l~~~p~-~~~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          244 AGAPSCDWPSQLNSLNLSFTGLKQ--VPKGL--PAKLSVLDLSYN-RLDRNPS-PDELPQVGNLSLKGNP  307 (312)
T ss_dssp             CCCSCCCCCTTCCEEECTTSCCSS--CCSSC--CSEEEEEECCSS-CCCSCCC-TTTSCEEEEEECTTCT
T ss_pred             cchhhhhhcCCCCEEECCCCccCh--hhhhc--cCCceEEECCCC-CCCCChh-HhhCCCCCEEeccCCC
Confidence            21 233344555555555444441  11111  145555555554 3444443 4555555555555554

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.72  E-value=2.7e-17  Score=171.95  Aligned_cols=207  Identities=20%  Similarity=0.222  Sum_probs=108.9

Q ss_pred             ccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhh-hccCccCcee
Q 045113          515 EMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHL  593 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~-i~~l~~L~~L  593 (821)
                      ..++.|+.|+++++.++.++. +..+++|++|++++|.+..++ .+. .+++|++|++++|.+..+|.. +.++++|++|
T Consensus        38 ~~l~~L~~L~l~~~~i~~~~~-l~~l~~L~~L~l~~n~l~~~~-~l~-~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  114 (272)
T 3rfs_A           38 NELNSIDQIIANNSDIKSVQG-IQYLPNVRYLALGGNKLHDIS-ALK-ELTNLTYLILTGNQLQSLPNGVFDKLTNLKEL  114 (272)
T ss_dssp             HHHTTCCEEECTTSCCCCCTT-GGGCTTCCEEECTTSCCCCCG-GGT-TCTTCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             ccccceeeeeeCCCCcccccc-cccCCCCcEEECCCCCCCCch-hhc-CCCCCCEEECCCCccCccChhHhcCCcCCCEE
Confidence            456677777777777665543 666777777777777776654 555 677777777777776666543 5667777777


Q ss_pred             ecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCC
Q 045113          594 NFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKM  673 (821)
Q Consensus       594 ~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~  673 (821)
                      ++++|.+.+..+..++.+++|++                      |++++|.  .....+..+..+++|+.|++++|   
T Consensus       115 ~L~~n~l~~~~~~~~~~l~~L~~----------------------L~L~~n~--l~~~~~~~~~~l~~L~~L~l~~n---  167 (272)
T 3rfs_A          115 VLVENQLQSLPDGVFDKLTNLTY----------------------LNLAHNQ--LQSLPKGVFDKLTNLTELDLSYN---  167 (272)
T ss_dssp             ECTTSCCCCCCTTTTTTCTTCCE----------------------EECCSSC--CCCCCTTTTTTCTTCCEEECCSS---
T ss_pred             ECCCCcCCccCHHHhccCCCCCE----------------------EECCCCc--cCccCHHHhccCccCCEEECCCC---
Confidence            77777764433333344444444                      4444331  00000111222233333333221   


Q ss_pred             CCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce
Q 045113          674 PRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW  753 (821)
Q Consensus       674 ~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~  753 (821)
                       .+..+....+..+++|+.|++++|.+.+..+..++.+++|+.|++++|.+.+        .+++|+.|.++.+.....+
T Consensus       168 -~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~--------~~~~l~~l~~~~n~~~g~i  238 (272)
T 3rfs_A          168 -QLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDC--------TCPGIRYLSEWINKHSGVV  238 (272)
T ss_dssp             -CCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCC--------CTTTTHHHHHHHHHTGGGB
T ss_pred             -CcCccCHHHhcCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEccCCCccc--------cCcHHHHHHHHHHhCCCcc
Confidence             1222211223345555566666666555444455566666666666554432        3445555555554433344


Q ss_pred             eeccccc
Q 045113          754 TMGTGAM  760 (821)
Q Consensus       754 ~~~~~~l  760 (821)
                      |...+.+
T Consensus       239 p~~~~~~  245 (272)
T 3rfs_A          239 RNSAGSV  245 (272)
T ss_dssp             BCTTSCB
T ss_pred             cCccccc
Confidence            4444433

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.71  E-value=8.9e-19  Score=204.86  Aligned_cols=302  Identities=13%  Similarity=0.056  Sum_probs=207.2

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCC-CCCc--ccccccCCCCceEEeecCCCCcc-----ccHH
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSL-VLNQ--YPSEIENLSLLRYLKLNIPSLKS-----LPLS  559 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~-~l~~--lp~~i~~l~~Lr~L~L~~~~i~~-----lp~~  559 (821)
                      .+++|++|.+.++...   ...+..+...+++|++|+|++| .++.  ++..+.++++|++|++++|.+..     ++..
T Consensus       103 ~~~~L~~L~L~~~~~~---~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~  179 (594)
T 2p1m_B          103 SYTWLEEIRLKRMVVT---DDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHF  179 (594)
T ss_dssp             HCTTCCEEEEESCBCC---HHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGS
T ss_pred             hCCCCCeEEeeCcEEc---HHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHH
Confidence            5889999999988754   3344444457999999999999 4653  56656689999999999998653     3333


Q ss_pred             HHhccccceEEecCCcc--c--ccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceecccc--------------
Q 045113          560 FFNYLLNLYTLDMPFSY--I--DHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALY--------------  621 (821)
Q Consensus       560 i~~~L~~L~~L~L~~~~--l--~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~--------------  621 (821)
                      .. .+++|++|++++|.  +  ..++..+.++++|++|++++|.....+|..+..+++|+.|++..              
T Consensus       180 ~~-~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~l~  258 (594)
T 2p1m_B          180 PD-TYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLS  258 (594)
T ss_dssp             CT-TCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHHCTTCSEEECSBCCCCCCHHHHHHHH
T ss_pred             hh-cCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhcCCcceEcccccccCccchhhHHHHH
Confidence            33 67799999999986  2  22333445689999999998843333555555666666665321              


Q ss_pred             ------------------CCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCC----------CC
Q 045113          622 ------------------PCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANES----------KM  673 (821)
Q Consensus       622 ------------------~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~----------~~  673 (821)
                                        ....+...+..+++|+.|++++|. .....+...+..+++|+.|++++++          .+
T Consensus       259 ~~l~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~L~L~~~~-l~~~~l~~~~~~~~~L~~L~l~~~~~~~~l~~l~~~~  337 (594)
T 2p1m_B          259 VALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYAT-VQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVLASTC  337 (594)
T ss_dssp             HHHHTCTTCCEEECCBTCCGGGGGGGHHHHTTCCEEECTTCC-CCHHHHHHHHTTCTTCCEEEEEGGGHHHHHHHHHHHC
T ss_pred             HHHhcCCCcccccCCcccchhhHHHHHHhhCCCCEEEccCCC-CCHHHHHHHHhcCCCcCEEeCcCccCHHHHHHHHHhC
Confidence                              111122213467889999999885 3344455667889999999999753          47


Q ss_pred             CCCCeeEecc--------------------cCCCCCcceEEEecccCCCCCccccc-CCCCCCEEEEe--c----cccCC
Q 045113          674 PRLSKIILAE--------------------YVFPHSLTHLSFSNTDLMDDPMPALE-KLPLLQVLKLK--Q----NSYSG  726 (821)
Q Consensus       674 ~~L~~l~l~~--------------------~~~~~~L~~L~L~~~~l~~~~~~~l~-~l~~L~~L~L~--~----~~~~~  726 (821)
                      ++|+.|.+.+                    ...+++|+.|.++++.+++..+..+. .+|+|+.|+++  +    +.++.
T Consensus       338 ~~L~~L~L~~~~~~g~~~~~~l~~~~l~~l~~~~~~L~~L~~~~~~l~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~  417 (594)
T 2p1m_B          338 KDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTL  417 (594)
T ss_dssp             TTCCEEEEECSCTTCSSCSSCCCHHHHHHHHHHCTTCCEEEEEESCCCHHHHHHHHHHCTTCCEEEEEESSTTCCCTTTC
T ss_pred             CCCCEEEEecCcccccccCCCCCHHHHHHHHHhchhHHHHHHhcCCcCHHHHHHHHhhCCCcceeEeecccCCCcccccC
Confidence            8899998821                    12478999998888887765555665 58999999998  2    23332


Q ss_pred             C----eeeecCCCCcccceeeeccCCCccce-eeccc-cccccceeEEeecCCCCCCcccc-CCCCCCCEEEEeCCc
Q 045113          727 R----KLTCGSDGFPRLKVLHLKSMLWLEEW-TMGTG-AMPKLECLIINPCAYLKKMPEQL-WCIKSLNNFNCWWPQ  796 (821)
Q Consensus       727 ~----~~~~~~~~~~~L~~L~L~~~~~l~~~-~~~~~-~l~~L~~L~i~~c~~l~~lp~~l-~~l~~L~~L~l~~c~  796 (821)
                      .    .+......+++|+.|++++  .+... ...++ .+++|+.|++++|......+..+ .++++|++|++++|+
T Consensus       418 ~~~~~~~~~l~~~~~~L~~L~L~~--~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~  492 (594)
T 2p1m_B          418 EPLDIGFGAIVEHCKDLRRLSLSG--LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCP  492 (594)
T ss_dssp             CCTHHHHHHHHHHCTTCCEEECCS--SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHHHHHHHCTTCCEEEEESCS
T ss_pred             CchhhHHHHHHhhCCCccEEeecC--cccHHHHHHHHHhchhccEeeccCCCCcHHHHHHHHhcCCCcCEEECcCCC
Confidence            1    1111134678999999976  33322 22233 48999999999997433222222 668999999999998

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.70  E-value=2.7e-18  Score=185.59  Aligned_cols=254  Identities=16%  Similarity=0.119  Sum_probs=148.4

Q ss_pred             CceEEEeecCCCCccchhhhHHhhccC--CceeEEEeCCCCCCcccccccCCCCceEEeecCCCCcc--ccHHHHhcccc
Q 045113          491 HLHSLLYFTSESDHLDHIDWQKICEMY--KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKS--LPLSFFNYLLN  566 (821)
Q Consensus       491 ~LrsL~l~~~~~~~~~~~~~~~~~~~~--~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~--lp~~i~~~L~~  566 (821)
                      .++++.+.++...       +..+..+  +.++.|+++++.+...+..+.++++|++|++++|.+..  +|..+. .+++
T Consensus        48 ~~~~l~l~~~~~~-------~~~~~~~~~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~-~~~~  119 (336)
T 2ast_B           48 LWQTLDLTGKNLH-------PDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILS-QCSK  119 (336)
T ss_dssp             TSSEEECTTCBCC-------HHHHHHHHHTTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHT-TBCC
T ss_pred             hheeeccccccCC-------HHHHHhhhhccceEEEcCCccccccchhhccCCCCCEEEccCCCcCHHHHHHHHh-hCCC
Confidence            3566666554432       2444455  67777777777766555556667777777777776652  665666 7777


Q ss_pred             ceEEecCCcccc-cchhhhccCccCceeecCCc-ccCC-CCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEec
Q 045113          567 LYTLDMPFSYID-HTADEFWKMKKLRHLNFGSI-TLPA-HPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQG  643 (821)
Q Consensus       567 L~~L~L~~~~l~-~lp~~i~~l~~L~~L~L~~~-~~~~-~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~  643 (821)
                      |++|++++|.+. ..|..+..+++|++|++++| .+.. .++..                      +.++++|+.|++++
T Consensus       120 L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~----------------------~~~~~~L~~L~l~~  177 (336)
T 2ast_B          120 LQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTL----------------------LSSCSRLDELNLSW  177 (336)
T ss_dssp             CSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHH----------------------HHHCTTCCEEECCC
T ss_pred             CCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHH----------------------HhcCCCCCEEcCCC
Confidence            777777777655 34666667777777777776 3322 13332                      44455556666655


Q ss_pred             ccccchhHHHHHccCCC-CcCEEEeecCCCCC-CCCeeEe-cccCCCCCcceEEEeccc-CCCCCcccccCCCCCCEEEE
Q 045113          644 DLSYNQSLLSKSLCRLS-CLESLKLANESKMP-RLSKIIL-AEYVFPHSLTHLSFSNTD-LMDDPMPALEKLPLLQVLKL  719 (821)
Q Consensus       644 ~~~~~~~~l~~~l~~~~-~L~~L~l~~~~~~~-~L~~l~l-~~~~~~~~L~~L~L~~~~-l~~~~~~~l~~l~~L~~L~L  719 (821)
                      |.......++..+..++ +|++|+++++   . .+..-.+ ..+..+++|+.|++++|. +++..+..++++++|++|++
T Consensus       178 ~~~l~~~~~~~~~~~l~~~L~~L~l~~~---~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l  254 (336)
T 2ast_B          178 CFDFTEKHVQVAVAHVSETITQLNLSGY---RKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSL  254 (336)
T ss_dssp             CTTCCHHHHHHHHHHSCTTCCEEECCSC---GGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEEC
T ss_pred             CCCcChHHHHHHHHhcccCCCEEEeCCC---cccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeC
Confidence            52122233455555555 6666666532   1 1111000 013346677777777777 56666778888888888888


Q ss_pred             eccc-cCCCeeeecCCCCcccceeeeccCCCccceeeccccc-cccceeEEeecCCCCCCccccC
Q 045113          720 KQNS-YSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAM-PKLECLIINPCAYLKKMPEQLW  782 (821)
Q Consensus       720 ~~~~-~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l-~~L~~L~i~~c~~l~~lp~~l~  782 (821)
                      ++|. +....+ .....+++|+.|++++|  +..-  .+..+ .+|+.|++++|......|..++
T Consensus       255 ~~~~~~~~~~~-~~l~~~~~L~~L~l~~~--i~~~--~~~~l~~~l~~L~l~~n~l~~~~~~~~~  314 (336)
T 2ast_B          255 SRCYDIIPETL-LELGEIPTLKTLQVFGI--VPDG--TLQLLKEALPHLQINCSHFTTIARPTIG  314 (336)
T ss_dssp             TTCTTCCGGGG-GGGGGCTTCCEEECTTS--SCTT--CHHHHHHHSTTSEESCCCSCCTTCSSCS
T ss_pred             CCCCCCCHHHH-HHHhcCCCCCEEeccCc--cCHH--HHHHHHhhCcceEEecccCccccCCccc
Confidence            8774 222211 12456888999999887  2211  12233 3477777876665555565444

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.70  E-value=4.2e-17  Score=173.69  Aligned_cols=192  Identities=18%  Similarity=0.194  Sum_probs=104.4

Q ss_pred             cCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeec
Q 045113          516 MYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNF  595 (821)
Q Consensus       516 ~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L  595 (821)
                      .+++|+.|++++|.++.+| .+..+++|++|++++|.+..++. +. .+++|++|++++|.+..+| .+..+++|++|++
T Consensus        39 ~l~~L~~L~l~~~~i~~l~-~~~~l~~L~~L~L~~n~i~~~~~-~~-~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~l  114 (308)
T 1h6u_A           39 DLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELKDNQITDLAP-LK-NLTKITELELSGNPLKNVS-AIAGLQSIKTLDL  114 (308)
T ss_dssp             HHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GT-TCCSCCEEECCSCCCSCCG-GGTTCTTCCEEEC
T ss_pred             HcCCcCEEEeeCCCccCch-hhhccCCCCEEEccCCcCCCChh-Hc-cCCCCCEEEccCCcCCCch-hhcCCCCCCEEEC
Confidence            3455556666665555554 35555566666666665555554 44 5566666666666555554 3555566666666


Q ss_pred             CCcccCCCCCCCcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCC
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMP  674 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~  674 (821)
                      ++|.+.. ++. +..+++|++|++..+ -..... +..+++|+.|++++|.   ...++. +..+++|+.|++++|    
T Consensus       115 ~~n~l~~-~~~-l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~---l~~~~~-l~~l~~L~~L~l~~n----  183 (308)
T 1h6u_A          115 TSTQITD-VTP-LAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQ---VSDLTP-LANLSKLTTLKADDN----  183 (308)
T ss_dssp             TTSCCCC-CGG-GTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSC---CCCCGG-GTTCTTCCEEECCSS----
T ss_pred             CCCCCCC-chh-hcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccCCc---CCCChh-hcCCCCCCEEECCCC----
Confidence            6555532 222 455555555555442 112222 4556666666666652   111222 555666666666543    


Q ss_pred             CCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCC
Q 045113          675 RLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG  726 (821)
Q Consensus       675 ~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~  726 (821)
                      .+..+.  .+..+++|+.|+|++|.+.+..  .+..+++|+.|++++|.+.+
T Consensus       184 ~l~~~~--~l~~l~~L~~L~L~~N~l~~~~--~l~~l~~L~~L~l~~N~i~~  231 (308)
T 1h6u_A          184 KISDIS--PLASLPNLIEVHLKNNQISDVS--PLANTSNLFIVTLTNQTITN  231 (308)
T ss_dssp             CCCCCG--GGGGCTTCCEEECTTSCCCBCG--GGTTCTTCCEEEEEEEEEEC
T ss_pred             ccCcCh--hhcCCCCCCEEEccCCccCccc--cccCCCCCCEEEccCCeeec
Confidence            232221  1445667777777777765432  36777777777777766654

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.69  E-value=1.3e-16  Score=166.71  Aligned_cols=196  Identities=24%  Similarity=0.230  Sum_probs=102.5

Q ss_pred             ceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccH-HHHhccccceEEecCCcccccchhhh-ccCccCceeecC
Q 045113          519 LLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPL-SFFNYLLNLYTLDMPFSYIDHTADEF-WKMKKLRHLNFG  596 (821)
Q Consensus       519 ~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~-~i~~~L~~L~~L~L~~~~l~~lp~~i-~~l~~L~~L~L~  596 (821)
                      .++.++++++.++.+|..+.  .+|++|++++|.+..+|. .+. ++++|++|++++|.+..+|..+ .++++|++|+++
T Consensus        17 ~~~~l~~~~~~l~~ip~~~~--~~l~~L~l~~n~l~~~~~~~~~-~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~   93 (270)
T 2o6q_A           17 NKNSVDCSSKKLTAIPSNIP--ADTKKLDLQSNKLSSLPSKAFH-RLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVT   93 (270)
T ss_dssp             TTTEEECTTSCCSSCCSCCC--TTCSEEECCSSCCSCCCTTSSS-SCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECC
T ss_pred             CCCEEEccCCCCCccCCCCC--CCCCEEECcCCCCCeeCHHHhc-CCCCCCEEECCCCccCeeChhhhcCCCCCCEEECC
Confidence            45566666666666665443  456666666666665554 344 6666666666666666665443 556666666666


Q ss_pred             CcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCC
Q 045113          597 SITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMP  674 (821)
Q Consensus       597 ~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~  674 (821)
                      +|.+....+..+..+++|++|++..+  ...+...+..+++|+.|+++++                              
T Consensus        94 ~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n------------------------------  143 (270)
T 2o6q_A           94 DNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYN------------------------------  143 (270)
T ss_dssp             SSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS------------------------------
T ss_pred             CCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCC------------------------------
Confidence            66664333333444444554444442  1111111444555555555544                              


Q ss_pred             CCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCC
Q 045113          675 RLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSML  748 (821)
Q Consensus       675 ~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~  748 (821)
                      .++.+....+..+++|+.|+|++|.+....+..+.++++|+.|+|++|.+.+.. ...+..+++|+.|+|++|+
T Consensus       144 ~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~-~~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          144 ELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVP-EGAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCCSCCC-TTTTTTCTTCCEEECCSSC
T ss_pred             cCCccCHhHccCCcccceeEecCCcCcEeChhHhccCCCcCEEECCCCcCCcCC-HHHhccccCCCEEEecCCC
Confidence            122221111334555555555566555444444556666666666655554321 1223455666666666654

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.69  E-value=2.4e-17  Score=172.38  Aligned_cols=230  Identities=20%  Similarity=0.191  Sum_probs=172.7

Q ss_pred             CceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCC
Q 045113          518 KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGS  597 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~  597 (821)
                      ..+..+++.++.+.... ....+.+|+.|+++++.+..++ .+. .+++|++|++++|.+..++ .+..+++|++|++++
T Consensus        19 ~~l~~l~l~~~~~~~~~-~~~~l~~L~~L~l~~~~i~~~~-~l~-~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~   94 (272)
T 3rfs_A           19 AETIKANLKKKSVTDAV-TQNELNSIDQIIANNSDIKSVQ-GIQ-YLPNVRYLALGGNKLHDIS-ALKELTNLTYLILTG   94 (272)
T ss_dssp             HHHHHHHHTCSCTTSEE-CHHHHTTCCEEECTTSCCCCCT-TGG-GCTTCCEEECTTSCCCCCG-GGTTCTTCCEEECTT
T ss_pred             HHHHHHHhcCccccccc-ccccccceeeeeeCCCCccccc-ccc-cCCCCcEEECCCCCCCCch-hhcCCCCCCEEECCC
Confidence            34445566666665442 3567888999999999988876 577 8999999999999888775 688999999999999


Q ss_pred             cccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCC
Q 045113          598 ITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLS  677 (821)
Q Consensus       598 ~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~  677 (821)
                      |.+.+..+..                      ++.+++|+.|++++|.  .....+..+..+++|+.|++++|    .+.
T Consensus        95 n~l~~~~~~~----------------------~~~l~~L~~L~L~~n~--l~~~~~~~~~~l~~L~~L~L~~n----~l~  146 (272)
T 3rfs_A           95 NQLQSLPNGV----------------------FDKLTNLKELVLVENQ--LQSLPDGVFDKLTNLTYLNLAHN----QLQ  146 (272)
T ss_dssp             SCCCCCCTTT----------------------TTTCTTCCEEECTTSC--CCCCCTTTTTTCTTCCEEECCSS----CCC
T ss_pred             CccCccChhH----------------------hcCCcCCCEEECCCCc--CCccCHHHhccCCCCCEEECCCC----ccC
Confidence            9885544443                      4445555556665552  22222334678899999999865    566


Q ss_pred             eeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeecc
Q 045113          678 KIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGT  757 (821)
Q Consensus       678 ~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~  757 (821)
                      .+....+..+++|+.|++++|.+++..+..++.+++|+.|++++|.+.+.. +.....+++|+.|++++|+.       .
T Consensus       147 ~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~-~~~~~~l~~L~~L~l~~N~~-------~  218 (272)
T 3rfs_A          147 SLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVP-DGVFDRLTSLQYIWLHDNPW-------D  218 (272)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCC-TTTTTTCTTCCEEECCSSCB-------C
T ss_pred             ccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCCCcCCccC-HHHHhCCcCCCEEEccCCCc-------c
Confidence            555444678899999999999998776777899999999999998887643 33357789999999999852       2


Q ss_pred             ccccccceeEEeecCCCCCCccccCCCCCC
Q 045113          758 GAMPKLECLIINPCAYLKKMPEQLWCIKSL  787 (821)
Q Consensus       758 ~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L  787 (821)
                      +.+|+|+.|.+..|.....+|..++.++..
T Consensus       219 ~~~~~l~~l~~~~n~~~g~ip~~~~~~~~~  248 (272)
T 3rfs_A          219 CTCPGIRYLSEWINKHSGVVRNSAGSVAPD  248 (272)
T ss_dssp             CCTTTTHHHHHHHHHTGGGBBCTTSCBCGG
T ss_pred             ccCcHHHHHHHHHHhCCCcccCcccccCCC
Confidence            568899999999888777888877766554

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.68  E-value=2.7e-16  Score=165.78  Aligned_cols=198  Identities=17%  Similarity=0.139  Sum_probs=99.0

Q ss_pred             ccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCcccc-HHHHhccccceEEecCCcccccchhhhccCccCcee
Q 045113          515 EMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLP-LSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHL  593 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp-~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L  593 (821)
                      .++++++.++++++.++.+|..+.  ++|++|+|++|.+..++ ..+. .+++|++|++++|.+..+|.. ..+++|++|
T Consensus         7 ~~l~~l~~l~~~~~~l~~ip~~~~--~~l~~L~L~~N~l~~~~~~~~~-~l~~L~~L~L~~n~l~~~~~~-~~l~~L~~L   82 (290)
T 1p9a_G            7 SKVASHLEVNCDKRNLTALPPDLP--KDTTILHLSENLLYTFSLATLM-PYTRLTQLNLDRAELTKLQVD-GTLPVLGTL   82 (290)
T ss_dssp             ECSTTCCEEECTTSCCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGT-TCTTCCEEECTTSCCCEEECC-SCCTTCCEE
T ss_pred             cccCCccEEECCCCCCCcCCCCCC--CCCCEEEcCCCcCCccCHHHhh-cCCCCCEEECCCCccCcccCC-CCCCcCCEE
Confidence            445555666666655555554443  45566666666555443 3344 556666666666655555443 455566666


Q ss_pred             ecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCC
Q 045113          594 NFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANES  671 (821)
Q Consensus       594 ~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~  671 (821)
                      ++++|.+ ..+|..+..+++|++|++..|  ...+...+..+++|+.|++++|.  .....+..+..+++|+.|+++.| 
T Consensus        83 ~Ls~N~l-~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~--l~~~~~~~~~~l~~L~~L~L~~N-  158 (290)
T 1p9a_G           83 DLSHNQL-QSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNE--LKTLPPGLLTPTPKLEKLSLANN-  158 (290)
T ss_dssp             ECCSSCC-SSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSC--CCCCCTTTTTTCTTCCEEECTTS-
T ss_pred             ECCCCcC-CcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCC--CCccChhhcccccCCCEEECCCC-
Confidence            6665555 344544555555555554442  12221225555555666555552  11111122334444555544432 


Q ss_pred             CCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEecccc
Q 045113          672 KMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSY  724 (821)
Q Consensus       672 ~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~  724 (821)
                         .++.+....+..+++|+.|+|++|.++ .+|..+..+++|+.|.|++|.+
T Consensus       159 ---~l~~l~~~~~~~l~~L~~L~L~~N~l~-~ip~~~~~~~~L~~l~L~~Np~  207 (290)
T 1p9a_G          159 ---NLTELPAGLLNGLENLDTLLLQENSLY-TIPKGFFGSHLLPFAFLHGNPW  207 (290)
T ss_dssp             ---CCSCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCCCSEEECCSCCB
T ss_pred             ---cCCccCHHHhcCcCCCCEEECCCCcCC-ccChhhcccccCCeEEeCCCCc
Confidence               333332222344566666666666654 4445555555666666665544

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.68  E-value=1.4e-16  Score=166.99  Aligned_cols=214  Identities=19%  Similarity=0.208  Sum_probs=100.4

Q ss_pred             EEeCCCCCCcccccccCCCCceEEeecCCCCccccH-HHHhccccceEEecCCcccccchh-hhccCccCceeecCCccc
Q 045113          523 LDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPL-SFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSITL  600 (821)
Q Consensus       523 L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~-~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~  600 (821)
                      .+..+..+..+|..+.  ++|++|++++|.+..++. .+. ++++|++|++++|.+..++. .+.++++|++|++++|.+
T Consensus        12 ~~c~~~~l~~ip~~l~--~~l~~L~ls~n~l~~~~~~~~~-~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l   88 (276)
T 2z62_A           12 YQCMELNFYKIPDNLP--FSTKNLDLSFNPLRHLGSYSFF-SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI   88 (276)
T ss_dssp             EECTTSCCSSCCSSSC--TTCCEEECTTCCCCEECTTTTT-TCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCC
T ss_pred             EEecCCCccccCCCCC--CCccEEECCCCcccccCHhHhc-cccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCcc
Confidence            3444444555555443  356666666666665554 444 66666666666666655543 456666666666666665


Q ss_pred             CCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCe
Q 045113          601 PAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSK  678 (821)
Q Consensus       601 ~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~  678 (821)
                      ....+..+..+++|++|++..+  .......++.+++|+.|+++++                              .+..
T Consensus        89 ~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n------------------------------~l~~  138 (276)
T 2z62_A           89 QSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHN------------------------------LIQS  138 (276)
T ss_dssp             CEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSS------------------------------CCCC
T ss_pred             CccChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCC------------------------------ccce
Confidence            4433333444334433333221  0000000333344444444333                              1111


Q ss_pred             eE-ecccCCCCCcceEEEecccCCCCCcccccCCCCCC----EEEEeccccCCCeeeecCCCCcccceeeeccCCCccce
Q 045113          679 II-LAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQ----VLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW  753 (821)
Q Consensus       679 l~-l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~----~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~  753 (821)
                      +. ...+..+++|+.|++++|.+++..+..+..+++|+    .|++++|.+.+..  .......+|+.|++++| .+..+
T Consensus       139 ~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~--~~~~~~~~L~~L~L~~n-~l~~~  215 (276)
T 2z62_A          139 FKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQ--PGAFKEIRLKELALDTN-QLKSV  215 (276)
T ss_dssp             CCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCEEEECCSSCCCEEC--TTSSCSCCEEEEECCSS-CCSCC
T ss_pred             ecCchhhccCCCCCEEECCCCCCCcCCHHHhhhhhhccccceeeecCCCcccccC--ccccCCCcccEEECCCC-ceeec
Confidence            11 11233455666666666665544444444444444    5555555443211  11112234555555554 24444


Q ss_pred             eec-cccccccceeEEeecC
Q 045113          754 TMG-TGAMPKLECLIINPCA  772 (821)
Q Consensus       754 ~~~-~~~l~~L~~L~i~~c~  772 (821)
                      +.. +..+++|+.|++++|+
T Consensus       216 ~~~~~~~l~~L~~L~l~~N~  235 (276)
T 2z62_A          216 PDGIFDRLTSLQKIWLHTNP  235 (276)
T ss_dssp             CTTTTTTCCSCCEEECCSSC
T ss_pred             CHhHhcccccccEEEccCCc
Confidence            332 3445555555555554

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.68  E-value=5.9e-18  Score=186.67  Aligned_cols=229  Identities=16%  Similarity=0.068  Sum_probs=113.8

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC----cccccc-------cCCCCceEEeecCCCCcc-
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN----QYPSEI-------ENLSLLRYLKLNIPSLKS-  555 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~----~lp~~i-------~~l~~Lr~L~L~~~~i~~-  555 (821)
                      .+++|++|.+.++.........+...+..+++|++|+|++|.+.    .+|..+       .++++|++|+|++|.+.. 
T Consensus        30 ~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~  109 (386)
T 2ca6_A           30 EDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPT  109 (386)
T ss_dssp             HCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTT
T ss_pred             cCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHH
Confidence            45666666666655432111123334556666666666665433    223333       566666666666666654 


Q ss_pred             ----ccHHHHhccccceEEecCCccccc-----chhhhccC---------ccCceeecCCcccC-CCCC---CCcCCCCC
Q 045113          556 ----LPLSFFNYLLNLYTLDMPFSYIDH-----TADEFWKM---------KKLRHLNFGSITLP-AHPG---NYCGSLEN  613 (821)
Q Consensus       556 ----lp~~i~~~L~~L~~L~L~~~~l~~-----lp~~i~~l---------~~L~~L~L~~~~~~-~~~p---~~i~~l~~  613 (821)
                          +|..+. .+++|++|+|++|.+..     ++..+..+         ++|++|++++|.+. ..+|   ..+..+++
T Consensus       110 ~~~~l~~~l~-~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~  188 (386)
T 2ca6_A          110 AQEPLIDFLS-KHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRL  188 (386)
T ss_dssp             THHHHHHHHH-HCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHH-hCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCC
Confidence                555565 66666666666665532     22233333         66666666666654 2222   23334445


Q ss_pred             cceeccccCC-c------chh-hhcCCCCCCCeEEEecccccch----hHHHHHccCCCCcCEEEeecCCCCCCCCeeEe
Q 045113          614 LNFISALYPC-C------CTK-DLLGRLPNLRNLRIQGDLSYNQ----SLLSKSLCRLSCLESLKLANESKMPRLSKIIL  681 (821)
Q Consensus       614 L~~L~~~~~~-~------~~~-~~l~~l~~L~~L~l~~~~~~~~----~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l  681 (821)
                      |++|++..+. .      ..+ . +..+++|+.|++++|.  ..    ..++..+..                       
T Consensus       189 L~~L~L~~n~l~~~g~~~l~~~~-l~~~~~L~~L~Ls~n~--l~~~g~~~l~~~l~~-----------------------  242 (386)
T 2ca6_A          189 LHTVKMVQNGIRPEGIEHLLLEG-LAYCQELKVLDLQDNT--FTHLGSSALAIALKS-----------------------  242 (386)
T ss_dssp             CCEEECCSSCCCHHHHHHHHHTT-GGGCTTCCEEECCSSC--CHHHHHHHHHHHGGG-----------------------
T ss_pred             cCEEECcCCCCCHhHHHHHHHHH-hhcCCCccEEECcCCC--CCcHHHHHHHHHHcc-----------------------
Confidence            5555544421 0      112 2 4444455555554442  11    334444444                       


Q ss_pred             cccCCCCCcceEEEecccCCCC----Ccccc--cCCCCCCEEEEeccccCCC----eeeecCCCCcccceeeeccCC
Q 045113          682 AEYVFPHSLTHLSFSNTDLMDD----PMPAL--EKLPLLQVLKLKQNSYSGR----KLTCGSDGFPRLKVLHLKSML  748 (821)
Q Consensus       682 ~~~~~~~~L~~L~L~~~~l~~~----~~~~l--~~l~~L~~L~L~~~~~~~~----~~~~~~~~~~~L~~L~L~~~~  748 (821)
                           +++|+.|+|++|.+++.    ++..+  +.+++|+.|+|++|.+.+.    ........+++|++|++++|+
T Consensus       243 -----~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~  314 (386)
T 2ca6_A          243 -----WPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNR  314 (386)
T ss_dssp             -----CTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             -----CCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccCCc
Confidence                 45555555555554432    23333  2366666666666555442    111111335666666666664

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.68  E-value=1.1e-16  Score=167.75  Aligned_cols=199  Identities=21%  Similarity=0.223  Sum_probs=120.0

Q ss_pred             ceeEEEeCCCCCCcccc-cccCCCCceEEeecCCCCccccH-HHHhccccceEEecCCcccccch-hhhccCccCceeec
Q 045113          519 LLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLKSLPL-SFFNYLLNLYTLDMPFSYIDHTA-DEFWKMKKLRHLNF  595 (821)
Q Consensus       519 ~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~i~~lp~-~i~~~L~~L~~L~L~~~~l~~lp-~~i~~l~~L~~L~L  595 (821)
                      .|++|+|++|.++.++. .+.++++|++|++++|.+..++. .+. .+++|++|++++|.+..++ ..+.++++|++|++
T Consensus        29 ~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~-~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l  107 (276)
T 2z62_A           29 STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQ-SLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA  107 (276)
T ss_dssp             TCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTT-TCTTCCEEECTTCCCCEECTTTTTTCTTCCEEEC
T ss_pred             CccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHcc-CCcCCCEEECCCCccCccChhhhcCCccccEEEC
Confidence            56666777666665543 56666667777777666665554 344 6666777777766666554 45666667777777


Q ss_pred             CCcccCCCCCCCcCCCCCcceeccccCC--c--chhhhcCCCCCCCeEEEecccccchhHHHHHc---cCCCCcC-EEEe
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALYPC--C--CTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSL---CRLSCLE-SLKL  667 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~~~--~--~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l---~~~~~L~-~L~l  667 (821)
                      ++|.+....+..++.+++|++|++..|.  .  .+.. ++.+++|+.|++++|.  .....+..+   ..++.|. +|++
T Consensus       108 ~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~-~~~l~~L~~L~Ls~N~--l~~~~~~~~~~l~~L~~l~l~L~l  184 (276)
T 2z62_A          108 VETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY-FSNLTNLEHLDLSSNK--IQSIYCTDLRVLHQMPLLNLSLDL  184 (276)
T ss_dssp             TTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGG-GGGCTTCCEEECCSSC--CCEECGGGGHHHHTCTTCCEEEEC
T ss_pred             CCCCccccCchhcccCCCCCEEECcCCccceecCchh-hccCCCCCEEECCCCC--CCcCCHHHhhhhhhccccceeeec
Confidence            6666654444456666677777666631  1  2344 6777777777777763  111111222   2333333 6666


Q ss_pred             ecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCC
Q 045113          668 ANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG  726 (821)
Q Consensus       668 ~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~  726 (821)
                      +.|    .+..+....+ ...+|+.|+|++|.++...+..+..+++|+.|+|++|.+..
T Consensus       185 s~n----~l~~~~~~~~-~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~c  238 (276)
T 2z62_A          185 SLN----PMNFIQPGAF-KEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDC  238 (276)
T ss_dssp             CSS----CCCEECTTSS-CSCCEEEEECCSSCCSCCCTTTTTTCCSCCEEECCSSCBCC
T ss_pred             CCC----cccccCcccc-CCCcccEEECCCCceeecCHhHhcccccccEEEccCCcccc
Confidence            644    4444433222 23478888888888776555566778888888888776643

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.67  E-value=3.2e-17  Score=177.09  Aligned_cols=241  Identities=17%  Similarity=0.133  Sum_probs=169.0

Q ss_pred             eeEEEEEcCCCcccccC-CC--CCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC-c-ccccccCCCCceE
Q 045113          471 KRFFALEQQSDFAYLDD-YY--PHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN-Q-YPSEIENLSLLRY  545 (821)
Q Consensus       471 ~r~lsl~~~~~~~~~~~-~~--~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~-~-lp~~i~~l~~Lr~  545 (821)
                      .+++.+..+..... .. ..  ++++.|.+.++....    .+.. +..+++|+.|+|++|.++ . +|..+..+++|++
T Consensus        49 ~~~l~l~~~~~~~~-~~~~~~~~~l~~L~l~~n~l~~----~~~~-~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~  122 (336)
T 2ast_B           49 WQTLDLTGKNLHPD-VTGRLLSQGVIAFRCPRSFMDQ----PLAE-HFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQN  122 (336)
T ss_dssp             SSEEECTTCBCCHH-HHHHHHHTTCSEEECTTCEECS----CCCS-CCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSE
T ss_pred             heeeccccccCCHH-HHHhhhhccceEEEcCCccccc----cchh-hccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCE
Confidence            45566654433211 11 33  899999998876542    2222 457899999999999987 3 8888999999999


Q ss_pred             EeecCCCCc-cccHHHHhccccceEEecCCc-cccc--chhhhccCccCceeecCCc-ccCCC-CCCCcCCCCCcceecc
Q 045113          546 LKLNIPSLK-SLPLSFFNYLLNLYTLDMPFS-YIDH--TADEFWKMKKLRHLNFGSI-TLPAH-PGNYCGSLENLNFISA  619 (821)
Q Consensus       546 L~L~~~~i~-~lp~~i~~~L~~L~~L~L~~~-~l~~--lp~~i~~l~~L~~L~L~~~-~~~~~-~p~~i~~l~~L~~L~~  619 (821)
                      |++++|.+. ..|..+. .+++|++|++++| .+..  +|..+.++++|++|++++| .+... ++..            
T Consensus       123 L~L~~~~l~~~~~~~l~-~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~------------  189 (336)
T 2ast_B          123 LSLEGLRLSDPIVNTLA-KNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVA------------  189 (336)
T ss_dssp             EECTTCBCCHHHHHHHT-TCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHH------------
T ss_pred             EeCcCcccCHHHHHHHh-cCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHH------------
Confidence            999999988 6788888 8999999999999 6774  6888899999999999999 66332 2222            


Q ss_pred             ccCCcchhhhcCCCC-CCCeEEEeccc-ccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEec
Q 045113          620 LYPCCCTKDLLGRLP-NLRNLRIQGDL-SYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSN  697 (821)
Q Consensus       620 ~~~~~~~~~~l~~l~-~L~~L~l~~~~-~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~  697 (821)
                                +..++ +|+.|++++|. ......++..+..+++|+.|+++++   ..+..-.+..+..+++|+.|++++
T Consensus       190 ----------~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~---~~l~~~~~~~l~~l~~L~~L~l~~  256 (336)
T 2ast_B          190 ----------VAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDS---VMLKNDCFQEFFQLNYLQHLSLSR  256 (336)
T ss_dssp             ----------HHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTC---TTCCGGGGGGGGGCTTCCEEECTT
T ss_pred             ----------HHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCC---CcCCHHHHHHHhCCCCCCEeeCCC
Confidence                      55566 77777777763 1233566777777888888888743   224433344456778888888888


Q ss_pred             cc-CCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCC-cccceeeeccCC
Q 045113          698 TD-LMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGF-PRLKVLHLKSML  748 (821)
Q Consensus       698 ~~-l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~-~~L~~L~L~~~~  748 (821)
                      |. +.......++++++|+.|++++| +....+.    .+ .+|+.|++++|.
T Consensus       257 ~~~~~~~~~~~l~~~~~L~~L~l~~~-i~~~~~~----~l~~~l~~L~l~~n~  304 (336)
T 2ast_B          257 CYDIIPETLLELGEIPTLKTLQVFGI-VPDGTLQ----LLKEALPHLQINCSH  304 (336)
T ss_dssp             CTTCCGGGGGGGGGCTTCCEEECTTS-SCTTCHH----HHHHHSTTSEESCCC
T ss_pred             CCCCCHHHHHHHhcCCCCCEEeccCc-cCHHHHH----HHHhhCcceEEeccc
Confidence            84 33333446788899999999877 4332221    22 346777787664

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.66  E-value=3.7e-18  Score=188.29  Aligned_cols=245  Identities=17%  Similarity=0.137  Sum_probs=172.8

Q ss_pred             hhHHhhccCCceeEEEeCCCCCCc-----ccccccCCCCceEEeecCCCCc----cccHHH-------HhccccceEEec
Q 045113          509 DWQKICEMYKLLRVLDLGSLVLNQ-----YPSEIENLSLLRYLKLNIPSLK----SLPLSF-------FNYLLNLYTLDM  572 (821)
Q Consensus       509 ~~~~~~~~~~~Lr~L~L~~~~l~~-----lp~~i~~l~~Lr~L~L~~~~i~----~lp~~i-------~~~L~~L~~L~L  572 (821)
                      .+...+..+++|+.|+|++|.++.     ++..+.++++|++|+|++|.+.    .+|..+       . .+++|++|+|
T Consensus        23 ~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~-~~~~L~~L~L  101 (386)
T 2ca6_A           23 SVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALL-KCPKLHTVRL  101 (386)
T ss_dssp             TTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHT-TCTTCCEEEC
T ss_pred             HHHHHHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHh-hCCcccEEEC
Confidence            344667889999999999999872     4556788999999999997655    445554       5 7899999999


Q ss_pred             CCccccc-----chhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCC---------CCCCe
Q 045113          573 PFSYIDH-----TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRL---------PNLRN  638 (821)
Q Consensus       573 ~~~~l~~-----lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l---------~~L~~  638 (821)
                      ++|.+..     +|..+.++++|++|++++|.+....+..+...                  +..+         ++|+.
T Consensus       102 s~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~------------------l~~l~~~~~~~~~~~L~~  163 (386)
T 2ca6_A          102 SDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARA------------------LQELAVNKKAKNAPPLRS  163 (386)
T ss_dssp             CSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHH------------------HHHHHHHHHHHTCCCCCE
T ss_pred             CCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHH------------------HHHHhhhhhcccCCCCcE
Confidence            9997766     78888999999999999998743222212110                  2222         66777


Q ss_pred             EEEecccc--cchhHHHHHccCCCCcCEEEeecCCCCCCCCe-----eEecccCCCCCcceEEEecccCC----CCCccc
Q 045113          639 LRIQGDLS--YNQSLLSKSLCRLSCLESLKLANESKMPRLSK-----IILAEYVFPHSLTHLSFSNTDLM----DDPMPA  707 (821)
Q Consensus       639 L~l~~~~~--~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~-----l~l~~~~~~~~L~~L~L~~~~l~----~~~~~~  707 (821)
                      |++++|.-  .....+...+..+++|++|++++|    .+..     +....+..+++|+.|+|++|.++    ...+..
T Consensus       164 L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n----~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~  239 (386)
T 2ca6_A          164 IICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQN----GIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIA  239 (386)
T ss_dssp             EECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSS----CCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHH
T ss_pred             EECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCC----CCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHH
Confidence            77777631  122233356667777888887754    3331     11113557788999999999875    445677


Q ss_pred             ccCCCCCCEEEEeccccCCCee---eecC--CCCcccceeeeccCCCccc-----eeecc-ccccccceeEEeecCCCCC
Q 045113          708 LEKLPLLQVLKLKQNSYSGRKL---TCGS--DGFPRLKVLHLKSMLWLEE-----WTMGT-GAMPKLECLIINPCAYLKK  776 (821)
Q Consensus       708 l~~l~~L~~L~L~~~~~~~~~~---~~~~--~~~~~L~~L~L~~~~~l~~-----~~~~~-~~l~~L~~L~i~~c~~l~~  776 (821)
                      +..+++|+.|+|++|.+.+...   ....  +.+++|++|+|++|. +..     ++..+ .++|+|+.|++++|+....
T Consensus       240 l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~-i~~~g~~~l~~~l~~~l~~L~~L~l~~N~l~~~  318 (386)
T 2ca6_A          240 LKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNE-IELDAVRTLKTVIDEKMPDLLFLELNGNRFSEE  318 (386)
T ss_dssp             GGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSC-CBHHHHHHHHHHHHHHCTTCCEEECTTSBSCTT
T ss_pred             HccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCc-CCHHHHHHHHHHHHhcCCCceEEEccCCcCCcc
Confidence            8899999999999888765421   1112  458999999999985 544     66555 5689999999999986554


Q ss_pred             C
Q 045113          777 M  777 (821)
Q Consensus       777 l  777 (821)
                      .
T Consensus       319 ~  319 (386)
T 2ca6_A          319 D  319 (386)
T ss_dssp             S
T ss_pred             h
Confidence            4

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.65  E-value=2.8e-16  Score=167.27  Aligned_cols=202  Identities=20%  Similarity=0.208  Sum_probs=131.7

Q ss_pred             EeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCCC
Q 045113          524 DLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAH  603 (821)
Q Consensus       524 ~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~  603 (821)
                      .+..+.+.... ....+++|++|++++|.+..+| .+. .+++|++|++++|.+..++. +..+++|++|++++|.+.. 
T Consensus        25 ~l~~~~~~~~~-~~~~l~~L~~L~l~~~~i~~l~-~~~-~l~~L~~L~L~~n~i~~~~~-~~~l~~L~~L~L~~n~l~~-   99 (308)
T 1h6u_A           25 AAGKSNVTDTV-TQADLDGITTLSAFGTGVTTIE-GVQ-YLNNLIGLELKDNQITDLAP-LKNLTKITELELSGNPLKN-   99 (308)
T ss_dssp             HTTCSSTTSEE-CHHHHHTCCEEECTTSCCCCCT-TGG-GCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSCCCSC-
T ss_pred             HhCCCCcCcee-cHHHcCCcCEEEeeCCCccCch-hhh-ccCCCCEEEccCCcCCCChh-HccCCCCCEEEccCCcCCC-
Confidence            34455554432 2456889999999999999988 677 99999999999999999988 9999999999999999844 


Q ss_pred             CCCCcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEec
Q 045113          604 PGNYCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILA  682 (821)
Q Consensus       604 ~p~~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~  682 (821)
                      ++ .+..+++|++|++..+ -..+.. +..+++|+.|++++|.-   ..++. +..+++|+.|+++.|    .+..+.. 
T Consensus       100 ~~-~~~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l---~~~~~-l~~l~~L~~L~l~~n----~l~~~~~-  168 (308)
T 1h6u_A          100 VS-AIAGLQSIKTLDLTSTQITDVTP-LAGLSNLQVLYLDLNQI---TNISP-LAGLTNLQYLSIGNA----QVSDLTP-  168 (308)
T ss_dssp             CG-GGTTCTTCCEEECTTSCCCCCGG-GTTCTTCCEEECCSSCC---CCCGG-GGGCTTCCEEECCSS----CCCCCGG-
T ss_pred             ch-hhcCCCCCCEEECCCCCCCCchh-hcCCCCCCEEECCCCcc---CcCcc-ccCCCCccEEEccCC----cCCCChh-
Confidence            44 4777888888887774 223344 67777777777777631   11111 555566666666543    2332211 


Q ss_pred             ccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccC
Q 045113          683 EYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSM  747 (821)
Q Consensus       683 ~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~  747 (821)
                       +..+++|+.|++++|.+++.  +.+..+++|+.|+|++|.+.+..   ....+++|+.|++++|
T Consensus       169 -l~~l~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~L~~N~l~~~~---~l~~l~~L~~L~l~~N  227 (308)
T 1h6u_A          169 -LANLSKLTTLKADDNKISDI--SPLASLPNLIEVHLKNNQISDVS---PLANTSNLFIVTLTNQ  227 (308)
T ss_dssp             -GTTCTTCCEEECCSSCCCCC--GGGGGCTTCCEEECTTSCCCBCG---GGTTCTTCCEEEEEEE
T ss_pred             -hcCCCCCCEEECCCCccCcC--hhhcCCCCCCEEEccCCccCccc---cccCCCCCCEEEccCC
Confidence             44556666666666655432  12555666666666655554432   1345556666666655

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.65  E-value=7.8e-16  Score=162.25  Aligned_cols=198  Identities=18%  Similarity=0.095  Sum_probs=143.3

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCCceEEeecCCCCccccHHHHhcccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLN  566 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~  566 (821)
                      .+++++++.+.++....    ++..+   .+.+++|+|++|.++.+ |..+..+++|++|++++|.+..+|.. . .+++
T Consensus         8 ~l~~l~~l~~~~~~l~~----ip~~~---~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~-~l~~   78 (290)
T 1p9a_G            8 KVASHLEVNCDKRNLTA----LPPDL---PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVD-G-TLPV   78 (290)
T ss_dssp             CSTTCCEEECTTSCCSS----CCSCC---CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECC-S-CCTT
T ss_pred             ccCCccEEECCCCCCCc----CCCCC---CCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCcccCC-C-CCCc
Confidence            56677777777666543    22222   25788888888888755 45688888888888888888877755 5 7888


Q ss_pred             ceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecc
Q 045113          567 LYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       567 L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      |++|++++|.+..+|..+..+++|++|++++|.+....|..+..+++|++|++..|  ...+...+..+++|+.|++++|
T Consensus        79 L~~L~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  158 (290)
T 1p9a_G           79 LGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANN  158 (290)
T ss_dssp             CCEEECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS
T ss_pred             CCEEECCCCcCCcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCCC
Confidence            88888888888888888888888888888888886555566888888888888774  3444443678888888888887


Q ss_pred             cccchhHHHH-HccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCC
Q 045113          645 LSYNQSLLSK-SLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMD  702 (821)
Q Consensus       645 ~~~~~~~l~~-~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~  702 (821)
                      .   ...+|. .+..+++|+.|+++.|    .++.+ ..++..+++|+.|+|++|.+..
T Consensus       159 ~---l~~l~~~~~~~l~~L~~L~L~~N----~l~~i-p~~~~~~~~L~~l~L~~Np~~C  209 (290)
T 1p9a_G          159 N---LTELPAGLLNGLENLDTLLLQEN----SLYTI-PKGFFGSHLLPFAFLHGNPWLC  209 (290)
T ss_dssp             C---CSCCCTTTTTTCTTCCEEECCSS----CCCCC-CTTTTTTCCCSEEECCSCCBCC
T ss_pred             c---CCccCHHHhcCcCCCCEEECCCC----cCCcc-ChhhcccccCCeEEeCCCCccC
Confidence            3   223333 4567888999998865    44433 2335566789999999998653

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.64  E-value=8.6e-16  Score=160.35  Aligned_cols=197  Identities=21%  Similarity=0.249  Sum_probs=145.6

Q ss_pred             CceEEeecCCCCccccHHHHhccccceEEecCCcccccchh-hhccCccCceeecCCcccCCCCCCCcCCCCCcceeccc
Q 045113          542 LLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISAL  620 (821)
Q Consensus       542 ~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~  620 (821)
                      .+++++++++.+..+|..+.   .+|+.|++++|.+..+|. .+.++++|++|++++|.+....+..+..+++|++|++.
T Consensus        17 ~~~~l~~~~~~l~~ip~~~~---~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~   93 (270)
T 2o6q_A           17 NKNSVDCSSKKLTAIPSNIP---ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVT   93 (270)
T ss_dssp             TTTEEECTTSCCSSCCSCCC---TTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECC
T ss_pred             CCCEEEccCCCCCccCCCCC---CCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECC
Confidence            57899999999999997654   689999999999988865 78899999999999998854333334666666666665


Q ss_pred             cC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecc
Q 045113          621 YP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNT  698 (821)
Q Consensus       621 ~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~  698 (821)
                      .+  ...+...+..++                          +|+.|++++|    .++.+....+..+++|+.|+|++|
T Consensus        94 ~n~l~~~~~~~~~~l~--------------------------~L~~L~l~~n----~l~~~~~~~~~~l~~L~~L~Ls~n  143 (270)
T 2o6q_A           94 DNKLQALPIGVFDQLV--------------------------NLAELRLDRN----QLKSLPPRVFDSLTKLTYLSLGYN  143 (270)
T ss_dssp             SSCCCCCCTTTTTTCS--------------------------SCCEEECCSS----CCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCcCCcCCHhHccccc--------------------------CCCEEECCCC----ccCeeCHHHhCcCcCCCEEECCCC
Confidence            53  122222134444                          4555554432    333333333567899999999999


Q ss_pred             cCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeec-cccccccceeEEeecCC
Q 045113          699 DLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMG-TGAMPKLECLIINPCAY  773 (821)
Q Consensus       699 ~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~-~~~l~~L~~L~i~~c~~  773 (821)
                      .+....+..++.+++|+.|+|++|.+.... ...+..+++|++|++++| .+..++.. +..+++|+.|++++|+.
T Consensus       144 ~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~~  217 (270)
T 2o6q_A          144 ELQSLPKGVFDKLTSLKELRLYNNQLKRVP-EGAFDKLTELKTLKLDNN-QLKRVPEGAFDSLEKLKMLQLQENPW  217 (270)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCSCCC-TTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             cCCccCHhHccCCcccceeEecCCcCcEeC-hhHhccCCCcCEEECCCC-cCCcCCHHHhccccCCCEEEecCCCe
Confidence            988766667899999999999988877633 233567899999999998 56666653 67899999999999874

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.62  E-value=6.7e-16  Score=167.67  Aligned_cols=236  Identities=15%  Similarity=0.062  Sum_probs=124.5

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHH-HHhccccceEEecCCccc-ccchh-hhccCccCce-eecC
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLS-FFNYLLNLYTLDMPFSYI-DHTAD-EFWKMKKLRH-LNFG  596 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~-i~~~L~~L~~L~L~~~~l-~~lp~-~i~~l~~L~~-L~L~  596 (821)
                      ++++.+++.++.+|..+  .+++++|+|++|.|+.+|.. +. ++++|++|+|++|.+ +.+|. .|.++++|.. +.++
T Consensus        12 ~~v~C~~~~Lt~iP~~l--~~~l~~L~Ls~N~i~~i~~~~f~-~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~   88 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDL--PRNAIELRFVLTKLRVIQKGAFS-GFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK   88 (350)
T ss_dssp             TEEEEESTTCCSCCTTC--CTTCSEEEEESCCCSEECTTSST-TCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEE
T ss_pred             CEEEecCCCCCccCcCc--CCCCCEEEccCCcCCCcCHHHHc-CCCCCCEEECcCCCCCCccChhHhhcchhhhhhhccc
Confidence            56777888888888766  35788888888888888864 45 788888888888865 44544 4567777765 4444


Q ss_pred             CcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCC
Q 045113          597 SITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMP  674 (821)
Q Consensus       597 ~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~  674 (821)
                      +|.+....|..+..+++|++|++..|  ...+...+....++..|++.++                             .
T Consensus        89 ~N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~-----------------------------~  139 (350)
T 4ay9_X           89 ANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDN-----------------------------I  139 (350)
T ss_dssp             ETTCCEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESC-----------------------------T
T ss_pred             CCcccccCchhhhhccccccccccccccccCCchhhcccchhhhhhhccc-----------------------------c
Confidence            56664444455566666666665552  1111111222333344444332                             2


Q ss_pred             CCCeeEecccCCC-CCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce
Q 045113          675 RLSKIILAEYVFP-HSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW  753 (821)
Q Consensus       675 ~L~~l~l~~~~~~-~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~  753 (821)
                      .+..+....+..+ ..++.|+|++|.++. +++.....++|+.|.+.+++..+......+.++++|+.|++++| .++.+
T Consensus       140 ~i~~l~~~~f~~~~~~l~~L~L~~N~i~~-i~~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N-~l~~l  217 (350)
T 4ay9_X          140 NIHTIERNSFVGLSFESVILWLNKNGIQE-IHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRT-RIHSL  217 (350)
T ss_dssp             TCCEECTTSSTTSBSSCEEEECCSSCCCE-ECTTSSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTS-CCCCC
T ss_pred             ccccccccchhhcchhhhhhccccccccC-CChhhccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCC-CcCcc
Confidence            2333222222222 234555555555432 22233334455555554333333222223344555555555554 34444


Q ss_pred             eeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEe
Q 045113          754 TMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCW  793 (821)
Q Consensus       754 ~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~  793 (821)
                      |.  +.+.+|++|.+.+|..++.+|. +..+++|+.+++.
T Consensus       218 p~--~~~~~L~~L~~l~~~~l~~lP~-l~~l~~L~~l~l~  254 (350)
T 4ay9_X          218 PS--YGLENLKKLRARSTYNLKKLPT-LEKLVALMEASLT  254 (350)
T ss_dssp             CS--SSCTTCCEEECTTCTTCCCCCC-TTTCCSCCEEECS
T ss_pred             Ch--hhhccchHhhhccCCCcCcCCC-chhCcChhhCcCC
Confidence            42  2345555555555555555553 4555555555553

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.61  E-value=7.9e-16  Score=157.51  Aligned_cols=207  Identities=18%  Similarity=0.268  Sum_probs=118.9

Q ss_pred             CCcccccccCCCCceEEeecCCCCccccH-HHHhccccceEEecCCcc-cccchh-hhccCccCceeecCC-cccCCCCC
Q 045113          530 LNQYPSEIENLSLLRYLKLNIPSLKSLPL-SFFNYLLNLYTLDMPFSY-IDHTAD-EFWKMKKLRHLNFGS-ITLPAHPG  605 (821)
Q Consensus       530 l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~-~i~~~L~~L~~L~L~~~~-l~~lp~-~i~~l~~L~~L~L~~-~~~~~~~p  605 (821)
                      ++.+|. +.  .+|++|++++|.+..+|. .+. .+++|++|++++|. +..+|. .+.++++|++|++++ |.+. .+|
T Consensus        23 l~~ip~-~~--~~l~~L~l~~n~l~~i~~~~~~-~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~-~i~   97 (239)
T 2xwt_C           23 IQRIPS-LP--PSTQTLKLIETHLRTIPSHAFS-NLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLT-YID   97 (239)
T ss_dssp             CSSCCC-CC--TTCCEEEEESCCCSEECTTTTT-TCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCC-EEC
T ss_pred             ccccCC-CC--CcccEEEEeCCcceEECHHHcc-CCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCee-EcC
Confidence            555555 33  267777777777776665 344 67777777777774 666654 566677777777766 5552 222


Q ss_pred             CCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccC
Q 045113          606 NYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYV  685 (821)
Q Consensus       606 ~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~  685 (821)
                      ..                    . +..+++|+.|+++++.   ...+|. +..+++                        
T Consensus        98 ~~--------------------~-f~~l~~L~~L~l~~n~---l~~lp~-~~~l~~------------------------  128 (239)
T 2xwt_C           98 PD--------------------A-LKELPLLKFLGIFNTG---LKMFPD-LTKVYS------------------------  128 (239)
T ss_dssp             TT--------------------S-EECCTTCCEEEEEEEC---CCSCCC-CTTCCB------------------------
T ss_pred             HH--------------------H-hCCCCCCCEEeCCCCC---Cccccc-cccccc------------------------
Confidence            11                    0 4455556666666551   101111 111111                        


Q ss_pred             CCCCcceEEEecc-cCCCCCcccccCCCCCC-EEEEeccccCCCeeeecCCCCcccceeeeccCCCccceee-ccccc-c
Q 045113          686 FPHSLTHLSFSNT-DLMDDPMPALEKLPLLQ-VLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTM-GTGAM-P  761 (821)
Q Consensus       686 ~~~~L~~L~L~~~-~l~~~~~~~l~~l~~L~-~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~-~~~~l-~  761 (821)
                       ++.|+.|++++| .+....+..+.++++|+ .|++++|.+.. .....+.. ++|+.|++++|+.+..++. .+..+ +
T Consensus       129 -L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~-i~~~~~~~-~~L~~L~L~~n~~l~~i~~~~~~~l~~  205 (239)
T 2xwt_C          129 -TDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTS-VQGYAFNG-TKLDAVYLNKNKYLTVIDKDAFGGVYS  205 (239)
T ss_dssp             -CCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCE-ECTTTTTT-CEEEEEECTTCTTCCEECTTTTTTCSB
T ss_pred             -cccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCcc-cCHhhcCC-CCCCEEEcCCCCCcccCCHHHhhcccc
Confidence             112336666666 55444444566777777 77777666542 11111222 6788888887755666643 35667 7


Q ss_pred             ccceeEEeecCCCCCCccccCCCCCCCEEEEeCCc
Q 045113          762 KLECLIINPCAYLKKMPEQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       762 ~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~c~  796 (821)
                      +|+.|++++|. ++.+|..  .+++|+.|+++++.
T Consensus       206 ~L~~L~l~~N~-l~~l~~~--~~~~L~~L~l~~~~  237 (239)
T 2xwt_C          206 GPSLLDVSQTS-VTALPSK--GLEHLKELIARNTW  237 (239)
T ss_dssp             CCSEEECTTCC-CCCCCCT--TCTTCSEEECTTC-
T ss_pred             CCcEEECCCCc-cccCChh--HhccCceeeccCcc
Confidence            88888888765 4566654  57788888887765

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.60  E-value=2.3e-15  Score=160.48  Aligned_cols=110  Identities=15%  Similarity=0.053  Sum_probs=70.7

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHh--hccCCceeEEEeCCCCCC-cccccc--cCCCCceEEeecCCCCcc-cc----
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKI--CEMYKLLRVLDLGSLVLN-QYPSEI--ENLSLLRYLKLNIPSLKS-LP----  557 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~--~~~~~~Lr~L~L~~~~l~-~lp~~i--~~l~~Lr~L~L~~~~i~~-lp----  557 (821)
                      ....++.+.+.+.....   .....+  +..++.|+.|+|++|.+. ..|..+  +++++|++|++++|.+.. .|    
T Consensus        62 ~~~~l~~l~l~~~~~~~---~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~  138 (310)
T 4glp_A           62 KALRVRRLTVGAAQVPA---QLLVGALRVLAYSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAE  138 (310)
T ss_dssp             SSCCCCEEEECSCCCBH---HHHHHHHHHHHHSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHH
T ss_pred             hhcceeEEEEeCCcCCH---HHHHHHHHhcccCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHH
Confidence            34456666666555431   111111  223456888888888876 556666  778888888888888773 22    


Q ss_pred             HHHHhccccceEEecCCcccccch-hhhccCccCceeecCCcccC
Q 045113          558 LSFFNYLLNLYTLDMPFSYIDHTA-DEFWKMKKLRHLNFGSITLP  601 (821)
Q Consensus       558 ~~i~~~L~~L~~L~L~~~~l~~lp-~~i~~l~~L~~L~L~~~~~~  601 (821)
                      ..+. .+++|++|++++|.+..+| ..+..+++|++|++++|.+.
T Consensus       139 ~~~~-~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~  182 (310)
T 4glp_A          139 LQQW-LKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGL  182 (310)
T ss_dssp             HHTT-BCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTC
T ss_pred             HHhh-hccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCc
Confidence            2334 5778888888888776664 46677788888888777653

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.60  E-value=2.9e-16  Score=171.46  Aligned_cols=234  Identities=16%  Similarity=0.171  Sum_probs=146.2

Q ss_pred             hhHHhhccCCceeEEEeCCCCCCccc-----ccccCCC-CceEEeecCCCCccc-cHHHHhcc-----ccceEEecCCcc
Q 045113          509 DWQKICEMYKLLRVLDLGSLVLNQYP-----SEIENLS-LLRYLKLNIPSLKSL-PLSFFNYL-----LNLYTLDMPFSY  576 (821)
Q Consensus       509 ~~~~~~~~~~~Lr~L~L~~~~l~~lp-----~~i~~l~-~Lr~L~L~~~~i~~l-p~~i~~~L-----~~L~~L~L~~~~  576 (821)
                      ..+.++...++|+.|+|++|.++..+     ..+.+++ +|++|+|++|.+... +..+. .+     ++|++|++++|.
T Consensus        13 ~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~-~~l~~~~~~L~~L~Ls~n~   91 (362)
T 3goz_A           13 PVEEFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELV-QILAAIPANVTSLNLSGNF   91 (362)
T ss_dssp             HHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHH-HHHHTSCTTCCEEECCSSC
T ss_pred             HHHHHHhCCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHH-HHHhccCCCccEEECcCCc
Confidence            45566666777888888888887554     5677777 888888888888744 45555 54     888888888887


Q ss_pred             cccch-hh----hccC-ccCceeecCCcccCCCCCCC----cCC-CCCcceeccccCC-------cchhhhcCCCC-CCC
Q 045113          577 IDHTA-DE----FWKM-KKLRHLNFGSITLPAHPGNY----CGS-LENLNFISALYPC-------CCTKDLLGRLP-NLR  637 (821)
Q Consensus       577 l~~lp-~~----i~~l-~~L~~L~L~~~~~~~~~p~~----i~~-l~~L~~L~~~~~~-------~~~~~~l~~l~-~L~  637 (821)
                      +...+ ..    +..+ ++|++|++++|.+....+..    +.. .++|++|++.+|.       ..... +..++ +|+
T Consensus        92 l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~-l~~~~~~L~  170 (362)
T 3goz_A           92 LSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQI-LAAIPANVN  170 (362)
T ss_dssp             GGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHH-HHTSCTTCC
T ss_pred             CChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHH-HhcCCcccc
Confidence            76553 33    3444 78888888888875543322    233 2577777777631       11222 45555 788


Q ss_pred             eEEEecccc--cchhHHHHHccCC-CCcCEEEeecCCCCCCCCeeEecc----cCC-CCCcceEEEecccCCCCCc----
Q 045113          638 NLRIQGDLS--YNQSLLSKSLCRL-SCLESLKLANESKMPRLSKIILAE----YVF-PHSLTHLSFSNTDLMDDPM----  705 (821)
Q Consensus       638 ~L~l~~~~~--~~~~~l~~~l~~~-~~L~~L~l~~~~~~~~L~~l~l~~----~~~-~~~L~~L~L~~~~l~~~~~----  705 (821)
                      .|++++|.-  .....+...+..+ ++|+.|++++|    .+.......    +.. .++|+.|+|++|.+.+..+    
T Consensus       171 ~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N----~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~  246 (362)
T 3goz_A          171 SLNLRGNNLASKNCAELAKFLASIPASVTSLDLSAN----LLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHGPSLENLK  246 (362)
T ss_dssp             EEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTS----CGGGSCHHHHHHHHHHSCTTCCEEECCSSCCCCCCHHHHH
T ss_pred             EeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCC----CCChhHHHHHHHHHhcCCCCceEEECcCCCCCcHHHHHHH
Confidence            888888741  1223444455555 47888888754    333311110    222 4578888888887765444    


Q ss_pred             ccccCCCCCCEEEEeccccCCCe------eeecCCCCcccceeeeccCC
Q 045113          706 PALEKLPLLQVLKLKQNSYSGRK------LTCGSDGFPRLKVLHLKSML  748 (821)
Q Consensus       706 ~~l~~l~~L~~L~L~~~~~~~~~------~~~~~~~~~~L~~L~L~~~~  748 (821)
                      ..+..+++|+.|+|++|.+....      +......+++|+.|++++|+
T Consensus       247 ~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N~  295 (362)
T 3goz_A          247 LLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGKE  295 (362)
T ss_dssp             HTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSCB
T ss_pred             HHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCCc
Confidence            23456777888888877643321      11224456677777777764

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.60  E-value=1.7e-15  Score=154.93  Aligned_cols=196  Identities=17%  Similarity=0.166  Sum_probs=115.5

Q ss_pred             ceeEEEeCCCCCCcccc-cccCCCCceEEeecCCC-CccccH-HHHhccccceEEecCC-cccccchh-hhccCccCcee
Q 045113          519 LLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPS-LKSLPL-SFFNYLLNLYTLDMPF-SYIDHTAD-EFWKMKKLRHL  593 (821)
Q Consensus       519 ~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~-i~~lp~-~i~~~L~~L~~L~L~~-~~l~~lp~-~i~~l~~L~~L  593 (821)
                      .|+.|+|++|.++.+|. .+.++++|++|++++|. +..+|. .+. .+++|++|++++ |.+..+|. .+.++++|++|
T Consensus        32 ~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~-~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L  110 (239)
T 2xwt_C           32 STQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFY-NLSKVTHIEIRNTRNLTYIDPDALKELPLLKFL  110 (239)
T ss_dssp             TCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEE-SCTTCCEEEEEEETTCCEECTTSEECCTTCCEE
T ss_pred             cccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcC-CCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEE
Confidence            78888888888887765 67888889999998886 887776 455 888899999988 78888864 57788889999


Q ss_pred             ecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHH-HHccCCCCcC-EEEeecCC
Q 045113          594 NFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLS-KSLCRLSCLE-SLKLANES  671 (821)
Q Consensus       594 ~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~-~~l~~~~~L~-~L~l~~~~  671 (821)
                      ++++|.+.+ +|. ++.+++|+                   .|+.|+++++.  ....++ ..+..+++|+ .|+++.| 
T Consensus       111 ~l~~n~l~~-lp~-~~~l~~L~-------------------~L~~L~l~~N~--~l~~i~~~~~~~l~~L~~~L~l~~n-  166 (239)
T 2xwt_C          111 GIFNTGLKM-FPD-LTKVYSTD-------------------IFFILEITDNP--YMTSIPVNAFQGLCNETLTLKLYNN-  166 (239)
T ss_dssp             EEEEECCCS-CCC-CTTCCBCC-------------------SEEEEEEESCT--TCCEECTTTTTTTBSSEEEEECCSC-
T ss_pred             eCCCCCCcc-ccc-cccccccc-------------------cccEEECCCCc--chhhcCcccccchhcceeEEEcCCC-
Confidence            888888744 554 44443333                   12244444430  011111 1233344444 4444322 


Q ss_pred             CCCCCCeeEecccCCCCCcceEEEeccc-CCCCCcccccCC-CCCCEEEEeccccCCCeeeecCCCCcccceeeeccC
Q 045113          672 KMPRLSKIILAEYVFPHSLTHLSFSNTD-LMDDPMPALEKL-PLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSM  747 (821)
Q Consensus       672 ~~~~L~~l~l~~~~~~~~L~~L~L~~~~-l~~~~~~~l~~l-~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~  747 (821)
                         .++.+....+.. ++|+.|+|++|. +....+..+..+ ++|+.|++++|.+....    ...|++|+.|.+.++
T Consensus       167 ---~l~~i~~~~~~~-~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l~~l~----~~~~~~L~~L~l~~~  236 (239)
T 2xwt_C          167 ---GFTSVQGYAFNG-TKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALP----SKGLEHLKELIARNT  236 (239)
T ss_dssp             ---CCCEECTTTTTT-CEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTCCCCCCC----CTTCTTCSEEECTTC
T ss_pred             ---CCcccCHhhcCC-CCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCCccccCC----hhHhccCceeeccCc
Confidence               233222111222 456666666663 543334445555 66666666655554321    124556666665554

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.58  E-value=1.2e-14  Score=149.86  Aligned_cols=176  Identities=22%  Similarity=0.253  Sum_probs=109.8

Q ss_pred             CceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccH-HHHhccccceEEecCCcccccchh-hhccCccCceeec
Q 045113          518 KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPL-SFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNF  595 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~-~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L  595 (821)
                      ...+.++++++.++.+|..+.  .+|++|+|++|.+..++. .+. ++++|++|++++|.+..++. .+..+++|++|++
T Consensus        14 ~~~~~l~~~~~~l~~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~-~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L   90 (251)
T 3m19_A           14 EGKKEVDCQGKSLDSVPSGIP--ADTEKLDLQSTGLATLSDATFR-GLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGL   90 (251)
T ss_dssp             GGGTEEECTTCCCSSCCSCCC--TTCCEEECTTSCCCCCCTTTTT-TCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCeEEecCCCCccccCCCCC--CCCCEEEccCCCcCccCHhHhc-CcccCCEEECCCCcCCccCHhHhccCCcCCEEEC
Confidence            457788999998888887765  588999999999886665 466 88999999999998887754 4788899999999


Q ss_pred             CCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCC
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKM  673 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~  673 (821)
                      ++|.+....+..++.+++|++|++..|  ...+...+..                          +++|+.|+++.|   
T Consensus        91 ~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~--------------------------l~~L~~L~Ls~N---  141 (251)
T 3m19_A           91 ANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDR--------------------------LTKLKELRLNTN---  141 (251)
T ss_dssp             TTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTT--------------------------CTTCCEEECCSS---
T ss_pred             CCCcccccChhHhcccCCCCEEEcCCCcCCCcChhHhcc--------------------------CCcccEEECcCC---
Confidence            998885544444455555555544432  1111111233                          333333333322   


Q ss_pred             CCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCC
Q 045113          674 PRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG  726 (821)
Q Consensus       674 ~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~  726 (821)
                       .++.+....+..+++|+.|+|++|.+....+..+..+++|+.|+|++|.+..
T Consensus       142 -~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c  193 (251)
T 3m19_A          142 -QLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLFGNQFDC  193 (251)
T ss_dssp             -CCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBCT
T ss_pred             -cCCccCHHHcCcCcCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCceeC
Confidence             2222222223445566666666666555444456666666666666655543

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.58  E-value=1.4e-16  Score=173.88  Aligned_cols=247  Identities=15%  Similarity=0.112  Sum_probs=166.4

Q ss_pred             EEEeCCCCCC-cccccccCCCCceEEeecCCCCcccc-----HHHHhccc-cceEEecCCcccccc-hhhhccC-----c
Q 045113          522 VLDLGSLVLN-QYPSEIENLSLLRYLKLNIPSLKSLP-----LSFFNYLL-NLYTLDMPFSYIDHT-ADEFWKM-----K  588 (821)
Q Consensus       522 ~L~L~~~~l~-~lp~~i~~l~~Lr~L~L~~~~i~~lp-----~~i~~~L~-~L~~L~L~~~~l~~l-p~~i~~l-----~  588 (821)
                      .++|+.+.++ .+|..+....+|++|+|++|.+...+     ..+. .++ +|++|+|++|.+... +..+..+     +
T Consensus         2 ~~~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~-~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~   80 (362)
T 3goz_A            2 NYKLTLHPGSNPVEEFTSIPHGVTSLDLSLNNLYSISTVELIQAFA-NTPASVTSLNLSGNSLGFKNSDELVQILAAIPA   80 (362)
T ss_dssp             EEECCCCTTCCHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHH-TCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCT
T ss_pred             ccccccccchHHHHHHHhCCCCceEEEccCCCCChHHHHHHHHHHH-hCCCceeEEECcCCCCCHHHHHHHHHHHhccCC
Confidence            4678888888 45555666667999999999999776     4566 788 999999999988776 5566664     9


Q ss_pred             cCceeecCCcccCCCCCCC----cCCC-CCcceeccccCC---cch---hhhcCC-CCCCCeEEEeccc--ccchhHHHH
Q 045113          589 KLRHLNFGSITLPAHPGNY----CGSL-ENLNFISALYPC---CCT---KDLLGR-LPNLRNLRIQGDL--SYNQSLLSK  654 (821)
Q Consensus       589 ~L~~L~L~~~~~~~~~p~~----i~~l-~~L~~L~~~~~~---~~~---~~~l~~-l~~L~~L~l~~~~--~~~~~~l~~  654 (821)
                      +|++|++++|.+....+..    +..+ ++|++|++..|.   ..+   ...+.. .++|+.|++++|.  ......++.
T Consensus        81 ~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~  160 (362)
T 3goz_A           81 NVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQ  160 (362)
T ss_dssp             TCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHH
T ss_pred             CccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHH
Confidence            9999999999986655543    3334 788999888841   111   122445 3588999988874  122346667


Q ss_pred             HccCCC-CcCEEEeecCCCCCCCCeeEecc----cCCC-CCcceEEEecccCCCCC----cccccC-CCCCCEEEEeccc
Q 045113          655 SLCRLS-CLESLKLANESKMPRLSKIILAE----YVFP-HSLTHLSFSNTDLMDDP----MPALEK-LPLLQVLKLKQNS  723 (821)
Q Consensus       655 ~l~~~~-~L~~L~l~~~~~~~~L~~l~l~~----~~~~-~~L~~L~L~~~~l~~~~----~~~l~~-l~~L~~L~L~~~~  723 (821)
                      .+..++ +|++|++++|    .+.......    +..+ ++|+.|+|++|.+.+..    +..+.. .++|+.|+|++|.
T Consensus       161 ~l~~~~~~L~~L~Ls~n----~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~  236 (362)
T 3goz_A          161 ILAAIPANVNSLNLRGN----NLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNC  236 (362)
T ss_dssp             HHHTSCTTCCEEECTTS----CGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSSC
T ss_pred             HHhcCCccccEeeecCC----CCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCCC
Confidence            776665 8888888764    343322211    2334 58888888888876533    333444 3488888888877


Q ss_pred             cCCCee---eecCCCCcccceeeeccCC---C----ccceeeccccccccceeEEeecCC
Q 045113          724 YSGRKL---TCGSDGFPRLKVLHLKSML---W----LEEWTMGTGAMPKLECLIINPCAY  773 (821)
Q Consensus       724 ~~~~~~---~~~~~~~~~L~~L~L~~~~---~----l~~~~~~~~~l~~L~~L~i~~c~~  773 (821)
                      +.+...   ......+++|+.|++++|.   .    +..++..+..+++|+.|++++|+.
T Consensus       237 l~~~~~~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N~l  296 (362)
T 3goz_A          237 LHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGKEI  296 (362)
T ss_dssp             CCCCCHHHHHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSCBC
T ss_pred             CCcHHHHHHHHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCCcC
Confidence            766432   2334667888888888874   0    122333455677788888887764

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.56  E-value=4.9e-15  Score=130.96  Aligned_cols=82  Identities=23%  Similarity=0.325  Sum_probs=76.8

Q ss_pred             HHHHHHHHHHHHHhcchhhccccccchhHHHHHHHHHHHHHHHHhhhhhhhHHhhhhcccc--cCCChhHHHHHHHHHHH
Q 045113           11 INFRLFSERLRRVLAGEEVALPDAAKQPIQNLHAEIEVVTSWLRDFEYDMSWLLLQKIAED--ENDNPDLRTVMDEINCF   88 (821)
Q Consensus        11 ~~~~~~~~kl~~~l~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~wl~~l~~~   88 (821)
                      |+++++++|+.+++. +|+.++.+++++++.|+++|+.|+++|.||+.            +  +..++.++.|+++||++
T Consensus         1 a~v~~ll~KL~~ll~-~E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~~------------~~~~~~d~~vk~W~~~vrdl   67 (115)
T 3qfl_A            1 AAISNLIPKLGELLT-EEFKLHKGVKKNIEDLGKELESMNAALIKIGE------------VPREQLDSQDKLWADEVREL   67 (115)
T ss_dssp             CTTCSHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT------------SCGGGCCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHH-HHHHHHhchHHHHHHHHHHHHHHHHHHHHHHH------------hccccCCHHHHHHHHHHHHH
Confidence            467889999999999 99999999999999999999999999999998            5  56789999999999999


Q ss_pred             HhhhHHHHHHhHhhhcc
Q 045113           89 TYESEKVIDTFISSITQ  105 (821)
Q Consensus        89 ~~~~ed~ld~~~~~~~~  105 (821)
                      +||+||++|+|.++...
T Consensus        68 aYD~ED~iD~f~~~~~~   84 (115)
T 3qfl_A           68 SYVIEDVVDKFLVQVDG   84 (115)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcc
Confidence            99999999999998754

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.55  E-value=2.6e-15  Score=160.06  Aligned_cols=103  Identities=17%  Similarity=0.131  Sum_probs=65.5

Q ss_pred             ceeEEEeCCCCCC--cccc--cccCCCCceEEeecCCCCc-cccHHH--HhccccceEEecCCcccccc-h----hhhcc
Q 045113          519 LLRVLDLGSLVLN--QYPS--EIENLSLLRYLKLNIPSLK-SLPLSF--FNYLLNLYTLDMPFSYIDHT-A----DEFWK  586 (821)
Q Consensus       519 ~Lr~L~L~~~~l~--~lp~--~i~~l~~Lr~L~L~~~~i~-~lp~~i--~~~L~~L~~L~L~~~~l~~l-p----~~i~~  586 (821)
                      .++.|.+.++.++  .+..  ....+++|++|++++|.+. ..|..+  . .+++|++|++++|.+... |    ..+..
T Consensus        65 ~l~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~-~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~  143 (310)
T 4glp_A           65 RVRRLTVGAAQVPAQLLVGALRVLAYSRLKELTLEDLKITGTMPPLPLEA-TGLALSSLRLRNVSWATGRSWLAELQQWL  143 (310)
T ss_dssp             CCCEEEECSCCCBHHHHHHHHHHHHHSCCCEEEEESCCCBSCCCCCSSSC-CCBCCSSCEEESCCCSSTTSSHHHHHTTB
T ss_pred             ceeEEEEeCCcCCHHHHHHHHHhcccCceeEEEeeCCEeccchhhhhhhc-cCCCCCEEEeecccccchhhhhHHHHhhh
Confidence            4667777777664  1111  1223456888888888776 455555  5 778888888888866542 1    34456


Q ss_pred             CccCceeecCCcccCCCCCCCcCCCCCcceeccccC
Q 045113          587 MKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP  622 (821)
Q Consensus       587 l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~  622 (821)
                      +++|++|++++|.+....|..++.+++|++|++.+|
T Consensus       144 ~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N  179 (310)
T 4glp_A          144 KPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDN  179 (310)
T ss_dssp             CSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSC
T ss_pred             ccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCC
Confidence            778888888888775555566666666666665553

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.55  E-value=8.9e-15  Score=154.25  Aligned_cols=171  Identities=20%  Similarity=0.166  Sum_probs=100.0

Q ss_pred             ccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceee
Q 045113          515 EMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLN  594 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~  594 (821)
                      ..++.|+.|++++|.+..++. +..+++|++|++++|.+..++. +. .+++|++|++++|.+..+|. +..+++|++|+
T Consensus        43 ~~l~~L~~L~l~~~~i~~~~~-~~~l~~L~~L~L~~n~l~~~~~-l~-~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~  118 (291)
T 1h6t_A           43 NELNSIDQIIANNSDIKSVQG-IQYLPNVTKLFLNGNKLTDIKP-LA-NLKNLGWLFLDENKVKDLSS-LKDLKKLKSLS  118 (291)
T ss_dssp             HHHHTCCEEECTTSCCCCCTT-GGGCTTCCEEECCSSCCCCCGG-GT-TCTTCCEEECCSSCCCCGGG-GTTCTTCCEEE
T ss_pred             hhcCcccEEEccCCCcccChh-HhcCCCCCEEEccCCccCCCcc-cc-cCCCCCEEECCCCcCCCChh-hccCCCCCEEE
Confidence            456667777777777766653 6667777777777777776665 55 77777777777776666554 66777777777


Q ss_pred             cCCcccCCCCCCCcCCCCCcceeccccCC-cchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCC
Q 045113          595 FGSITLPAHPGNYCGSLENLNFISALYPC-CCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKM  673 (821)
Q Consensus       595 L~~~~~~~~~p~~i~~l~~L~~L~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~  673 (821)
                      +++|.+.. + ..+..+++|+.|++..|. ..+.. +..+++|+.|++++|                             
T Consensus       119 L~~n~i~~-~-~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~L~~N-----------------------------  166 (291)
T 1h6t_A          119 LEHNGISD-I-NGLVHLPQLESLYLGNNKITDITV-LSRLTKLDTLSLEDN-----------------------------  166 (291)
T ss_dssp             CTTSCCCC-C-GGGGGCTTCCEEECCSSCCCCCGG-GGGCTTCSEEECCSS-----------------------------
T ss_pred             CCCCcCCC-C-hhhcCCCCCCEEEccCCcCCcchh-hccCCCCCEEEccCC-----------------------------
Confidence            77776633 2 224444444444443321 11122 444444444444444                             


Q ss_pred             CCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCC
Q 045113          674 PRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG  726 (821)
Q Consensus       674 ~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~  726 (821)
                       .+..+..  +..+++|+.|++++|.+++  .+.+..+++|+.|++++|.+..
T Consensus       167 -~l~~~~~--l~~l~~L~~L~L~~N~i~~--l~~l~~l~~L~~L~l~~n~i~~  214 (291)
T 1h6t_A          167 -QISDIVP--LAGLTKLQNLYLSKNHISD--LRALAGLKNLDVLELFSQECLN  214 (291)
T ss_dssp             -CCCCCGG--GTTCTTCCEEECCSSCCCB--CGGGTTCTTCSEEEEEEEEEEC
T ss_pred             -ccccchh--hcCCCccCEEECCCCcCCC--ChhhccCCCCCEEECcCCcccC
Confidence             2222211  3456666666666776643  2346777777777777666544

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=99.54  E-value=9.9e-15  Score=168.94  Aligned_cols=172  Identities=18%  Similarity=0.155  Sum_probs=89.3

Q ss_pred             ccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceee
Q 045113          515 EMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLN  594 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~  594 (821)
                      ..++.|+.|++++|.+..+| .+..+++|++|+|++|.+..+|. +. .+++|+.|+|++|.+..+| .+..+++|++|+
T Consensus        40 ~~L~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~Ls~N~l~~~~~-l~-~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L~  115 (605)
T 1m9s_A           40 NELNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLNGNKLTDIKP-LT-NLKNLGWLFLDENKIKDLS-SLKDLKKLKSLS  115 (605)
T ss_dssp             HHHTTCCCCBCTTCCCCCCT-TGGGCTTCCEEECTTSCCCCCGG-GG-GCTTCCEEECCSSCCCCCT-TSTTCTTCCEEE
T ss_pred             hcCCCCCEEECcCCCCCCCh-HHccCCCCCEEEeeCCCCCCChh-hc-cCCCCCEEECcCCCCCCCh-hhccCCCCCEEE
Confidence            34555666666666655554 35556666666666666665554 44 5666666666666555554 455566666666


Q ss_pred             cCCcccCCCCCCCcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCC
Q 045113          595 FGSITLPAHPGNYCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKM  673 (821)
Q Consensus       595 L~~~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~  673 (821)
                      |++|.+.. + ..+..+++|+.|++..| -..+.. +..+++|+.|++++|.  .....|  +..+++|+.|+|+.|   
T Consensus       116 Ls~N~l~~-l-~~l~~l~~L~~L~Ls~N~l~~l~~-l~~l~~L~~L~Ls~N~--l~~~~~--l~~l~~L~~L~Ls~N---  185 (605)
T 1m9s_A          116 LEHNGISD-I-NGLVHLPQLESLYLGNNKITDITV-LSRLTKLDTLSLEDNQ--ISDIVP--LAGLTKLQNLYLSKN---  185 (605)
T ss_dssp             CTTSCCCC-C-GGGGGCTTCSEEECCSSCCCCCGG-GGSCTTCSEEECCSSC--CCCCGG--GTTCTTCCEEECCSS---
T ss_pred             ecCCCCCC-C-ccccCCCccCEEECCCCccCCchh-hcccCCCCEEECcCCc--CCCchh--hccCCCCCEEECcCC---
Confidence            66665532 2 22445555555555442 111233 5555666666666552  111111  455555555555543   


Q ss_pred             CCCCeeEecccCCCCCcceEEEecccCCCC
Q 045113          674 PRLSKIILAEYVFPHSLTHLSFSNTDLMDD  703 (821)
Q Consensus       674 ~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~  703 (821)
                       .+..+  ..+..+++|+.|+|++|.+.+.
T Consensus       186 -~i~~l--~~l~~l~~L~~L~L~~N~l~~~  212 (605)
T 1m9s_A          186 -HISDL--RALAGLKNLDVLELFSQECLNK  212 (605)
T ss_dssp             -CCCBC--GGGTTCTTCSEEECCSEEEECC
T ss_pred             -CCCCC--hHHccCCCCCEEEccCCcCcCC
Confidence             23322  2244555555555555555443

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=99.52  E-value=1e-14  Score=168.82  Aligned_cols=191  Identities=20%  Similarity=0.207  Sum_probs=146.4

Q ss_pred             CceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCC
Q 045113          518 KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGS  597 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~  597 (821)
                      ..+..+.+..+.+..++. +..|.+|++|++++|.+..+| .+. .|++|+.|+|++|.+..+|+ +..+++|++|+|++
T Consensus        21 ~~l~~l~l~~~~i~~~~~-~~~L~~L~~L~l~~n~i~~l~-~l~-~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~   96 (605)
T 1m9s_A           21 AETIKDNLKKKSVTDAVT-QNELNSIDQIIANNSDIKSVQ-GIQ-YLPNVTKLFLNGNKLTDIKP-LTNLKNLGWLFLDE   96 (605)
T ss_dssp             HHHHHHHTTCSCTTSEEC-HHHHTTCCCCBCTTCCCCCCT-TGG-GCTTCCEEECTTSCCCCCGG-GGGCTTCCEEECCS
T ss_pred             HHHHHHhccCCCcccccc-hhcCCCCCEEECcCCCCCCCh-HHc-cCCCCCEEEeeCCCCCCChh-hccCCCCCEEECcC
Confidence            345556677777665543 567899999999999999988 677 99999999999999999987 89999999999999


Q ss_pred             cccCCCCCCCcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCC
Q 045113          598 ITLPAHPGNYCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRL  676 (821)
Q Consensus       598 ~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L  676 (821)
                      |.+.. +| .++.+++|+.|++..| -..+.. +..+++|+.|++++|.-  . .+ ..+..+++|+.|+|+.|    .+
T Consensus        97 N~l~~-l~-~l~~l~~L~~L~Ls~N~l~~l~~-l~~l~~L~~L~Ls~N~l--~-~l-~~l~~l~~L~~L~Ls~N----~l  165 (605)
T 1m9s_A           97 NKIKD-LS-SLKDLKKLKSLSLEHNGISDING-LVHLPQLESLYLGNNKI--T-DI-TVLSRLTKLDTLSLEDN----QI  165 (605)
T ss_dssp             SCCCC-CT-TSTTCTTCCEEECTTSCCCCCGG-GGGCTTCSEEECCSSCC--C-CC-GGGGSCTTCSEEECCSS----CC
T ss_pred             CCCCC-Ch-hhccCCCCCEEEecCCCCCCCcc-ccCCCccCEEECCCCcc--C-Cc-hhhcccCCCCEEECcCC----cC
Confidence            99844 44 6888999999998885 233455 78888999999988742  1 22 46777888888888754    34


Q ss_pred             CeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCC
Q 045113          677 SKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGR  727 (821)
Q Consensus       677 ~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~  727 (821)
                      ..+..  +..+++|+.|+|++|.+.+  ++.+..|++|+.|+|++|.+.+.
T Consensus       166 ~~~~~--l~~l~~L~~L~Ls~N~i~~--l~~l~~l~~L~~L~L~~N~l~~~  212 (605)
T 1m9s_A          166 SDIVP--LAGLTKLQNLYLSKNHISD--LRALAGLKNLDVLELFSQECLNK  212 (605)
T ss_dssp             CCCGG--GTTCTTCCEEECCSSCCCB--CGGGTTCTTCSEEECCSEEEECC
T ss_pred             CCchh--hccCCCCCEEECcCCCCCC--ChHHccCCCCCEEEccCCcCcCC
Confidence            44322  5677888888888887754  35678888888888887776553

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.51  E-value=1.7e-14  Score=165.20  Aligned_cols=91  Identities=22%  Similarity=0.240  Sum_probs=74.2

Q ss_pred             CceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCC
Q 045113          518 KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGS  597 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~  597 (821)
                      .+|+.|+|++|.++.+|..+.  ++|++|+|++|.+..+|   . .+++|++|++++|.+..+|. +.+  +|++|++++
T Consensus        59 ~~L~~L~Ls~n~L~~lp~~l~--~~L~~L~Ls~N~l~~ip---~-~l~~L~~L~Ls~N~l~~ip~-l~~--~L~~L~Ls~  129 (571)
T 3cvr_A           59 NQFSELQLNRLNLSSLPDNLP--PQITVLEITQNALISLP---E-LPASLEYLDACDNRLSTLPE-LPA--SLKHLDVDN  129 (571)
T ss_dssp             TTCSEEECCSSCCSCCCSCCC--TTCSEEECCSSCCSCCC---C-CCTTCCEEECCSSCCSCCCC-CCT--TCCEEECCS
T ss_pred             CCccEEEeCCCCCCccCHhHc--CCCCEEECcCCCCcccc---c-ccCCCCEEEccCCCCCCcch-hhc--CCCEEECCC
Confidence            489999999999999988764  78999999999999998   4 78999999999999988988 665  899999999


Q ss_pred             cccCCCCCCCcCCCCCcceecccc
Q 045113          598 ITLPAHPGNYCGSLENLNFISALY  621 (821)
Q Consensus       598 ~~~~~~~p~~i~~l~~L~~L~~~~  621 (821)
                      |.+.+ +|.   .+++|+.|++.+
T Consensus       130 N~l~~-lp~---~l~~L~~L~Ls~  149 (571)
T 3cvr_A          130 NQLTM-LPE---LPALLEYINADN  149 (571)
T ss_dssp             SCCSC-CCC---CCTTCCEEECCS
T ss_pred             CcCCC-CCC---cCccccEEeCCC
Confidence            98854 554   344555555433

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.50  E-value=3.6e-14  Score=153.97  Aligned_cols=235  Identities=12%  Similarity=0.052  Sum_probs=158.5

Q ss_pred             eEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccc-cccCCCCceEEeecCCCCc-cccHHHHhccccceE-
Q 045113          493 HSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLK-SLPLSFFNYLLNLYT-  569 (821)
Q Consensus       493 rsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~i~-~lp~~i~~~L~~L~~-  569 (821)
                      +++...+.....    ++..+   .++++.|+|++|.|+.+|. .+.++++|++|+|++|.+. .+|.....++++|+. 
T Consensus        12 ~~v~C~~~~Lt~----iP~~l---~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~   84 (350)
T 4ay9_X           12 RVFLCQESKVTE----IPSDL---PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEI   84 (350)
T ss_dssp             TEEEEESTTCCS----CCTTC---CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEE
T ss_pred             CEEEecCCCCCc----cCcCc---CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhh
Confidence            566666655543    33322   3689999999999999986 5899999999999999975 577554338888775 


Q ss_pred             EecCCcccccc-hhhhccCccCceeecCCcccCCCCCCCcCCCCCcceecccc-C--CcchhhhcCCCC-CCCeEEEecc
Q 045113          570 LDMPFSYIDHT-ADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALY-P--CCCTKDLLGRLP-NLRNLRIQGD  644 (821)
Q Consensus       570 L~L~~~~l~~l-p~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~-~--~~~~~~~l~~l~-~L~~L~l~~~  644 (821)
                      +.++.|.+..+ |..+..+++|++|++++|.+....+..+....++..|++.. +  ...+...+..+. .++.|+++++
T Consensus        85 l~~~~N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N  164 (350)
T 4ay9_X           85 RIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKN  164 (350)
T ss_dssp             EEEEETTCCEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSS
T ss_pred             hcccCCcccccCchhhhhccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhccccc
Confidence            55566789988 45678999999999999998655455555666777777544 2  122221123332 3444444443


Q ss_pred             cccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecc-cCCCCCcccccCCCCCCEEEEeccc
Q 045113          645 LSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNT-DLMDDPMPALEKLPLLQVLKLKQNS  723 (821)
Q Consensus       645 ~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~-~l~~~~~~~l~~l~~L~~L~L~~~~  723 (821)
                                                    .++.+... .....+|+.|.++++ .+.......++.+++|+.|+|++|.
T Consensus       165 ------------------------------~i~~i~~~-~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~  213 (350)
T 4ay9_X          165 ------------------------------GIQEIHNS-AFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTR  213 (350)
T ss_dssp             ------------------------------CCCEECTT-SSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSC
T ss_pred             ------------------------------cccCCChh-hccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCC
Confidence                                          33333221 223456777777654 4443334467888888888888887


Q ss_pred             cCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEee
Q 045113          724 YSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINP  770 (821)
Q Consensus       724 ~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~  770 (821)
                      +....    ...|.+|+.|.+.++..++.+|. +..+++|+.+++.+
T Consensus       214 l~~lp----~~~~~~L~~L~~l~~~~l~~lP~-l~~l~~L~~l~l~~  255 (350)
T 4ay9_X          214 IHSLP----SYGLENLKKLRARSTYNLKKLPT-LEKLVALMEASLTY  255 (350)
T ss_dssp             CCCCC----SSSCTTCCEEECTTCTTCCCCCC-TTTCCSCCEEECSC
T ss_pred             cCccC----hhhhccchHhhhccCCCcCcCCC-chhCcChhhCcCCC
Confidence            76532    35678888888888888888873 67788888888864

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.50  E-value=1e-13  Score=138.41  Aligned_cols=180  Identities=22%  Similarity=0.261  Sum_probs=113.7

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhh-hccCccCceeecCCcc
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHLNFGSIT  599 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~-i~~l~~L~~L~L~~~~  599 (821)
                      +.++++++.++.+|..+  .++|++|++++|.+..+|......+++|++|++++|.+..+|.. +..+++|++|++++|.
T Consensus        10 ~~v~c~~~~l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~   87 (208)
T 2o6s_A           10 TTVECYSQGRTSVPTGI--PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQ   87 (208)
T ss_dssp             TEEECCSSCCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CEEEecCCCccCCCCCC--CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCc
Confidence            46677777777777554  45788888888888877765432788888888888877777654 5678888888888887


Q ss_pred             cCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCee
Q 045113          600 LPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKI  679 (821)
Q Consensus       600 ~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l  679 (821)
                      +....+..                      +..+++|+.|+++++.                              +..+
T Consensus        88 l~~~~~~~----------------------~~~l~~L~~L~L~~N~------------------------------l~~~  115 (208)
T 2o6s_A           88 LQSLPNGV----------------------FDKLTQLKELALNTNQ------------------------------LQSL  115 (208)
T ss_dssp             CCCCCTTT----------------------TTTCTTCCEEECCSSC------------------------------CCCC
T ss_pred             CCccCHhH----------------------hcCccCCCEEEcCCCc------------------------------Cccc
Confidence            74322222                      3445555555555541                              1111


Q ss_pred             EecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeecccc
Q 045113          680 ILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGA  759 (821)
Q Consensus       680 ~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~  759 (821)
                      ....+..+++|+.|+|++|.+++..+..+..+++|+.|++++|.+.+        .+++|++|.++.+.....+|..++.
T Consensus       116 ~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~--------~~~~l~~L~~~~n~~~g~ip~~~~~  187 (208)
T 2o6s_A          116 PDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDC--------TCPGIRYLSEWINKHSGVVRNSAGS  187 (208)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBCC--------CTTTTHHHHHHHHHCTTTBBCTTSS
T ss_pred             CHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCCeec--------CCCCHHHHHHHHHhCCceeeccCcc
Confidence            11112345566666666776665555556777788888887665432        4567777777776555566666555


Q ss_pred             ccc
Q 045113          760 MPK  762 (821)
Q Consensus       760 l~~  762 (821)
                      ++.
T Consensus       188 l~~  190 (208)
T 2o6s_A          188 VAP  190 (208)
T ss_dssp             BCT
T ss_pred             ccC
Confidence            544

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.49  E-value=1.4e-13  Score=141.77  Aligned_cols=168  Identities=20%  Similarity=0.175  Sum_probs=107.3

Q ss_pred             EEEEEcCCCcccccCCCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCC
Q 045113          473 FFALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIP  551 (821)
Q Consensus       473 ~lsl~~~~~~~~~~~~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~  551 (821)
                      ++.+.+......+..-.++++.|.+.++....    ..+..|..+++|++|+|++|.++.++ ..+..+++|++|++++|
T Consensus        18 ~l~~~~~~l~~~p~~~~~~l~~L~L~~n~l~~----~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n   93 (251)
T 3m19_A           18 EVDCQGKSLDSVPSGIPADTEKLDLQSTGLAT----LSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANN   93 (251)
T ss_dssp             EEECTTCCCSSCCSCCCTTCCEEECTTSCCCC----CCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS
T ss_pred             EEecCCCCccccCCCCCCCCCEEEccCCCcCc----cCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCC
Confidence            34444333333322233567777777766543    44456677777777777777777554 34677777777777777


Q ss_pred             CCccccHHHHhccccceEEecCCcccccchhh-hccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC--Ccchhh
Q 045113          552 SLKSLPLSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKD  628 (821)
Q Consensus       552 ~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~-i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~  628 (821)
                      .+..+|......+++|++|++++|.+..+|.. +..+++|++|++++|.+....+..++.+++|++|++..|  ...+..
T Consensus        94 ~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~  173 (251)
T 3m19_A           94 QLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHG  173 (251)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTT
T ss_pred             cccccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCccCHH
Confidence            77766654433777777777777777777654 466777777777777775444445677777777777664  233332


Q ss_pred             hcCCCCCCCeEEEecc
Q 045113          629 LLGRLPNLRNLRIQGD  644 (821)
Q Consensus       629 ~l~~l~~L~~L~l~~~  644 (821)
                      .+..+++|+.|++++|
T Consensus       174 ~~~~l~~L~~L~l~~N  189 (251)
T 3m19_A          174 AFDRLGKLQTITLFGN  189 (251)
T ss_dssp             TTTTCTTCCEEECCSC
T ss_pred             HHhCCCCCCEEEeeCC
Confidence            2666667777777665

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.48  E-value=4.7e-14  Score=146.35  Aligned_cols=170  Identities=18%  Similarity=0.186  Sum_probs=107.1

Q ss_pred             cCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeec
Q 045113          516 MYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNF  595 (821)
Q Consensus       516 ~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L  595 (821)
                      .+..+..++++++.++.++ .+..+++|++|++++|.+..+| .+. .+++|++|++++|.+..+|. +.++++|++|++
T Consensus        17 ~l~~l~~l~l~~~~i~~~~-~~~~l~~L~~L~l~~n~i~~l~-~l~-~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L   92 (263)
T 1xeu_A           17 GLANAVKQNLGKQSVTDLV-SQKELSGVQNFNGDNSNIQSLA-GMQ-FFTNLKELHLSHNQISDLSP-LKDLTKLEELSV   92 (263)
T ss_dssp             HHHHHHHHHHTCSCTTSEE-CHHHHTTCSEEECTTSCCCCCT-TGG-GCTTCCEEECCSSCCCCCGG-GTTCSSCCEEEC
T ss_pred             HHHHHHHHHhcCCCccccc-chhhcCcCcEEECcCCCcccch-HHh-hCCCCCEEECCCCccCCChh-hccCCCCCEEEC
Confidence            4555666777777777666 4677778888888888877777 666 78888888888887777776 777888888888


Q ss_pred             CCcccCCCCCCCcCCCCCcceeccccCC-cchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCC
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALYPC-CCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMP  674 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~  674 (821)
                      ++|.+.. +|... . ++|++|++.+|. ..+.. +..+++|+.|++++|                              
T Consensus        93 ~~N~l~~-l~~~~-~-~~L~~L~L~~N~l~~~~~-l~~l~~L~~L~Ls~N------------------------------  138 (263)
T 1xeu_A           93 NRNRLKN-LNGIP-S-ACLSRLFLDNNELRDTDS-LIHLKNLEILSIRNN------------------------------  138 (263)
T ss_dssp             CSSCCSC-CTTCC-C-SSCCEEECCSSCCSBSGG-GTTCTTCCEEECTTS------------------------------
T ss_pred             CCCccCC-cCccc-c-CcccEEEccCCccCCChh-hcCcccccEEECCCC------------------------------
Confidence            8877733 43321 1 444444444421 11222 444444555544444                              


Q ss_pred             CCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCC
Q 045113          675 RLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGR  727 (821)
Q Consensus       675 ~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~  727 (821)
                      .++.+  ..+..+++|+.|++++|.+.+.  ..+..+++|+.|++++|.+...
T Consensus       139 ~i~~~--~~l~~l~~L~~L~L~~N~i~~~--~~l~~l~~L~~L~l~~N~~~~~  187 (263)
T 1xeu_A          139 KLKSI--VMLGFLSKLEVLDLHGNEITNT--GGLTRLKKVNWIDLTGQKCVNE  187 (263)
T ss_dssp             CCCBC--GGGGGCTTCCEEECTTSCCCBC--TTSTTCCCCCEEEEEEEEEECC
T ss_pred             cCCCC--hHHccCCCCCEEECCCCcCcch--HHhccCCCCCEEeCCCCcccCC
Confidence            22222  1244566677777777776543  5667777777777777766543

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.45  E-value=4.9e-14  Score=139.46  Aligned_cols=84  Identities=19%  Similarity=0.186  Sum_probs=37.0

Q ss_pred             hccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCcc-ccHHHHhccccceEEecCCccccc-chhhhccCccCc
Q 045113          514 CEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKS-LPLSFFNYLLNLYTLDMPFSYIDH-TADEFWKMKKLR  591 (821)
Q Consensus       514 ~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~-lp~~i~~~L~~L~~L~L~~~~l~~-lp~~i~~l~~L~  591 (821)
                      +..+++|++|++++|.++.++ .+..+++|++|++++|.+.. .|..+. .+++|++|++++|.+.. .|..+..+++|+
T Consensus        62 l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~-~l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~  139 (197)
T 4ezg_A           62 IEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGKDVTSDKIPNLS-GLTSLTLLDISHSAHDDSILTKINTLPKVN  139 (197)
T ss_dssp             GGGCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCT-TCTTCCEEECCSSBCBGGGHHHHTTCSSCC
T ss_pred             HhcCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeECCccCcccChhhc-CCCCCCEEEecCCccCcHhHHHHhhCCCCC
Confidence            344444444444444433332 34444444444444444442 333444 44444444444444432 234444444444


Q ss_pred             eeecCCcc
Q 045113          592 HLNFGSIT  599 (821)
Q Consensus       592 ~L~L~~~~  599 (821)
                      +|++++|.
T Consensus       140 ~L~L~~n~  147 (197)
T 4ezg_A          140 SIDLSYNG  147 (197)
T ss_dssp             EEECCSCT
T ss_pred             EEEccCCC
Confidence            44444444

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.44  E-value=2.3e-13  Score=134.56  Aligned_cols=151  Identities=14%  Similarity=0.173  Sum_probs=73.2

Q ss_pred             cCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCccee
Q 045113          538 ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFI  617 (821)
Q Consensus       538 ~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L  617 (821)
                      +.+++|++|++++|.+..+| .+. .+++|++|++++|.+..++ .+..+++|++|++++|.+....|..++.+++|++|
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~-~l~-~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L  117 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLT-GIE-YAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLL  117 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCT-TGG-GCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEE
T ss_pred             hhcCCccEEeccCCCccChH-HHh-cCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeECCccCcccChhhcCCCCCCEE
Confidence            33445555555555555555 444 5555555555555444433 35555555555555555543333333333333333


Q ss_pred             ccccC---CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEE
Q 045113          618 SALYP---CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLS  694 (821)
Q Consensus       618 ~~~~~---~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~  694 (821)
                      ++..+   ...+.. ++.+++|+.|++++|.                             .+..+  ..+..+++|+.|+
T Consensus       118 ~Ls~n~i~~~~~~~-l~~l~~L~~L~L~~n~-----------------------------~i~~~--~~l~~l~~L~~L~  165 (197)
T 4ezg_A          118 DISHSAHDDSILTK-INTLPKVNSIDLSYNG-----------------------------AITDI--MPLKTLPELKSLN  165 (197)
T ss_dssp             ECCSSBCBGGGHHH-HTTCSSCCEEECCSCT-----------------------------BCCCC--GGGGGCSSCCEEE
T ss_pred             EecCCccCcHhHHH-HhhCCCCCEEEccCCC-----------------------------Ccccc--HhhcCCCCCCEEE
Confidence            32221   011222 4444555555554441                             01111  1234566677777


Q ss_pred             EecccCCCCCcccccCCCCCCEEEEeccccC
Q 045113          695 FSNTDLMDDPMPALEKLPLLQVLKLKQNSYS  725 (821)
Q Consensus       695 L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~  725 (821)
                      +++|.+++  .+.+..+++|+.|++++|.+.
T Consensus       166 l~~n~i~~--~~~l~~l~~L~~L~l~~N~i~  194 (197)
T 4ezg_A          166 IQFDGVHD--YRGIEDFPKLNQLYAFSQTIG  194 (197)
T ss_dssp             CTTBCCCC--CTTGGGCSSCCEEEECBC---
T ss_pred             CCCCCCcC--hHHhccCCCCCEEEeeCcccC
Confidence            77777654  226677777777777766653

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.44  E-value=9.3e-13  Score=138.73  Aligned_cols=166  Identities=20%  Similarity=0.184  Sum_probs=113.9

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      .+++|+.|.+.++....    .  ..+..+++|++|+|++|.++.++. ++++++|++|++++|.+..+|. +. .+++|
T Consensus        44 ~l~~L~~L~l~~~~i~~----~--~~~~~l~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~-l~-~l~~L  114 (291)
T 1h6t_A           44 ELNSIDQIIANNSDIKS----V--QGIQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENKVKDLSS-LK-DLKKL  114 (291)
T ss_dssp             HHHTCCEEECTTSCCCC----C--TTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCGGG-GT-TCTTC
T ss_pred             hcCcccEEEccCCCccc----C--hhHhcCCCCCEEEccCCccCCCcc-cccCCCCCEEECCCCcCCCChh-hc-cCCCC
Confidence            46667777777665542    1  236677778888888777776666 7777778888888777777663 66 77778


Q ss_pred             eEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCC-cchhhhcCCCCCCCeEEEecccc
Q 045113          568 YTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPC-CCTKDLLGRLPNLRNLRIQGDLS  646 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~  646 (821)
                      ++|++++|.+..++ .+..+++|++|++++|.+.. + ..++.+++|++|++..|. ..... +..+++|+.|++++|. 
T Consensus       115 ~~L~L~~n~i~~~~-~l~~l~~L~~L~l~~n~l~~-~-~~l~~l~~L~~L~L~~N~l~~~~~-l~~l~~L~~L~L~~N~-  189 (291)
T 1h6t_A          115 KSLSLEHNGISDIN-GLVHLPQLESLYLGNNKITD-I-TVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNH-  189 (291)
T ss_dssp             CEEECTTSCCCCCG-GGGGCTTCCEEECCSSCCCC-C-GGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-
T ss_pred             CEEECCCCcCCCCh-hhcCCCCCCEEEccCCcCCc-c-hhhccCCCCCEEEccCCccccchh-hcCCCccCEEECCCCc-
Confidence            88888777777663 46777778888887777744 3 457777777777777742 22333 6777888888888773 


Q ss_pred             cchhHHHHHccCCCCcCEEEeecC
Q 045113          647 YNQSLLSKSLCRLSCLESLKLANE  670 (821)
Q Consensus       647 ~~~~~l~~~l~~~~~L~~L~l~~~  670 (821)
                        ...++ .+..+++|+.|++++|
T Consensus       190 --i~~l~-~l~~l~~L~~L~l~~n  210 (291)
T 1h6t_A          190 --ISDLR-ALAGLKNLDVLELFSQ  210 (291)
T ss_dssp             --CCBCG-GGTTCTTCSEEEEEEE
T ss_pred             --CCCCh-hhccCCCCCEEECcCC
Confidence              22222 3677788888888764

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.42  E-value=1.8e-13  Score=136.68  Aligned_cols=148  Identities=23%  Similarity=0.222  Sum_probs=96.6

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccccc-ccCCCCceEEeecCCCCccccHHHHhcccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSE-IENLSLLRYLKLNIPSLKSLPLSFFNYLLN  566 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~-i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~  566 (821)
                      -.++|+.|.+.++....    .+...|..+++|++|+|++|.++.+|.. +..+++|++|++++|.+..+|......+++
T Consensus        26 ~~~~l~~L~l~~n~l~~----~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  101 (208)
T 2o6s_A           26 IPAQTTYLDLETNSLKS----LPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQ  101 (208)
T ss_dssp             CCTTCSEEECCSSCCCC----CCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             CCCCCcEEEcCCCccCc----CChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccC
Confidence            44567777777766542    4445567777777788777777766543 567777777777777777766553227777


Q ss_pred             ceEEecCCcccccchhh-hccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecc
Q 045113          567 LYTLDMPFSYIDHTADE-FWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       567 L~~L~L~~~~l~~lp~~-i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      |++|++++|.+..+|.. +.++++|++|++++|.+.+..+..+..+++|+.|++.+|.    - .+.+++|+.|+++.+
T Consensus       102 L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~----~-~~~~~~l~~L~~~~n  175 (208)
T 2o6s_A          102 LKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNP----W-DCTCPGIRYLSEWIN  175 (208)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCC----B-CCCTTTTHHHHHHHH
T ss_pred             CCEEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCC----e-ecCCCCHHHHHHHHH
Confidence            77777777777777554 5677777777777777754444446666666666665531    0 234455555555554

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.41  E-value=7.9e-13  Score=133.13  Aligned_cols=150  Identities=18%  Similarity=0.264  Sum_probs=101.7

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCccccH-HHHhccccceEEecCCcccccc-hhhhccCccCceeecCCc
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPL-SFFNYLLNLYTLDMPFSYIDHT-ADEFWKMKKLRHLNFGSI  598 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~-~i~~~L~~L~~L~L~~~~l~~l-p~~i~~l~~L~~L~L~~~  598 (821)
                      +.++++++.++.+|..+.  .+|++|++++|.+..+|. .+. .+++|++|+|++|.+..+ |..+.++++|++|+|++|
T Consensus        14 ~~v~c~~~~l~~iP~~l~--~~l~~L~l~~n~i~~i~~~~~~-~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N   90 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTNLP--ETITEIRLEQNTIKVIPPGAFS-PYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGN   90 (220)
T ss_dssp             TEEECTTSCCSSCCSSCC--TTCCEEECCSSCCCEECTTSST-TCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSS
T ss_pred             CEEEcCCCCcCcCCCccC--cCCCEEECCCCcCCCcCHhHhh-CCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCC
Confidence            578888888888887665  678888888888887776 455 788888888888888777 667888888888888888


Q ss_pred             ccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCe
Q 045113          599 TLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSK  678 (821)
Q Consensus       599 ~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~  678 (821)
                      .+. .+|..+                     +..+++|+.|++++|.                              ++.
T Consensus        91 ~l~-~l~~~~---------------------f~~l~~L~~L~L~~N~------------------------------l~~  118 (220)
T 2v9t_B           91 KIT-ELPKSL---------------------FEGLFSLQLLLLNANK------------------------------INC  118 (220)
T ss_dssp             CCC-CCCTTT---------------------TTTCTTCCEEECCSSC------------------------------CCC
T ss_pred             cCC-ccCHhH---------------------ccCCCCCCEEECCCCC------------------------------CCE
Confidence            874 344321                     4445555555555541                              111


Q ss_pred             eEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccC
Q 045113          679 IILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYS  725 (821)
Q Consensus       679 l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~  725 (821)
                      +....+..+++|+.|+|++|.++...+..+..+++|+.|+|++|.+.
T Consensus       119 ~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~  165 (220)
T 2v9t_B          119 LRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPFI  165 (220)
T ss_dssp             CCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             eCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCCcC
Confidence            11122334556666666677666555556777777777777766543

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.39  E-value=1.3e-13  Score=163.75  Aligned_cols=152  Identities=19%  Similarity=0.098  Sum_probs=92.1

Q ss_pred             CceeEEEEEcCCCcccccC--CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEE
Q 045113          469 NVKRFFALEQQSDFAYLDD--YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYL  546 (821)
Q Consensus       469 ~~~r~lsl~~~~~~~~~~~--~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L  546 (821)
                      ..++++++..+........  ...+|+.+.+.+..........++..|..++.|++|+|++|.+..+|..+.++++|++|
T Consensus       173 ~~~~~l~L~~n~~~~~~~~~l~~l~Ls~~~i~~~~~~~n~~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~L  252 (727)
T 4b8c_D          173 PLTPKIELFANGKDEANQALLQHKKLSQYSIDEDDDIENRMVMPKDSKYDDQLWHALDLSNLQIFNISANIFKYDFLTRL  252 (727)
T ss_dssp             -------------------------------------------------CCCCCCEEECTTSCCSCCCGGGGGCCSCSCC
T ss_pred             CccceEEeeCCCCCcchhhHhhcCccCcccccCccccccceecChhhhccCCCCcEEECCCCCCCCCChhhcCCCCCCEE
Confidence            4467777765544332222  44445554444332211011245677888899999999999988888888899999999


Q ss_pred             eecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC
Q 045113          547 KLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP  622 (821)
Q Consensus       547 ~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~  622 (821)
                      +|++|.+..+|..++ +|++|++|+|++|.+..+|..|++|++|++|+|++|.+ ..+|..++.+++|++|++..|
T Consensus       253 ~Ls~N~l~~lp~~~~-~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l-~~lp~~~~~l~~L~~L~L~~N  326 (727)
T 4b8c_D          253 YLNGNSLTELPAEIK-NLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMV-TTLPWEFGNLCNLQFLGVEGN  326 (727)
T ss_dssp             BCTTSCCSCCCGGGG-GGTTCCEEECTTSCCSSCCSSGGGGTTCSEEECCSSCC-CCCCSSTTSCTTCCCEECTTS
T ss_pred             EeeCCcCcccChhhh-CCCCCCEEeCcCCcCCccChhhcCCCCCCEEECCCCCC-CccChhhhcCCCccEEeCCCC
Confidence            999999999998888 99999999999998888898899999999999999988 577877877777777777664

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.37  E-value=1.5e-12  Score=131.14  Aligned_cols=151  Identities=19%  Similarity=0.223  Sum_probs=102.4

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCccccH--HHHhccccceEEecCCcccccchh-hhccCccCceeecCC
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPL--SFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGS  597 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~--~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~  597 (821)
                      +.++++++.++.+|..+..  .+++|+|++|.+..++.  .+. .+++|++|++++|.+..++. .+.++++|++|++++
T Consensus        14 ~~l~~s~n~l~~iP~~~~~--~~~~L~L~~N~l~~~~~~~~~~-~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~   90 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEHIPQ--YTAELRLNNNEFTVLEATGIFK-KLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTS   90 (220)
T ss_dssp             TEEECCSSCCSSCCSCCCT--TCSEEECCSSCCCEECCCCCGG-GCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEeEeCCCCcccCccCCCC--CCCEEEcCCCcCCccCchhhhc-cCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCC
Confidence            5788888888888876643  56889999998887742  356 88889999998888888755 688888888888888


Q ss_pred             cccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCC
Q 045113          598 ITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLS  677 (821)
Q Consensus       598 ~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~  677 (821)
                      |.+....+..                      +..+++|+.|++++|.                              +.
T Consensus        91 N~l~~~~~~~----------------------~~~l~~L~~L~Ls~N~------------------------------l~  118 (220)
T 2v70_A           91 NRLENVQHKM----------------------FKGLESLKTLMLRSNR------------------------------IT  118 (220)
T ss_dssp             SCCCCCCGGG----------------------GTTCSSCCEEECTTSC------------------------------CC
T ss_pred             CccCccCHhH----------------------hcCCcCCCEEECCCCc------------------------------CC
Confidence            8874433332                      4445555555555541                              11


Q ss_pred             eeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCC
Q 045113          678 KIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG  726 (821)
Q Consensus       678 ~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~  726 (821)
                      .+....+..+++|+.|+|++|.+++..+..+..+++|+.|+|++|.+..
T Consensus       119 ~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c  167 (220)
T 2v70_A          119 CVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPFNC  167 (220)
T ss_dssp             CBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCCEEC
T ss_pred             eECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcCCcC
Confidence            1111223345666666666777666556677777777777777766544

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.37  E-value=1.5e-12  Score=149.03  Aligned_cols=186  Identities=16%  Similarity=0.093  Sum_probs=122.2

Q ss_pred             CCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceE
Q 045113          490 PHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYT  569 (821)
Q Consensus       490 ~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~  569 (821)
                      .+++.|.+.++....    ++..+   +++|+.|+|++|.++.+|   ..+++|++|++++|.+..+|. +. +  +|++
T Consensus        59 ~~L~~L~Ls~n~L~~----lp~~l---~~~L~~L~Ls~N~l~~ip---~~l~~L~~L~Ls~N~l~~ip~-l~-~--~L~~  124 (571)
T 3cvr_A           59 NQFSELQLNRLNLSS----LPDNL---PPQITVLEITQNALISLP---ELPASLEYLDACDNRLSTLPE-LP-A--SLKH  124 (571)
T ss_dssp             TTCSEEECCSSCCSC----CCSCC---CTTCSEEECCSSCCSCCC---CCCTTCCEEECCSSCCSCCCC-CC-T--TCCE
T ss_pred             CCccEEEeCCCCCCc----cCHhH---cCCCCEEECcCCCCcccc---cccCCCCEEEccCCCCCCcch-hh-c--CCCE
Confidence            477888888776543    22222   378999999999999888   557899999999999998887 66 4  9999


Q ss_pred             EecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCC-cchhhhcCCCCCCCeEEEecccccc
Q 045113          570 LDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPC-CCTKDLLGRLPNLRNLRIQGDLSYN  648 (821)
Q Consensus       570 L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~~~  648 (821)
                      |++++|.+..+|.   .+++|++|++++|.+.+ +|.   .+++|++|++.+|. ..++. +.  ++|+.|++++|.   
T Consensus       125 L~Ls~N~l~~lp~---~l~~L~~L~Ls~N~l~~-lp~---~l~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~Ls~N~---  191 (571)
T 3cvr_A          125 LDVDNNQLTMLPE---LPALLEYINADNNQLTM-LPE---LPTSLEVLSVRNNQLTFLPE-LP--ESLEALDVSTNL---  191 (571)
T ss_dssp             EECCSSCCSCCCC---CCTTCCEEECCSSCCSC-CCC---CCTTCCEEECCSSCCSCCCC-CC--TTCCEEECCSSC---
T ss_pred             EECCCCcCCCCCC---cCccccEEeCCCCccCc-CCC---cCCCcCEEECCCCCCCCcch-hh--CCCCEEECcCCC---
Confidence            9999999888887   68899999999998854 665   45666666665531 11222 22  455555555541   


Q ss_pred             hhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCC
Q 045113          649 QSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGR  727 (821)
Q Consensus       649 ~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~  727 (821)
                      ...+|. +..  +|                     ....+.|+.|+|++|.++ .+|..+..+++|+.|+|++|.+.+.
T Consensus       192 L~~lp~-~~~--~L---------------------~~~~~~L~~L~Ls~N~l~-~lp~~l~~l~~L~~L~L~~N~l~~~  245 (571)
T 3cvr_A          192 LESLPA-VPV--RN---------------------HHSEETEIFFRCRENRIT-HIPENILSLDPTCTIILEDNPLSSR  245 (571)
T ss_dssp             CSSCCC-CC-------------------------------CCEEEECCSSCCC-CCCGGGGGSCTTEEEECCSSSCCHH
T ss_pred             CCchhh-HHH--hh---------------------hcccccceEEecCCCcce-ecCHHHhcCCCCCEEEeeCCcCCCc
Confidence            111111 100  00                     011233477777777765 4566666777888888877776653

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.37  E-value=5.4e-15  Score=170.07  Aligned_cols=215  Identities=18%  Similarity=0.131  Sum_probs=141.0

Q ss_pred             cCCCCceEEeecCCCCccccHHHHhccccceEEecCCcc-cccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcce
Q 045113          538 ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSY-IDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNF  616 (821)
Q Consensus       538 ~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~-l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~  616 (821)
                      ..+++|+.|+|++|.+..+|.+++ +|++|+.|++++|. +..+|..+.      .+     ...+..|..++.+++|+.
T Consensus       346 ~~~~~L~~L~Ls~n~L~~Lp~~i~-~l~~L~~L~l~~n~~l~~l~~ll~------~~-----~~~~~~~~~l~~l~~L~~  413 (567)
T 1dce_A          346 ATDEQLFRCELSVEKSTVLQSELE-SCKELQELEPENKWCLLTIILLMR------AL-----DPLLYEKETLQYFSTLKA  413 (567)
T ss_dssp             STTTTSSSCCCCHHHHHHHHHHHH-HHHHHHHHCTTCHHHHHHHHHHHH------HH-----CTGGGHHHHHHHHHHHHH
T ss_pred             ccCccceeccCChhhHHhhHHHHH-HHHHHHHhccccchhhhhHHHHHH------hc-----ccccCCHHHHHHHHhccc
Confidence            567788888888888888888888 88888888886662 222222111      11     111233444455555555


Q ss_pred             eccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEe
Q 045113          617 ISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFS  696 (821)
Q Consensus       617 L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~  696 (821)
                      |+...        ...+.+|+.+.+.++   ....++.     ..|+.|++++|    .|+.+.  .+..+++|+.|+|+
T Consensus       414 L~~l~--------~n~~~~L~~l~l~~n---~i~~l~~-----~~L~~L~Ls~n----~l~~lp--~~~~l~~L~~L~Ls  471 (567)
T 1dce_A          414 VDPMR--------AAYLDDLRSKFLLEN---SVLKMEY-----ADVRVLHLAHK----DLTVLC--HLEQLLLVTHLDLS  471 (567)
T ss_dssp             HCGGG--------HHHHHHHHHHHHHHH---HHHHHHH-----TTCSEEECTTS----CCSSCC--CGGGGTTCCEEECC
T ss_pred             Ccchh--------hcccchhhhhhhhcc---cccccCc-----cCceEEEecCC----CCCCCc--CccccccCcEeecC
Confidence            54111        001112222222222   2222222     24777888755    444432  26678899999999


Q ss_pred             cccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce--eeccccccccceeEEeecCCC
Q 045113          697 NTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW--TMGTGAMPKLECLIINPCAYL  774 (821)
Q Consensus       697 ~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~--~~~~~~l~~L~~L~i~~c~~l  774 (821)
                      +|.++ .+|..++++++|+.|+|++|.+++  ++ ..+.+++|+.|+|++| .+..+  |..++.+++|+.|++++|+. 
T Consensus       472 ~N~l~-~lp~~~~~l~~L~~L~Ls~N~l~~--lp-~l~~l~~L~~L~Ls~N-~l~~~~~p~~l~~l~~L~~L~L~~N~l-  545 (567)
T 1dce_A          472 HNRLR-ALPPALAALRCLEVLQASDNALEN--VD-GVANLPRLQELLLCNN-RLQQSAAIQPLVSCPRLVLLNLQGNSL-  545 (567)
T ss_dssp             SSCCC-CCCGGGGGCTTCCEEECCSSCCCC--CG-GGTTCSSCCEEECCSS-CCCSSSTTGGGGGCTTCCEEECTTSGG-
T ss_pred             ccccc-ccchhhhcCCCCCEEECCCCCCCC--Cc-ccCCCCCCcEEECCCC-CCCCCCCcHHHhcCCCCCEEEecCCcC-
Confidence            99987 678889999999999999998887  33 5788999999999998 56666  77888999999999999874 


Q ss_pred             CCCcccc----CCCCCCCEEEE
Q 045113          775 KKMPEQL----WCIKSLNNFNC  792 (821)
Q Consensus       775 ~~lp~~l----~~l~~L~~L~l  792 (821)
                      ..+|...    ..+|+|+.|++
T Consensus       546 ~~~~~~~~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          546 CQEEGIQERLAEMLPSVSSILT  567 (567)
T ss_dssp             GGSSSCTTHHHHHCTTCSEEEC
T ss_pred             CCCccHHHHHHHHCcccCccCC
Confidence            4444433    34788988863

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.37  E-value=4.2e-15  Score=171.04  Aligned_cols=178  Identities=21%  Similarity=0.217  Sum_probs=106.3

Q ss_pred             ccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCC--------------CccccHHHHhccccceEEe-cCCccccc
Q 045113          515 EMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPS--------------LKSLPLSFFNYLLNLYTLD-MPFSYIDH  579 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~--------------i~~lp~~i~~~L~~L~~L~-L~~~~l~~  579 (821)
                      ..++.|+.|+|++|.++.+|+.|++|++|+.|+++++.              ....|..+. .+++|+.|+ ++.+.+..
T Consensus       346 ~~~~~L~~L~Ls~n~L~~Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~-~l~~L~~L~~l~~n~~~~  424 (567)
T 1dce_A          346 ATDEQLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQ-YFSTLKAVDPMRAAYLDD  424 (567)
T ss_dssp             STTTTSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHH-HHHHHHHHCGGGHHHHHH
T ss_pred             ccCccceeccCChhhHHhhHHHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHH-HHHhcccCcchhhcccch
Confidence            56789999999999999999999999999999987663              224556666 788888887 55554444


Q ss_pred             chh------hhcc--CccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhH
Q 045113          580 TAD------EFWK--MKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSL  651 (821)
Q Consensus       580 lp~------~i~~--l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  651 (821)
                      ++.      .+..  ...|+.|++++|.+.+ +|. ++.+++|+.|++..                      |.   ...
T Consensus       425 L~~l~l~~n~i~~l~~~~L~~L~Ls~n~l~~-lp~-~~~l~~L~~L~Ls~----------------------N~---l~~  477 (567)
T 1dce_A          425 LRSKFLLENSVLKMEYADVRVLHLAHKDLTV-LCH-LEQLLLVTHLDLSH----------------------NR---LRA  477 (567)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSEEECTTSCCSS-CCC-GGGGTTCCEEECCS----------------------SC---CCC
T ss_pred             hhhhhhhcccccccCccCceEEEecCCCCCC-CcC-ccccccCcEeecCc----------------------cc---ccc
Confidence            332      1222  1257788888877743 554 55555554444443                      31   112


Q ss_pred             HHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCC-cccccCCCCCCEEEEeccccCC
Q 045113          652 LSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDP-MPALEKLPLLQVLKLKQNSYSG  726 (821)
Q Consensus       652 l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~-~~~l~~l~~L~~L~L~~~~~~~  726 (821)
                      +|..++.+++|+.|+|+.|    .++.+.  ++..+++|+.|+|++|.+++.. |..++.+++|+.|+|++|.+.+
T Consensus       478 lp~~~~~l~~L~~L~Ls~N----~l~~lp--~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L~~L~L~~N~l~~  547 (567)
T 1dce_A          478 LPPALAALRCLEVLQASDN----ALENVD--GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQ  547 (567)
T ss_dssp             CCGGGGGCTTCCEEECCSS----CCCCCG--GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGG
T ss_pred             cchhhhcCCCCCEEECCCC----CCCCCc--ccCCCCCCcEEECCCCCCCCCCCcHHHhcCCCCCEEEecCCcCCC
Confidence            2333334444444444332    222221  3445556666666666665544 5666666666666666665544

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.36  E-value=1.4e-12  Score=135.21  Aligned_cols=124  Identities=16%  Similarity=0.100  Sum_probs=98.3

Q ss_pred             hhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCce
Q 045113          513 ICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRH  592 (821)
Q Consensus       513 ~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~  592 (821)
                      .+..+++|++|++++|.++.+| .++.+++|++|++++|.+..+|. +. .+++|++|++++|.+..+|....  ++|++
T Consensus        36 ~~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~L~~N~i~~~~~-l~-~l~~L~~L~L~~N~l~~l~~~~~--~~L~~  110 (263)
T 1xeu_A           36 SQKELSGVQNFNGDNSNIQSLA-GMQFFTNLKELHLSHNQISDLSP-LK-DLTKLEELSVNRNRLKNLNGIPS--ACLSR  110 (263)
T ss_dssp             CHHHHTTCSEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GT-TCSSCCEEECCSSCCSCCTTCCC--SSCCE
T ss_pred             chhhcCcCcEEECcCCCcccch-HHhhCCCCCEEECCCCccCCChh-hc-cCCCCCEEECCCCccCCcCcccc--CcccE
Confidence            3677888999999999888887 68888999999999999888887 77 89999999999998888876433  88999


Q ss_pred             eecCCcccCCCCCCCcCCCCCcceeccccCC-cchhhhcCCCCCCCeEEEecc
Q 045113          593 LNFGSITLPAHPGNYCGSLENLNFISALYPC-CCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       593 L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~-~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      |++++|.+.. ++ .++.+++|+.|++..|. ..+.. +..+++|+.|++++|
T Consensus       111 L~L~~N~l~~-~~-~l~~l~~L~~L~Ls~N~i~~~~~-l~~l~~L~~L~L~~N  160 (263)
T 1xeu_A          111 LFLDNNELRD-TD-SLIHLKNLEILSIRNNKLKSIVM-LGFLSKLEVLDLHGN  160 (263)
T ss_dssp             EECCSSCCSB-SG-GGTTCTTCCEEECTTSCCCBCGG-GGGCTTCCEEECTTS
T ss_pred             EEccCCccCC-Ch-hhcCcccccEEECCCCcCCCChH-HccCCCCCEEECCCC
Confidence            9999988854 44 48888999999888742 22334 677777777777776

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.36  E-value=9.5e-13  Score=143.34  Aligned_cols=122  Identities=18%  Similarity=0.253  Sum_probs=67.6

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHh-ccccceEEecCCcccccchh-hhccCccCceeecCCc
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFN-YLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSI  598 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~-~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~  598 (821)
                      ++++++++.++.+|..+.  ..+++|+|++|.+..++..... ++++|++|+|++|.+..++. .+.++++|++|+|++|
T Consensus        21 ~~l~c~~~~l~~iP~~~~--~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N   98 (361)
T 2xot_A           21 NILSCSKQQLPNVPQSLP--SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSN   98 (361)
T ss_dssp             TEEECCSSCCSSCCSSCC--TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             CEEEeCCCCcCccCccCC--CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCC
Confidence            456666666666665443  2466666666666666555433 56666666666666666643 4666666666666666


Q ss_pred             ccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecc
Q 045113          599 TLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       599 ~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      .+....+..+..+++|++|++.+|  .......+..+++|+.|++++|
T Consensus        99 ~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N  146 (361)
T 2xot_A           99 HLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQN  146 (361)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             cCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCC
Confidence            664333334455555555555443  1111111555555555555554

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.36  E-value=2.8e-12  Score=129.92  Aligned_cols=127  Identities=21%  Similarity=0.237  Sum_probs=74.4

Q ss_pred             CCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccc-cccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          489 YPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       489 ~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      .++|+.|.+.++....    ..+..|..+++|++|+|++|.++.+|. .+..+++|++|+|++|.+..+|......+++|
T Consensus        39 ~~~L~~L~Ls~n~i~~----~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L  114 (229)
T 3e6j_A           39 PTNAQILYLHDNQITK----LEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHL  114 (229)
T ss_dssp             CTTCSEEECCSSCCCC----CCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             CCCCCEEEcCCCccCc----cCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcCCccChhHhCcchhh
Confidence            4566666666665542    334556666666666666666665553 34566666666666666666655432266666


Q ss_pred             eEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceecc
Q 045113          568 YTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISA  619 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~  619 (821)
                      ++|++++|.+..+|..+..+++|++|++++|.+....+..+..+++|+.|++
T Consensus       115 ~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l  166 (229)
T 3e6j_A          115 KELFMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYL  166 (229)
T ss_dssp             CEEECCSSCCCSCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CeEeccCCcccccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEe
Confidence            6666666666666666666666666666666664332233444444444443

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.35  E-value=2.6e-12  Score=129.36  Aligned_cols=125  Identities=18%  Similarity=0.198  Sum_probs=56.9

Q ss_pred             ceeEEEeCCCCCCcccc-cccCCCCceEEeecCCCCccc-cHHHHhccccceEEecCCcccccchhh-hccCccCceeec
Q 045113          519 LLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLKSL-PLSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHLNF  595 (821)
Q Consensus       519 ~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~i~~l-p~~i~~~L~~L~~L~L~~~~l~~lp~~-i~~l~~L~~L~L  595 (821)
                      .|+.|+|++|.++.+|. .+..+++|++|+|++|.+..+ |..+. .+++|++|+|++|.+..+|.. +..+++|++|+|
T Consensus        33 ~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~-~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L  111 (220)
T 2v9t_B           33 TITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQ-GLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLL  111 (220)
T ss_dssp             TCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTT-TCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhh-CCcCCCEEECCCCcCCccCHhHccCCCCCCEEEC
Confidence            44444444444443332 344444444444444444433 33333 444444444444444444432 234444444444


Q ss_pred             CCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecc
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      ++|.+....|..+..+++|++|++.+|  ...+...+..+++|+.|++++|
T Consensus       112 ~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  162 (220)
T 2v9t_B          112 NANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQN  162 (220)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCC
Confidence            444444333444444444444444442  1222222555566666666655

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.32  E-value=5.5e-12  Score=126.89  Aligned_cols=123  Identities=12%  Similarity=0.145  Sum_probs=65.9

Q ss_pred             eeEEEeCCCCCCccc--ccccCCCCceEEeecCCCCccccH-HHHhccccceEEecCCcccccchh-hhccCccCceeec
Q 045113          520 LRVLDLGSLVLNQYP--SEIENLSLLRYLKLNIPSLKSLPL-SFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNF  595 (821)
Q Consensus       520 Lr~L~L~~~~l~~lp--~~i~~l~~Lr~L~L~~~~i~~lp~-~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L  595 (821)
                      +++|+|++|.++.++  ..+.++++|++|+|++|.+..++. .+. .+++|++|+|++|.+..+|. .+..+++|++|++
T Consensus        34 ~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~-~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  112 (220)
T 2v70_A           34 TAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFE-GASGVNEILLTSNRLENVQHKMFKGLESLKTLML  112 (220)
T ss_dssp             CSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTT-TCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEEC
T ss_pred             CCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhC-CCCCCCEEECCCCccCccCHhHhcCCcCCCEEEC
Confidence            455555555555442  224555555555555555554443 344 55555555555555555533 3455555555555


Q ss_pred             CCcccCCCCCCCcCCCCCcceeccccC--Ccc-hhhhcCCCCCCCeEEEecc
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALYP--CCC-TKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~-~~~~l~~l~~L~~L~l~~~  644 (821)
                      ++|.+.+..|..+..+++|++|++..|  ... +.. +..+++|+.|++++|
T Consensus       113 s~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~-~~~l~~L~~L~L~~N  163 (220)
T 2v70_A          113 RSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGA-FDTLHSLSTLNLLAN  163 (220)
T ss_dssp             TTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTT-TTTCTTCCEEECCSC
T ss_pred             CCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHH-hcCCCCCCEEEecCc
Confidence            555554444555555555555555553  122 233 666666666666665

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.32  E-value=5.9e-12  Score=139.73  Aligned_cols=257  Identities=16%  Similarity=0.123  Sum_probs=153.8

Q ss_pred             CCCeeechhhHHHHHHHH-hc---C-CCCceEEEE--EcCCCChHHHHHHHHhcCcccccc-----cc-eeEEEEcCCCC
Q 045113          166 NRDTVGLDDRMEELLDLL-IE---G-PPQLSAVTI--LDSIGLDKTAFAAEAYSGNYVKHY-----FD-CHAWVQEPYTC  232 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L-~~---~-~~~~~vi~i--~G~gGiGKTtLa~~v~~~~~~~~~-----F~-~~~wv~~s~~~  232 (821)
                      ...++||+.+++++.++| ..   + ......+.|  +|++|+||||||+.+++  +....     |+ .++|+.+....
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~   98 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVK--RVSEAAAKEGLTVKQAYVNAFNAP   98 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHH--HHHHHHHHTTCCEEEEEEEGGGCC
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHH--HHHHHHhccCCceeEEEEECCCCC
Confidence            367999999999999998 42   2 022445555  99999999999999998  33332     22 46788877777


Q ss_pred             CHHHHHHHHHHHhCCch--------h-HHHHHHHhC--CCcEEEEEecCCCH--------HHHHHHHHhC---CCCC--C
Q 045113          233 YADQILDIIIKFLMPSS--------R-LIILHEYLM--TKRYLIVIDDVWSI--------EVWDIIREIL---PDNQ--N  288 (821)
Q Consensus       233 ~~~~~~~~i~~~l~~~~--------~-~~~l~~~l~--~kr~LlVlDdv~~~--------~~~~~l~~~l---~~~~--~  288 (821)
                      +...+...++.+++...        + ...+.+.+.  +++++||+||++..        +.+..+...+   +...  .
T Consensus        99 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~  178 (412)
T 1w5s_A           99 NLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVN  178 (412)
T ss_dssp             SHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCC
T ss_pred             CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCc
Confidence            88899999999886531        1 445555554  67999999999753        3333332222   2112  3


Q ss_pred             CcEEEEEecchhhh-----------------------------cccc--cccCCcCCCCccchHHHHHHHcC------Cc
Q 045113          289 GSRVLITLAKIDTV-----------------------------TLFQ--FENGQNIRLDLVPTGGPLRVTYQ------GW  331 (821)
Q Consensus       289 gs~iiiTtr~~~v~-----------------------------~lf~--~~~~~~~~~~~~~~~~~i~~~c~------gl  331 (821)
                      ...||+||+...+.                             ++|.  +........--.+....|++.++      |.
T Consensus       179 ~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~G~  258 (412)
T 1w5s_A          179 RIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGS  258 (412)
T ss_dssp             BEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCC
T ss_pred             eEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhccCCCc
Confidence            45588888754421                             1111  00000000111345678899999      99


Q ss_pred             hHHHHHhhcc---------cccccchhccccc------hhHHHHhhhcCChhhHHHHhhcccCC--CCceechhhHHHHH
Q 045113          332 PFHILYHGSI---------SLEENKREAIAKP------IFLQSVAYCMLPFPLKLCCLYLPVFP--AHLEISTRQLYQLW  394 (821)
Q Consensus       332 PLai~~~g~~---------~~~~~~~~~i~~~------~~~l~~sy~~L~~~~k~cfl~~s~Fp--~~~~i~~~~Li~~W  394 (821)
                      |..+..+...         .+.+. .+.+...      ...+.-++..||.+.+.++..++.+.  .+..+...++...|
T Consensus       259 p~~~~~l~~~a~~~a~~~~~~~i~-~~~v~~~~~~~~~~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~~~~~~~~~~~  337 (412)
T 1w5s_A          259 ARRAIVALKMACEMAEAMGRDSLS-EDLVRKAVSENEAASIQTHELEALSIHELIILRLIAEATLGGMEWINAGLLRQRY  337 (412)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSSCC-HHHHHHHHHHC------CCSSSSSCHHHHHHHHHHHHHHHTTCSSBCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCCC-HHHHHHHHHHHhccchHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHH
Confidence            9655544311         11111 1111100      03444566889999999998888653  33356666665544


Q ss_pred             H--H---cCCCCCChHHHHHHHHHHHHhCCceeeeec
Q 045113          395 I--A---EGFIPDNSEATAEKYLEQLINRGFVEVKKR  426 (821)
Q Consensus       395 ~--a---eg~i~~~~~~~~~~~~~~L~~r~ll~~~~~  426 (821)
                      .  +   .|. ..........+++.|.+.+++.....
T Consensus       338 ~~~~~~~~~~-~~~~~~~~~~~l~~L~~~gli~~~~~  373 (412)
T 1w5s_A          338 EDASLTMYNV-KPRGYTQYHIYLKHLTSLGLVDAKPS  373 (412)
T ss_dssp             HHHHHHHSCC-CCCCHHHHHHHHHHHHHTTSEEEECC
T ss_pred             HHHHHhhcCC-CCCCHHHHHHHHHHHHhCCCEEeecc
Confidence            2  2   232 11223456788999999999987643

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.31  E-value=1.9e-12  Score=121.55  Aligned_cols=126  Identities=17%  Similarity=0.203  Sum_probs=82.7

Q ss_pred             CCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCcc-ccHHHHhccccc
Q 045113          489 YPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKS-LPLSFFNYLLNL  567 (821)
Q Consensus       489 ~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~-lp~~i~~~L~~L  567 (821)
                      .++++.|.+.++....   ...+..+..+++|++|++++|.++.+ ..++++++|++|++++|.+.. +|..+. .+++|
T Consensus        16 ~~~l~~L~l~~n~l~~---~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~-~l~~L   90 (149)
T 2je0_A           16 PSDVKELVLDNSRSNE---GKLEGLTDEFEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAE-KCPNL   90 (149)
T ss_dssp             GGGCSEEECTTCBCBT---TBCCSCCTTCTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHH-HCTTC
T ss_pred             CccCeEEEccCCcCCh---hHHHHHHhhcCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCCcccchHHHHhh-hCCCC
Confidence            4566677776665430   12234556777777777777777766 567777777777777777775 665555 67777


Q ss_pred             eEEecCCcccccch--hhhccCccCceeecCCcccCCCCC---CCcCCCCCcceecc
Q 045113          568 YTLDMPFSYIDHTA--DEFWKMKKLRHLNFGSITLPAHPG---NYCGSLENLNFISA  619 (821)
Q Consensus       568 ~~L~L~~~~l~~lp--~~i~~l~~L~~L~L~~~~~~~~~p---~~i~~l~~L~~L~~  619 (821)
                      ++|++++|.+..+|  ..+..+++|++|++++|.+.+..+   ..++.+++|+.|++
T Consensus        91 ~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           91 THLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             CEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETT
T ss_pred             CEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccC
Confidence            77777777777654  667777777777777777644332   24566666666654

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.30  E-value=4.8e-12  Score=121.48  Aligned_cols=129  Identities=16%  Similarity=0.162  Sum_probs=88.8

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCcc-ccHHHHhcccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKS-LPLSFFNYLLN  566 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~-lp~~i~~~L~~  566 (821)
                      ..++|+.|.+.++....   ...+..+..+++|++|+|++|.++.+ ..++.+++|++|++++|.+.. +|..+. .+++
T Consensus        22 ~~~~L~~L~l~~n~l~~---~~i~~~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~-~l~~   96 (168)
T 2ell_A           22 TPAAVRELVLDNCKSND---GKIEGLTAEFVNLEFLSLINVGLISV-SNLPKLPKLKKLELSENRIFGGLDMLAE-KLPN   96 (168)
T ss_dssp             CTTSCSEEECCSCBCBT---TBCSSCCGGGGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHH-HCTT
T ss_pred             CcccCCEEECCCCCCCh---hhHHHHHHhCCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcCCcCchHHHHHHh-hCCC
Confidence            45667777777766430   12334467778888888888887766 667778888888888888776 666665 6888


Q ss_pred             ceEEecCCcccccch--hhhccCccCceeecCCcccCCCCC---CCcCCCCCcceecccc
Q 045113          567 LYTLDMPFSYIDHTA--DEFWKMKKLRHLNFGSITLPAHPG---NYCGSLENLNFISALY  621 (821)
Q Consensus       567 L~~L~L~~~~l~~lp--~~i~~l~~L~~L~L~~~~~~~~~p---~~i~~l~~L~~L~~~~  621 (821)
                      |++|++++|.+..+|  ..+..+++|++|++++|.+....+   ..+..+++|+.|++..
T Consensus        97 L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~  156 (168)
T 2ell_A           97 LTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYD  156 (168)
T ss_dssp             CCEEECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEE
T ss_pred             CCEEeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCC
Confidence            888888888777765  577778888888888887743322   2455566666665544

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.28  E-value=6.9e-12  Score=127.06  Aligned_cols=103  Identities=20%  Similarity=0.239  Sum_probs=49.8

Q ss_pred             CceeEEEeCCCCCCcc-cccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhh-hccCccCceeec
Q 045113          518 KLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHLNF  595 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~-i~~l~~L~~L~L  595 (821)
                      ++|++|+|++|.++.+ |..+..+++|++|+|++|.+..+|......+++|++|+|++|.+..+|.. +..+++|++|++
T Consensus        40 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~L  119 (229)
T 3e6j_A           40 TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFM  119 (229)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcCCccChhHhCcchhhCeEec
Confidence            4455555555555533 33445555555555555555555433221455555555555555555332 344555555555


Q ss_pred             CCcccCCCCCCCcCCCCCcceecccc
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALY  621 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~  621 (821)
                      ++|.+. .+|..+..+++|++|++..
T Consensus       120 s~N~l~-~lp~~~~~l~~L~~L~L~~  144 (229)
T 3e6j_A          120 CCNKLT-ELPRGIERLTHLTHLALDQ  144 (229)
T ss_dssp             CSSCCC-SCCTTGGGCTTCSEEECCS
T ss_pred             cCCccc-ccCcccccCCCCCEEECCC
Confidence            555542 4444444444444444433

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.27  E-value=3.8e-12  Score=122.19  Aligned_cols=127  Identities=20%  Similarity=0.116  Sum_probs=100.3

Q ss_pred             ccCCceeEEEeCCCCCC--cccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCccccc-chhhhccCccCc
Q 045113          515 EMYKLLRVLDLGSLVLN--QYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH-TADEFWKMKKLR  591 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l~--~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~-lp~~i~~l~~L~  591 (821)
                      ...+.|+.|++++|.++  .+|..+..+++|++|++++|.+..+ ..+. .+++|++|++++|.+.. +|..+.++++|+
T Consensus        21 ~~~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~-~~~~-~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~   98 (168)
T 2ell_A           21 RTPAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV-SNLP-KLPKLKKLELSENRIFGGLDMLAEKLPNLT   98 (168)
T ss_dssp             SCTTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC-SSCC-CCSSCCEEEEESCCCCSCCCHHHHHCTTCC
T ss_pred             CCcccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh-hhhc-cCCCCCEEECcCCcCchHHHHHHhhCCCCC
Confidence            34578999999999998  8998889999999999999999988 6777 99999999999998888 787788899999


Q ss_pred             eeecCCcccCCCCC--CCcCCCCCcceeccccC--Ccchh---hhcCCCCCCCeEEEecc
Q 045113          592 HLNFGSITLPAHPG--NYCGSLENLNFISALYP--CCCTK---DLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       592 ~L~L~~~~~~~~~p--~~i~~l~~L~~L~~~~~--~~~~~---~~l~~l~~L~~L~l~~~  644 (821)
                      +|++++|.+.. +|  ..++.+++|++|++.+|  ...+.   ..+..+++|+.|++.+|
T Consensus        99 ~L~Ls~N~l~~-~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n  157 (168)
T 2ell_A           99 HLNLSGNKLKD-ISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDR  157 (168)
T ss_dssp             EEECBSSSCCS-SGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEET
T ss_pred             EEeccCCccCc-chhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCC
Confidence            99999999844 33  55666777777776663  12222   12566666666666665

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.27  E-value=2.4e-12  Score=120.97  Aligned_cols=105  Identities=18%  Similarity=0.111  Sum_probs=87.0

Q ss_pred             ccCCceeEEEeCCCCCC--cccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCccccc-chhhhccCccCc
Q 045113          515 EMYKLLRVLDLGSLVLN--QYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH-TADEFWKMKKLR  591 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l~--~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~-lp~~i~~l~~L~  591 (821)
                      ...+.|+.|++++|.++  .+|..++.+++|++|++++|.+..+ ..+. .+++|++|++++|.+.. +|..+..+++|+
T Consensus        14 ~~~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~-~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~   91 (149)
T 2je0_A           14 RTPSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI-ANLP-KLNKLKKLELSDNRVSGGLEVLAEKCPNLT   91 (149)
T ss_dssp             CCGGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC-TTCC-CCTTCCEEECCSSCCCSCTHHHHHHCTTCC
T ss_pred             CCCccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc-hhhh-cCCCCCEEECCCCcccchHHHHhhhCCCCC
Confidence            45588999999999998  8999889999999999999999988 6777 99999999999999888 788888899999


Q ss_pred             eeecCCcccCCC-CCCCcCCCCCcceecccc
Q 045113          592 HLNFGSITLPAH-PGNYCGSLENLNFISALY  621 (821)
Q Consensus       592 ~L~L~~~~~~~~-~p~~i~~l~~L~~L~~~~  621 (821)
                      +|++++|.+.+. .+..++.+++|++|++.+
T Consensus        92 ~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~  122 (149)
T 2je0_A           92 HLNLSGNKIKDLSTIEPLKKLENLKSLDLFN  122 (149)
T ss_dssp             EEECTTSCCCSHHHHGGGGGCTTCCEEECTT
T ss_pred             EEECCCCcCCChHHHHHHhhCCCCCEEeCcC
Confidence            999999998542 224455555555555544

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.26  E-value=7.4e-12  Score=136.23  Aligned_cols=174  Identities=18%  Similarity=0.178  Sum_probs=117.9

Q ss_pred             ceEEeecCCCCccccHHHHhccccceEEecCCcccccchhh-hc-cCccCceeecCCcccCCCCCCCcCCCCCcceeccc
Q 045113          543 LRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADE-FW-KMKKLRHLNFGSITLPAHPGNYCGSLENLNFISAL  620 (821)
Q Consensus       543 Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~-i~-~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~  620 (821)
                      -+.++++++.+..+|..+.   .+|+.|+|++|.+..++.. +. ++++|++|+|++|.+....+..+..+++|++|++.
T Consensus        20 ~~~l~c~~~~l~~iP~~~~---~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls   96 (361)
T 2xot_A           20 SNILSCSKQQLPNVPQSLP---SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLS   96 (361)
T ss_dssp             TTEEECCSSCCSSCCSSCC---TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CCEEEeCCCCcCccCccCC---CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECC
Confidence            4689999999999997765   5689999999999999765 44 89999999999999966666678888888888888


Q ss_pred             cC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEeccc---CCCCCcceEEE
Q 045113          621 YP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEY---VFPHSLTHLSF  695 (821)
Q Consensus       621 ~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~---~~~~~L~~L~L  695 (821)
                      +|  ...+...+..+++|+.|++++|.  .....+..+..+++|+.|+|+.|    .+..+....+   ..+++|+.|+|
T Consensus        97 ~N~l~~~~~~~~~~l~~L~~L~L~~N~--i~~~~~~~~~~l~~L~~L~L~~N----~l~~l~~~~~~~~~~l~~L~~L~L  170 (361)
T 2xot_A           97 SNHLHTLDEFLFSDLQALEVLLLYNNH--IVVVDRNAFEDMAQLQKLYLSQN----QISRFPVELIKDGNKLPKLMLLDL  170 (361)
T ss_dssp             SSCCCEECTTTTTTCTTCCEEECCSSC--CCEECTTTTTTCTTCCEEECCSS----CCCSCCGGGTC----CTTCCEEEC
T ss_pred             CCcCCcCCHHHhCCCcCCCEEECCCCc--ccEECHHHhCCcccCCEEECCCC----cCCeeCHHHhcCcccCCcCCEEEC
Confidence            75  23333336777888888887773  22222445566666777666654    3333322222   34666666666


Q ss_pred             ecccCCCCCcccccCCCC--CCEEEEeccccC
Q 045113          696 SNTDLMDDPMPALEKLPL--LQVLKLKQNSYS  725 (821)
Q Consensus       696 ~~~~l~~~~~~~l~~l~~--L~~L~L~~~~~~  725 (821)
                      ++|.++...+..+..+++  |+.|+|.+|.+.
T Consensus       171 ~~N~l~~l~~~~~~~l~~~~l~~l~l~~N~~~  202 (361)
T 2xot_A          171 SSNKLKKLPLTDLQKLPAWVKNGLYLHNNPLE  202 (361)
T ss_dssp             CSSCCCCCCHHHHHHSCHHHHTTEECCSSCEE
T ss_pred             CCCCCCccCHHHhhhccHhhcceEEecCCCcc
Confidence            666665544445555655  366666655543

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.24  E-value=9.7e-12  Score=120.39  Aligned_cols=126  Identities=11%  Similarity=0.042  Sum_probs=92.2

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHH-Hhcccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSF-FNYLLN  566 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i-~~~L~~  566 (821)
                      .+++|+.|.+.++....     .+.+...+++|++|+|++|.++.+ ..++.+++|++|++++|.+..+|+.+ . .+++
T Consensus        17 ~~~~L~~L~l~~n~l~~-----i~~~~~~~~~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~-~l~~   89 (176)
T 1a9n_A           17 NAVRDRELDLRGYKIPV-----IENLGATLDQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQ-ALPD   89 (176)
T ss_dssp             CTTSCEEEECTTSCCCS-----CCCGGGGTTCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHH-HCTT
T ss_pred             CcCCceEEEeeCCCCch-----hHHhhhcCCCCCEEECCCCCCCcc-cccccCCCCCEEECCCCcccccCcchhh-cCCC
Confidence            67788888888876652     233334445888888888888876 56888888888888888888887665 5 8888


Q ss_pred             ceEEecCCcccccchh--hhccCccCceeecCCcccCCCCCCC----cCCCCCcceecccc
Q 045113          567 LYTLDMPFSYIDHTAD--EFWKMKKLRHLNFGSITLPAHPGNY----CGSLENLNFISALY  621 (821)
Q Consensus       567 L~~L~L~~~~l~~lp~--~i~~l~~L~~L~L~~~~~~~~~p~~----i~~l~~L~~L~~~~  621 (821)
                      |++|++++|.+..+|.  .+..+++|++|++++|.+. .+|..    +..+++|+.|++..
T Consensus        90 L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~-~~~~~~~~~~~~l~~L~~Ld~~~  149 (176)
T 1a9n_A           90 LTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVT-NKKHYRLYVIYKVPQVRVLDFQK  149 (176)
T ss_dssp             CCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGG-GSTTHHHHHHHHCTTCSEETTEE
T ss_pred             CCEEECCCCcCCcchhhHhhhcCCCCCEEEecCCCCC-CcHhHHHHHHHHCCccceeCCCc
Confidence            8888888888888876  7788888888888888874 44543    44444555544433

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.22  E-value=4.5e-11  Score=117.47  Aligned_cols=121  Identities=19%  Similarity=0.204  Sum_probs=86.7

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccch-hhhccCccCceeecCCcc
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTA-DEFWKMKKLRHLNFGSIT  599 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp-~~i~~l~~L~~L~L~~~~  599 (821)
                      ++++++++.++.+|..+.  .+|++|++++|.+..+|..+. .+++|++|++++|.+..++ ..|.++++|++|+|++|.
T Consensus        13 ~~l~~~~~~l~~ip~~~~--~~l~~L~L~~n~i~~ip~~~~-~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~   89 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKGIP--RDVTELYLDGNQFTLVPKELS-NYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNR   89 (193)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCCEEECCSSCCCSCCGGGG-GCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CEEEcCCCCCCcCCCCCC--CCCCEEECCCCcCchhHHHhh-cccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCc
Confidence            567777777777776553  577888888888877777777 7888888888888777775 357778888888888887


Q ss_pred             cCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecc
Q 045113          600 LPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       600 ~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      +....|..+..+++|++|++..|  ...+...+..+++|+.|++++|
T Consensus        90 l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  136 (193)
T 2wfh_A           90 LRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGAN  136 (193)
T ss_dssp             CCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSS
T ss_pred             cCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCC
Confidence            76655566777777777777764  2333333667777777777766

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=99.21  E-value=2.9e-11  Score=129.79  Aligned_cols=285  Identities=12%  Similarity=0.027  Sum_probs=179.4

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhcc-CCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhc---
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEM-YKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNY---  563 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~-~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~---  563 (821)
                      ..++++.|.+.+.-..    .... .+.. +++|++|||++|.+..+...-+.++.++++.+..+   .+|......   
T Consensus        23 ~~~~l~~L~l~g~i~~----~~~~-~l~~~l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~---~I~~~aF~~~~~   94 (329)
T 3sb4_A           23 EANSITHLTLTGKLNA----EDFR-HLRDEFPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMAN---FVPAYAFSNVVN   94 (329)
T ss_dssp             HHHHCSEEEEEEEECH----HHHH-HHHHSCTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTT---EECTTTTEEEET
T ss_pred             hhCceeEEEEeccccH----HHHH-HHHHhhccCeEEecCcceeEEecCcccccccccccccccc---ccCHHHhccccc
Confidence            4567888888765321    1222 3333 88999999999998722221223334566666555   344443336   


Q ss_pred             -----cccceEEecCCcccccchh-hhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC------CcchhhhcC
Q 045113          564 -----LLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP------CCCTKDLLG  631 (821)
Q Consensus       564 -----L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~------~~~~~~~l~  631 (821)
                           +++|+.|+|.+ .+..++. .|..|++|+.|++++|.+....+..+..+.++..+....+      ......++.
T Consensus        95 ~~~~g~~~L~~l~L~~-~i~~I~~~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~  173 (329)
T 3sb4_A           95 GVTKGKQTLEKVILSE-KIKNIEDAAFKGCDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFI  173 (329)
T ss_dssp             TEEEECTTCCC-CBCT-TCCEECTTTTTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEE
T ss_pred             ccccccCCCcEEECCc-cccchhHHHhhcCcccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccccccccccc
Confidence                 89999999998 8888855 6888999999999998875545556777777776664431      011111144


Q ss_pred             CCCCCC-eEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecc-cCCCCCcceEEEecccCCCCCccccc
Q 045113          632 RLPNLR-NLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAE-YVFPHSLTHLSFSNTDLMDDPMPALE  709 (821)
Q Consensus       632 ~l~~L~-~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~-~~~~~~L~~L~L~~~~l~~~~~~~l~  709 (821)
                      ++.+|+ .+.+.... .....+...-....++..+.+.+.+     ....... ...+++|+.|+|++|.++......+.
T Consensus       174 ~~~~L~~~i~~~~~~-~l~~~~~~~~~~~~~~~~l~~~~~l-----~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~  247 (329)
T 3sb4_A          174 EGEPLETTIQVGAMG-KLEDEIMKAGLQPRDINFLTIEGKL-----DNADFKLIRDYMPNLVSLDISKTNATTIPDFTFA  247 (329)
T ss_dssp             ESCCCEEEEEECTTC-CHHHHHHHTTCCGGGCSEEEEEECC-----CHHHHHHHHHHCTTCCEEECTTBCCCEECTTTTT
T ss_pred             cccccceeEEecCCC-cHHHHHhhcccCccccceEEEeeee-----cHHHHHHHHHhcCCCeEEECCCCCcceecHhhhh
Confidence            556666 44444331 1111111111234455555555321     1000000 11378999999999887766666789


Q ss_pred             CCCCCCEEEEeccccCCCeeeecCCCCcccc-eeeeccCCCcccee-eccccccccceeEEeecCCCCCCcc-ccCCCCC
Q 045113          710 KLPLLQVLKLKQNSYSGRKLTCGSDGFPRLK-VLHLKSMLWLEEWT-MGTGAMPKLECLIINPCAYLKKMPE-QLWCIKS  786 (821)
Q Consensus       710 ~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~-~L~L~~~~~l~~~~-~~~~~l~~L~~L~i~~c~~l~~lp~-~l~~l~~  786 (821)
                      +|++|+.|.|.+| +. ......+.++++|+ .+.+.+  .+..+. ..+..|++|+.|++.++. ++.++. .+.++++
T Consensus       248 ~~~~L~~l~l~~n-i~-~I~~~aF~~~~~L~~~l~l~~--~l~~I~~~aF~~c~~L~~l~l~~n~-i~~I~~~aF~~~~~  322 (329)
T 3sb4_A          248 QKKYLLKIKLPHN-LK-TIGQRVFSNCGRLAGTLELPA--SVTAIEFGAFMGCDNLRYVLATGDK-ITTLGDELFGNGVP  322 (329)
T ss_dssp             TCTTCCEEECCTT-CC-EECTTTTTTCTTCCEEEEECT--TCCEECTTTTTTCTTEEEEEECSSC-CCEECTTTTCTTCC
T ss_pred             CCCCCCEEECCcc-cc-eehHHHhhCChhccEEEEEcc--cceEEchhhhhCCccCCEEEeCCCc-cCccchhhhcCCcc
Confidence            9999999999865 32 23334467788898 999987  577775 457889999999987664 566654 7889999


Q ss_pred             CCEEEE
Q 045113          787 LNNFNC  792 (821)
Q Consensus       787 L~~L~l  792 (821)
                      |+.|..
T Consensus       323 L~~ly~  328 (329)
T 3sb4_A          323 SKLIYK  328 (329)
T ss_dssp             CCEEEC
T ss_pred             hhhhcc
Confidence            998863

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.19  E-value=3.8e-11  Score=117.99  Aligned_cols=120  Identities=18%  Similarity=0.234  Sum_probs=85.6

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHH--HHhccccceEEecCCcccccc-hhhhccCccCceeecCC
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLS--FFNYLLNLYTLDMPFSYIDHT-ADEFWKMKKLRHLNFGS  597 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~--i~~~L~~L~~L~L~~~~l~~l-p~~i~~l~~L~~L~L~~  597 (821)
                      ++|+++++.++.+|..+..  +|++|++++|.+..+|..  +. .+++|++|+|++|.+..+ |..+.++++|++|++++
T Consensus        11 ~~l~~s~~~l~~ip~~~~~--~l~~L~l~~n~i~~~~~~~~~~-~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~   87 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDIPL--HTTELLLNDNELGRISSDGLFG-RLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCCSSCCSCCCT--TCSEEECCSCCCCSBCCSCSGG-GCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCCcCcCccCCCC--CCCEEECCCCcCCccCCccccc-cCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCC
Confidence            6778888877777766544  778888888887777653  66 788888888888877776 56777788888888888


Q ss_pred             cccCCCCCCCcCCCCCcceeccccC--Ccc-hhhhcCCCCCCCeEEEecc
Q 045113          598 ITLPAHPGNYCGSLENLNFISALYP--CCC-TKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       598 ~~~~~~~p~~i~~l~~L~~L~~~~~--~~~-~~~~l~~l~~L~~L~l~~~  644 (821)
                      |.+.+..|..++.+++|++|++.+|  ... +.. +..+++|+.|++++|
T Consensus        88 N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~-~~~l~~L~~L~L~~N  136 (192)
T 1w8a_A           88 NKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGS-FEHLNSLTSLNLASN  136 (192)
T ss_dssp             CCCCEECSSSSTTCTTCCEEECCSSCCCEECTTS-STTCTTCCEEECTTC
T ss_pred             CcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHH-hhcCCCCCEEEeCCC
Confidence            8776655566777777777777664  222 333 666777777777766

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.18  E-value=1.1e-11  Score=119.91  Aligned_cols=128  Identities=18%  Similarity=0.162  Sum_probs=103.9

Q ss_pred             hccCCceeEEEeCCCCCCcccccccCCC-CceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhh-ccCccCc
Q 045113          514 CEMYKLLRVLDLGSLVLNQYPSEIENLS-LLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEF-WKMKKLR  591 (821)
Q Consensus       514 ~~~~~~Lr~L~L~~~~l~~lp~~i~~l~-~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i-~~l~~L~  591 (821)
                      +..+..|+.|++++|.++.+|. +..+. +|++|++++|.+..+ ..+. .+++|++|++++|.+..+|+.+ ..+++|+
T Consensus        15 ~~~~~~L~~L~l~~n~l~~i~~-~~~~~~~L~~L~Ls~N~l~~~-~~l~-~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~   91 (176)
T 1a9n_A           15 YTNAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEIRKL-DGFP-LLRRLKTLLVNNNRICRIGEGLDQALPDLT   91 (176)
T ss_dssp             EECTTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSSCCCEE-CCCC-CCSSCCEEECCSSCCCEECSCHHHHCTTCC
T ss_pred             cCCcCCceEEEeeCCCCchhHH-hhhcCCCCCEEECCCCCCCcc-cccc-cCCCCCEEECCCCcccccCcchhhcCCCCC
Confidence            5678899999999999998865 55555 999999999999988 5777 9999999999999999998655 8999999


Q ss_pred             eeecCCcccCCCCCC--CcCCCCCcceeccccC--Ccchhh---hcCCCCCCCeEEEeccc
Q 045113          592 HLNFGSITLPAHPGN--YCGSLENLNFISALYP--CCCTKD---LLGRLPNLRNLRIQGDL  645 (821)
Q Consensus       592 ~L~L~~~~~~~~~p~--~i~~l~~L~~L~~~~~--~~~~~~---~l~~l~~L~~L~l~~~~  645 (821)
                      +|++++|.+ +.+|.  .++.+++|+.|++.+|  ...+..   .+..+++|+.|+++.+.
T Consensus        92 ~L~L~~N~i-~~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A           92 ELILTNNSL-VELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             EEECCSCCC-CCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTEECC
T ss_pred             EEECCCCcC-CcchhhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCCcCC
Confidence            999999998 55665  6778888888888774  222221   26677888888887763

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.17  E-value=2.9e-12  Score=152.04  Aligned_cols=118  Identities=24%  Similarity=0.155  Sum_probs=104.9

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      .++.|+.|.+.++....    ++..++ .+++|++|+|++|.++.+|..|++|++|++|+|++|.|..+|..++ +|++|
T Consensus       222 ~l~~L~~L~Ls~n~l~~----l~~~~~-~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~-~l~~L  295 (727)
T 4b8c_D          222 DDQLWHALDLSNLQIFN----ISANIF-KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELG-SCFQL  295 (727)
T ss_dssp             CCCCCCEEECTTSCCSC----CCGGGG-GCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGG-GGTTC
T ss_pred             cCCCCcEEECCCCCCCC----CChhhc-CCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhc-CCCCC
Confidence            78899999999888753    333344 8999999999999999999999999999999999999999999999 99999


Q ss_pred             eEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCC
Q 045113          568 YTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSL  611 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l  611 (821)
                      ++|+|++|.+..+|..|++|++|++|+|++|.+.+.+|..+..+
T Consensus       296 ~~L~L~~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~p~~~~~~  339 (727)
T 4b8c_D          296 KYFYFFDNMVTTLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEK  339 (727)
T ss_dssp             SEEECCSSCCCCCCSSTTSCTTCCCEECTTSCCCSHHHHHHHHH
T ss_pred             CEEECCCCCCCccChhhhcCCCccEEeCCCCccCCCChHHHhhc
Confidence            99999999999999999999999999999999987777655443

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.17  E-value=2.2e-10  Score=123.89  Aligned_cols=253  Identities=11%  Similarity=0.048  Sum_probs=150.1

Q ss_pred             CCCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC------CHHHH
Q 045113          164 FKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC------YADQI  237 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~------~~~~~  237 (821)
                      .....++||+.+++++.+++..+    +++.|+|++|+|||||++.+.+.  .    . .+|+.+....      +...+
T Consensus         9 ~~~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~--~----~-~~~~~~~~~~~~~~~~~~~~~   77 (350)
T 2qen_A            9 TRREDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNE--R----P-GILIDCRELYAERGHITREEL   77 (350)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHH--S----S-EEEEEHHHHHHTTTCBCHHHH
T ss_pred             CChHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHH--c----C-cEEEEeecccccccCCCHHHH
Confidence            34567999999999999998763    69999999999999999999973  2    1 6777765432      55666


Q ss_pred             HHHHHHHhCC-------------------c---hh----HHHHHHHhCC-CcEEEEEecCCCH---------HHHHHHHH
Q 045113          238 LDIIIKFLMP-------------------S---SR----LIILHEYLMT-KRYLIVIDDVWSI---------EVWDIIRE  281 (821)
Q Consensus       238 ~~~i~~~l~~-------------------~---~~----~~~l~~~l~~-kr~LlVlDdv~~~---------~~~~~l~~  281 (821)
                      .+.+...+..                   .   ..    ...+.+.... ++.+||+||++..         ..+..+..
T Consensus        78 ~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~  157 (350)
T 2qen_A           78 IKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAY  157 (350)
T ss_dssp             HHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHH
Confidence            6666665432                   0   11    2233333322 3899999999652         22343433


Q ss_pred             hCCCCCCCcEEEEEecchhh-hc----------cc-------c---cccCCc-----------CCCCccchHHHHHHHcC
Q 045113          282 ILPDNQNGSRVLITLAKIDT-VT----------LF-------Q---FENGQN-----------IRLDLVPTGGPLRVTYQ  329 (821)
Q Consensus       282 ~l~~~~~gs~iiiTtr~~~v-~~----------lf-------~---~~~~~~-----------~~~~~~~~~~~i~~~c~  329 (821)
                      .... ..+.++|+|++.... .+          ++       .   |...+.           ...--.+.+..|+..++
T Consensus       158 ~~~~-~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~tg  236 (350)
T 2qen_A          158 AYDS-LPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVPENEIEEAVELLD  236 (350)
T ss_dssp             HHHH-CTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHT
T ss_pred             HHHh-cCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhC
Confidence            2222 247889999876532 11          11       0   110000           00011245678999999


Q ss_pred             CchHHHHHhhccccc---cc-----chhccccchhHHHHhhhcC---ChhhHHHHhhcccCCCCceechhhHHHHHHHcC
Q 045113          330 GWPFHILYHGSISLE---EN-----KREAIAKPIFLQSVAYCML---PFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEG  398 (821)
Q Consensus       330 glPLai~~~g~~~~~---~~-----~~~~i~~~~~~l~~sy~~L---~~~~k~cfl~~s~Fp~~~~i~~~~Li~~W~aeg  398 (821)
                      |.|+++..++...|.   ..     ..+.+.   ..+.-.+..+   ++..+..+..+|.   + .++...+.....+..
T Consensus       237 G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~l~~l~~~~~~~~~~l~~la~---g-~~~~~~l~~~~~~~~  309 (350)
T 2qen_A          237 GIPGWLVVFGVEYLRNGDFGRAMKRTLEVAK---GLIMGELEELRRRSPRYVDILRAIAL---G-YNRWSLIRDYLAVKG  309 (350)
T ss_dssp             TCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH---HHHHHHHHHHHHHCHHHHHHHHHHHT---T-CCSHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHhccccHhHHHHHHHHHHH---HHHHHHHHHHHhCChhHHHHHHHHHh---C-CCCHHHHHHHHHHHh
Confidence            999999998843221   11     011111   2222223333   7778888888887   2 245566655543221


Q ss_pred             CCCCChHHHHHHHHHHHHhCCceeeeecCCCCCEEEEEeC-cchHHH
Q 045113          399 FIPDNSEATAEKYLEQLINRGFVEVKKRRAGGTINTCSIR-SRCWPS  444 (821)
Q Consensus       399 ~i~~~~~~~~~~~~~~L~~r~ll~~~~~~~~~~~~~~~mH-dlv~dl  444 (821)
                       . .........+++.|.+.+++....       ..|.++ .+++++
T Consensus       310 -~-~~~~~~~~~~l~~L~~~gli~~~~-------~~y~~~~p~~~~~  347 (350)
T 2qen_A          310 -T-KIPEPRLYALLENLKKMNWIVEED-------NTYKIADPVVATV  347 (350)
T ss_dssp             -C-CCCHHHHHHHHHHHHHTTSEEEET-------TEEEESSHHHHHH
T ss_pred             -C-CCCHHHHHHHHHHHHhCCCEEecC-------CEEEEecHHHHHH
Confidence             0 112455678999999999998752       135554 455554

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.12  E-value=7e-11  Score=116.04  Aligned_cols=103  Identities=18%  Similarity=0.173  Sum_probs=80.4

Q ss_pred             ceeEEEeCCCCCCccccc--ccCCCCceEEeecCCCCccc-cHHHHhccccceEEecCCcccccchh-hhccCccCceee
Q 045113          519 LLRVLDLGSLVLNQYPSE--IENLSLLRYLKLNIPSLKSL-PLSFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLN  594 (821)
Q Consensus       519 ~Lr~L~L~~~~l~~lp~~--i~~l~~Lr~L~L~~~~i~~l-p~~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~  594 (821)
                      .|++|+|++|.++.++..  ++.+++|++|+|++|.+..+ |..+. .+++|++|+|++|.+..++. .+..+++|++|+
T Consensus        30 ~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~-~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  108 (192)
T 1w8a_A           30 HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFE-GASHIQELQLGENKIKEISNKMFLGLHQLKTLN  108 (192)
T ss_dssp             TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTT-TCTTCCEEECCSCCCCEECSSSSTTCTTCCEEE
T ss_pred             CCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcC-CcccCCEEECCCCcCCccCHHHhcCCCCCCEEE
Confidence            778888888888777653  77888888888888888766 55666 88888888888888777754 477788888888


Q ss_pred             cCCcccCCCCCCCcCCCCCcceeccccC
Q 045113          595 FGSITLPAHPGNYCGSLENLNFISALYP  622 (821)
Q Consensus       595 L~~~~~~~~~p~~i~~l~~L~~L~~~~~  622 (821)
                      +++|.+.+..|..++.+++|++|++.+|
T Consensus       109 L~~N~l~~~~~~~~~~l~~L~~L~L~~N  136 (192)
T 1w8a_A          109 LYDNQISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             CCSSCCCEECTTSSTTCTTCCEEECTTC
T ss_pred             CCCCcCCeeCHHHhhcCCCCCEEEeCCC
Confidence            8888887777777888888888887664

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.10  E-value=1.9e-10  Score=112.91  Aligned_cols=104  Identities=19%  Similarity=0.247  Sum_probs=80.9

Q ss_pred             CceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHH-HHhccccceEEecCCcccccchh-hhccCccCceeec
Q 045113          518 KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLS-FFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNF  595 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~-i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L  595 (821)
                      +.|++|+|++|.++.+|..+.++++|++|+|++|.+..++.. +. .+++|++|+|++|.+..+|. .+..+++|++|++
T Consensus        31 ~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~-~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L  109 (193)
T 2wfh_A           31 RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFS-NMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSL  109 (193)
T ss_dssp             TTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTT-TCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEEC
T ss_pred             CCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHcc-CCCCCCEEECCCCccCEeCHHHhCCCCCCCEEEC
Confidence            478888888888888888888888888888888888877654 55 88888888888888877754 5778888888888


Q ss_pred             CCcccCCCCCCCcCCCCCcceeccccC
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALYP  622 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~~  622 (821)
                      ++|.+....+..+..+++|+.|++..|
T Consensus       110 ~~N~l~~~~~~~~~~l~~L~~L~L~~N  136 (193)
T 2wfh_A          110 HGNDISVVPEGAFNDLSALSHLAIGAN  136 (193)
T ss_dssp             CSSCCCBCCTTTTTTCTTCCEEECCSS
T ss_pred             CCCCCCeeChhhhhcCccccEEEeCCC
Confidence            888885444445778888888887664

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.09  E-value=8.4e-12  Score=123.36  Aligned_cols=88  Identities=17%  Similarity=0.145  Sum_probs=69.5

Q ss_pred             HHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccC
Q 045113          511 QKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKL  590 (821)
Q Consensus       511 ~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L  590 (821)
                      +..+..+++|++|+|++|.++.+| .+.++++|++|++++|.+..+|..+. .+++|++|++++|.+..+| .+..+++|
T Consensus        41 ~~~~~~l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~-~~~~L~~L~L~~N~l~~l~-~~~~l~~L  117 (198)
T 1ds9_A           41 DATLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDA-VADTLEELWISYNQIASLS-GIEKLVNL  117 (198)
T ss_dssp             HHHHHHTTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEEEEECSCSSHHH-HHHHCSEEEEEEEECCCHH-HHHHHHHS
T ss_pred             hHHHhcCCCCCEEECCCCCCcccc-ccccCCCCCEEECCCCCcccccchhh-cCCcCCEEECcCCcCCcCC-ccccCCCC
Confidence            346778888888888888887777 77778888888888888888887776 7788888888888777776 57778888


Q ss_pred             ceeecCCcccC
Q 045113          591 RHLNFGSITLP  601 (821)
Q Consensus       591 ~~L~L~~~~~~  601 (821)
                      ++|++++|.+.
T Consensus       118 ~~L~l~~N~i~  128 (198)
T 1ds9_A          118 RVLYMSNNKIT  128 (198)
T ss_dssp             SEEEESEEECC
T ss_pred             CEEECCCCcCC
Confidence            88888887763

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.09  E-value=3.8e-10  Score=122.36  Aligned_cols=249  Identities=14%  Similarity=0.105  Sum_probs=142.8

Q ss_pred             CCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC-----CCHHHHHH
Q 045113          165 KNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT-----CYADQILD  239 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~-----~~~~~~~~  239 (821)
                      ....++||+.+++.+.+ +..     +++.|+|++|+|||||++.+.+.  ...   ..+|+.+...     .+...+..
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~-----~~v~i~G~~G~GKT~L~~~~~~~--~~~---~~~~~~~~~~~~~~~~~~~~~~~   79 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA-----PITLVLGLRRTGKSSIIKIGINE--LNL---PYIYLDLRKFEERNYISYKDFLL   79 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS-----SEEEEEESTTSSHHHHHHHHHHH--HTC---CEEEEEGGGGTTCSCCCHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC-----CcEEEECCCCCCHHHHHHHHHHh--cCC---CEEEEEchhhccccCCCHHHHHH
Confidence            45679999999999999 654     59999999999999999999973  332   2578877642     34444444


Q ss_pred             HHHHHhCC---------------------------------chhHHHHHHHhCC---CcEEEEEecCCCH-----HH-HH
Q 045113          240 IIIKFLMP---------------------------------SSRLIILHEYLMT---KRYLIVIDDVWSI-----EV-WD  277 (821)
Q Consensus       240 ~i~~~l~~---------------------------------~~~~~~l~~~l~~---kr~LlVlDdv~~~-----~~-~~  277 (821)
                      .+...+..                                 ......+.+.+..   ++++||+||++..     .+ +.
T Consensus        80 ~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~  159 (357)
T 2fna_A           80 ELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLP  159 (357)
T ss_dssp             HHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHH
T ss_pred             HHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHH
Confidence            44433210                                 0112333333321   4999999999542     12 23


Q ss_pred             HHHHhCCCCCCCcEEEEEecchhhh-c----------cc----c------cccCCc----------CCCCccchHHHHHH
Q 045113          278 IIREILPDNQNGSRVLITLAKIDTV-T----------LF----Q------FENGQN----------IRLDLVPTGGPLRV  326 (821)
Q Consensus       278 ~l~~~l~~~~~gs~iiiTtr~~~v~-~----------lf----~------~~~~~~----------~~~~~~~~~~~i~~  326 (821)
                      .+.... +...+.++|+|++..... +          ++    .      |...+.          ......+ ...|+.
T Consensus       160 ~l~~~~-~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~-~~~i~~  237 (357)
T 2fna_A          160 ALAYAY-DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD-YEVVYE  237 (357)
T ss_dssp             HHHHHH-HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC-HHHHHH
T ss_pred             HHHHHH-HcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCc-HHHHHH
Confidence            332222 112368899999875421 1          11    0      100000          0011112 278999


Q ss_pred             HcCCchHHHHHhhccccccc--------chhccccchhHHH-----Hhhh--cCChhhHHHHhhcccCCCCceechhhHH
Q 045113          327 TYQGWPFHILYHGSISLEEN--------KREAIAKPIFLQS-----VAYC--MLPFPLKLCCLYLPVFPAHLEISTRQLY  391 (821)
Q Consensus       327 ~c~glPLai~~~g~~~~~~~--------~~~~i~~~~~~l~-----~sy~--~L~~~~k~cfl~~s~Fp~~~~i~~~~Li  391 (821)
                      .|+|.|+++..++...+.-.        ..+.+.   ..+.     +.+.  .||+..+..+..+|.   +.  +...+.
T Consensus       238 ~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~l~~~~~~~l~~la~---g~--~~~~l~  309 (357)
T 2fna_A          238 KIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYAK---KLILKEFENFLHGREIARKRYLNIMRTLSK---CG--KWSDVK  309 (357)
T ss_dssp             HHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH---HHHHHHHHHHHTTCGGGHHHHHHHHHHHTT---CB--CHHHHH
T ss_pred             HhCCCHHHHHHHHHHHccccchHHHHHHHHHHHH---HHHHHHHHHHhhccccccHHHHHHHHHHHc---CC--CHHHHH
Confidence            99999999998884322100        001111   1121     1111  578889999999987   22  445554


Q ss_pred             HHHH-HcCC-CCCChHHHHHHHHHHHHhCCceeeeecCCCCCEEEEEe-CcchHHH
Q 045113          392 QLWI-AEGF-IPDNSEATAEKYLEQLINRGFVEVKKRRAGGTINTCSI-RSRCWPS  444 (821)
Q Consensus       392 ~~W~-aeg~-i~~~~~~~~~~~~~~L~~r~ll~~~~~~~~~~~~~~~m-Hdlv~dl  444 (821)
                      ...- ..|. +   .......+++.|++.+++....    +   .|++ |.++++.
T Consensus       310 ~~~~~~~g~~~---~~~~~~~~L~~L~~~gli~~~~----~---~y~f~~~~~~~~  355 (357)
T 2fna_A          310 RALELEEGIEI---SDSEIYNYLTQLTKHSWIIKEG----E---KYCPSEPLISLA  355 (357)
T ss_dssp             HHHHHHHCSCC---CHHHHHHHHHHHHHTTSEEESS----S---CEEESSHHHHHH
T ss_pred             HHHHHhcCCCC---CHHHHHHHHHHHHhCCCEEecC----C---EEEecCHHHHHh
Confidence            3321 1232 2   1345678999999999998653    1   2454 5566653

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.05  E-value=6e-10  Score=107.72  Aligned_cols=83  Identities=25%  Similarity=0.332  Sum_probs=38.5

Q ss_pred             CceeEEEeCCCCCCcccc-cccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhh-hccCccCceeec
Q 045113          518 KLLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHLNF  595 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~-i~~l~~L~~L~L  595 (821)
                      +.|+.|++++|.++.+|. .++.+++|++|++++|.+..+|......+++|++|++++|.+..+|.. +..+++|++|++
T Consensus        28 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l  107 (177)
T 2o6r_A           28 SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELAL  107 (177)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCccccCHHHhhCCcccCEEEC
Confidence            344555555555444332 234445555555555555444433211445555555555544444332 344455555555


Q ss_pred             CCccc
Q 045113          596 GSITL  600 (821)
Q Consensus       596 ~~~~~  600 (821)
                      ++|.+
T Consensus       108 ~~N~l  112 (177)
T 2o6r_A          108 DTNQL  112 (177)
T ss_dssp             CSSCC
T ss_pred             cCCcc
Confidence            55444

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.04  E-value=4.9e-10  Score=108.33  Aligned_cols=127  Identities=16%  Similarity=0.160  Sum_probs=102.0

Q ss_pred             EEEEcCCCcccccCCCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccccc-ccCCCCceEEeecCCC
Q 045113          474 FALEQQSDFAYLDDYYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSE-IENLSLLRYLKLNIPS  552 (821)
Q Consensus       474 lsl~~~~~~~~~~~~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~-i~~l~~Lr~L~L~~~~  552 (821)
                      +..........+..-.++|++|.+.++....    .+...|..+++|++|+|++|.++.+|.. ++.+++|++|++++|.
T Consensus        12 l~~~~~~l~~~p~~~~~~l~~L~l~~n~l~~----~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~   87 (177)
T 2o6r_A           12 IRCNSKGLTSVPTGIPSSATRLELESNKLQS----LPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENK   87 (177)
T ss_dssp             EECCSSCCSSCCTTCCTTCSEEECCSSCCCC----CCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             EEecCCCCccCCCCCCCCCcEEEeCCCcccE----eCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCC
Confidence            3344333333322255799999999887653    5566789999999999999999988754 6899999999999999


Q ss_pred             CccccHHHHhccccceEEecCCcccccchhh-hccCccCceeecCCcccCCCC
Q 045113          553 LKSLPLSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHLNFGSITLPAHP  604 (821)
Q Consensus       553 i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~-i~~l~~L~~L~L~~~~~~~~~  604 (821)
                      +..+|......+++|++|++++|.+..+|.. +..+++|++|++++|.+....
T Consensus        88 l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~  140 (177)
T 2o6r_A           88 LQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSC  140 (177)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCH
T ss_pred             ccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCCeeccC
Confidence            9988876433899999999999999999876 477999999999999886543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.99  E-value=1.8e-08  Score=110.40  Aligned_cols=255  Identities=15%  Similarity=0.053  Sum_probs=152.7

Q ss_pred             CCeeechhhHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHHhcCcccccc------cceeEEEEcCCCCCHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEG--PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHY------FDCHAWVQEPYTCYADQIL  238 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~--~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~------F~~~~wv~~s~~~~~~~~~  238 (821)
                      ..++||+.+++++..++...  ......+.|+|++|+||||+|+.+++  .....      --..+|+.+....+...+.
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~--~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   96 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLR--RLEARASSLGVLVKPIYVNARHRETPYRVA   96 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHH--HHHHHHHHHTCCEEEEEEETTTSCSHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHH--HHHHHHhccCCCeEEEEEECCcCCCHHHHH
Confidence            67999999999999998543  34467899999999999999999998  33221      1246788888888888999


Q ss_pred             HHHHHHhCCch--------h-HHHHHHHhC--CCcEEEEEecCCCHH----HHHHHH---HhCCCC--CCCcEEEEEecc
Q 045113          239 DIIIKFLMPSS--------R-LIILHEYLM--TKRYLIVIDDVWSIE----VWDIIR---EILPDN--QNGSRVLITLAK  298 (821)
Q Consensus       239 ~~i~~~l~~~~--------~-~~~l~~~l~--~kr~LlVlDdv~~~~----~~~~l~---~~l~~~--~~gs~iiiTtr~  298 (821)
                      ..++.+++...        + ...+.+.+.  +++.+||||+++...    ..+.+.   ......  ..+..+|.||+.
T Consensus        97 ~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~  176 (387)
T 2v1u_A           97 SAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNS  176 (387)
T ss_dssp             HHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSC
T ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECC
Confidence            99999886531        1 455555663  568999999997542    223332   222111  345678888876


Q ss_pred             hhhh---------------------------cccc--cccCCcCCCCccchHHHHHHHcC---Cch-HHHHHhhcc----
Q 045113          299 IDTV---------------------------TLFQ--FENGQNIRLDLVPTGGPLRVTYQ---GWP-FHILYHGSI----  341 (821)
Q Consensus       299 ~~v~---------------------------~lf~--~~~~~~~~~~~~~~~~~i~~~c~---glP-Lai~~~g~~----  341 (821)
                      ....                           +++.  +........--.+..+.+++.++   |.| .|+.++...    
T Consensus       177 ~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~a  256 (387)
T 2v1u_A          177 LGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGEIA  256 (387)
T ss_dssp             STTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHHHH
T ss_pred             CchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHH
Confidence            6332                           1111  00000001111334567777787   888 333333210    


Q ss_pred             ---c-ccccchhcccc-----chhHHHHhhhcCChhhHHHHhhcc-cCCCCceechhhHHHHH----HHcCCCCCChHHH
Q 045113          342 ---S-LEENKREAIAK-----PIFLQSVAYCMLPFPLKLCCLYLP-VFPAHLEISTRQLYQLW----IAEGFIPDNSEAT  407 (821)
Q Consensus       342 ---~-~~~~~~~~i~~-----~~~~l~~sy~~L~~~~k~cfl~~s-~Fp~~~~i~~~~Li~~W----~aeg~i~~~~~~~  407 (821)
                         . ..+. .+.+..     ....+.-++..||.+.+..++..+ ++.....+...++.+..    -..| ..+.....
T Consensus       257 ~~~~~~~i~-~~~v~~a~~~~~~~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  334 (387)
T 2v1u_A          257 ERRREERVR-REHVYSARAEIERDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKELTSTLG-LEHVTLRR  334 (387)
T ss_dssp             HHTTCSCBC-HHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHHHHTT-CCCCCHHH
T ss_pred             HHcCCCCcC-HHHHHHHHHHHhhchHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhcC-CCCCCHHH
Confidence               0 1111 111110     013445566889988877666555 44322355566444432    2334 33344567


Q ss_pred             HHHHHHHHHhCCceeeee
Q 045113          408 AEKYLEQLINRGFVEVKK  425 (821)
Q Consensus       408 ~~~~~~~L~~r~ll~~~~  425 (821)
                      ...+++.|...+++....
T Consensus       335 ~~~~l~~L~~~gli~~~~  352 (387)
T 2v1u_A          335 VSGIISELDMLGIVKSRV  352 (387)
T ss_dssp             HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHhCCCeEEEe
Confidence            788999999999999864

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.99  E-value=1.8e-08  Score=110.54  Aligned_cols=256  Identities=14%  Similarity=0.057  Sum_probs=156.5

Q ss_pred             CCeeechhhHHHHHHHHhcC----CCCceEEEEEcCCCChHHHHHHHHhcCccccccc-ceeEEEEcCCCCCHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEG----PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF-DCHAWVQEPYTCYADQILDII  241 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~----~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F-~~~~wv~~s~~~~~~~~~~~i  241 (821)
                      ..++||+.+++++.+++...    .+..+.+.|+|.+|+||||||+.+.+  ...... ...+|+.++...+...+...+
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~--~~~~~~~~~~~~i~~~~~~~~~~~~~~l   94 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWE--LYKDKTTARFVYINGFIYRNFTAIIGEI   94 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHH--HHTTSCCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHH--HHhhhcCeeEEEEeCccCCCHHHHHHHH
Confidence            67999999999999998762    22234899999999999999999997  343321 246788888888888999999


Q ss_pred             HHHhCCch-------h--HHHHHHHh--CCCcEEEEEecCCC--HHHHHHHHHhCCCCC----CCcEEEEEecchhhhc-
Q 045113          242 IKFLMPSS-------R--LIILHEYL--MTKRYLIVIDDVWS--IEVWDIIREILPDNQ----NGSRVLITLAKIDTVT-  303 (821)
Q Consensus       242 ~~~l~~~~-------~--~~~l~~~l--~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~----~gs~iiiTtr~~~v~~-  303 (821)
                      +..++...       .  ...+.+.+  .+++.+||||+++.  ...+..+...+....    .+..||+||+...... 
T Consensus        95 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~  174 (389)
T 1fnn_A           95 ARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNN  174 (389)
T ss_dssp             HHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHT
T ss_pred             HHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHH
Confidence            88876421       1  33444444  35789999999965  455666666654322    4678888887664330 


Q ss_pred             ------------ccccccCCc----------------CCCCccchHHHHHHHc---------CCchHHHHHhhc------
Q 045113          304 ------------LFQFENGQN----------------IRLDLVPTGGPLRVTY---------QGWPFHILYHGS------  340 (821)
Q Consensus       304 ------------lf~~~~~~~----------------~~~~~~~~~~~i~~~c---------~glPLai~~~g~------  340 (821)
                                  .+.|..-..                ...--.+..+.+++.+         .|.|-.+..+..      
T Consensus       175 l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~~a  254 (389)
T 1fnn_A          175 LDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAA  254 (389)
T ss_dssp             SCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHH
T ss_pred             hCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHHHH
Confidence                        011111000                0011123556778888         687644333321      


Q ss_pred             ---ccccccchhccccc-----hhHHHHhhhcCChhhHHHHhhcccCC---CCceechhhHHHHHHH----cCCCCCChH
Q 045113          341 ---ISLEENKREAIAKP-----IFLQSVAYCMLPFPLKLCCLYLPVFP---AHLEISTRQLYQLWIA----EGFIPDNSE  405 (821)
Q Consensus       341 ---~~~~~~~~~~i~~~-----~~~l~~sy~~L~~~~k~cfl~~s~Fp---~~~~i~~~~Li~~W~a----eg~i~~~~~  405 (821)
                         ..+.+. .+.+...     ...+.-.+..||.+.+.++..++.+.   .+..+....+...+..    .|.. +-..
T Consensus       255 ~~~~~~~i~-~~~v~~~~~~~~~~~~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~-~~~~  332 (389)
T 1fnn_A          255 QQNGRKHIA-PEDVRKSSKEVLFGISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCEEYGER-PRVH  332 (389)
T ss_dssp             HHTTCSSCC-HHHHHHHHHHHSCCCCHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHHHHTTCC-CCCH
T ss_pred             HHhCCCCcC-HHHHHHHHHHHhhhhHHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHHHHcCCC-CCCH
Confidence               111111 1111100     03334456788888887777676544   2225666677665533    3422 2223


Q ss_pred             HHHHHHHHHHHhCCceeeeec
Q 045113          406 ATAEKYLEQLINRGFVEVKKR  426 (821)
Q Consensus       406 ~~~~~~~~~L~~r~ll~~~~~  426 (821)
                      .....++++|.+.+++.....
T Consensus       333 ~~~~~~l~~L~~~gli~~~~~  353 (389)
T 1fnn_A          333 SQLWSYLNDLREKGIVETRQN  353 (389)
T ss_dssp             HHHHHHHHHHHHTTSSEEEEC
T ss_pred             HHHHHHHHHHHhCCCeEEeee
Confidence            456789999999999998654

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.96  E-value=1.9e-11  Score=120.73  Aligned_cols=111  Identities=19%  Similarity=0.138  Sum_probs=98.3

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      .+++|++|.+.++....    + + .+..+++|+.|++++|.++.+|..+..+++|++|++++|.+..+| .+. .+++|
T Consensus        46 ~l~~L~~L~ls~n~l~~----l-~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~l~~l~-~~~-~l~~L  117 (198)
T 1ds9_A           46 TLKACKHLALSTNNIEK----I-S-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLS-GIE-KLVNL  117 (198)
T ss_dssp             HTTTCSEEECSEEEESC----C-C-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEECCCHH-HHH-HHHHS
T ss_pred             cCCCCCEEECCCCCCcc----c-c-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCcCCcCC-ccc-cCCCC
Confidence            78999999999887653    2 2 778899999999999999999988888899999999999999988 688 99999


Q ss_pred             eEEecCCcccccchh--hhccCccCceeecCCcccCCCCCC
Q 045113          568 YTLDMPFSYIDHTAD--EFWKMKKLRHLNFGSITLPAHPGN  606 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~--~i~~l~~L~~L~L~~~~~~~~~p~  606 (821)
                      ++|++++|.+..+|.  .+..+++|++|++++|.+.+..|.
T Consensus       118 ~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~  158 (198)
T 1ds9_A          118 RVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKE  158 (198)
T ss_dssp             SEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHT
T ss_pred             CEEECCCCcCCchhHHHHHhcCCCCCEEEecCCcccccccc
Confidence            999999999998865  789999999999999998665554

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.96  E-value=1.4e-08  Score=111.13  Aligned_cols=254  Identities=14%  Similarity=0.019  Sum_probs=149.1

Q ss_pred             CCeeechhhHHHHHHHHhc--CCCCceEEEEEcCCCChHHHHHHHHhcCcccccc--------cceeEEEEcCCCC-CHH
Q 045113          167 RDTVGLDDRMEELLDLLIE--GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHY--------FDCHAWVQEPYTC-YAD  235 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~--~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~--------F~~~~wv~~s~~~-~~~  235 (821)
                      ..++||+.+++++.+++..  .....+.+.|+|++|+||||||+.+++  +....        ....+|+.++... +..
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~--~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   97 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFN--EIEEVKKEDEEYKDVKQAYVNCREVGGTPQ   97 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHH--HHHHHHHHSSSSTTCEEEEEEHHHHCSCHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHH--HHHHHhhhhcCCCCceEEEEECccCCCCHH
Confidence            6799999999999988865  233466899999999999999999998  33221        2356788777766 788


Q ss_pred             HHHHHHHHHhCCc---------hh-HHHHHHHhCCCcEEEEEecCCCHHH---HHH-HHHhCCCCCCCcEEEEEecchhh
Q 045113          236 QILDIIIKFLMPS---------SR-LIILHEYLMTKRYLIVIDDVWSIEV---WDI-IREILPDNQNGSRVLITLAKIDT  301 (821)
Q Consensus       236 ~~~~~i~~~l~~~---------~~-~~~l~~~l~~kr~LlVlDdv~~~~~---~~~-l~~~l~~~~~gs~iiiTtr~~~v  301 (821)
                      .+...++.++...         .+ ...+.+.+..++.+|||||++....   .+. +...+... .+..||+||+....
T Consensus        98 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~-~~~~iI~~t~~~~~  176 (384)
T 2qby_B           98 AVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD-ANISVIMISNDINV  176 (384)
T ss_dssp             HHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS-SCEEEEEECSSTTT
T ss_pred             HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC-cceEEEEEECCCch
Confidence            8888888887211         11 5667777777666999999975421   222 22222222 67889999987632


Q ss_pred             h--------------------------cccc--cccCCcCCCCccchHHHHHHHcC---CchH-HHHHhh---cccc---
Q 045113          302 V--------------------------TLFQ--FENGQNIRLDLVPTGGPLRVTYQ---GWPF-HILYHG---SISL---  343 (821)
Q Consensus       302 ~--------------------------~lf~--~~~~~~~~~~~~~~~~~i~~~c~---glPL-ai~~~g---~~~~---  343 (821)
                      .                          ++|.  +...-....--.+..+.+++.++   |-|- |+..+.   ....   
T Consensus       177 ~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~~  256 (384)
T 2qby_B          177 RDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGG  256 (384)
T ss_dssp             TTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSSS
T ss_pred             HhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCC
Confidence            1                          1111  10000001111334567777777   7765 333332   1111   


Q ss_pred             cccchhcccc-----chhHHHHhhhcCChhhHHHHhhcccCCCCceechhhHHHHHHHcCCCCCChHHHHHHHHHHHHhC
Q 045113          344 EENKREAIAK-----PIFLQSVAYCMLPFPLKLCCLYLPVFPAHLEISTRQLYQLWIAEGFIPDNSEATAEKYLEQLINR  418 (821)
Q Consensus       344 ~~~~~~~i~~-----~~~~l~~sy~~L~~~~k~cfl~~s~Fp~~~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~L~~r  418 (821)
                      .+ ..+.+..     ....+.-++..|+.+.|..+..++....+-.+. +......-..| +.+........++..|...
T Consensus       257 ~i-~~~~v~~~~~~~~~~~~~~~~~~l~~~~~~~l~al~~~~~~~~~~-~~~~~~~~~~g-~~~~~~~~~~~~l~~L~~~  333 (384)
T 2qby_B          257 II-RKEHVDKAIVDYEQERLIEAVKALPFHYKLALRSLIESEDVMSAH-KMYTDLCNKFK-QKPLSYRRFSDIISELDMF  333 (384)
T ss_dssp             CC-CHHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHTCCBHHHHH-HHHHHHHHHTT-CCCCCHHHHHHHHHHHHHT
T ss_pred             cc-CHHHHHHHHHHHhcchHHHHHHcCCHHHHHHHHHHHHhcccChHH-HHHHHHHHHcC-CCCCCHHHHHHHHHHHHhC
Confidence            11 1111110     013455667889988777666565511101111 11112222344 2233345677899999999


Q ss_pred             Cceeeeec
Q 045113          419 GFVEVKKR  426 (821)
Q Consensus       419 ~ll~~~~~  426 (821)
                      +++.....
T Consensus       334 gli~~~~~  341 (384)
T 2qby_B          334 GIVKIRII  341 (384)
T ss_dssp             TSEEEEEE
T ss_pred             CCEEEEec
Confidence            99987654

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.94  E-value=1.2e-08  Score=111.97  Aligned_cols=262  Identities=12%  Similarity=0.103  Sum_probs=153.5

Q ss_pred             CCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccc-cccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          489 YPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       489 ~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      +..+.++.+...-..     +...+|..+ +|+.+.|..+ ++.++. .+.+ .+|+.+.+.. .+..++......|.+|
T Consensus       112 ~~~l~~i~ip~~i~~-----I~~~aF~~~-~L~~i~l~~~-i~~I~~~aF~~-~~L~~i~lp~-~l~~I~~~aF~~c~~L  182 (401)
T 4fdw_A          112 LKGYNEIILPNSVKS-----IPKDAFRNS-QIAKVVLNEG-LKSIGDMAFFN-STVQEIVFPS-TLEQLKEDIFYYCYNL  182 (401)
T ss_dssp             CSSCSEEECCTTCCE-----ECTTTTTTC-CCSEEECCTT-CCEECTTTTTT-CCCCEEECCT-TCCEECSSTTTTCTTC
T ss_pred             cCCccEEEECCccCE-----ehHhhcccC-CccEEEeCCC-ccEECHHhcCC-CCceEEEeCC-CccEehHHHhhCcccC
Confidence            344555554433221     334455554 5777776654 554443 3444 3577777665 4555554333366777


Q ss_pred             eEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEeccccc
Q 045113          568 YTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSY  647 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  647 (821)
                      +.+++.++.+..+|.....+.+|+.+.+..+ + ..++                     ..++.+|++|+.+.+..+-. 
T Consensus       183 ~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~~-l-~~I~---------------------~~aF~~~~~L~~l~l~~~l~-  238 (401)
T 4fdw_A          183 KKADLSKTKITKLPASTFVYAGIEEVLLPVT-L-KEIG---------------------SQAFLKTSQLKTIEIPENVS-  238 (401)
T ss_dssp             CEEECTTSCCSEECTTTTTTCCCSEEECCTT-C-CEEC---------------------TTTTTTCTTCCCEECCTTCC-
T ss_pred             CeeecCCCcceEechhhEeecccCEEEeCCc-h-heeh---------------------hhHhhCCCCCCEEecCCCcc-
Confidence            7777776666666655444566666665432 2 1121                     11255555555555543210 


Q ss_pred             chhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCC-----CCCcccccCCCCCCEEEEecc
Q 045113          648 NQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLM-----DDPMPALEKLPLLQVLKLKQN  722 (821)
Q Consensus       648 ~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~-----~~~~~~l~~l~~L~~L~L~~~  722 (821)
                      ..+  ...+.. .+|+.+.+..     +++.+.-..+..|++|+.+.+.++.+.     ......+.+|++|+.+.|. +
T Consensus       239 ~I~--~~aF~~-~~L~~i~lp~-----~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~-~  309 (401)
T 4fdw_A          239 TIG--QEAFRE-SGITTVKLPN-----GVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIP-E  309 (401)
T ss_dssp             EEC--TTTTTT-CCCSEEEEET-----TCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCC-T
T ss_pred             Ccc--cccccc-CCccEEEeCC-----CccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeC-C
Confidence            000  112333 5778887753     466666666788899999999887653     1334567889999999998 4


Q ss_pred             ccCCCeeeecCCCCcccceeeeccCCCccceee-ccccccccceeEEeecCCCCCCccccCCCC-CCCEEEEeCCc
Q 045113          723 SYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTM-GTGAMPKLECLIINPCAYLKKMPEQLWCIK-SLNNFNCWWPQ  796 (821)
Q Consensus       723 ~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~-~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~-~L~~L~l~~c~  796 (821)
                      .+.. .....+.++++|+.+.|..  ++..+.. .+..+ +|+.|.+.++....-.+..+.+++ ++..|.+-.-.
T Consensus       310 ~i~~-I~~~aF~~c~~L~~l~lp~--~l~~I~~~aF~~~-~L~~l~l~~n~~~~l~~~~F~~~~~~l~~l~vp~~~  381 (401)
T 4fdw_A          310 SIRI-LGQGLLGGNRKVTQLTIPA--NVTQINFSAFNNT-GIKEVKVEGTTPPQVFEKVWYGFPDDITVIRVPAES  381 (401)
T ss_dssp             TCCE-ECTTTTTTCCSCCEEEECT--TCCEECTTSSSSS-CCCEEEECCSSCCBCCCSSCCCSCTTCCEEEECGGG
T ss_pred             ceEE-EhhhhhcCCCCccEEEECc--cccEEcHHhCCCC-CCCEEEEcCCCCcccccccccCCCCCccEEEeCHHH
Confidence            3322 2233466788999999965  3666643 46677 999999998753332234566664 78888875433

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.93  E-value=1.9e-09  Score=103.37  Aligned_cols=99  Identities=22%  Similarity=0.217  Sum_probs=71.2

Q ss_pred             eeEEEeCCCCCCcccccccCCCCceEEeecCCCCcccc-HHHHhccccceEEecCCcccccchhh-hccCccCceeecCC
Q 045113          520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLP-LSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHLNFGS  597 (821)
Q Consensus       520 Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp-~~i~~~L~~L~~L~L~~~~l~~lp~~-i~~l~~L~~L~L~~  597 (821)
                      .++|+++++.++.+|..+.  .+|++|+|++|.+..++ ..+. .+++|++|+|++|.+..+|.. +..+++|++|+|++
T Consensus        11 ~~~l~~s~n~l~~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~-~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~   87 (170)
T 3g39_A           11 GTTVDCSGKSLASVPTGIP--TTTQVLYLYDNQITKLEPGVFD-RLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLND   87 (170)
T ss_dssp             TTEEECTTSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTT-TCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEeCCCCcCccCccCC--CCCcEEEcCCCcCCccChhhhc-CcccCCEEECCCCCcCccChhhccCCCCCCEEECCC
Confidence            4678888888888887663  77888888888888774 4466 788888888888888888664 46788888888888


Q ss_pred             cccCCCCCCCcCCCCCcceecccc
Q 045113          598 ITLPAHPGNYCGSLENLNFISALY  621 (821)
Q Consensus       598 ~~~~~~~p~~i~~l~~L~~L~~~~  621 (821)
                      |.+....+..+..+++|++|++.+
T Consensus        88 N~l~~~~~~~~~~l~~L~~L~L~~  111 (170)
T 3g39_A           88 NQLKSIPRGAFDNLKSLTHIWLLN  111 (170)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CccCEeCHHHhcCCCCCCEEEeCC
Confidence            887544334455555555555544

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.92  E-value=2.3e-09  Score=103.20  Aligned_cols=98  Identities=21%  Similarity=0.235  Sum_probs=59.9

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCcccc-HHHHhccccceEEecCCcccccchhh-hccCccCceeecCCc
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLP-LSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHLNFGSI  598 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp-~~i~~~L~~L~~L~L~~~~l~~lp~~-i~~l~~L~~L~L~~~  598 (821)
                      +.++++++.++.+|..+.  ++|++|+|++|.+..++ ..+. ++++|++|+|++|.+..+|.. +.++++|++|+|++|
T Consensus        15 ~~l~~~~n~l~~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~-~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N   91 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFD-HLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDN   91 (174)
T ss_dssp             SEEECCSSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTT-TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             cEEEeCCCCCCccCCCcC--CCCcEEEeCCCCccccCHHHhc-CCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCC
Confidence            566777777766666554  66777777777776553 3445 677777777777777666654 356777777777777


Q ss_pred             ccCCCCCCCcCCCCCcceecccc
Q 045113          599 TLPAHPGNYCGSLENLNFISALY  621 (821)
Q Consensus       599 ~~~~~~p~~i~~l~~L~~L~~~~  621 (821)
                      .+....+..+..+++|++|++.+
T Consensus        92 ~l~~l~~~~~~~l~~L~~L~L~~  114 (174)
T 2r9u_A           92 HLKSIPRGAFDNLKSLTHIYLYN  114 (174)
T ss_dssp             CCCCCCTTTTTTCTTCSEEECCS
T ss_pred             ccceeCHHHhccccCCCEEEeCC
Confidence            66432222344555555554444

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.88  E-value=2.7e-08  Score=109.16  Aligned_cols=239  Identities=14%  Similarity=0.158  Sum_probs=151.6

Q ss_pred             ccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccch-hhhccCccCce
Q 045113          515 EMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTA-DEFWKMKKLRH  592 (821)
Q Consensus       515 ~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp-~~i~~l~~L~~  592 (821)
                      ..+..++.+.+... ++.++ ..+.++ +|+.+.+..+ +..++.....+ .+|+.+.+.. .+..++ ..|.+|++|+.
T Consensus       110 ~~~~~l~~i~ip~~-i~~I~~~aF~~~-~L~~i~l~~~-i~~I~~~aF~~-~~L~~i~lp~-~l~~I~~~aF~~c~~L~~  184 (401)
T 4fdw_A          110 EILKGYNEIILPNS-VKSIPKDAFRNS-QIAKVVLNEG-LKSIGDMAFFN-STVQEIVFPS-TLEQLKEDIFYYCYNLKK  184 (401)
T ss_dssp             EECSSCSEEECCTT-CCEECTTTTTTC-CCSEEECCTT-CCEECTTTTTT-CCCCEEECCT-TCCEECSSTTTTCTTCCE
T ss_pred             EecCCccEEEECCc-cCEehHhhcccC-CccEEEeCCC-ccEECHHhcCC-CCceEEEeCC-CccEehHHHhhCcccCCe
Confidence            34455555555442 44443 234443 6777777654 66665544413 4677777765 455553 45667777777


Q ss_pred             eecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCC
Q 045113          593 LNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESK  672 (821)
Q Consensus       593 L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~  672 (821)
                      +++++|.+ ..++...                     +. +++|+.+.+..+-   ..--...+..+++|+.+.+..   
T Consensus       185 l~l~~n~l-~~I~~~a---------------------F~-~~~L~~l~lp~~l---~~I~~~aF~~~~~L~~l~l~~---  235 (401)
T 4fdw_A          185 ADLSKTKI-TKLPAST---------------------FV-YAGIEEVLLPVTL---KEIGSQAFLKTSQLKTIEIPE---  235 (401)
T ss_dssp             EECTTSCC-SEECTTT---------------------TT-TCCCSEEECCTTC---CEECTTTTTTCTTCCCEECCT---
T ss_pred             eecCCCcc-eEechhh---------------------Ee-ecccCEEEeCCch---heehhhHhhCCCCCCEEecCC---
Confidence            77766655 2233221                     22 3455555554321   000123677889999999863   


Q ss_pred             CCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCC----CeeeecCCCCcccceeeeccCC
Q 045113          673 MPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSG----RKLTCGSDGFPRLKVLHLKSML  748 (821)
Q Consensus       673 ~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~----~~~~~~~~~~~~L~~L~L~~~~  748 (821)
                        +++.+.-..+.. .+|+.+.|.++ +.......+.+|++|+.+.+.++....    ......+.++++|+.+.|.+  
T Consensus       236 --~l~~I~~~aF~~-~~L~~i~lp~~-i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~--  309 (401)
T 4fdw_A          236 --NVSTIGQEAFRE-SGITTVKLPNG-VTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPE--  309 (401)
T ss_dssp             --TCCEECTTTTTT-CCCSEEEEETT-CCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCT--
T ss_pred             --CccCcccccccc-CCccEEEeCCC-ccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCC--
Confidence              566665555666 78999999544 444456678899999999998765431    12233467789999999985  


Q ss_pred             Cccceee-ccccccccceeEEeecCCCCCCc-cccCCCCCCCEEEEeCCc
Q 045113          749 WLEEWTM-GTGAMPKLECLIINPCAYLKKMP-EQLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       749 ~l~~~~~-~~~~l~~L~~L~i~~c~~l~~lp-~~l~~l~~L~~L~l~~c~  796 (821)
                      .+..+.. .+..|++|+.|.|..+  ++.++ ..+.++ +|+.|.+.+..
T Consensus       310 ~i~~I~~~aF~~c~~L~~l~lp~~--l~~I~~~aF~~~-~L~~l~l~~n~  356 (401)
T 4fdw_A          310 SIRILGQGLLGGNRKVTQLTIPAN--VTQINFSAFNNT-GIKEVKVEGTT  356 (401)
T ss_dssp             TCCEECTTTTTTCCSCCEEEECTT--CCEECTTSSSSS-CCCEEEECCSS
T ss_pred             ceEEEhhhhhcCCCCccEEEECcc--ccEEcHHhCCCC-CCCEEEEcCCC
Confidence            4776654 4677899999999653  66664 467888 99999998753

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.87  E-value=7.8e-09  Score=110.70  Aligned_cols=221  Identities=10%  Similarity=0.028  Sum_probs=122.8

Q ss_pred             CCCceEEEeecCCCC-------ccc---------hhhhHHhhcc--------CCceeEEEeCCCCCCcccc-cccCCCCc
Q 045113          489 YPHLHSLLYFTSESD-------HLD---------HIDWQKICEM--------YKLLRVLDLGSLVLNQYPS-EIENLSLL  543 (821)
Q Consensus       489 ~~~LrsL~l~~~~~~-------~~~---------~~~~~~~~~~--------~~~Lr~L~L~~~~l~~lp~-~i~~l~~L  543 (821)
                      +++|++|.+.++...       ...         ..++..+|..        |++|+.|+|.+ .++.+++ .|..|++|
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~L~~l~L~~-~i~~I~~~aF~~~~~L  126 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQTLEKVILSE-KIKNIEDAAFKGCDNL  126 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTTCCC-CBCT-TCCEECTTTTTTCTTC
T ss_pred             hccCeEEecCcceeEEecCccccccccccccccccccCHHHhcccccccccccCCCcEEECCc-cccchhHHHhhcCccc
Confidence            566777777665543       000         1244567777        88888888888 7776664 57788888


Q ss_pred             eEEeecCCCCccccHHHHhccccceEEecCCcc----cccc-hhhhccCccCc--------------------------e
Q 045113          544 RYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSY----IDHT-ADEFWKMKKLR--------------------------H  592 (821)
Q Consensus       544 r~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~----l~~l-p~~i~~l~~L~--------------------------~  592 (821)
                      +.|+++.+.+..++......+.++..+.+....    ...+ +..+.++..|+                          .
T Consensus       127 ~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~L~~~i~~~~~~~l~~~~~~~~~~~~~~~~  206 (329)
T 3sb4_A          127 KICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETTIQVGAMGKLEDEIMKAGLQPRDINF  206 (329)
T ss_dssp             CEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCCCEEEEEECTTCCHHHHHHHTTCCGGGCSE
T ss_pred             ceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccccccccccccccccceeEEecCCCcHHHHHhhcccCccccce
Confidence            888888888776665544466677777665521    1111 11122222232                          2


Q ss_pred             eecCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcC-EEEeec
Q 045113          593 LNFGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLE-SLKLAN  669 (821)
Q Consensus       593 L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~-~L~l~~  669 (821)
                      +.+.++............+++|+.+++..+  ...+..++.+|++|+.|.+..+-   ..--...|..+++|+ .+.+..
T Consensus       207 l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~ni---~~I~~~aF~~~~~L~~~l~l~~  283 (329)
T 3sb4_A          207 LTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHNL---KTIGQRVFSNCGRLAGTLELPA  283 (329)
T ss_dssp             EEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTTC---CEECTTTTTTCTTCCEEEEECT
T ss_pred             EEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecHhhhhCCCCCCEEECCccc---ceehHHHhhCChhccEEEEEcc
Confidence            211111000000000012566777776663  34444447777777777776541   111123456667777 777752


Q ss_pred             CCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEE
Q 045113          670 ESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLK  718 (821)
Q Consensus       670 ~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~  718 (821)
                           +++.+.-..+..|++|+.|+++++.+.......+.++++|+.+.
T Consensus       284 -----~l~~I~~~aF~~c~~L~~l~l~~n~i~~I~~~aF~~~~~L~~ly  327 (329)
T 3sb4_A          284 -----SVTAIEFGAFMGCDNLRYVLATGDKITTLGDELFGNGVPSKLIY  327 (329)
T ss_dssp             -----TCCEECTTTTTTCTTEEEEEECSSCCCEECTTTTCTTCCCCEEE
T ss_pred             -----cceEEchhhhhCCccCCEEEeCCCccCccchhhhcCCcchhhhc
Confidence                 45555555566677777777766666554555666666666654

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.86  E-value=3.1e-09  Score=102.28  Aligned_cols=102  Identities=19%  Similarity=0.159  Sum_probs=83.6

Q ss_pred             eEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCCceEEeecCCCCccccHHHHhccccceEEe
Q 045113          493 HSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLD  571 (821)
Q Consensus       493 rsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~  571 (821)
                      +++.+.++....    ++..+   .+.|++|+|++|.++.+ |..++++++|++|+|++|.+..+|..+..++++|++|+
T Consensus        15 ~~l~~~~n~l~~----iP~~~---~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~   87 (174)
T 2r9u_A           15 TLVNCQNIRLAS----VPAGI---PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLD   87 (174)
T ss_dssp             SEEECCSSCCSS----CCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             cEEEeCCCCCCc----cCCCc---CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEE
Confidence            456666655442    22222   27899999999999977 56789999999999999999999987533899999999


Q ss_pred             cCCcccccchhh-hccCccCceeecCCcccC
Q 045113          572 MPFSYIDHTADE-FWKMKKLRHLNFGSITLP  601 (821)
Q Consensus       572 L~~~~l~~lp~~-i~~l~~L~~L~L~~~~~~  601 (821)
                      |++|.+..+|.. +..+++|++|++++|.+.
T Consensus        88 L~~N~l~~l~~~~~~~l~~L~~L~L~~N~~~  118 (174)
T 2r9u_A           88 LNDNHLKSIPRGAFDNLKSLTHIYLYNNPWD  118 (174)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCSEEECCSSCBC
T ss_pred             CCCCccceeCHHHhccccCCCEEEeCCCCcc
Confidence            999999999875 889999999999999884

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.82  E-value=5.5e-09  Score=100.14  Aligned_cols=104  Identities=19%  Similarity=0.163  Sum_probs=83.9

Q ss_pred             ceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcc-cccccCCCCceEEeecCCCCccccHHHHhccccceEE
Q 045113          492 LHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTL  570 (821)
Q Consensus       492 LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~l-p~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L  570 (821)
                      .+++.+.++....    ++..+   .+.|++|+|++|.++.+ |..+..+++|++|+|++|.+..+|......+++|++|
T Consensus        11 ~~~l~~s~n~l~~----ip~~~---~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L   83 (170)
T 3g39_A           11 GTTVDCSGKSLAS----VPTGI---PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQL   83 (170)
T ss_dssp             TTEEECTTSCCSS----CCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCEEEeCCCCcCc----cCccC---CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEE
Confidence            3456666655442    22222   37899999999999977 5678999999999999999999988753389999999


Q ss_pred             ecCCcccccchh-hhccCccCceeecCCcccCC
Q 045113          571 DMPFSYIDHTAD-EFWKMKKLRHLNFGSITLPA  602 (821)
Q Consensus       571 ~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~~~  602 (821)
                      +|++|.+..+|. .+.++++|++|++++|.+..
T Consensus        84 ~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~c  116 (170)
T 3g39_A           84 SLNDNQLKSIPRGAFDNLKSLTHIWLLNNPWDC  116 (170)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCBCT
T ss_pred             ECCCCccCEeCHHHhcCCCCCCEEEeCCCCCCC
Confidence            999999999976 48899999999999998854

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.80  E-value=3.4e-08  Score=108.03  Aligned_cols=256  Identities=14%  Similarity=0.099  Sum_probs=145.5

Q ss_pred             CCCeeechhhHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHHhcCccccccc---ceeEEEEcCCCCCHHHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEG--PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF---DCHAWVQEPYTCYADQILDI  240 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~--~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F---~~~~wv~~s~~~~~~~~~~~  240 (821)
                      ...++||+.+++.+.+++...  ......+.|+|++|+||||||+.+++  .....+   ...+|+.+....+...+...
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~--~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   96 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLS--KLHKKFLGKFKHVYINTRQIDTPYRVLAD   96 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHH--HHHHHTCSSCEEEEEEHHHHCSHHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHH--HHHHHhcCCceEEEEECCCCCCHHHHHHH
Confidence            367999999999999998752  33467899999999999999999998  444332   24677777666677788888


Q ss_pred             HHHHhCCch--------h-HHHHHHHhC--CCcEEEEEecCCCH------HHHHHHHHhCCC-CCCCcEEEEEecchhhh
Q 045113          241 IIKFLMPSS--------R-LIILHEYLM--TKRYLIVIDDVWSI------EVWDIIREILPD-NQNGSRVLITLAKIDTV  302 (821)
Q Consensus       241 i~~~l~~~~--------~-~~~l~~~l~--~kr~LlVlDdv~~~------~~~~~l~~~l~~-~~~gs~iiiTtr~~~v~  302 (821)
                      ++..++...        + ...+.+.+.  +++.+||+|+++..      ..+..+...+.. ...+..+|+||+.....
T Consensus        97 i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~  176 (386)
T 2qby_A           97 LLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFV  176 (386)
T ss_dssp             HTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGG
T ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChH
Confidence            877765421        1 344555553  45899999999642      233444333311 23356678888766432


Q ss_pred             -----cc---c-----ccccCCc----------------CCCCccchHHHHHHHcC---CchHHHHHhhccc--------
Q 045113          303 -----TL---F-----QFENGQN----------------IRLDLVPTGGPLRVTYQ---GWPFHILYHGSIS--------  342 (821)
Q Consensus       303 -----~l---f-----~~~~~~~----------------~~~~~~~~~~~i~~~c~---glPLai~~~g~~~--------  342 (821)
                           .+   |     .|..-..                ...--.+..+.+++.++   |.|..+..+....        
T Consensus       177 ~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~~  256 (386)
T 2qby_A          177 DLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMK  256 (386)
T ss_dssp             GGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             hhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcC
Confidence                 00   0     0110000                01111234556666676   8886433332110        


Q ss_pred             -ccccchhccccc-----hhHHHHhhhcCChhhHHHHhhcccCCC-C-ceechhhHHHHH----HHcCCCCCChHHHHHH
Q 045113          343 -LEENKREAIAKP-----IFLQSVAYCMLPFPLKLCCLYLPVFPA-H-LEISTRQLYQLW----IAEGFIPDNSEATAEK  410 (821)
Q Consensus       343 -~~~~~~~~i~~~-----~~~l~~sy~~L~~~~k~cfl~~s~Fp~-~-~~i~~~~Li~~W----~aeg~i~~~~~~~~~~  410 (821)
                       ..+. .+.+...     ...+.-++..||.+.+..+..++...+ + ..+...++.+.+    -..| +.+........
T Consensus       257 ~~~i~-~~~v~~a~~~~~~~~~~~~~~~l~~~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g-~~~~~~~~~~~  334 (386)
T 2qby_A          257 DTKVK-EEYVYMAKEEIERDRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLG-VEAVTQRRVSD  334 (386)
T ss_dssp             CSSCC-HHHHHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHT-CCCCCHHHHHH
T ss_pred             CCccC-HHHHHHHHHHHhhchHHHHHHcCCHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcC-CCCCCHHHHHH
Confidence             0111 1111100     034555677888887766665553211 2 224454443322    1223 22223345678


Q ss_pred             HHHHHHhCCceeeee
Q 045113          411 YLEQLINRGFVEVKK  425 (821)
Q Consensus       411 ~~~~L~~r~ll~~~~  425 (821)
                      +++.|...+++....
T Consensus       335 ~l~~L~~~gli~~~~  349 (386)
T 2qby_A          335 IINELDMVGILTAKV  349 (386)
T ss_dssp             HHHHHHHHTSEEEEE
T ss_pred             HHHHHHhCCCEEEEe
Confidence            899999999998754

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.72  E-value=1.1e-07  Score=104.59  Aligned_cols=280  Identities=13%  Similarity=0.041  Sum_probs=139.6

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccH--------
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPL--------  558 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~--------  558 (821)
                      .|.+|+++.+...-.     .+...+|.+|++|+.++|..+ ++.++ ..+..+..|+.+.+..+ +..+..        
T Consensus        69 ~c~~L~~i~lp~~i~-----~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~c~~L~~i~~p~~-l~~i~~~aF~~~~~  141 (394)
T 4fs7_A           69 GCRKVTEIKIPSTVR-----EIGEFAFENCSKLEIINIPDS-VKMIGRCTFSGCYALKSILLPLM-LKSIGVEAFKGCDF  141 (394)
T ss_dssp             TCTTEEEEECCTTCC-----EECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCCCCCCTT-CCEECTTTTTTCCC
T ss_pred             CCCCceEEEeCCCcc-----CcchhHhhCCCCCcEEEeCCC-ceEccchhhcccccchhhcccCc-eeeecceeeecccc
Confidence            677888887753321     244567888888888888654 44443 34555666665554332 111111        


Q ss_pred             ---------------HHHhccccceEEecCCcccccch-hhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC
Q 045113          559 ---------------SFFNYLLNLYTLDMPFSYIDHTA-DEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP  622 (821)
Q Consensus       559 ---------------~i~~~L~~L~~L~L~~~~l~~lp-~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~  622 (821)
                                     .+. ++.+|+.+.+..+ +..++ ..+.++.+|+.+++..+ +...-...+.++..|+.+.+..+
T Consensus       142 ~~~~~~~~~~~i~~~aF~-~c~~L~~i~l~~~-~~~I~~~~F~~c~~L~~i~l~~~-~~~I~~~~F~~~~~L~~i~~~~~  218 (394)
T 4fs7_A          142 KEITIPEGVTVIGDEAFA-TCESLEYVSLPDS-METLHNGLFSGCGKLKSIKLPRN-LKIIRDYCFAECILLENMEFPNS  218 (394)
T ss_dssp             SEEECCTTCCEECTTTTT-TCTTCCEEECCTT-CCEECTTTTTTCTTCCBCCCCTT-CCEECTTTTTTCTTCCBCCCCTT
T ss_pred             cccccCccccccchhhhc-ccCCCcEEecCCc-cceeccccccCCCCceEEEcCCC-ceEeCchhhccccccceeecCCC
Confidence                           122 4455555555433 22222 23444555555554433 11111122444444544443332


Q ss_pred             CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCC
Q 045113          623 CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMD  702 (821)
Q Consensus       623 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~  702 (821)
                      ............+|+.+.+...... .  -...+..+..|+.+.+..     ++..+.-..+..+.+++.+.+....+. 
T Consensus       219 ~~~i~~~~~~~~~l~~i~ip~~~~~-i--~~~~f~~~~~l~~~~~~~-----~~~~i~~~~F~~~~~l~~~~~~~~~i~-  289 (394)
T 4fs7_A          219 LYYLGDFALSKTGVKNIIIPDSFTE-L--GKSVFYGCTDLESISIQN-----NKLRIGGSLFYNCSGLKKVIYGSVIVP-  289 (394)
T ss_dssp             CCEECTTTTTTCCCCEEEECTTCCE-E--CSSTTTTCSSCCEEEECC-----TTCEECSCTTTTCTTCCEEEECSSEEC-
T ss_pred             ceEeehhhcccCCCceEEECCCcee-c--ccccccccccceeEEcCC-----CcceeeccccccccccceeccCceeec-
Confidence            1111111223345555544332100 0  011334455555555542     233333233556666666666544321 


Q ss_pred             CCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceee-ccccccccceeEEeecCCCCCCcc-c
Q 045113          703 DPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTM-GTGAMPKLECLIINPCAYLKKMPE-Q  780 (821)
Q Consensus       703 ~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~-~~~~l~~L~~L~i~~c~~l~~lp~-~  780 (821)
                        -..+..+.+|+.+.+..+ +.. .....+.++.+|+.+.|.+  .++.+.. .+..|++|+.+.+..+  ++.++. .
T Consensus       290 --~~~F~~~~~L~~i~l~~~-i~~-I~~~aF~~c~~L~~i~lp~--~v~~I~~~aF~~c~~L~~i~lp~~--l~~I~~~a  361 (394)
T 4fs7_A          290 --EKTFYGCSSLTEVKLLDS-VKF-IGEEAFESCTSLVSIDLPY--LVEEIGKRSFRGCTSLSNINFPLS--LRKIGANA  361 (394)
T ss_dssp             --TTTTTTCTTCCEEEECTT-CCE-ECTTTTTTCTTCCEECCCT--TCCEECTTTTTTCTTCCEECCCTT--CCEECTTT
T ss_pred             --cccccccccccccccccc-cce-echhhhcCCCCCCEEEeCC--cccEEhHHhccCCCCCCEEEECcc--ccEehHHH
Confidence              234566778888877632 211 1122355667788887754  3555532 4566778888877543  555543 5


Q ss_pred             cCCCCCCCEEEEeC
Q 045113          781 LWCIKSLNNFNCWW  794 (821)
Q Consensus       781 l~~l~~L~~L~l~~  794 (821)
                      +.+|++|+.+.+..
T Consensus       362 F~~C~~L~~i~lp~  375 (394)
T 4fs7_A          362 FQGCINLKKVELPK  375 (394)
T ss_dssp             BTTCTTCCEEEEEG
T ss_pred             hhCCCCCCEEEECC
Confidence            77788888888754

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=98.63  E-value=1.5e-07  Score=95.57  Aligned_cols=124  Identities=15%  Similarity=0.099  Sum_probs=76.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccc-------------------cceeEEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHY-------------------FDCHAWVQ  227 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~-------------------F~~~~wv~  227 (821)
                      .+++||+..++.+..++..+. ....+.|+|.+|+||||||+.+++.......                   +...+.+.
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~-~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEID  101 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTC-CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSSEEEEE
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcceEEec
Confidence            469999999999999997653 2358899999999999999999873211111                   01112222


Q ss_pred             cCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          228 EPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       228 ~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      ....... .....++..+...        ...+++.+||+||++.  ...++.+...+.....+..+|+||+...
T Consensus       102 ~~~~~~~-~~~~~~~~~~~~~--------~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~  167 (250)
T 1njg_A          102 AASRTKV-EDTRDLLDNVQYA--------PARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  167 (250)
T ss_dssp             TTCGGGH-HHHHHHHHSCCCS--------CSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGG
T ss_pred             CcccccH-HHHHHHHHHhhhc--------hhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChH
Confidence            2211111 1112222221110        0235789999999964  5667777776665566788999987654

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.61  E-value=1.1e-08  Score=111.27  Aligned_cols=41  Identities=22%  Similarity=0.169  Sum_probs=24.4

Q ss_pred             cCCCCCCCeEEEeccccc--chhHHHHHccCCCCcCEEEeecC
Q 045113          630 LGRLPNLRNLRIQGDLSY--NQSLLSKSLCRLSCLESLKLANE  670 (821)
Q Consensus       630 l~~l~~L~~L~l~~~~~~--~~~~l~~~l~~~~~L~~L~l~~~  670 (821)
                      +..+++|+.|++++|.-.  ....++..+...++|++|+|++|
T Consensus       207 L~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N  249 (372)
T 3un9_A          207 LDRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLHLYFN  249 (372)
T ss_dssp             GGGCSCCCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEECTTS
T ss_pred             HhcCCCcCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEeccCC
Confidence            555667777777776411  12245555556677777777754

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.57  E-value=1.1e-08  Score=111.20  Aligned_cols=172  Identities=16%  Similarity=0.121  Sum_probs=110.0

Q ss_pred             CCceeEEEeCCCCCCc-----cccccc-CCCCceEEeecCCCCcc-ccHHHHhccccceEEecCCcccccch-----hhh
Q 045113          517 YKLLRVLDLGSLVLNQ-----YPSEIE-NLSLLRYLKLNIPSLKS-LPLSFFNYLLNLYTLDMPFSYIDHTA-----DEF  584 (821)
Q Consensus       517 ~~~Lr~L~L~~~~l~~-----lp~~i~-~l~~Lr~L~L~~~~i~~-lp~~i~~~L~~L~~L~L~~~~l~~lp-----~~i  584 (821)
                      ++.|+.|+|++|.++.     +...+. +..+|++|+|++|.+.. -...+...+.+|+.|+|++|.+....     ..+
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L  150 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLL  150 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHH
Confidence            5678899999998872     233333 23689999999998862 22334336778899999999775442     222


Q ss_pred             -ccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEeccccc--chhHHHHHccCCCC
Q 045113          585 -WKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSY--NQSLLSKSLCRLSC  661 (821)
Q Consensus       585 -~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~--~~~~l~~~l~~~~~  661 (821)
                       ...++|++|+|++|.+...-..                 ..... +..+++|+.|++++|.-.  ....++..+...++
T Consensus       151 ~~~~~~L~~L~Ls~n~l~~~~~~-----------------~l~~~-L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~  212 (372)
T 3un9_A          151 LHDQCQITTLRLSNNPLTAAGVA-----------------VLMEG-LAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQ  212 (372)
T ss_dssp             HSTTCCCCEEECCSSCCHHHHHH-----------------HHHHH-HHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSC
T ss_pred             HhcCCccceeeCCCCCCChHHHH-----------------HHHHH-HhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCC
Confidence             2467788888888876321100                 01112 566778888888887411  22355677788889


Q ss_pred             cCEEEeecCCCCCCCCeeEec----ccCCCCCcceEEEecccCCCCCcccccC
Q 045113          662 LESLKLANESKMPRLSKIILA----EYVFPHSLTHLSFSNTDLMDDPMPALEK  710 (821)
Q Consensus       662 L~~L~l~~~~~~~~L~~l~l~----~~~~~~~L~~L~L~~~~l~~~~~~~l~~  710 (821)
                      |+.|+|++|    .+......    .+..+++|+.|+|++|.+++.....+..
T Consensus       213 L~~L~Ls~N----~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~i~~~g~~~L~~  261 (372)
T 3un9_A          213 LQELNVAYN----GAGDTAALALARAAREHPSLELLHLYFNELSSEGRQVLRD  261 (372)
T ss_dssp             CCEEECCSS----CCCHHHHHHHHHHHHHCSSCCEEECTTSSCCHHHHHHHHH
T ss_pred             cCeEECCCC----CCCHHHHHHHHHHHHhCCCCCEEeccCCCCCHHHHHHHHH
Confidence            999999865    34322111    1345688999999999886554444443

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=98.54  E-value=1.1e-07  Score=102.39  Aligned_cols=86  Identities=17%  Similarity=0.198  Sum_probs=44.1

Q ss_pred             hccCCceeEEEeCC-CCCCccc-ccccCCCCceEEeecCCCCccccHH-HHhccccceEEecCCcccccchhhhccCccC
Q 045113          514 CEMYKLLRVLDLGS-LVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLS-FFNYLLNLYTLDMPFSYIDHTADEFWKMKKL  590 (821)
Q Consensus       514 ~~~~~~Lr~L~L~~-~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~-i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L  590 (821)
                      +..+++|+.|+|++ |.++.+| ..|+.|++|++|+|++|.+..+|+. +. +|++|+.|+|++|.+..+|..+.....|
T Consensus        27 l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~-~l~~L~~L~l~~N~l~~~~~~~~~~~~L  105 (347)
T 2ifg_A           27 LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFH-FTPRLSRLNLSFNALESLSWKTVQGLSL  105 (347)
T ss_dssp             SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGG-SCSCCCEEECCSSCCSCCCSTTTCSCCC
T ss_pred             CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhc-CCcCCCEEeCCCCccceeCHHHcccCCc
Confidence            45555555555553 5555444 3455555555555555555544432 33 5555555555555555554433332235


Q ss_pred             ceeecCCccc
Q 045113          591 RHLNFGSITL  600 (821)
Q Consensus       591 ~~L~L~~~~~  600 (821)
                      +.|+|.+|.+
T Consensus       106 ~~l~l~~N~~  115 (347)
T 2ifg_A          106 QELVLSGNPL  115 (347)
T ss_dssp             CEEECCSSCC
T ss_pred             eEEEeeCCCc
Confidence            5555555554

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.51  E-value=9.7e-07  Score=96.87  Aligned_cols=263  Identities=12%  Similarity=0.061  Sum_probs=154.3

Q ss_pred             hhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccc-------
Q 045113          509 DWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHT-------  580 (821)
Q Consensus       509 ~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~l-------  580 (821)
                      +-..+|..|.+|+.+.|.. .++.++ ..+.+|.+|+.+++..+ +..++......+.+|+.+.+..+ +..+       
T Consensus        62 Ig~~AF~~c~~L~~i~lp~-~i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~c~~L~~i~~p~~-l~~i~~~aF~~  138 (394)
T 4fs7_A           62 IGYAAFQGCRKVTEIKIPS-TVREIGEFAFENCSKLEIINIPDS-VKMIGRCTFSGCYALKSILLPLM-LKSIGVEAFKG  138 (394)
T ss_dssp             ECTTTTTTCTTEEEEECCT-TCCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCCCCCCTT-CCEECTTTTTT
T ss_pred             hHHHHhhCCCCceEEEeCC-CccCcchhHhhCCCCCcEEEeCCC-ceEccchhhcccccchhhcccCc-eeeecceeeec
Confidence            3457899999999999975 477665 46889999999999764 66666554447788887766543 1111       


Q ss_pred             ----------------hhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEec
Q 045113          581 ----------------ADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQG  643 (821)
Q Consensus       581 ----------------p~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~  643 (821)
                                      ...+.++++|+.+.+..+.. ..-...+..+.+|+.+.+..+ ......++.++..|+.+.+..
T Consensus       139 ~~~~~~~~~~~~~~i~~~aF~~c~~L~~i~l~~~~~-~I~~~~F~~c~~L~~i~l~~~~~~I~~~~F~~~~~L~~i~~~~  217 (394)
T 4fs7_A          139 CDFKEITIPEGVTVIGDEAFATCESLEYVSLPDSME-TLHNGLFSGCGKLKSIKLPRNLKIIRDYCFAECILLENMEFPN  217 (394)
T ss_dssp             CCCSEEECCTTCCEECTTTTTTCTTCCEEECCTTCC-EECTTTTTTCTTCCBCCCCTTCCEECTTTTTTCTTCCBCCCCT
T ss_pred             ccccccccCccccccchhhhcccCCCcEEecCCccc-eeccccccCCCCceEEEcCCCceEeCchhhccccccceeecCC
Confidence                            11234455555555543221 111122444555555544332 112222244455555444333


Q ss_pred             ccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccc
Q 045113          644 DLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNS  723 (821)
Q Consensus       644 ~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~  723 (821)
                      ....    +.........|+.+.+..     .+..+.-..+..+.+|+.+.+..+.. ......+..++.|+.+.+....
T Consensus       218 ~~~~----i~~~~~~~~~l~~i~ip~-----~~~~i~~~~f~~~~~l~~~~~~~~~~-~i~~~~F~~~~~l~~~~~~~~~  287 (394)
T 4fs7_A          218 SLYY----LGDFALSKTGVKNIIIPD-----SFTELGKSVFYGCTDLESISIQNNKL-RIGGSLFYNCSGLKKVIYGSVI  287 (394)
T ss_dssp             TCCE----ECTTTTTTCCCCEEEECT-----TCCEECSSTTTTCSSCCEEEECCTTC-EECSCTTTTCTTCCEEEECSSE
T ss_pred             CceE----eehhhcccCCCceEEECC-----CceecccccccccccceeEEcCCCcc-eeeccccccccccceeccCcee
Confidence            2100    001112234555555432     33333333367788899888876642 2334566788888888776332


Q ss_pred             cCCCeeeecCCCCcccceeeeccCCCccceee-ccccccccceeEEeecCCCCCCcc-ccCCCCCCCEEEEe
Q 045113          724 YSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTM-GTGAMPKLECLIINPCAYLKKMPE-QLWCIKSLNNFNCW  793 (821)
Q Consensus       724 ~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~-~~~~l~~L~~L~i~~c~~l~~lp~-~l~~l~~L~~L~l~  793 (821)
                      +.    ...+..+.+|+.+.+.+  .+..+.. .+..+++|+.+.|.+  .++.++. .+.+|.+|+.+.+.
T Consensus       288 i~----~~~F~~~~~L~~i~l~~--~i~~I~~~aF~~c~~L~~i~lp~--~v~~I~~~aF~~c~~L~~i~lp  351 (394)
T 4fs7_A          288 VP----EKTFYGCSSLTEVKLLD--SVKFIGEEAFESCTSLVSIDLPY--LVEEIGKRSFRGCTSLSNINFP  351 (394)
T ss_dssp             EC----TTTTTTCTTCCEEEECT--TCCEECTTTTTTCTTCCEECCCT--TCCEECTTTTTTCTTCCEECCC
T ss_pred             ec----ccccccccccccccccc--ccceechhhhcCCCCCCEEEeCC--cccEEhHHhccCCCCCCEEEEC
Confidence            22    22356788999999975  4666643 467789999999863  3566643 67889999999874

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=98.46  E-value=7.5e-07  Score=88.90  Aligned_cols=123  Identities=13%  Similarity=0.113  Sum_probs=80.0

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc-ccc-eeEEEEcCCCCCHHHHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH-YFD-CHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~-~F~-~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      .+++|++..++.+.+++....  ...+.|+|.+|+||||+|+.+++  +... .+. ..+.+..+...+...+...+...
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKN--IPHLLFSGPPGTGKTATAIALAR--DLFGENWRDNFIEMNASDERGIDVVRHKIKEF   92 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC--CCCEEEECSTTSSHHHHHHHHHH--HHHGGGGGGGEEEEETTCTTCHHHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHH--HHhccccccceEEeccccccChHHHHHHHHHH
Confidence            468999999999999998764  33489999999999999999987  3322 222 34445555555544433322211


Q ss_pred             hCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          245 LMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       245 l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      ....       ..-..++.+||+||++..  ..++.+...+.....+.++|+||+...
T Consensus        93 ~~~~-------~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  143 (226)
T 2chg_A           93 ARTA-------PIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVS  143 (226)
T ss_dssp             HTSC-------CSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGG
T ss_pred             hccc-------CCCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChh
Confidence            1100       011357899999999753  455566555554456788999987654

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=98.44  E-value=2.5e-07  Score=99.67  Aligned_cols=98  Identities=19%  Similarity=0.091  Sum_probs=77.6

Q ss_pred             EEEeCCC-CCCcccccccCCCCceEEeecC-CCCccccH-HHHhccccceEEecCCcccccchh-hhccCccCceeecCC
Q 045113          522 VLDLGSL-VLNQYPSEIENLSLLRYLKLNI-PSLKSLPL-SFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGS  597 (821)
Q Consensus       522 ~L~L~~~-~l~~lp~~i~~l~~Lr~L~L~~-~~i~~lp~-~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~  597 (821)
                      .++++++ .++.+|. +..+++|++|+|++ |.+..+|. .+. .|++|+.|+|++|.+..+|+ .|.+|++|++|+|++
T Consensus        12 ~v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~-~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~   89 (347)
T 2ifg_A           12 GLRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLR-GLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSF   89 (347)
T ss_dssp             CEECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSC-SCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCS
T ss_pred             EEEcCCCCCCCccCC-CCCCCCeeEEEccCCCCCCCcChhHhc-cccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCC
Confidence            4588887 7888888 88899999999986 88888774 466 89999999999998888854 678899999999999


Q ss_pred             cccCCCCCCCcCCCCCcceeccccC
Q 045113          598 ITLPAHPGNYCGSLENLNFISALYP  622 (821)
Q Consensus       598 ~~~~~~~p~~i~~l~~L~~L~~~~~  622 (821)
                      |.+....+..+..+. |+.|++..|
T Consensus        90 N~l~~~~~~~~~~~~-L~~l~l~~N  113 (347)
T 2ifg_A           90 NALESLSWKTVQGLS-LQELVLSGN  113 (347)
T ss_dssp             SCCSCCCSTTTCSCC-CCEEECCSS
T ss_pred             CccceeCHHHcccCC-ceEEEeeCC
Confidence            988543334444454 888888774

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.35  E-value=9.2e-08  Score=103.02  Aligned_cols=145  Identities=23%  Similarity=0.288  Sum_probs=90.4

Q ss_pred             HHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCccccc--CCCCCCEEEEec--cccCCC
Q 045113          652 LSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALE--KLPLLQVLKLKQ--NSYSGR  727 (821)
Q Consensus       652 l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~--~l~~L~~L~L~~--~~~~~~  727 (821)
                      +...+..+++|+.|+|+++.   .+   .+..+ .+++|++|+|..|.+.......+.  .+|+|+.|+|+.  +...+.
T Consensus       164 L~~ll~~~P~L~~L~L~g~~---~l---~l~~~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~  236 (362)
T 2ra8_A          164 LSPVLDAMPLLNNLKIKGTN---NL---SIGKK-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFD  236 (362)
T ss_dssp             CHHHHHTCTTCCEEEEECCB---TC---BCCSC-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCC
T ss_pred             HHHHHhcCCCCcEEEEeCCC---Cc---eeccc-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccc
Confidence            44555667788888887421   11   11222 267899999988887655555554  789999999863  222221


Q ss_pred             e-e-----eecCCCCcccceeeeccCCCcccee---eccccccccceeEEeecCCCCC-----CccccCCCCCCCEEEEe
Q 045113          728 K-L-----TCGSDGFPRLKVLHLKSMLWLEEWT---MGTGAMPKLECLIINPCAYLKK-----MPEQLWCIKSLNNFNCW  793 (821)
Q Consensus       728 ~-~-----~~~~~~~~~L~~L~L~~~~~l~~~~---~~~~~l~~L~~L~i~~c~~l~~-----lp~~l~~l~~L~~L~l~  793 (821)
                      . .     ......||+|++|.|.+|.......   .....+|+|++|+++.|. +..     ++.++.++++|+.|+++
T Consensus       237 ~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~-L~d~G~~~L~~~L~~l~~L~~L~L~  315 (362)
T 2ra8_A          237 GDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGV-LTDEGARLLLDHVDKIKHLKFINMK  315 (362)
T ss_dssp             SCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSC-CBHHHHHHHHTTHHHHTTCSEEECC
T ss_pred             hhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCC-CChHHHHHHHhhcccCCcceEEECC
Confidence            1 1     1222468999999998875433221   122468999999998765 432     45556678899999998


Q ss_pred             CCc--HHHHHHHh
Q 045113          794 WPQ--PELRQKLR  804 (821)
Q Consensus       794 ~c~--~~~~~~~~  804 (821)
                      +|.  .+..+.+.
T Consensus       316 ~n~i~d~~~~~l~  328 (362)
T 2ra8_A          316 YNYLSDEMKKELQ  328 (362)
T ss_dssp             SBBCCHHHHHHHH
T ss_pred             CCcCCHHHHHHHH
Confidence            886  34444443

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.31  E-value=1.5e-07  Score=101.29  Aligned_cols=106  Identities=14%  Similarity=0.083  Sum_probs=54.1

Q ss_pred             CCCCceEEEeecCCCC-ccc---hhhhHHhhccCCceeEEEeCCCCCC----------cccccccCCCCceEEeecCCCC
Q 045113          488 YYPHLHSLLYFTSESD-HLD---HIDWQKICEMYKLLRVLDLGSLVLN----------QYPSEIENLSLLRYLKLNIPSL  553 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~-~~~---~~~~~~~~~~~~~Lr~L~L~~~~l~----------~lp~~i~~l~~Lr~L~L~~~~i  553 (821)
                      ....++.|.+-..... ...   ...+.....++++|+.|.+......          .++..+..+++|+.|+|+++.-
T Consensus       105 ~~~~v~~L~lg~~~~~~~~~~~~~~~L~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~  184 (362)
T 2ra8_A          105 KLPSLKQITIGXWGYEGEDCSDIADGIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNN  184 (362)
T ss_dssp             TGGGCSEEEECCCCSSSCCSHHHHHHHHTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBT
T ss_pred             CchhcceEEEcccccCCCcHHHHHHHHHHhhhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCC
Confidence            4456677766533221 000   0112233456778888887654321          2334445566777777766532


Q ss_pred             ccccHHHHhccccceEEecCCcccccc-hhhhc--cCccCceeecC
Q 045113          554 KSLPLSFFNYLLNLYTLDMPFSYIDHT-ADEFW--KMKKLRHLNFG  596 (821)
Q Consensus       554 ~~lp~~i~~~L~~L~~L~L~~~~l~~l-p~~i~--~l~~L~~L~L~  596 (821)
                      ..++. +  .+++|++|+|..|.+..- ...+.  .+|+|++|+|+
T Consensus       185 l~l~~-~--~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~  227 (362)
T 2ra8_A          185 LSIGK-K--PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLY  227 (362)
T ss_dssp             CBCCS-C--BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEE
T ss_pred             ceecc-c--cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEe
Confidence            23443 2  466677777766644321 12222  56677777664

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.30  E-value=5.7e-07  Score=95.83  Aligned_cols=89  Identities=16%  Similarity=0.183  Sum_probs=57.1

Q ss_pred             CCCeeechhhHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEG---PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIII  242 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~---~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  242 (821)
                      -..++|++..++.+..++...   ......+.|+|.+|+||||+|+.+++  .....   .+++..+......++...  
T Consensus        11 ~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~--~~~~~---~~~~~~~~~~~~~~l~~~--   83 (324)
T 1hqc_A           11 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAH--ELGVN---LRVTSGPAIEKPGDLAAI--   83 (324)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHH--HHTCC---EEEECTTTCCSHHHHHHH--
T ss_pred             HHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHH--HhCCC---EEEEeccccCChHHHHHH--
Confidence            356999999999988888631   22346788999999999999999987  33322   234444433333222211  


Q ss_pred             HHhCCchhHHHHHHHhCCCcEEEEEecCCCH
Q 045113          243 KFLMPSSRLIILHEYLMTKRYLIVIDDVWSI  273 (821)
Q Consensus       243 ~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~  273 (821)
                        +.         .. ..+..+|++|++...
T Consensus        84 --l~---------~~-~~~~~~l~lDEi~~l  102 (324)
T 1hqc_A           84 --LA---------NS-LEEGDILFIDEIHRL  102 (324)
T ss_dssp             --HT---------TT-CCTTCEEEETTTTSC
T ss_pred             --HH---------Hh-ccCCCEEEEECCccc
Confidence              11         00 135679999999753

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.26  E-value=1.4e-06  Score=92.57  Aligned_cols=123  Identities=15%  Similarity=0.146  Sum_probs=78.0

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc-ccc-eeEEEEcCCCCCHHHHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH-YFD-CHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~-~F~-~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      .+++|++..++.+..++..+.  ...+.++|.+|+||||+|+.+++  .... .+. ..+++..+...+...+. +++..
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~--~l~~~~~~~~~~~~~~~~~~~~~~i~-~~~~~   95 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAH--ELLGRSYADGVLELNASDDRGIDVVR-NQIKH   95 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHH--HHHGGGHHHHEEEECTTSCCSHHHHH-THHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHH--HhcCCcccCCEEEecCccccChHHHH-HHHHH
Confidence            468999999999999998764  33389999999999999999987  3321 222 34555555544443332 22211


Q ss_pred             hCCchhHHHHHHHh-CCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          245 LMPSSRLIILHEYL-MTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       245 l~~~~~~~~l~~~l-~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      +...      ...+ .+++.++|+||++.  ...++.+...+.....++++|+||+...
T Consensus        96 ~~~~------~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~  148 (323)
T 1sxj_B           96 FAQK------KLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSN  148 (323)
T ss_dssp             HHHB------CCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGG
T ss_pred             HHhc------cccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChh
Confidence            1000      0012 35689999999975  3455555555544455788888887643

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.16  E-value=1.6e-06  Score=83.99  Aligned_cols=110  Identities=12%  Similarity=0.091  Sum_probs=53.3

Q ss_pred             HHhhccCCceeEEEeCCC-CCC-----cccccccCCCCceEEeecCCCCc-----cccHHHHhccccceEEecCCccccc
Q 045113          511 QKICEMYKLLRVLDLGSL-VLN-----QYPSEIENLSLLRYLKLNIPSLK-----SLPLSFFNYLLNLYTLDMPFSYIDH  579 (821)
Q Consensus       511 ~~~~~~~~~Lr~L~L~~~-~l~-----~lp~~i~~l~~Lr~L~L~~~~i~-----~lp~~i~~~L~~L~~L~L~~~~l~~  579 (821)
                      ..++...+.|+.|+|++| .+.     .+...+...++|++|+|++|.+.     .+...+. ..++|++|+|++|.+..
T Consensus        29 ~~~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~-~n~~L~~L~L~~N~i~~  107 (185)
T 1io0_A           29 KRIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLK-VNNTLKSLNVESNFISG  107 (185)
T ss_dssp             HHHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHH-HCSSCCEEECCSSCCCH
T ss_pred             HHHHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHH-hCCCcCEEECcCCcCCH
Confidence            344555555555555555 443     23344444555555555555554     1333333 44555555555554432


Q ss_pred             -----chhhhccCccCceeec--CCcccCCC----CCCCcCCCCCcceecccc
Q 045113          580 -----TADEFWKMKKLRHLNF--GSITLPAH----PGNYCGSLENLNFISALY  621 (821)
Q Consensus       580 -----lp~~i~~l~~L~~L~L--~~~~~~~~----~p~~i~~l~~L~~L~~~~  621 (821)
                           +...+...+.|++|+|  ++|.+...    +...+...++|++|++..
T Consensus       108 ~g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~  160 (185)
T 1io0_A          108 SGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHF  160 (185)
T ss_dssp             HHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCC
T ss_pred             HHHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccC
Confidence                 3344445555555555  44554321    222233445555555544

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.13  E-value=6.1e-05  Score=82.37  Aligned_cols=289  Identities=12%  Similarity=0.032  Sum_probs=169.7

Q ss_pred             CCC-CceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCC---CCccc-ccccCCCCceEEeecCCCCccccHHHHh
Q 045113          488 YYP-HLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLV---LNQYP-SEIENLSLLRYLKLNIPSLKSLPLSFFN  562 (821)
Q Consensus       488 ~~~-~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~---l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~i~~  562 (821)
                      .+. .|+++.+...-.     .+-..+|.+|.+|+.+.+..+.   ++.++ ..+..+..|+.+.+..+ +..++.....
T Consensus        61 ~~~~~L~sI~iP~svt-----~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~~aF~  134 (394)
T 4gt6_A           61 NYKYVLTSVQIPDTVT-----EIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS-VTEIDSEAFH  134 (394)
T ss_dssp             TCCSCCCEEEECTTCC-----EECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT-CSEECTTTTT
T ss_pred             CCCCcCEEEEECCCee-----EEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc-cceehhhhhh
Confidence            453 588888864422     2456788999999999987653   55554 45677888887777653 5555544433


Q ss_pred             ccccceEEecCCcccccc-hhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC-CcchhhhcCCCCCCCeEE
Q 045113          563 YLLNLYTLDMPFSYIDHT-ADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLR  640 (821)
Q Consensus       563 ~L~~L~~L~L~~~~l~~l-p~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~  640 (821)
                      .+.+|+.+.+..+ +..+ ...+..+.+|+.+.+..+-  ..+....-...+|+.+.+..+ ...-..++..+.+|....
T Consensus       135 ~c~~L~~i~lp~~-~~~I~~~~F~~c~~L~~i~~~~~~--~~I~~~aF~~~~l~~i~ip~~~~~i~~~af~~c~~l~~~~  211 (394)
T 4gt6_A          135 HCEELDTVTIPEG-VTSVADGMFSYCYSLHTVTLPDSV--TAIEERAFTGTALTQIHIPAKVTRIGTNAFSECFALSTIT  211 (394)
T ss_dssp             TCTTCCEEECCTT-CCEECTTTTTTCTTCCEEECCTTC--CEECTTTTTTCCCSEEEECTTCCEECTTTTTTCTTCCEEE
T ss_pred             hhcccccccccce-eeeecccceeccccccccccccee--eEeccccccccceeEEEECCcccccccchhhhccccceec
Confidence            7888999888654 3334 3356778888888776542  222222112345666655442 222222266677777665


Q ss_pred             EecccccchhHHH-----------HHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCccccc
Q 045113          641 IQGDLSYNQSLLS-----------KSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALE  709 (821)
Q Consensus       641 l~~~~~~~~~~l~-----------~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~  709 (821)
                      .............           ........+..+.+     +..++.+.-..+..+.+|+.+.+.... .......+.
T Consensus       212 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i-----p~~v~~i~~~aF~~c~~L~~i~lp~~~-~~I~~~aF~  285 (394)
T 4gt6_A          212 SDSESYPAIDNVLYEKSANGDYALIRYPSQREDPAFKI-----PNGVARIETHAFDSCAYLASVKMPDSV-VSIGTGAFM  285 (394)
T ss_dssp             ECCSSSCBSSSCEEEECTTSCEEEEECCTTCCCSEEEC-----CTTEEEECTTTTTTCSSCCEEECCTTC-CEECTTTTT
T ss_pred             ccccccccccceeecccccccccccccccccccceEEc-----CCcceEcccceeeecccccEEeccccc-ceecCcccc
Confidence            5433100000000           00001112222222     123333333337778888888886553 223344567


Q ss_pred             CCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceee-ccccccccceeEEeecCCCCCCcc-ccCCCCCC
Q 045113          710 KLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTM-GTGAMPKLECLIINPCAYLKKMPE-QLWCIKSL  787 (821)
Q Consensus       710 ~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~-~~~~l~~L~~L~i~~c~~l~~lp~-~l~~l~~L  787 (821)
                      ++++|+.+.+. +.+.. .....+.++.+|+.+.|..  .++.+.. .+..|.+|+.+.|..  .++.++. .+.+|++|
T Consensus       286 ~c~~L~~i~l~-~~i~~-I~~~aF~~c~~L~~i~lp~--~v~~I~~~aF~~C~~L~~i~ip~--sv~~I~~~aF~~C~~L  359 (394)
T 4gt6_A          286 NCPALQDIEFS-SRITE-LPESVFAGCISLKSIDIPE--GITQILDDAFAGCEQLERIAIPS--SVTKIPESAFSNCTAL  359 (394)
T ss_dssp             TCTTCCEEECC-TTCCE-ECTTTTTTCTTCCEEECCT--TCCEECTTTTTTCTTCCEEEECT--TCCBCCGGGGTTCTTC
T ss_pred             cccccccccCC-Ccccc-cCceeecCCCCcCEEEeCC--cccEehHhHhhCCCCCCEEEECc--ccCEEhHhHhhCCCCC
Confidence            88899999886 33221 2223456778899999875  3666643 467789999999864  3566654 68899999


Q ss_pred             CEEEEeCCcH
Q 045113          788 NNFNCWWPQP  797 (821)
Q Consensus       788 ~~L~l~~c~~  797 (821)
                      +.+.+.+...
T Consensus       360 ~~i~~~~~~~  369 (394)
T 4gt6_A          360 NNIEYSGSRS  369 (394)
T ss_dssp             CEEEESSCHH
T ss_pred             CEEEECCcee
Confidence            9999988763

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.11  E-value=1.3e-06  Score=82.67  Aligned_cols=87  Identities=11%  Similarity=0.089  Sum_probs=43.7

Q ss_pred             CcceEEEecccCCCCCcccccCCCCCCEEEEeccc-cCCCeeeecCC---CCcccceeeeccCCCccce-eecccccccc
Q 045113          689 SLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNS-YSGRKLTCGSD---GFPRLKVLHLKSMLWLEEW-TMGTGAMPKL  763 (821)
Q Consensus       689 ~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~-~~~~~~~~~~~---~~~~L~~L~L~~~~~l~~~-~~~~~~l~~L  763 (821)
                      +|+.|++++|.+++..+..+.++++|+.|+|++|. +++..+.....   ..++|++|+|++|+.++.- ...+..+++|
T Consensus        62 ~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~~L  141 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRNL  141 (176)
T ss_dssp             CEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCTTC
T ss_pred             eEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCCCC
Confidence            56666677766665555566666666666666554 22222111111   1234555555555544421 1123345555


Q ss_pred             ceeEEeecCCCC
Q 045113          764 ECLIINPCAYLK  775 (821)
Q Consensus       764 ~~L~i~~c~~l~  775 (821)
                      ++|++++|+.++
T Consensus       142 ~~L~L~~c~~It  153 (176)
T 3e4g_A          142 KYLFLSDLPGVK  153 (176)
T ss_dssp             CEEEEESCTTCC
T ss_pred             CEEECCCCCCCC
Confidence            555555555544

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.06  E-value=2.2e-06  Score=83.08  Aligned_cols=112  Identities=10%  Similarity=0.022  Sum_probs=77.5

Q ss_pred             CCCCceEEEeecC-CCCccchhhhHHhhccCCceeEEEeCCCCCC-----cccccccCCCCceEEeecCCCCcc-----c
Q 045113          488 YYPHLHSLLYFTS-ESDHLDHIDWQKICEMYKLLRVLDLGSLVLN-----QYPSEIENLSLLRYLKLNIPSLKS-----L  556 (821)
Q Consensus       488 ~~~~LrsL~l~~~-~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~-----~lp~~i~~l~~Lr~L~L~~~~i~~-----l  556 (821)
                      ..+.|++|.+.++ .........+...+...+.|++|+|++|.+.     .+...+...+.|++|+|++|.|..     +
T Consensus        34 ~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~l  113 (185)
T 1io0_A           34 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILAL  113 (185)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHH
T ss_pred             cCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHHH
Confidence            5778888888877 5543222344556677788888888888876     244556666778888888888763     4


Q ss_pred             cHHHHhccccceEEec--CCccccc-----chhhhccCccCceeecCCccc
Q 045113          557 PLSFFNYLLNLYTLDM--PFSYIDH-----TADEFWKMKKLRHLNFGSITL  600 (821)
Q Consensus       557 p~~i~~~L~~L~~L~L--~~~~l~~-----lp~~i~~l~~L~~L~L~~~~~  600 (821)
                      ...+. ..++|++|+|  ++|.+..     +...+...+.|++|++++|.+
T Consensus       114 ~~~L~-~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          114 VEALQ-SNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             HHGGG-GCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             HHHHH-hCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCC
Confidence            55555 6677888888  6676543     445566677888888888766

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.99  E-value=8.8e-06  Score=78.86  Aligned_cols=44  Identities=16%  Similarity=0.283  Sum_probs=38.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++||++.++++.+.+....  ...+.|+|.+|+||||+|+.+.+
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~~~~   65 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSCHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcCC--CCceEEECCCCCCHHHHHHHHHH
Confidence            468999999999999997754  55678999999999999999987

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=97.98  E-value=9.2e-06  Score=86.38  Aligned_cols=120  Identities=12%  Similarity=0.101  Sum_probs=76.1

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc-ccc-eeEEEEcCCCCCHHHHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH-YFD-CHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~-~F~-~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      .+++|++..++.+..++..+.  ...+.++|.+|+||||+|+.+++  .+.. .+. ..+.+..+...+...+...+   
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~la~~l~~--~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---   97 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGS--MPHLLFAGPPGVGKTTAALALAR--ELFGENWRHNFLELNASDERGINVIREKV---   97 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC--CCEEEEESCTTSSHHHHHHHHHH--HHHGGGHHHHEEEEETTCHHHHHTTHHHH---
T ss_pred             HHhhCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHH--HhcCCcccCceEEeeccccCchHHHHHHH---
Confidence            469999999999999998764  44589999999999999999997  3321 111 23344443321111111111   


Q ss_pred             hCCchhHHHHHHH--h-CCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          245 LMPSSRLIILHEY--L-MTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       245 l~~~~~~~~l~~~--l-~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                             ......  + .+++.++|+||++.  ...++.+...+.....+.++|+||....
T Consensus        98 -------~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~  151 (327)
T 1iqp_A           98 -------KEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSS  151 (327)
T ss_dssp             -------HHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGG
T ss_pred             -------HHHHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCcc
Confidence                   011111  1 25788999999975  3556666666555556788998887654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.96  E-value=1.6e-05  Score=83.16  Aligned_cols=103  Identities=10%  Similarity=0.038  Sum_probs=74.1

Q ss_pred             eeechhhHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHHhcCccccc------ccceeEEEEcCCCCCHHHHHHH
Q 045113          169 TVGLDDRMEELLDLLIEG--PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH------YFDCHAWVQEPYTCYADQILDI  240 (821)
Q Consensus       169 ~vGr~~~~~~i~~~L~~~--~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~------~F~~~~wv~~s~~~~~~~~~~~  240 (821)
                      +.|||+++++|...|...  .+....+-|+|.+|+|||++|+.|.+...-..      .| ..+.|......+...+...
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~-~~v~INc~~~~t~~~~~~~  100 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIF-DYIHIDALELAGMDALYEK  100 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCE-EEEEEETTCCC--HHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCce-EEEEEeccccCCHHHHHHH
Confidence            789999999999888763  34577889999999999999999998321111      12 3566776777788899999


Q ss_pred             HHHHhCCchh--------HHHHHHHh---CCCcEEEEEecCCC
Q 045113          241 IIKFLMPSSR--------LIILHEYL---MTKRYLIVIDDVWS  272 (821)
Q Consensus       241 i~~~l~~~~~--------~~~l~~~l---~~kr~LlVlDdv~~  272 (821)
                      |++++.+..-        ...+.+.+   .+++++++||+++.
T Consensus       101 I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~  143 (318)
T 3te6_A          101 IWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPEN  143 (318)
T ss_dssp             HHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSS
T ss_pred             HHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHH
Confidence            9999965421        33333333   35789999999975

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.95  E-value=6.3e-05  Score=82.26  Aligned_cols=304  Identities=11%  Similarity=0.068  Sum_probs=173.4

Q ss_pred             ceeEEEEEcCCCcccccC--CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEE
Q 045113          470 VKRFFALEQQSDFAYLDD--YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYL  546 (821)
Q Consensus       470 ~~r~lsl~~~~~~~~~~~--~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L  546 (821)
                      .+..+.+...-.......  .|.+|+++.+..+.... -..+-..+|..|..|+.+.+..+ ++.++ ..+..+.+|+.+
T Consensus        65 ~L~sI~iP~svt~Ig~~AF~~C~~L~~i~~~~n~p~~-l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~~aF~~c~~L~~i  142 (394)
T 4gt6_A           65 VLTSVQIPDTVTEIGSNAFYNCTSLKRVTIQDNKPSC-VKKIGRQAFMFCSELTDIPILDS-VTEIDSEAFHHCEELDTV  142 (394)
T ss_dssp             CCCEEEECTTCCEECTTTTTTCTTCCEEEEGGGCCCC-CCEECTTTTTTCTTCCBCGGGTT-CSEECTTTTTTCTTCCEE
T ss_pred             cCEEEEECCCeeEEhHHHhhCCccCceEeecCCCCCe-eeEechhhchhcccceeeccCCc-cceehhhhhhhhcccccc
Confidence            366677765432222222  89999999987653221 02244577899999988777654 44454 456788999999


Q ss_pred             eecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceecccc-CCcc
Q 045113          547 KLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALY-PCCC  625 (821)
Q Consensus       547 ~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~-~~~~  625 (821)
                      .+..+ +..++......+.+|+.+.+..+ +..+........+|+.+.+..+.. ..-...+..+.+|....... ....
T Consensus       143 ~lp~~-~~~I~~~~F~~c~~L~~i~~~~~-~~~I~~~aF~~~~l~~i~ip~~~~-~i~~~af~~c~~l~~~~~~~~~~~~  219 (394)
T 4gt6_A          143 TIPEG-VTSVADGMFSYCYSLHTVTLPDS-VTAIEERAFTGTALTQIHIPAKVT-RIGTNAFSECFALSTITSDSESYPA  219 (394)
T ss_dssp             ECCTT-CCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCCCSEEEECTTCC-EECTTTTTTCTTCCEEEECCSSSCB
T ss_pred             cccce-eeeecccceecccccccccccce-eeEeccccccccceeEEEECCccc-ccccchhhhccccceeccccccccc
Confidence            99754 45555444438899999998765 445544333456788887754422 11223355666666554332 1000


Q ss_pred             hhhh--------------cCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcc
Q 045113          626 TKDL--------------LGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLT  691 (821)
Q Consensus       626 ~~~~--------------l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~  691 (821)
                      ....              ......+..+.+-..   ...--...+..+..|+.+.+..     ++..+.-..+..+++|+
T Consensus       220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip~~---v~~i~~~aF~~c~~L~~i~lp~-----~~~~I~~~aF~~c~~L~  291 (394)
T 4gt6_A          220 IDNVLYEKSANGDYALIRYPSQREDPAFKIPNG---VARIETHAFDSCAYLASVKMPD-----SVVSIGTGAFMNCPALQ  291 (394)
T ss_dssp             SSSCEEEECTTSCEEEEECCTTCCCSEEECCTT---EEEECTTTTTTCSSCCEEECCT-----TCCEECTTTTTTCTTCC
T ss_pred             ccceeecccccccccccccccccccceEEcCCc---ceEcccceeeecccccEEeccc-----ccceecCcccccccccc
Confidence            0000              111222333332211   0000113566778888888753     44444444477788888


Q ss_pred             eEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCcccee-eccccccccceeEEee
Q 045113          692 HLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWT-MGTGAMPKLECLIINP  770 (821)
Q Consensus       692 ~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~-~~~~~l~~L~~L~i~~  770 (821)
                      .+.+... +.......+.+|.+|+.+.|..+ +.. .....+.++.+|+.+.|-.  .+..+. ..+..|++|+.+.+.+
T Consensus       292 ~i~l~~~-i~~I~~~aF~~c~~L~~i~lp~~-v~~-I~~~aF~~C~~L~~i~ip~--sv~~I~~~aF~~C~~L~~i~~~~  366 (394)
T 4gt6_A          292 DIEFSSR-ITELPESVFAGCISLKSIDIPEG-ITQ-ILDDAFAGCEQLERIAIPS--SVTKIPESAFSNCTALNNIEYSG  366 (394)
T ss_dssp             EEECCTT-CCEECTTTTTTCTTCCEEECCTT-CCE-ECTTTTTTCTTCCEEEECT--TCCBCCGGGGTTCTTCCEEEESS
T ss_pred             cccCCCc-ccccCceeecCCCCcCEEEeCCc-ccE-ehHhHhhCCCCCCEEEECc--ccCEEhHhHhhCCCCCCEEEECC
Confidence            8888643 33334456788999999998732 221 1123466788999999864  356554 3467889999999886


Q ss_pred             cCCCCCCccccCCCCCCCEEEEeC
Q 045113          771 CAYLKKMPEQLWCIKSLNNFNCWW  794 (821)
Q Consensus       771 c~~l~~lp~~l~~l~~L~~L~l~~  794 (821)
                      +...   ...+..+.+|+.|.+..
T Consensus       367 ~~~~---~~~~~~~~~L~~i~i~~  387 (394)
T 4gt6_A          367 SRSQ---WNAISTDSGLQNLPVAP  387 (394)
T ss_dssp             CHHH---HHTCBCCCCC-------
T ss_pred             ceee---hhhhhccCCCCEEEeCC
Confidence            5321   13456677788777643

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.85  E-value=2.3e-05  Score=72.43  Aligned_cols=111  Identities=12%  Similarity=-0.004  Sum_probs=65.2

Q ss_pred             CeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc-ccccceeEEEEcCCCCCHHHHHHHHHHHhC
Q 045113          168 DTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV-KHYFDCHAWVQEPYTCYADQILDIIIKFLM  246 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  246 (821)
                      .++|++..++++.+.+..-.....-|-|+|.+|+|||++|+.+++...- ...|   + +..+...+....         
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~---v-~~~~~~~~~~~~---------   68 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEF---V-YRELTPDNAPQL---------   68 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCC---E-EEECCTTTSSCH---------
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCE---E-EECCCCCcchhh---------
Confidence            5789999999999988653222345779999999999999999974211 2223   2 544433221000         


Q ss_pred             CchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecc
Q 045113          247 PSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAK  298 (821)
Q Consensus       247 ~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~  298 (821)
                          ...+..   ...-.|++|++...  .....+...+.......+||.||..
T Consensus        69 ----~~~~~~---a~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~  115 (145)
T 3n70_A           69 ----NDFIAL---AQGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDT  115 (145)
T ss_dssp             ----HHHHHH---HTTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESS
T ss_pred             ----hcHHHH---cCCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCc
Confidence                011111   12347899999743  3444555444433445678777764

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.81  E-value=1.2e-05  Score=76.14  Aligned_cols=84  Identities=10%  Similarity=0.082  Sum_probs=65.5

Q ss_pred             CCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceee-cccc----ccccceeEEeecCCCCCC-ccccCCCC
Q 045113          712 PLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTM-GTGA----MPKLECLIINPCAYLKKM-PEQLWCIK  785 (821)
Q Consensus       712 ~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~-~~~~----l~~L~~L~i~~c~~l~~l-p~~l~~l~  785 (821)
                      ..|+.|++++|.++...+.. ..++++|++|+|++|..++.... .+..    +++|+.|+|++|+.++.- -..+.+++
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~-L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~  139 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDH-MEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFR  139 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGG-GTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCT
T ss_pred             ceEeEEeCcCCCccHHHHHH-hcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCC
Confidence            47999999998877665543 46899999999999998875422 2223    468999999999987741 12456799


Q ss_pred             CCCEEEEeCCc
Q 045113          786 SLNNFNCWWPQ  796 (821)
Q Consensus       786 ~L~~L~l~~c~  796 (821)
                      +|++|++++||
T Consensus       140 ~L~~L~L~~c~  150 (176)
T 3e4g_A          140 NLKYLFLSDLP  150 (176)
T ss_dssp             TCCEEEEESCT
T ss_pred             CCCEEECCCCC
Confidence            99999999998

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.74  E-value=5.7e-06  Score=84.41  Aligned_cols=64  Identities=25%  Similarity=0.156  Sum_probs=30.1

Q ss_pred             CCCCceEEeecCCCCccc---cHHHHhccccceEEecCCcccccchhhhccCc--cCceeecCCcccCCCC
Q 045113          539 NLSLLRYLKLNIPSLKSL---PLSFFNYLLNLYTLDMPFSYIDHTADEFWKMK--KLRHLNFGSITLPAHP  604 (821)
Q Consensus       539 ~l~~Lr~L~L~~~~i~~l---p~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~--~L~~L~L~~~~~~~~~  604 (821)
                      ++++|++|+|++|.+..+   |..+. .+++|++|+|++|.+..+ ..+..+.  +|+.|+|++|.+.+.+
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~-~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~~Npl~~~~  236 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQ-KAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDGNSLCDTF  236 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHH-HSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTTSTTGGGC
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHh-hCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccCCcCcccc
Confidence            344555555555554432   23333 555555555555544444 1122232  5555555555554433

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.71  E-value=5e-05  Score=78.96  Aligned_cols=48  Identities=19%  Similarity=0.266  Sum_probs=39.3

Q ss_pred             CCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          165 KNRDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.+++|.+..+++|.+.+...           -....-+.|+|.+|+||||||+.+++
T Consensus        15 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~   73 (285)
T 3h4m_A           15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVAT   73 (285)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHH
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            3456999999999998887542           12356789999999999999999998

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.60  E-value=0.0001  Score=70.79  Aligned_cols=44  Identities=18%  Similarity=0.263  Sum_probs=38.4

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|++.+++.+.+.+....  ...+.|+|.+|+||||+|+.+.+
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~--~~~vll~G~~G~GKT~la~~~~~   65 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRT--KNNPILLGDPGVGKTAIVEGLAI   65 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEESCGGGCHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCCC--CCceEEECCCCCCHHHHHHHHHH
Confidence            468999999999999997743  55678999999999999999987

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=97.59  E-value=0.00066  Score=73.61  Aligned_cols=104  Identities=11%  Similarity=0.042  Sum_probs=48.2

Q ss_pred             cCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCC
Q 045113          657 CRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGF  736 (821)
Q Consensus       657 ~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~  736 (821)
                      ..+..|+.+.+..     +++.+.-..+..+.+|+.+.+..+ +.......+.++++|+.+.+.++.+.. .....+.++
T Consensus       237 ~~~~~L~~i~lp~-----~v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~i~~-I~~~aF~~c  309 (379)
T 4h09_A          237 YGMKALDEIAIPK-----NVTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSAIET-LEPRVFMDC  309 (379)
T ss_dssp             TTCSSCCEEEECT-----TCCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTTCCE-ECTTTTTTC
T ss_pred             cCCccceEEEcCC-----CccEeCccccceeehhcccccccc-ceeccccccccccccccccccccccce-ehhhhhcCC
Confidence            3444455444431     233333333555566666666433 222223345566666666665333221 111224455


Q ss_pred             cccceeeeccCCCccceee-ccccccccceeEEe
Q 045113          737 PRLKVLHLKSMLWLEEWTM-GTGAMPKLECLIIN  769 (821)
Q Consensus       737 ~~L~~L~L~~~~~l~~~~~-~~~~l~~L~~L~i~  769 (821)
                      .+|+.+.|..  .++.+.. .+..|++|+.+.|.
T Consensus       310 ~~L~~i~lp~--~l~~I~~~aF~~C~~L~~i~ip  341 (379)
T 4h09_A          310 VKLSSVTLPT--ALKTIQVYAFKNCKALSTISYP  341 (379)
T ss_dssp             TTCCEEECCT--TCCEECTTTTTTCTTCCCCCCC
T ss_pred             CCCCEEEcCc--cccEEHHHHhhCCCCCCEEEEC
Confidence            6666666643  2444432 34455566665553

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.59  E-value=5.3e-05  Score=77.25  Aligned_cols=82  Identities=22%  Similarity=0.092  Sum_probs=65.2

Q ss_pred             HHhhccCCceeEEEeCCCCCCcc---cccccCCCCceEEeecCCCCccccHHHHhccc--cceEEecCCccccc-ch---
Q 045113          511 QKICEMYKLLRVLDLGSLVLNQY---PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLL--NLYTLDMPFSYIDH-TA---  581 (821)
Q Consensus       511 ~~~~~~~~~Lr~L~L~~~~l~~l---p~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~--~L~~L~L~~~~l~~-lp---  581 (821)
                      ..+...++.|+.|+|++|.++.+   |..+..+++|++|+|++|.|..+. .+. .+.  +|++|+|++|.+.. +|   
T Consensus       163 ~i~~~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~-~l~-~l~~l~L~~L~L~~Npl~~~~~~~~  240 (267)
T 3rw6_A          163 RIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSER-ELD-KIKGLKLEELWLDGNSLCDTFRDQS  240 (267)
T ss_dssp             HHHHHHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGG-GGG-GGTTSCCSEEECTTSTTGGGCSSHH
T ss_pred             HHHHhhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCch-hhh-hcccCCcceEEccCCcCccccCcch
Confidence            33447789999999999998854   466778999999999999999773 455 666  99999999997653 33   


Q ss_pred             ----hhhccCccCceee
Q 045113          582 ----DEFWKMKKLRHLN  594 (821)
Q Consensus       582 ----~~i~~l~~L~~L~  594 (821)
                          ..+..+++|+.||
T Consensus       241 ~y~~~il~~~P~L~~LD  257 (267)
T 3rw6_A          241 TYISAIRERFPKLLRLD  257 (267)
T ss_dssp             HHHHHHHHHCTTCCEES
T ss_pred             hHHHHHHHHCcccCeEC
Confidence                3467899999995

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=97.57  E-value=0.00025  Score=76.76  Aligned_cols=119  Identities=15%  Similarity=0.108  Sum_probs=73.2

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccccc-------------------ceeEEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF-------------------DCHAWVQ  227 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F-------------------~~~~wv~  227 (821)
                      .+++|++..++.+...+..+. ....+.|+|.+|+||||+|+.+.+...-...+                   ...+.+.
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~-~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEID   94 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTC-CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHTSCCSSCEEEE
T ss_pred             hhccCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhccCCCceEEec
Confidence            459999999999999997653 23578899999999999999988632111100                   0122232


Q ss_pred             cCCCCCHHHHHHHHHHHhCCchhHHHHHHHh-----CCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          228 EPYTCYADQILDIIIKFLMPSSRLIILHEYL-----MTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       228 ~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l-----~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      .+.....              ++...+.+.+     .+++.++|+||+..  ...++.+...+.....+..+|+||....
T Consensus        95 ~~~~~~~--------------~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~  160 (373)
T 1jr3_A           95 AASRTKV--------------EDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  160 (373)
T ss_dssp             TTCSCCS--------------SCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGG
T ss_pred             ccccCCH--------------HHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChH
Confidence            2211110              0122233332     35678999999964  4556666666655555677777776543

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.57  E-value=4e-05  Score=70.64  Aligned_cols=47  Identities=15%  Similarity=0.084  Sum_probs=34.6

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ..++|++..++++.+.+..-.....-|-|+|.+|+|||++|+.+.+.
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHh
Confidence            35899999999998888652122344779999999999999999983

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=97.52  E-value=8.9e-05  Score=78.31  Aligned_cols=119  Identities=12%  Similarity=0.113  Sum_probs=76.1

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc-ccccc-eeEEEEcCCCCCHH---HHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV-KHYFD-CHAWVQEPYTCYAD---QILDII  241 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~~F~-~~~wv~~s~~~~~~---~~~~~i  241 (821)
                      .+++|++..++.+.+++..+.  ...+-++|.+|+||||+|+.+.+  .+ ...+. ..+.+..+......   +.....
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~--~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKN--IPHLLFSGPPGTGKTATAIALAR--DLFGENWRDNFIEMNASDERGIDVVRHKIKEF   92 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTC--CCCEEEESSSSSSHHHHHHHHHH--HHHTTCHHHHCEEEETTSTTCTTTSSHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHhCCC--CCeEEEECcCCcCHHHHHHHHHH--HhcCCcccCCeEEEeCccccChHHHHHHHHHH
Confidence            458999999999988887654  33489999999999999999987  32 11221 23344544332211   111111


Q ss_pred             HHHhCCchhHHHHHHHh-CCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          242 IKFLMPSSRLIILHEYL-MTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       242 ~~~l~~~~~~~~l~~~l-~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      ....           .+ .+++.++|+|++..  ....+.+...+.....+.++|+||....
T Consensus        93 ~~~~-----------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~  143 (319)
T 2chq_A           93 ARTA-----------PIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVS  143 (319)
T ss_dssp             HHSC-----------CSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGG
T ss_pred             HhcC-----------CCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChh
Confidence            1000           01 25688999999964  3556777777766666788888886654

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.52  E-value=4.6e-05  Score=73.26  Aligned_cols=117  Identities=15%  Similarity=0.194  Sum_probs=60.5

Q ss_pred             chhhHHHHHHHHhcCC-CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh
Q 045113          172 LDDRMEELLDLLIEGP-PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR  250 (821)
Q Consensus       172 r~~~~~~i~~~L~~~~-~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~  250 (821)
                      ....++.+.+++..-. ..-..+.|+|.+|+||||||+.+++.......+ .++++      +..++...+.........
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~-~~~~~------~~~~~~~~~~~~~~~~~~   91 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGI-RGYFF------DTKDLIFRLKHLMDEGKD   91 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCC-CCCEE------EHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCC-eEEEE------EHHHHHHHHHHHhcCchH
Confidence            3344444444444321 235789999999999999999999832111122 23333      344444444333221111


Q ss_pred             HHHHHHHhCCCcEEEEEecCCC--HHHHH--HHHHhCCC-CCCCcEEEEEec
Q 045113          251 LIILHEYLMTKRYLIVIDDVWS--IEVWD--IIREILPD-NQNGSRVLITLA  297 (821)
Q Consensus       251 ~~~l~~~l~~kr~LlVlDdv~~--~~~~~--~l~~~l~~-~~~gs~iiiTtr  297 (821)
                      . .+.+.+. +.-+|||||++.  .+.|.  .+...+.. ...|..||+||.
T Consensus        92 ~-~~~~~~~-~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn  141 (180)
T 3ec2_A           92 T-KFLKTVL-NSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTN  141 (180)
T ss_dssp             S-HHHHHHH-TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECC
T ss_pred             H-HHHHHhc-CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcC
Confidence            1 1222222 456899999973  22332  22222221 124678898886

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.51  E-value=4e-05  Score=80.75  Aligned_cols=124  Identities=13%  Similarity=0.109  Sum_probs=68.5

Q ss_pred             CeeechhhHHHHHHHHhcC-------------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCH
Q 045113          168 DTVGLDDRMEELLDLLIEG-------------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYA  234 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~~-------------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~  234 (821)
                      .++|.+..++.|.+.+...             ......+-|+|.+|+|||++|+.+.+...........-++.++..   
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~---  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD---  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGG---
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHH---
Confidence            4889999999888776521             233567899999999999999988772111111111122332211   


Q ss_pred             HHHHHHHHHHhCCchhHHHHHHHhC-CCcEEEEEecCC-----------CHHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          235 DQILDIIIKFLMPSSRLIILHEYLM-TKRYLIVIDDVW-----------SIEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       235 ~~~~~~i~~~l~~~~~~~~l~~~l~-~kr~LlVlDdv~-----------~~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                       +    +...+.+.. ...+...+. .+.-+|++|++.           .......+...+.....+..||.||....
T Consensus       109 -~----l~~~~~g~~-~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~  180 (309)
T 3syl_A          109 -D----LVGQYIGHT-APKTKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADR  180 (309)
T ss_dssp             -G----TCCSSTTCH-HHHHHHHHHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHH
T ss_pred             -H----hhhhccccc-HHHHHHHHHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHH
Confidence             0    000000000 111111111 134599999997           33445566655555555678888886543

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.41  E-value=0.00022  Score=69.78  Aligned_cols=95  Identities=16%  Similarity=0.137  Sum_probs=54.1

Q ss_pred             Ceeechh----hHHHHHHHHhcCCCC--ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHH
Q 045113          168 DTVGLDD----RMEELLDLLIEGPPQ--LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDII  241 (821)
Q Consensus       168 ~~vGr~~----~~~~i~~~L~~~~~~--~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i  241 (821)
                      .+++.+.    .++.+..++......  ...+.|+|.+|+||||||+.+++  ........++|+++      .++...+
T Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~--~~~~~~~~~~~~~~------~~~~~~~   97 (202)
T 2w58_A           26 DVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIAN--ELAKRNVSSLIVYV------PELFREL   97 (202)
T ss_dssp             SSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHH--HHHTTTCCEEEEEH------HHHHHHH
T ss_pred             hccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEEh------HHHHHHH
Confidence            4555443    444555555543221  27899999999999999999998  44444445666654      3444444


Q ss_pred             HHHhCCchhHHHHHHHhCCCcEEEEEecCCC
Q 045113          242 IKFLMPSSRLIILHEYLMTKRYLIVIDDVWS  272 (821)
Q Consensus       242 ~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~  272 (821)
                      ........ ...+.+.+.+. -+|||||++.
T Consensus        98 ~~~~~~~~-~~~~~~~~~~~-~~lilDei~~  126 (202)
T 2w58_A           98 KHSLQDQT-MNEKLDYIKKV-PVLMLDDLGA  126 (202)
T ss_dssp             HHC---CC-CHHHHHHHHHS-SEEEEEEECC
T ss_pred             HHHhccch-HHHHHHHhcCC-CEEEEcCCCC
Confidence            43332111 12222223222 3999999964

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=97.40  E-value=0.00034  Score=71.52  Aligned_cols=47  Identities=17%  Similarity=0.207  Sum_probs=36.3

Q ss_pred             CCCeeechhhHHHHHHHHh---cCC-------CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLI---EGP-------PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~---~~~-------~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|.+..++.+.+++.   ...       ...+.|.|+|.+|+|||++|+.+++
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            4568999998888866553   211       2345688999999999999999998

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=97.39  E-value=0.0019  Score=69.99  Aligned_cols=134  Identities=11%  Similarity=0.034  Sum_probs=84.4

Q ss_pred             cCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCC
Q 045113          608 CGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVF  686 (821)
Q Consensus       608 i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~  686 (821)
                      +..+.+|+.+.+..+ ......++..+.+|+.+.+...- ...+  ...+..+.+|+.+.+..     +++.+.-..+..
T Consensus       213 f~~~~~l~~i~~~~~~~~i~~~~f~~~~~L~~i~lp~~v-~~I~--~~aF~~~~~l~~i~l~~-----~i~~i~~~aF~~  284 (379)
T 4h09_A          213 FSYGKNLKKITITSGVTTLGDGAFYGMKALDEIAIPKNV-TSIG--SFLLQNCTALKTLNFYA-----KVKTVPYLLCSG  284 (379)
T ss_dssp             TTTCSSCSEEECCTTCCEECTTTTTTCSSCCEEEECTTC-CEEC--TTTTTTCTTCCEEEECC-----CCSEECTTTTTT
T ss_pred             cccccccceeeeccceeEEccccccCCccceEEEcCCCc-cEeC--ccccceeehhccccccc-----cceecccccccc
Confidence            334455555554432 22222336677888888775531 0111  13566778899888853     566665555788


Q ss_pred             CCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccce
Q 045113          687 PHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEW  753 (821)
Q Consensus       687 ~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~  753 (821)
                      |++|+.+.+.++.+.......+.+|.+|+.+.|.. .+.. .-...+.++.+|+.+.|..  .++.+
T Consensus       285 c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~-~l~~-I~~~aF~~C~~L~~i~ip~--~v~~I  347 (379)
T 4h09_A          285 CSNLTKVVMDNSAIETLEPRVFMDCVKLSSVTLPT-ALKT-IQVYAFKNCKALSTISYPK--SITLI  347 (379)
T ss_dssp             CTTCCEEEECCTTCCEECTTTTTTCTTCCEEECCT-TCCE-ECTTTTTTCTTCCCCCCCT--TCCEE
T ss_pred             ccccccccccccccceehhhhhcCCCCCCEEEcCc-cccE-EHHHHhhCCCCCCEEEECC--ccCEE
Confidence            99999999988876555566788999999999973 3221 1122356678888888754  34444

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=97.37  E-value=0.00062  Score=72.03  Aligned_cols=48  Identities=23%  Similarity=0.280  Sum_probs=38.8

Q ss_pred             CCCCeeechhhHHHHHHHHhc----------CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          165 KNRDTVGLDDRMEELLDLLIE----------GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~----------~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.+++|.+..++.+.+.+..          .....+-|-++|.+|+|||+||+++.+
T Consensus        16 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~   73 (322)
T 3eie_A           16 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVAT   73 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            345799999999999988831          122346789999999999999999998

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.35  E-value=0.00026  Score=76.00  Aligned_cols=132  Identities=13%  Similarity=0.080  Sum_probs=73.3

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccc-eeEEEEcCCCCCHHHHHHHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFD-CHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      -.+++|++..++.+..++..+.  ...+.++|.+|+||||+|+.+.+.......+. ..+.+..+.......+...+...
T Consensus        36 ~~~i~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  113 (353)
T 1sxj_D           36 LDEVTAQDHAVTVLKKTLKSAN--LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNF  113 (353)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTT--CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHH
T ss_pred             HHHhhCCHHHHHHHHHHHhcCC--CCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHHHHHHHH
Confidence            4569999999999999997764  23388999999999999999987311111121 23334444433333322211110


Q ss_pred             h--CCchh-HHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          245 L--MPSSR-LIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       245 l--~~~~~-~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      .  ..... .......-..++-+|++|++..  ....+.+...+.......++|++|...
T Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~  173 (353)
T 1sxj_D          114 ARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYV  173 (353)
T ss_dssp             HHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCG
T ss_pred             hhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCch
Confidence            0  00000 0000011124567999999864  344555555544444467777777544

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=97.34  E-value=7.5e-05  Score=75.22  Aligned_cols=60  Identities=8%  Similarity=0.038  Sum_probs=39.8

Q ss_pred             CCeeec---hhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC
Q 045113          167 RDTVGL---DDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY  230 (821)
Q Consensus       167 ~~~vGr---~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~  230 (821)
                      .+++|.   +..++.+..+...+  ....+.|+|.+|+||||||+.+.+  ........+.|+.++.
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~--~~~~~~~~~~~~~~~~   90 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACA--RANELERRSFYIPLGI   90 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHH--HHHHTTCCEEEEEGGG
T ss_pred             hhccCCCCCHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEEHHH
Confidence            456663   34455555555543  357889999999999999999987  4433334566776543

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=97.30  E-value=0.00067  Score=71.80  Aligned_cols=118  Identities=18%  Similarity=0.153  Sum_probs=75.0

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHh
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFL  245 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l  245 (821)
                      -.+++|.+..++.+.+++..+. ...++-+.|.+|+||||+|+.+.+  +..   ...+.+..+. .....+...+ .. 
T Consensus        25 ~~~ivg~~~~~~~l~~~l~~~~-~~~~~L~~G~~G~GKT~la~~la~--~l~---~~~~~i~~~~-~~~~~i~~~~-~~-   95 (324)
T 3u61_B           25 IDECILPAFDKETFKSITSKGK-IPHIILHSPSPGTGKTTVAKALCH--DVN---ADMMFVNGSD-CKIDFVRGPL-TN-   95 (324)
T ss_dssp             TTTSCCCHHHHHHHHHHHHTTC-CCSEEEECSSTTSSHHHHHHHHHH--HTT---EEEEEEETTT-CCHHHHHTHH-HH-
T ss_pred             HHHHhCcHHHHHHHHHHHHcCC-CCeEEEeeCcCCCCHHHHHHHHHH--HhC---CCEEEEcccc-cCHHHHHHHH-HH-
Confidence            3579999999999999998653 235777888899999999999987  332   2344555444 2233322211 11 


Q ss_pred             CCchhHHHHHHH--hCCCcEEEEEecCCCH---HHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          246 MPSSRLIILHEY--LMTKRYLIVIDDVWSI---EVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       246 ~~~~~~~~l~~~--l~~kr~LlVlDdv~~~---~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                              ....  ..+++-+|++|++...   ...+.+...+.....+.++|+||....
T Consensus        96 --------~~~~~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~  147 (324)
T 3u61_B           96 --------FASAASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNID  147 (324)
T ss_dssp             --------HHHBCCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGG
T ss_pred             --------HHhhcccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCcc
Confidence                    1111  1247889999999754   345555544443334578888887654

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=97.30  E-value=0.00041  Score=76.72  Aligned_cols=121  Identities=17%  Similarity=0.256  Sum_probs=68.7

Q ss_pred             Cee-echhh--HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccc--eeEEEEcCCCCCHHHHHHHHH
Q 045113          168 DTV-GLDDR--MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFD--CHAWVQEPYTCYADQILDIII  242 (821)
Q Consensus       168 ~~v-Gr~~~--~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~--~~~wv~~s~~~~~~~~~~~i~  242 (821)
                      .|+ |....  ...+......+.. ...+.|+|.+|+||||||+.+++  .....|.  .+++++.      ..+..++.
T Consensus       106 ~fv~g~~n~~a~~~~~~~a~~~~~-~~~lll~Gp~G~GKTtLa~aia~--~l~~~~~~~~v~~v~~------~~~~~~~~  176 (440)
T 2z4s_A          106 NFVVGPGNSFAYHAALEVAKHPGR-YNPLFIYGGVGLGKTHLLQSIGN--YVVQNEPDLRVMYITS------EKFLNDLV  176 (440)
T ss_dssp             GCCCCTTTHHHHHHHHHHHHSTTS-SCCEEEECSSSSSHHHHHHHHHH--HHHHHCCSSCEEEEEH------HHHHHHHH
T ss_pred             hcCCCCchHHHHHHHHHHHhCCCC-CCeEEEECCCCCCHHHHHHHHHH--HHHHhCCCCeEEEeeH------HHHHHHHH
Confidence            455 64333  3333443333332 67899999999999999999998  4544432  2345443      23344444


Q ss_pred             HHhCCchhHHHHHHHhCCCcEEEEEecCCCH----HHHHHHHHhCCC-CCCCcEEEEEecc
Q 045113          243 KFLMPSSRLIILHEYLMTKRYLIVIDDVWSI----EVWDIIREILPD-NQNGSRVLITLAK  298 (821)
Q Consensus       243 ~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~----~~~~~l~~~l~~-~~~gs~iiiTtr~  298 (821)
                      ..+.... ...+.+.+..+.-+|++||+...    ...+.+...+.. ...|..||+||..
T Consensus       177 ~~~~~~~-~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~  236 (440)
T 2z4s_A          177 DSMKEGK-LNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDR  236 (440)
T ss_dssp             HHHHTTC-HHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESS
T ss_pred             HHHHccc-HHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            4433221 33444455546779999999632    223333333221 2346788888875

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=97.29  E-value=0.00082  Score=69.16  Aligned_cols=46  Identities=22%  Similarity=0.178  Sum_probs=35.9

Q ss_pred             CCeeechhhHHHHHHH-------HhcC-CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDL-------LIEG-PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~-------L~~~-~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|.+..+++++..       +... ......+-|+|.+|+|||++|+.+.+
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~   86 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAE   86 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHH
Confidence            4688988887777763       3222 33467889999999999999999998

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=97.27  E-value=0.00053  Score=73.67  Aligned_cols=47  Identities=13%  Similarity=0.110  Sum_probs=38.5

Q ss_pred             CCCeeechhhHHHHHHHHhc----------CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLIE----------GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~----------~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|.+..++++.+.+..          .....+.|.|+|.+|+|||+||+.+.+
T Consensus        83 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~  139 (357)
T 3d8b_A           83 WEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIAS  139 (357)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHH
T ss_pred             HHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999888753          112356789999999999999999987

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.19  E-value=0.0021  Score=67.88  Aligned_cols=48  Identities=23%  Similarity=0.325  Sum_probs=38.3

Q ss_pred             CCCCeeechhhHHHHHHHHhc---------C-CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          165 KNRDTVGLDDRMEELLDLLIE---------G-PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~---------~-~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.+++|.+..++.+.+.+..         + ....+-|-++|.+|+|||+||+++++
T Consensus        10 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~   67 (322)
T 1xwi_A           10 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVAT   67 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHH
Confidence            345799999999998887742         1 12346789999999999999999998

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=97.18  E-value=0.0011  Score=69.28  Aligned_cols=93  Identities=18%  Similarity=0.163  Sum_probs=58.3

Q ss_pred             CCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCH
Q 045113          166 NRDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYA  234 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~  234 (821)
                      -.+++|.+..++++.+.+...           -...+.|.++|.+|+||||||+++.+  .....|     +.+    +.
T Consensus        14 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~--~~~~~~-----i~v----~~   82 (301)
T 3cf0_A           14 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN--ECQANF-----ISI----KG   82 (301)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHH--HTTCEE-----EEE----CH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHH--HhCCCE-----EEE----Eh
Confidence            346999999999988877531           23356899999999999999999998  333222     222    22


Q ss_pred             HHHHHHHHHHhCCchh-HHH-HHHHhCCCcEEEEEecCCC
Q 045113          235 DQILDIIIKFLMPSSR-LII-LHEYLMTKRYLIVIDDVWS  272 (821)
Q Consensus       235 ~~~~~~i~~~l~~~~~-~~~-l~~~l~~kr~LlVlDdv~~  272 (821)
                      .++.....   +.... ... +.......+.+|++|++..
T Consensus        83 ~~l~~~~~---g~~~~~~~~~f~~a~~~~p~il~iDEid~  119 (301)
T 3cf0_A           83 PELLTMWF---GESEANVREIFDKARQAAPCVLFFDELDS  119 (301)
T ss_dssp             HHHHHHHH---TTCTTHHHHHHHHHHHTCSEEEEECSTTH
T ss_pred             HHHHhhhc---CchHHHHHHHHHHHHhcCCeEEEEEChHH
Confidence            23332221   11111 222 2223345679999999963

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.11  E-value=0.00071  Score=76.51  Aligned_cols=101  Identities=14%  Similarity=0.111  Sum_probs=62.2

Q ss_pred             CCCeeechhhHHHHHHHHhcC---------------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC
Q 045113          166 NRDTVGLDDRMEELLDLLIEG---------------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY  230 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~---------------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~  230 (821)
                      -.+++|++..++++.+++...               .+..+.+-|+|.+|+||||+|+.+.+  +..  + ..+.+..+.
T Consensus        38 ~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~--~l~--~-~~i~in~s~  112 (516)
T 1sxj_A           38 LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQ--ELG--Y-DILEQNASD  112 (516)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHH--HTT--C-EEEEECTTS
T ss_pred             HHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHH--HcC--C-CEEEEeCCC
Confidence            357999999999999999751               01357899999999999999999998  332  2 234455555


Q ss_pred             CCCHHHHHHHHHHHhCCchhHHHHHH------HhCCCcEEEEEecCCC
Q 045113          231 TCYADQILDIIIKFLMPSSRLIILHE------YLMTKRYLIVIDDVWS  272 (821)
Q Consensus       231 ~~~~~~~~~~i~~~l~~~~~~~~l~~------~l~~kr~LlVlDdv~~  272 (821)
                      ......+ ...+...........+..      ....++.+|++|++..
T Consensus       113 ~~~~~~~-~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~  159 (516)
T 1sxj_A          113 VRSKTLL-NAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDG  159 (516)
T ss_dssp             CCCHHHH-HHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGG
T ss_pred             cchHHHH-HHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCc
Confidence            4443322 222222211111000000      1235788999999964

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.10  E-value=0.001  Score=70.84  Aligned_cols=47  Identities=17%  Similarity=0.152  Sum_probs=39.5

Q ss_pred             CCCeeechhhHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLIEG---PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~---~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|++..++++..++...   ......|-|+|.+|+|||++|+.+.+
T Consensus        28 ~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~   77 (338)
T 3pfi_A           28 FDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISY   77 (338)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHH
Confidence            356999999999999888753   33456789999999999999999987

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=97.08  E-value=0.0019  Score=71.35  Aligned_cols=48  Identities=21%  Similarity=0.272  Sum_probs=38.6

Q ss_pred             CCCCeeechhhHHHHHHHHhc----------CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          165 KNRDTVGLDDRMEELLDLLIE----------GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~----------~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.+++|.+..++.+.+.+..          .....+-|.++|.+|+|||+||+++++
T Consensus       132 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~  189 (444)
T 2zan_A          132 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVAT  189 (444)
T ss_dssp             CGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999887732          112357889999999999999999998

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.06  E-value=0.00074  Score=72.43  Aligned_cols=44  Identities=11%  Similarity=0.022  Sum_probs=35.4

Q ss_pred             CCeeechhhHHHHHHHH-hcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLL-IEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L-~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+++|.+..++.+..++ ..+.  ...+.|+|..|+||||+|+.+..
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~--~~~~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRD--LPHLLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTC--CCCEEEECSTTSSHHHHHHTHHH
T ss_pred             HHhcCCHHHHHHHHHHHhhCCC--CCeEEEECCCCCCHHHHHHHHHH
Confidence            45899999998888887 4433  22389999999999999998776

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.06  E-value=0.0022  Score=69.15  Aligned_cols=47  Identities=28%  Similarity=0.255  Sum_probs=37.6

Q ss_pred             CCCeeechhhHHH---HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEE---LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~---i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -..++|++..++.   +...+..+....+.+-|+|.+|+|||++|+.+.+
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~   92 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQ   92 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHH
Confidence            3579999998776   4555555543356899999999999999999998

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=97.03  E-value=0.0014  Score=72.41  Aligned_cols=102  Identities=16%  Similarity=0.193  Sum_probs=61.1

Q ss_pred             CCCeeechhhH---HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHH
Q 045113          166 NRDTVGLDDRM---EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIII  242 (821)
Q Consensus       166 ~~~~vGr~~~~---~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  242 (821)
                      -.+++|.+..+   ..+...+..+.  ...+.++|.+|+||||+|+.+.+  .....|.   -+... .....++.. ++
T Consensus        25 l~~ivGq~~~~~~~~~L~~~i~~~~--~~~vLL~GppGtGKTtlAr~ia~--~~~~~f~---~l~a~-~~~~~~ir~-~~   95 (447)
T 3pvs_A           25 LAQYIGQQHLLAAGKPLPRAIEAGH--LHSMILWGPPGTGKTTLAEVIAR--YANADVE---RISAV-TSGVKEIRE-AI   95 (447)
T ss_dssp             TTTCCSCHHHHSTTSHHHHHHHHTC--CCEEEEECSTTSSHHHHHHHHHH--HTTCEEE---EEETT-TCCHHHHHH-HH
T ss_pred             HHHhCCcHHHHhchHHHHHHHHcCC--CcEEEEECCCCCcHHHHHHHHHH--HhCCCeE---EEEec-cCCHHHHHH-HH
Confidence            35689998888   67777777765  57899999999999999999998  4433331   12222 223333222 11


Q ss_pred             HHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCC
Q 045113          243 KFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILP  284 (821)
Q Consensus       243 ~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~  284 (821)
                      ..      +.  .....+++.+|++|++...  ...+.+...+.
T Consensus        96 ~~------a~--~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le  131 (447)
T 3pvs_A           96 ER------AR--QNRNAGRRTILFVDEVHRFNKSQQDAFLPHIE  131 (447)
T ss_dssp             HH------HH--HHHHTTCCEEEEEETTTCC------CCHHHHH
T ss_pred             HH------HH--HhhhcCCCcEEEEeChhhhCHHHHHHHHHHHh
Confidence            11      11  1112567899999999753  33444444443

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=97.02  E-value=0.0021  Score=68.84  Aligned_cols=47  Identities=21%  Similarity=0.249  Sum_probs=37.5

Q ss_pred             CCCeeechhhHHHHHHHHhcC----------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLIEG----------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~----------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|.+..++.|.+.+...          ....+-|-++|.+|+|||+||+++++
T Consensus        50 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~  106 (355)
T 2qp9_X           50 WEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVAT  106 (355)
T ss_dssp             GGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHH
Confidence            356999999999998887421          11235588999999999999999998

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.02  E-value=0.0024  Score=66.46  Aligned_cols=47  Identities=19%  Similarity=0.210  Sum_probs=38.4

Q ss_pred             CCCeeechhhHHHHHHHHhcC----------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLIEG----------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~----------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|.+..++.+.+.+..+          ....+.+.|+|.+|+||||+|+.+.+
T Consensus        20 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           20 WTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             GGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHH
T ss_pred             HHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHH
Confidence            356999999999998887431          12356889999999999999999998

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=96.99  E-value=0.0014  Score=69.42  Aligned_cols=114  Identities=14%  Similarity=0.108  Sum_probs=60.3

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHH
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILH  255 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~  255 (821)
                      ...+..++..+......+.|+|.+|+||||||+.+++  .....-..+++++.      .++...+...+... ....+.
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~--~~~~~~~~~~~i~~------~~~~~~~~~~~~~~-~~~~~~   93 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGN--EAKKRGYRVIYSSA------DDFAQAMVEHLKKG-TINEFR   93 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHH--HHHHTTCCEEEEEH------HHHHHHHHHHHHHT-CHHHHH
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHH--HHHHCCCEEEEEEH------HHHHHHHHHHHHcC-cHHHHH
Confidence            3444454444433456789999999999999999998  33221112344432      33333333332211 122222


Q ss_pred             HHhCCCcEEEEEecCCCH----HHHHHHHHhCCC-CCCCcEEEEEecch
Q 045113          256 EYLMTKRYLIVIDDVWSI----EVWDIIREILPD-NQNGSRVLITLAKI  299 (821)
Q Consensus       256 ~~l~~kr~LlVlDdv~~~----~~~~~l~~~l~~-~~~gs~iiiTtr~~  299 (821)
                      ..+. +.-+|++||+...    ...+.+...+.. ...|..||+||...
T Consensus        94 ~~~~-~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~  141 (324)
T 1l8q_A           94 NMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRH  141 (324)
T ss_dssp             HHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSC
T ss_pred             HHhc-CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCC
Confidence            2232 3679999999642    222333333221 12356788887643

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.93  E-value=0.0026  Score=69.14  Aligned_cols=48  Identities=21%  Similarity=0.223  Sum_probs=38.8

Q ss_pred             CCCCeeechhhHHHHHHHHhcC----------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          165 KNRDTVGLDDRMEELLDLLIEG----------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~----------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.+++|.+..++.+.+.+...          ....+-|-|+|.+|+|||+||+.+.+
T Consensus       113 ~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~  170 (389)
T 3vfd_A          113 KFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAA  170 (389)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHH
T ss_pred             ChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            3457999999999999888421          11246889999999999999999987

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=96.93  E-value=0.00071  Score=69.30  Aligned_cols=47  Identities=19%  Similarity=0.181  Sum_probs=34.9

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ..++|.+..+.++.+.+.........|-|+|.+|+|||++|+.+++.
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHT
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            35899999999998877652222356779999999999999999973

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.91  E-value=0.0019  Score=68.81  Aligned_cols=119  Identities=13%  Similarity=0.135  Sum_probs=71.2

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc-cccc-eeEEEEcCCCCCHHHHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK-HYFD-CHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~-~~F~-~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      ..++|.+..++.+...+..+.  +.-+.++|.+|+||||+|+.+.+  .+. ..+. .+.-+..+....+..+.+.+ . 
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~--~~~~ll~Gp~G~GKTtla~~la~--~l~~~~~~~~~~~~~~~~~~~~~~ir~~i-~-   98 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALAR--EIYGKNYSNMVLELNASDDRGIDVVRNQI-K-   98 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHH--HHHTTSHHHHEEEECTTSCCSHHHHHTHH-H-
T ss_pred             HHhcCcHHHHHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHH--HHcCCCccceEEEEcCcccccHHHHHHHH-H-
Confidence            457898888888888887764  33389999999999999999987  321 1121 22333444433443332211 1 


Q ss_pred             hCCchhHHHHHHH---hCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          245 LMPSSRLIILHEY---LMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       245 l~~~~~~~~l~~~---l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                              .+.+.   +.+.+-++|+|++..  ....+.+...+.......++|++|...
T Consensus        99 --------~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~  150 (340)
T 1sxj_C           99 --------DFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYA  150 (340)
T ss_dssp             --------HHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCG
T ss_pred             --------HHHhhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCc
Confidence                    11111   223477899999853  345555555544334466777777544

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.86  E-value=0.0006  Score=71.64  Aligned_cols=113  Identities=15%  Similarity=0.150  Sum_probs=62.8

Q ss_pred             CeeechhhHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHH
Q 045113          168 DTVGLDDRMEELLDLLIEG-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDI  240 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~  240 (821)
                      .++|.+..++.+...+...       ......+.++|.+|+||||+|+.+.+  .....-...+.+..+...... ....
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~--~~~~~~~~~~~~~~~~~~~~~-~~~~   94 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAA--TLFDTEEAMIRIDMTEYMEKH-AVSR   94 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHH--HHHSCGGGEEEEEGGGCCSTT-HHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHH--HHcCCCcceEEeecccccccc-cHHH
Confidence            4789999999988888653       11246899999999999999999997  332222224455544322211 1111


Q ss_pred             HHHHhCCc---hhHHHHHHHhC-CCcEEEEEecCCCH--HHHHHHHHhC
Q 045113          241 IIKFLMPS---SRLIILHEYLM-TKRYLIVIDDVWSI--EVWDIIREIL  283 (821)
Q Consensus       241 i~~~l~~~---~~~~~l~~~l~-~kr~LlVlDdv~~~--~~~~~l~~~l  283 (821)
                      +.......   .....+...+. ...-+++||++...  ...+.+...+
T Consensus        95 l~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l  143 (311)
T 4fcw_A           95 LIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQML  143 (311)
T ss_dssp             HHCCCTTSTTTTTCCHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHH
T ss_pred             hcCCCCccccccccchHHHHHHhCCCeEEEEeChhhcCHHHHHHHHHHH
Confidence            11100000   00122333332 34479999999643  4445554443

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.84  E-value=0.0023  Score=65.07  Aligned_cols=47  Identities=26%  Similarity=0.264  Sum_probs=35.1

Q ss_pred             CCCeeechhhHHHHHHHHh---cC-------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLI---EG-------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~---~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|.+..++++.+.+.   ..       ....+-+.|+|.+|+||||||+.+.+
T Consensus        11 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~   67 (257)
T 1lv7_A           11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG   67 (257)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHH
Confidence            3568999988887766543   21       11234588999999999999999997

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=96.83  E-value=0.0037  Score=69.64  Aligned_cols=46  Identities=13%  Similarity=0.162  Sum_probs=38.3

Q ss_pred             CCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|.+..++++.+++...           ....+-|-|+|.+|+|||++|+++.+
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~  260 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN  260 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHH
Confidence            46899999999998887642           23356788999999999999999987

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.83  E-value=0.00047  Score=63.73  Aligned_cols=84  Identities=11%  Similarity=0.063  Sum_probs=48.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEec
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDD  269 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDd  269 (821)
                      -..++|+|..|+|||||++.+++..... .+ .++++....-...                      .+..+.-+||+||
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~~-g~-~~~~~~~~~~~~~----------------------~~~~~~~lLilDE   91 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALEA-GK-NAAYIDAASMPLT----------------------DAAFEAEYLAVDQ   91 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHTT-TC-CEEEEETTTSCCC----------------------GGGGGCSEEEEES
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhc-CC-cEEEEcHHHhhHH----------------------HHHhCCCEEEEeC
Confidence            5689999999999999999999832211 11 2566665443221                      0112456889999


Q ss_pred             CCCH--HHHHHHHHhCCC-CCCC-cEEEEEec
Q 045113          270 VWSI--EVWDIIREILPD-NQNG-SRVLITLA  297 (821)
Q Consensus       270 v~~~--~~~~~l~~~l~~-~~~g-s~iiiTtr  297 (821)
                      +...  ..-+.+...+.. ...| ++||+||+
T Consensus        92 ~~~~~~~~~~~l~~li~~~~~~g~~~iiits~  123 (149)
T 2kjq_A           92 VEKLGNEEQALLFSIFNRFRNSGKGFLLLGSE  123 (149)
T ss_dssp             TTCCCSHHHHHHHHHHHHHHHHTCCEEEEEES
T ss_pred             ccccChHHHHHHHHHHHHHHHcCCcEEEEECC
Confidence            9642  112222222111 1123 35888887

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.81  E-value=0.0019  Score=71.92  Aligned_cols=44  Identities=16%  Similarity=0.299  Sum_probs=38.0

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++||+.+++.++..|....  ..-+-++|.+|+|||++|+.+.+
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~--~~~~LL~G~pG~GKT~la~~la~  223 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRT--KNNPVLIGEPGVGKTAIAEGLAQ  223 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS--SCEEEEESCTTTTTHHHHHHHHH
T ss_pred             CCccCcHHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHH
Confidence            469999999999999997643  34567999999999999999987

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=96.72  E-value=0.004  Score=65.06  Aligned_cols=46  Identities=22%  Similarity=0.238  Sum_probs=37.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|++..+.++.+.+..-......|-|+|.+|+|||++|+.+.+
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~   47 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHA   47 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHH
Confidence            3589999999999998876333345677999999999999999987

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=96.69  E-value=0.004  Score=68.87  Aligned_cols=122  Identities=14%  Similarity=0.195  Sum_probs=68.2

Q ss_pred             CCCeeechhhHHHHHHHHh---cC-------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHH
Q 045113          166 NRDTVGLDDRMEELLDLLI---EG-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYAD  235 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~---~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~  235 (821)
                      -.+++|.++.++++.+.+.   ..       ..-.+-|.++|.+|+||||||+.+.+  +....|   +.++.+.-... 
T Consensus        15 f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~--~~~~~f---~~is~~~~~~~-   88 (476)
T 2ce7_A           15 FKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAG--EANVPF---FHISGSDFVEL-   88 (476)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHH--HHTCCE---EEEEGGGTTTC-
T ss_pred             HHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHH--HcCCCe---eeCCHHHHHHH-
Confidence            3469999988877766543   21       11234478999999999999999998  333222   23333322110 


Q ss_pred             HHHHHHHHHhCCc-h-h-HHHHHHHhCCCcEEEEEecCCCH----------------HHHHHHHHhCC--CCCCCcEEEE
Q 045113          236 QILDIIIKFLMPS-S-R-LIILHEYLMTKRYLIVIDDVWSI----------------EVWDIIREILP--DNQNGSRVLI  294 (821)
Q Consensus       236 ~~~~~i~~~l~~~-~-~-~~~l~~~l~~kr~LlVlDdv~~~----------------~~~~~l~~~l~--~~~~gs~iii  294 (821)
                               ..+. . . ...+.......+.+|+||++...                .....+...+.  ....+..||.
T Consensus        89 ---------~~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIa  159 (476)
T 2ce7_A           89 ---------FVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMA  159 (476)
T ss_dssp             ---------CTTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEE
T ss_pred             ---------HhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEE
Confidence                     0000 0 0 12233333467899999999531                12333333222  1233567777


Q ss_pred             Eecchhhh
Q 045113          295 TLAKIDTV  302 (821)
Q Consensus       295 Ttr~~~v~  302 (821)
                      ||...+..
T Consensus       160 aTn~~~~L  167 (476)
T 2ce7_A          160 ATNRPDIL  167 (476)
T ss_dssp             EESCGGGS
T ss_pred             ecCChhhh
Confidence            88776554

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.67  E-value=0.0084  Score=71.30  Aligned_cols=44  Identities=18%  Similarity=0.246  Sum_probs=38.4

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++||+.+++++++.|....  ..-+.++|.+|+||||+|+.+.+
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~--~~~vlL~G~~GtGKT~la~~la~  229 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAW  229 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCccCCHHHHHHHHHHHhccC--CCCeEEEcCCCCCHHHHHHHHHH
Confidence            468999999999999997654  45568999999999999999987

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=96.64  E-value=0.0095  Score=62.05  Aligned_cols=117  Identities=14%  Similarity=0.045  Sum_probs=72.2

Q ss_pred             echhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCc-ccc-cccceeEEEEcCC-CCCHHHHHHHHHHHhCC
Q 045113          171 GLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGN-YVK-HYFDCHAWVQEPY-TCYADQILDIIIKFLMP  247 (821)
Q Consensus       171 Gr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~-~~~-~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~  247 (821)
                      |-++.++.+...+..+.  ....-++|.+|+||||+|+.+.+.. ... .+.+ ..++..+. ..++.++- ++.+.+..
T Consensus         1 g~~~~~~~L~~~i~~~~--~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d-~~~l~~~~~~~~id~ir-~li~~~~~   76 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSE--GISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDIR-TIKDFLNY   76 (305)
T ss_dssp             ---CHHHHHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHHH-HHHHHHTS
T ss_pred             ChHHHHHHHHHHHHCCC--CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCC-EEEEcCCcCCCCHHHHH-HHHHHHhh
Confidence            44566677777777665  6788999999999999999987621 111 2233 34555443 34444432 23333221


Q ss_pred             chhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          248 SSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       248 ~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      .        -..+++-++|+|++..  ....+.+...+....+.+.+|++|.+.
T Consensus        77 ~--------p~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~  122 (305)
T 2gno_A           77 S--------PELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRW  122 (305)
T ss_dssp             C--------CSSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCG
T ss_pred             c--------cccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECCh
Confidence            1        0124677999999974  456777777776666678888877554

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=96.38  E-value=0.022  Score=60.33  Aligned_cols=117  Identities=11%  Similarity=0.013  Sum_probs=69.2

Q ss_pred             hhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCc---ccc-----------------cccceeEEEEcC---
Q 045113          173 DDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGN---YVK-----------------HYFDCHAWVQEP---  229 (821)
Q Consensus       173 ~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~---~~~-----------------~~F~~~~wv~~s---  229 (821)
                      ++..+.+...+..+. -...+-++|.+|+||||+|+.+.+.-   ...                 .|+| ..++...   
T Consensus         8 ~~~~~~l~~~i~~~~-~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~~~~~   85 (334)
T 1a5t_A            8 RPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAPEKGK   85 (334)
T ss_dssp             HHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECCCTTC
T ss_pred             HHHHHHHHHHHHcCC-cceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEeccccC
Confidence            455666666666543 24578899999999999998887521   100                 1233 2344332   


Q ss_pred             CCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          230 YTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       230 ~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      ....+.++ +++.+.+...        -..+++-++|+|++..  ....+.+...+.....+..+|++|.+.+
T Consensus        86 ~~~~i~~i-r~l~~~~~~~--------~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~  149 (334)
T 1a5t_A           86 NTLGVDAV-REVTEKLNEH--------ARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPE  149 (334)
T ss_dssp             SSBCHHHH-HHHHHHTTSC--------CTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGG
T ss_pred             CCCCHHHH-HHHHHHHhhc--------cccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChH
Confidence            22333332 2333332211        0135678999999974  3556777777766666778777776653

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.36  E-value=0.0041  Score=74.87  Aligned_cols=44  Identities=16%  Similarity=0.349  Sum_probs=38.3

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++||+.+++++++.|....  ..-+.++|.+|+||||+|+.+.+
T Consensus       170 d~viGr~~~i~~l~~~l~~~~--~~~vlL~G~pG~GKT~la~~la~  213 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRT--KNNPVLIGEPGVGKTAIVEGLAQ  213 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSS--CCCCEEEECTTSCHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHH
Confidence            468999999999999997754  34568999999999999999987

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.17  E-value=0.0071  Score=71.83  Aligned_cols=44  Identities=16%  Similarity=0.299  Sum_probs=38.2

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|++.+++++...|....  ..-+-++|.+|+|||++|+.+.+
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~--~~~vLL~G~pGtGKT~la~~la~  223 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRT--KNNPVLIGEPGVGKTAIAEGLAQ  223 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS--SCEEEEESCTTTTTHHHHHHHHH
T ss_pred             CCccCchHHHHHHHHHHhCCC--CCCeEEECCCCCCHHHHHHHHHH
Confidence            469999999999999998754  34477999999999999999987

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.17  E-value=0.025  Score=55.54  Aligned_cols=45  Identities=11%  Similarity=-0.009  Sum_probs=34.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHH
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQIL  238 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~  238 (821)
                      .-.++.|+|.+|+||||||..+..     ..=..++|++....++...+.
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-----~~~~~v~~i~~~~~~~~~~~~   63 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-----LSGKKVAYVDTEGGFSPERLV   63 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-----HHCSEEEEEESSCCCCHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-----HcCCcEEEEECCCCCCHHHHH
Confidence            456999999999999999999886     112467888877766665554

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.16  E-value=0.016  Score=54.64  Aligned_cols=94  Identities=14%  Similarity=0.094  Sum_probs=51.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHh------------------CCchhHH
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFL------------------MPSSRLI  252 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l------------------~~~~~~~  252 (821)
                      .+|.|.|++|+||||+|+.+ .  +..  |.   +++      ..++.+.....-                  +...-..
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~--~~g--~~---~i~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   67 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-K--ERG--AK---VIV------MSDVVRKRYSIEAKPGERLMDFAKRLREIYGDGVVAR   67 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-H--HTT--CE---EEE------HHHHHHHHHHHHC---CCHHHHHHHHHHHHCTTHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH-H--HCC--Cc---EEE------HhHHHHHHHHhcCCChhHHHHHHHHHHhhCCHHHHHH
Confidence            47999999999999999999 4  222  21   222      223333322221                  1111134


Q ss_pred             HHHHHh-CCCcEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhh
Q 045113          253 ILHEYL-MTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDT  301 (821)
Q Consensus       253 ~l~~~l-~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v  301 (821)
                      .+.+.+ ....-.+|+|++....+++.+.....   ....+|.-..+..+
T Consensus        68 ~~~~~l~~~~~~~vi~dg~~~~~~~~~l~~~~~---~~~~~i~l~~~~~~  114 (179)
T 3lw7_A           68 LCVEELGTSNHDLVVFDGVRSLAEVEEFKRLLG---DSVYIVAVHSPPKI  114 (179)
T ss_dssp             HHHHHHCSCCCSCEEEECCCCHHHHHHHHHHHC---SCEEEEEEECCHHH
T ss_pred             HHHHHHHhcCCCeEEEeCCCCHHHHHHHHHHhC---CCcEEEEEECCHHH
Confidence            455555 23445688899976666666655443   23445444444333

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.11  E-value=0.0041  Score=65.01  Aligned_cols=89  Identities=11%  Similarity=0.153  Sum_probs=48.6

Q ss_pred             hhHHHHHHHHhcCCC-CceEEEEEcCCCChHHHHHHHHhcCcccc-cccceeEEEEcCCCCCHHHHHHHHHHHhCCchhH
Q 045113          174 DRMEELLDLLIEGPP-QLSAVTILDSIGLDKTAFAAEAYSGNYVK-HYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRL  251 (821)
Q Consensus       174 ~~~~~i~~~L~~~~~-~~~vi~i~G~gGiGKTtLa~~v~~~~~~~-~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~  251 (821)
                      ..++.+.+++..... ....+.++|.+|+|||+||+++++  ... ..-..+++++++      ++..++........ .
T Consensus       135 ~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~--~~~~~~g~~v~~~~~~------~l~~~l~~~~~~~~-~  205 (308)
T 2qgz_A          135 EAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAH--ELSEKKGVSTTLLHFP------SFAIDVKNAISNGS-V  205 (308)
T ss_dssp             HHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHH--HHHHHSCCCEEEEEHH------HHHHHHHCCCC-----
T ss_pred             HHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHH--HHHHhcCCcEEEEEHH------HHHHHHHHHhccch-H
Confidence            344455566654322 246888999999999999999998  333 322345555543      34444433222111 0


Q ss_pred             HHHHHHhCCCcEEEEEecCCC
Q 045113          252 IILHEYLMTKRYLIVIDDVWS  272 (821)
Q Consensus       252 ~~l~~~l~~kr~LlVlDdv~~  272 (821)
                      ..+.+.+.+ .-+|||||+..
T Consensus       206 ~~~~~~~~~-~~lLiiDdig~  225 (308)
T 2qgz_A          206 KEEIDAVKN-VPVLILDDIGA  225 (308)
T ss_dssp             CCTTHHHHT-SSEEEEETCCC
T ss_pred             HHHHHHhcC-CCEEEEcCCCC
Confidence            111111222 23899999953

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.05  E-value=0.012  Score=61.01  Aligned_cols=24  Identities=13%  Similarity=0.048  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+.+.++|.+|+|||+||+++++
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~   58 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFR   58 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            356788999999999999999998

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=95.92  E-value=0.024  Score=63.02  Aligned_cols=49  Identities=20%  Similarity=0.290  Sum_probs=35.6

Q ss_pred             CCCCCeeechhhHHHHHHHHh---cCC-------CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          164 FKNRDTVGLDDRMEELLDLLI---EGP-------PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~---~~~-------~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..-.+++|.+..++++.+...   ...       .-.+-|.|+|.+|+||||||+.+..
T Consensus        28 ~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~   86 (499)
T 2dhr_A           28 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG   86 (499)
T ss_dssp             CCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            344579999988777766543   210       1123389999999999999999998

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=95.87  E-value=0.0032  Score=65.11  Aligned_cols=64  Identities=13%  Similarity=0.040  Sum_probs=40.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEc--CCCC-----CHHHHHHHHHHHhCCchhHHHHHHHhCCCc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQE--PYTC-----YADQILDIIIKFLMPSSRLIILHEYLMTKR  262 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~--s~~~-----~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr  262 (821)
                      -+++-|+|++|+||||||.++...     .-..++|++.  ....     +.+.+             ...+.+.+...+
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~-----~G~~VlyIs~~~eE~v~~~~~~le~~-------------l~~i~~~l~~~~  184 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA-----LGGKDKYATVRFGEPLSGYNTDFNVF-------------VDDIARAMLQHR  184 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH-----HHTTSCCEEEEBSCSSTTCBCCHHHH-------------HHHHHHHHHHCS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh-----CCCCEEEEEecchhhhhhhhcCHHHH-------------HHHHHHHHhhCC
Confidence            467789999999999999998873     1123456665  2221     22222             233444554455


Q ss_pred             EEEEEecCCC
Q 045113          263 YLIVIDDVWS  272 (821)
Q Consensus       263 ~LlVlDdv~~  272 (821)
                       +||+|++..
T Consensus       185 -LLVIDsI~a  193 (331)
T 2vhj_A          185 -VIVIDSLKN  193 (331)
T ss_dssp             -EEEEECCTT
T ss_pred             -EEEEecccc
Confidence             999999954

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.85  E-value=0.0066  Score=65.07  Aligned_cols=91  Identities=15%  Similarity=0.131  Sum_probs=57.8

Q ss_pred             CCCCCeeechhhHHHHHHHHhc-----------CCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC
Q 045113          164 FKNRDTVGLDDRMEELLDLLIE-----------GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC  232 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~-----------~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~  232 (821)
                      +.-.++.|.++.+++|.+.+.-           +-...+=|-++|++|.|||.||+++.+  +....|   +.|..+.-.
T Consensus       145 v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~--e~~~~f---~~v~~s~l~  219 (405)
T 4b4t_J          145 STYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAH--HTDCKF---IRVSGAELV  219 (405)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHH--HHTCEE---EEEEGGGGS
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHH--hhCCCc---eEEEhHHhh
Confidence            3345788999999998776653           123356688999999999999999998  444444   333333211


Q ss_pred             ----C-HHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCC
Q 045113          233 ----Y-ADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVW  271 (821)
Q Consensus       233 ----~-~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~  271 (821)
                          . .....++++.            ..-...+++|++|+++
T Consensus       220 sk~vGese~~vr~lF~------------~Ar~~aP~IIFiDEiD  251 (405)
T 4b4t_J          220 QKYIGEGSRMVRELFV------------MAREHAPSIIFMDEID  251 (405)
T ss_dssp             CSSTTHHHHHHHHHHH------------HHHHTCSEEEEEESSS
T ss_pred             ccccchHHHHHHHHHH------------HHHHhCCceEeeecch
Confidence                1 1122222221            1123578999999997

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.81  E-value=0.012  Score=63.93  Aligned_cols=121  Identities=17%  Similarity=0.204  Sum_probs=71.7

Q ss_pred             CCCCeeechhhHHHHHHHHhc-----------CCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-
Q 045113          165 KNRDTVGLDDRMEELLDLLIE-----------GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-  232 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~-----------~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-  232 (821)
                      .-.++.|.++.+++|.+.+.-           +-...+=|-++|++|.|||+||+++.+  +....|   +.|..+.-. 
T Consensus       179 ~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~--e~~~~~---~~v~~s~l~s  253 (437)
T 4b4t_L          179 TFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAA--TIGANF---IFSPASGIVD  253 (437)
T ss_dssp             CSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHH--HHTCEE---EEEEGGGTCC
T ss_pred             ChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHH--HhCCCE---EEEehhhhcc
Confidence            345788999999988777653           123467788999999999999999998  444333   334433221 


Q ss_pred             ---CH-HHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH----------------HHHHHHHHhCC--CCCCCc
Q 045113          233 ---YA-DQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI----------------EVWDIIREILP--DNQNGS  290 (821)
Q Consensus       233 ---~~-~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~----------------~~~~~l~~~l~--~~~~gs  290 (821)
                         .. ....+.+.            ...-...+++|++|+++..                ..+..+...+.  ....+.
T Consensus       254 k~~Gese~~ir~~F------------~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~v  321 (437)
T 4b4t_L          254 KYIGESARIIREMF------------AYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQT  321 (437)
T ss_dssp             SSSSHHHHHHHHHH------------HHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSS
T ss_pred             ccchHHHHHHHHHH------------HHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCe
Confidence               11 11122211            1122357899999999621                01223333332  233356


Q ss_pred             EEEEEecchhhh
Q 045113          291 RVLITLAKIDTV  302 (821)
Q Consensus       291 ~iiiTtr~~~v~  302 (821)
                      .||.||...+..
T Consensus       322 ivI~ATNrp~~L  333 (437)
T 4b4t_L          322 KIIMATNRPDTL  333 (437)
T ss_dssp             EEEEEESSTTSS
T ss_pred             EEEEecCCchhh
Confidence            778888766554

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=95.79  E-value=0.0097  Score=57.18  Aligned_cols=85  Identities=8%  Similarity=0.062  Sum_probs=39.2

Q ss_pred             HhhccCCceeEEEeCCC-CCC-----cccccccCCCCceEEeecCCCCc-----cccHHHHhccccceEEecCCccccc-
Q 045113          512 KICEMYKLLRVLDLGSL-VLN-----QYPSEIENLSLLRYLKLNIPSLK-----SLPLSFFNYLLNLYTLDMPFSYIDH-  579 (821)
Q Consensus       512 ~~~~~~~~Lr~L~L~~~-~l~-----~lp~~i~~l~~Lr~L~L~~~~i~-----~lp~~i~~~L~~L~~L~L~~~~l~~-  579 (821)
                      .++..-+.|+.|+|+++ .+.     .+-..+..-++|+.|+|++|.|.     .+-..+. .-+.|++|+|++|.|.. 
T Consensus        35 ~ll~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~-~N~tL~~L~L~~N~Ig~~  113 (197)
T 1pgv_A           35 RLREDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIE-TSPSLRVLNVESNFLTPE  113 (197)
T ss_dssp             HHHTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHH-HCSSCCEEECCSSBCCHH
T ss_pred             HHHhcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHh-cCCccCeEecCCCcCCHH
Confidence            33444455555555553 443     23333444455555555555544     2333333 34455555555554432 


Q ss_pred             ----chhhhccCccCceeecCC
Q 045113          580 ----TADEFWKMKKLRHLNFGS  597 (821)
Q Consensus       580 ----lp~~i~~l~~L~~L~L~~  597 (821)
                          +-..+..-+.|++|+|++
T Consensus       114 Ga~ala~aL~~N~tL~~L~L~n  135 (197)
T 1pgv_A          114 LLARLLRSTLVTQSIVEFKADN  135 (197)
T ss_dssp             HHHHHHHHTTTTCCCSEEECCC
T ss_pred             HHHHHHHHHhhCCceeEEECCC
Confidence                222333334455555543

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.77  E-value=0.0075  Score=65.55  Aligned_cols=91  Identities=16%  Similarity=0.164  Sum_probs=57.8

Q ss_pred             CCCCCeeechhhHHHHHHHHhc-----------CCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC--
Q 045113          164 FKNRDTVGLDDRMEELLDLLIE-----------GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY--  230 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~-----------~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~--  230 (821)
                      +.-.++.|.++.+++|.+.+.-           +-...+=|-++|.+|.|||+||+++.+  +....|   +.|..+.  
T Consensus       206 vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~--e~~~~f---i~vs~s~L~  280 (467)
T 4b4t_H          206 VTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVAN--RTDATF---IRVIGSELV  280 (467)
T ss_dssp             CCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHH--HHTCEE---EEEEGGGGC
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHh--ccCCCe---EEEEhHHhh
Confidence            3345789999999998876532           223467788999999999999999998  444443   3333222  


Q ss_pred             --CCCH-HHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCC
Q 045113          231 --TCYA-DQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVW  271 (821)
Q Consensus       231 --~~~~-~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~  271 (821)
                        .... .+..+.++.            ..-...+++|++|+++
T Consensus       281 sk~vGesek~ir~lF~------------~Ar~~aP~IIfiDEiD  312 (467)
T 4b4t_H          281 QKYVGEGARMVRELFE------------MARTKKACIIFFDEID  312 (467)
T ss_dssp             CCSSSHHHHHHHHHHH------------HHHHTCSEEEEEECCT
T ss_pred             cccCCHHHHHHHHHHH------------HHHhcCCceEeecccc
Confidence              1111 122222211            1223578999999996

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=95.76  E-value=0.015  Score=65.88  Aligned_cols=46  Identities=20%  Similarity=0.270  Sum_probs=36.0

Q ss_pred             CCeeechhhHHHHHHHHhc----CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIE----GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~----~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+++|.+.-.+.+.+.+.-    ......++.++|.+|+||||||+.+..
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~  130 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAK  130 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHH
Confidence            4588988888887665532    122466899999999999999999997

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.73  E-value=0.0095  Score=64.74  Aligned_cols=91  Identities=19%  Similarity=0.153  Sum_probs=57.9

Q ss_pred             CCCCCeeechhhHHHHHHHHhc-----------CCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC
Q 045113          164 FKNRDTVGLDDRMEELLDLLIE-----------GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC  232 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~-----------~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~  232 (821)
                      +.-.++.|.++.+++|.+.+..           +-...+=|-++|++|.|||+||+++.+  +....|   +.|..+.-.
T Consensus       169 v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~--~~~~~~---~~v~~~~l~  243 (428)
T 4b4t_K          169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVAN--STKAAF---IRVNGSEFV  243 (428)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHH--HHTCEE---EEEEGGGTC
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHH--HhCCCe---EEEecchhh
Confidence            3345789999999998887653           223456788999999999999999998  444333   334433221


Q ss_pred             ----C-HHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCC
Q 045113          233 ----Y-ADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVW  271 (821)
Q Consensus       233 ----~-~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~  271 (821)
                          . ....+++++.            ..-...+++|++|+++
T Consensus       244 ~~~~Ge~e~~ir~lF~------------~A~~~aP~IifiDEiD  275 (428)
T 4b4t_K          244 HKYLGEGPRMVRDVFR------------LARENAPSIIFIDEVD  275 (428)
T ss_dssp             CSSCSHHHHHHHHHHH------------HHHHTCSEEEEEECTH
T ss_pred             ccccchhHHHHHHHHH------------HHHHcCCCeeechhhh
Confidence                1 1122222221            1223578999999985

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=95.64  E-value=0.032  Score=65.43  Aligned_cols=93  Identities=17%  Similarity=0.184  Sum_probs=57.8

Q ss_pred             CCCCCeeechhhHHHHHHHHhc----C-------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC
Q 045113          164 FKNRDTVGLDDRMEELLDLLIE----G-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC  232 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~----~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~  232 (821)
                      +.-.++.|.++.+++|.+++.-    +       -...+-|-++|.+|.|||+||+++++  +...+|   +.|..+   
T Consensus       201 v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~--elg~~~---~~v~~~---  272 (806)
T 3cf2_A          201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN--ETGAFF---FLINGP---  272 (806)
T ss_dssp             CCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHT--TTTCEE---EEEEHH---
T ss_pred             CChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHH--HhCCeE---EEEEhH---
Confidence            3345688999999888877642    1       12457789999999999999999998  444443   333321   


Q ss_pred             CHHHHHHHHHHHhCCchh--HHH-HHHHhCCCcEEEEEecCC
Q 045113          233 YADQILDIIIKFLMPSSR--LII-LHEYLMTKRYLIVIDDVW  271 (821)
Q Consensus       233 ~~~~~~~~i~~~l~~~~~--~~~-l~~~l~~kr~LlVlDdv~  271 (821)
                             ++.....+..+  ... +....+..+.+|+||+++
T Consensus       273 -------~l~sk~~gese~~lr~lF~~A~~~~PsIIfIDEiD  307 (806)
T 3cf2_A          273 -------EIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELD  307 (806)
T ss_dssp             -------HHHSSCTTHHHHHHHHHHHHHTTSCSEEEEEESGG
T ss_pred             -------HhhcccchHHHHHHHHHHHHHHHcCCeEEEEehhc
Confidence                   11111111111  122 222335678999999996

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.57  E-value=0.015  Score=69.11  Aligned_cols=46  Identities=15%  Similarity=0.261  Sum_probs=37.6

Q ss_pred             CCeeechhhHHHHHHHHhcCC-------CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGP-------PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~-------~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|.+..++.+...+....       .....+-++|.+|+|||++|+.+.+
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~  543 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAE  543 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHH
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999888886421       1234799999999999999999987

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=95.49  E-value=0.041  Score=54.97  Aligned_cols=66  Identities=12%  Similarity=0.005  Sum_probs=41.1

Q ss_pred             HHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc----ccceeEEEEcCCCCCHHHHHHHHHHHhC
Q 045113          180 LDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH----YFDCHAWVQEPYTCYADQILDIIIKFLM  246 (821)
Q Consensus       180 ~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~----~F~~~~wv~~s~~~~~~~~~~~i~~~l~  246 (821)
                      -++|..+=+.-.++.|+|.+|+|||||+..+........    .-..++|+.....+....+. .++..++
T Consensus        14 D~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g   83 (243)
T 1n0w_A           14 DKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYG   83 (243)
T ss_dssp             HHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTT
T ss_pred             HHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcC
Confidence            333433322356999999999999999999876211111    13578899877766655443 3344443

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.45  E-value=0.0096  Score=64.76  Aligned_cols=55  Identities=22%  Similarity=0.270  Sum_probs=41.6

Q ss_pred             CCCCCeeechhhHHHHHHHHhc----C-------CCCceEEEEEcCCCChHHHHHHHHhcCccccccc
Q 045113          164 FKNRDTVGLDDRMEELLDLLIE----G-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF  220 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~----~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F  220 (821)
                      +.-.++.|.++.+++|.+.+..    +       -...+=|-++|++|.|||.||+++.+  +....|
T Consensus       178 ~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~--e~~~~f  243 (434)
T 4b4t_M          178 ETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAA--QTNATF  243 (434)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHH--HHTCEE
T ss_pred             CChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHH--HhCCCE
Confidence            3445799999999998876542    1       23467788999999999999999998  444333

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.41  E-value=0.013  Score=63.01  Aligned_cols=55  Identities=18%  Similarity=0.178  Sum_probs=41.4

Q ss_pred             CCCCCeeechhhHHHHHHHHhc----C-------CCCceEEEEEcCCCChHHHHHHHHhcCccccccc
Q 045113          164 FKNRDTVGLDDRMEELLDLLIE----G-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF  220 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~----~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F  220 (821)
                      +.-.++.|.++.+++|.+.+..    +       -...+=|-++|++|.|||.||+++.+  +....|
T Consensus       179 v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~--e~~~~f  244 (437)
T 4b4t_I          179 ESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVAN--QTSATF  244 (437)
T ss_dssp             CCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHH--HHTCEE
T ss_pred             CcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHH--HhCCCE
Confidence            3345788999999998776643    1       13457789999999999999999998  444433

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.17  E-value=0.014  Score=57.18  Aligned_cols=38  Identities=16%  Similarity=0.170  Sum_probs=29.0

Q ss_pred             hHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          175 RMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       175 ~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.++|.+.+......-.+|+|+|..|.|||||++.+..
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34555555544334578999999999999999999886

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=95.16  E-value=0.065  Score=56.32  Aligned_cols=66  Identities=15%  Similarity=0.094  Sum_probs=43.5

Q ss_pred             HHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccc----cceeEEEEcCCCCCHHHHHHHHHHHhCC
Q 045113          181 DLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHY----FDCHAWVQEPYTCYADQILDIIIKFLMP  247 (821)
Q Consensus       181 ~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~----F~~~~wv~~s~~~~~~~~~~~i~~~l~~  247 (821)
                      ..|..+=+.-.++.|+|.+|+||||||..+.........    =..++|++....++..++.+ +++.++.
T Consensus        98 ~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~  167 (324)
T 2z43_A           98 GLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGL  167 (324)
T ss_dssp             HHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTC
T ss_pred             HhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCC
Confidence            334333233569999999999999999888753211111    24789999888887776654 3455544

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.15  E-value=0.019  Score=55.83  Aligned_cols=41  Identities=20%  Similarity=0.128  Sum_probs=33.3

Q ss_pred             chhhHHHHHHHHhcC-CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          172 LDDRMEELLDLLIEG-PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       172 r~~~~~~i~~~L~~~-~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      |+..++++.+.+... .....+|+|.|..|+||||+++.+..
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            556777888888753 33568999999999999999999886

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=95.08  E-value=0.01  Score=62.88  Aligned_cols=46  Identities=24%  Similarity=0.216  Sum_probs=36.4

Q ss_pred             CCeeechhhHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEG---PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~---~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|.+..++.+...+..+   ......+.++|.+|+||||||+.+.+
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~   73 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIAS   73 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            45788888888776666542   23356799999999999999999998

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=95.07  E-value=0.24  Score=48.96  Aligned_cols=51  Identities=14%  Similarity=0.125  Sum_probs=32.3

Q ss_pred             HHHHHHhCCCcEEEEEecCCCH---HHHHHHHHh-CCCCCCCcEEEEEecchhhh
Q 045113          252 IILHEYLMTKRYLIVIDDVWSI---EVWDIIREI-LPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       252 ~~l~~~l~~kr~LlVlDdv~~~---~~~~~l~~~-l~~~~~gs~iiiTtr~~~v~  302 (821)
                      -.+.+.|-.++-+++||..-..   ..-..+... +.....|..||++|.+...+
T Consensus       139 v~lAral~~~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~~tvi~vtH~~~~~  193 (229)
T 2pze_A          139 ISLARAVYKDADLYLLDSPFGYLDVLTEKEIFESCVCKLMANKTRILVTSKMEHL  193 (229)
T ss_dssp             HHHHHHHHSCCSEEEEESTTTTSCHHHHHHHHHHCCCCCTTTSEEEEECCCHHHH
T ss_pred             HHHHHHHhcCCCEEEEECcccCCCHHHHHHHHHHHHHHhhCCCEEEEEcCChHHH
Confidence            3455666677789999998643   334445443 23333467788888876655

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=95.07  E-value=0.11  Score=51.63  Aligned_cols=24  Identities=13%  Similarity=0.277  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|+|||||++.+..-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            459999999999999999999873

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=95.06  E-value=0.035  Score=53.06  Aligned_cols=108  Identities=13%  Similarity=-0.023  Sum_probs=58.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC---CCCHHHHHHHHHH-------Hh--CCc---hh----
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY---TCYADQILDIIIK-------FL--MPS---SR----  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~---~~~~~~~~~~i~~-------~l--~~~---~~----  250 (821)
                      -..|-|++-.|.||||.|-.+.-  +..++=-.+.++...+   ......+++.+.-       ..  ...   .+    
T Consensus        28 ~g~i~v~tG~GkGKTTaA~Glal--RA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a  105 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAA--RAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAAC  105 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHH--HHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH--HHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHH
Confidence            34566667777999999877665  2222211334443332   2233333333200       00  000   01    


Q ss_pred             ---HHHHHHHhCCCcE-EEEEecCCCH-----HHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          251 ---LIILHEYLMTKRY-LIVIDDVWSI-----EVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       251 ---~~~l~~~l~~kr~-LlVlDdv~~~-----~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                         ...+.+.+.+.+| |||||++-..     ...+++...+........||+|+|..
T Consensus       106 ~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          106 MAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence               5666677766555 9999998432     23344544444444567899999986

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=95.02  E-value=0.046  Score=57.85  Aligned_cols=88  Identities=22%  Similarity=0.106  Sum_probs=54.0

Q ss_pred             HHHHHHHh-cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh-----
Q 045113          177 EELLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR-----  250 (821)
Q Consensus       177 ~~i~~~L~-~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~-----  250 (821)
                      ..+-..|. .+=+.-.++.|+|.+|+||||||..+...  ....=..++|++....++..     .++.++...+     
T Consensus        47 ~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~--~~~~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~  119 (356)
T 3hr8_A           47 LAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAE--AQKMGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLIS  119 (356)
T ss_dssp             HHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHH--HHHTTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEE
T ss_pred             HHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEecccccchH-----HHHHcCCchhhhhhh
Confidence            34444454 34334679999999999999999998863  22222357888887777654     3444443311     


Q ss_pred             --------HHHHHHHhC-CCcEEEEEecCC
Q 045113          251 --------LIILHEYLM-TKRYLIVIDDVW  271 (821)
Q Consensus       251 --------~~~l~~~l~-~kr~LlVlDdv~  271 (821)
                              ...+...++ .+.-++|+|.+.
T Consensus       120 ~~~~~e~~l~~~~~l~~~~~~dlvVIDSi~  149 (356)
T 3hr8_A          120 QPDHGEQALEIVDELVRSGVVDLIVVDSVA  149 (356)
T ss_dssp             CCSSHHHHHHHHHHHHHTSCCSEEEEECTT
T ss_pred             hccCHHHHHHHHHHHhhhcCCCeEEehHhh
Confidence                    222333332 455689999874

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=95.01  E-value=0.12  Score=54.82  Aligned_cols=67  Identities=13%  Similarity=0.051  Sum_probs=44.4

Q ss_pred             HHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc----ccceeEEEEcCCCCCHHHHHHHHHHHhCC
Q 045113          180 LDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH----YFDCHAWVQEPYTCYADQILDIIIKFLMP  247 (821)
Q Consensus       180 ~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~----~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  247 (821)
                      -.+|..+=+.-.++.|+|.+|+||||||..+........    .=..++|++....++...+.+ ++..++.
T Consensus       112 D~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~  182 (343)
T 1v5w_A          112 DKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNV  182 (343)
T ss_dssp             HHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTC
T ss_pred             HHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCC
Confidence            333434434467999999999999999998876322211    224788999988888776654 3444443

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=94.94  E-value=0.028  Score=67.63  Aligned_cols=128  Identities=15%  Similarity=0.190  Sum_probs=68.1

Q ss_pred             CeeechhhHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC---HHHH
Q 045113          168 DTVGLDDRMEELLDLLIEG-------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY---ADQI  237 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~---~~~~  237 (821)
                      .++|.+..++.+...+...       ......+.|+|.+|+|||++|+.+.+  .....=...+.+..+.-..   ...+
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~--~~~~~~~~~i~i~~~~~~~~~~~s~l  636 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAA--TLFDTEEAMIRIDMTEYMEKHAVSRL  636 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHH--HHHSSGGGEEEECTTTCCSSGGGGGC
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHH--HhcCCCCcEEEEechhccchhHHHHH
Confidence            5799999999988877542       11246889999999999999999987  2211111233444433221   1111


Q ss_pred             HHHHHHHhCCchhHHHHHHHhC-CCcEEEEEecCCC--HHHHHHHHHhCCCCC-----------CCcEEEEEecc
Q 045113          238 LDIIIKFLMPSSRLIILHEYLM-TKRYLIVIDDVWS--IEVWDIIREILPDNQ-----------NGSRVLITLAK  298 (821)
Q Consensus       238 ~~~i~~~l~~~~~~~~l~~~l~-~kr~LlVlDdv~~--~~~~~~l~~~l~~~~-----------~gs~iiiTtr~  298 (821)
                      ...-....+... ...+...+. ...-+|+||++..  .+..+.+...+..+.           .+..||+||..
T Consensus       637 ~g~~~~~~G~~~-~g~l~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~tsn~  710 (854)
T 1qvr_A          637 IGAPPGYVGYEE-GGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNL  710 (854)
T ss_dssp             ---------------CHHHHHHHCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCT
T ss_pred             cCCCCCCcCccc-cchHHHHHHhCCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEecCc
Confidence            100000001100 112222222 2346899999964  345666666555331           24457777763

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=94.93  E-value=0.011  Score=61.72  Aligned_cols=46  Identities=15%  Similarity=0.187  Sum_probs=37.1

Q ss_pred             CCeeechhhHHHHHHHHhcC------------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEG------------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~------------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|.+..++.+...+...            ......+-++|.+|+|||++|+.+.+
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            45899999999998888641            11245678999999999999999987

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=94.93  E-value=0.069  Score=56.06  Aligned_cols=66  Identities=12%  Similarity=0.060  Sum_probs=44.0

Q ss_pred             HHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc---------cc-----ceeEEEEcCCCCCHHHHHHHHHHHhC
Q 045113          181 DLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH---------YF-----DCHAWVQEPYTCYADQILDIIIKFLM  246 (821)
Q Consensus       181 ~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~---------~F-----~~~~wv~~s~~~~~~~~~~~i~~~l~  246 (821)
                      .+|..+=+.-.++-|+|.+|+||||||..+........         ..     ..++|++....++..++.+. ++.++
T Consensus        89 ~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~~-~~~~g  167 (322)
T 2i1q_A           89 SVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQM-AEHAG  167 (322)
T ss_dssp             HHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHH-HHHHT
T ss_pred             HhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHHH-HHHcC
Confidence            33433323467999999999999999988775321111         11     47899999888887776643 44554


Q ss_pred             C
Q 045113          247 P  247 (821)
Q Consensus       247 ~  247 (821)
                      .
T Consensus       168 ~  168 (322)
T 2i1q_A          168 I  168 (322)
T ss_dssp             C
T ss_pred             C
Confidence            3

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=94.80  E-value=0.13  Score=52.89  Aligned_cols=73  Identities=11%  Similarity=0.119  Sum_probs=49.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCccccccc--ceeEEEEcCCCCCHHHHHHHHHHHhCCchh---------H----HHHHH
Q 045113          192 AVTILDSIGLDKTAFAAEAYSGNYVKHYF--DCHAWVQEPYTCYADQILDIIIKFLMPSSR---------L----IILHE  256 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~~~~~~~F--~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~---------~----~~l~~  256 (821)
                      ++-|.|.+|+||||||..+..  .....+  ..++||+....++..     .+++++...+         .    ..+.+
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~--~~~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~  102 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVS--SYMRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVN  102 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHH--HHHHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH--HHHhcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHH
Confidence            789999999999999988765  233222  468899988888754     3666665432         1    22222


Q ss_pred             Hh----CCCcEEEEEecCC
Q 045113          257 YL----MTKRYLIVIDDVW  271 (821)
Q Consensus       257 ~l----~~kr~LlVlDdv~  271 (821)
                      .+    ..+.-+||+|-|-
T Consensus       103 ~l~~i~~~~~~lvVIDSI~  121 (333)
T 3io5_A          103 QLDAIERGEKVVVFIDSLG  121 (333)
T ss_dssp             HHHTCCTTCCEEEEEECST
T ss_pred             HHHHhhccCceEEEEeccc
Confidence            32    3467799999884

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=94.78  E-value=0.011  Score=60.26  Aligned_cols=47  Identities=21%  Similarity=0.290  Sum_probs=35.8

Q ss_pred             CCCeeechhhHHHHHHHHhc----------CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLIE----------GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~----------~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|.+..++.+.+.+..          +....+-+.++|.+|+|||+||+.+++
T Consensus        10 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~   66 (268)
T 2r62_A           10 FKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAG   66 (268)
T ss_dssp             STTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHH
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHH
Confidence            35699999998888776641          111123477999999999999999998

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=94.63  E-value=0.18  Score=49.62  Aligned_cols=47  Identities=13%  Similarity=0.157  Sum_probs=32.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCccc---cc-ccceeEEEEcCCCCCHH
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYV---KH-YFDCHAWVQEPYTCYAD  235 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~---~~-~F~~~~wv~~s~~~~~~  235 (821)
                      .-.+++|+|..|+|||||++.+......   .. .-..++|+.-...+...
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~   74 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPE   74 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHH
Confidence            3579999999999999999998752111   11 23457888765554443

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=94.59  E-value=0.0095  Score=63.40  Aligned_cols=106  Identities=14%  Similarity=0.176  Sum_probs=61.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeE-EEEcCCCCCHHHHHHHHHHH--hCCc-hh-HHHHHHHhCCCcEEE
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHA-WVQEPYTCYADQILDIIIKF--LMPS-SR-LIILHEYLMTKRYLI  265 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~-wv~~s~~~~~~~~~~~i~~~--l~~~-~~-~~~l~~~l~~kr~Ll  265 (821)
                      .+|+|+|..|+|||||.+.+..  .+.......+ .+.-.-.+..... ..+..+  .... .. ...+...|...+=+|
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g--~~~~~~~~~i~t~ed~~e~~~~~~-~~~v~q~~~~~~~~~~~~~La~aL~~~Pdvi  200 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLD--YLNNTKYHHILTIEDPIEFVHESK-KCLVNQREVHRDTLGFSEALRSALREDPDII  200 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH--HHHHHCCCEEEEEESSCCSCCCCS-SSEEEEEEBTTTBSCHHHHHHHHTTSCCSEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHh--cccCCCCcEEEEccCcHHhhhhcc-ccceeeeeeccccCCHHHHHHHHhhhCcCEE
Confidence            4999999999999999998876  2222112222 2211111100000 000000  0000 00 567888888899999


Q ss_pred             EEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          266 VIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       266 VlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      ++|.+.+.+.++.+....   ..|.-||+||...+.+
T Consensus       201 llDEp~d~e~~~~~~~~~---~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          201 LVGEMRDLETIRLALTAA---ETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             EESCCCSHHHHHHHHHHH---HTTCEEEEEESCSSHH
T ss_pred             ecCCCCCHHHHHHHHHHH---hcCCEEEEEEccChHH
Confidence            999999877776655442   2366689998766655

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=94.55  E-value=0.044  Score=52.56  Aligned_cols=111  Identities=11%  Similarity=0.003  Sum_probs=57.7

Q ss_pred             CCCCceEEEeecC-CCCccchhhhHHhhccCCceeEEEeCCCCCC-----cccccccCCCCceEEeecCCCCc-----cc
Q 045113          488 YYPHLHSLLYFTS-ESDHLDHIDWQKICEMYKLLRVLDLGSLVLN-----QYPSEIENLSLLRYLKLNIPSLK-----SL  556 (821)
Q Consensus       488 ~~~~LrsL~l~~~-~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~-----~lp~~i~~l~~Lr~L~L~~~~i~-----~l  556 (821)
                      ..+.|++|.+.++ .........+...+..-+.|+.|+|++|.+.     .+...+..-+.|++|+|++|.|.     .+
T Consensus        39 ~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~al  118 (197)
T 1pgv_A           39 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL  118 (197)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             cCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHH
Confidence            4556666666653 3332122234455555566777777777665     23344444556777777776665     22


Q ss_pred             cHHHHhccccceEEecCCc---ccc-----cchhhhccCccCceeecCCcc
Q 045113          557 PLSFFNYLLNLYTLDMPFS---YID-----HTADEFWKMKKLRHLNFGSIT  599 (821)
Q Consensus       557 p~~i~~~L~~L~~L~L~~~---~l~-----~lp~~i~~l~~L~~L~L~~~~  599 (821)
                      -..+. .-+.|++|+|+++   .+.     .+...+..-+.|+.|+++.+.
T Consensus       119 a~aL~-~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~N~tL~~L~l~~~~  168 (197)
T 1pgv_A          119 LRSTL-VTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFAS  168 (197)
T ss_dssp             HHHTT-TTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCCC
T ss_pred             HHHHh-hCCceeEEECCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCCC
Confidence            23333 3345777777644   222     123334444556666665443

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=94.46  E-value=0.018  Score=54.18  Aligned_cols=22  Identities=14%  Similarity=0.001  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|.|++|+||||+|+.+..
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999986

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=94.42  E-value=0.1  Score=61.90  Aligned_cols=46  Identities=15%  Similarity=0.198  Sum_probs=37.1

Q ss_pred             CCeeechhhHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEG-------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|.+..++.+...+...       ......+-++|.+|+|||++|+.+.+
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~  510 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSK  510 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHH
Confidence            46899999998888877532       12345789999999999999999987

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=94.41  E-value=0.025  Score=60.65  Aligned_cols=45  Identities=16%  Similarity=0.113  Sum_probs=36.1

Q ss_pred             CeeechhhHHHHHHHHh-------------cCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          168 DTVGLDDRMEELLDLLI-------------EGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~-------------~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .++|.+..++.+...+.             ........|.++|.+|+|||++|+.+.+
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~   73 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLAR   73 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHH
Confidence            37899999999888883             1112346789999999999999999998

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=94.38  E-value=0.097  Score=55.76  Aligned_cols=89  Identities=17%  Similarity=0.047  Sum_probs=53.3

Q ss_pred             HHHHHHHHh-cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh----
Q 045113          176 MEELLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR----  250 (821)
Q Consensus       176 ~~~i~~~L~-~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~----  250 (821)
                      ...+-..|. .+=+.-.++-|.|.+|+||||||..+...  ....=..++|++....++..     .+..++...+    
T Consensus        59 ~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~--~~~~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i  131 (366)
T 1xp8_A           59 SLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQ--AQKAGGTCAFIDAEHALDPV-----YARALGVNTDELLV  131 (366)
T ss_dssp             CHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHH--HHHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEE
T ss_pred             CHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHH--HHHCCCeEEEEECCCChhHH-----HHHHcCCCHHHcee
Confidence            334444454 23233568889999999999999887762  22222368999988877654     2334433211    


Q ss_pred             ---------HHHHHHHhC-CCcEEEEEecCC
Q 045113          251 ---------LIILHEYLM-TKRYLIVIDDVW  271 (821)
Q Consensus       251 ---------~~~l~~~l~-~kr~LlVlDdv~  271 (821)
                               ...+.+..+ ...-+||+|.+.
T Consensus       132 ~~~~~~e~~l~~l~~l~~~~~~~lVVIDsl~  162 (366)
T 1xp8_A          132 SQPDNGEQALEIMELLVRSGAIDVVVVDSVA  162 (366)
T ss_dssp             ECCSSHHHHHHHHHHHHTTTCCSEEEEECTT
T ss_pred             ecCCcHHHHHHHHHHHHhcCCCCEEEEeChH
Confidence                     233333333 344588888873

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=94.37  E-value=0.037  Score=61.28  Aligned_cols=47  Identities=23%  Similarity=0.130  Sum_probs=36.5

Q ss_pred             CCCeeechhhHHHHHH---HHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLD---LLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~---~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...++|.+..++.+..   ++..+....+-+-++|.+|+|||++|+.+.+
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~   85 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQ   85 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHH
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHH
Confidence            3679999998886544   4444433346788999999999999999998

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=94.29  E-value=0.02  Score=54.17  Aligned_cols=22  Identities=9%  Similarity=0.024  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|+|++|+||||+|+.+.+
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999987

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=94.26  E-value=0.023  Score=54.53  Aligned_cols=24  Identities=13%  Similarity=0.011  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+|+|+|++|+|||||++.+...
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999873

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=94.25  E-value=0.13  Score=55.34  Aligned_cols=69  Identities=12%  Similarity=-0.014  Sum_probs=42.9

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc----cccceeEEEEcCCCCCHHHHHHHHHHHhCC
Q 045113          178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK----HYFDCHAWVQEPYTCYADQILDIIIKFLMP  247 (821)
Q Consensus       178 ~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~----~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  247 (821)
                      .+-++|..+=..-.++.|+|.+|+|||||+..++-.....    ..-..++|++....+....+. .+++.++.
T Consensus       166 ~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~-~~a~~~gl  238 (400)
T 3lda_A          166 NLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFGL  238 (400)
T ss_dssp             HHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTC
T ss_pred             hHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHH-HHHHHcCC
Confidence            3334444442345799999999999999999664211111    123468899887777665543 35555554

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=94.25  E-value=0.2  Score=50.68  Aligned_cols=22  Identities=27%  Similarity=0.261  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+++|+|..|+|||||.+.+..
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~G   52 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISG   52 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            4899999999999999999985

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=94.24  E-value=0.16  Score=53.80  Aligned_cols=63  Identities=17%  Similarity=0.134  Sum_probs=39.0

Q ss_pred             HHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccccc----ceeEEEEcCCCCCHHHHHHHHHHHh
Q 045113          182 LLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF----DCHAWVQEPYTCYADQILDIIIKFL  245 (821)
Q Consensus       182 ~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F----~~~~wv~~s~~~~~~~~~~~i~~~l  245 (821)
                      .|..+=+.-.++.|+|.+|+|||||+..+..........    ..++|++....+....+ ..+++..
T Consensus       123 lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~  189 (349)
T 1pzn_A          123 LLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNR  189 (349)
T ss_dssp             HHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTT
T ss_pred             HhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHc
Confidence            343332346899999999999999999988632111111    24588887666544443 2344443

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.22  E-value=0.046  Score=48.81  Aligned_cols=54  Identities=22%  Similarity=0.223  Sum_probs=39.6

Q ss_pred             eEEEeCCCCCC--cccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcc
Q 045113          521 RVLDLGSLVLN--QYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSY  576 (821)
Q Consensus       521 r~L~L~~~~l~--~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~  576 (821)
                      .+++.++..++  .+|..+.  .+|++|+|++|.|..+|......+++|++|+|++|.
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             CEEEeCCCCCccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCCC
Confidence            36777777777  7775443  357888888888888887665477888888888773

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=94.19  E-value=0.023  Score=55.13  Aligned_cols=23  Identities=13%  Similarity=0.197  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|+|++|+||||+|+.+..
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            56899999999999999999986

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=94.13  E-value=0.046  Score=56.31  Aligned_cols=26  Identities=12%  Similarity=0.034  Sum_probs=23.1

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          187 PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       187 ~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .....+|+|+|..|+||||||+.+..
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            44578999999999999999998876

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=94.05  E-value=0.031  Score=59.02  Aligned_cols=42  Identities=21%  Similarity=0.163  Sum_probs=36.4

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|++..++.+...+..+.    -+-++|.+|+|||+||+.+.+
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~~----~vll~G~pGtGKT~la~~la~   68 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTGG----HILLEGVPGLAKTLSVNTLAK   68 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC----CEEEESCCCHHHHHHHHHHHH
T ss_pred             cceeCcHHHHHHHHHHHHcCC----eEEEECCCCCcHHHHHHHHHH
Confidence            358899999999988887643    578999999999999999987

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=94.03  E-value=0.026  Score=53.44  Aligned_cols=22  Identities=18%  Similarity=0.273  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5789999999999999999986

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=93.98  E-value=0.12  Score=54.78  Aligned_cols=57  Identities=18%  Similarity=0.079  Sum_probs=38.5

Q ss_pred             HHHHHHHh-cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHH
Q 045113          177 EELLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYAD  235 (821)
Q Consensus       177 ~~i~~~L~-~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~  235 (821)
                      ..+-..|. .+=+.-+++.|+|.+|+||||||..+...  ....=..++|++....++..
T Consensus        47 ~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~--~~~~g~~vlyi~~E~~~~~~  104 (349)
T 2zr9_A           47 ISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVAN--AQAAGGIAAFIDAEHALDPE  104 (349)
T ss_dssp             HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHH--HHHTTCCEEEEESSCCCCHH
T ss_pred             HHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCCCcCHH
Confidence            34444454 34234679999999999999999888752  22222367899888776653

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=93.98  E-value=0.043  Score=57.65  Aligned_cols=43  Identities=23%  Similarity=0.257  Sum_probs=32.5

Q ss_pred             eechhhHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          170 VGLDDRMEELLDLLIEG--PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       170 vGr~~~~~~i~~~L~~~--~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      |+.+.-.+++++.+...  .+....|.|+|++|+||||+++.+..
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHH
Confidence            44556667777776532  33467799999999999999998887

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=93.93  E-value=0.042  Score=49.11  Aligned_cols=54  Identities=17%  Similarity=0.177  Sum_probs=44.8

Q ss_pred             eEEeecCCCCc--cccHHHHhccccceEEecCCcccccchh-hhccCccCceeecCCccc
Q 045113          544 RYLKLNIPSLK--SLPLSFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSITL  600 (821)
Q Consensus       544 r~L~L~~~~i~--~lp~~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~  600 (821)
                      ..++.++++++  .+|..+.   .+|++|+|++|.+..+|. .+..+++|+.|+|++|.+
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp---~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFP---VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCC---TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             CEEEeCCCCCccccCCCCCC---cCCCEEECCCCcCCccChhhhhhccccCEEEecCCCe
Confidence            47788888888  8886554   579999999999999976 457799999999998876

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=93.93  E-value=0.042  Score=61.18  Aligned_cols=41  Identities=17%  Similarity=0.140  Sum_probs=36.2

Q ss_pred             CeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          168 DTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .++|.+..++.+...+..+.    -|-++|.+|+|||+||+.+.+
T Consensus        23 ~ivGq~~~i~~l~~al~~~~----~VLL~GpPGtGKT~LAraLa~   63 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSGE----SVFLLGPPGIAKSLIARRLKF   63 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHTC----EEEEECCSSSSHHHHHHHGGG
T ss_pred             hhHHHHHHHHHHHHHHhcCC----eeEeecCchHHHHHHHHHHHH
Confidence            48899999999888887654    688999999999999999998

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=93.88  E-value=0.03  Score=57.27  Aligned_cols=47  Identities=23%  Similarity=0.184  Sum_probs=33.3

Q ss_pred             CCCCeeechhhHHHHHHHHhcC------------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          165 KNRDTVGLDDRMEELLDLLIEG------------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~------------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.++.|.++.+++|.+.+...            ..... +.++|.+|+||||||+.+..
T Consensus         8 ~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~G-vlL~Gp~GtGKTtLakala~   66 (274)
T 2x8a_A            8 TWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAG-VLLAGPPGCGKTLLAKAVAN   66 (274)
T ss_dssp             ----CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSE-EEEESSTTSCHHHHHHHHHH
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCe-EEEECCCCCcHHHHHHHHHH
Confidence            3456889999888887755321            11122 99999999999999999997

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=93.79  E-value=0.026  Score=53.17  Aligned_cols=22  Identities=9%  Similarity=0.277  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|+|+|+.|+||||+++.+..
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999987

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=93.76  E-value=0.12  Score=54.91  Aligned_cols=58  Identities=16%  Similarity=0.015  Sum_probs=39.0

Q ss_pred             HHHHHHHHh-cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHH
Q 045113          176 MEELLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYAD  235 (821)
Q Consensus       176 ~~~i~~~L~-~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~  235 (821)
                      ...+-.+|. .+=+.-+++.|.|.+|+||||||..+...  ....=..++|++....++..
T Consensus        48 ~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~--~~~~g~~vlyid~E~s~~~~  106 (356)
T 1u94_A           48 SLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAA--AQREGKTCAFIDAEHALDPI  106 (356)
T ss_dssp             CHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEEESSCCCCHH
T ss_pred             CHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEeCCCCccHH
Confidence            334444454 33234579999999999999999888762  22222368899988777643

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=93.75  E-value=0.03  Score=52.49  Aligned_cols=24  Identities=17%  Similarity=0.300  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|+|.|+.|+||||+|+.+..
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHH
Confidence            368999999999999999999987

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=93.69  E-value=0.036  Score=55.94  Aligned_cols=47  Identities=21%  Similarity=0.267  Sum_probs=33.2

Q ss_pred             CCCeeechhhHHHHHHHHhc--C-------C-CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLIE--G-------P-PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~--~-------~-~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|.+..+.++.+....  .       . .-.+-+.|+|.+|+||||||+.+..
T Consensus        15 ~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~   71 (254)
T 1ixz_A           15 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG   71 (254)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHH
Confidence            34688988777776554431  1       0 0112289999999999999999997

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=93.67  E-value=0.031  Score=53.26  Aligned_cols=23  Identities=17%  Similarity=0.362  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+.|.|+|++|+||||+|+.+..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999986

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=93.65  E-value=0.034  Score=52.88  Aligned_cols=23  Identities=9%  Similarity=0.235  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -++++|+|..|+|||||++.+..
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~   27 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLIT   27 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            36899999999999999999986

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=93.60  E-value=0.047  Score=51.44  Aligned_cols=23  Identities=22%  Similarity=0.226  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|+|+|+.|+||||+++.+..
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            57899999999999999999876

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=93.57  E-value=0.0098  Score=56.95  Aligned_cols=102  Identities=14%  Similarity=0.014  Sum_probs=48.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC--CCCHHHHHHHHHHHhCCc------hhHHHHHHHhCCCc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY--TCYADQILDIIIKFLMPS------SRLIILHEYLMTKR  262 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~--~~~~~~~~~~i~~~l~~~------~~~~~l~~~l~~kr  262 (821)
                      .++.|+|..|+||||++..+....... ... ++.+....  .+...    .+...++..      .+...+.+.+.++.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~-g~~-v~~~~~~~d~r~~~~----~i~s~~g~~~~~~~~~~~~~~~~~~~~~~   77 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLG-KKK-VAVFKPKIDSRYHST----MIVSHSGNGVEAHVIERPEEMRKYIEEDT   77 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT-TCE-EEEEEEC-----CCC----EECC----CEECEEESSGGGGGGGCCTTE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHC-CCe-EEEEeeccccccCcc----cEEecCCCceeeEEECCHHHHHHHhcCCC
Confidence            478899999999999986555421111 122 22222111  00000    000000100      01233334444456


Q ss_pred             EEEEEecCCCH-HHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          263 YLIVIDDVWSI-EVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       263 ~LlVlDdv~~~-~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      -+|++|.+... .+|......+.+.  |..|++|.+..+
T Consensus        78 dvviIDE~Q~~~~~~~~~l~~l~~~--~~~Vi~~Gl~~~  114 (184)
T 2orw_A           78 RGVFIDEVQFFNPSLFEVVKDLLDR--GIDVFCAGLDLT  114 (184)
T ss_dssp             EEEEECCGGGSCTTHHHHHHHHHHT--TCEEEEEEESBC
T ss_pred             CEEEEECcccCCHHHHHHHHHHHHC--CCCEEEEeeccc
Confidence            69999998643 2343333222222  678999877543

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=93.56  E-value=0.034  Score=53.26  Aligned_cols=22  Identities=14%  Similarity=0.114  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|.|++|+||||+|+.+.+
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999987

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=93.44  E-value=0.17  Score=54.99  Aligned_cols=81  Identities=15%  Similarity=0.209  Sum_probs=55.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccc-ccccceeEEEEcCCCCC-HHHHHHHHHHH--hC------Cc------hh---
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYV-KHYFDCHAWVQEPYTCY-ADQILDIIIKF--LM------PS------SR---  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~~F~~~~wv~~s~~~~-~~~~~~~i~~~--l~------~~------~~---  250 (821)
                      -..++|+|..|+|||+|++.+.+  .+ +.+-+.++++-+.+... +.++.+++.+.  +.      ..      .+   
T Consensus       153 GQr~~Ifgg~G~GKT~L~~~i~~--~~~~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtvvV~~t~d~p~  230 (482)
T 2ck3_D          153 GGKIGLFGGAGVGKTVLIMELIN--NVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPP  230 (482)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHH--HTTTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCH
T ss_pred             CCeeeeecCCCCChHHHHHHHHH--hhHhhCCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEEEEEECCCCCH
Confidence            45899999999999999999877  32 23346677887777654 56777777665  21      11      01   


Q ss_pred             ---------HHHHHHHh---CCCcEEEEEecCCC
Q 045113          251 ---------LIILHEYL---MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 ---------~~~l~~~l---~~kr~LlVlDdv~~  272 (821)
                               .-.+.+++   +++.+||++||+..
T Consensus       231 ~~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR  264 (482)
T 2ck3_D          231 GARARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  264 (482)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence                     22333333   57999999999943

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=93.40  E-value=0.04  Score=54.23  Aligned_cols=103  Identities=15%  Similarity=-0.043  Sum_probs=54.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh----------HHHHHHHhC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR----------LIILHEYLM  259 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~----------~~~l~~~l~  259 (821)
                      -.++.|+|..|+||||++..+.+  +...+-..++.+......  + ....+++.++....          ...+.+.+.
T Consensus        12 G~i~litG~mGsGKTT~ll~~~~--r~~~~g~kVli~~~~~d~--r-~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~   86 (223)
T 2b8t_A           12 GWIEFITGPMFAGKTAELIRRLH--RLEYADVKYLVFKPKIDT--R-SIRNIQSRTGTSLPSVEVESAPEILNYIMSNSF   86 (223)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHH--HHHHTTCCEEEEEECCCG--G-GCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTS
T ss_pred             cEEEEEECCCCCcHHHHHHHHHH--HHHhcCCEEEEEEeccCc--h-HHHHHHHhcCCCccccccCCHHHHHHHHHHHhh
Confidence            46888999999999999877776  333222233333222211  1 11233333333211          222333333


Q ss_pred             CCcE-EEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          260 TKRY-LIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       260 ~kr~-LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      +.++ +||+|.+..  .+..+.+.....   .|-.||+|-+..+
T Consensus        87 ~~~~dvViIDEaQ~l~~~~ve~l~~L~~---~gi~Vil~Gl~~d  127 (223)
T 2b8t_A           87 NDETKVIGIDEVQFFDDRICEVANILAE---NGFVVIISGLDKN  127 (223)
T ss_dssp             CTTCCEEEECSGGGSCTHHHHHHHHHHH---TTCEEEEECCSBC
T ss_pred             CCCCCEEEEecCccCcHHHHHHHHHHHh---CCCeEEEEecccc
Confidence            3444 999999853  344444433222   2678998888544

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=93.34  E-value=0.044  Score=52.47  Aligned_cols=22  Identities=14%  Similarity=0.144  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+++|+|+.|+|||||++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4789999999999999999975

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=93.34  E-value=0.031  Score=54.23  Aligned_cols=23  Identities=9%  Similarity=0.201  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|.|+.|+||||+|+.+..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999986

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=93.32  E-value=0.04  Score=53.34  Aligned_cols=23  Identities=22%  Similarity=0.225  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|+|+|+.|+|||||++.+..
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            56999999999999999999986

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=93.30  E-value=0.33  Score=51.38  Aligned_cols=52  Identities=21%  Similarity=0.288  Sum_probs=32.5

Q ss_pred             HHHHHHHhCCCcEEEEEecCCCH---HHHHHHHHhCCC--CCCCcEEEEEecchhhh
Q 045113          251 LIILHEYLMTKRYLIVIDDVWSI---EVWDIIREILPD--NQNGSRVLITLAKIDTV  302 (821)
Q Consensus       251 ~~~l~~~l~~kr~LlVlDdv~~~---~~~~~l~~~l~~--~~~gs~iiiTtr~~~v~  302 (821)
                      .-.|.+.|..++-+|++|..-..   ..-..+...+..  ...|.-||++|.+..++
T Consensus       171 RVaIArAL~~~P~lLLlDEPTs~LD~~~~~~i~~lL~~l~~~~g~Tii~vTHdl~~~  227 (366)
T 3tui_C          171 RVAIARALASNPKVLLCDQATSALDPATTRSILELLKDINRRLGLTILLITHEMDVV  227 (366)
T ss_dssp             HHHHHHHTTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHHHH
T ss_pred             HHHHHHHHhcCCCEEEEECCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEecCHHHH
Confidence            45666778888899999998643   222222222221  12367788888887776

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=93.29  E-value=0.15  Score=55.85  Aligned_cols=81  Identities=12%  Similarity=0.180  Sum_probs=57.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccc-ccccceeEEEEcCCCCC-HHHHHHHHHHH--hC-------Cc------hh--
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYV-KHYFDCHAWVQEPYTCY-ADQILDIIIKF--LM-------PS------SR--  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~-~~~F~~~~wv~~s~~~~-~~~~~~~i~~~--l~-------~~------~~--  250 (821)
                      -..++|.|-.|+|||+|++.+.+  .+ +.+-+.++++-+.+... ..++.+++.+.  +.       ..      .+  
T Consensus       165 Gqr~gIfgg~GvGKT~L~~~l~~--~~a~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtvvV~~t~d~p  242 (498)
T 1fx0_B          165 GGKIGLFGGAGVGKTVLIMELIN--NIAKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEP  242 (498)
T ss_dssp             TCCEEEEECSSSSHHHHHHHHHH--HTTTTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEEEEEECTTSC
T ss_pred             CCeEEeecCCCCCchHHHHHHHH--HHHhhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceEEEEeCCCCC
Confidence            45789999999999999999887  33 23457788888887764 66777777764  21       11      01  


Q ss_pred             ----------HHHHHHHhC---CCcEEEEEecCCC
Q 045113          251 ----------LIILHEYLM---TKRYLIVIDDVWS  272 (821)
Q Consensus       251 ----------~~~l~~~l~---~kr~LlVlDdv~~  272 (821)
                                .-.+.++++   ++.+|+++||+..
T Consensus       243 ~~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR  277 (498)
T 1fx0_B          243 PGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFR  277 (498)
T ss_dssp             HHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence                      344455554   5899999999954

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=93.29  E-value=0.045  Score=57.10  Aligned_cols=24  Identities=8%  Similarity=0.158  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+||+|.|-|||||||.|..+.-
T Consensus        47 ~aKVIAIaGKGGVGKTTtavNLA~   70 (314)
T 3fwy_A           47 GAKVFAVYGKGGIGKSTTSSNLSA   70 (314)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCccCHHHHHHHHHH
Confidence            479999999999999998765554

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=93.28  E-value=0.049  Score=53.01  Aligned_cols=24  Identities=17%  Similarity=0.083  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|+|+|..|+||||+|+.+..
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~   43 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQK   43 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999999987

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=93.28  E-value=0.049  Score=52.70  Aligned_cols=23  Identities=13%  Similarity=0.086  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|.|+|+.|+||||+|+.+..
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            57999999999999999999987

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=93.28  E-value=0.038  Score=53.65  Aligned_cols=22  Identities=18%  Similarity=0.228  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|+|+|+.|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999986

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=93.27  E-value=0.038  Score=58.36  Aligned_cols=87  Identities=13%  Similarity=0.020  Sum_probs=49.0

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc---ccceeEEEEcCCCCC-HHHHHHHHHHHhCCc-----
Q 045113          178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH---YFDCHAWVQEPYTCY-ADQILDIIIKFLMPS-----  248 (821)
Q Consensus       178 ~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~---~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~-----  248 (821)
                      ++++.+..- ..-..++|+|..|+|||||++.+.+  .+..   .++ ++++-+.+... +.++.    +.+...     
T Consensus       163 raID~~~pi-~rGQr~~IvG~sG~GKTtLl~~Iar--~i~~~~~~v~-~I~~lIGER~~Ev~~~~----~~~~~~vV~at  234 (422)
T 3ice_A          163 RVLDLASPI-GRGQRGLIVAPPKAGKTMLLQNIAQ--SIAYNHPDCV-LMVLLIDERPEEVTEMQ----RLVKGEVVAST  234 (422)
T ss_dssp             HHHHHHSCC-BTTCEEEEECCSSSSHHHHHHHHHH--HHHHHCTTSE-EEEEEESSCHHHHHHHH----TTCSSEEEEEC
T ss_pred             eeeeeeeee-cCCcEEEEecCCCCChhHHHHHHHH--HHhhcCCCee-EEEEEecCChHHHHHHH----HHhCeEEEEeC
Confidence            344544431 1246899999999999999998876  2322   233 33455565532 22332    222111     


Q ss_pred             -hh-----------HHHHHHHh--CCCcEEEEEecCCC
Q 045113          249 -SR-----------LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       249 -~~-----------~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                       ++           +-.+.+++  +++.+||++||+..
T Consensus       235 adep~~~r~~~a~~alt~AEyfrd~G~dVLil~DslTR  272 (422)
T 3ice_A          235 FDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITR  272 (422)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCchH
Confidence             00           11122222  58999999999943

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=93.22  E-value=0.044  Score=51.62  Aligned_cols=23  Identities=35%  Similarity=0.566  Sum_probs=20.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||++.++.
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CEEEEEECCCCCCHHHHHHHHcc
Confidence            46899999999999999997554

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=93.21  E-value=0.04  Score=52.68  Aligned_cols=22  Identities=18%  Similarity=0.178  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|.|++|+||||+|+.+..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999987

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=93.21  E-value=0.046  Score=52.36  Aligned_cols=23  Identities=9%  Similarity=0.086  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|.|++|+||||+|+.+..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999986

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=93.20  E-value=0.043  Score=53.21  Aligned_cols=22  Identities=18%  Similarity=0.169  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+++|+|..|+|||||++.+..
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~   29 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVK   29 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECcCCCCHHHHHHHHHh
Confidence            5899999999999999999886

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=93.17  E-value=0.046  Score=52.11  Aligned_cols=23  Identities=22%  Similarity=0.137  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...|.|+|+.|+||||+|+.+.+
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~   32 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAA   32 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999999987

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=93.15  E-value=0.06  Score=57.94  Aligned_cols=46  Identities=13%  Similarity=0.111  Sum_probs=35.5

Q ss_pred             CCeeechhhHHHHHHHHhc----------------------------CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIE----------------------------GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~----------------------------~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|.+..++.|...+..                            .......+-++|.+|+|||++|+.+.+
T Consensus        21 ~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~   94 (376)
T 1um8_A           21 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAK   94 (376)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             hHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHH
Confidence            3578999998888877720                            011245688999999999999999997

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=93.14  E-value=0.046  Score=56.08  Aligned_cols=49  Identities=20%  Similarity=0.258  Sum_probs=34.7

Q ss_pred             CCCCCeeechhhHHHHHHHHhc--C-------C-CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          164 FKNRDTVGLDDRMEELLDLLIE--G-------P-PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~--~-------~-~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..-.+++|.+..++++.+....  .       . .-.+-+.|+|.+|+||||||+.+..
T Consensus        37 ~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~   95 (278)
T 1iy2_A           37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG   95 (278)
T ss_dssp             CCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHH
Confidence            3345789998887776655432  1       0 0112289999999999999999998

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=93.13  E-value=0.059  Score=53.99  Aligned_cols=39  Identities=15%  Similarity=0.008  Sum_probs=28.1

Q ss_pred             hhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          174 DRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       174 ~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+.++............+|.|.|++|+||||+|+.+.+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           13 DLLNELKRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             HHHHHHHHHHHHHTSCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            344444444433333467899999999999999999976

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=93.12  E-value=0.093  Score=51.00  Aligned_cols=22  Identities=14%  Similarity=-0.006  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|.|++|+||||+|+.+.+
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5899999999999999999987

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=93.12  E-value=0.047  Score=55.09  Aligned_cols=24  Identities=8%  Similarity=0.073  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|+|.|+.|+||||+|+.+..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999876

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=93.11  E-value=0.042  Score=53.16  Aligned_cols=21  Identities=24%  Similarity=0.482  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|+|.|+.|+||||+|+.+.+
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            689999999999999999987

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=93.08  E-value=0.037  Score=52.53  Aligned_cols=23  Identities=26%  Similarity=0.374  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|+|++|+||||+|+.+.+
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH
Confidence            45788999999999999999986

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=93.07  E-value=0.052  Score=52.62  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|+|.|+.|+||||+|+.+.+
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999986

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=93.05  E-value=0.051  Score=52.79  Aligned_cols=22  Identities=27%  Similarity=0.200  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|+|+|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999976

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=93.04  E-value=0.05  Score=52.59  Aligned_cols=25  Identities=28%  Similarity=0.223  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ....+|+|+|+.|+||||+|+.+..
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999999999999987

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=93.02  E-value=0.08  Score=54.49  Aligned_cols=38  Identities=24%  Similarity=0.362  Sum_probs=27.7

Q ss_pred             hHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          175 RMEELLDLLIEG---PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       175 ~~~~i~~~L~~~---~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++++..+..+   .....+|.|.|++|+||||+|+.+..
T Consensus        15 ~~~~~~~~~l~~~~~~~~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           15 RLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             HHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            344444444443   23467899999999999999999986

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=92.99  E-value=0.44  Score=51.78  Aligned_cols=24  Identities=17%  Similarity=0.140  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|.++|.+|+||||++..+..
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~  122 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLAR  122 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHH
Confidence            478999999999999999887775

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=92.98  E-value=0.038  Score=52.15  Aligned_cols=22  Identities=14%  Similarity=0.258  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +.|.|+|++|+||||+|+.+..
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999999986

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=92.90  E-value=0.051  Score=52.10  Aligned_cols=23  Identities=22%  Similarity=0.134  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|.|++|+||||+|+.+..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999876

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=92.90  E-value=0.05  Score=54.91  Aligned_cols=22  Identities=18%  Similarity=0.015  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|+|++|+||||||+.+..
T Consensus         2 ~li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            5789999999999999999876

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=92.89  E-value=0.053  Score=51.41  Aligned_cols=22  Identities=18%  Similarity=0.267  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .++|+|..|+|||||++.+...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998863

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=92.88  E-value=0.051  Score=52.71  Aligned_cols=23  Identities=9%  Similarity=0.147  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|+|+|+.|+||||+++.+..
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~   28 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFE   28 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999987

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=92.86  E-value=0.12  Score=56.38  Aligned_cols=80  Identities=11%  Similarity=0.194  Sum_probs=49.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCccccccc-ceeEEEEcCCCC-CHHHHHHHHHHHhCC---------chh---------
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYF-DCHAWVQEPYTC-YADQILDIIIKFLMP---------SSR---------  250 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F-~~~~wv~~s~~~-~~~~~~~~i~~~l~~---------~~~---------  250 (821)
                      +.++|+|..|+|||||++.+..+  ....+ +.++++-+.+.. ...++.+++...-..         ..+         
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~--~~~~~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~  229 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHN--IAQEHGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVA  229 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHH--HHHHTCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhh--hhhccCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHH
Confidence            36899999999999999998873  33222 455666666654 344555555432000         000         


Q ss_pred             --HHHHHHHh---CCCcEEEEEecCCC
Q 045113          251 --LIILHEYL---MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 --~~~l~~~l---~~kr~LlVlDdv~~  272 (821)
                        .-.+.+++   +++++|+++||+-.
T Consensus       230 ~~~ltiAEyFrd~~G~~VLl~~D~itR  256 (473)
T 1sky_E          230 LTGLTMAEYFRDEQGQDGLLFIDNIFR  256 (473)
T ss_dssp             HHHHHHHHHHHHHSCCEEEEEEECTHH
T ss_pred             HHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence              11233333   58999999999943

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=92.84  E-value=0.052  Score=52.14  Aligned_cols=23  Identities=9%  Similarity=0.107  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|.|++|+||||+|+.+.+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999986

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=92.83  E-value=0.084  Score=51.99  Aligned_cols=36  Identities=19%  Similarity=0.236  Sum_probs=26.7

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .+.+...+...  ...+|.|+|.+|+|||||+..+...
T Consensus        26 a~~~r~~~~~~--~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           26 ADKNRKLLNKH--GVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             HHHHHHHHHHT--TCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC--CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            34444444333  4789999999999999999988863

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=92.83  E-value=0.058  Score=52.61  Aligned_cols=23  Identities=17%  Similarity=0.076  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|+|+|..|+|||||++.+..
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            57999999999999999999886

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=92.80  E-value=0.073  Score=53.68  Aligned_cols=40  Identities=20%  Similarity=0.158  Sum_probs=29.1

Q ss_pred             hhhHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          173 DDRMEELLDLLIEG---PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       173 ~~~~~~i~~~L~~~---~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +...++++..+..+   .....+|.|+|++|+||||+|+.+..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           12 KHALARNLRSLTRGKKSSKQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             HHHHHHHHHHHHTTCCCCSSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCCcccCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34445555555543   23467899999999999999999986

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=92.77  E-value=0.04  Score=52.46  Aligned_cols=22  Identities=9%  Similarity=0.123  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|+|++|+||||+|+.+..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999986

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=92.76  E-value=0.056  Score=54.81  Aligned_cols=23  Identities=13%  Similarity=0.273  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|.|++|+||||+|+.+..
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            56899999999999999999986

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=92.75  E-value=0.055  Score=51.52  Aligned_cols=23  Identities=26%  Similarity=0.150  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -..|.+.|++|+||||+|+.+.+
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999986

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=92.74  E-value=0.056  Score=51.58  Aligned_cols=24  Identities=21%  Similarity=0.066  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.+|.|+|++|+||||+++.+..
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            357899999999999999999987

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=92.73  E-value=0.046  Score=53.15  Aligned_cols=23  Identities=13%  Similarity=0.307  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|+|+.|+||||+++.+..
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999999986

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=92.62  E-value=0.058  Score=53.25  Aligned_cols=22  Identities=18%  Similarity=0.190  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|+|+|..|+||||+|+.+..
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999986

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=92.61  E-value=0.061  Score=53.98  Aligned_cols=23  Identities=22%  Similarity=0.185  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|+|+|+.|+|||||++.+.+
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~   49 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQ   49 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46999999999999999999994

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=92.60  E-value=0.066  Score=52.21  Aligned_cols=23  Identities=9%  Similarity=0.159  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|+|+|..|+|||||++.+..
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~   30 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFK   30 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECcCCCCHHHHHHHHHh
Confidence            56899999999999999999987

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=92.57  E-value=0.062  Score=51.65  Aligned_cols=24  Identities=13%  Similarity=0.171  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.+|+|+|+.|+||||+|+.+..
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999987

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=92.55  E-value=0.046  Score=58.07  Aligned_cols=45  Identities=18%  Similarity=0.183  Sum_probs=33.3

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -..++|.+..++.+...+..+.  ..-|-|+|.+|+|||++|+.+.+
T Consensus        23 f~~i~G~~~~~~~l~~~~~~~~--~~~vLl~G~~GtGKT~la~~la~   67 (350)
T 1g8p_A           23 FSAIVGQEDMKLALLLTAVDPG--IGGVLVFGDRGTGKSTAVRALAA   67 (350)
T ss_dssp             GGGSCSCHHHHHHHHHHHHCGG--GCCEEEECCGGGCTTHHHHHHHH
T ss_pred             chhccChHHHHHHHHHHhhCCC--CceEEEECCCCccHHHHHHHHHH
Confidence            3458999886666544444322  22388999999999999999987

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=92.54  E-value=0.11  Score=55.40  Aligned_cols=37  Identities=19%  Similarity=0.128  Sum_probs=28.5

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++.+.+........+|+|+|.+|+|||||+..+..
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            4455555554445688999999999999999988764

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=92.53  E-value=0.048  Score=51.18  Aligned_cols=22  Identities=14%  Similarity=0.175  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|.|++|+||||+|+.+.+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999987

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=92.53  E-value=0.066  Score=50.04  Aligned_cols=24  Identities=8%  Similarity=0.055  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+.+++|+|..|+|||||+..+..
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            367999999999999999999887

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=92.53  E-value=0.077  Score=52.05  Aligned_cols=40  Identities=25%  Similarity=0.218  Sum_probs=29.7

Q ss_pred             echhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          171 GLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       171 Gr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +.++..+++...+...  ...+|.|+|.+|+|||||+..+..
T Consensus        13 ~~~~~~~~~~~~~~~~--~~~~i~i~G~~g~GKTTl~~~l~~   52 (221)
T 2wsm_A           13 ENKRLAEKNREALRES--GTVAVNIMGAIGSGKTLLIERTIE   52 (221)
T ss_dssp             HHHHHHHHHHHHHHHH--TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hcHHHHHHHHHhhccc--CceEEEEEcCCCCCHHHHHHHHHH
Confidence            3445555555555433  378999999999999999998876

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=92.51  E-value=0.055  Score=52.09  Aligned_cols=23  Identities=13%  Similarity=0.114  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|+|.|++|+||||+|+.+..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999987

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=92.45  E-value=0.061  Score=50.22  Aligned_cols=21  Identities=5%  Similarity=0.048  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|.|.|++|+||||+|+.+.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999987

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=92.45  E-value=0.061  Score=51.39  Aligned_cols=23  Identities=22%  Similarity=0.166  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|+|.|++|+||||+|+.+..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999986

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=92.37  E-value=0.099  Score=54.49  Aligned_cols=39  Identities=10%  Similarity=0.135  Sum_probs=27.7

Q ss_pred             hhHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          174 DRMEELLDLLIEG--PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       174 ~~~~~i~~~L~~~--~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+..+...+...  .....+|+|.|..|+||||||+.+..
T Consensus        74 ~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           74 QTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             HHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3344444333332  34577999999999999999999875

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=92.35  E-value=0.048  Score=51.72  Aligned_cols=23  Identities=22%  Similarity=0.134  Sum_probs=17.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|.|++|+||||+|+.+.+
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999976

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=92.29  E-value=0.064  Score=51.87  Aligned_cols=23  Identities=22%  Similarity=0.133  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|.|++|+||||+|+.+..
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999986

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=92.27  E-value=0.065  Score=51.31  Aligned_cols=21  Identities=24%  Similarity=0.216  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +|+|.|+.|+||||+|+.+.+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999987

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=92.23  E-value=0.18  Score=55.74  Aligned_cols=118  Identities=13%  Similarity=0.100  Sum_probs=61.1

Q ss_pred             eeechhhHHHHHHH----HhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccccc-ceeEEEEcCCCCCHHHHHHHHHH
Q 045113          169 TVGLDDRMEELLDL----LIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF-DCHAWVQEPYTCYADQILDIIIK  243 (821)
Q Consensus       169 ~vGr~~~~~~i~~~----L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F-~~~~wv~~s~~~~~~~~~~~i~~  243 (821)
                      +-+...+.++.+..    +..++   ..+.|.|.+|.||||++..+..  .....- ..++.++ ....    ..+.+.+
T Consensus        23 ~~~Ln~~Q~~av~~~~~~i~~~~---~~~li~G~aGTGKT~ll~~~~~--~l~~~~~~~il~~a-~T~~----Aa~~l~~   92 (459)
T 3upu_A           23 FDDLTEGQKNAFNIVMKAIKEKK---HHVTINGPAGTGATTLTKFIIE--ALISTGETGIILAA-PTHA----AKKILSK   92 (459)
T ss_dssp             SSCCCHHHHHHHHHHHHHHHSSS---CEEEEECCTTSCHHHHHHHHHH--HHHHTTCCCEEEEE-SSHH----HHHHHHH
T ss_pred             cccCCHHHHHHHHHHHHHHhcCC---CEEEEEeCCCCCHHHHHHHHHH--HHHhcCCceEEEec-CcHH----HHHHHHh
Confidence            44445555555544    43333   3899999999999999988886  332222 2333332 2221    1222222


Q ss_pred             HhCCchh-HHHHHHH-----------------hCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          244 FLMPSSR-LIILHEY-----------------LMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       244 ~l~~~~~-~~~l~~~-----------------l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      .++.... ...+...                 ...+--+||+|++..  ...+..+...++   .+.+|++.--..
T Consensus        93 ~~~~~~~T~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiDE~~~~~~~~~~~l~~~~~---~~~~~~~vGD~~  165 (459)
T 3upu_A           93 LSGKEASTIHSILKINPVTYEENVLFEQKEVPDLAKCRVLICDEVSMYDRKLFKILLSTIP---PWCTIIGIGDNK  165 (459)
T ss_dssp             HHSSCEEEHHHHHTEEEEECSSCEEEEECSCCCCSSCSEEEESCGGGCCHHHHHHHHHHSC---TTCEEEEEECTT
T ss_pred             hhccchhhHHHHhccCcccccccchhcccccccccCCCEEEEECchhCCHHHHHHHHHhcc---CCCEEEEECCHH
Confidence            2222211 1111110                 001234889999854  356777777665   466776654433

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=92.21  E-value=0.059  Score=52.08  Aligned_cols=23  Identities=13%  Similarity=0.250  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -++++|+|..|+|||||++.+..
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            35799999999999999999875

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=92.11  E-value=0.054  Score=51.62  Aligned_cols=22  Identities=14%  Similarity=0.321  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +.|.|+|+.|+|||||++.+..
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~   23 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999986

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=91.99  E-value=0.079  Score=51.58  Aligned_cols=23  Identities=9%  Similarity=-0.000  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||++.+..
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~g   42 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRE   42 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45999999999999999999886

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=91.97  E-value=0.088  Score=54.83  Aligned_cols=24  Identities=13%  Similarity=0.079  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|+|+|..|+|||||++.+..
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHh
Confidence            367999999999999999999886

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=91.95  E-value=0.091  Score=48.64  Aligned_cols=23  Identities=17%  Similarity=0.198  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|.|||||++.+..
T Consensus        33 Ge~v~L~G~nGaGKTTLlr~l~g   55 (158)
T 1htw_A           33 AIMVYLNGDLGAGKTTLTRGMLQ   55 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            56999999999999999999886

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=91.91  E-value=0.12  Score=54.17  Aligned_cols=24  Identities=17%  Similarity=0.088  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+++|+|..|+||||+++.+..
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999998876

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=91.82  E-value=0.12  Score=56.27  Aligned_cols=46  Identities=15%  Similarity=0.187  Sum_probs=36.0

Q ss_pred             CCeeechhhHHHHHHHHhcC------------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEG------------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~------------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|.+..++.+...+...            ....+-|.++|++|+||||+|+.+..
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~   72 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   72 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHH
Confidence            45899999988887776321            11245688999999999999999987

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=91.82  E-value=0.25  Score=52.81  Aligned_cols=107  Identities=14%  Similarity=0.190  Sum_probs=57.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeE-EEEcCCCCCHHHHHHHHHHH--hCCch-h-HHHHHHHhCCCcEE
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHA-WVQEPYTCYADQILDIIIKF--LMPSS-R-LIILHEYLMTKRYL  264 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~-wv~~s~~~~~~~~~~~i~~~--l~~~~-~-~~~l~~~l~~kr~L  264 (821)
                      -.+++|+|..|+||||+++.+..  .+.......+ ++...-.+....- ..+..+  ++... . ...+...|...+=+
T Consensus       136 g~~i~ivG~~GsGKTTll~~l~~--~~~~~~~g~I~~~e~~~e~~~~~~-~~~v~Q~~~g~~~~~~~~~l~~~L~~~pd~  212 (372)
T 2ewv_A          136 MGLILVTGPTGSGKSTTIASMID--YINQTKSYHIITIEDPIEYVFKHK-KSIVNQREVGEDTKSFADALRAALREDPDV  212 (372)
T ss_dssp             SEEEEEECSSSSSHHHHHHHHHH--HHHHHSCCEEEEEESSCCSCCCCS-SSEEEEEEBTTTBSCSHHHHHHHTTSCCSE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh--hcCcCCCcEEEEecccHhhhhccC-ceEEEeeecCCCHHHHHHHHHHHhhhCcCE
Confidence            56899999999999999998876  2221112222 2221111000000 000000  00000 1 45677777777789


Q ss_pred             EEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          265 IVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       265 lVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      |++|.+.+.+.+.......   ..|.-|+.|+...++.
T Consensus       213 illdE~~d~e~~~~~l~~~---~~g~~vi~t~H~~~~~  247 (372)
T 2ewv_A          213 IFVGEMRDLETVETALRAA---ETGHLVFGTLHTNTAI  247 (372)
T ss_dssp             EEESCCCSHHHHHHHHHHH---TTTCEEEECCCCCSHH
T ss_pred             EEECCCCCHHHHHHHHHHH---hcCCEEEEEECcchHH
Confidence            9999998766544433332   2356688887765544

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=91.81  E-value=0.087  Score=54.06  Aligned_cols=24  Identities=17%  Similarity=0.149  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|+|.|+.|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999873

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=91.77  E-value=0.1  Score=52.36  Aligned_cols=23  Identities=4%  Similarity=0.023  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|+|.|..|+|||||++.+..
T Consensus        25 g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           25 PFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            57999999999999999999876

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=91.72  E-value=0.077  Score=51.65  Aligned_cols=23  Identities=4%  Similarity=-0.223  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|.|+.|+||||+|+.+.+
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999999987

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=91.72  E-value=0.085  Score=53.16  Aligned_cols=23  Identities=13%  Similarity=0.144  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|+|+|+.|+||||+++.+..
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~   49 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAE   49 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46999999999999999999995

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=91.64  E-value=0.47  Score=45.59  Aligned_cols=51  Identities=14%  Similarity=-0.003  Sum_probs=32.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHH
Q 045113          192 AVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      .|.|=|.-|+||||.++.+.+  ..+..-..++++.-.......+..++++..
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~--~L~~~g~~v~~treP~~t~~~~~ir~~l~~   52 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQ--YLEKRGKKVILKREPGGTETGEKIRKILLE   52 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH--HHHHTTCCEEEEESSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH--HHHHCCCcEEEEECCCCCcHHHHHHHHhhc
Confidence            377889999999999999988  454443345555544443344444444433

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=91.64  E-value=0.081  Score=52.33  Aligned_cols=23  Identities=17%  Similarity=0.228  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...|.|.|++|+||||+|+.+..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999986

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=91.59  E-value=0.22  Score=52.33  Aligned_cols=103  Identities=13%  Similarity=0.091  Sum_probs=58.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHh--CCchhHHHHHHHhCCCcEEEEEe
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFL--MPSSRLIILHEYLMTKRYLIVID  268 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l--~~~~~~~~l~~~l~~kr~LlVlD  268 (821)
                      .+++|+|..|.|||||++.+..-  +.. -...+.+.-......... +....-+  ++......+...|..++=+|++|
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~--~~~-~~g~i~i~~~~e~~~~~~-~~~i~~~~ggg~~~r~~la~aL~~~p~ilild  247 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEF--IPK-EERIISIEDTEEIVFKHH-KNYTQLFFGGNITSADCLKSCLRMRPDRIILG  247 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGG--SCT-TSCEEEEESSCCCCCSSC-SSEEEEECBTTBCHHHHHHHHTTSCCSEEEEC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC--CcC-CCcEEEECCeeccccccc-hhEEEEEeCCChhHHHHHHHHhhhCCCEEEEc
Confidence            48999999999999999999872  211 223444432211110000 0000000  12222667778888888899999


Q ss_pred             cCCCHHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          269 DVWSIEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       269 dv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      .+.+.+.++.+... ..+  +.-+|+||....
T Consensus       248 E~~~~e~~~~l~~~-~~g--~~tvi~t~H~~~  276 (330)
T 2pt7_A          248 ELRSSEAYDFYNVL-CSG--HKGTLTTLHAGS  276 (330)
T ss_dssp             CCCSTHHHHHHHHH-HTT--CCCEEEEEECSS
T ss_pred             CCChHHHHHHHHHH-hcC--CCEEEEEEcccH
Confidence            99876666655433 222  222677775443

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=91.59  E-value=0.099  Score=51.16  Aligned_cols=24  Identities=13%  Similarity=0.151  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|.|.|++|+||||.|+.+.+
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999999987

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=91.57  E-value=0.091  Score=51.64  Aligned_cols=23  Identities=13%  Similarity=0.105  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...|.|.|++|+||||+|+.+.+
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999987

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=91.57  E-value=0.094  Score=49.59  Aligned_cols=23  Identities=17%  Similarity=0.039  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|+|.|+.|+||||+++.+..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999987

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=91.53  E-value=0.094  Score=51.15  Aligned_cols=23  Identities=4%  Similarity=-0.083  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|.|+.|+||||+|+.+.+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999987

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=91.53  E-value=0.097  Score=50.30  Aligned_cols=23  Identities=9%  Similarity=0.270  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -++|+|+|..|+|||||++.+..
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~   41 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLS   41 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECcCCCCHHHHHHHHHh
Confidence            57899999999999999999986

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=91.51  E-value=0.079  Score=52.07  Aligned_cols=23  Identities=13%  Similarity=0.249  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||++.+..
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999999886

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=91.49  E-value=0.2  Score=54.79  Aligned_cols=88  Identities=16%  Similarity=0.087  Sum_probs=54.7

Q ss_pred             ceEEEEEcCCCChHHHHH-HHHhcCcccccccce-eEEEEcCCCC-CHHHHHHHHHHHhCCc--------hh--------
Q 045113          190 LSAVTILDSIGLDKTAFA-AEAYSGNYVKHYFDC-HAWVQEPYTC-YADQILDIIIKFLMPS--------SR--------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa-~~v~~~~~~~~~F~~-~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~--------  250 (821)
                      -+.++|+|-.|+|||+|| ..+.+.  .  .-+. ++++-+.+.. .+.++.+++...=...        .+        
T Consensus       175 GQR~~I~g~~g~GKT~Lal~~I~~~--~--~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r~~  250 (515)
T 2r9v_A          175 GQRELIIGDRQTGKTAIAIDTIINQ--K--GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYI  250 (515)
T ss_dssp             TCBEEEEEETTSSHHHHHHHHHHTT--T--TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHHHH
T ss_pred             CCEEEEEcCCCCCccHHHHHHHHHh--h--cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHHHH
Confidence            457899999999999995 577773  2  2453 4667677664 3556666665421111        01        


Q ss_pred             ----HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHHH
Q 045113          251 ----LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIRE  281 (821)
Q Consensus       251 ----~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~~  281 (821)
                          .-.+.+++  +++.+||++||+..- ..+.++..
T Consensus       251 a~~~a~tiAEyfrd~G~dVLli~DslTr~A~A~REisl  288 (515)
T 2r9v_A          251 APYAGCAMGEYFAYSGRDALVVYDDLSKHAVAYRQLSL  288 (515)
T ss_dssp             HHHHHHHHHHHHHTTTCEEEEEEETHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEeccHHHHHHHHHHHhh
Confidence                22333444  579999999999543 34444443

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=91.49  E-value=0.17  Score=54.83  Aligned_cols=80  Identities=15%  Similarity=0.159  Sum_probs=51.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccc----eeEEEEcCCCC-CHHHHHHHHHHHhCCc--------hh-------
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFD----CHAWVQEPYTC-YADQILDIIIKFLMPS--------SR-------  250 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~----~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~-------  250 (821)
                      +.++|.|..|+|||+|+.++.+....  +-+    .++++-+.+.. .+.++.+++.+.=...        .+       
T Consensus       152 Qr~~Ifgg~G~GKt~L~~~Ia~~~~~--~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r~  229 (465)
T 3vr4_D          152 QKLPVFSGSGLPHKELAAQIARQATV--LDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERI  229 (465)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHCBC--SSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHHH
T ss_pred             CEEEEeCCCCcChHHHHHHHHHHHHh--ccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHHH
Confidence            45789999999999999999884332  223    56666666654 4556666655431111        01       


Q ss_pred             -----HHHHHHHh---CCCcEEEEEecCCC
Q 045113          251 -----LIILHEYL---MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 -----~~~l~~~l---~~kr~LlVlDdv~~  272 (821)
                           +-.+.+++   +++.+|+++||+..
T Consensus       230 ~a~~~a~tiAEyfrd~~G~~VLl~~DslTr  259 (465)
T 3vr4_D          230 ATPRMALTAAEYLAYEKGMHVLVIMTDMTN  259 (465)
T ss_dssp             HHHHHHHHHHHHHHHTTCCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHHHhcCCeEEEEEcChHH
Confidence                 33445555   37999999999953

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=91.48  E-value=0.18  Score=52.57  Aligned_cols=24  Identities=21%  Similarity=0.214  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|+|+|.+|+||||++..+..
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~  127 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMAN  127 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999988876

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=91.46  E-value=0.22  Score=54.44  Aligned_cols=87  Identities=15%  Similarity=0.075  Sum_probs=54.5

Q ss_pred             ceEEEEEcCCCChHHHHH-HHHhcCcccccccc-eeEEEEcCCCC-CHHHHHHHHHHHhCCch--------h--------
Q 045113          190 LSAVTILDSIGLDKTAFA-AEAYSGNYVKHYFD-CHAWVQEPYTC-YADQILDIIIKFLMPSS--------R--------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa-~~v~~~~~~~~~F~-~~~wv~~s~~~-~~~~~~~~i~~~l~~~~--------~--------  250 (821)
                      -..++|+|-.|+|||+|| ..+.+.  .  .-+ .++++-+.+.. .+.++.+++.+.=....        +        
T Consensus       162 GQR~~Ifg~~g~GKT~Lal~~I~~~--~--~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~~  237 (502)
T 2qe7_A          162 GQRELIIGDRQTGKTTIAIDTIINQ--K--GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYL  237 (502)
T ss_dssp             TCBCEEEECSSSCHHHHHHHHHHGG--G--SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHHHH
T ss_pred             CCEEEEECCCCCCchHHHHHHHHHh--h--cCCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHHHH
Confidence            457899999999999995 577773  2  244 34667777664 35566766665322110        1        


Q ss_pred             ----HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHH
Q 045113          251 ----LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIR  280 (821)
Q Consensus       251 ----~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~  280 (821)
                          .-.+.+++  +++.+||++||+..- ..+.++.
T Consensus       238 a~~~a~tiAEyfrd~G~dVLl~~Dsltr~A~A~REis  274 (502)
T 2qe7_A          238 APYAGCAMGEYFMYKGKHALVVYDDLSKQAAAYRELS  274 (502)
T ss_dssp             HHHHHHHHHHHHHTTTCEEEEEEECHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEEecHHHHHHHHHHHH
Confidence                22333444  579999999999542 3344443

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=91.41  E-value=0.07  Score=50.17  Aligned_cols=23  Identities=13%  Similarity=0.147  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .++++|+|..|+|||||++.+..
T Consensus         2 ~~~v~IvG~SGsGKSTL~~~L~~   24 (171)
T 2f1r_A            2 SLILSIVGTSDSGKTTLITRMMP   24 (171)
T ss_dssp             -CEEEEEESCHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999886

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=91.38  E-value=0.092  Score=50.73  Aligned_cols=23  Identities=9%  Similarity=-0.120  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|.|+.|+||||+++.+.+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~   26 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIME   26 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            35899999999999999999987

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=91.37  E-value=0.093  Score=51.31  Aligned_cols=21  Identities=14%  Similarity=0.196  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|.|.|++|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999976

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=91.28  E-value=0.15  Score=48.95  Aligned_cols=36  Identities=14%  Similarity=0.210  Sum_probs=26.9

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +..+..++.. -+.-..+.|+|.+|+||||+|.++.+
T Consensus        45 ~~~l~~~~~~-iPkkn~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           45 LGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             HHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHhc-CCcccEEEEECCCCCCHHHHHHHHHH
Confidence            4555555543 33345799999999999999988887

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=91.22  E-value=0.088  Score=51.83  Aligned_cols=23  Identities=13%  Similarity=-0.093  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...|.|.|++|+||||+|+.+.+
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46789999999999999999987

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=91.20  E-value=0.091  Score=50.30  Aligned_cols=21  Identities=24%  Similarity=0.270  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +++|+|..|+|||||++.+..
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g   23 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHh
Confidence            689999999999999998876

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=91.19  E-value=0.11  Score=50.79  Aligned_cols=23  Identities=13%  Similarity=-0.009  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|.|.|+.|+||||+|+.+..
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999886

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=91.17  E-value=0.055  Score=52.82  Aligned_cols=22  Identities=14%  Similarity=0.113  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|+|.|..|+||||+|+.+..
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3789999999999999999876

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=91.16  E-value=0.1  Score=51.09  Aligned_cols=21  Identities=10%  Similarity=0.118  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|+|.|++|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999976

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=91.16  E-value=0.12  Score=50.58  Aligned_cols=23  Identities=22%  Similarity=0.193  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999975

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=91.13  E-value=0.083  Score=53.04  Aligned_cols=22  Identities=14%  Similarity=0.179  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|+|+|+.|+||||+++.+..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999999986

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=91.06  E-value=0.13  Score=53.38  Aligned_cols=24  Identities=21%  Similarity=0.145  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|+|+|.+|+||||+++.+..
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            357999999999999999998875

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=91.04  E-value=0.16  Score=49.39  Aligned_cols=22  Identities=27%  Similarity=0.143  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+++|+|..|+|||||++.+..
T Consensus        23 e~~~liG~nGsGKSTLl~~l~G   44 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAV   44 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3899999999999999999875

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=90.97  E-value=0.18  Score=52.14  Aligned_cols=24  Identities=13%  Similarity=0.090  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|.|+|.+|+||||++..+..
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~  126 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAK  126 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHH
Confidence            467999999999999999998886

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=90.96  E-value=0.38  Score=50.15  Aligned_cols=56  Identities=18%  Similarity=0.047  Sum_probs=38.5

Q ss_pred             cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHH
Q 045113          185 EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       185 ~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      .+=..-.++.|.|.+|+||||||..+.......+  ..++|++..  -+..++...+...
T Consensus        63 gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           63 YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             SSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHHH
Confidence            4433457899999999999999988875322222  567777655  4566777666654

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=90.88  E-value=0.51  Score=49.84  Aligned_cols=35  Identities=20%  Similarity=0.112  Sum_probs=26.2

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          177 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       177 ~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -++++.|.-= ..-+.++|+|.+|+|||+|++.+.+
T Consensus       163 iraID~l~Pi-grGQR~lIfg~~g~GKT~Ll~~Ia~  197 (427)
T 3l0o_A          163 TRLIDLFAPI-GKGQRGMIVAPPKAGKTTILKEIAN  197 (427)
T ss_dssp             HHHHHHHSCC-BTTCEEEEEECTTCCHHHHHHHHHH
T ss_pred             chhhhhcccc-cCCceEEEecCCCCChhHHHHHHHH
Confidence            3556666431 2245889999999999999998887

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=90.87  E-value=0.12  Score=50.81  Aligned_cols=106  Identities=9%  Similarity=0.049  Sum_probs=57.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC-C----------CCHHHHHHHHHHH------h--CCc--
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY-T----------CYADQILDIIIKF------L--MPS--  248 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~-~----------~~~~~~~~~i~~~------l--~~~--  248 (821)
                      -.+++|+|..|+|||||.+.+...... ..+...+.++-.. .          |.-......+...      +  ...  
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~~p-~~~~g~v~~ttr~~~~~e~~gi~y~fq~~~~f~~~~~~~~f~E~~~~~~~~y   94 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQPL-YDTQVSVSHTTRQPRPGEVHGEHYFFVNHDEFKEMISRDAFLEHAEVFGNYY   94 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSCT-TTEEECCCEECSCCCTTCCBTTTBEECCHHHHHHHHHTTCEEEEEEETTEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCCC-CceEEEEEecCCCCCcccccCceEEECCHHHHHHHHhcCHHHHHHHHHhccC
Confidence            469999999999999999998862111 0122222222110 0          1112223322220      0  010  


Q ss_pred             -hhHHHHHHHhCCCcEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          249 -SRLIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       249 -~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                       .....+.+.+..- -++||| + +......+...++   .|.-|+|+|-+...+
T Consensus        95 g~~~~~v~~~l~~G-~illLD-L-D~~~~~~i~~~l~---~~~tI~i~th~~~~l  143 (219)
T 1s96_A           95 GTSREAIEQVLATG-VDVFLD-I-DWQGAQQIRQKMP---HARSIFILPPSKIEL  143 (219)
T ss_dssp             EEEHHHHHHHHTTT-CEEEEE-C-CHHHHHHHHHHCT---TCEEEEEECSSHHHH
T ss_pred             CCCHHHHHHHHhcC-CeEEEE-E-CHHHHHHHHHHcc---CCEEEEEECCCHHHH
Confidence             0145566677654 467788 4 4455556666665   467888888776554

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=90.83  E-value=0.23  Score=51.67  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|+|+|..|+|||||++.+..
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999886

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=90.81  E-value=0.13  Score=51.38  Aligned_cols=22  Identities=18%  Similarity=0.240  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+++|+|..|+|||||.+.+..
T Consensus        25 e~~~liG~nGsGKSTLl~~l~G   46 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            7999999999999999999986

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=90.75  E-value=0.12  Score=50.14  Aligned_cols=21  Identities=24%  Similarity=0.151  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +|+|.|+.|+||||+|+.+..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            899999999999999999986

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=90.66  E-value=0.21  Score=49.69  Aligned_cols=23  Identities=17%  Similarity=0.096  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+..
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45899999999999999999986

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=90.63  E-value=0.089  Score=52.16  Aligned_cols=23  Identities=17%  Similarity=0.135  Sum_probs=16.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHh-c
Q 045113          190 LSAVTILDSIGLDKTAFAAEAY-S  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~-~  212 (821)
                      -.+++|+|..|+|||||++.+. .
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~   50 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEK   50 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC-
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            3589999999999999999998 5

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=90.47  E-value=0.14  Score=48.11  Aligned_cols=23  Identities=13%  Similarity=0.156  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+++|+|..|+|||||++.+..
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~   28 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIP   28 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHH
Confidence            67999999999999999999886

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=90.46  E-value=0.14  Score=52.90  Aligned_cols=24  Identities=21%  Similarity=0.228  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|+++|.+|+||||++..+..
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~  127 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAA  127 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999988875

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=90.45  E-value=0.25  Score=56.76  Aligned_cols=42  Identities=12%  Similarity=0.192  Sum_probs=36.5

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|.+..++.+...+..+    ..+.|+|.+|+||||||+.+..
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~ia~   82 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAMAE   82 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHHhc
Confidence            46899998888888777765    3889999999999999999997

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=90.40  E-value=0.11  Score=50.93  Aligned_cols=23  Identities=9%  Similarity=0.021  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...|.|.|++|+||||+|+.+..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999999986

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=90.39  E-value=0.22  Score=50.77  Aligned_cols=23  Identities=17%  Similarity=0.192  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||++.+..
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHc
Confidence            35899999999999999999985

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=90.32  E-value=0.13  Score=50.73  Aligned_cols=23  Identities=17%  Similarity=0.047  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+..
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~G   52 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGL   52 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999986

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=90.32  E-value=0.21  Score=54.80  Aligned_cols=86  Identities=16%  Similarity=0.106  Sum_probs=51.9

Q ss_pred             ceEEEEEcCCCChHHHHH-HHHhcCcccccccc-eeEEEEcCCCCC-HHHHHHHHHHHhCCc--------hh--------
Q 045113          190 LSAVTILDSIGLDKTAFA-AEAYSGNYVKHYFD-CHAWVQEPYTCY-ADQILDIIIKFLMPS--------SR--------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa-~~v~~~~~~~~~F~-~~~wv~~s~~~~-~~~~~~~i~~~l~~~--------~~--------  250 (821)
                      -..++|+|-.|+|||+|| ..+.+.  ..  -+ .++++-+.+... +.++.+++...=...        .+        
T Consensus       163 GQR~~Ifg~~g~GKT~Lal~~I~~~--~~--~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~  238 (507)
T 1fx0_A          163 GQRELIIGDRQTGKTAVATDTILNQ--QG--QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYL  238 (507)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHTC--CT--TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTH
T ss_pred             CCEEEEecCCCCCccHHHHHHHHHh--hc--CCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHH
Confidence            457899999999999995 578773  22  34 346666776643 445555554321110        00        


Q ss_pred             ----HHHHHHHh--CCCcEEEEEecCCCH-HHHHHH
Q 045113          251 ----LIILHEYL--MTKRYLIVIDDVWSI-EVWDII  279 (821)
Q Consensus       251 ----~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l  279 (821)
                          .-.+.+++  +++.+||++||+..- ..+.++
T Consensus       239 a~~~a~tiAEyfrd~G~dVLli~Dsltr~A~A~REi  274 (507)
T 1fx0_A          239 APYTGAALAEYFMYRERHTLIIYDDLSKQAQAYRQM  274 (507)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEECHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEEecHHHHHHHHHHH
Confidence                22223333  589999999999543 334444

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=90.24  E-value=0.23  Score=50.30  Aligned_cols=23  Identities=22%  Similarity=0.222  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+..
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999986

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=90.19  E-value=0.13  Score=50.17  Aligned_cols=21  Identities=14%  Similarity=0.011  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|.|.|++|+||||+|+.+.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999986

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=90.19  E-value=0.16  Score=51.20  Aligned_cols=24  Identities=21%  Similarity=0.191  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...++.+.|.||+||||++..+..
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~   36 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGR   36 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHH
Confidence            467888899999999999999874

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=90.16  E-value=0.16  Score=52.50  Aligned_cols=23  Identities=17%  Similarity=0.092  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+||||+++.+..
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            57999999999999999998876

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=90.15  E-value=0.46  Score=51.86  Aligned_cols=79  Identities=16%  Similarity=0.082  Sum_probs=51.1

Q ss_pred             ceEEEEEcCCCChHHHHH-HHHhcCcccccccc-eeEEEEcCCCCC-HHHHHHHHHHHhCCc---------hh-------
Q 045113          190 LSAVTILDSIGLDKTAFA-AEAYSGNYVKHYFD-CHAWVQEPYTCY-ADQILDIIIKFLMPS---------SR-------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa-~~v~~~~~~~~~F~-~~~wv~~s~~~~-~~~~~~~i~~~l~~~---------~~-------  250 (821)
                      -+.++|.|-.|+|||+|| ..+.|.    .+-+ .++++-+.+..+ +.++.+++.+.=...         .+       
T Consensus       162 GQR~~Ifg~~g~GKT~l~l~~I~n~----~~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~~  237 (513)
T 3oaa_A          162 GQRELIIGDRQTGKTALAIDAIINQ----RDSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYL  237 (513)
T ss_dssp             TCBCEEEESSSSSHHHHHHHHHHTT----SSSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHHH
T ss_pred             CCEEEeecCCCCCcchHHHHHHHhh----ccCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHHH
Confidence            457899999999999996 577772    2233 356777777653 566777655431111         01       


Q ss_pred             ----HHHHHHHh--CCCcEEEEEecCCC
Q 045113          251 ----LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 ----~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                          .-.+.+++  +++.+||++||+..
T Consensus       238 a~~~a~tiAEyfrd~G~dVLli~Dsltr  265 (513)
T 3oaa_A          238 APYAGCAMGEYFRDRGEDALIIYDDLSK  265 (513)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEETHHH
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEecChHH
Confidence                22333333  58999999999954

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=90.12  E-value=0.14  Score=50.46  Aligned_cols=21  Identities=14%  Similarity=0.094  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|.|.|++|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999986

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=90.11  E-value=0.15  Score=53.43  Aligned_cols=22  Identities=18%  Similarity=0.197  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|+|.|..|+||||||+.+..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            5899999999999999999887

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=90.08  E-value=0.18  Score=54.94  Aligned_cols=82  Identities=16%  Similarity=0.096  Sum_probs=52.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccc--cceeEEEEcCCCC-CHHHHHHHHHHHhCCc--------hh--------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHY--FDCHAWVQEPYTC-YADQILDIIIKFLMPS--------SR--------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~--F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~--------  250 (821)
                      -..++|.|-.|+|||+|+.++.++....+.  =+.++++-+.+.. .+.++.+++...=...        .+        
T Consensus       152 GQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r~~  231 (469)
T 2c61_A          152 GQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIV  231 (469)
T ss_dssp             TCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHHHH
Confidence            356788999999999999999885433221  1356666666654 4566776666531111        01        


Q ss_pred             ----HHHHHHHhC---CCcEEEEEecCC
Q 045113          251 ----LIILHEYLM---TKRYLIVIDDVW  271 (821)
Q Consensus       251 ----~~~l~~~l~---~kr~LlVlDdv~  271 (821)
                          +-.+.++++   ++.+|+++||+.
T Consensus       232 ~~~~a~tiAEyfrdd~G~dVLl~~Dslt  259 (469)
T 2c61_A          232 TPRMALTAAEYLAYEHGMHVLVILTDIT  259 (469)
T ss_dssp             HHHHHHHHHHHHHHHHCCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEeCHH
Confidence                334445554   699999999973

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=90.02  E-value=0.16  Score=50.39  Aligned_cols=23  Identities=17%  Similarity=0.075  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...|.|.|++|+||||+|+.+.+
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999987

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=90.01  E-value=0.26  Score=54.18  Aligned_cols=42  Identities=10%  Similarity=-0.009  Sum_probs=29.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY  233 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~  233 (821)
                      .-.+|+|+|..|+|||||++.+..  ..+. -...+++.....+.
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAg--ll~~-~~G~V~l~g~D~~r  333 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLAR--QFEQ-QGKSVMLAAGDTFR  333 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHH--HHHH-TTCCEEEECCCTTC
T ss_pred             CCeEEEEECCCcccHHHHHHHHHH--Hhhh-cCCeEEEecCcccc
Confidence            457999999999999999999886  2221 23455554444444

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=90.01  E-value=0.27  Score=52.51  Aligned_cols=36  Identities=19%  Similarity=0.190  Sum_probs=27.2

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          177 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       177 ~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+++-+..+-+.-.+++|+|.+|.|||||++.+..
T Consensus       156 ~~~l~~~~~~i~~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          156 YDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             HHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHhcccccCCCCEEEEECCCCCCHHHHHHHHHh
Confidence            344444443434467999999999999999999996

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=89.96  E-value=0.25  Score=48.83  Aligned_cols=23  Identities=26%  Similarity=0.284  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|.|.|+.|+||||+++.+.+
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~   48 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYH   48 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            56899999999999999999987

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=89.95  E-value=0.17  Score=46.87  Aligned_cols=23  Identities=4%  Similarity=0.122  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ..|+|+|.+|+|||||.+.+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            56899999999999999999864

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=89.93  E-value=0.26  Score=53.74  Aligned_cols=39  Identities=18%  Similarity=0.057  Sum_probs=28.4

Q ss_pred             hhHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          174 DRMEELLDLLIEG-------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       174 ~~~~~i~~~L~~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.+++.+.|...       ....++|.++|.||+||||++..+..
T Consensus        77 ~~~~~l~~~l~~~~~~~~~~~~~~~vI~ivG~~GvGKTT~a~~LA~  122 (433)
T 2xxa_A           77 IVRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLGK  122 (433)
T ss_dssp             HHHHHHHHHHCSSSCCCCCCSSSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3445566666432       13478999999999999999888775

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=89.85  E-value=0.37  Score=49.69  Aligned_cols=51  Identities=8%  Similarity=0.053  Sum_probs=32.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccc-eeEEEEcCCCCCHHHHHHHHHHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFD-CHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      -.+++|+|.+|+|||||++.+...  ....-. .++|+....  +..++...+...
T Consensus        35 G~~~~i~G~~G~GKTTl~~~ia~~--~~~~~G~~v~~~~~e~--~~~~~~~r~~~~   86 (296)
T 1cr0_A           35 GEVIMVTSGSGMGKSTFVRQQALQ--WGTAMGKKVGLAMLEE--SVEETAEDLIGL   86 (296)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHHH--HHHTSCCCEEEEESSS--CHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH--HHHHcCCeEEEEeCcC--CHHHHHHHHHHH
Confidence            469999999999999999998863  222222 456665433  344554444443

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=89.80  E-value=0.16  Score=48.16  Aligned_cols=22  Identities=18%  Similarity=0.271  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|+|+|.+|+|||||++.+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999873

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=89.75  E-value=0.27  Score=49.27  Aligned_cols=23  Identities=13%  Similarity=0.124  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||++.+..
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~G   57 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQR   57 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999986

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=89.73  E-value=0.19  Score=45.97  Aligned_cols=23  Identities=13%  Similarity=0.170  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .-|.|+|.+|+|||||+..+.+.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999998764

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=89.72  E-value=0.32  Score=53.33  Aligned_cols=91  Identities=14%  Similarity=0.054  Sum_probs=55.1

Q ss_pred             ceEEEEEcCCCChHHHHH-HHHhcCccc----ccccc-eeEEEEcCCCC-CHHHHHHHHHHHhCCch--------h----
Q 045113          190 LSAVTILDSIGLDKTAFA-AEAYSGNYV----KHYFD-CHAWVQEPYTC-YADQILDIIIKFLMPSS--------R----  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa-~~v~~~~~~----~~~F~-~~~wv~~s~~~-~~~~~~~~i~~~l~~~~--------~----  250 (821)
                      -..++|+|-.|+|||+|| ..+.+....    ..+-+ .++++-+.+.. .+.++.+++...=....        +    
T Consensus       162 GQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~  241 (510)
T 2ck3_A          162 GQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAP  241 (510)
T ss_dssp             TCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHH
T ss_pred             CCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEEEECCCCCHH
Confidence            457899999999999995 567773221    01244 46677777765 35566666655321110        0    


Q ss_pred             --------HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHH
Q 045113          251 --------LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIR  280 (821)
Q Consensus       251 --------~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~  280 (821)
                              .-.+.+++  +++.+||++||+..- ..+.++.
T Consensus       242 ~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A~A~REis  282 (510)
T 2ck3_A          242 LQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMS  282 (510)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHcCCcEEEEEcCHHHHHHHHHHHH
Confidence                    22333444  579999999999543 3344443

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=89.70  E-value=0.27  Score=49.52  Aligned_cols=23  Identities=13%  Similarity=0.020  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+..
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            45999999999999999999986

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=89.64  E-value=0.18  Score=49.91  Aligned_cols=23  Identities=13%  Similarity=0.091  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|+|.|++|+||||+|+.+..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999986

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=89.63  E-value=0.17  Score=50.53  Aligned_cols=23  Identities=22%  Similarity=0.173  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+..
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999999986

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=89.58  E-value=0.17  Score=48.27  Aligned_cols=24  Identities=17%  Similarity=0.277  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .-.|+|+|..|+|||||.+.+...
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            568899999999999999998864

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=89.57  E-value=0.22  Score=53.90  Aligned_cols=83  Identities=16%  Similarity=0.132  Sum_probs=51.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccc--------cccc-eeEEEEcCCCC-CHHHHHHHHHHHhCCc--------hh-
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVK--------HYFD-CHAWVQEPYTC-YADQILDIIIKFLMPS--------SR-  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~--------~~F~-~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~-  250 (821)
                      -+.++|.|..|+|||+|+.++.+.....        ++=+ .++++-+.+.. .+.++.+++.+.=...        .+ 
T Consensus       147 GQr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~d~  226 (464)
T 3gqb_B          147 GQKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADD  226 (464)
T ss_dssp             TCBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEETTS
T ss_pred             CCEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECCCC
Confidence            3467899999999999999998753331        1111 56666666554 3556666654421011        01 


Q ss_pred             -----------HHHHHHHh---CCCcEEEEEecCCC
Q 045113          251 -----------LIILHEYL---MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 -----------~~~l~~~l---~~kr~LlVlDdv~~  272 (821)
                                 +-.+.+++   +++.+|+++||+..
T Consensus       227 p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlTr  262 (464)
T 3gqb_B          227 PTIERILTPRMALTVAEYLAFEHDYHVLVILTDMTN  262 (464)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHH
Confidence                       33445554   37999999999953

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=89.57  E-value=0.17  Score=51.22  Aligned_cols=23  Identities=17%  Similarity=0.166  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||++.+..
T Consensus        50 Gei~~liG~NGsGKSTLlk~l~G   72 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLRCLNL   72 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHc
Confidence            46999999999999999999986

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=89.56  E-value=0.17  Score=51.09  Aligned_cols=23  Identities=13%  Similarity=0.089  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+..
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~G   55 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITG   55 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45999999999999999999986

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=89.56  E-value=0.14  Score=49.93  Aligned_cols=23  Identities=17%  Similarity=0.179  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+..
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~G   57 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTIST   57 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999986

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=89.55  E-value=2  Score=42.31  Aligned_cols=68  Identities=18%  Similarity=0.144  Sum_probs=36.7

Q ss_pred             hHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHh-cCccccccc-ceeEEEEcCCCCCHHHHHHHHHHHhC
Q 045113          175 RMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAY-SGNYVKHYF-DCHAWVQEPYTCYADQILDIIIKFLM  246 (821)
Q Consensus       175 ~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~-~~~~~~~~F-~~~~wv~~s~~~~~~~~~~~i~~~l~  246 (821)
                      ..++++..+..+    +.+.|.|..|+||||+...+. +........ ...+.+......-..++.+.+...++
T Consensus        65 ~q~~~i~~i~~g----~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~~~~~~~l~~~p~~~la~q~~~~~~~~~~  134 (235)
T 3llm_A           65 FESEILEAISQN----SVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERG  134 (235)
T ss_dssp             GHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHHHHHTTCGGGCEEEEEESSHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhcC----CEEEEEeCCCCCcHHhHHHHHhcchhhcCCCCceEEEEeccchHHHHHHHHHHHHHhc
Confidence            455566666654    488999999999998665443 211111222 22333333333334455555555443

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=89.53  E-value=0.18  Score=50.69  Aligned_cols=23  Identities=9%  Similarity=0.075  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||++.+..
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999999997

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=89.51  E-value=0.51  Score=52.13  Aligned_cols=48  Identities=10%  Similarity=-0.020  Sum_probs=36.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC-HHHHHHHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY-ADQILDII  241 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i  241 (821)
                      -..++|.|..|+|||+|++.+.+.    .+-+.++++-+.+..+ +.++.+++
T Consensus       227 Gqr~~I~g~~g~GKT~L~~~ia~~----~~~~~~V~~~iGER~~Ev~e~~~~~  275 (588)
T 3mfy_A          227 GGTAAIPGPAGSGKTVTQHQLAKW----SDAQVVIYIGCGERGNEMTDVLEEF  275 (588)
T ss_dssp             TCEEEECSCCSHHHHHHHHHHHHH----SSCSEEEEEECCSSSSHHHHHHHHT
T ss_pred             CCeEEeecCCCCCHHHHHHHHHhc----cCCCEEEEEEecccHHHHHHHHHHH
Confidence            458999999999999999998762    2235788888888765 45666654

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=89.47  E-value=0.2  Score=49.77  Aligned_cols=24  Identities=13%  Similarity=0.028  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|+|+|+.|+||||+++.+..
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999886

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=89.46  E-value=0.28  Score=49.83  Aligned_cols=23  Identities=17%  Similarity=0.128  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||++.+..
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~G   67 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQN   67 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46999999999999999999986

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=89.45  E-value=0.24  Score=46.77  Aligned_cols=26  Identities=19%  Similarity=0.081  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .....|.|+|.+|+|||||...+.+.
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            34677899999999999999999875

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=89.43  E-value=0.19  Score=50.28  Aligned_cols=23  Identities=13%  Similarity=0.018  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+..
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46999999999999999999986

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=89.43  E-value=0.26  Score=50.84  Aligned_cols=23  Identities=17%  Similarity=0.125  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|+++|.+|+||||++..+..
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~  120 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAY  120 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            67999999999999999988876

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=89.33  E-value=0.18  Score=51.19  Aligned_cols=23  Identities=17%  Similarity=0.134  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|.|||||++.+..
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45999999999999999999986

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=89.25  E-value=0.26  Score=53.46  Aligned_cols=24  Identities=17%  Similarity=0.062  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|.++|.+|+||||++..+..
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~  119 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAY  119 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999988875

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=89.25  E-value=0.18  Score=52.13  Aligned_cols=22  Identities=18%  Similarity=0.273  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999986

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=89.22  E-value=0.3  Score=49.48  Aligned_cols=23  Identities=9%  Similarity=0.078  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+..
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999999986

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=89.21  E-value=0.19  Score=49.44  Aligned_cols=38  Identities=16%  Similarity=0.016  Sum_probs=26.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEP  229 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s  229 (821)
                      -.+++|+|.+|+|||||++.+...  ....=..++|+...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~--~~~~~~~v~~~~~~   60 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAK--GLRDGDPCIYVTTE   60 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHH--HHHHTCCEEEEESS
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH--HHHCCCeEEEEEcc
Confidence            468999999999999999998852  22111245566543

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=89.21  E-value=0.18  Score=54.50  Aligned_cols=35  Identities=20%  Similarity=0.227  Sum_probs=26.4

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       178 ~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++.+.|........+++|+|..|+|||||.+.+..
T Consensus        57 ~i~~~L~~~~~~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           57 AISDALKEIDSSVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             HHHHHHHHHHHCCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             hhhhhhhhcccCCeEEEEECCCCCcHHHHHHHHhC
Confidence            34444443323466999999999999999999987

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=89.18  E-value=0.19  Score=50.95  Aligned_cols=24  Identities=17%  Similarity=0.145  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|+|||||++.+..-
T Consensus        46 Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            459999999999999999999973

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=89.14  E-value=0.19  Score=48.74  Aligned_cols=21  Identities=19%  Similarity=0.139  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +|.|.|.+|+||+|.|+.+.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            577899999999999999987

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=89.13  E-value=0.19  Score=52.19  Aligned_cols=22  Identities=18%  Similarity=0.226  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|+|+.|+||||||+.+..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999987

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=89.09  E-value=0.21  Score=52.04  Aligned_cols=24  Identities=8%  Similarity=0.209  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .++|.|+|+.|+||||||..+...
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999973

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=89.08  E-value=0.19  Score=48.26  Aligned_cols=24  Identities=17%  Similarity=0.277  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .-.|+|+|.+|+|||||.+.+...
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            456899999999999999999864

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=89.06  E-value=0.19  Score=50.73  Aligned_cols=23  Identities=17%  Similarity=0.273  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||++.+..
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~G   68 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYR   68 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45999999999999999999986

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=89.01  E-value=1.7  Score=51.93  Aligned_cols=108  Identities=11%  Similarity=0.063  Sum_probs=61.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccc----eeEEEEcCCCC-------CH-----------HHHHHHHHHHhCC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFD----CHAWVQEPYTC-------YA-----------DQILDIIIKFLMP  247 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~----~~~wv~~s~~~-------~~-----------~~~~~~i~~~l~~  247 (821)
                      -.+++|+|..|.|||||.+.+..- .+.+ |+    .. .+.+.+..       ++           .+-..++++.++.
T Consensus       461 Ge~v~LiGpNGsGKSTLLk~LagG-~i~g-~~~~~~~~-~~~v~q~~~~~~~~ltv~e~l~~~~~~~~~~v~~~L~~lgL  537 (986)
T 2iw3_A          461 ARRYGICGPNGCGKSTLMRAIANG-QVDG-FPTQEECR-TVYVEHDIDGTHSDTSVLDFVFESGVGTKEAIKDKLIEFGF  537 (986)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHT-CSTT-CCCTTTSC-EEETTCCCCCCCTTSBHHHHHHTTCSSCHHHHHHHHHHTTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC-CcCC-Ccccccee-EEEEcccccccccCCcHHHHHHHhhcCHHHHHHHHHHHcCC
Confidence            458999999999999999999831 1110 10    01 12233221       11           2233456666666


Q ss_pred             chh---------------HHHHHHHhCCCcEEEEEecCCCH---HHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          248 SSR---------------LIILHEYLMTKRYLIVIDDVWSI---EVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       248 ~~~---------------~~~l~~~l~~kr~LlVlDdv~~~---~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      ..+               .-.|.+.|-.++=+|+||..-+.   ..-..+...+..  .|.-||++|.+....
T Consensus       538 ~~~~~~~~~~~LSGGqkQRvaLArAL~~~P~lLLLDEPTs~LD~~~~~~l~~~L~~--~g~tvIivSHdl~~l  608 (986)
T 2iw3_A          538 TDEMIAMPISALSGGWKMKLALARAVLRNADILLLDEPTNHLDTVNVAWLVNYLNT--CGITSITISHDSVFL  608 (986)
T ss_dssp             CHHHHHSBGGGCCHHHHHHHHHHHHHHTTCSEEEEESTTTTCCHHHHHHHHHHHHH--SCSEEEEECSCHHHH
T ss_pred             ChhhhcCCcccCCHHHHHHHHHHHHHhcCCCEEEEECCccCCCHHHHHHHHHHHHh--CCCEEEEEECCHHHH
Confidence            311               34555666677889999998643   222222222222  367788888876554

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=88.99  E-value=0.22  Score=54.24  Aligned_cols=23  Identities=22%  Similarity=0.195  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|+|.+|+||||+|..+..
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~  121 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLAR  121 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            56999999999999999988876

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=88.94  E-value=0.2  Score=50.22  Aligned_cols=23  Identities=13%  Similarity=0.157  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+..
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~G   48 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAG   48 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999999986

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=88.91  E-value=0.48  Score=55.55  Aligned_cols=93  Identities=16%  Similarity=0.151  Sum_probs=57.4

Q ss_pred             CCCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC
Q 045113          164 FKNRDTVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC  232 (821)
Q Consensus       164 ~~~~~~vGr~~~~~~i~~~L~~~-----------~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~  232 (821)
                      +.-..+.|.++.++++.+.+.-.           -...+-|-++|.+|.|||.+|+++.+  +....|     +.++.  
T Consensus       474 v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~--e~~~~f-----~~v~~--  544 (806)
T 3cf2_A          474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN--ECQANF-----ISIKG--  544 (806)
T ss_dssp             CCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHH--TTTCEE-----EECCH--
T ss_pred             CCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHH--HhCCce-----EEecc--
Confidence            44456889999988887776532           12345577999999999999999998  443332     23221  


Q ss_pred             CHHHHHHHHHHHhCCchh--HHHHHHHh-CCCcEEEEEecCC
Q 045113          233 YADQILDIIIKFLMPSSR--LIILHEYL-MTKRYLIVIDDVW  271 (821)
Q Consensus       233 ~~~~~~~~i~~~l~~~~~--~~~l~~~l-~~kr~LlVlDdv~  271 (821)
                        .    +++...-+..+  ...+.+.- +..+..|+||+++
T Consensus       545 --~----~l~s~~vGese~~vr~lF~~Ar~~~P~IifiDEiD  580 (806)
T 3cf2_A          545 --P----ELLTMWFGESEANVREIFDKARQAAPCVLFFDELD  580 (806)
T ss_dssp             --H----HHHTTTCSSCHHHHHHHHHHHHTTCSEEEECSCGG
T ss_pred             --c----hhhccccchHHHHHHHHHHHHHHcCCceeechhhh
Confidence              1    22222222111  33333333 4578999999995

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=88.90  E-value=0.21  Score=50.61  Aligned_cols=22  Identities=23%  Similarity=0.249  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++|+|.|-||+||||+|..+..
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~   23 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTS   23 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHHHH
Confidence            6888999999999999887775

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=88.86  E-value=0.23  Score=52.57  Aligned_cols=23  Identities=17%  Similarity=0.092  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|+|+|..|+||||+++.+..
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHh
Confidence            57999999999999999988876

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=88.83  E-value=0.22  Score=51.12  Aligned_cols=23  Identities=13%  Similarity=0.225  Sum_probs=20.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .++|+|.|-||+||||+|..+..
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~   24 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVA   24 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHH
Confidence            57899999999999999888775

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=88.83  E-value=0.23  Score=46.98  Aligned_cols=24  Identities=4%  Similarity=0.088  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ...|+|+|.+|+|||||.+.+...
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999874

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=88.78  E-value=0.36  Score=50.83  Aligned_cols=34  Identities=21%  Similarity=0.186  Sum_probs=25.7

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          179 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       179 i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +++-+.-.-....+++|+|.+|+|||||.+.+..
T Consensus        44 ~l~~i~~~~~~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           44 LIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             HHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHhCCcccCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4444433333478999999999999999999873

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=88.76  E-value=0.21  Score=50.25  Aligned_cols=24  Identities=13%  Similarity=0.074  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|+|||||.+.+..-
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999863

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=88.68  E-value=0.58  Score=46.02  Aligned_cols=23  Identities=17%  Similarity=-0.064  Sum_probs=18.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -..|.|-|+.|+||||+++.+.+
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~   47 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCD   47 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999987

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=88.61  E-value=0.22  Score=50.93  Aligned_cols=23  Identities=13%  Similarity=-0.018  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+..
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~G   69 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNA   69 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999999987

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=88.50  E-value=0.22  Score=45.88  Aligned_cols=24  Identities=8%  Similarity=0.180  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .--|.|+|.+|+|||||+..+.+.
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            446889999999999999998864

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=88.49  E-value=0.26  Score=46.82  Aligned_cols=25  Identities=12%  Similarity=0.061  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcC
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ....|.|+|.+|+|||||...+...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4568899999999999999998864

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=88.46  E-value=0.23  Score=46.14  Aligned_cols=24  Identities=29%  Similarity=0.314  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .--|.|+|.+|+|||||.+.+...
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEEECCCCccHHHHHHHHhcC
Confidence            456899999999999999998864

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=88.35  E-value=0.21  Score=45.79  Aligned_cols=22  Identities=14%  Similarity=0.317  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.++|.+|+|||||+..+...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4889999999999999998764

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=88.32  E-value=0.26  Score=49.85  Aligned_cols=107  Identities=14%  Similarity=0.166  Sum_probs=56.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEE-cCCCCCHHHHHHHHHH--HhCCc-hh-HHHHHHHhCCCcEE
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQ-EPYTCYADQILDIIIK--FLMPS-SR-LIILHEYLMTKRYL  264 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~-~s~~~~~~~~~~~i~~--~l~~~-~~-~~~l~~~l~~kr~L  264 (821)
                      -.+++|+|..|+|||||++.+..  .+...+...+++. ..-.+-.... ..+..  .++.. .. ...+.+.|...+=+
T Consensus        25 g~~v~i~Gp~GsGKSTll~~l~g--~~~~~~~G~I~~~g~~i~~~~~~~-~~~v~q~~~gl~~~~l~~~la~aL~~~p~i  101 (261)
T 2eyu_A           25 MGLILVTGPTGSGKSTTIASMID--YINQTKSYHIITIEDPIEYVFKHK-KSIVNQREVGEDTKSFADALRAALREDPDV  101 (261)
T ss_dssp             SEEEEEECSTTCSHHHHHHHHHH--HHHHHCCCEEEEEESSCCSCCCCS-SSEEEEEEBTTTBSCHHHHHHHHHHHCCSE
T ss_pred             CCEEEEECCCCccHHHHHHHHHH--hCCCCCCCEEEEcCCcceeecCCc-ceeeeHHHhCCCHHHHHHHHHHHHhhCCCE
Confidence            56999999999999999998876  2221122333221 1000000000 00000  00000 01 34555556556778


Q ss_pred             EEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          265 IVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       265 lVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      |++|...+.+....+....   ..|.-|++||...++.
T Consensus       102 lllDEp~D~~~~~~~l~~~---~~g~~vl~t~H~~~~~  136 (261)
T 2eyu_A          102 IFVGEMRDLETVETALRAA---ETGHLVFGTLHTNTAI  136 (261)
T ss_dssp             EEESCCCSHHHHHHHHHHH---HTTCEEEEEECCSSHH
T ss_pred             EEeCCCCCHHHHHHHHHHH---ccCCEEEEEeCcchHH
Confidence            9999997665443333222   2366788888876654

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=88.28  E-value=0.38  Score=50.76  Aligned_cols=25  Identities=12%  Similarity=0.076  Sum_probs=22.0

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ....+|+|+|.+|+|||||+..+..
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            4578999999999999999998864

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=88.27  E-value=0.55  Score=53.28  Aligned_cols=107  Identities=17%  Similarity=0.160  Sum_probs=58.3

Q ss_pred             hhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchhHH
Q 045113          173 DDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSRLI  252 (821)
Q Consensus       173 ~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~  252 (821)
                      ..+..+.+..+..    -+++.|.|.+|.||||++..+...  .... ...+.+.........    .+.+.++...  .
T Consensus       191 ~~~Q~~Av~~~~~----~~~~~I~G~pGTGKTt~i~~l~~~--l~~~-g~~Vl~~ApT~~Aa~----~L~e~~~~~a--~  257 (574)
T 3e1s_A          191 SEEQASVLDQLAG----HRLVVLTGGPGTGKSTTTKAVADL--AESL-GLEVGLCAPTGKAAR----RLGEVTGRTA--S  257 (574)
T ss_dssp             CHHHHHHHHHHTT----CSEEEEECCTTSCHHHHHHHHHHH--HHHT-TCCEEEEESSHHHHH----HHHHHHTSCE--E
T ss_pred             CHHHHHHHHHHHh----CCEEEEEcCCCCCHHHHHHHHHHH--HHhc-CCeEEEecCcHHHHH----HhHhhhcccH--H
Confidence            4455555555553    358889999999999999888762  2211 234444443332222    2222222221  1


Q ss_pred             HHHHHhC-------------CCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEE
Q 045113          253 ILHEYLM-------------TKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLIT  295 (821)
Q Consensus       253 ~l~~~l~-------------~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiT  295 (821)
                      .+.+.+.             .+-=+||+|.+..  ...+..+...++   .|.++|+.
T Consensus       258 Tih~ll~~~~~~~~~~~~~~~~~dvlIIDEasml~~~~~~~Ll~~~~---~~~~lilv  312 (574)
T 3e1s_A          258 TVHRLLGYGPQGFRHNHLEPAPYDLLIVDEVSMMGDALMLSLLAAVP---PGARVLLV  312 (574)
T ss_dssp             EHHHHTTEETTEESCSSSSCCSCSEEEECCGGGCCHHHHHHHHTTSC---TTCEEEEE
T ss_pred             HHHHHHcCCcchhhhhhcccccCCEEEEcCccCCCHHHHHHHHHhCc---CCCEEEEE
Confidence            1122221             0224899999853  355667766665   45677643

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=88.27  E-value=0.38  Score=44.83  Aligned_cols=25  Identities=20%  Similarity=0.243  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcC
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ....|.|+|.+|+|||||...+.+.
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4667899999999999999998764

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=88.27  E-value=0.26  Score=50.84  Aligned_cols=23  Identities=22%  Similarity=0.040  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+++|+|.+|+||||++..+..
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~  120 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLAL  120 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            57999999999999999998886

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=88.24  E-value=0.14  Score=52.63  Aligned_cols=23  Identities=9%  Similarity=0.092  Sum_probs=18.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|+|.|..|+||||+|+.+.+
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999999876

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=88.23  E-value=0.24  Score=53.86  Aligned_cols=24  Identities=21%  Similarity=0.230  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|.|+|++|+||||+|+.+..
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999999987

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=88.21  E-value=0.39  Score=53.31  Aligned_cols=24  Identities=13%  Similarity=0.120  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|.|+|.+|+||||++..+..
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~  123 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAY  123 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999988875

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=88.20  E-value=9.8  Score=40.01  Aligned_cols=25  Identities=12%  Similarity=0.214  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcC
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ....|+|+|.+|+|||||...+...
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~~  190 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTTA  190 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999998864

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=88.17  E-value=0.31  Score=48.44  Aligned_cols=47  Identities=15%  Similarity=0.013  Sum_probs=30.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDI  240 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~  240 (821)
                      -.++.|.|.+|+||||||..+...  ....=..++|++....  ..++.+.
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~--~~~~~~~v~~~~~e~~--~~~~~~~   69 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWN--GLKMGEPGIYVALEEH--PVQVRQN   69 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH--HHHTTCCEEEEESSSC--HHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEEccCC--HHHHHHH
Confidence            468999999999999998877642  2111235777765543  4444433

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=88.11  E-value=0.23  Score=47.13  Aligned_cols=23  Identities=13%  Similarity=0.275  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.|.|+|.+|+|||||+..+...
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46889999999999999999764

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=88.08  E-value=0.22  Score=49.19  Aligned_cols=24  Identities=29%  Similarity=0.231  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.+|+|.|..|+||||+++.+..
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~   42 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEK   42 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            357999999999999999999987

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=88.08  E-value=0.25  Score=46.24  Aligned_cols=23  Identities=13%  Similarity=0.050  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ..|+|+|.+|+|||||.+.+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999999864

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=88.01  E-value=0.24  Score=50.65  Aligned_cols=23  Identities=13%  Similarity=0.112  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.++.|+|.+|+|||||+..+..
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46999999999999999988875

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=87.99  E-value=0.26  Score=45.49  Aligned_cols=22  Identities=18%  Similarity=0.235  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      --|.|+|.+|+|||||+..+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            4588999999999999999864

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=87.99  E-value=0.26  Score=50.77  Aligned_cols=23  Identities=17%  Similarity=0.107  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.|+|+.|+||||||..+..
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~   25 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAK   25 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCcCCHHHHHHHHHH
Confidence            35899999999999999999987

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=87.97  E-value=0.42  Score=49.28  Aligned_cols=24  Identities=4%  Similarity=0.119  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-.+++|+|..|.|||||++.+..
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhh
Confidence            356999999999999999999886

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=87.95  E-value=0.25  Score=45.37  Aligned_cols=23  Identities=22%  Similarity=0.273  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .-|.|+|.+|+|||||...+...
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46889999999999999998764

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=87.93  E-value=0.48  Score=47.80  Aligned_cols=38  Identities=16%  Similarity=0.156  Sum_probs=28.6

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      +.++...+.......-.|+|+|.+|+|||||...+...
T Consensus        22 l~~~~~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           22 LIEFFGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHhhccCCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34455555554445678999999999999999998864

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=87.89  E-value=0.3  Score=44.92  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|.+|+|||||.+.+.+.
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5789999999999999998764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=87.86  E-value=0.27  Score=45.46  Aligned_cols=23  Identities=17%  Similarity=0.323  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      --|.|+|.+|+|||||...+.+.
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999999864

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=87.78  E-value=0.24  Score=45.58  Aligned_cols=22  Identities=27%  Similarity=0.223  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|.+|+|||||.+.+.+.
T Consensus         4 ki~~vG~~~~GKSsli~~l~~~   25 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGGV   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCc
Confidence            4789999999999999998753

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=87.74  E-value=0.31  Score=45.03  Aligned_cols=24  Identities=17%  Similarity=0.094  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .--|.|+|.+|+|||||...+...
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            456899999999999999998864

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=87.71  E-value=0.49  Score=47.53  Aligned_cols=34  Identities=12%  Similarity=0.066  Sum_probs=26.1

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          179 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       179 i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +..+|....+....|.++|.+|.|||++|.++.+
T Consensus        93 l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~  126 (267)
T 1u0j_A           93 FLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHh
Confidence            4444444324456799999999999999999987

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=87.67  E-value=0.67  Score=45.13  Aligned_cols=23  Identities=17%  Similarity=-0.058  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -..|.|-|..|+||||+++.+.+
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~   28 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAE   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHH
Confidence            36899999999999999999987

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=87.63  E-value=0.27  Score=49.94  Aligned_cols=21  Identities=14%  Similarity=0.434  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .++|+|..|+|||||.+.++.
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g   24 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFK   24 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999885

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=87.54  E-value=0.53  Score=47.75  Aligned_cols=39  Identities=15%  Similarity=0.193  Sum_probs=28.5

Q ss_pred             hHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          175 RMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       175 ~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .+.++...+.........|.++|.+|+|||||...+...
T Consensus        24 ~l~~~~~~~~~~~~~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           24 KLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHhhcCCCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            334444445444444678899999999999999999865

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=87.50  E-value=0.36  Score=45.85  Aligned_cols=25  Identities=12%  Similarity=0.255  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcC
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ....|.|+|.+|+|||||...+.+.
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4677899999999999999999864

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=87.49  E-value=0.74  Score=59.10  Aligned_cols=86  Identities=19%  Similarity=0.067  Sum_probs=54.7

Q ss_pred             HHHHHh-cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCc---------
Q 045113          179 LLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPS---------  248 (821)
Q Consensus       179 i~~~L~-~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~---------  248 (821)
                      +-++|. .+=+.-+.|-|+|.+|+||||||.++...  ...+=..++|+++...++...     ++.++..         
T Consensus      1415 LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~e--a~~~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~ 1487 (2050)
T 3cmu_A         1415 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAA--AQREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQP 1487 (2050)
T ss_dssp             HHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHH--HHTTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECC
T ss_pred             HHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEEcccccCHHH-----HHHcCCCchhceeecC
Confidence            444554 33335789999999999999999998763  222213577888887776665     3344411         


Q ss_pred             ---hh-HHHHHHHh-CCCcEEEEEecCC
Q 045113          249 ---SR-LIILHEYL-MTKRYLIVIDDVW  271 (821)
Q Consensus       249 ---~~-~~~l~~~l-~~kr~LlVlDdv~  271 (821)
                         +. ...+++.. ..+.-+||+|.+.
T Consensus      1488 ~~~E~~l~~~~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1488 DTGEQALEICDALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             SSHHHHHHHHHHHHHHTCCSEEEESCGG
T ss_pred             ChHHHHHHHHHHHHhcCCCCEEEEcChh
Confidence               11 33333333 2467799999994

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=87.43  E-value=0.3  Score=48.66  Aligned_cols=23  Identities=17%  Similarity=0.219  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...|.|.|..|+||||+++.+.+
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~   24 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            46799999999999999999987

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=87.39  E-value=0.24  Score=51.24  Aligned_cols=23  Identities=9%  Similarity=0.190  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|.|||||++.+..
T Consensus        80 Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           80 GQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             TCEEEEESSSCHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCchHHHHHHHHHc
Confidence            46999999999999999999976

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=87.34  E-value=0.29  Score=45.20  Aligned_cols=23  Identities=17%  Similarity=0.226  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      --|.|+|.+|+|||||.+.+.+.
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45889999999999999998764

---

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	821
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-10
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	2e-07
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	4e-04

>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 = 60.2 bits (145), Expect = 2e-10
 Identities = 29/161 (18%), Positives = 50/161 (31%), Gaps = 32/161 (19%)

Query: 156 GNFPASLSFKNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSI-GLDKTAFAAEAYS-- 212
           GN P  ++         +  ++ ++  L E     S    L    G  K+  A++A S  
Sbjct: 14  GNVPKQMTC-----YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKS 68

Query: 213 GNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS------------------RLIIL 254
              +   +D   W+++  T             LM  S                  + +I 
Sbjct: 69  DQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMIC 128

Query: 255 HEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLIT 295
           +  +     L V DDV   E     +E         R L+T
Sbjct: 129 NALIDRPNTLFVFDDVVQEETIRWAQE------LRLRCLVT 163

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 51.2 bits (121), Expect = 2e-07
 Identities = 42/211 (19%), Positives = 69/211 (32%), Gaps = 9/211 (4%)

Query: 517 YKLLRVLDLGSLVLNQY-PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFS 575
            K L  L L +  +++  P     L  L  L L+   LK LP      L  L   +   +
Sbjct: 54  LKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEIT 113

Query: 576 YIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPN 635
            +  +         +  L    +            ++ L++I  +     T    G  P+
Sbjct: 114 KVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIR-IADTNITTIPQGLPPS 172

Query: 636 LRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSF 695
           L  L     L  N+ +       L  L +L     S     +    +    PH L  L  
Sbjct: 173 LTEL----HLDGNK-ITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPH-LRELHL 226

Query: 696 SNTDLMDDPMPALEKLPLLQVLKLKQNSYSG 726
           +N  L+  P   L     +QV+ L  N+ S 
Sbjct: 227 NNNKLVKVPG-GLADHKYIQVVYLHNNNISA 256

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 41.1 bits (95), Expect = 4e-04
 Identities = 35/214 (16%), Positives = 65/214 (30%), Gaps = 24/214 (11%)

Query: 488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLK 547
               L  L    S     + I       +   L  L L    L +    + +L+ L  L 
Sbjct: 189 DISVLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQL-KDIGTLASLTNLTDLD 247

Query: 548 LNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNY 607
           L    + +L     + L  L  L +  + I + +               +      P + 
Sbjct: 248 LANNQISNLA--PLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISN 305

Query: 608 CGSLENL----NFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLE 663
             +L  L    N IS + P       +  L  L+ L      + N+     SL  L+ + 
Sbjct: 306 LKNLTYLTLYFNNISDISP-------VSSLTKLQRL----FFANNKVSDVSSLANLTNIN 354

Query: 664 SLKLANESKMPRLSKIILAEYVFPHSLTHLSFSN 697
            L   +     ++S +          +T L  ++
Sbjct: 355 WLSAGHN----QISDLT--PLANLTRITQLGLND 382

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	821
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.81
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.77
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.77
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.75
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.74
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.67
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.64
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.64
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.6
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.59
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.54
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.51
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.51
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.5
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.47
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.46
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.45
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.41
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.38
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.35
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.32
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.31
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.3
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.27
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.25
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.18
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.17
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.03
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.01
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.97
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.92
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.91
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.91
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.84
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.62
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.56
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.41
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.14
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.87
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.87
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.78
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.73
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.72
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.7
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.68
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.68
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.61
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.6
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.58
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.58
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.51
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.31
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.27
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.21
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.14
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.14
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	97.02
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.94
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.93
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.86
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.83
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	96.74
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.55
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.55
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.28
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.18
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.08
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.02
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	95.94
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	95.9
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.9
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	95.82
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	95.78
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.76
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	95.72
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	95.53
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.51
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.5
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.47
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	95.45
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.45
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.44
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.43
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	95.4
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.24
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	95.21
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.2
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	95.15
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.13
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	95.07
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.07
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.05
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.03
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.01
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	94.96
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	94.86
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	94.8
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	94.8
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	94.77
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	94.75
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	94.74
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	94.65
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.64
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	94.61
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	94.42
d2awna2	232	Maltose transport protein MalK, N-terminal domain	94.4
d1okkd2	207	GTPase domain of the signal recognition particle r	94.38
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	94.32
d1vmaa2	213	GTPase domain of the signal recognition particle r	94.08
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.02
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	93.98
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	93.94
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	93.9
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	93.9
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	93.86
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	93.81
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	93.66
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	93.6
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	93.56
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	93.54
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	93.53
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	93.48
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	93.32
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	93.24
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	93.2
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	93.16
d1j8yf2	211	GTPase domain of the signal sequence recognition p	93.06
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	93.02
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	92.99
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	92.91
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	92.82
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	92.81
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	92.77
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	92.77
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	92.68
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	92.56
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	92.49
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	92.4
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	92.34
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.33
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.1
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	92.09
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	92.01
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	91.96
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	91.76
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.73
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	91.67
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	91.67
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	91.61
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	91.57
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	91.55
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	91.51
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	91.3
d1xpua3	289	Transcription termination factor Rho, ATPase domai	91.23
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	91.06
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	90.97
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	90.97
d1g2912	240	Maltose transport protein MalK, N-terminal domain	90.67
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	90.67
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	90.67
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	90.56
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	90.55
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	90.41
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	90.35
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	90.33
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	90.28
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	90.15
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	90.14
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	90.01
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	90.01
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	89.95
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	89.94
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	89.92
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	89.83
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	89.79
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	89.72
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	89.68
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	89.58
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	89.57
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	89.43
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	89.39
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	89.21
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	89.11
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	89.1
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	89.09
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	88.93
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	88.81
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	88.77
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	88.69
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	88.67
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	88.62
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	88.6
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	88.52
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	88.47
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	88.33
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	88.32
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	88.25
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	88.24
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	88.18
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	88.17
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	88.17
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	88.1
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	88.07
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	88.04
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	88.02
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	87.98
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	87.97
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	87.95
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	87.86
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	87.79
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	87.79
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	87.74
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	87.69
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	87.68
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	87.53
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	87.51
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	87.49
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	87.46
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	87.09
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	87.07
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	87.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	86.71
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	86.64
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	86.5
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	86.45
d2fh5b1	207	Signal recognition particle receptor beta-subunit	86.26
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	86.23
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	86.21
d1nrjb_	209	Signal recognition particle receptor beta-subunit	86.19
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	86.12
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	86.09
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	86.08
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	86.07
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	85.84
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	85.72
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	85.66
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	85.55
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	85.48
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	85.36
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	85.35
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	85.31
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	85.29
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	85.13
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	85.12
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	84.98
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	84.47
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	84.01
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	83.88
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	83.85
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	82.98
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	82.49
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	82.14
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	82.03
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	81.12
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	80.73
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	80.53
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	80.24
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	80.19

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=1.2e-35  Score=308.15  Aligned_cols=203  Identities=15%  Similarity=0.129  Sum_probs=160.7

Q ss_pred             CCCCeeechhhHHHHHHHHhc-CCCCceEEEEEcCCCChHHHHHHHHhcCcc--cccccceeEEEEcCCCCCHHHHHHHH
Q 045113          165 KNRDTVGLDDRMEELLDLLIE-GPPQLSAVTILDSIGLDKTAFAAEAYSGNY--VKHYFDCHAWVQEPYTCYADQILDII  241 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~-~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~--~~~~F~~~~wv~~s~~~~~~~~~~~i  241 (821)
                      .++.++||+.++++|+++|.. .+.+.++|+|+||||+||||||+++|++.+  ...+|++++||++++.++...+...+
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~   97 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFT   97 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHH
Confidence            455688999999999999975 455689999999999999999999998543  67789999999999999877766555


Q ss_pred             HHHh---CCch------------h---HHHHHHHhCCCcEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh-
Q 045113          242 IKFL---MPSS------------R---LIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV-  302 (821)
Q Consensus       242 ~~~l---~~~~------------~---~~~l~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~-  302 (821)
                      ...+   ....            .   ...+.+.+.++|+|+||||||+..+|+.+..      .|||||||||++.|+ 
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~v~~  171 (277)
T d2a5yb3          98 DILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVEISN  171 (277)
T ss_dssp             HHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGGGGG
T ss_pred             HHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhcc------cCceEEEEeehHHHHH
Confidence            4433   2211            0   3457788899999999999999999887643      389999999999988 


Q ss_pred             --------------------cccc-cccCCcCCCCccchHHHHHHHcCCchHHHHHhhccc----c--------ccc--c
Q 045113          303 --------------------TLFQ-FENGQNIRLDLVPTGGPLRVTYQGWPFHILYHGSIS----L--------EEN--K  347 (821)
Q Consensus       303 --------------------~lf~-~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~~----~--------~~~--~  347 (821)
                                          +||+ .+......+..++++++|+++|+|+||||+++|+..    |        +++  .
T Consensus       172 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~  251 (277)
T d2a5yb3         172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRG  251 (277)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHC
T ss_pred             hcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcCc
Confidence                                6666 222222445567889999999999999999999331    1        111  4


Q ss_pred             hhccccchhHHHHhhhcCChhhHHHHhhc
Q 045113          348 REAIAKPIFLQSVAYCMLPFPLKLCCLYL  376 (821)
Q Consensus       348 ~~~i~~~~~~l~~sy~~L~~~~k~cfl~~  376 (821)
                      ..++.   +++.+||++||+++|.||-++
T Consensus       252 ~~~v~---~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         252 LVGVE---CITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             SSTTC---CCSSSSSSSHHHHHHHHHHTS
T ss_pred             HHHHH---HHHHHHHhcccHHHHHHHHhC
Confidence            57788   999999999999999999764

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.81  E-value=2.3e-19  Score=195.03  Aligned_cols=283  Identities=18%  Similarity=0.200  Sum_probs=170.9

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      .+.+|++|.+.++....     + .-+..+++|++|+|++|.++.+|+ ++++++|++|++++|.+..+++ +. .+++|
T Consensus        42 ~l~~l~~L~l~~~~I~~-----l-~gl~~L~nL~~L~Ls~N~l~~l~~-l~~L~~L~~L~L~~n~i~~i~~-l~-~l~~L  112 (384)
T d2omza2          42 DLDQVTTLQADRLGIKS-----I-DGVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITP-LA-NLTNL  112 (384)
T ss_dssp             HHTTCCEEECCSSCCCC-----C-TTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GT-TCTTC
T ss_pred             HhCCCCEEECCCCCCCC-----c-cccccCCCCCEEeCcCCcCCCCcc-ccCCcccccccccccccccccc-cc-ccccc
Confidence            56789999998877653     1 236788999999999999998875 8899999999999999988774 77 89999


Q ss_pred             eEEecCCcccccchhhhccCccCceeecCCcccC-----------------------------------------CCCCC
Q 045113          568 YTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLP-----------------------------------------AHPGN  606 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~-----------------------------------------~~~p~  606 (821)
                      +.|+++++.+..++... ....+..+....+.+.                                         ...+.
T Consensus       113 ~~L~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (384)
T d2omza2         113 TGLTLFNNQITDIDPLK-NLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDIS  191 (384)
T ss_dssp             CEEECCSSCCCCCGGGT-TCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCG
T ss_pred             ccccccccccccccccc-ccccccccccccccccccccccccccccccccccccchhhhhcccccccccccccccccccc
Confidence            99999887655443211 1122222222111110                                         00111


Q ss_pred             CcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCC--------CCCCCC
Q 045113          607 YCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANES--------KMPRLS  677 (821)
Q Consensus       607 ~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~--------~~~~L~  677 (821)
                      ....+++++.+.+..+ -..... ...+++|+.|+++++.   ...+ ..+..+++|+.|+++.+-        .+++|+
T Consensus       192 ~~~~l~~~~~l~l~~n~i~~~~~-~~~~~~L~~L~l~~n~---l~~~-~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~L~  266 (384)
T d2omza2         192 VLAKLTNLESLIATNNQISDITP-LGILTNLDELSLNGNQ---LKDI-GTLASLTNLTDLDLANNQISNLAPLSGLTKLT  266 (384)
T ss_dssp             GGGGCTTCSEEECCSSCCCCCGG-GGGCTTCCEEECCSSC---CCCC-GGGGGCTTCSEEECCSSCCCCCGGGTTCTTCS
T ss_pred             ccccccccceeeccCCccCCCCc-ccccCCCCEEECCCCC---CCCc-chhhcccccchhccccCccCCCCcccccccCC
Confidence            2233344444444332 111112 2334445555554442   1111 123444455555554321        222333


Q ss_pred             eeEecc--------cCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCC
Q 045113          678 KIILAE--------YVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLW  749 (821)
Q Consensus       678 ~l~l~~--------~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~  749 (821)
                      .+.+++        +..++.++.+.++.|.+.+  +..+..+++++.|++++|.+.+..   ....+++|++|++++| .
T Consensus       267 ~L~l~~~~l~~~~~~~~~~~l~~l~~~~n~l~~--~~~~~~~~~l~~L~ls~n~l~~l~---~l~~l~~L~~L~L~~n-~  340 (384)
T d2omza2         267 ELKLGANQISNISPLAGLTALTNLELNENQLED--ISPISNLKNLTYLTLYFNNISDIS---PVSSLTKLQRLFFANN-K  340 (384)
T ss_dssp             EEECCSSCCCCCGGGTTCTTCSEEECCSSCCSC--CGGGGGCTTCSEEECCSSCCSCCG---GGGGCTTCCEEECCSS-C
T ss_pred             EeeccCcccCCCCcccccccccccccccccccc--ccccchhcccCeEECCCCCCCCCc---ccccCCCCCEEECCCC-C
Confidence            333322        4456666777777766543  445677788888888877776632   2467888888888887 5


Q ss_pred             ccceeeccccccccceeEEeecCCCCCCccccCCCCCCCEEEEeC
Q 045113          750 LEEWTMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLNNFNCWW  794 (821)
Q Consensus       750 l~~~~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~  794 (821)
                      ++.++ .+..+|+|++|++++|. ++.+|. +.++++|+.|++++
T Consensus       341 l~~l~-~l~~l~~L~~L~l~~N~-l~~l~~-l~~l~~L~~L~L~~  382 (384)
T d2omza2         341 VSDVS-SLANLTNINWLSAGHNQ-ISDLTP-LANLTRITQLGLND  382 (384)
T ss_dssp             CCCCG-GGGGCTTCCEEECCSSC-CCBCGG-GTTCTTCSEEECCC
T ss_pred             CCCCh-hHcCCCCCCEEECCCCc-CCCChh-hccCCCCCEeeCCC
Confidence            66665 46778888888888774 556654 77888888888875

>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=99.77  E-value=1.1e-19  Score=192.03  Aligned_cols=244  Identities=19%  Similarity=0.189  Sum_probs=150.1

Q ss_pred             ceeEEEeCCCCCC---cccccccCCCCceEEeecC-CCCc-cccHHHHhccccceEEecCCcccccc-hhhhccCccCce
Q 045113          519 LLRVLDLGSLVLN---QYPSEIENLSLLRYLKLNI-PSLK-SLPLSFFNYLLNLYTLDMPFSYIDHT-ADEFWKMKKLRH  592 (821)
Q Consensus       519 ~Lr~L~L~~~~l~---~lp~~i~~l~~Lr~L~L~~-~~i~-~lp~~i~~~L~~L~~L~L~~~~l~~l-p~~i~~l~~L~~  592 (821)
                      +++.|+|+++.+.   .+|+.+++|++|++|+|++ |.+. .+|.+++ +|++|++|+|++|.+..+ |..+..+.+|++
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~-~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~  129 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIA-KLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGG-GCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccccc-cccccchhhhccccccccccccccchhhhcc
Confidence            5777888888766   5778888888888888876 5665 7888888 888888888888877665 455777888888


Q ss_pred             eecCCcccCCCCCCCcCCCCCcceeccccC---CcchhhhcCCCCCC-CeEEEecccccchhHHHHHccCCCCcCEEEee
Q 045113          593 LNFGSITLPAHPGNYCGSLENLNFISALYP---CCCTKDLLGRLPNL-RNLRIQGDLSYNQSLLSKSLCRLSCLESLKLA  668 (821)
Q Consensus       593 L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~---~~~~~~~l~~l~~L-~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~  668 (821)
                      +++++|.+...+|..++++++|+++++..+   +..+.. +..+.++ +.+.++.+  ...+..+..+..+..+ .+++.
T Consensus       130 l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~-~~~l~~l~~~l~~~~n--~l~~~~~~~~~~l~~~-~l~l~  205 (313)
T d1ogqa_         130 LDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS-YGSFSKLFTSMTISRN--RLTGKIPPTFANLNLA-FVDLS  205 (313)
T ss_dssp             EECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGCCCTTCCEEECCSS--EEEEECCGGGGGCCCS-EEECC
T ss_pred             cccccccccccCchhhccCcccceeeccccccccccccc-cccccccccccccccc--cccccccccccccccc-ccccc
Confidence            888888887778877877777777777664   234444 5566555 56666655  2222233334333322 34443


Q ss_pred             cCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCC
Q 045113          669 NESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSML  748 (821)
Q Consensus       669 ~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~  748 (821)
                      .+    ............+++|+.+++++|.+.+. ++.++.+++|+.|+|++|.+.+.. +.....+++|++|+|++|.
T Consensus       206 ~~----~~~~~~~~~~~~~~~l~~l~~~~~~l~~~-~~~~~~~~~L~~L~Ls~N~l~g~i-P~~l~~L~~L~~L~Ls~N~  279 (313)
T d1ogqa_         206 RN----MLEGDASVLFGSDKNTQKIHLAKNSLAFD-LGKVGLSKNLNGLDLRNNRIYGTL-PQGLTQLKFLHSLNVSFNN  279 (313)
T ss_dssp             SS----EEEECCGGGCCTTSCCSEEECCSSEECCB-GGGCCCCTTCCEEECCSSCCEECC-CGGGGGCTTCCEEECCSSE
T ss_pred             cc----ccccccccccccccccccccccccccccc-ccccccccccccccCccCeecccC-ChHHhCCCCCCEEECcCCc
Confidence            21    11111111234556666666666665433 345556666666666666655433 2234556666666666653


Q ss_pred             Ccc-ceeeccccccccceeEEeecCCCC
Q 045113          749 WLE-EWTMGTGAMPKLECLIINPCAYLK  775 (821)
Q Consensus       749 ~l~-~~~~~~~~l~~L~~L~i~~c~~l~  775 (821)
                       +. .+| ..+.+++|+.+.+.+|+.+.
T Consensus       280 -l~g~iP-~~~~L~~L~~l~l~~N~~l~  305 (313)
T d1ogqa_         280 -LCGEIP-QGGNLQRFDVSAYANNKCLC  305 (313)
T ss_dssp             -EEEECC-CSTTGGGSCGGGTCSSSEEE
T ss_pred             -ccccCC-CcccCCCCCHHHhCCCcccc
Confidence             33 444 23556666666666665444

>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=99.77  E-value=1.3e-19  Score=191.26  Aligned_cols=250  Identities=15%  Similarity=0.128  Sum_probs=196.3

Q ss_pred             CCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCC-CCCC-cccccccCCCCceEEeecCCCCcccc-HHHHhccc
Q 045113          489 YPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGS-LVLN-QYPSEIENLSLLRYLKLNIPSLKSLP-LSFFNYLL  565 (821)
Q Consensus       489 ~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~-~~l~-~lp~~i~~l~~Lr~L~L~~~~i~~lp-~~i~~~L~  565 (821)
                      ..+++.|.+.++....  ....+..+.++++|++|+|++ |.+. .+|..|+++++|++|+|++|.+..++ ..+. .+.
T Consensus        49 ~~~v~~L~L~~~~l~g--~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~-~~~  125 (313)
T d1ogqa_          49 TYRVNNLDLSGLNLPK--PYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLS-QIK  125 (313)
T ss_dssp             CCCEEEEEEECCCCSS--CEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGG-GCT
T ss_pred             cEEEEEEECCCCCCCC--CCCCChHHhcCccccccccccccccccccccccccccccchhhhcccccccccccccc-chh
Confidence            3467888888765542  112456788999999999997 5676 89999999999999999999998655 4455 899


Q ss_pred             cceEEecCCcc-cccchhhhccCccCceeecCCcccCCCCCCCcCCCCCc-ceeccccC---CcchhhhcCCCCCCCeEE
Q 045113          566 NLYTLDMPFSY-IDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENL-NFISALYP---CCCTKDLLGRLPNLRNLR  640 (821)
Q Consensus       566 ~L~~L~L~~~~-l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L-~~L~~~~~---~~~~~~~l~~l~~L~~L~  640 (821)
                      +|+.+++++|. ...+|..+.++++|+++++++|.+.+.+|..+..+.++ +.+....+   +..+.. +..+..+ .++
T Consensus       126 ~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~-~~~l~~~-~l~  203 (313)
T d1ogqa_         126 TLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPT-FANLNLA-FVD  203 (313)
T ss_dssp             TCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGG-GGGCCCS-EEE
T ss_pred             hhcccccccccccccCchhhccCcccceeecccccccccccccccccccccccccccccccccccccc-ccccccc-ccc
Confidence            99999999994 55678999999999999999999988999988888876 66666654   334444 5555443 577


Q ss_pred             EecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEe
Q 045113          641 IQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLK  720 (821)
Q Consensus       641 l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~  720 (821)
                      +..+  ...+.+|..+..+++|+.+++..+    .+... +..+..+++|+.|+|++|++++.+|..++++++|++|+|+
T Consensus       204 l~~~--~~~~~~~~~~~~~~~l~~l~~~~~----~l~~~-~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls  276 (313)
T d1ogqa_         204 LSRN--MLEGDASVLFGSDKNTQKIHLAKN----SLAFD-LGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVS  276 (313)
T ss_dssp             CCSS--EEEECCGGGCCTTSCCSEEECCSS----EECCB-GGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECC
T ss_pred             cccc--cccccccccccccccccccccccc----ccccc-ccccccccccccccCccCeecccCChHHhCCCCCCEEECc
Confidence            7666  455666778888999999998753    23222 3346778999999999999998999999999999999999


Q ss_pred             ccccCCCeeeecCCCCcccceeeeccCCCccc
Q 045113          721 QNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEE  752 (821)
Q Consensus       721 ~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~  752 (821)
                      +|.++|..+  ..+.+++|+.+++.+|+.+..
T Consensus       277 ~N~l~g~iP--~~~~L~~L~~l~l~~N~~l~g  306 (313)
T d1ogqa_         277 FNNLCGEIP--QGGNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             SSEEEEECC--CSTTGGGSCGGGTCSSSEEES
T ss_pred             CCcccccCC--CcccCCCCCHHHhCCCccccC
Confidence            999987543  246789999999999875543

>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=99.75  E-value=4e-18  Score=179.05  Aligned_cols=262  Identities=18%  Similarity=0.174  Sum_probs=177.7

Q ss_pred             ceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccH-HHHhccccceEEecCCcccccc-hhhhccCccCceeecC
Q 045113          519 LLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPL-SFFNYLLNLYTLDMPFSYIDHT-ADEFWKMKKLRHLNFG  596 (821)
Q Consensus       519 ~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~-~i~~~L~~L~~L~L~~~~l~~l-p~~i~~l~~L~~L~L~  596 (821)
                      .++.+|-++..++++|..+.  +++++|+|++|.|+.+|+ .+. ++++|++|++++|.+..+ |..|.++++|++|+++
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~   87 (305)
T d1xkua_          11 HLRVVQCSDLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFK-NLKNLHTLILINNKISKISPGAFAPLVKLERLYLS   87 (305)
T ss_dssp             ETTEEECTTSCCCSCCCSCC--TTCCEEECCSSCCCCBCTTTTT-TCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             cCCEEEecCCCCCccCCCCC--CCCCEEECcCCcCCCcChhHhh-ccccccccccccccccccchhhhhCCCccCEeccc
Confidence            45666777767777776653  567777777777777775 355 777777777777766666 4457777777777777


Q ss_pred             CcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCC
Q 045113          597 SITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMP  674 (821)
Q Consensus       597 ~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~  674 (821)
                      +|.+ ..+|..+  ...+..|....+  .......+.....+..+....+........+..+..+++|+.+++..+    
T Consensus        88 ~n~l-~~l~~~~--~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n----  160 (305)
T d1xkua_          88 KNQL-KELPEKM--PKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADT----  160 (305)
T ss_dssp             SSCC-SBCCSSC--CTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSS----
T ss_pred             CCcc-CcCccch--hhhhhhhhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccC----
Confidence            7776 3444432  235555655553  222222255566666776665532233333445666778888887753    


Q ss_pred             CCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCcccee
Q 045113          675 RLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWT  754 (821)
Q Consensus       675 ~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~  754 (821)
                      .+..+.   ...+++|+.|++++|......+..+.+++.++.|++++|.+.+.. ...+.++++|++|+|++| .++.+|
T Consensus       161 ~l~~l~---~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~-~~~~~~l~~L~~L~L~~N-~L~~lp  235 (305)
T d1xkua_         161 NITTIP---QGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVD-NGSLANTPHLRELHLNNN-KLVKVP  235 (305)
T ss_dssp             CCCSCC---SSCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEEC-TTTGGGSTTCCEEECCSS-CCSSCC
T ss_pred             CccccC---cccCCccCEEECCCCcCCCCChhHhhccccccccccccccccccc-cccccccccceeeecccc-cccccc
Confidence            333332   224678889999988877777788888999999999877765532 233566789999999998 678888


Q ss_pred             eccccccccceeEEeecCCCCCCcc-------ccCCCCCCCEEEEeCCc
Q 045113          755 MGTGAMPKLECLIINPCAYLKKMPE-------QLWCIKSLNNFNCWWPQ  796 (821)
Q Consensus       755 ~~~~~l~~L~~L~i~~c~~l~~lp~-------~l~~l~~L~~L~l~~c~  796 (821)
                      ..+..+++|+.|++++|. ++.++.       .....++|+.|+++++|
T Consensus       236 ~~l~~l~~L~~L~Ls~N~-i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~  283 (305)
T d1xkua_         236 GGLADHKYIQVVYLHNNN-ISAIGSNDFCPPGYNTKKASYSGVSLFSNP  283 (305)
T ss_dssp             TTTTTCSSCCEEECCSSC-CCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             cccccccCCCEEECCCCc-cCccChhhccCcchhcccCCCCEEECCCCc
Confidence            778889999999999874 666643       23456889999999988

>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=99.74  E-value=1.4e-17  Score=180.53  Aligned_cols=274  Identities=17%  Similarity=0.142  Sum_probs=179.5

Q ss_pred             CceeEEEEEcCCCcccccC-CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEe
Q 045113          469 NVKRFFALEQQSDFAYLDD-YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLK  547 (821)
Q Consensus       469 ~~~r~lsl~~~~~~~~~~~-~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~  547 (821)
                      ..++.+.+.+.......+. .+++|++|.+.++....    .+  .+.++++|++|++++|.+..+++ ++++++|++|+
T Consensus        44 ~~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~  116 (384)
T d2omza2          44 DQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTD----IT--PLKNLTKLVDILMNNNQIADITP-LANLTNLTGLT  116 (384)
T ss_dssp             TTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCC----CG--GGTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEE
T ss_pred             CCCCEEECCCCCCCCccccccCCCCCEEeCcCCcCCC----Cc--cccCCcccccccccccccccccc-ccccccccccc
Confidence            4688899988877666555 89999999999998763    22  38899999999999999998765 89999999999


Q ss_pred             ecCCCCccccHH----------------------------------------------------------------HHhc
Q 045113          548 LNIPSLKSLPLS----------------------------------------------------------------FFNY  563 (821)
Q Consensus       548 L~~~~i~~lp~~----------------------------------------------------------------i~~~  563 (821)
                      ++++.+..++..                                                                .. .
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  195 (384)
T d2omza2         117 LFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLA-K  195 (384)
T ss_dssp             CCSSCCCCCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGG-G
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccc-c
Confidence            988776644322                                                                12 3


Q ss_pred             cccceEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEe
Q 045113          564 LLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQ  642 (821)
Q Consensus       564 L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~  642 (821)
                      +++++.+++++|.+..+++ ...+++|+.|++++|.+.. ++ .+..+++|+.|++..+ -..... ++.+++|+.|+++
T Consensus       196 l~~~~~l~l~~n~i~~~~~-~~~~~~L~~L~l~~n~l~~-~~-~l~~l~~L~~L~l~~n~l~~~~~-~~~~~~L~~L~l~  271 (384)
T d2omza2         196 LTNLESLIATNNQISDITP-LGILTNLDELSLNGNQLKD-IG-TLASLTNLTDLDLANNQISNLAP-LSGLTKLTELKLG  271 (384)
T ss_dssp             CTTCSEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCC-CG-GGGGCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECC
T ss_pred             ccccceeeccCCccCCCCc-ccccCCCCEEECCCCCCCC-cc-hhhcccccchhccccCccCCCCc-ccccccCCEeecc
Confidence            3444445555444444432 2344455555555554421 22 2444555555554442 122223 4445555555554


Q ss_pred             cccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEecc
Q 045113          643 GDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQN  722 (821)
Q Consensus       643 ~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~  722 (821)
                      ++.  . ..++ .+..++.++.+.+..+    .+..  +..+..+++++.|++++|.+.+.  +.+..+|+|+.|++++|
T Consensus       272 ~~~--l-~~~~-~~~~~~~l~~l~~~~n----~l~~--~~~~~~~~~l~~L~ls~n~l~~l--~~l~~l~~L~~L~L~~n  339 (384)
T d2omza2         272 ANQ--I-SNIS-PLAGLTALTNLELNEN----QLED--ISPISNLKNLTYLTLYFNNISDI--SPVSSLTKLQRLFFANN  339 (384)
T ss_dssp             SSC--C-CCCG-GGTTCTTCSEEECCSS----CCSC--CGGGGGCTTCSEEECCSSCCSCC--GGGGGCTTCCEEECCSS
T ss_pred             Ccc--c-CCCC-cccccccccccccccc----cccc--ccccchhcccCeEECCCCCCCCC--cccccCCCCCEEECCCC
Confidence            442  1 1111 2334444444444422    2222  12256789999999999998753  45889999999999998


Q ss_pred             ccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeec
Q 045113          723 SYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPC  771 (821)
Q Consensus       723 ~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c  771 (821)
                      .+++..   ....+++|++|++++| .+..++. +.++++|+.|+|++|
T Consensus       340 ~l~~l~---~l~~l~~L~~L~l~~N-~l~~l~~-l~~l~~L~~L~L~~N  383 (384)
T d2omza2         340 KVSDVS---SLANLTNINWLSAGHN-QISDLTP-LANLTRITQLGLNDQ  383 (384)
T ss_dssp             CCCCCG---GGGGCTTCCEEECCSS-CCCBCGG-GTTCTTCSEEECCCE
T ss_pred             CCCCCh---hHcCCCCCCEEECCCC-cCCCChh-hccCCCCCEeeCCCC
Confidence            877632   3577999999999998 5676653 788999999999876

>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=99.67  E-value=4.2e-16  Score=163.34  Aligned_cols=240  Identities=15%  Similarity=0.141  Sum_probs=166.0

Q ss_pred             CceeEEEeCCCCCCcccc-cccCCCCceEEeecCCCCcccc-HHHHhccccceEEecCCcccccchhhhccCccCceeec
Q 045113          518 KLLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLKSLP-LSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNF  595 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~i~~lp-~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L  595 (821)
                      +++++|+|++|.++.+|+ .+.++++|++|++++|.+..++ ..+. ++++|++|++++|.++.+|..+  ...|+.|++
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 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFA-PLVKLERLYLSKNQLKELPEKM--PKTLQELRV  107 (305)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTT-TCTTCCEEECCSSCCSBCCSSC--CTTCCEEEC
T ss_pred             CCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhh-CCCccCEecccCCccCcCccch--hhhhhhhhc
Confidence            568888888888888875 5788888888888888887764 4465 7888888888888888887643  457788888


Q ss_pred             CCcccCCCCCCCcCCCCCcceeccccC-----CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecC
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALYP-----CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANE  670 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~~-----~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~  670 (821)
                      .+|.+....+..+.....+..+....+     ...... +..+++|+.+++.++.   ...++.  ..+++|+.|+++++
T Consensus       108 ~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~-~~~l~~L~~l~l~~n~---l~~l~~--~~~~~L~~L~l~~n  181 (305)
T d1xkua_         108 HENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGA-FQGMKKLSYIRIADTN---ITTIPQ--GLPPSLTELHLDGN  181 (305)
T ss_dssp             CSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTG-GGGCTTCCEEECCSSC---CCSCCS--SCCTTCSEEECTTS
T ss_pred             cccchhhhhhhhhhccccccccccccccccccCCCccc-cccccccCccccccCC---ccccCc--ccCCccCEEECCCC
Confidence            777764433333445555556655442     122233 6677888888888763   112222  23567888888754


Q ss_pred             CCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCc
Q 045113          671 SKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWL  750 (821)
Q Consensus       671 ~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l  750 (821)
                          .........+..+++++.|++++|.+....+.++.++++|++|+|++|.+..  ++.....+++|++|+|++| .+
T Consensus       182 ----~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~~N~L~~--lp~~l~~l~~L~~L~Ls~N-~i  254 (305)
T d1xkua_         182 ----KITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVK--VPGGLADHKYIQVVYLHNN-NI  254 (305)
T ss_dssp             ----CCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCSS--CCTTTTTCSSCCEEECCSS-CC
T ss_pred             ----cCCCCChhHhhccccccccccccccccccccccccccccceeeecccccccc--cccccccccCCCEEECCCC-cc
Confidence                3344434446777888888888888877667788888899999998887764  2335677889999999887 46


Q ss_pred             cceeec-------cccccccceeEEeecCC
Q 045113          751 EEWTMG-------TGAMPKLECLIINPCAY  773 (821)
Q Consensus       751 ~~~~~~-------~~~l~~L~~L~i~~c~~  773 (821)
                      +.++..       ...+++|+.|++.+|+.
T Consensus       255 ~~i~~~~f~~~~~~~~~~~L~~L~L~~N~~  284 (305)
T d1xkua_         255 SAIGSNDFCPPGYNTKKASYSGVSLFSNPV  284 (305)
T ss_dssp             CCCCTTSSSCSSCCTTSCCCSEEECCSSSS
T ss_pred             CccChhhccCcchhcccCCCCEEECCCCcC
Confidence            665321       23567888999998874

>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=99.64  E-value=4.3e-16  Score=159.66  Aligned_cols=196  Identities=18%  Similarity=0.157  Sum_probs=118.3

Q ss_pred             cCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHH-HHhccccceEEecCCcccccchhhhccCccCceee
Q 045113          516 MYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLS-FFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLN  594 (821)
Q Consensus       516 ~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~-i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~  594 (821)
                      +...+...+.+++.++.+|+.+.  ++|++|+|++|.|..+|.. +. ++++|++|+|++|.++.+|. ++.+++|++|+
T Consensus         8 ~~~~~~~v~C~~~~L~~iP~~lp--~~l~~L~Ls~N~i~~l~~~~f~-~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~   83 (266)
T d1p9ag_           8 KVASHLEVNCDKRNLTALPPDLP--KDTTILHLSENLLYTFSLATLM-PYTRLTQLNLDRAELTKLQV-DGTLPVLGTLD   83 (266)
T ss_dssp             CSTTCCEEECTTSCCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGT-TCTTCCEEECTTSCCCEEEC-CSCCTTCCEEE
T ss_pred             ccCCCeEEEccCCCCCeeCcCcC--cCCCEEECcCCcCCCcCHHHhh-cccccccccccccccccccc-ccccccccccc
Confidence            44455556888888888887664  4688888888888877754 55 78888888888888877764 56788888888


Q ss_pred             cCCcccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCC
Q 045113          595 FGSITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESK  672 (821)
Q Consensus       595 L~~~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~  672 (821)
                      +++|.+. ..+..+..+++|+.|++..+  .......+..+.+++.|.+.++.                           
T Consensus        84 Ls~N~l~-~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~---------------------------  135 (266)
T d1p9ag_          84 LSHNQLQ-SLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNE---------------------------  135 (266)
T ss_dssp             CCSSCCS-SCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSC---------------------------
T ss_pred             ccccccc-ccccccccccccccccccccccceeeccccccccccccccccccc---------------------------
Confidence            8888773 44555666666776666552  12222224555566666655541                           


Q ss_pred             CCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCC
Q 045113          673 MPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSML  748 (821)
Q Consensus       673 ~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~  748 (821)
                         ++.+....+..+++|+.|++++|.++...+..++.+++|++|+|++|.+..  ++.....+++|+.|+|++|+
T Consensus       136 ---l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~L~~--lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         136 ---LKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYT--IPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             ---CCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCCC--CCTTTTTTCCCSEEECCSCC
T ss_pred             ---cceeccccccccccchhcccccccccccCccccccccccceeecccCCCcc--cChhHCCCCCCCEEEecCCC
Confidence               222222223344555555555555554444455555666666665555442  22223345556666666554

>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=99.64  E-value=1.7e-16  Score=164.44  Aligned_cols=201  Identities=21%  Similarity=0.184  Sum_probs=113.5

Q ss_pred             ceeEEEeCCCCCCcccc-cccCCCCceEEeecCCCCccccHHHHhccccceEEecCCc-ccccc-hhhhccCccCceeec
Q 045113          519 LLRVLDLGSLVLNQYPS-EIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFS-YIDHT-ADEFWKMKKLRHLNF  595 (821)
Q Consensus       519 ~Lr~L~L~~~~l~~lp~-~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~-~l~~l-p~~i~~l~~L~~L~L  595 (821)
                      .+++|+|++|.|+.+|. .+.++++|++|+++++.+..++......+..+..++...+ .+..+ |..+.++++|++|++
T Consensus        33 ~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~l  112 (284)
T d1ozna_          33 ASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHL  112 (284)
T ss_dssp             TCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCEEECcCCcCCCCCHHHhhccccccccccccccccccccccccccccccccccccccccccccchhhcccccCCEEec
Confidence            45566666666655553 4555666666666666555444443324555555554433 44444 334555566666666


Q ss_pred             CCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCC
Q 045113          596 GSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPR  675 (821)
Q Consensus       596 ~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~  675 (821)
                      ++|.+....+..                      +..+++|+.+++.++.  .....+..+..+++|+.|++++|    +
T Consensus       113 ~~n~~~~~~~~~----------------------~~~~~~L~~l~l~~N~--l~~i~~~~f~~~~~L~~L~l~~N----~  164 (284)
T d1ozna_         113 DRCGLQELGPGL----------------------FRGLAALQYLYLQDNA--LQALPDDTFRDLGNLTHLFLHGN----R  164 (284)
T ss_dssp             TTSCCCCCCTTT----------------------TTTCTTCCEEECCSSC--CCCCCTTTTTTCTTCCEEECCSS----C
T ss_pred             CCcccccccccc----------------------cchhcccchhhhcccc--ccccChhHhccccchhhcccccC----c
Confidence            555553333333                      3444455555555441  11111223445556666666543    4


Q ss_pred             CCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCC
Q 045113          676 LSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSML  748 (821)
Q Consensus       676 L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~  748 (821)
                      ++.+....+..+++|+.+++++|.+++..+..+..+++|++|++++|.+.+.. ...+..+++|++|++++|+
T Consensus       165 l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~-~~~~~~~~~L~~L~l~~N~  236 (284)
T d1ozna_         165 ISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALP-TEALAPLRALQYLRLNDNP  236 (284)
T ss_dssp             CCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCC-HHHHTTCTTCCEEECCSSC
T ss_pred             ccccchhhhccccccchhhhhhccccccChhHhhhhhhccccccccccccccc-ccccccccccCEEEecCCC
Confidence            55555445666777777777777776666777777778888888777766533 2335567778888887765

>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=99.60  E-value=2.4e-15  Score=155.67  Aligned_cols=205  Identities=22%  Similarity=0.218  Sum_probs=150.6

Q ss_pred             CCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCccc-ccccCCCCceEEeecC-CCCccccH-HHHhccc
Q 045113          489 YPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYP-SEIENLSLLRYLKLNI-PSLKSLPL-SFFNYLL  565 (821)
Q Consensus       489 ~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp-~~i~~l~~Lr~L~L~~-~~i~~lp~-~i~~~L~  565 (821)
                      .+.++.|.++++....    ++...|..++.|++|+++++.+..++ ..+..+..++++.... +.+..++. .+. +++
T Consensus        31 p~~~~~L~Ls~N~i~~----i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~-~l~  105 (284)
T d1ozna_          31 PAASQRIFLHGNRISH----VPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFH-GLG  105 (284)
T ss_dssp             CTTCSEEECTTSCCCE----ECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTT-TCT
T ss_pred             CCCCCEEECcCCcCCC----CCHHHhhccccccccccccccccccccccccccccccccccccccccccccchhhc-ccc
Confidence            3578999999988753    56678999999999999999998655 4567788899987764 55777754 455 899


Q ss_pred             cceEEecCCcccccch-hhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecc
Q 045113          566 NLYTLDMPFSYIDHTA-DEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       566 ~L~~L~L~~~~l~~lp-~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      +|++|++++|.+..++ ..+..+++|+.+++++|.+....+..+..+++|+.|++.+                      +
T Consensus       106 ~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~----------------------N  163 (284)
T d1ozna_         106 RLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG----------------------N  163 (284)
T ss_dssp             TCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS----------------------S
T ss_pred             cCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhccccc----------------------C
Confidence            9999999999887774 4567799999999999998554445555555566655544                      3


Q ss_pred             cccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEecccc
Q 045113          645 LSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSY  724 (821)
Q Consensus       645 ~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~  724 (821)
                      .  .....+..+..+++|+.++++.|    .+..+....+..+++|+.|++++|.+....+..++.+++|++|+|++|.+
T Consensus       164 ~--l~~l~~~~f~~l~~L~~l~l~~N----~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~l  237 (284)
T d1ozna_         164 R--ISSVPERAFRGLHSLDRLLLHQN----RVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPW  237 (284)
T ss_dssp             C--CCEECTTTTTTCTTCCEEECCSS----CCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCE
T ss_pred             c--ccccchhhhccccccchhhhhhc----cccccChhHhhhhhhcccccccccccccccccccccccccCEEEecCCCC
Confidence            1  11111223444555555555533    45555555577788899999999998887788899999999999998876


Q ss_pred             CC
Q 045113          725 SG  726 (821)
Q Consensus       725 ~~  726 (821)
                      ..
T Consensus       238 ~C  239 (284)
T d1ozna_         238 VC  239 (284)
T ss_dssp             EC
T ss_pred             CC
Confidence            54

>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=99.59  E-value=1.2e-15  Score=156.38  Aligned_cols=198  Identities=18%  Similarity=0.151  Sum_probs=107.5

Q ss_pred             CCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccch-hhhccCccCceeecCCcccCCCCCCCcCCCCCccee
Q 045113          539 NLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTA-DEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFI  617 (821)
Q Consensus       539 ~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp-~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L  617 (821)
                      +...+...+.++++++.+|..+.   ++|++|+|++|.+..+| ..|.++++|++|+|++|.+. .+|. ++.+++    
T Consensus         8 ~~~~~~~v~C~~~~L~~iP~~lp---~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~-~l~~-~~~l~~----   78 (266)
T d1p9ag_           8 KVASHLEVNCDKRNLTALPPDLP---KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-KLQV-DGTLPV----   78 (266)
T ss_dssp             CSTTCCEEECTTSCCSSCCSCCC---TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCC-EEEC-CSCCTT----
T ss_pred             ccCCCeEEEccCCCCCeeCcCcC---cCCCEEECcCCcCCCcCHHHhhcccccccccccccccc-cccc-cccccc----
Confidence            44556677889999999997664   58999999999999986 46889999999999999873 4443 334444    


Q ss_pred             ccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEecccCCCCCcceEEEec
Q 045113          618 SALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILAEYVFPHSLTHLSFSN  697 (821)
Q Consensus       618 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~~~~~~~~L~~L~L~~  697 (821)
                                        |+.|++++|.   ....+..+..+++|+.|+++.+    .+..+....+..+.++..|.+++
T Consensus        79 ------------------L~~L~Ls~N~---l~~~~~~~~~l~~L~~L~l~~~----~~~~~~~~~~~~l~~l~~L~l~~  133 (266)
T d1p9ag_          79 ------------------LGTLDLSHNQ---LQSLPLLGQTLPALTVLDVSFN----RLTSLPLGALRGLGELQELYLKG  133 (266)
T ss_dssp             ------------------CCEEECCSSC---CSSCCCCTTTCTTCCEEECCSS----CCCCCCSSTTTTCTTCCEEECTT
T ss_pred             ------------------cccccccccc---cccccccccccccccccccccc----ccceeeccccccccccccccccc
Confidence                              4444444441   1111112223333333333321    11111112233445555555555


Q ss_pred             ccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccccceeEEeecC
Q 045113          698 TDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPKLECLIINPCA  772 (821)
Q Consensus       698 ~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~i~~c~  772 (821)
                      |.+....+..+..+++|+.|++++|.+.+.. ...+..+++|++|+|++| .++.+|..+..+++|+.|.+++||
T Consensus       134 n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~-~~~~~~l~~L~~L~Ls~N-~L~~lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         134 NELKTLPPGLLTPTPKLEKLSLANNNLTELP-AGLLNGLENLDTLLLQEN-SLYTIPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECTTSCCSCCC-TTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCCCSEEECCSCC
T ss_pred             cccceeccccccccccchhcccccccccccC-ccccccccccceeecccC-CCcccChhHCCCCCCCEEEecCCC
Confidence            5554444444445555555555555444321 112334455555555554 244444444444555555555443

>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=99.54  E-value=3.5e-14  Score=151.20  Aligned_cols=75  Identities=17%  Similarity=0.150  Sum_probs=38.8

Q ss_pred             CceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCC
Q 045113          518 KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGS  597 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~  597 (821)
                      ++|++|+|++|.++.+|..+   .+|+.|++++|.+..++. +   .++|++|++++|.+..+|. ++.+++|++|++++
T Consensus        58 ~~L~~L~Ls~N~l~~lp~~~---~~L~~L~l~~n~l~~l~~-l---p~~L~~L~L~~n~l~~lp~-~~~l~~L~~L~l~~  129 (353)
T d1jl5a_          58 PHLESLVASCNSLTELPELP---QSLKSLLVDNNNLKALSD-L---PPLLEYLGVSNNQLEKLPE-LQNSSFLKIIDVDN  129 (353)
T ss_dssp             TTCSEEECCSSCCSSCCCCC---TTCCEEECCSSCCSCCCS-C---CTTCCEEECCSSCCSSCCC-CTTCTTCCEEECCS
T ss_pred             CCCCEEECCCCCCcccccch---hhhhhhhhhhcccchhhh-h---ccccccccccccccccccc-hhhhccceeecccc
Confidence            45555555555555555433   245555555555554431 1   1245555565555555553 34555566665555


Q ss_pred             ccc
Q 045113          598 ITL  600 (821)
Q Consensus       598 ~~~  600 (821)
                      +.+
T Consensus       130 ~~~  132 (353)
T d1jl5a_         130 NSL  132 (353)
T ss_dssp             SCC
T ss_pred             ccc
Confidence            544

>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=99.51  E-value=6.2e-14  Score=139.65  Aligned_cols=203  Identities=14%  Similarity=0.154  Sum_probs=117.0

Q ss_pred             EEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCcccCC
Q 045113          523 LDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPA  602 (821)
Q Consensus       523 L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~  602 (821)
                      ++++.+.++... .+..+.+|++|++.+|+|+.++ .+. .+++|++|++++|.+..+++ +.++++|+++++++|.+. 
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 IAAGKSNVTDTV-TQADLDGITTLSAFGTGVTTIE-GVQ-YLNNLIGLELKDNQITDLAP-LKNLTKITELELSGNPLK-   98 (227)
T ss_dssp             HHTTCSSTTSEE-CHHHHHTCCEEECTTSCCCCCT-TGG-GCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSCCCS-
T ss_pred             HHhCCCCcCCcC-CHHHcCCcCEEECCCCCCCcch-hHh-cCCCCcEeecCCceeecccc-cccccccccccccccccc-
Confidence            344555544332 2345566677777777666664 455 67777777777766665543 566666666666666542 


Q ss_pred             CCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCCeeEec
Q 045113          603 HPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLSKIILA  682 (821)
Q Consensus       603 ~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~l~  682 (821)
                      .++                      . +..+++|+.+.++++....                                +.
T Consensus        99 ~i~----------------------~-l~~l~~L~~l~l~~~~~~~--------------------------------~~  123 (227)
T d1h6ua2          99 NVS----------------------A-IAGLQSIKTLDLTSTQITD--------------------------------VT  123 (227)
T ss_dssp             CCG----------------------G-GTTCTTCCEEECTTSCCCC--------------------------------CG
T ss_pred             ccc----------------------c-ccccccccccccccccccc--------------------------------cc
Confidence            222                      1 4455555555555442100                                01


Q ss_pred             ccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccceeeccccccc
Q 045113          683 EYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEEWTMGTGAMPK  762 (821)
Q Consensus       683 ~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~~~l~~  762 (821)
                      .+...+.+..+.++++.+..  ...+..+++|+.|.+.+|.+.+..   ....+++|+.|++++| .++.++. +..+|+
T Consensus       124 ~~~~~~~~~~l~~~~~~~~~--~~~~~~~~~L~~L~l~~n~~~~~~---~l~~l~~L~~L~Ls~n-~l~~l~~-l~~l~~  196 (227)
T d1h6ua2         124 PLAGLSNLQVLYLDLNQITN--ISPLAGLTNLQYLSIGNAQVSDLT---PLANLSKLTTLKADDN-KISDISP-LASLPN  196 (227)
T ss_dssp             GGTTCTTCCEEECCSSCCCC--CGGGGGCTTCCEEECCSSCCCCCG---GGTTCTTCCEEECCSS-CCCCCGG-GGGCTT
T ss_pred             hhccccchhhhhchhhhhch--hhhhccccccccccccccccccch---hhcccccceecccCCC-ccCCChh-hcCCCC
Confidence            12233444445555554322  233556666777777655544322   2456777777777776 4555543 567788


Q ss_pred             cceeEEeecCCCCCCccccCCCCCCCEEEEeC
Q 045113          763 LECLIINPCAYLKKMPEQLWCIKSLNNFNCWW  794 (821)
Q Consensus       763 L~~L~i~~c~~l~~lp~~l~~l~~L~~L~l~~  794 (821)
                      |++|++++| .++.+|. ++++++|+.|++++
T Consensus       197 L~~L~Ls~N-~lt~i~~-l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         197 LIEVHLKNN-QISDVSP-LANTSNLFIVTLTN  226 (227)
T ss_dssp             CCEEECTTS-CCCBCGG-GTTCTTCCEEEEEE
T ss_pred             CCEEECcCC-cCCCCcc-cccCCCCCEEEeeC
Confidence            888888887 4666763 77888888888764

>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=99.51  E-value=1.7e-13  Score=145.77  Aligned_cols=92  Identities=21%  Similarity=0.125  Sum_probs=76.5

Q ss_pred             CceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCC
Q 045113          518 KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGS  597 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~  597 (821)
                      .++++|||+++.++.+|+.   +++|++|++++|.++.+|..+    .+|+.|++++|.+..++.-   .+.|++|++++
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----QSLKSLLVDNNNLKALSDL---PPLLEYLGVSN  107 (353)
T ss_dssp             HTCSEEECTTSCCSCCCSC---CTTCSEEECCSSCCSSCCCCC----TTCCEEECCSSCCSCCCSC---CTTCCEEECCS
T ss_pred             cCCCEEEeCCCCCCCCCCC---CCCCCEEECCCCCCcccccch----hhhhhhhhhhcccchhhhh---ccccccccccc
Confidence            4689999999999999964   468999999999999999554    5788999999987776531   24699999999


Q ss_pred             cccCCCCCCCcCCCCCcceecccc
Q 045113          598 ITLPAHPGNYCGSLENLNFISALY  621 (821)
Q Consensus       598 ~~~~~~~p~~i~~l~~L~~L~~~~  621 (821)
                      |.+ ..+|. ++.+++|++|++..
T Consensus       108 n~l-~~lp~-~~~l~~L~~L~l~~  129 (353)
T d1jl5a_         108 NQL-EKLPE-LQNSSFLKIIDVDN  129 (353)
T ss_dssp             SCC-SSCCC-CTTCTTCCEEECCS
T ss_pred             ccc-ccccc-hhhhccceeecccc
Confidence            998 56775 68899999999876

>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=99.50  E-value=1e-13  Score=138.01  Aligned_cols=188  Identities=19%  Similarity=0.183  Sum_probs=117.7

Q ss_pred             hccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCcee
Q 045113          514 CEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHL  593 (821)
Q Consensus       514 ~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L  593 (821)
                      +..+++|+.|++.+|.++.++ .+.++++|++|++++|.+..+++ +. ++++|+++++++|.++.++ .+.++++|+.+
T Consensus        37 ~~~l~~L~~L~l~~~~i~~l~-~l~~l~~L~~L~ls~n~i~~~~~-l~-~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~l  112 (227)
T d1h6ua2          37 QADLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELKDNQITDLAP-LK-NLTKITELELSGNPLKNVS-AIAGLQSIKTL  112 (227)
T ss_dssp             HHHHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GT-TCCSCCEEECCSCCCSCCG-GGTTCTTCCEE
T ss_pred             HHHcCCcCEEECCCCCCCcch-hHhcCCCCcEeecCCceeecccc-cc-ccccccccccccccccccc-ccccccccccc
Confidence            356778899999999988874 58889999999999998887764 66 8899999999988887775 47788999999


Q ss_pred             ecCCcccCCCCCCCcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCC
Q 045113          594 NFGSITLPAHPGNYCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESK  672 (821)
Q Consensus       594 ~L~~~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~  672 (821)
                      +++++.....  ..+...+.+..+.+..+ -..... +..+++|+.|.+.++.                           
T Consensus       113 ~l~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~L~~L~l~~n~---------------------------  162 (227)
T d1h6ua2         113 DLTSTQITDV--TPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQ---------------------------  162 (227)
T ss_dssp             ECTTSCCCCC--GGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSC---------------------------
T ss_pred             cccccccccc--chhccccchhhhhchhhhhchhhh-hccccccccccccccc---------------------------
Confidence            8888765332  12344445555544331 112222 3444555555555442                           


Q ss_pred             CCCCCeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeec
Q 045113          673 MPRLSKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLK  745 (821)
Q Consensus       673 ~~~L~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~  745 (821)
                         +..  ..++..+++|+.|+|++|.+++  ++.++++++|++|+|++|.+++..   ....+++|+.|+|+
T Consensus       163 ---~~~--~~~l~~l~~L~~L~Ls~n~l~~--l~~l~~l~~L~~L~Ls~N~lt~i~---~l~~l~~L~~L~ls  225 (227)
T d1h6ua2         163 ---VSD--LTPLANLSKLTTLKADDNKISD--ISPLASLPNLIEVHLKNNQISDVS---PLANTSNLFIVTLT  225 (227)
T ss_dssp             ---CCC--CGGGTTCTTCCEEECCSSCCCC--CGGGGGCTTCCEEECTTSCCCBCG---GGTTCTTCCEEEEE
T ss_pred             ---ccc--chhhcccccceecccCCCccCC--ChhhcCCCCCCEEECcCCcCCCCc---ccccCCCCCEEEee
Confidence               111  1113345556666666665543  234566666666666655544321   13456666666665

>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=99.47  E-value=4.3e-15  Score=153.45  Aligned_cols=229  Identities=17%  Similarity=0.168  Sum_probs=127.2

Q ss_pred             eeEEEeCCCCCCcccccccCCCCceEEeecCCCCc--cccHHHHhccccceEEecCCcccc-cchhhhccCccCceeecC
Q 045113          520 LRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLK--SLPLSFFNYLLNLYTLDMPFSYID-HTADEFWKMKKLRHLNFG  596 (821)
Q Consensus       520 Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~--~lp~~i~~~L~~L~~L~L~~~~l~-~lp~~i~~l~~L~~L~L~  596 (821)
                      +..+.++...+............|++|++++|.+.  .++..+. .+++|++|++++|.+. ..+..+.++++|++|+++
T Consensus        25 ~~~lrl~~~~~~~~~~~~~~~~~L~~LdLs~~~i~~~~l~~l~~-~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls  103 (284)
T d2astb2          25 VIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILS-QCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLS  103 (284)
T ss_dssp             CSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHT-TBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECT
T ss_pred             ceEeeccccccccchhhhccCCCCCEEECCCCccCHHHHHHHHH-hCCCcccccccccCCCcHHHHHHhcCCCCcCcccc
Confidence            44555555443322233344567788888777665  2444444 7777888888777554 335566777777777777


Q ss_pred             CcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccC-CCCcCEEEeecCCCCCC
Q 045113          597 SITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCR-LSCLESLKLANESKMPR  675 (821)
Q Consensus       597 ~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~-~~~L~~L~l~~~~~~~~  675 (821)
                      +|...+.                    .....+..++++|++|++++|.......+...+.. .++|+.|++++.  ..+
T Consensus       104 ~c~~itd--------------------~~l~~l~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~--~~~  161 (284)
T d2astb2         104 GCSGFSE--------------------FALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGY--RKN  161 (284)
T ss_dssp             TCBSCCH--------------------HHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSC--GGG
T ss_pred             ccccccc--------------------cccchhhHHHHhccccccccccccccccchhhhcccccccchhhhccc--ccc
Confidence            6532110                    11111134567777777777643333334333333 356777777630  112


Q ss_pred             CCeeEecc-cCCCCCcceEEEeccc-CCCCCcccccCCCCCCEEEEeccc-cCCCeeeecCCCCcccceeeeccCCCccc
Q 045113          676 LSKIILAE-YVFPHSLTHLSFSNTD-LMDDPMPALEKLPLLQVLKLKQNS-YSGRKLTCGSDGFPRLKVLHLKSMLWLEE  752 (821)
Q Consensus       676 L~~l~l~~-~~~~~~L~~L~L~~~~-l~~~~~~~l~~l~~L~~L~L~~~~-~~~~~~~~~~~~~~~L~~L~L~~~~~l~~  752 (821)
                      +..-.+.. ...+++|++|++++|. +++..+..++++|+|++|+|++|. +++..+ .....+|+|+.|++++|-.-..
T Consensus       162 i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~~l-~~L~~~~~L~~L~l~~~~~d~~  240 (284)
T d2astb2         162 LQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETL-LELGEIPTLKTLQVFGIVPDGT  240 (284)
T ss_dssp             SCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGG-GGGGGCTTCCEEECTTSSCTTC
T ss_pred             cccccccccccccccccccccccccCCCchhhhhhcccCcCCEEECCCCCCCChHHH-HHHhcCCCCCEEeeeCCCCHHH
Confidence            22211111 2356778888887764 555667777888888888888753 333322 2245678888888888732222


Q ss_pred             eeeccccccccceeEEeecCCCCC
Q 045113          753 WTMGTGAMPKLECLIINPCAYLKK  776 (821)
Q Consensus       753 ~~~~~~~l~~L~~L~i~~c~~l~~  776 (821)
                      +..-...+|+|+   + +|..+..
T Consensus       241 l~~l~~~lp~L~---i-~~~~ls~  260 (284)
T d2astb2         241 LQLLKEALPHLQ---I-NCSHFTT  260 (284)
T ss_dssp             HHHHHHHSTTSE---E-SCCCSCC
T ss_pred             HHHHHHhCcccc---c-cCccCCC
Confidence            322223455554   4 3555543

>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=99.46  E-value=1.6e-13  Score=134.75  Aligned_cols=164  Identities=23%  Similarity=0.238  Sum_probs=91.7

Q ss_pred             CCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecC
Q 045113          517 YKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFG  596 (821)
Q Consensus       517 ~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~  596 (821)
                      +..|+.|++++|.++.++. +..+++|++|++++|.+..++ .+. .+++|++|++++|.++.+| .+..+++|+.|+++
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 LNSIDQIIANNSDIKSVQG-IQYLPNVTKLFLNGNKLTDIK-PLA-NLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSLE  120 (210)
T ss_dssp             HHTCCEEECTTSCCCCCTT-GGGCTTCCEEECCSSCCCCCG-GGT-TCTTCCEEECCSSCCCCGG-GGTTCTTCCEEECT
T ss_pred             hcCccEEECcCCCCCCchh-HhhCCCCCEEeCCCccccCcc-ccc-cCccccccccccccccccc-cccccccccccccc
Confidence            4567777777777766543 666777777777777777666 355 6777777777777776666 36667777777777


Q ss_pred             CcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCC
Q 045113          597 SITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRL  676 (821)
Q Consensus       597 ~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L  676 (821)
                      +|.+. .++ .                      +..+++|+.++++++.  .. . +..+..+++|+.++++++    .+
T Consensus       121 ~~~~~-~~~-~----------------------l~~l~~l~~l~~~~n~--l~-~-~~~~~~l~~L~~l~l~~n----~l  168 (210)
T d1h6ta2         121 HNGIS-DIN-G----------------------LVHLPQLESLYLGNNK--IT-D-ITVLSRLTKLDTLSLEDN----QI  168 (210)
T ss_dssp             TSCCC-CCG-G----------------------GGGCTTCCEEECCSSC--CC-C-CGGGGGCTTCSEEECCSS----CC
T ss_pred             ccccc-ccc-c----------------------cccccccccccccccc--cc-c-cccccccccccccccccc----cc
Confidence            66552 222 2                      3444445555544441  00 0 011223344444444322    22


Q ss_pred             CeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEEEEe
Q 045113          677 SKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVLKLK  720 (821)
Q Consensus       677 ~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L~L~  720 (821)
                      ..+  .++..+++|+.|+|++|.+++  ++.+.++++|++|+|+
T Consensus       169 ~~i--~~l~~l~~L~~L~Ls~N~i~~--l~~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         169 SDI--VPLAGLTKLQNLYLSKNHISD--LRALAGLKNLDVLELF  208 (210)
T ss_dssp             CCC--GGGTTCTTCCEEECCSSCCCB--CGGGTTCTTCSEEEEE
T ss_pred             ccc--ccccCCCCCCEEECCCCCCCC--ChhhcCCCCCCEEEcc
Confidence            221  123455566666666665542  2346666666666665

>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=99.45  E-value=3.4e-13  Score=131.13  Aligned_cols=161  Identities=19%  Similarity=0.259  Sum_probs=76.2

Q ss_pred             CCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecC
Q 045113          517 YKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFG  596 (821)
Q Consensus       517 ~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~  596 (821)
                      ++.++.|+++++.++.++ .+..+++|++|++++|.+..++. +. ++++|++|++++|.+..+|. +.++++|++|+++
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-LK-NLTKLVDILMNNNQIADITP-LANLTNLTGLTLF  114 (199)
T ss_dssp             HTTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GT-TCTTCCEEECCSSCCCCCGG-GTTCTTCSEEECC
T ss_pred             hcCCCEEECCCCCCCCcc-ccccCCCcCcCccccccccCccc-cc-CCcccccccccccccccccc-ccccccccccccc
Confidence            445555555555555442 24455555555555555554442 44 55555555555554444442 4455555555555


Q ss_pred             CcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCC
Q 045113          597 SITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRL  676 (821)
Q Consensus       597 ~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L  676 (821)
                      +|...                       .... +..+++|+.|+++++.   ...+ ..+..+++|+.|++.+|    .+
T Consensus       115 ~~~~~-----------------------~~~~-~~~l~~L~~L~l~~n~---l~~~-~~l~~~~~L~~L~l~~n----~l  162 (199)
T d2omxa2         115 NNQIT-----------------------DIDP-LKNLTNLNRLELSSNT---ISDI-SALSGLTSLQQLNFSSN----QV  162 (199)
T ss_dssp             SSCCC-----------------------CCGG-GTTCTTCSEEECCSSC---CCCC-GGGTTCTTCSEEECCSS----CC
T ss_pred             ccccc-----------------------cccc-cchhhhhHHhhhhhhh---hccc-ccccccccccccccccc----cc
Confidence            44432                       1222 5566666666666652   1111 12344444444444422    22


Q ss_pred             CeeEecccCCCCCcceEEEecccCCCCCcccccCCCCCCEE
Q 045113          677 SKIILAEYVFPHSLTHLSFSNTDLMDDPMPALEKLPLLQVL  717 (821)
Q Consensus       677 ~~l~l~~~~~~~~L~~L~L~~~~l~~~~~~~l~~l~~L~~L  717 (821)
                      +.+  .++..+++|+.|++++|++++  ++.+++|++|+.|
T Consensus       163 ~~l--~~l~~l~~L~~L~ls~N~i~~--i~~l~~L~~L~~L  199 (199)
T d2omxa2         163 TDL--KPLANLTTLERLDISSNKVSD--ISVLAKLTNLESL  199 (199)
T ss_dssp             CCC--GGGTTCTTCCEEECCSSCCCC--CGGGGGCTTCSEE
T ss_pred             cCC--ccccCCCCCCEEECCCCCCCC--CccccCCCCCCcC
Confidence            221  123445555555555555432  2344555555543

>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=99.41  E-value=1.9e-14  Score=148.47  Aligned_cols=241  Identities=16%  Similarity=0.146  Sum_probs=148.0

Q ss_pred             eEEEeCCCCCC-cccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCccccc--chhhhccCccCceeecCC
Q 045113          521 RVLDLGSLVLN-QYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDH--TADEFWKMKKLRHLNFGS  597 (821)
Q Consensus       521 r~L~L~~~~l~-~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~--lp~~i~~l~~L~~L~L~~  597 (821)
                      +.|||+++.+. ..+..+.. ..+..+.++.+.+........ ...+|++||+++|.+..  ++..+.++++|++|++++
T Consensus         3 ~~lDLs~~~l~~~~l~~l~~-~~~~~lrl~~~~~~~~~~~~~-~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~   80 (284)
T d2astb2           3 QTLDLTGKNLHPDVTGRLLS-QGVIAFRCPRSFMDQPLAEHF-SPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEG   80 (284)
T ss_dssp             SEEECTTCBCCHHHHHHHHH-TTCSEEECTTCEECSCCCSCC-CCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTT
T ss_pred             CEEECCCCCCCchHHHHHHh-ccceEeeccccccccchhhhc-cCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccc
Confidence            46788877664 11111111 123455555544433222333 56788888888885532  455567788888888887


Q ss_pred             cccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEecccccchhHHHHHccCCCCcCEEEeecCCCCCCCC
Q 045113          598 ITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDLSYNQSLLSKSLCRLSCLESLKLANESKMPRLS  677 (821)
Q Consensus       598 ~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~  677 (821)
                      |.+....                     +.. ++.+++|+.|++++|.......+......+++|++|+++   .|..+.
T Consensus        81 ~~l~~~~---------------------~~~-l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls---~c~~~~  135 (284)
T d2astb2          81 LRLSDPI---------------------VNT-LAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLS---WCFDFT  135 (284)
T ss_dssp             CBCCHHH---------------------HHH-HTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECC---CCTTCC
T ss_pred             cCCCcHH---------------------HHH-HhcCCCCcCccccccccccccccchhhHHHHhccccccc---cccccc
Confidence            7653222                     233 667788888888887544444555556678899999998   344444


Q ss_pred             eeEecc--cCCCCCcceEEEeccc--CCCCCccc-ccCCCCCCEEEEeccccCCCeeeecCCCCcccceeeeccCCCccc
Q 045113          678 KIILAE--YVFPHSLTHLSFSNTD--LMDDPMPA-LEKLPLLQVLKLKQNSYSGRKLTCGSDGFPRLKVLHLKSMLWLEE  752 (821)
Q Consensus       678 ~l~l~~--~~~~~~L~~L~L~~~~--l~~~~~~~-l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~  752 (821)
                      .-.+..  ...+++|+.|++++|.  +++..+.. ..++|+|++|++++|...+.........+++|++|++++|+.+..
T Consensus       136 ~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~  215 (284)
T d2astb2         136 EKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIP  215 (284)
T ss_dssp             HHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCG
T ss_pred             cccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhhcccCcCCEEECCCCCCCCh
Confidence            322211  2235788889888763  33332333 357899999999876533322223345688999999999877763


Q ss_pred             e-eeccccccccceeEEeecCCCCCCccccCCCCCCC
Q 045113          753 W-TMGTGAMPKLECLIINPCAYLKKMPEQLWCIKSLN  788 (821)
Q Consensus       753 ~-~~~~~~l~~L~~L~i~~c~~l~~lp~~l~~l~~L~  788 (821)
                      - ...++.+|+|+.|++++|-.-..++.....+|+|+
T Consensus       216 ~~l~~L~~~~~L~~L~l~~~~~d~~l~~l~~~lp~L~  252 (284)
T d2astb2         216 ETLLELGEIPTLKTLQVFGIVPDGTLQLLKEALPHLQ  252 (284)
T ss_dssp             GGGGGGGGCTTCCEEECTTSSCTTCHHHHHHHSTTSE
T ss_pred             HHHHHHhcCCCCCEEeeeCCCCHHHHHHHHHhCcccc
Confidence            3 23467789999999998843334444344566665

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.38  E-value=1.2e-12  Score=128.23  Aligned_cols=163  Identities=21%  Similarity=0.196  Sum_probs=114.3

Q ss_pred             CCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccce
Q 045113          489 YPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLY  568 (821)
Q Consensus       489 ~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~  568 (821)
                      +..|+.|.+.++....     + ..+..+++|+.|+|++|.++.++. ++++++|++|++++|.++.+| .+. .+++|+
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~  115 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKS-----V-QGIQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENKVKDLS-SLK-DLKKLK  115 (210)
T ss_dssp             HHTCCEEECTTSCCCC-----C-TTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCGG-GGT-TCTTCC
T ss_pred             hcCccEEECcCCCCCC-----c-hhHhhCCCCCEEeCCCccccCccc-cccCccccccccccccccccc-ccc-cccccc
Confidence            4567777777666542     1 125778889999999988887764 688888999999888888887 566 888899


Q ss_pred             EEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEeccccc
Q 045113          569 TLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQGDLSY  647 (821)
Q Consensus       569 ~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~~~~~  647 (821)
                      .|++++|.+..++ .+..+++|+.+++++|.+..  +..+..+++|+++++..+ -..+.. +.++++|+.|++++|.  
T Consensus       116 ~L~l~~~~~~~~~-~l~~l~~l~~l~~~~n~l~~--~~~~~~l~~L~~l~l~~n~l~~i~~-l~~l~~L~~L~Ls~N~--  189 (210)
T d1h6ta2         116 SLSLEHNGISDIN-GLVHLPQLESLYLGNNKITD--ITVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNH--  189 (210)
T ss_dssp             EEECTTSCCCCCG-GGGGCTTCCEEECCSSCCCC--CGGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSC--
T ss_pred             ccccccccccccc-cccccccccccccccccccc--ccccccccccccccccccccccccc-ccCCCCCCEEECCCCC--
Confidence            9999888777665 47788888999888887743  233566777777777663 233344 6677777777777762  


Q ss_pred             chhHHHHHccCCCCcCEEEee
Q 045113          648 NQSLLSKSLCRLSCLESLKLA  668 (821)
Q Consensus       648 ~~~~l~~~l~~~~~L~~L~l~  668 (821)
                       ...++ .+..+++|+.|+|+
T Consensus       190 -i~~l~-~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         190 -ISDLR-ALAGLKNLDVLELF  208 (210)
T ss_dssp             -CCBCG-GGTTCTTCSEEEEE
T ss_pred             -CCCCh-hhcCCCCCCEEEcc
Confidence             22232 35566666666664

>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=99.35  E-value=2.3e-12  Score=125.12  Aligned_cols=161  Identities=20%  Similarity=0.191  Sum_probs=121.5

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      .++++++|.+.++....     + ..+..+++|++|++++|.++.+++ ++++++|++|++++|.+..+| .+. .+++|
T Consensus        38 ~l~~l~~L~l~~~~i~~-----l-~~l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~~~~~~-~l~-~l~~L  108 (199)
T d2omxa2          38 DLDQVTTLQADRLGIKS-----I-DGVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADIT-PLA-NLTNL  108 (199)
T ss_dssp             HHTTCCEEECTTSCCCC-----C-TTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCG-GGT-TCTTC
T ss_pred             HhcCCCEEECCCCCCCC-----c-cccccCCCcCcCccccccccCccc-ccCCccccccccccccccccc-ccc-ccccc
Confidence            46788888888877653     1 236789999999999999988775 899999999999999988887 477 89999


Q ss_pred             eEEecCCcccccchhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccC-CcchhhhcCCCCCCCeEEEecccc
Q 045113          568 YTLDMPFSYIDHTADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYP-CCCTKDLLGRLPNLRNLRIQGDLS  646 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~-~~~~~~~l~~l~~L~~L~l~~~~~  646 (821)
                      +.|++++|....++ .+..+++|+.|++++|.+. .++ .+..+++|+.|++.++ -..+.. ++++++|+.|++++|. 
T Consensus       109 ~~L~l~~~~~~~~~-~~~~l~~L~~L~l~~n~l~-~~~-~l~~~~~L~~L~l~~n~l~~l~~-l~~l~~L~~L~ls~N~-  183 (199)
T d2omxa2         109 TGLTLFNNQITDID-PLKNLTNLNRLELSSNTIS-DIS-ALSGLTSLQQLNFSSNQVTDLKP-LANLTTLERLDISSNK-  183 (199)
T ss_dssp             SEEECCSSCCCCCG-GGTTCTTCSEEECCSSCCC-CCG-GGTTCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-
T ss_pred             cccccccccccccc-ccchhhhhHHhhhhhhhhc-ccc-cccccccccccccccccccCCcc-ccCCCCCCEEECCCCC-
Confidence            99999999776654 4788999999999999873 343 4777888888887774 233445 7778888888888773 


Q ss_pred             cchhHHHHHccCCCCcCEE
Q 045113          647 YNQSLLSKSLCRLSCLESL  665 (821)
Q Consensus       647 ~~~~~l~~~l~~~~~L~~L  665 (821)
                        ...++ .+..+++|++|
T Consensus       184 --i~~i~-~l~~L~~L~~L  199 (199)
T d2omxa2         184 --VSDIS-VLAKLTNLESL  199 (199)
T ss_dssp             --CCCCG-GGGGCTTCSEE
T ss_pred             --CCCCc-cccCCCCCCcC
Confidence              22222 35556666554

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.32  E-value=1.7e-12  Score=115.16  Aligned_cols=97  Identities=22%  Similarity=0.200  Sum_probs=71.7

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCceeecCCccc
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLRHLNFGSITL  600 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~~L~L~~~~~  600 (821)
                      |+|+|++|.++.++. ++++++|++|++++|.+..+|+.+. .+++|++|++++|.+..+|. +.++++|++|++++|.+
T Consensus         1 R~L~Ls~n~l~~l~~-l~~l~~L~~L~ls~N~l~~lp~~~~-~l~~L~~L~l~~N~i~~l~~-~~~l~~L~~L~l~~N~i   77 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALA-ALRCLEVLQASDNALENVDG-VANLPRLQELLLCNNRL   77 (124)
T ss_dssp             SEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGG-GCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECCSSCC
T ss_pred             CEEEcCCCCCCCCcc-cccCCCCCEEECCCCccCcchhhhh-hhhcccccccccccccccCc-cccccccCeEECCCCcc
Confidence            678888888887764 7788888888888888888887777 88888888888888887764 78888888888888877


Q ss_pred             CCCCC--CCcCCCCCcceecccc
Q 045113          601 PAHPG--NYCGSLENLNFISALY  621 (821)
Q Consensus       601 ~~~~p--~~i~~l~~L~~L~~~~  621 (821)
                      .. +|  ..++.+++|++|++.+
T Consensus        78 ~~-~~~~~~l~~~~~L~~L~l~~   99 (124)
T d1dcea3          78 QQ-SAAIQPLVSCPRLVLLNLQG   99 (124)
T ss_dssp             CS-SSTTGGGGGCTTCCEEECTT
T ss_pred             CC-CCCchhhcCCCCCCEEECCC
Confidence            43 22  2344555555555444

>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=99.31  E-value=4.5e-12  Score=127.20  Aligned_cols=73  Identities=16%  Similarity=0.230  Sum_probs=40.8

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHH-HHhccccceEEecCCccccc-ch-hhhccCccCceeecC
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLS-FFNYLLNLYTLDMPFSYIDH-TA-DEFWKMKKLRHLNFG  596 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~-i~~~L~~L~~L~L~~~~l~~-lp-~~i~~l~~L~~L~L~  596 (821)
                      ++++.++..++.+|..+.  +++++|++++|.|..+|.. +. ++++|++|++++|.+.. +| ..+..++++++|.+.
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~~~   86 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFS-GFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIE   86 (242)
T ss_dssp             SEEEEESCSCSSCCSCSC--SCCSEEEEESCCCCEECTTTTT-TCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEE
T ss_pred             CEEEEeCCCCCCcCCCCC--CCCCEEECcCCcCCccChhHhh-ccchhhhhhhccccccceeecccccccccccccccc
Confidence            455666666666665442  3566666666666666543 33 56666666666664433 22 234556666666554

>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=99.30  E-value=1.7e-13  Score=151.32  Aligned_cols=173  Identities=16%  Similarity=0.061  Sum_probs=102.4

Q ss_pred             cCCCCCCCeEEEeccccc---chhHHHHHccCCCCcCEEEeecCC--------------CCCCCCeeEecc---------
Q 045113          630 LGRLPNLRNLRIQGDLSY---NQSLLSKSLCRLSCLESLKLANES--------------KMPRLSKIILAE---------  683 (821)
Q Consensus       630 l~~l~~L~~L~l~~~~~~---~~~~l~~~l~~~~~L~~L~l~~~~--------------~~~~L~~l~l~~---------  683 (821)
                      +...+.++.+.+..+...   ..............|+.++++.+.              ..+.++.+.+.+         
T Consensus       222 l~~~~~~~~l~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~~~  301 (460)
T d1z7xw1         222 VASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGAR  301 (460)
T ss_dssp             HHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHH
T ss_pred             ccccccccccchhhccccccccchhhcccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            334456666666655311   112233344455677777776531              344566665554         


Q ss_pred             ------cCCCCCcceEEEecccCCCCCcccc----cCCCCCCEEEEeccccCCCeee----ecCCCCcccceeeeccCCC
Q 045113          684 ------YVFPHSLTHLSFSNTDLMDDPMPAL----EKLPLLQVLKLKQNSYSGRKLT----CGSDGFPRLKVLHLKSMLW  749 (821)
Q Consensus       684 ------~~~~~~L~~L~L~~~~l~~~~~~~l----~~l~~L~~L~L~~~~~~~~~~~----~~~~~~~~L~~L~L~~~~~  749 (821)
                            ....+.|+.+++++|.++......+    ...++|++|+|++|.+.++...    ......+.|++|+|++|. 
T Consensus       302 ~l~~~l~~~~~~L~~l~l~~~~l~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~-  380 (460)
T d1z7xw1         302 LLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCD-  380 (460)
T ss_dssp             HHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSC-
T ss_pred             hhhccccccccccccccccccchhhhhhhhcccccccccchhhhheeeecccCcccchhhhhhhcccCCCCEEECCCCC-
Confidence                  2345678899999888765544433    3567899999998876543211    112346679999999984 


Q ss_pred             ccc-----eeeccccccccceeEEeecCCCC----CCccccC-CCCCCCEEEEeCCc--HHHHHHH
Q 045113          750 LEE-----WTMGTGAMPKLECLIINPCAYLK----KMPEQLW-CIKSLNNFNCWWPQ--PELRQKL  803 (821)
Q Consensus       750 l~~-----~~~~~~~l~~L~~L~i~~c~~l~----~lp~~l~-~l~~L~~L~l~~c~--~~~~~~~  803 (821)
                      +..     +...+..+++|++|+|++|+.-.    .+...+. +...|+.|++.++.  .+..+.+
T Consensus       381 i~~~~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~l~l~~~~~~~~~~~~l  446 (460)
T d1z7xw1         381 VSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESVRQPGCLLEQLVLYDIYWSEEMEDRL  446 (460)
T ss_dssp             CCHHHHHHHHHHHHHCCCCCEEECCSSSCCHHHHHHHHHHHTSTTCCCCEEECTTCCCCHHHHHHH
T ss_pred             CChHHHHHHHHHHhcCCCCCEEECCCCcCCHHHHHHHHHHHHhCCCccCEEECCCCCCCHHHHHHH
Confidence            542     22334567899999999886322    1222333 34479999998876  3444444

>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=99.27  E-value=3.6e-12  Score=127.89  Aligned_cols=99  Identities=15%  Similarity=0.158  Sum_probs=76.9

Q ss_pred             ceEEeecCCCCccccHHHHhccccceEEecCCcccccchh-hhccCccCceeecCCcccCCCCC-CCcCCCCCcceeccc
Q 045113          543 LRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSITLPAHPG-NYCGSLENLNFISAL  620 (821)
Q Consensus       543 Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~~~~~p-~~i~~l~~L~~L~~~  620 (821)
                      .+.++.++.++..+|..+.   +++++|++++|.+..+|. .|.++++|++|++++|.+...++ ..+..+++++++...
T Consensus        10 ~~~i~c~~~~l~~iP~~l~---~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~   86 (242)
T d1xwdc1          10 NRVFLCQESKVTEIPSDLP---RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIE   86 (242)
T ss_dssp             SSEEEEESCSCSSCCSCSC---SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEE
T ss_pred             CCEEEEeCCCCCCcCCCCC---CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccc
Confidence            4788889989999997664   589999999999999976 57899999999999998866554 346778888888765


Q ss_pred             c-C--CcchhhhcCCCCCCCeEEEecc
Q 045113          621 Y-P--CCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       621 ~-~--~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      . +  .......+.++++|+.|++.++
T Consensus        87 ~~n~l~~~~~~~~~~l~~L~~l~l~~~  113 (242)
T d1xwdc1          87 KANNLLYINPEAFQNLPNLQYLLISNT  113 (242)
T ss_dssp             CCTTCCEECTTSEECCTTCCEEEEESC
T ss_pred             ccccccccccccccccccccccccchh
Confidence            4 3  2233333677888888888776

>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=99.25  E-value=4.6e-12  Score=118.18  Aligned_cols=107  Identities=12%  Similarity=0.025  Sum_probs=67.7

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      ++.++|.|.+.++....     .+..+..+++|++|+|++|.++.++ .+..+++|++|++++|.+..+|..+...+++|
T Consensus        16 n~~~lr~L~L~~n~I~~-----i~~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L   89 (162)
T d1a9na_          16 NAVRDRELDLRGYKIPV-----IENLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDL   89 (162)
T ss_dssp             CTTSCEEEECTTSCCCS-----CCCGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTC
T ss_pred             CcCcCcEEECCCCCCCc-----cCccccccccCCEEECCCCCCCccC-CcccCcchhhhhcccccccCCCcccccccccc
Confidence            45566666666666542     2344556666777777777766663 36666777777777777766665543356777


Q ss_pred             eEEecCCcccccchh--hhccCccCceeecCCccc
Q 045113          568 YTLDMPFSYIDHTAD--EFWKMKKLRHLNFGSITL  600 (821)
Q Consensus       568 ~~L~L~~~~l~~lp~--~i~~l~~L~~L~L~~~~~  600 (821)
                      ++|++++|.+..++.  .+..+++|++|++++|.+
T Consensus        90 ~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i  124 (162)
T d1a9na_          90 TELILTNNSLVELGDLDPLASLKSLTYLCILRNPV  124 (162)
T ss_dssp             CEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGG
T ss_pred             ccceeccccccccccccccccccccchhhcCCCcc
Confidence            777777776666543  456667777777776665

>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=99.18  E-value=5.8e-12  Score=117.48  Aligned_cols=105  Identities=19%  Similarity=0.163  Sum_probs=84.4

Q ss_pred             hccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhh-ccCccCce
Q 045113          514 CEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEF-WKMKKLRH  592 (821)
Q Consensus       514 ~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i-~~l~~L~~  592 (821)
                      |.++..||.|+|++|.|+.+|..+..+++|++|+|++|.|..++ .+. .+++|++|++++|.+..+|+.+ ..+++|++
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-GFP-LLRRLKTLLVNNNRICRIGEGLDQALPDLTE   91 (162)
T ss_dssp             EECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEEC-CCC-CCSSCCEEECCSSCCCEECSCHHHHCTTCCE
T ss_pred             ccCcCcCcEEECCCCCCCccCccccccccCCEEECCCCCCCccC-Ccc-cCcchhhhhcccccccCCCcccccccccccc
Confidence            45677899999999999988877788999999999999999886 567 8999999999999999987654 57999999


Q ss_pred             eecCCcccCCCCC--CCcCCCCCcceecccc
Q 045113          593 LNFGSITLPAHPG--NYCGSLENLNFISALY  621 (821)
Q Consensus       593 L~L~~~~~~~~~p--~~i~~l~~L~~L~~~~  621 (821)
                      |++++|.+.. ++  ..+..+++|++|++.+
T Consensus        92 L~L~~N~i~~-~~~l~~l~~l~~L~~L~l~~  121 (162)
T d1a9na_          92 LILTNNSLVE-LGDLDPLASLKSLTYLCILR  121 (162)
T ss_dssp             EECCSCCCCC-GGGGGGGGGCTTCCEEECCS
T ss_pred             ceeccccccc-cccccccccccccchhhcCC
Confidence            9999998733 33  2345555555555555

>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=99.17  E-value=1.9e-11  Score=108.33  Aligned_cols=102  Identities=20%  Similarity=0.157  Sum_probs=88.9

Q ss_pred             eEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEec
Q 045113          493 HSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM  572 (821)
Q Consensus       493 rsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L  572 (821)
                      |.|.+.++....     ++ .+..++.|+.|++++|.++.+|+.++.+++|++|++++|.+..+| .+. ++++|++|++
T Consensus         1 R~L~Ls~n~l~~-----l~-~l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~-~~~-~l~~L~~L~l   72 (124)
T d1dcea3           1 RVLHLAHKDLTV-----LC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVA-NLPRLQELLL   72 (124)
T ss_dssp             SEEECTTSCCSS-----CC-CGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGT-TCSSCCEEEC
T ss_pred             CEEEcCCCCCCC-----Cc-ccccCCCCCEEECCCCccCcchhhhhhhhcccccccccccccccC-ccc-cccccCeEEC
Confidence            567777777653     22 378899999999999999999999999999999999999999997 577 9999999999


Q ss_pred             CCcccccch--hhhccCccCceeecCCcccCC
Q 045113          573 PFSYIDHTA--DEFWKMKKLRHLNFGSITLPA  602 (821)
Q Consensus       573 ~~~~l~~lp--~~i~~l~~L~~L~L~~~~~~~  602 (821)
                      ++|.+..+|  ..+..+++|++|++++|.+..
T Consensus        73 ~~N~i~~~~~~~~l~~~~~L~~L~l~~N~i~~  104 (124)
T d1dcea3          73 CNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQ  104 (124)
T ss_dssp             CSSCCCSSSTTGGGGGCTTCCEEECTTSGGGG
T ss_pred             CCCccCCCCCchhhcCCCCCCEEECCCCcCCc
Confidence            999998886  468899999999999998843

>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=99.03  E-value=2.5e-10  Score=109.64  Aligned_cols=121  Identities=17%  Similarity=0.209  Sum_probs=77.1

Q ss_pred             eEEEeCCCCCCcccccccCCCCceEEeecCCCCcc-ccHH-HHhccccceEEecCCcccccc-hhhhccCccCceeecCC
Q 045113          521 RVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKS-LPLS-FFNYLLNLYTLDMPFSYIDHT-ADEFWKMKKLRHLNFGS  597 (821)
Q Consensus       521 r~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~-lp~~-i~~~L~~L~~L~L~~~~l~~l-p~~i~~l~~L~~L~L~~  597 (821)
                      ++++.+++.++.+|..+.  .++++|+|++|.|.. ++.. +. .+++|+.|++++|.+..+ +..+..+++|++|++++
T Consensus        11 ~~v~Cs~~~L~~iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~-~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~   87 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFG-RLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGG-GCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEEeCCCcCccCCCCC--CCCCEEEeCCCCCcccccccccC-CCceEeeeeccccccccccccccccccccceeeecc
Confidence            466777777777776553  567777777777753 4333 34 677777777777766655 34556677777777777


Q ss_pred             cccCCCCCCCcCCCCCcceeccccC--CcchhhhcCCCCCCCeEEEecc
Q 045113          598 ITLPAHPGNYCGSLENLNFISALYP--CCCTKDLLGRLPNLRNLRIQGD  644 (821)
Q Consensus       598 ~~~~~~~p~~i~~l~~L~~L~~~~~--~~~~~~~l~~l~~L~~L~l~~~  644 (821)
                      |.+....|..|.++++|++|++.+|  ...+.+++..+++|++|+++++
T Consensus        88 N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N  136 (192)
T d1w8aa_          88 NKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             CCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTC
T ss_pred             ccccccCHHHHhCCCcccccccCCccccccCHHHhcCCccccccccccc
Confidence            7775444455666677777766664  2333333666777777777665

>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=99.01  E-value=5.2e-11  Score=130.86  Aligned_cols=302  Identities=17%  Similarity=0.151  Sum_probs=180.1

Q ss_pred             CCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCC-----cccccccCCCCceEEeecCCCCcccc-HHHHh-
Q 045113          490 PHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLN-----QYPSEIENLSLLRYLKLNIPSLKSLP-LSFFN-  562 (821)
Q Consensus       490 ~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~-----~lp~~i~~l~~Lr~L~L~~~~i~~lp-~~i~~-  562 (821)
                      ++|++|.+..+...   ...+...+..++++++|+|++|.++     .++..+..+++|++|+|++|.|.... ..+.. 
T Consensus         2 ~~l~~ld~~~~~i~---~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~   78 (460)
T d1z7xw1           2 LDIQSLDIQCEELS---DARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQG   78 (460)
T ss_dssp             EEEEEEEEESCCCC---HHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHT
T ss_pred             CCCCEEEeeCCcCC---hHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHH
Confidence            46899999988876   3455678899999999999999987     45666789999999999999886321 12221 


Q ss_pred             ---ccccceEEecCCccccc-----chhhhccCccCceeecCCcccCCC----CCCCcCCC-CCcceecccc-C--C---
Q 045113          563 ---YLLNLYTLDMPFSYIDH-----TADEFWKMKKLRHLNFGSITLPAH----PGNYCGSL-ENLNFISALY-P--C---  623 (821)
Q Consensus       563 ---~L~~L~~L~L~~~~l~~-----lp~~i~~l~~L~~L~L~~~~~~~~----~p~~i~~l-~~L~~L~~~~-~--~---  623 (821)
                         ...+|++|++++|.++.     ++..+..+++|++|++++|.+...    ++..+... .......... +  .   
T Consensus        79 l~~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  158 (460)
T d1z7xw1          79 LQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASC  158 (460)
T ss_dssp             TCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGH
T ss_pred             HhcCCCCCCEEECCCCCccccccccccchhhccccccccccccccchhhhhhhhhhcccccccccccccccccccchhhh
Confidence               23579999999997754     466778899999999999987431    11111111 1111222211 1  0   


Q ss_pred             -cchhhhcCCCCCCCeEEEecccccch-------------------------------hHHHHHccCCCCcCEEEeecCC
Q 045113          624 -CCTKDLLGRLPNLRNLRIQGDLSYNQ-------------------------------SLLSKSLCRLSCLESLKLANES  671 (821)
Q Consensus       624 -~~~~~~l~~l~~L~~L~l~~~~~~~~-------------------------------~~l~~~l~~~~~L~~L~l~~~~  671 (821)
                       ..... +...+.++.+.++++.....                               ......+...+.++.+.+..+.
T Consensus       159 ~~~~~~-l~~~~~~~~~~ls~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~n~  237 (460)
T d1z7xw1         159 EPLASV-LRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNK  237 (460)
T ss_dssp             HHHHHH-HHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSB
T ss_pred             cccccc-cccccccccccccccccccccccccccccccccccccccccccccccchhhhcccccccccccccccchhhcc
Confidence             11222 45566777777776531100                               0111222233444444444321


Q ss_pred             ---------------CCCCCCeeEecc--------------cCCCCCcceEEEecccCCCCCcccc-----cCCCCCCEE
Q 045113          672 ---------------KMPRLSKIILAE--------------YVFPHSLTHLSFSNTDLMDDPMPAL-----EKLPLLQVL  717 (821)
Q Consensus       672 ---------------~~~~L~~l~l~~--------------~~~~~~L~~L~L~~~~l~~~~~~~l-----~~l~~L~~L  717 (821)
                                     ....++.+.+.+              +...+.+..+++++|.+.+.....+     ...+.|+.+
T Consensus       238 ~~~~~~~~~~~~~~~~~~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~~~~l~~~l~~~~~~L~~l  317 (460)
T d1z7xw1         238 LGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESL  317 (460)
T ss_dssp             CHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEE
T ss_pred             ccccccchhhcccccccccccccccccccccccccccccccccccccccccccccccccccccchhhccccccccccccc
Confidence                           233455555543              2234555566665555432222211     123467777


Q ss_pred             EEeccccCCCeee---ecCCCCcccceeeeccCCCccc-----eeecc-ccccccceeEEeecCCCC----CCccccCCC
Q 045113          718 KLKQNSYSGRKLT---CGSDGFPRLKVLHLKSMLWLEE-----WTMGT-GAMPKLECLIINPCAYLK----KMPEQLWCI  784 (821)
Q Consensus       718 ~L~~~~~~~~~~~---~~~~~~~~L~~L~L~~~~~l~~-----~~~~~-~~l~~L~~L~i~~c~~l~----~lp~~l~~l  784 (821)
                      .++++.+......   ......++|++|+|++|+ +..     +...+ ...+.|++|++++|....    .++..+..+
T Consensus       318 ~l~~~~l~~~~~~~l~~~~~~~~~L~~L~Ls~N~-i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~  396 (460)
T d1z7xw1         318 WVKSCSFTAACCSHFSSVLAQNRFLLELQISNNR-LEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLAN  396 (460)
T ss_dssp             ECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHC
T ss_pred             cccccchhhhhhhhcccccccccchhhhheeeec-ccCcccchhhhhhhcccCCCCEEECCCCCCChHHHHHHHHHHhcC
Confidence            7776655443211   112345689999999874 432     22222 245679999999996421    355567778


Q ss_pred             CCCCEEEEeCCc
Q 045113          785 KSLNNFNCWWPQ  796 (821)
Q Consensus       785 ~~L~~L~l~~c~  796 (821)
                      ++|++|++++++
T Consensus       397 ~~L~~L~Ls~N~  408 (460)
T d1z7xw1         397 HSLRELDLSNNC  408 (460)
T ss_dssp             CCCCEEECCSSS
T ss_pred             CCCCEEECCCCc
Confidence            999999999986

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.97  E-value=2.5e-11  Score=117.22  Aligned_cols=88  Identities=17%  Similarity=0.141  Sum_probs=66.2

Q ss_pred             hHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCcc
Q 045113          510 WQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKK  589 (821)
Q Consensus       510 ~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~  589 (821)
                      ++..+..+++|+.|+|++|.++.++ .+..+++|++|+|++|.+..+|.... .+++|++|++++|.+..++ .+..+++
T Consensus        40 l~~sl~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~-~~~~L~~L~l~~N~i~~l~-~~~~l~~  116 (198)
T d1m9la_          40 MDATLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDA-VADTLEELWISYNQIASLS-GIEKLVN  116 (198)
T ss_dssp             CHHHHHHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEEEECSCSSHHH-HHHHCCEEECSEEECCCHH-HHHHHHH
T ss_pred             hhhHHhcccccceeECcccCCCCcc-cccCCccccChhhccccccccccccc-ccccccccccccccccccc-ccccccc
Confidence            3456777888888888888877765 47777888888888888877776555 6677888888888777764 3677888


Q ss_pred             CceeecCCccc
Q 045113          590 LRHLNFGSITL  600 (821)
Q Consensus       590 L~~L~L~~~~~  600 (821)
                      |++|++++|.+
T Consensus       117 L~~L~L~~N~i  127 (198)
T d1m9la_         117 LRVLYMSNNKI  127 (198)
T ss_dssp             SSEEEESEEEC
T ss_pred             ccccccccchh
Confidence            88888887776

>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=98.92  E-value=3.1e-10  Score=119.95  Aligned_cols=115  Identities=17%  Similarity=0.134  Sum_probs=59.4

Q ss_pred             cCCCCCCCeEEEecccccc---hhHHHHHccCCCCcCEEEeecCCCCCCCCeeE----ecccCCCCCcceEEEecccCCC
Q 045113          630 LGRLPNLRNLRIQGDLSYN---QSLLSKSLCRLSCLESLKLANESKMPRLSKII----LAEYVFPHSLTHLSFSNTDLMD  702 (821)
Q Consensus       630 l~~l~~L~~L~l~~~~~~~---~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~l~----l~~~~~~~~L~~L~L~~~~l~~  702 (821)
                      +..++.|+.|+++.|....   ...+...+..+++|+.|++++|    .+....    ...+..+++|++|+|++|.+.+
T Consensus       182 l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N----~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~  257 (344)
T d2ca6a1         182 FQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDN----TFTHLGSSALAIALKSWPNLRELGLNDCLLSA  257 (344)
T ss_dssp             HHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSS----CCHHHHHHHHHHHGGGCTTCCEEECTTCCCCH
T ss_pred             hhhhhhhcccccccccccccccccchhhhhcchhhhcccccccc----cccccccccccccccccccchhhhhhcCccCc
Confidence            4455666666666653111   1112334555666777766643    111100    0114456777777777777654


Q ss_pred             CCcccc----c--CCCCCCEEEEeccccCCCeeee---cC-CCCcccceeeeccCC
Q 045113          703 DPMPAL----E--KLPLLQVLKLKQNSYSGRKLTC---GS-DGFPRLKVLHLKSML  748 (821)
Q Consensus       703 ~~~~~l----~--~l~~L~~L~L~~~~~~~~~~~~---~~-~~~~~L~~L~L~~~~  748 (821)
                      .....+    .  ..++|++|+|++|.+.......   .. ..+++|++|+|++|.
T Consensus       258 ~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~  313 (344)
T d2ca6a1         258 RGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNR  313 (344)
T ss_dssp             HHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             hhhHHHHHHhhhccCCCCCEEECCCCcCChHHHHHHHHHHHccCCCCCEEECCCCc
Confidence            322222    2  2356778888777654422111   01 245678888887764

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.91  E-value=8e-10  Score=106.04  Aligned_cols=105  Identities=16%  Similarity=0.117  Sum_probs=74.3

Q ss_pred             CceeEEEeCCCCCCc-c-cccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchh-hhccCccCceee
Q 045113          518 KLLRVLDLGSLVLNQ-Y-PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLN  594 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~-l-p~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~  594 (821)
                      ++++.|+|++|.|+. + +..+.++++|++|+|++|.+..++......+++|++|++++|.+..+|+ .|.++++|++|+
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~  108 (192)
T d1w8aa_          29 LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLN  108 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEE
T ss_pred             CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccccccCHHHHhCCCcccccc
Confidence            467778888887763 3 3456777788888888877775554443377788888888887777754 467788888888


Q ss_pred             cCCcccCCCCCCCcCCCCCcceeccccC
Q 045113          595 FGSITLPAHPGNYCGSLENLNFISALYP  622 (821)
Q Consensus       595 L~~~~~~~~~p~~i~~l~~L~~L~~~~~  622 (821)
                      |++|.+....|..+..+++|++|++..|
T Consensus       109 L~~N~l~~i~~~~f~~l~~L~~l~L~~N  136 (192)
T d1w8aa_         109 LYDNQISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             CCSSCCCEECTTSSTTCTTCCEEECTTC
T ss_pred             cCCccccccCHHHhcCCccccccccccc
Confidence            8888775555556777778888877653

>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=98.91  E-value=7.3e-11  Score=124.90  Aligned_cols=248  Identities=17%  Similarity=0.135  Sum_probs=161.4

Q ss_pred             HHhhccCCceeEEEeCCCCCC-----cccccccCCCCceEEeecCCCCcc-----------ccHHHHhccccceEEecCC
Q 045113          511 QKICEMYKLLRVLDLGSLVLN-----QYPSEIENLSLLRYLKLNIPSLKS-----------LPLSFFNYLLNLYTLDMPF  574 (821)
Q Consensus       511 ~~~~~~~~~Lr~L~L~~~~l~-----~lp~~i~~l~~Lr~L~L~~~~i~~-----------lp~~i~~~L~~L~~L~L~~  574 (821)
                      ...+..+..|+.|+|++|.+.     .+...+...++|+.|+++++....           +...+. .+++|+.|+|++
T Consensus        24 ~~~L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~L~~L~L~~  102 (344)
T d2ca6a1          24 FAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALL-KCPKLHTVRLSD  102 (344)
T ss_dssp             SHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHT-TCTTCCEEECCS
T ss_pred             HHHHhhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHh-hCCCcccccccc
Confidence            355677888999999998875     345567778899999998765432           223344 567899999988


Q ss_pred             ccccc-----chhhhccCccCceeecCCcccCCCCCCCcCCCCCcceeccccCCcchhhhcCCCCCCCeEEEeccc--cc
Q 045113          575 SYIDH-----TADEFWKMKKLRHLNFGSITLPAHPGNYCGSLENLNFISALYPCCCTKDLLGRLPNLRNLRIQGDL--SY  647 (821)
Q Consensus       575 ~~l~~-----lp~~i~~l~~L~~L~L~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~~l~~l~~L~~L~l~~~~--~~  647 (821)
                      |.+..     +...+..+++|++|++++|.+...-...++.  .|..+.      .... ....+.|+.|.++++.  ..
T Consensus       103 n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~--~l~~~~------~~~~-~~~~~~L~~l~l~~n~i~~~  173 (344)
T d2ca6a1         103 NAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIAR--ALQELA------VNKK-AKNAPPLRSIICGRNRLENG  173 (344)
T ss_dssp             CCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHH--HHHHHH------HHHH-HHTCCCCCEEECCSSCCTGG
T ss_pred             cccccccccchhhhhcccccchheecccccccccccccccc--cccccc------cccc-cccCcccceeeccccccccc
Confidence            86543     4555667888999998888753211110100  011110      0011 3456678888887764  12


Q ss_pred             chhHHHHHccCCCCcCEEEeecCCCCCCCCe-----eEecccCCCCCcceEEEecccCCCC----CcccccCCCCCCEEE
Q 045113          648 NQSLLSKSLCRLSCLESLKLANESKMPRLSK-----IILAEYVFPHSLTHLSFSNTDLMDD----PMPALEKLPLLQVLK  718 (821)
Q Consensus       648 ~~~~l~~~l~~~~~L~~L~l~~~~~~~~L~~-----l~l~~~~~~~~L~~L~L~~~~l~~~----~~~~l~~l~~L~~L~  718 (821)
                      ....+...+...++|+.|+++.+    .+..     ....++..+++|+.|+|++|.++..    ....+..+++|++|+
T Consensus       174 ~~~~l~~~l~~~~~L~~L~L~~n----~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~  249 (344)
T d2ca6a1         174 SMKEWAKTFQSHRLLHTVKMVQN----GIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELG  249 (344)
T ss_dssp             GHHHHHHHHHHCTTCCEEECCSS----CCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEE
T ss_pred             ccccccchhhhhhhhcccccccc----cccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhh
Confidence            34556677778899999999864    2322     1122366789999999999987543    234567899999999


Q ss_pred             EeccccCCCeeee-----cCCCCcccceeeeccCCCccc-----eeecc-ccccccceeEEeecCC
Q 045113          719 LKQNSYSGRKLTC-----GSDGFPRLKVLHLKSMLWLEE-----WTMGT-GAMPKLECLIINPCAY  773 (821)
Q Consensus       719 L~~~~~~~~~~~~-----~~~~~~~L~~L~L~~~~~l~~-----~~~~~-~~l~~L~~L~i~~c~~  773 (821)
                      |++|.+.+.....     ....++.|++|+|++|. +..     +...+ ..+++|++|++++|..
T Consensus       250 Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~-i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~  314 (344)
T d2ca6a1         250 LNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNE-IELDAVRTLKTVIDEKMPDLLFLELNGNRF  314 (344)
T ss_dssp             CTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSC-CBHHHHHHHHHHHHHHCTTCCEEECTTSBS
T ss_pred             hhcCccCchhhHHHHHHhhhccCCCCCEEECCCCc-CChHHHHHHHHHHHccCCCCCEEECCCCcC
Confidence            9988876532211     12346789999999985 542     22222 2578999999998764

>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=98.84  E-value=5.4e-11  Score=114.80  Aligned_cols=108  Identities=20%  Similarity=0.158  Sum_probs=93.1

Q ss_pred             CCCCceEEEeecCCCCccchhhhHHhhccCCceeEEEeCCCCCCcccccccCCCCceEEeecCCCCccccHHHHhccccc
Q 045113          488 YYPHLHSLLYFTSESDHLDHIDWQKICEMYKLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNL  567 (821)
Q Consensus       488 ~~~~LrsL~l~~~~~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L  567 (821)
                      .+++|+.|.+.++....    +  ..+..+++|++|+|++|.++.+|.....+++|++|++++|.+..++ .+. .+++|
T Consensus        46 ~L~~L~~L~Ls~n~I~~----i--~~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l~-~~~-~l~~L  117 (198)
T d1m9la_          46 TLKACKHLALSTNNIEK----I--SSLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLS-GIE-KLVNL  117 (198)
T ss_dssp             HTTTCCEEECSEEEESC----C--CCHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCHH-HHH-HHHHS
T ss_pred             cccccceeECcccCCCC----c--ccccCCccccChhhcccccccccccccccccccccccccccccccc-ccc-ccccc
Confidence            78999999999887653    2  2478899999999999999988876666778999999999999886 577 89999


Q ss_pred             eEEecCCcccccch--hhhccCccCceeecCCcccCCC
Q 045113          568 YTLDMPFSYIDHTA--DEFWKMKKLRHLNFGSITLPAH  603 (821)
Q Consensus       568 ~~L~L~~~~l~~lp--~~i~~l~~L~~L~L~~~~~~~~  603 (821)
                      ++|++++|.+..++  ..+..+++|++|++++|.+...
T Consensus       118 ~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~~~  155 (198)
T d1m9la_         118 RVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYND  155 (198)
T ss_dssp             SEEEESEEECCCHHHHHHHTTTTTCSEEEECSSHHHHH
T ss_pred             cccccccchhccccccccccCCCccceeecCCCccccC
Confidence            99999999998886  4688999999999999987543

>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=98.62  E-value=3.6e-08  Score=90.46  Aligned_cols=87  Identities=17%  Similarity=0.194  Sum_probs=52.8

Q ss_pred             hccCCceeEEEeCCCC-CCccc-ccccCCCCceEEeecCCCCccccHHHHhccccceEEecCCcccccchhhhccCccCc
Q 045113          514 CEMYKLLRVLDLGSLV-LNQYP-SEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADEFWKMKKLR  591 (821)
Q Consensus       514 ~~~~~~Lr~L~L~~~~-l~~lp-~~i~~l~~Lr~L~L~~~~i~~lp~~i~~~L~~L~~L~L~~~~l~~lp~~i~~l~~L~  591 (821)
                      +..+++|+.|++++++ ++.++ ..|..+++|++|++++|.|..+++.....+++|++|+|++|.++.+|..+....+|+
T Consensus        27 l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~~~l~  106 (156)
T d2ifga3          27 LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQ  106 (156)
T ss_dssp             SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCCSTTTCSCCCC
T ss_pred             ccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceeccCCCCcccChhhhcccccc
Confidence            4555666666665543 66554 346666666666666666666644422266666666666666666666555555566


Q ss_pred             eeecCCccc
Q 045113          592 HLNFGSITL  600 (821)
Q Consensus       592 ~L~L~~~~~  600 (821)
                      +|+|++|.+
T Consensus       107 ~L~L~~Np~  115 (156)
T d2ifga3         107 ELVLSGNPL  115 (156)
T ss_dssp             EEECCSSCC
T ss_pred             ccccCCCcc
Confidence            666666655

>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=98.56  E-value=7.4e-08  Score=88.33  Aligned_cols=102  Identities=17%  Similarity=-0.024  Sum_probs=80.1

Q ss_pred             CceeEEEeCCCCCCcccccccCCCCceEEeecCC-CCccccHH-HHhccccceEEecCCcccccc-hhhhccCccCceee
Q 045113          518 KLLRVLDLGSLVLNQYPSEIENLSLLRYLKLNIP-SLKSLPLS-FFNYLLNLYTLDMPFSYIDHT-ADEFWKMKKLRHLN  594 (821)
Q Consensus       518 ~~Lr~L~L~~~~l~~lp~~i~~l~~Lr~L~L~~~-~i~~lp~~-i~~~L~~L~~L~L~~~~l~~l-p~~i~~l~~L~~L~  594 (821)
                      .....++.+++.+...|..+..+++|++|+++++ .++.++.. +. .+++|+.|++++|.+..+ |..|..+++|++|+
T Consensus         8 ~~~~~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~-~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~   86 (156)
T d2ifga3           8 HGSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLR-GLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLN   86 (156)
T ss_dssp             SSSSCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSC-SCCCCSEEECCSSCCCEECTTGGGSCSCCCEEE
T ss_pred             CCCCeEEecCCCCccCcccccCccccCeeecCCCccccccCchhhc-cccccCcceeeccccCCccccccccccccccee
Confidence            3455688888888888988999999999999876 48888765 55 899999999999999999 55688999999999


Q ss_pred             cCCcccCCCCCCCcCCCCCcceecccc
Q 045113          595 FGSITLPAHPGNYCGSLENLNFISALY  621 (821)
Q Consensus       595 L~~~~~~~~~p~~i~~l~~L~~L~~~~  621 (821)
                      |++|.+. .+|..+-...+|+.|++.+
T Consensus        87 Ls~N~l~-~l~~~~~~~~~l~~L~L~~  112 (156)
T d2ifga3          87 LSFNALE-SLSWKTVQGLSLQELVLSG  112 (156)
T ss_dssp             CCSSCCS-CCCSTTTCSCCCCEEECCS
T ss_pred             ccCCCCc-ccChhhhccccccccccCC
Confidence            9999984 5665443333455555443

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.41  E-value=1.1e-07  Score=96.18  Aligned_cols=42  Identities=14%  Similarity=0.173  Sum_probs=35.9

Q ss_pred             CCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          165 KNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ....||||+++++++.+.    .  -++|.|+|.+|+|||+|++++.+
T Consensus        10 ~~~~f~GR~~el~~l~~~----~--~~~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL----R--APITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT----C--SSEEEEEESTTSSHHHHHHHHHH
T ss_pred             ChhhCCChHHHHHHHHhc----c--CCEEEEEcCCCCcHHHHHHHHHH
Confidence            457899999999998763    2  46889999999999999999987

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.14  E-value=4.8e-06  Score=83.47  Aligned_cols=104  Identities=18%  Similarity=0.159  Sum_probs=76.6

Q ss_pred             CCeeechhhHHHHHHHHhc----CCCCceEEEEEcCCCChHHHHHHHHhcCcccccccc-eeEEEEcCCCCCHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIE----GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFD-CHAWVQEPYTCYADQILDII  241 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~----~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i  241 (821)
                      ..++|||.++++|.++|..    .......+.|+|++|+||||+|+.+.+  .....+. ..+|+..............+
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~--~l~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWE--LYKDKTTARFVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHH--HHTTSCCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHH--HHhcccCCcEEEecchhhhhhhhhhhhh
Confidence            4589999999999999864    334567899999999999999999998  4444333 45677777788888888888


Q ss_pred             HHHhCCchh---------HHHHHHHh--CCCcEEEEEecCCC
Q 045113          242 IKFLMPSSR---------LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       242 ~~~l~~~~~---------~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                      .........         ...+.+.+  ......+++|++++
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~  135 (276)
T d1fnna2          94 ARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFN  135 (276)
T ss_dssp             HHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGG
T ss_pred             HHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHH
Confidence            888765421         33343333  34677788888765

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.87  E-value=8.6e-06  Score=79.79  Aligned_cols=130  Identities=12%  Similarity=0.056  Sum_probs=79.0

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccc---cceeEEEEcCCCCCHHHHHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHY---FDCHAWVQEPYTCYADQILDIII  242 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~---F~~~~wv~~s~~~~~~~~~~~i~  242 (821)
                      -.+++|.+..++.+..++..+.  ...+-++|.+|+||||+|+.+++  ++...   ......+..+.......+...+-
T Consensus        11 ~~diig~~~~~~~l~~~i~~~~--~~~lll~Gp~G~GKTtl~~~i~~--~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (237)
T d1sxjd2          11 LDEVTAQDHAVTVLKKTLKSAN--LPHMLFYGPPGTGKTSTILALTK--ELYGPDLMKSRILELNASDERGISIVREKVK   86 (237)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTT--CCCEEEECSTTSSHHHHHHHHHH--HHHHHHHHTTSEEEECSSSCCCHHHHTTHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCChHHHHHHHHH--HHcCCcccccchhheeccccccchHHHHHHH
Confidence            3458999999999999987664  44578999999999999999987  33211   22334445555555544333322


Q ss_pred             HH---hCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          243 KF---LMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       243 ~~---l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      ..   .........+......+.-.+|+|++..  ...+..+...+.......++|+||...
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~  148 (237)
T d1sxjd2          87 NFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYV  148 (237)
T ss_dssp             HHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCG
T ss_pred             HHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhcccccccccccccccccc
Confidence            21   1111113334444455555799999864  345555554444445566777776543

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.87  E-value=1.2e-05  Score=78.32  Aligned_cols=123  Identities=12%  Similarity=0.162  Sum_probs=75.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc-ccc-ceeEEEEcCCCCCHHHHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK-HYF-DCHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~-~~F-~~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      .++||.++.++.+..++..+.  ...+-++|++|+||||+|+.+.+  ++. ..| ..+.-+..+...+.......+...
T Consensus        14 ~divg~~~~~~~L~~~i~~~~--~~~lLl~Gp~G~GKttl~~~la~--~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~   89 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALAR--EIYGKNYSNMVLELNASDDRGIDVVRNQIKDF   89 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHH--HHHTTSHHHHEEEECTTSCCSHHHHHTHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCChhHHHHHHHH--HhhcCCCcceeEEecccccCCeeeeecchhhc
Confidence            469999999999999998765  44466999999999999999987  332 122 223333444444443332221111


Q ss_pred             hCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          245 LMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       245 l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                      ..       ......+++-.+|+|++...  ..-..+...+....+.++++++|....
T Consensus        90 ~~-------~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~  140 (227)
T d1sxjc2          90 AS-------TRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAH  140 (227)
T ss_dssp             HH-------BCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGG
T ss_pred             cc-------cccccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHH
Confidence            00       00112345568999999643  444555555555556788888877543

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.78  E-value=1.4e-05  Score=78.97  Aligned_cols=45  Identities=11%  Similarity=0.025  Sum_probs=35.6

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+++|.++..+.+..++..+. ...-+-++|++|+||||+|+.+.+
T Consensus        11 ~diig~~~~~~~L~~~~~~~~-~~~~lll~Gp~G~GKTt~~~~la~   55 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPR-DLPHLLLYGPNGTGKKTRCMALLE   55 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT-CCCCEEEECSTTSSHHHHHHTHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCCeEEEECCCCCCHHHHHHHHHH
Confidence            469999888888877776543 233466999999999999999876

>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=97.73  E-value=1.8e-05  Score=77.13  Aligned_cols=123  Identities=12%  Similarity=0.086  Sum_probs=72.7

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc-ccce-eEEEEcCCCCCHHHHHHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH-YFDC-HAWVQEPYTCYADQILDIIIK  243 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~-~F~~-~~wv~~s~~~~~~~~~~~i~~  243 (821)
                      -.+++|.+..++++..++..+.  ..-+-++|.+|+||||+|+.+.+  ++.. .++. .+-+..+...+...+...+..
T Consensus        23 ~~diig~~~~~~~l~~~i~~~~--~~~lll~Gp~G~GKTtla~~iak--~l~~~~~~~~~~e~n~s~~~~~~~~~~~~~~   98 (231)
T d1iqpa2          23 LDDIVGQEHIVKRLKHYVKTGS--MPHLLFAGPPGVGKTTAALALAR--ELFGENWRHNFLELNASDERGINVIREKVKE   98 (231)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTC--CCEEEEESCTTSSHHHHHHHHHH--HHHGGGHHHHEEEEETTCHHHHHTTHHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCcHHHHHHHHHH--HHHhcccCCCeeEEecCcccchhHHHHHHHH
Confidence            4579999999999999998765  55678999999999999999987  3322 2221 222333332222111111111


Q ss_pred             HhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          244 FLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       244 ~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      ..       ........++.++++|++..  ...+..+...+........+|.||...
T Consensus        99 ~~-------~~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~  149 (231)
T d1iqpa2          99 FA-------RTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYS  149 (231)
T ss_dssp             HH-------HSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCG
T ss_pred             HH-------hhhhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCCh
Confidence            00       00011134778899999864  355666665555444445666665443

>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=97.72  E-value=1.3e-06  Score=80.35  Aligned_cols=45  Identities=29%  Similarity=0.206  Sum_probs=20.2

Q ss_pred             hhccCCceeEEEeCCCCCCcc---cccccCCCCceEEeecCCCCcccc
Q 045113          513 ICEMYKLLRVLDLGSLVLNQY---PSEIENLSLLRYLKLNIPSLKSLP  557 (821)
Q Consensus       513 ~~~~~~~Lr~L~L~~~~l~~l---p~~i~~l~~Lr~L~L~~~~i~~lp  557 (821)
                      ++..++.|++|+|++|.++.+   +..+..+++|++|+|++|.|..++
T Consensus        60 ~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~  107 (162)
T d1koha1          60 IEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSER  107 (162)
T ss_dssp             HHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGG
T ss_pred             HHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccch
Confidence            334455555555555554432   222334444444444444444443

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.70  E-value=1.2e-05  Score=78.13  Aligned_cols=124  Identities=15%  Similarity=0.119  Sum_probs=75.1

Q ss_pred             CCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccccc-c-eeEEEEcCCCCCHHHHHHHHHH
Q 045113          166 NRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF-D-CHAWVQEPYTCYADQILDIIIK  243 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F-~-~~~wv~~s~~~~~~~~~~~i~~  243 (821)
                      -.++||-++.++++..++..+.  ..-+-++|.+|+||||+|+.+.+  ++...+ . .++-+..+...+...+...+..
T Consensus        14 ~~d~ig~~~~~~~L~~~~~~~~--~~~~ll~Gp~G~GKTt~a~~la~--~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~   89 (224)
T d1sxjb2          14 LSDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAH--ELLGRSYADGVLELNASDDRGIDVVRNQIKH   89 (224)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHH--HHHGGGHHHHEEEECTTSCCSHHHHHTHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHcCC--CCeEEEECCCCCCchhhHHHHHH--HHhccccccccccccccccCCceehhhHHHH
Confidence            3568999999999999998765  44467899999999999999887  333222 1 2334455555555444333222


Q ss_pred             HhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecch
Q 045113          244 FLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKI  299 (821)
Q Consensus       244 ~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~  299 (821)
                      .....      ...-..+.-++|+|++...  .....+...+.......++++||.+.
T Consensus        90 ~~~~~------~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~  141 (224)
T d1sxjb2          90 FAQKK------LHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQS  141 (224)
T ss_dssp             HHHBC------CCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCG
T ss_pred             HHHhh------ccCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCch
Confidence            11100      0001245668899999643  34444444444445566766666554

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=97.68  E-value=3e-05  Score=77.92  Aligned_cols=105  Identities=17%  Similarity=0.162  Sum_probs=71.5

Q ss_pred             CCCCeeechhhHHHHHHHHhc----CC--CC-ceEEEEEcCCCChHHHHHHHHhcCccccc------ccceeEEEEcCCC
Q 045113          165 KNRDTVGLDDRMEELLDLLIE----GP--PQ-LSAVTILDSIGLDKTAFAAEAYSGNYVKH------YFDCHAWVQEPYT  231 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~----~~--~~-~~vi~i~G~gGiGKTtLa~~v~~~~~~~~------~F~~~~wv~~s~~  231 (821)
                      .+..++||+.++++|.+++..    +.  .. ..++.++|++|+||||+|+.+.+.  +..      .-....++.....
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~--l~~~~~~~~~~~~~~~~~~~~~   91 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKR--VSEAAAKEGLTVKQAYVNAFNA   91 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHH--HHHHHHHTTCCEEEEEEEGGGC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHH--HHhhcccccCCceeeeeccccc
Confidence            346789999999999887743    21  12 334566899999999999999983  321      1235667777777


Q ss_pred             CCHHHHHHHHHHHhCCchh---------HHHHHHHh--CCCcEEEEEecCC
Q 045113          232 CYADQILDIIIKFLMPSSR---------LIILHEYL--MTKRYLIVIDDVW  271 (821)
Q Consensus       232 ~~~~~~~~~i~~~l~~~~~---------~~~l~~~l--~~kr~LlVlDdv~  271 (821)
                      .........+...+.....         ...+.+..  .+...++++|.+.
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d  142 (287)
T d1w5sa2          92 PNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQ  142 (287)
T ss_dssp             CSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTH
T ss_pred             cchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEE
Confidence            7888888888777765421         33344333  3466778888774

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.68  E-value=0.00021  Score=70.06  Aligned_cols=123  Identities=16%  Similarity=0.182  Sum_probs=75.6

Q ss_pred             CeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC---ccc-ccccceeEEE-EcC----C---CCCHH
Q 045113          168 DTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG---NYV-KHYFDCHAWV-QEP----Y---TCYAD  235 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~---~~~-~~~F~~~~wv-~~s----~---~~~~~  235 (821)
                      .++|||+++++++..|....  -.-+.+||.+|+|||+++..+...   ..+ ....+..+|. +++    .   .-..+
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~--k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e   96 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFE   96 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHH
T ss_pred             cccChHHHHHHHHHHHhcCc--cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHH
Confidence            58999999999999998664  345569999999999988777652   111 1223445554 211    1   11233


Q ss_pred             HHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH----------HHHHHHHHhCCCCCCCcEEEEEecchhhhccc
Q 045113          236 QILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI----------EVWDIIREILPDNQNGSRVLITLAKIDTVTLF  305 (821)
Q Consensus       236 ~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~----------~~~~~l~~~l~~~~~gs~iiiTtr~~~v~~lf  305 (821)
                      +-++.|+..+.            +..+.++++|++-.-          .+...+..|.-..+ .-++|.||..+...+.|
T Consensus        97 ~r~~~i~~~~~------------~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg-~i~vIgatT~eey~~~~  163 (268)
T d1r6bx2          97 KRFKALLKQLE------------QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-KIRVIGSTTYQEFSNIF  163 (268)
T ss_dssp             HHHHHHHHHHS------------SSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC-CCEEEEEECHHHHHCCC
T ss_pred             HHHHHHHHHhh------------ccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCC-CCeEEEeCCHHHHHHHH
Confidence            33333333322            357899999997431          24455554443322 46888888887766333

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.61  E-value=0.00016  Score=66.87  Aligned_cols=121  Identities=12%  Similarity=0.116  Sum_probs=70.0

Q ss_pred             CeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC---ccc-ccccceeEEEE-----cCCCCCHHHHH
Q 045113          168 DTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG---NYV-KHYFDCHAWVQ-----EPYTCYADQIL  238 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~---~~~-~~~F~~~~wv~-----~s~~~~~~~~~  238 (821)
                      .++|||+++++++..|....  -.-+.++|.+|+|||+++..+...   .++ ...-+.++|.-     ++......+..
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~--k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~E  100 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFE  100 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHH
T ss_pred             CCcCcHHHHHHHHHHHhccC--CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHHH
Confidence            48899999999999998764  335679999999999987766651   112 22334556642     11111111111


Q ss_pred             HHHHHHhCCchhHHHHHHHh--CCCcEEEEEecCCCH---------HHH-HHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          239 DIIIKFLMPSSRLIILHEYL--MTKRYLIVIDDVWSI---------EVW-DIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       239 ~~i~~~l~~~~~~~~l~~~l--~~kr~LlVlDdv~~~---------~~~-~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      +.          ...+.+.+  ...+.+|++|++-.-         .+. +.+++.+..+  .-++|.||..+.-.
T Consensus       101 ~r----------l~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg--~l~~IgatT~eey~  164 (195)
T d1jbka_         101 ER----------LKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--ELHCVGATTLDEYR  164 (195)
T ss_dssp             HH----------HHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTT--SCCEEEEECHHHHH
T ss_pred             HH----------HHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCC--CceEEecCCHHHHH
Confidence            11          12222222  245899999998532         112 3344444322  35677777766555

>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=97.60  E-value=7.3e-06  Score=75.12  Aligned_cols=87  Identities=18%  Similarity=0.060  Sum_probs=67.1

Q ss_pred             ccccccCCCCceEEeecCCCCcccc---HHHHhccccceEEecCCcccccchh-hhccCccCceeecCCcccCCCCCC--
Q 045113          533 YPSEIENLSLLRYLKLNIPSLKSLP---LSFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRHLNFGSITLPAHPGN--  606 (821)
Q Consensus       533 lp~~i~~l~~Lr~L~L~~~~i~~lp---~~i~~~L~~L~~L~L~~~~l~~lp~-~i~~l~~L~~L~L~~~~~~~~~p~--  606 (821)
                      ++....++++|++|+|++|.|+.++   ..+. .+++|++|++++|.+..+++ ......+|+.|++++|.+......  
T Consensus        57 l~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~-~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~  135 (162)
T d1koha1          57 LRIIEENIPELLSLNLSNNRLYRLDDMSSIVQ-KAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQS  135 (162)
T ss_dssp             HHHHHHHCTTCCCCCCCSSCCCCCSGGGTHHH-HSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHH
T ss_pred             hHHHHHhCCCCCEeeCCCccccCCchhHHHHh-hCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccch
Confidence            3333457899999999999998654   4466 89999999999999998865 334556799999999998654432  


Q ss_pred             -----CcCCCCCcceeccc
Q 045113          607 -----YCGSLENLNFISAL  620 (821)
Q Consensus       607 -----~i~~l~~L~~L~~~  620 (821)
                           .+..+++|+.|+..
T Consensus       136 ~y~~~i~~~~P~L~~LDg~  154 (162)
T d1koha1         136 TYISAIRERFPKLLRLDGH  154 (162)
T ss_dssp             HHHHHHHTTSTTCCEETTE
T ss_pred             hHHHHHHHHCCCCCEECcC
Confidence                 25678899998753

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.58  E-value=6e-05  Score=72.02  Aligned_cols=123  Identities=18%  Similarity=0.158  Sum_probs=71.3

Q ss_pred             CCeeechhh--HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHH
Q 045113          167 RDTVGLDDR--MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       167 ~~~vGr~~~--~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      .-++|-...  ...+..+..........+-|+|.+|+|||.|++++++  +.......+++++      ..++...+...
T Consensus        11 nF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~--~~~~~~~~~~~~~------~~~~~~~~~~~   82 (213)
T d1l8qa2          11 NFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGN--EAKKRGYRVIYSS------ADDFAQAMVEH   82 (213)
T ss_dssp             SCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHH--HHHHTTCCEEEEE------HHHHHHHHHHH
T ss_pred             hccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHH--HhccCccceEEec------hHHHHHHHHHH
Confidence            335675333  2333444444444455688999999999999999999  4554455566664      33444444444


Q ss_pred             hCCchhHHHHHHHhCCCcEEEEEecCCCH---HHHHH-HHHhCC-CCCCCcEEEEEecch
Q 045113          245 LMPSSRLIILHEYLMTKRYLIVIDDVWSI---EVWDI-IREILP-DNQNGSRVLITLAKI  299 (821)
Q Consensus       245 l~~~~~~~~l~~~l~~kr~LlVlDdv~~~---~~~~~-l~~~l~-~~~~gs~iiiTtr~~  299 (821)
                      +.... ...+.+.+. .--+|++||+...   ..|+. +...+. ....|.+||+||+..
T Consensus        83 ~~~~~-~~~~~~~~~-~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~  140 (213)
T d1l8qa2          83 LKKGT-INEFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRH  140 (213)
T ss_dssp             HHHTC-HHHHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSC
T ss_pred             HHccc-hhhHHHHHh-hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCc
Confidence            32221 223333333 3458999999642   45543 223222 134578899999854

>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=97.58  E-value=0.0002  Score=69.76  Aligned_cols=124  Identities=14%  Similarity=0.142  Sum_probs=76.7

Q ss_pred             CCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCc----cc----------------ccccceeEEE
Q 045113          167 RDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGN----YV----------------KHYFDCHAWV  226 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~----~~----------------~~~F~~~~wv  226 (821)
                      .+++|.++.++.+..++..+. -...+-++|.+|+||||+|+.+.+.-    ..                ..+| .++.+
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~-~~~~~   89 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFV-DLIEI   89 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCT-TEEEE
T ss_pred             HHccChHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCC-eEEEe
Confidence            478999999999999997754 23467799999999999999876521    00                0111 13344


Q ss_pred             EcCCCCCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCCH--HHHHHHHHhCCCCCCCcEEEEEecchhh
Q 045113          227 QEPYTCYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWSI--EVWDIIREILPDNQNGSRVLITLAKIDT  301 (821)
Q Consensus       227 ~~s~~~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiiTtr~~~v  301 (821)
                      ..+....+..+ +++.+.+...        ...+++-++|+|+++..  ...+.+...+......+++|+||.+..-
T Consensus        90 ~~~~~~~i~~i-r~~~~~~~~~--------~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~  157 (239)
T d1njfa_          90 DAASRTKVEDT-RDLLDNVQYA--------PARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  157 (239)
T ss_dssp             ETTCSSSHHHH-HHHHHSCCCS--------CSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGG
T ss_pred             cchhcCCHHHH-HHHHHHHHhc--------cccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccc
Confidence            44444343332 2233332211        01245669999999753  4455666666655667788888766543

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.51  E-value=5.4e-05  Score=74.70  Aligned_cols=100  Identities=15%  Similarity=0.068  Sum_probs=63.0

Q ss_pred             CCCeeechhhHHHHHHHHhc---------------CCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC
Q 045113          166 NRDTVGLDDRMEELLDLLIE---------------GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY  230 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~---------------~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~  230 (821)
                      -.+++|.+..+++|.++|..               +....+.+-++|.+|+||||+|+++++  +..   -..+++..+.
T Consensus        13 ~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~--~~~---~~~~~~~~~~   87 (253)
T d1sxja2          13 LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQ--ELG---YDILEQNASD   87 (253)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHH--HTT---CEEEEECTTS
T ss_pred             HHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHH--HHH---hhhhcccccc
Confidence            35799999999999999864               123457899999999999999999998  322   1245666665


Q ss_pred             CCCHHHHHHHHHHHhCCchh------HHHHHHHhCCCcEEEEEecCC
Q 045113          231 TCYADQILDIIIKFLMPSSR------LIILHEYLMTKRYLIVIDDVW  271 (821)
Q Consensus       231 ~~~~~~~~~~i~~~l~~~~~------~~~l~~~l~~kr~LlVlDdv~  271 (821)
                      ..+...+-.. .........      ..........+..++++|++.
T Consensus        88 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~  133 (253)
T d1sxja2          88 VRSKTLLNAG-VKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVD  133 (253)
T ss_dssp             CCCHHHHHHT-GGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGG
T ss_pred             chhhHHHHHH-HHHHhhcchhhhhhhhhhhcccccccceEEEeeecc
Confidence            5554443322 222211110      111222234578899999985

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.31  E-value=0.00057  Score=67.20  Aligned_cols=46  Identities=15%  Similarity=0.249  Sum_probs=36.9

Q ss_pred             CCeeechhhHHHHHHHHh----c-------CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLI----E-------GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~----~-------~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+++|.|..+++|.+.+.    .       +-...+-|-++|.+|+|||++|+++.+
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHH
Confidence            458999999999888743    2       222356788999999999999999998

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.27  E-value=0.00013  Score=66.75  Aligned_cols=87  Identities=8%  Similarity=0.053  Sum_probs=42.5

Q ss_pred             HhhccCCceeEEEeCCC-CCC-----cccccccCCCCceEEeecCCCCc-----cccHHHHhccccceEEecCCccccc-
Q 045113          512 KICEMYKLLRVLDLGSL-VLN-----QYPSEIENLSLLRYLKLNIPSLK-----SLPLSFFNYLLNLYTLDMPFSYIDH-  579 (821)
Q Consensus       512 ~~~~~~~~Lr~L~L~~~-~l~-----~lp~~i~~l~~Lr~L~L~~~~i~-----~lp~~i~~~L~~L~~L~L~~~~l~~-  579 (821)
                      .+..+.+.|+.|+|+++ .++     .+-..+...++|++|+|++|.+.     .+...+. ..+.|+.|+|++|.+.. 
T Consensus         9 ~l~~n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~-~n~~L~~L~L~~n~i~~~   87 (167)
T d1pgva_           9 RLREDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIE-TSPSLRVLNVESNFLTPE   87 (167)
T ss_dssp             HHHTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHH-HCSSCCEEECCSSBCCHH
T ss_pred             HHHhCCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhh-hcccccceeeehhhcchH
Confidence            33444455555555543 233     12334445555666666655544     2223333 44556666666654332 


Q ss_pred             ----chhhhccCccCceeecCCcc
Q 045113          580 ----TADEFWKMKKLRHLNFGSIT  599 (821)
Q Consensus       580 ----lp~~i~~l~~L~~L~L~~~~  599 (821)
                          +-..+...+.|++|++++|.
T Consensus        88 g~~~l~~aL~~n~sL~~L~l~~n~  111 (167)
T d1pgva_          88 LLARLLRSTLVTQSIVEFKADNQR  111 (167)
T ss_dssp             HHHHHHHHTTTTCCCSEEECCCCS
T ss_pred             HHHHHHHHHHhCCcCCEEECCCCc
Confidence                22334445556666665553

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.21  E-value=0.00066  Score=66.09  Aligned_cols=119  Identities=18%  Similarity=0.185  Sum_probs=67.3

Q ss_pred             CCeeechhhHHHHHHHHh-------cC-CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC---CCHH
Q 045113          167 RDTVGLDDRMEELLDLLI-------EG-PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT---CYAD  235 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~-------~~-~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~---~~~~  235 (821)
                      ..+||..++++.+++.+.       .+ ....+-|-++|.+|+|||++|+++++  +...+|   +.+..+..   +...
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~--~~~~~~---~~i~~~~~~~g~~~~   83 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAE--ESNFPF---IKICSPDKMIGFSET   83 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHH--HHTCSE---EEEECGGGCTTCCHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhh--cccccc---ccccccccccccccc
Confidence            348888887777666554       12 22356688999999999999999998  444333   22332221   1111


Q ss_pred             ---HHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC------------HHHHHHHHHhCCCC-CCCcEE--EEEec
Q 045113          236 ---QILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS------------IEVWDIIREILPDN-QNGSRV--LITLA  297 (821)
Q Consensus       236 ---~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~------------~~~~~~l~~~l~~~-~~gs~i--iiTtr  297 (821)
                         +..+++            +....+..+.+|++|+++.            ......+...+... ..+.+|  |.||.
T Consensus        84 ~~~~~i~~i------------f~~A~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn  151 (246)
T d1d2na_          84 AKCQAMKKI------------FDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTS  151 (246)
T ss_dssp             HHHHHHHHH------------HHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEES
T ss_pred             chhhhhhhh------------hhhhhhcccceeehhhhhhHhhhcccccchhHHHHHHHHHHhcCCCccccceeeeeccC
Confidence               111111            2233356789999999842            12234455444432 234454  44777


Q ss_pred             chhhh
Q 045113          298 KIDTV  302 (821)
Q Consensus       298 ~~~v~  302 (821)
                      ..+..
T Consensus       152 ~~~~l  156 (246)
T d1d2na_         152 RKDVL  156 (246)
T ss_dssp             CHHHH
T ss_pred             Chhhc
Confidence            65544

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.14  E-value=0.00014  Score=66.53  Aligned_cols=110  Identities=11%  Similarity=-0.020  Sum_probs=66.1

Q ss_pred             CCCCceEEEeecCC-CCccchhhhHHhhccCCceeEEEeCCCCCC-----cccccccCCCCceEEeecCCCCcc-----c
Q 045113          488 YYPHLHSLLYFTSE-SDHLDHIDWQKICEMYKLLRVLDLGSLVLN-----QYPSEIENLSLLRYLKLNIPSLKS-----L  556 (821)
Q Consensus       488 ~~~~LrsL~l~~~~-~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~-----~lp~~i~~l~~Lr~L~L~~~~i~~-----l  556 (821)
                      +.+.|++|.+.+.. ........+...+...+.|+.|+|++|.+.     .+...+...+.|++|+|++|.+..     +
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l   92 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL   92 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHH
Confidence            46778888887543 321111123345666777888888888765     233445566778888888887762     2


Q ss_pred             cHHHHhccccceEEecCCccccc--------chhhhccCccCceeecCCc
Q 045113          557 PLSFFNYLLNLYTLDMPFSYIDH--------TADEFWKMKKLRHLNFGSI  598 (821)
Q Consensus       557 p~~i~~~L~~L~~L~L~~~~l~~--------lp~~i~~l~~L~~L~L~~~  598 (821)
                      -..+. ..+.|+.|+++++.+..        +...+...+.|+.|+++.+
T Consensus        93 ~~aL~-~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_          93 LRSTL-VTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             HHHTT-TTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHH-hCCcCCEEECCCCcCCCccHHHHHHHHHHHHhCCCccEeeCcCC
Confidence            23344 55668888887764332        2334455666777766554

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.14  E-value=0.00044  Score=71.75  Aligned_cols=57  Identities=14%  Similarity=0.256  Sum_probs=39.7

Q ss_pred             CeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHH----HhcCcccccccceeEEE
Q 045113          168 DTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAE----AYSGNYVKHYFDCHAWV  226 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~----v~~~~~~~~~F~~~~wv  226 (821)
                      .+||||.+++++++.|....  -.-+.+||.+|||||+++..    +.+..--....+.++|.
T Consensus        23 ~~~gr~~ei~~~~~~L~r~~--k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~   83 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRRT--KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVS   83 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCSS--CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEE
T ss_pred             CCcCcHHHHHHHHHHHhcCC--CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEE
Confidence            48899999999999998654  22346789999999997654    44432223344566664

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=97.02  E-value=0.0025  Score=60.11  Aligned_cols=119  Identities=10%  Similarity=0.002  Sum_probs=69.9

Q ss_pred             chhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCc---c---------------cc-cccceeEEEEcCCC-
Q 045113          172 LDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGN---Y---------------VK-HYFDCHAWVQEPYT-  231 (821)
Q Consensus       172 r~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~---~---------------~~-~~F~~~~wv~~s~~-  231 (821)
                      -+...+++...+..+. -...+-++|.+|+||||+|+.+.+.-   .               +. .......++..+.. 
T Consensus         7 ~~~~~~~l~~~~~~~~-l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~   85 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGK   85 (207)
T ss_dssp             GHHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTC
T ss_pred             cHHHHHHHHHHHHcCC-cCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcc
Confidence            3455677777776553 24568899999999999999776510   0               00 01112222222211 


Q ss_pred             --CCHHHHHHHHHHHhCCchhHHHHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          232 --CYADQILDIIIKFLMPSSRLIILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       232 --~~~~~~~~~i~~~l~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                        ..+.+ .+++.+.+...        ...+++-++|+||+..  .+..+.+...+......+++|.||++.+
T Consensus        86 ~~i~~~~-ir~l~~~~~~~--------~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~  149 (207)
T d1a5ta2          86 NTLGVDA-VREVTEKLNEH--------ARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPE  149 (207)
T ss_dssp             SSBCHHH-HHHHHHHTTSC--------CTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGG
T ss_pred             cccccch-hhHHhhhhhhc--------cccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChh
Confidence              12222 22222222211        1234677999999975  4678888888887777889888887754

>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=96.94  E-value=0.00099  Score=65.10  Aligned_cols=46  Identities=26%  Similarity=0.294  Sum_probs=35.6

Q ss_pred             CCeeechhhHHHHHHHH---hcC-------CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLL---IEG-------PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L---~~~-------~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+++|.|+.+++|.+.+   ...       ....+-+-++|.+|+|||++|+.+.+
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHH
Confidence            57999999988886543   321       12356788999999999999999997

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.93  E-value=0.00077  Score=65.41  Aligned_cols=46  Identities=20%  Similarity=0.232  Sum_probs=37.7

Q ss_pred             CCeeechhhHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIEG---PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~---~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .++||-+..++++..++...   .....-+-++|++|+||||+|+.+++
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHH
Confidence            46899999999988887642   23456677999999999999999997

>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=96.86  E-value=0.00054  Score=62.41  Aligned_cols=83  Identities=11%  Similarity=0.101  Sum_probs=37.8

Q ss_pred             HhhccCCceeEEEeCCC-CCC-----cccccccCCCCceEEeecCCCCc-----cccHHHHhccccceEEecCCccc---
Q 045113          512 KICEMYKLLRVLDLGSL-VLN-----QYPSEIENLSLLRYLKLNIPSLK-----SLPLSFFNYLLNLYTLDMPFSYI---  577 (821)
Q Consensus       512 ~~~~~~~~Lr~L~L~~~-~l~-----~lp~~i~~l~~Lr~L~L~~~~i~-----~lp~~i~~~L~~L~~L~L~~~~l---  577 (821)
                      .+....+.|+.|+|+++ .++     .+-..+...++|+.|++++|.+.     .+-..+. ..++|+.+++++|.+   
T Consensus        11 ~~~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~-~~~~l~~l~l~~~~~~~~   89 (166)
T d1io0a_          11 RIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLK-VNNTLKSLNVESNFISGS   89 (166)
T ss_dssp             HHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHH-HCSSCCEEECCSSCCCHH
T ss_pred             HHHhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHh-hcccchhhhhccccccch
Confidence            33444455555555542 233     22333444555555555555543     2223333 445555555555532   


Q ss_pred             --ccchhhhccCccCceeec
Q 045113          578 --DHTADEFWKMKKLRHLNF  595 (821)
Q Consensus       578 --~~lp~~i~~l~~L~~L~L  595 (821)
                        ..+...+...++|+.++|
T Consensus        90 g~~~l~~~l~~~~~L~~l~L  109 (166)
T d1io0a_          90 GILALVEALQSNTSLIELRI  109 (166)
T ss_dssp             HHHHHHHGGGGCSSCCEEEC
T ss_pred             hHHHHHHHHHhCccccEEee
Confidence              122334444555554433

>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=96.83  E-value=0.00094  Score=64.70  Aligned_cols=86  Identities=17%  Similarity=0.202  Sum_probs=55.8

Q ss_pred             CCeeechhhHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIEG---PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIK  243 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~~---~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  243 (821)
                      .++||.+..++++..++...   .....-+-++|++|+||||+|+.+.+  +....   .+.++.+......++.. ++.
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~--~~~~~---~~~~~~~~~~~~~~~~~-~~~   82 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIAS--ELQTN---IHVTSGPVLVKQGDMAA-ILT   82 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHH--HHTCC---EEEEETTTCCSHHHHHH-HHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHh--ccCCC---cccccCcccccHHHHHH-HHH
Confidence            56999999999999888642   22345577999999999999999998  43332   23344444444433222 111


Q ss_pred             HhCCchhHHHHHHHhCCCcEEEEEecCCC
Q 045113          244 FLMPSSRLIILHEYLMTKRYLIVIDDVWS  272 (821)
Q Consensus       244 ~l~~~~~~~~l~~~l~~kr~LlVlDdv~~  272 (821)
                                    ...++..+++|.+..
T Consensus        83 --------------~~~~~~~~~ide~~~   97 (238)
T d1in4a2          83 --------------SLERGDVLFIDEIHR   97 (238)
T ss_dssp             --------------HCCTTCEEEEETGGG
T ss_pred             --------------hhccCCchHHHHHHH
Confidence                          124566777887753

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=96.74  E-value=0.0044  Score=57.72  Aligned_cols=113  Identities=12%  Similarity=0.009  Sum_probs=70.0

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcc--cccccceeEEEEcC-CCCCHHHHHHHHHHHhCCchhHH
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNY--VKHYFDCHAWVQEP-YTCYADQILDIIIKFLMPSSRLI  252 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~--~~~~F~~~~wv~~s-~~~~~~~~~~~i~~~l~~~~~~~  252 (821)
                      ++-+..++..+.  ...+-++|.+|+||||+|..+.+.-.  ...|-| .+++... ...+++++. ++.+.+...    
T Consensus         3 ~~~l~~~i~~~~--~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~IR-~i~~~~~~~----   74 (198)
T d2gnoa2           3 LETLKRIIEKSE--GISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDIR-TIKDFLNYS----   74 (198)
T ss_dssp             HHHHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHHH-HHHHHHTSC----
T ss_pred             HHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHHH-HHHHHHhhC----
Confidence            344555555544  88999999999999999998876211  122333 3444322 233455443 233332221    


Q ss_pred             HHHHHhCCCcEEEEEecCCC--HHHHHHHHHhCCCCCCCcEEEEEecchh
Q 045113          253 ILHEYLMTKRYLIVIDDVWS--IEVWDIIREILPDNQNGSRVLITLAKID  300 (821)
Q Consensus       253 ~l~~~l~~kr~LlVlDdv~~--~~~~~~l~~~l~~~~~gs~iiiTtr~~~  300 (821)
                          -..+++=++|+|++..  .+.++.+...+....+++.+|++|.+..
T Consensus        75 ----~~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~  120 (198)
T d2gnoa2          75 ----PELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWH  120 (198)
T ss_dssp             ----CSSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGG
T ss_pred             ----cccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChh
Confidence                0124556999999974  4778888888877667788777776654

>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=96.55  E-value=0.00049  Score=62.67  Aligned_cols=111  Identities=10%  Similarity=0.016  Sum_probs=62.7

Q ss_pred             CCCCceEEEeecCC-CCccchhhhHHhhccCCceeEEEeCCCCCC-----cccccccCCCCceEEeecCCCCc-----cc
Q 045113          488 YYPHLHSLLYFTSE-SDHLDHIDWQKICEMYKLLRVLDLGSLVLN-----QYPSEIENLSLLRYLKLNIPSLK-----SL  556 (821)
Q Consensus       488 ~~~~LrsL~l~~~~-~~~~~~~~~~~~~~~~~~Lr~L~L~~~~l~-----~lp~~i~~l~~Lr~L~L~~~~i~-----~l  556 (821)
                      +.+.|+.|.+.+.. ........+...+...++|+.|+|++|.++     .+-..+...+.|++|+++++.+.     .+
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l   94 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILAL   94 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHH
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHH
Confidence            45677777776532 221111123444556777777777777765     23344555667777777777654     23


Q ss_pred             cHHHHhccccceEEecCC--cccc-----cchhhhccCccCceeecCCcc
Q 045113          557 PLSFFNYLLNLYTLDMPF--SYID-----HTADEFWKMKKLRHLNFGSIT  599 (821)
Q Consensus       557 p~~i~~~L~~L~~L~L~~--~~l~-----~lp~~i~~l~~L~~L~L~~~~  599 (821)
                      -..+. ..++|+.++|+.  +.+.     .+...+...++|++|+++.+.
T Consensus        95 ~~~l~-~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_          95 VEALQ-SNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             HHGGG-GCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             HHHHH-hCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCCC
Confidence            34444 556676655543  3332     244455566777777665443

>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=96.55  E-value=0.0034  Score=60.78  Aligned_cols=47  Identities=23%  Similarity=0.362  Sum_probs=35.5

Q ss_pred             CCCeeechhhHHHHHHHH---hc-------CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLL---IE-------GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L---~~-------~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|.++.+++|.+.+   ..       +....+-|-++|.+|+|||+||+++.+
T Consensus         8 ~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_           8 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHH
Confidence            347999998887765533   22       122356688999999999999999998

>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=96.28  E-value=0.0018  Score=63.66  Aligned_cols=47  Identities=28%  Similarity=0.269  Sum_probs=36.6

Q ss_pred             CCCeeechhhHHHHHHHHhc-----------CCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          166 NRDTVGLDDRMEELLDLLIE-----------GPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       166 ~~~~vGr~~~~~~i~~~L~~-----------~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|.++.+++|.+.+..           +-...+-|-++|.+|.|||+||+++++
T Consensus         6 f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~   63 (265)
T d1r7ra3           6 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN   63 (265)
T ss_dssp             CSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHH
Confidence            35688998888887776531           223456788999999999999999998

>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=96.18  E-value=0.001  Score=61.31  Aligned_cols=23  Identities=17%  Similarity=0.193  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++.|.|.|++|+||||||+.+.+
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            68899999999999999999987

>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=96.08  E-value=0.0012  Score=60.44  Aligned_cols=49  Identities=24%  Similarity=0.356  Sum_probs=30.4

Q ss_pred             HHHHHHhCCCcEEEEEecCCC-----HHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          252 IILHEYLMTKRYLIVIDDVWS-----IEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       252 ~~l~~~l~~kr~LlVlDdv~~-----~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      ..+...+..+.-++++|.+..     ...++.+...+..  .+..||+|+....+.
T Consensus        90 ~~l~~~~~~~~~vlllDE~~~~~~~~~~~~~~l~~~l~~--~~~~il~~~h~~~~~  143 (178)
T d1ye8a1          90 RAYREAKKDRRKVIIIDEIGKMELFSKKFRDLVRQIMHD--PNVNVVATIPIRDVH  143 (178)
T ss_dssp             HHHHHHHHCTTCEEEECCCSTTGGGCHHHHHHHHHHHTC--TTSEEEEECCSSCCS
T ss_pred             HHHHHHHhcCCCceeecCCCccchhhHHHHHHHHHHhcc--CCCEEEEEEccHHHH
Confidence            334445567888999999842     2345556655543  345688887765544

>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=96.02  E-value=0.001  Score=59.87  Aligned_cols=22  Identities=9%  Similarity=0.277  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +.|.++|++|+||||+|+.+.+
T Consensus         3 k~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4688889999999999999998

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=95.94  E-value=0.0018  Score=57.58  Aligned_cols=22  Identities=18%  Similarity=0.273  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++|.|+|++|+||||+|+.+..
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999998865

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=95.90  E-value=0.0016  Score=58.96  Aligned_cols=23  Identities=13%  Similarity=0.156  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +.||+|+|..|+|||||++++.+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999999987

>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=95.90  E-value=0.00066  Score=68.78  Aligned_cols=108  Identities=10%  Similarity=0.120  Sum_probs=62.1

Q ss_pred             CCeeechhhHHHHHHHHhc-------CCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHH
Q 045113          167 RDTVGLDDRMEELLDLLIE-------GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILD  239 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~-------~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~  239 (821)
                      ..++|-+..++.+...+..       ++....++..+|..|+|||.||+.+..  .+   +...+-++.+.-.+...   
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~--~l---~~~~i~~d~s~~~~~~~---   93 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSK--AL---GIELLRFDMSEYMERHT---   93 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHH--HH---TCEEEEEEGGGCSSSSC---
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHh--hc---cCCeeEeccccccchhh---
Confidence            3589999999998877741       123466889999999999999999987  22   22233333322100000   


Q ss_pred             HHHHHhCCchh------HHHHHHHh-CCCcEEEEEecCCC--HHHHHHHHHhC
Q 045113          240 IIIKFLMPSSR------LIILHEYL-MTKRYLIVIDDVWS--IEVWDIIREIL  283 (821)
Q Consensus       240 ~i~~~l~~~~~------~~~l~~~l-~~kr~LlVlDdv~~--~~~~~~l~~~l  283 (821)
                       +.+-++....      ...+...+ +.....++||++..  .+.|+.+...+
T Consensus        94 -~~~l~g~~~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa~~~V~~~lLqil  145 (315)
T d1r6bx3          94 -VSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVM  145 (315)
T ss_dssp             -CSSSCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHH
T ss_pred             -hhhhcccCCCccccccCChhhHHHHhCccchhhhcccccccchHhhhhHHhh
Confidence             0000111100      11122222 35677999999975  35677666655

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.82  E-value=0.0045  Score=57.42  Aligned_cols=49  Identities=10%  Similarity=-0.037  Sum_probs=32.1

Q ss_pred             HHHHHHHHhc-CCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEE
Q 045113          176 MEELLDLLIE-GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWV  226 (821)
Q Consensus       176 ~~~i~~~L~~-~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  226 (821)
                      ++.|.+.... ...+.-+|||.|..|+||||||+.+..  ...........+
T Consensus         7 ~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~~--~l~~~~~~~~~~   56 (198)
T d1rz3a_           7 IDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQ--TLREQGISVCVF   56 (198)
T ss_dssp             HHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHH--HHHHTTCCEEEE
T ss_pred             HHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHHH--Hhccccccceec
Confidence            3444444433 234577999999999999999999987  444333333333

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=95.78  E-value=0.0021  Score=58.37  Aligned_cols=22  Identities=14%  Similarity=0.144  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++|.|.|++|+||||+|+.+..
T Consensus         3 klI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999986

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=95.76  E-value=0.0032  Score=63.37  Aligned_cols=114  Identities=15%  Similarity=0.168  Sum_probs=59.9

Q ss_pred             CeeechhhHHHHHHHHhc-------CCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC---HHHH
Q 045113          168 DTVGLDDRMEELLDLLIE-------GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY---ADQI  237 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~-------~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~---~~~~  237 (821)
                      .++|.+..++.|...+..       +.....++..+|..|+|||.+|+.+.+  .+-..-...+-+..+.-.+   ...+
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~--~l~~~~~~~~~~~~~~~~~~~~~~~L  101 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAA--TLFDTEEAMIRIDMTEYMEKHAVSRL  101 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHH--HHHSSGGGEEEECTTTCCSSGGGGGC
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHH--HhcCCCcceEEEeccccccchhhhhh
Confidence            378888888888776642       122355888999999999999998886  2211111222222222211   1111


Q ss_pred             HHHHHHHhCCchhHHHHHHHhC-CCcEEEEEecCCC--HHHHHHHHHhCC
Q 045113          238 LDIIIKFLMPSSRLIILHEYLM-TKRYLIVIDDVWS--IEVWDIIREILP  284 (821)
Q Consensus       238 ~~~i~~~l~~~~~~~~l~~~l~-~kr~LlVlDdv~~--~~~~~~l~~~l~  284 (821)
                      ...=..-.+. .....+.+.++ ....+++||++..  .+.++.+...+.
T Consensus       102 ~g~~~gyvG~-~~~~~l~~~~~~~p~~Vvl~DEieK~~~~v~~~ll~~l~  150 (315)
T d1qvra3         102 IGAPPGYVGY-EEGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILD  150 (315)
T ss_dssp             ---------------CHHHHHHHCSSEEEEESSGGGSCHHHHHHHHHHHT
T ss_pred             cCCCCCCcCc-ccCChHHHHHHhCCCcEEEEehHhhcCHHHHHHHHHHhc
Confidence            1100000010 00122333332 4578999999984  456666666554

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.72  E-value=0.0021  Score=58.74  Aligned_cols=35  Identities=9%  Similarity=-0.073  Sum_probs=26.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccccc-ccceeEEE
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKH-YFDCHAWV  226 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~-~F~~~~wv  226 (821)
                      -.+|.++|++|+||||+|+++..  +... +++...++
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~--~L~~~~~~~~~~~   41 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQV--TLNQQGGRSVSLL   41 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH--HHHHHCSSCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH--HHhhcCCCchhhh
Confidence            56889999999999999999997  5543 34445444

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=95.53  E-value=0.0026  Score=57.69  Aligned_cols=22  Identities=23%  Similarity=0.330  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..|.|.|++|+||||+|+.+.+
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3577999999999999999987

>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=95.51  E-value=0.031  Score=52.72  Aligned_cols=51  Identities=12%  Similarity=0.304  Sum_probs=34.3

Q ss_pred             HHHHHHHhCCCcEEEEEecCCCH-------HHHHHHHHhCCCCCCCcEEEEEecchhhhc
Q 045113          251 LIILHEYLMTKRYLIVIDDVWSI-------EVWDIIREILPDNQNGSRVLITLAKIDTVT  303 (821)
Q Consensus       251 ~~~l~~~l~~kr~LlVlDdv~~~-------~~~~~l~~~l~~~~~gs~iiiTtr~~~v~~  303 (821)
                      .-.|.+.|..++-+|++|..-..       +-|+.+....  ...|.-||++|.+.++++
T Consensus       153 RvaIAraL~~~P~lLllDEPTs~LD~~~~~~i~~~l~~l~--~~~g~tii~vTHd~~~a~  210 (230)
T d1l2ta_         153 RVAIARALANNPPIILADQPTGALDSKTGEKIMQLLKKLN--EEDGKTVVVVTHDINVAR  210 (230)
T ss_dssp             HHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHH--HTTCCEEEEECSCHHHHT
T ss_pred             HHHHHhhhhcCCCEEEecCCccccCHHHHHHHHHHHHHHH--HhhCCEEEEECCCHHHHH
Confidence            45666778888899999998542       2234333321  234778999999888874

>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=95.50  E-value=0.0052  Score=60.34  Aligned_cols=46  Identities=20%  Similarity=0.307  Sum_probs=32.4

Q ss_pred             hhhHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHHhcCccccccc
Q 045113          173 DDRMEELLDLLIEG---PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF  220 (821)
Q Consensus       173 ~~~~~~i~~~L~~~---~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F  220 (821)
                      ++.+.+.++.+..+   ....+.|-++|++|+||||||+.+++  +....|
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~--~~~~~~   60 (273)
T d1gvnb_          12 ENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFE--ETQGNV   60 (273)
T ss_dssp             HHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHH--HTTTCC
T ss_pred             HHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHH--Hhhcce
Confidence            44455555556543   23467788999999999999999998  444333

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=95.47  E-value=0.026  Score=52.45  Aligned_cols=56  Identities=20%  Similarity=-0.003  Sum_probs=31.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC--HHHHHHHHHHHhCC
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY--ADQILDIIIKFLMP  247 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~--~~~~~~~i~~~l~~  247 (821)
                      +.+||.++|..|+||||.+..+..  +.+..-..+..+++ ..+.  ..+-++..++.++.
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~--~~~~~g~kV~lit~-Dt~R~gA~eQL~~~a~~l~v   66 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLAL--YYKGKGRRPLLVAA-DTQRPAAREQLRLLGEKVGV   66 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHH--HHHHTTCCEEEEEC-CSSCHHHHHHHHHHHHHHTC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH--HHHHCCCcEEEEec-ccccchHHHHHHHHHHhcCC
Confidence            368999999999999986555544  22222233444443 3332  23334444444443

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.45  E-value=0.01  Score=53.79  Aligned_cols=24  Identities=21%  Similarity=0.230  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|-++|++|+||||+|+.+..
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999876

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.45  E-value=0.0026  Score=59.11  Aligned_cols=35  Identities=14%  Similarity=-0.096  Sum_probs=26.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEE
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWV  226 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  226 (821)
                      -.+|-++|++|+||||+|+.+..  +....+....++
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~--~l~~~~~~~~~~   53 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEE--YLVCHGIPCYTL   53 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHH--HHHHTTCCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH--HHHhcCCCccch
Confidence            46788999999999999999987  454444444444

>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=95.44  E-value=0.0027  Score=57.39  Aligned_cols=25  Identities=8%  Similarity=0.009  Sum_probs=19.9

Q ss_pred             EEEEcCCCChHHHHHHHHhcCcccccc
Q 045113          193 VTILDSIGLDKTAFAAEAYSGNYVKHY  219 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~~~~~~~  219 (821)
                      |.++||+|+||||+|+.+.+  +..-.
T Consensus         4 IvliG~~G~GKSTig~~La~--~l~~~   28 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAK--ALGVG   28 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHH--HHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHH--HhCCC
Confidence            44669999999999999997  44433

>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=95.43  E-value=0.0032  Score=56.88  Aligned_cols=23  Identities=9%  Similarity=0.060  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+||+|+|..|+|||||+.++..
T Consensus         1 Mkii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           1 MNVWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHH
Confidence            47999999999999999999887

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.40  E-value=0.0032  Score=57.72  Aligned_cols=22  Identities=23%  Similarity=0.255  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +.|.|+|.+|+|||||++.+..
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHH
Confidence            4689999999999999999986

>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=95.24  E-value=0.0032  Score=56.68  Aligned_cols=20  Identities=15%  Similarity=0.287  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045113          193 VTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~  212 (821)
                      |.++||+|+||||+|+.+..
T Consensus         3 I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67889999999999999998

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.21  E-value=0.0051  Score=57.24  Aligned_cols=25  Identities=20%  Similarity=0.230  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +..+||.|.|++|+||||+|+.+.+
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999999987

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.20  E-value=0.0039  Score=57.20  Aligned_cols=22  Identities=18%  Similarity=0.178  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++|.|.|++|+||||+++.+.+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999976

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=95.15  E-value=0.0049  Score=57.25  Aligned_cols=24  Identities=21%  Similarity=0.180  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...+|.|+|++|+||||+|+.+.+
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999999987

>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=95.13  E-value=0.039  Score=52.29  Aligned_cols=110  Identities=9%  Similarity=-0.011  Sum_probs=65.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccc------------c---cccceeEEEEcCCCC---------------------C
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYV------------K---HYFDCHAWVQEPYTC---------------------Y  233 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~------------~---~~F~~~~wv~~s~~~---------------------~  233 (821)
                      -.+++|+|..|.|||||.+.+.--.+.            .   ..=..+-+|.  |.+                     +
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~Gl~~p~sG~I~i~g~~i~~~~~~~r~ig~v~--Q~~~l~~~ltv~enl~~~~~~~~~~  109 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAGLEEPTEGRIYFGDRDVTYLPPKDRNISMVF--QSYAVWPHMTVYENIAFPLKIKKFP  109 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCGGGGTEEEEE--C------CCCHHHHHHTTCC--CCC
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCCCCCCEEEEcceecccCCcccceEEEEe--echhhcccchHHHHHHHHHHHcCCC
Confidence            458999999999999999999862111            0   0000122221  111                     1


Q ss_pred             ---HHHHHHHHHHHhCCchh--------------HHHHHHHhCCCcEEEEEecCCCH-------HHHHHHHHhCCCCCCC
Q 045113          234 ---ADQILDIIIKFLMPSSR--------------LIILHEYLMTKRYLIVIDDVWSI-------EVWDIIREILPDNQNG  289 (821)
Q Consensus       234 ---~~~~~~~i~~~l~~~~~--------------~~~l~~~l~~kr~LlVlDdv~~~-------~~~~~l~~~l~~~~~g  289 (821)
                         ..+...++++.++...-              .-.|.+.|..++-+|++|..-..       .-|+.+.....  ..|
T Consensus       110 ~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGGq~QRvaiAraL~~~P~iLllDEPts~LD~~~~~~i~~ll~~l~~--~~g  187 (239)
T d1v43a3         110 KDEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQ--KLK  187 (239)
T ss_dssp             HHHHHHHHHHHHHHTTCGGGTTSCTTTCCSSCHHHHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHH--HHT
T ss_pred             HHHHHHHHHHHHHHcCChhhhcCChhhCCHHHHHHHHHHhhhccCCCceeecCCcccCCHHHHHHHHHHHHHHHH--hcC
Confidence               12334455555555421              55677888899999999998532       22333333211  226


Q ss_pred             cEEEEEecchhhhc
Q 045113          290 SRVLITLAKIDTVT  303 (821)
Q Consensus       290 s~iiiTtr~~~v~~  303 (821)
                      .-||++|.+...+.
T Consensus       188 ~tii~vTHd~~~a~  201 (239)
T d1v43a3         188 VTTIYVTHDQVEAM  201 (239)
T ss_dssp             CEEEEEESCHHHHH
T ss_pred             CeEEEEeCCHHHHH
Confidence            77999999887773

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=95.07  E-value=0.0057  Score=55.36  Aligned_cols=24  Identities=21%  Similarity=0.152  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ....|.|.|++|+||||+|+.+.+
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH
Confidence            456788999999999999999987

>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=95.07  E-value=0.02  Score=54.62  Aligned_cols=23  Identities=13%  Similarity=0.124  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -..|+|+|..|.|||||++.+..
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999999986

>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=95.05  E-value=0.0048  Score=56.00  Aligned_cols=23  Identities=9%  Similarity=0.004  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .++|.|.|.+|+||||+|+.+.+
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999988

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=95.03  E-value=0.006  Score=55.29  Aligned_cols=23  Identities=13%  Similarity=0.075  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -++|.|.|++|+||||+|+.+.+
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999987

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=95.01  E-value=0.064  Score=49.71  Aligned_cols=58  Identities=10%  Similarity=-0.057  Sum_probs=36.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHH--HHHHHHHHHhCCc
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYAD--QILDIIIKFLMPS  248 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~--~~~~~i~~~l~~~  248 (821)
                      ....||.++|..|+||||.+..+..  +.+ .....+.+.....+.+-  +-++..++.++.+
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~--~~~-~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~   66 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLAR--QFE-QQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIP   66 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHH--HHH-TTTCCEEEECCCTTCHHHHHHHHHHHHHTTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH--HHH-HCCCcEEEEecccccccchhhhhhhhhhcCCc
Confidence            3478999999999999986555554  232 22345666666666653  3455556666554

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.96  E-value=0.0055  Score=57.59  Aligned_cols=23  Identities=9%  Similarity=0.036  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+|.++|.+|+||||+|+++.+
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999986

>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=94.86  E-value=0.0069  Score=54.66  Aligned_cols=24  Identities=21%  Similarity=0.230  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+++.|.|++|+||||+|+.+..
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999999987

>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=94.80  E-value=0.075  Score=50.43  Aligned_cols=114  Identities=14%  Similarity=0.127  Sum_probs=65.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccc------------ccc----ceeEEEEcCC----CCCHH--------------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVK------------HYF----DCHAWVQEPY----TCYAD--------------  235 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~------------~~F----~~~~wv~~s~----~~~~~--------------  235 (821)
                      -.+++|+|..|.|||||.+.+..-.+..            +.-    ..+.++.-..    ..++.              
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~~~p~~G~i~i~G~~i~~~~~~~~~~i~~vpq~~~~~~~ltv~e~l~~~~~~~~~~~  107 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTLIKPSSGIVTVFGKNVVEEPHEVRKLISYLPEEAGAYRNMQGIEYLRFVAGFYASSS  107 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEETTTCHHHHHTTEEEECTTCCCCTTSBHHHHHHHHHHHHCCCH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCCCEEEECcEecccChHHHHhhEeEeeeccccCCCccHHHHHHHHHHhcCCCH
Confidence            4599999999999999999998632110            000    1223332111    11221              


Q ss_pred             ----HHHHHHHHHhCCchh--------------HHHHHHHhCCCcEEEEEecCCCH-------HHHHHHHHhCCCCCCCc
Q 045113          236 ----QILDIIIKFLMPSSR--------------LIILHEYLMTKRYLIVIDDVWSI-------EVWDIIREILPDNQNGS  290 (821)
Q Consensus       236 ----~~~~~i~~~l~~~~~--------------~~~l~~~l~~kr~LlVlDdv~~~-------~~~~~l~~~l~~~~~gs  290 (821)
                          +..+..++.++....              .-.+.+.|..++=+|+||..-..       .-|+.+.. +.  ..|-
T Consensus       108 ~~~~~~~~~~l~~~~l~~~~~~~~~~lSgG~~qrv~iA~al~~~p~illLDEPt~gLD~~~~~~i~~~i~~-~~--~~g~  184 (238)
T d1vpla_         108 SEIEEMVERATEIAGLGEKIKDRVSTYSKGMVRKLLIARALMVNPRLAILDEPTSGLDVLNAREVRKILKQ-AS--QEGL  184 (238)
T ss_dssp             HHHHHHHHHHHHHHCCGGGGGSBGGGCCHHHHHHHHHHHHHTTCCSEEEEESTTTTCCHHHHHHHHHHHHH-HH--HTTC
T ss_pred             HHHHHHHHHHHHhCCCHHHHhhhhhhCCHHHHHHHHHHHHHhcCCCEEEecCCCCCCCHHHHHHHHHHHHH-HH--hcCC
Confidence                223333333333211              34566778888889999998532       22443333 22  2467


Q ss_pred             EEEEEecchhhhcccc
Q 045113          291 RVLITLAKIDTVTLFQ  306 (821)
Q Consensus       291 ~iiiTtr~~~v~~lf~  306 (821)
                      .||+||.+.+.+.-+|
T Consensus       185 tii~~tH~l~~~~~~~  200 (238)
T d1vpla_         185 TILVSSHNMLEVEFLC  200 (238)
T ss_dssp             EEEEEECCHHHHTTTC
T ss_pred             EEEEEeCCHHHHHHhC
Confidence            8999999888875444

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=94.80  E-value=0.0045  Score=56.18  Aligned_cols=21  Identities=14%  Similarity=0.180  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|.++|++|+||||+|+.+.+
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            466889999999999999987

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=94.77  E-value=0.0085  Score=55.04  Aligned_cols=23  Identities=13%  Similarity=0.150  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +++|.|.|++|+||||+|+.+..
T Consensus         1 mkiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           1 MKIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999987

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=94.75  E-value=0.028  Score=53.82  Aligned_cols=51  Identities=12%  Similarity=-0.054  Sum_probs=37.7

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC
Q 045113          179 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT  231 (821)
Q Consensus       179 i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~  231 (821)
                      +-+.|.++=+.-+++-|+|.+|+|||++|..+..  ....+...++|++....
T Consensus        15 LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~--~~~~~~~~~~~is~e~~   65 (242)
T d1tf7a2          15 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVE--NACANKERAILFAYEES   65 (242)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHH--HHHTTTCCEEEEESSSC
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHH--HHHHhccccceeeccCC
Confidence            3334444434578999999999999999999887  45566777888886543

>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=94.74  E-value=0.0079  Score=60.35  Aligned_cols=46  Identities=15%  Similarity=0.187  Sum_probs=35.6

Q ss_pred             CCeeechhhHHHHHHHHhc-------C-----CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLIE-------G-----PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~~-------~-----~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++|.++.++.+...+..       .     ....+-|.++|++|+|||.||+++.+
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhh
Confidence            3588999999888776621       0     11356778999999999999999997

>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=94.65  E-value=0.033  Score=54.01  Aligned_cols=76  Identities=16%  Similarity=0.098  Sum_probs=52.1

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh-------------HHHH
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR-------------LIIL  254 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~-------------~~~l  254 (821)
                      +.-+++-|+|.+|+||||||..+.....-.+  ..++|++....++.+     +++.++...+             .+.+
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cCceEEEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            4567999999999999999988876433222  358999999988875     5666666533             2233


Q ss_pred             HHHhC-CCcEEEEEecC
Q 045113          255 HEYLM-TKRYLIVIDDV  270 (821)
Q Consensus       255 ~~~l~-~kr~LlVlDdv  270 (821)
                      ....+ +..-|||+|-+
T Consensus       128 ~~l~~~~~~~liIiDSi  144 (268)
T d1xp8a1         128 ELLVRSGAIDVVVVDSV  144 (268)
T ss_dssp             HHHHTTTCCSEEEEECT
T ss_pred             HHHHhcCCCcEEEEecc
Confidence            33333 34557788877

>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=94.64  E-value=0.048  Score=53.30  Aligned_cols=24  Identities=21%  Similarity=0.133  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|+|||||++.+..-
T Consensus        62 Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhCC
Confidence            468999999999999999999863

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.61  E-value=0.054  Score=52.38  Aligned_cols=80  Identities=21%  Similarity=0.152  Sum_probs=54.0

Q ss_pred             cCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh-------------H
Q 045113          185 EGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR-------------L  251 (821)
Q Consensus       185 ~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~-------------~  251 (821)
                      .+=+.-+++-|+|.+|+||||+|..++....-.  =..++|++....++.+.     +++++...+             .
T Consensus        55 gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~--g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~  127 (269)
T d1mo6a1          55 GGLPRGRVIEIYGPESSGKTTVALHAVANAQAA--GGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQAL  127 (269)
T ss_dssp             SSBCSSSEEEEECSSSSSHHHHHHHHHHHHHHT--TCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHH
T ss_pred             CCcccceeEEEecCCCcHHHHHHHHHHHHHhcC--CCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHH
Confidence            344567899999999999999998877633323  34689999999998765     444555432             2


Q ss_pred             HHHHHHh-CCCcEEEEEecCC
Q 045113          252 IILHEYL-MTKRYLIVIDDVW  271 (821)
Q Consensus       252 ~~l~~~l-~~kr~LlVlDdv~  271 (821)
                      +.+.... .++.-|||+|.+-
T Consensus       128 ~~~~~l~~~~~~~liIiDSi~  148 (269)
T d1mo6a1         128 EIADMLIRSGALDIVVIDSVA  148 (269)
T ss_dssp             HHHHHHHHTTCEEEEEEECST
T ss_pred             HHHHHHHhcCCCCEEEEeccc
Confidence            2222222 3456788899884

>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=94.42  E-value=0.042  Score=52.07  Aligned_cols=111  Identities=17%  Similarity=0.219  Sum_probs=63.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccc-c--cc-----------------ceeEEEEcCCC----CC------------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVK-H--YF-----------------DCHAWVQEPYT----CY------------  233 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~-~--~F-----------------~~~~wv~~s~~----~~------------  233 (821)
                      -.+++|+|..|+|||||++.+..-.... +  .|                 ..+-+|.-...    .+            
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl~~p~~G~I~~~g~~i~~~~~~~~~~~rr~ig~vfQ~~~L~p~ltv~eni~~~l~~~  110 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGLDVPSTGELYFDDRLVASNGKLIVPPEDRKIGMVFQTWALYPNLTAFENIAFPLTNM  110 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSSCCSEEEEEETTEEEEETTEESSCGGGSCEEEEETTSCCCTTSCHHHHHHGGGTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCcCCCCceEEECCEEeecCchhhcchhhccceEEeccccccccccHHHHhhhhhHhh
Confidence            4599999999999999999998621100 0  00                 11223321110    11            


Q ss_pred             ------HHHHHHHHHHHhCCchh--------------HHHHHHHhCCCcEEEEEecCCCH------H-HHHHHHHhCCCC
Q 045113          234 ------ADQILDIIIKFLMPSSR--------------LIILHEYLMTKRYLIVIDDVWSI------E-VWDIIREILPDN  286 (821)
Q Consensus       234 ------~~~~~~~i~~~l~~~~~--------------~~~l~~~l~~kr~LlVlDdv~~~------~-~~~~l~~~l~~~  286 (821)
                            .++-..++++.++...-              .-.+.+.|..++-+|++|..-..      . -|+.+.....  
T Consensus       111 ~~~~~~~~~~v~~~l~~~gL~~~~~~~p~~LSGGqkQRvaiARaL~~~P~llllDEPt~~LD~~~~~~i~~~i~~l~~--  188 (242)
T d1oxxk2         111 KMSKEEIRKRVEEVAKILDIHHVLNHFPRELSGAQQQRVALARALVKDPSLLLLDEPFSNLDARMRDSARALVKEVQS--  188 (242)
T ss_dssp             SCCHHHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTSCGGGHHHHHHHHHHHHH--
T ss_pred             cCCHHHHHHHHHHHHhhcChHhhhhCChhhCCHHHHhHHHHHhHHhhcccceeecCCccCCCHHHHHHHHHHHHHHHh--
Confidence                  12234455555555321              45677888899999999997532      2 2333322211  


Q ss_pred             CCCcEEEEEecchhhh
Q 045113          287 QNGSRVLITLAKIDTV  302 (821)
Q Consensus       287 ~~gs~iiiTtr~~~v~  302 (821)
                      ..|.-||++|.+...+
T Consensus       189 ~~g~tvi~vTHd~~~~  204 (242)
T d1oxxk2         189 RLGVTLLVVSHDPADI  204 (242)
T ss_dssp             HHCCEEEEEESCHHHH
T ss_pred             ccCCEEEEEECCHHHH
Confidence            1266788888887665

>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=94.40  E-value=0.025  Score=53.42  Aligned_cols=23  Identities=13%  Similarity=0.068  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+.-
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45999999999999999999975

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=94.38  E-value=0.092  Score=48.50  Aligned_cols=57  Identities=14%  Similarity=-0.083  Sum_probs=34.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC-CCCHHHHHHHHHHHhCC
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY-TCYADQILDIIIKFLMP  247 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~  247 (821)
                      +.+||.++|..|+||||.+-.+..... +.. ..+..|++.. .....+-++..++.++.
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~-~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i   62 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQ-NLG-KKVMFCAGDTFRAAGGTQLSEWGKRLSI   62 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHH-TTT-CCEEEECCCCSSTTHHHHHHHHHHHHTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH-HCC-CcEEEEEeccccccchhhHhhcccccCc
Confidence            468999999999999986555554222 112 2466665543 34455555555555554

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.32  E-value=0.055  Score=52.24  Aligned_cols=103  Identities=15%  Similarity=0.219  Sum_probs=64.8

Q ss_pred             HHHHHHhc-CCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCC-CHHHHHHHHHHHhC--------C
Q 045113          178 ELLDLLIE-GPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTC-YADQILDIIIKFLM--------P  247 (821)
Q Consensus       178 ~i~~~L~~-~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~--------~  247 (821)
                      ++++.|.- +.  -+.++|.|-.|+|||+|+..+.++. .+.+=+.++++-+.+.. .+.++.+++.+.--        .
T Consensus        57 raID~l~pigk--GQr~~If~~~g~GKt~l~~~i~~~~-~~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~  133 (276)
T d2jdid3          57 KVVDLLAPYAK--GGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSK  133 (276)
T ss_dssp             HHHHHHSCEET--TCEEEEEECTTSSHHHHHHHHHHHH-TTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCC
T ss_pred             eeeeeeccccC--CCEEEeeCCCCCCHHHHHHHHHHHH-HhhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccce
Confidence            44555542 22  3469999999999999999887631 22333567888777764 45677777766421        1


Q ss_pred             c-------hh-----------HHHHHHHh---CCCcEEEEEecCCCH-HHHHHHHHhC
Q 045113          248 S-------SR-----------LIILHEYL---MTKRYLIVIDDVWSI-EVWDIIREIL  283 (821)
Q Consensus       248 ~-------~~-----------~~~l~~~l---~~kr~LlVlDdv~~~-~~~~~l~~~l  283 (821)
                      .       .+           +-.+.+++   +++.+|+++||+... ..+.++...+
T Consensus       134 tvvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr~A~A~reis~~~  191 (276)
T d2jdid3         134 VALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALL  191 (276)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHHHHHHHHHGGG
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhHHHHHHHHHHHhc
Confidence            0       01           34455555   379999999999543 4455554443

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=94.08  E-value=0.061  Score=50.01  Aligned_cols=60  Identities=12%  Similarity=-0.037  Sum_probs=35.3

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC-CCCHHHHHHHHHHHhCCc
Q 045113          187 PPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY-TCYADQILDIIIKFLMPS  248 (821)
Q Consensus       187 ~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~  248 (821)
                      .....||.++|..|+||||.+-.+...  ...+=..+..+++.. .....+-++..++.++.+
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~--~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   68 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKM--FVDEGKSVVLAAADTFRAAAIEQLKIWGERVGAT   68 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHH--HHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH--HHHCCCceEEEeecccccchhHHHHHHhhhcCcc
Confidence            345789999999999999865444442  222223455665443 223334455556666543

>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=94.02  E-value=0.057  Score=51.39  Aligned_cols=57  Identities=11%  Similarity=0.024  Sum_probs=38.5

Q ss_pred             HHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccccc----ceeEEEEcCCCCCHHHH
Q 045113          181 DLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYF----DCHAWVQEPYTCYADQI  237 (821)
Q Consensus       181 ~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F----~~~~wv~~s~~~~~~~~  237 (821)
                      ++|.++=+.-+++-|.|.+|+||||||..+.........+    ...+|++....++....
T Consensus        25 ~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   85 (251)
T d1szpa2          25 TLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL   85 (251)
T ss_dssp             HHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGG
T ss_pred             hhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHH
Confidence            3444443456799999999999999998877643332222    46788887777664433

>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=93.98  E-value=0.028  Score=55.12  Aligned_cols=53  Identities=13%  Similarity=0.067  Sum_probs=34.6

Q ss_pred             hHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC
Q 045113          175 RMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT  231 (821)
Q Consensus       175 ~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~  231 (821)
                      ++..+++.+....  .++|.+.|-||+||||+|-.+..  .....=..++-|+....
T Consensus         7 ~~~~~~~~~~~~~--~~iii~sGKGGVGKTT~a~nLA~--~lA~~G~rVllvD~Dp~   59 (279)
T d1ihua2           7 SLSALVDDIARNE--HGLIMLMGKGGVGKTTMAAAIAV--RLADMGFDVHLTTSDPA   59 (279)
T ss_dssp             CHHHHHHHHHTTS--CEEEEEECSTTSSHHHHHHHHHH--HHHHTTCCEEEEESCCC
T ss_pred             cHHHHHHHhhcCC--CEEEEEECCCCCCHHHHHHHHHH--HHHHCCCcEEEEeCCCC
Confidence            4566777776544  89999999999999998766654  22222123555555543

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=93.94  E-value=0.013  Score=57.45  Aligned_cols=23  Identities=22%  Similarity=0.278  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+.|+|+|-||+||||+|..+..
T Consensus         1 mr~Iai~gKGGvGKTT~a~nLA~   23 (269)
T d1cp2a_           1 MRQVAIYGKGGIGKSTTTQNLTS   23 (269)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCcCCHHHHHHHHHH
Confidence            47899999999999999987765

>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=93.90  E-value=0.042  Score=53.13  Aligned_cols=54  Identities=13%  Similarity=0.015  Sum_probs=39.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCc
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPS  248 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  248 (821)
                      +.-+++-|+|.+|+||||||-.+.....-.  =..++|++....++...     ++.++..
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~~~q~~--g~~~vyidtE~~~~~~~-----a~~~Gvd  105 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPIY-----ARKLGVD  105 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHHH-----HHHTTCC
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHHHcC--CCEEEEEccccccCHHH-----HHHhCCC
Confidence            346799999999999999998888743322  23589999988888653     4555554

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=93.90  E-value=0.014  Score=53.65  Aligned_cols=23  Identities=26%  Similarity=0.253  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++++| |+|++|+||||+|+.+.+
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHH
Confidence            46666 789999999999999987

>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=93.86  E-value=0.048  Score=52.35  Aligned_cols=23  Identities=13%  Similarity=0.027  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -..++|+|..|+|||||++.+..
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHh
Confidence            46899999999999999998874

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.81  E-value=0.014  Score=53.86  Aligned_cols=22  Identities=23%  Similarity=0.175  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|.|++|+||||.|+.+++
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999987

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.66  E-value=0.016  Score=54.37  Aligned_cols=23  Identities=9%  Similarity=0.052  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-+|||.|..|+||||+|+.+.+
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999876

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=93.60  E-value=0.026  Score=56.55  Aligned_cols=37  Identities=19%  Similarity=0.214  Sum_probs=29.3

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          176 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       176 ~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..++++.+.....+..+|||.|.||+|||||..++..
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHH
Confidence            4455555555556789999999999999999888775

>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=93.56  E-value=0.015  Score=53.50  Aligned_cols=23  Identities=30%  Similarity=0.234  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-+|||.|..|+||||+|+.+-+
T Consensus         3 p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999998743

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=93.54  E-value=0.019  Score=52.78  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +.-.|.|.|++|+||||+|+.+..
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             cceeEEEECCCCCCHHHHHHHHHH
Confidence            344566889999999999999987

>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=93.53  E-value=0.015  Score=54.86  Aligned_cols=23  Identities=17%  Similarity=0.164  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..||+|.|++|+||||+|+.+.+
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35999999999999999999998

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=93.48  E-value=0.015  Score=52.92  Aligned_cols=20  Identities=15%  Similarity=0.189  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045113          193 VTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~  212 (821)
                      |.|.|++|+||||+|+.+.+
T Consensus         3 I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67999999999999999977

>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=93.32  E-value=0.016  Score=53.28  Aligned_cols=22  Identities=14%  Similarity=-0.062  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.|.|.|++|+||||+|+.+.+
T Consensus         4 m~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3577999999999999999987

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=93.24  E-value=0.034  Score=55.71  Aligned_cols=36  Identities=17%  Similarity=0.153  Sum_probs=28.8

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          177 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       177 ~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .++++.+....++..+|||.|.+|+|||||...+..
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHH
Confidence            445555555456799999999999999999988875

>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=93.20  E-value=0.022  Score=51.93  Aligned_cols=22  Identities=18%  Similarity=0.234  Sum_probs=18.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +++| |.|++|+||||+|+.+.+
T Consensus         3 mrIv-l~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           3 IRMV-LIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHH
T ss_pred             eEEE-EECCCCCCHHHHHHHHHH
Confidence            4544 779999999999999987

>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=93.16  E-value=0.06  Score=52.16  Aligned_cols=92  Identities=16%  Similarity=0.100  Sum_probs=55.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCC-HHHHHHHHHHHhCCc---------hh---------
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCY-ADQILDIIIKFLMPS---------SR---------  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~---------~~---------  250 (821)
                      -+.++|+|-.|+|||+|+......  ...+-+.++++-+..... ..++.+++.+.=...         ++         
T Consensus        67 GQr~~Ifg~~g~GKt~l~~~~~~~--~~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~  144 (276)
T d1fx0a3          67 GQRELIIGDRQTGKTAVATDTILN--QQGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAP  144 (276)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHT--CCTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHH
T ss_pred             CceEeeccCCCCChHHHHHHHHhh--hcccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHH
Confidence            346899999999999999875442  233445677777666543 334444443321110         00         


Q ss_pred             --HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHHHhC
Q 045113          251 --LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIREIL  283 (821)
Q Consensus       251 --~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~~~l  283 (821)
                        +-.+.+++  +++++|+++||+... ..+.++...+
T Consensus       145 ~~a~tiAEyfrd~G~~Vlll~Dsltr~A~A~rEis~~~  182 (276)
T d1fx0a3         145 YTGAALAEYFMYRERHTLIIYDDLSKQAQAYRQMSLLL  182 (276)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCceeEEeeccHHHHHHHHHHHHHc
Confidence              33444444  479999999999543 4566665544

>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=93.06  E-value=0.14  Score=47.30  Aligned_cols=59  Identities=14%  Similarity=-0.071  Sum_probs=29.2

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCC-CCHHHHHHHHHHHhCCc
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYT-CYADQILDIIIKFLMPS  248 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~  248 (821)
                      ....||.++|..|+||||.+-.+....+ .... .+..|++... ....+-++..++.++.+
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v~   69 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK-KKGF-KVGLVGADVYRPAALEQLQQLGQQIGVP   69 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH-HTTC-CEEEEECCCSSHHHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCC-ceEEEEeeccccchhHHHHHhccccCcc
Confidence            3578999999999999975544443212 2222 3555654432 22233344555555543

>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=93.02  E-value=0.021  Score=52.65  Aligned_cols=23  Identities=9%  Similarity=0.083  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .++|.|.|++|+||||+|+.+.+
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            57999999999999999999987

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=92.99  E-value=0.02  Score=52.15  Aligned_cols=21  Identities=24%  Similarity=0.197  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -|.|.|++|+||||+|+.+.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~   22 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAE   22 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            367889999999999999987

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=92.91  E-value=0.023  Score=51.83  Aligned_cols=20  Identities=15%  Similarity=0.177  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045113          193 VTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~  212 (821)
                      |.|.|++|+||||+|+.+.+
T Consensus         3 I~i~G~pGSGKsT~a~~La~   22 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVE   22 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999999998

>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=92.82  E-value=0.03  Score=57.06  Aligned_cols=44  Identities=18%  Similarity=0.182  Sum_probs=32.6

Q ss_pred             eeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          169 TVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       169 ~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +.|.+...-++.+.+..+.+.-+.+.++|++|+|||++|+.+.+
T Consensus       133 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         133 LPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             STTHHHHHHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHhCCCCcCeEEEECCCCCCHHHHHHHHHH
Confidence            33444444444454555656678999999999999999999998

>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=92.81  E-value=0.023  Score=53.62  Aligned_cols=22  Identities=14%  Similarity=0.027  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -+|+|-|.+|+||||+|+.+..
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3688999999999999999998

>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=92.77  E-value=0.43  Score=45.09  Aligned_cols=57  Identities=12%  Similarity=0.036  Sum_probs=39.9

Q ss_pred             HHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCc----ccccccceeEEEEcCCCCCHHHH
Q 045113          181 DLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGN----YVKHYFDCHAWVQEPYTCYADQI  237 (821)
Q Consensus       181 ~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~----~~~~~F~~~~wv~~s~~~~~~~~  237 (821)
                      ++|..+=+.-+++-|+|.+|+|||++|..+....    .....+..+.|+.....+.....
T Consensus        28 ~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (258)
T d1v5wa_          28 KLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRL   88 (258)
T ss_dssp             HHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHH
T ss_pred             HhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHHH
Confidence            3344444457899999999999999998876421    22345567888888777765433

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.77  E-value=0.023  Score=52.02  Aligned_cols=29  Identities=14%  Similarity=0.258  Sum_probs=22.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFD  221 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~  221 (821)
                      +.|.|+|+.|+|||||++.+.+  +....|.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~--~~~~~~~   30 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFA--EYPDSFG   30 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH--HCTTTEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHH--hCCccee
Confidence            4578999999999999999987  3334454

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=92.68  E-value=0.028  Score=55.60  Aligned_cols=23  Identities=13%  Similarity=0.225  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+.|+|.|-||+||||+|..+..
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~   24 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVA   24 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHH
Confidence            57889999999999998877654

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=92.56  E-value=0.031  Score=52.17  Aligned_cols=23  Identities=13%  Similarity=-0.009  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+|-+.|++|+||||||+.+..
T Consensus        24 g~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          24 GLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            67999999999999999999986

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.49  E-value=0.091  Score=48.87  Aligned_cols=22  Identities=5%  Similarity=-0.020  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..|+|-|+.|+||||+|+.+.+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999988

>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=92.40  E-value=0.035  Score=53.37  Aligned_cols=45  Identities=20%  Similarity=0.139  Sum_probs=36.9

Q ss_pred             CeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          168 DTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       168 ~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++||....++++.+.+..-...-.-|-|.|..|+|||++|+.+..
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHH
Confidence            478999999999999876433334578899999999999999986

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.34  E-value=0.021  Score=52.56  Aligned_cols=21  Identities=14%  Similarity=0.313  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|.|+|+.|+|||||++++..
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            477999999999999999987

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=92.33  E-value=0.23  Score=46.87  Aligned_cols=68  Identities=12%  Similarity=0.012  Sum_probs=40.6

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccccc--------------ccceeEEEEcCCCCCHHHHHHHHHHH
Q 045113          179 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKH--------------YFDCHAWVQEPYTCYADQILDIIIKF  244 (821)
Q Consensus       179 i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~--------------~F~~~~wv~~s~~~~~~~~~~~i~~~  244 (821)
                      |-+.|..+=+.-.++-|.|.+|+||||+|..+..+....+              .-..+.|++....++... ...+...
T Consensus        23 LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~~-~~~~~~~  101 (258)
T d2i1qa2          23 LDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPER-IMQMAEH  101 (258)
T ss_dssp             HHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHH-HHHHHHH
T ss_pred             HHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHHH-HHHHHhh
Confidence            3344444333468999999999999999988865321111              122467887766655433 3344444


Q ss_pred             hCC
Q 045113          245 LMP  247 (821)
Q Consensus       245 l~~  247 (821)
                      +..
T Consensus       102 ~~~  104 (258)
T d2i1qa2         102 AGI  104 (258)
T ss_dssp             HTC
T ss_pred             cch
Confidence            443

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=92.10  E-value=0.044  Score=51.85  Aligned_cols=38  Identities=16%  Similarity=0.078  Sum_probs=28.8

Q ss_pred             ceEEEEE-cCCCChHHHHHHHHhcCcccccccceeEEEEcC
Q 045113          190 LSAVTIL-DSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEP  229 (821)
Q Consensus       190 ~~vi~i~-G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s  229 (821)
                      ++||+|+ |-||+||||+|..+..  ...+.=..++.|...
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~--~la~~g~~VlliD~D   39 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGV--ALAQLGHDVTIVDAD   39 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHH--HHHHTTCCEEEEECC
T ss_pred             CEEEEEECCCCCChHHHHHHHHHH--HHHhCCCCEEEEeCC
Confidence            4799998 9999999999988776  344433457777765

>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=92.09  E-value=0.03  Score=50.80  Aligned_cols=20  Identities=15%  Similarity=0.021  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045113          193 VTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~  212 (821)
                      |.|.|++|+||||+|+.+.+
T Consensus         3 I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            66899999999999999987

>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=92.01  E-value=0.037  Score=50.33  Aligned_cols=22  Identities=9%  Similarity=0.066  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ++|.|+|+.|+|||||++.+.+
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~   24 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRE   24 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            5788999999999999999986

>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=91.96  E-value=0.028  Score=56.82  Aligned_cols=45  Identities=18%  Similarity=0.171  Sum_probs=32.8

Q ss_pred             CCCCeeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHh
Q 045113          165 KNRDTVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAY  211 (821)
Q Consensus       165 ~~~~~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~  211 (821)
                      +-..++|.+..+..+.-.+....  ..=|-+.|.+|+||||||+.+.
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~~--~h~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDPG--IGGVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGG--GCCEEEECCGGGCTTHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhccC--CCeEEEECCCCccHHHHHHHHH
Confidence            34679999987776654443221  2247899999999999999885

>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=91.76  E-value=0.066  Score=52.73  Aligned_cols=46  Identities=11%  Similarity=-0.013  Sum_probs=30.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQI  237 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~  237 (821)
                      .++|-+.|-||+||||+|..+..  ....+=..+.-|+.....++..+
T Consensus         8 p~~i~~sGKGGVGKTTvaa~lA~--~lA~~G~rVLlvD~Dp~~~l~~~   53 (296)
T d1ihua1           8 PPYLFFTGKGGVGKTSISCATAI--RLAEQGKRVLLVSTDPASNVGQV   53 (296)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHH--HHHHTTCCEEEEECCTTCCHHHH
T ss_pred             CeEEEEECCCcChHHHHHHHHHH--HHHHCCCCEEEEeCCCCCCHHHH
Confidence            67888999999999998877665  23222123556666555554433

>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=91.73  E-value=0.056  Score=48.63  Aligned_cols=33  Identities=21%  Similarity=0.143  Sum_probs=24.4

Q ss_pred             HHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          181 DLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       181 ~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      +.+....+.---|.++|.+|+|||||..++...
T Consensus         7 ~k~~~~~~~~~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_           7 RKLKSAPDQEVRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             HHCSSCCSSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             HHhhCCCCCEEEEEEECCCCCCHHHHHHHHhcC
Confidence            334444444445789999999999999998764

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=91.67  E-value=0.04  Score=52.58  Aligned_cols=21  Identities=24%  Similarity=0.276  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ||+|.|+.|+|||||..++..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~   22 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGR   22 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            799999999999999998875

>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=91.67  E-value=0.054  Score=48.88  Aligned_cols=34  Identities=15%  Similarity=-0.024  Sum_probs=25.4

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          179 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       179 i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |..++.-..... -|.++|.+|+|||||..++...
T Consensus         3 ~~~~~~~~~k~~-kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_           3 VLQFLGLYKKTG-KLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             HHHHHTCTTCCE-EEEEEEETTSSHHHHHHHHSCC
T ss_pred             hHHhccccCCCC-EEEEECCCCCCHHHHHHHHhCC
Confidence            455565554344 4679999999999999998764

>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=91.61  E-value=0.036  Score=50.33  Aligned_cols=29  Identities=10%  Similarity=0.219  Sum_probs=23.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccccccc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKHYFD  221 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~  221 (821)
                      +.|.|+|+.|+|||||++.+..  +....|.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~--~~~~~~~   32 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLIT--KHPDRFA   32 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH--HCTTTEE
T ss_pred             CcEEEECCCCCCHHHHHHHHHH--hCCcCee
Confidence            5789999999999999999886  3334454

>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=91.57  E-value=0.082  Score=52.13  Aligned_cols=25  Identities=16%  Similarity=0.117  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhc
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ...-+|||.|..|+||||+|+.+..
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            4578999999999999999999986

>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=91.55  E-value=0.051  Score=49.91  Aligned_cols=26  Identities=12%  Similarity=0.225  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          188 PQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       188 ~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      +.+..|+|+|.+|+|||||...+.+.
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            34668999999999999999999863

>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=91.51  E-value=0.061  Score=49.67  Aligned_cols=23  Identities=17%  Similarity=0.179  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+..
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~g   49 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTIST   49 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45899999999999999999986

>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=91.30  E-value=0.047  Score=50.22  Aligned_cols=24  Identities=29%  Similarity=0.231  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhc
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..-+|+|-|.-|+||||+|+.+.+
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999999876

>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=91.23  E-value=0.039  Score=53.66  Aligned_cols=91  Identities=15%  Similarity=0.077  Sum_probs=50.6

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCc-----hh--
Q 045113          178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPS-----SR--  250 (821)
Q Consensus       178 ~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~-----~~--  250 (821)
                      ++++.|.-= ..-+.++|.|..|+|||+|+..+.+... ..+-++++.+..-... .+++ .++.+.....     .+  
T Consensus        32 r~ID~l~Pi-grGQr~~I~g~~g~GKT~l~~~i~~~~~-~~~~~~v~~~~~iger-~~ev-~~~~~~~~~~vv~~t~d~~  107 (289)
T d1xpua3          32 RVLDLASPI-GRGQRGLIVAPPKAGKTMLLQNIAQSIA-YNHPDCVLMVLLIDER-PEEV-TEMQRLVKGEVVASTFDEP  107 (289)
T ss_dssp             HHHHHHSCC-BTTCEEEEEECSSSSHHHHHHHHHHHHH-HHCTTSEEEEEEEEEC-HHHH-HHHHHHCSSEEEEEETTSC
T ss_pred             eeeeecccc-cCCCeeeEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEEeecee-HHHH-HhHHhhcceEEEeccCCCc
Confidence            566666531 1246899999999999999999887321 2333444443322221 1111 2222222211     00  


Q ss_pred             ----------HHHHHHHh--CCCcEEEEEecCCC
Q 045113          251 ----------LIILHEYL--MTKRYLIVIDDVWS  272 (821)
Q Consensus       251 ----------~~~l~~~l--~~kr~LlVlDdv~~  272 (821)
                                +-.+.+++  +++.+|+++||+..
T Consensus       108 ~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr  141 (289)
T d1xpua3         108 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITR  141 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHhccCceeecCcHHH
Confidence                      33444444  47999999999943

>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=91.06  E-value=0.11  Score=51.41  Aligned_cols=25  Identities=12%  Similarity=-0.008  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCcccc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVK  217 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~  217 (821)
                      .++-++|.+|+|||.||+.+..  ++.
T Consensus       124 g~~l~~G~pG~GKT~la~ala~--~~~  148 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGE--ALG  148 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHH--HHH
T ss_pred             ceEEEECCCCccHHHHHHHHHH--Hhc
Confidence            4566689999999999999998  544

>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=90.97  E-value=0.052  Score=50.56  Aligned_cols=20  Identities=25%  Similarity=0.282  Sum_probs=18.3

Q ss_pred             EEEEEcCCCChHHHHHHHHh
Q 045113          192 AVTILDSIGLDKTAFAAEAY  211 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~  211 (821)
                      +|||+|+.|+||||.|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998664

>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=90.97  E-value=0.21  Score=47.53  Aligned_cols=58  Identities=17%  Similarity=0.172  Sum_probs=39.1

Q ss_pred             HHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCccc----ccccceeEEEEcCCCCCHHHHH
Q 045113          181 DLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYV----KHYFDCHAWVQEPYTCYADQIL  238 (821)
Q Consensus       181 ~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~----~~~F~~~~wv~~s~~~~~~~~~  238 (821)
                      ++|..+=+.-+++-|+|.+|+||||+|..+......    .......+|+......+...+.
T Consensus        27 ~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (254)
T d1pzna2          27 KLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIR   88 (254)
T ss_dssp             HHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHH
T ss_pred             HhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHHH
Confidence            334444345789999999999999999877642111    1224568888887777765443

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=90.67  E-value=0.061  Score=50.92  Aligned_cols=50  Identities=12%  Similarity=0.159  Sum_probs=32.2

Q ss_pred             HHHHHHHhCCCcEEEEEecCCCH-------HHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          251 LIILHEYLMTKRYLIVIDDVWSI-------EVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       251 ~~~l~~~l~~kr~LlVlDdv~~~-------~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      .-.|.+.|..++-+|++|..-..       .-|+.+....  ...|.-||++|.+...+
T Consensus       147 Rv~IAraL~~~P~iLllDEPt~~LD~~~~~~i~~~l~~l~--~~~g~tvi~vTHd~~~~  203 (240)
T d1g2912         147 RVALGRAIVRKPQVFLMDEPLSNLDAKLRVRMRAELKKLQ--RQLGVTTIYVTHDQVEA  203 (240)
T ss_dssp             HHHHHHHHHTCCSEEEEECTTTTSCHHHHHHHHHHHHHHH--HHHTCEEEEEESCHHHH
T ss_pred             HHHHHHHHhcCCCEEEecCCCcccCHHHHHHHHHHHHHHH--hccCCEEEEEcCCHHHH
Confidence            45666778888899999997542       2233333221  12267788888887776

>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=90.67  E-value=0.057  Score=47.85  Aligned_cols=22  Identities=27%  Similarity=0.265  Sum_probs=19.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcCc
Q 045113          193 VTILDSIGLDKTAFAAEAYSGN  214 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~~  214 (821)
                      |.|+|.+|+|||||.+++.++.
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7799999999999999987753

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.67  E-value=0.11  Score=50.58  Aligned_cols=26  Identities=12%  Similarity=0.034  Sum_probs=22.6

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          187 PPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       187 ~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ....-+|||.|..|+||||||..+..
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~~   49 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIYN   49 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHHH
Confidence            34467999999999999999998876

>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=90.56  E-value=0.21  Score=48.42  Aligned_cols=94  Identities=16%  Similarity=0.070  Sum_probs=54.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcc-ccccc-----ceeEEEEcCCCCC-HHHHHHHHHHHhCCc---------hh---
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNY-VKHYF-----DCHAWVQEPYTCY-ADQILDIIIKFLMPS---------SR---  250 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~-~~~~F-----~~~~wv~~s~~~~-~~~~~~~i~~~l~~~---------~~---  250 (821)
                      -+.++|.|-+|+|||+|+..+..... ....-     ..++++-+.+... ..++.+.+...-...         .+   
T Consensus        68 GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvvv~~ts~~~~~  147 (285)
T d2jdia3          68 GQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAP  147 (285)
T ss_dssp             TCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHH
T ss_pred             CCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEEEEECCCCCHH
Confidence            45789999999999999877664211 11111     1345666666543 455666555432211         11   


Q ss_pred             --------HHHHHHHh--CCCcEEEEEecCCCH-HHHHHHHHhC
Q 045113          251 --------LIILHEYL--MTKRYLIVIDDVWSI-EVWDIIREIL  283 (821)
Q Consensus       251 --------~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~l~~~l  283 (821)
                              +-.+.+++  ++|.+|+++||+... ..+.++...+
T Consensus       148 ~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr~A~A~rEis~~~  191 (285)
T d2jdia3         148 LQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLL  191 (285)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHcCCcEEEEEcChHHHHHHHHHHHHhc
Confidence                    22333333  689999999999543 4555655544

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=90.55  E-value=0.056  Score=47.44  Aligned_cols=21  Identities=14%  Similarity=0.098  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.|+|.+|+|||||.+++..+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            569999999999999998754

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=90.41  E-value=0.062  Score=50.90  Aligned_cols=24  Identities=8%  Similarity=-0.015  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|+|||||++.+.--
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            359999999999999999999863

>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=90.35  E-value=0.074  Score=47.23  Aligned_cols=21  Identities=10%  Similarity=0.259  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|.+|+|||||+..+.++
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999887754

>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=90.33  E-value=0.064  Score=51.55  Aligned_cols=23  Identities=22%  Similarity=0.222  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|.|||||++.+.-
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            45999999999999999999986

>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=90.28  E-value=0.12  Score=48.81  Aligned_cols=22  Identities=18%  Similarity=0.240  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+++|+|..|+|||||.+.+..
T Consensus        25 e~~~liGpnGaGKSTll~~i~G   46 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCChHHHHHHHHHc
Confidence            3789999999999999999997

>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=90.15  E-value=0.067  Score=47.50  Aligned_cols=22  Identities=14%  Similarity=0.320  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.++|.+|+|||||+.++.++
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999988764

>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=90.14  E-value=0.11  Score=49.58  Aligned_cols=23  Identities=17%  Similarity=0.130  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||++.+..
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            46999999999999999999986

>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=90.01  E-value=0.068  Score=51.29  Aligned_cols=23  Identities=17%  Similarity=0.172  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|.|||||++.+..
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45899999999999999999975

>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=90.01  E-value=0.076  Score=50.54  Aligned_cols=23  Identities=13%  Similarity=0.018  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|.|||||++.+..
T Consensus        28 Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          28 NSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46999999999999999999975

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=89.95  E-value=0.22  Score=46.08  Aligned_cols=35  Identities=11%  Similarity=0.032  Sum_probs=25.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcCccccc-ccceeEEEE
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSGNYVKH-YFDCHAWVQ  227 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~~~~~~-~F~~~~wv~  227 (821)
                      +.|+|-|..|+||||+++.+.+  .... .+..+++..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~--~L~~~g~~~~~~~~   38 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVE--TLEQLGIRDMVFTR   38 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHH--HHHHTTCCCEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHH--HHHhCCCCeEEEec
Confidence            5788999999999999999887  4432 244455543

>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=89.94  E-value=0.13  Score=48.61  Aligned_cols=37  Identities=16%  Similarity=0.016  Sum_probs=27.6

Q ss_pred             eEEEEE-cCCCChHHHHHHHHhcCcccccccceeEEEEcC
Q 045113          191 SAVTIL-DSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEP  229 (821)
Q Consensus       191 ~vi~i~-G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s  229 (821)
                      +||+|+ +-||+||||+|..+..  ...+.-..++-++..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~--~la~~g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSV--ALGDRGRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHH--HHHHTTCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHH--HHHhCCCCEEEEeCC
Confidence            689999 7899999999988876  344433456677654

>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=89.92  E-value=0.053  Score=51.57  Aligned_cols=23  Identities=17%  Similarity=0.277  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+.|+|-|+-|+||||+|+.+.+
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999999887

>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=89.83  E-value=0.82  Score=41.74  Aligned_cols=58  Identities=14%  Similarity=0.056  Sum_probs=35.8

Q ss_pred             HHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccc----cccceeEEEEcCCCCCHHHHH
Q 045113          181 DLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVK----HYFDCHAWVQEPYTCYADQIL  238 (821)
Q Consensus       181 ~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~----~~F~~~~wv~~s~~~~~~~~~  238 (821)
                      ++|.++=..-+++-|.|.+|+||||||..+..+....    ..+....++..........+.
T Consensus        14 ~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (242)
T d1n0wa_          14 KLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL   75 (242)
T ss_dssp             HHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH
T ss_pred             HhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHHHH
Confidence            3443332346799999999999999998776432222    223345566666555554443

>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=89.79  E-value=0.095  Score=46.78  Aligned_cols=21  Identities=19%  Similarity=0.393  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|.+|+|||||..++.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999988764

>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=89.72  E-value=0.078  Score=49.16  Aligned_cols=22  Identities=27%  Similarity=0.200  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -+|||+|..|+||||+|+.+-.
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999987743

>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=89.68  E-value=0.076  Score=48.06  Aligned_cols=35  Identities=26%  Similarity=0.279  Sum_probs=24.4

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          178 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       178 ~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .+.+.|......++ |.++|.+|+|||||..++...
T Consensus         6 ~~~~~l~~~~k~~K-I~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_           6 SMFDKLWGSNKELR-ILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             HHHGGGTTCSSCEE-EEEEEETTSSHHHHHHHTCCS
T ss_pred             HHHHHHhCCCceEE-EEEECCCCCCHHHHHHHHhcC
Confidence            33444444444455 559999999999999998654

>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=89.58  E-value=0.086  Score=46.71  Aligned_cols=21  Identities=14%  Similarity=0.055  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.|+|.+|+|||||.+++.++
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            679999999999999998764

>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=89.57  E-value=0.09  Score=46.98  Aligned_cols=21  Identities=14%  Similarity=0.189  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|+|+|.+|+|||||.+++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            689999999999999999875

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.43  E-value=0.08  Score=47.47  Aligned_cols=22  Identities=14%  Similarity=0.228  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|.+|+|||||+.++.++
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3679999999999999987764

>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=89.39  E-value=0.087  Score=50.09  Aligned_cols=23  Identities=17%  Similarity=0.219  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+.|+|-|+-|+||||+++.+.+
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            67999999999999999999986

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=89.21  E-value=0.081  Score=49.63  Aligned_cols=23  Identities=26%  Similarity=0.176  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|+|||||.+.+.-
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45999999999999999999986

>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=89.11  E-value=0.1  Score=46.42  Aligned_cols=21  Identities=19%  Similarity=0.287  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.|+|.+|+|||||.+++.++
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998764

>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=89.10  E-value=0.068  Score=48.32  Aligned_cols=20  Identities=15%  Similarity=0.135  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045113          193 VTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~  212 (821)
                      |+|+|.+|+|||||..++.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999875

>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=89.09  E-value=0.099  Score=46.26  Aligned_cols=21  Identities=14%  Similarity=0.195  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.|+|.+|+|||||++++.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            788999999999999998754

>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=88.93  E-value=0.11  Score=46.17  Aligned_cols=22  Identities=14%  Similarity=0.276  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|.+|+|||+|++++.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999887754

>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=88.81  E-value=0.095  Score=48.53  Aligned_cols=22  Identities=9%  Similarity=0.140  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+|.|+|+.|+|||||.+.+..
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~   24 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLK   24 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            5788999999999999999886

>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=88.77  E-value=0.11  Score=46.33  Aligned_cols=22  Identities=27%  Similarity=0.223  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.++|.+|+|||||++.+.+.
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            3779999999999999998764

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=88.69  E-value=0.14  Score=51.91  Aligned_cols=46  Identities=15%  Similarity=0.130  Sum_probs=34.4

Q ss_pred             CCeeechhhHHHHHHHHh----------------------------cCCCCceEEEEEcCCCChHHHHHHHHhc
Q 045113          167 RDTVGLDDRMEELLDLLI----------------------------EGPPQLSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       167 ~~~vGr~~~~~~i~~~L~----------------------------~~~~~~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..+||-|+.++.+-..+.                            +.......+-.+|+.|||||.||+.+..
T Consensus        17 ~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          17 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHh
Confidence            458898888887765541                            1122356688899999999999999875

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=88.67  E-value=0.098  Score=46.64  Aligned_cols=22  Identities=18%  Similarity=0.253  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.++|.+|+|||||...+.++
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999987653

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.62  E-value=0.38  Score=44.55  Aligned_cols=27  Identities=15%  Similarity=-0.028  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCccccc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKH  218 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~  218 (821)
                      -+.|+|-|+-|+||||+++.+.+  +.+.
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~--~L~~   29 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYK--KLQP   29 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH--HTTT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHH--HHHh
Confidence            46899999999999999999987  4443

>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=88.60  E-value=0.12  Score=46.35  Aligned_cols=24  Identities=13%  Similarity=0.117  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ...|+|+|.+|+|||||.+++...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            568999999999999999999864

>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=88.52  E-value=0.11  Score=49.37  Aligned_cols=23  Identities=22%  Similarity=0.173  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|.|||||.+.+.-
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45999999999999999999986

>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=88.47  E-value=0.12  Score=46.23  Aligned_cols=24  Identities=8%  Similarity=0.153  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ...|+|+|.+|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            567999999999999999999863

>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=88.33  E-value=0.12  Score=46.87  Aligned_cols=22  Identities=23%  Similarity=0.270  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|-+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4779999999999999998864

>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=88.32  E-value=0.12  Score=46.19  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|.+|+|||||...+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999987753

>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=88.25  E-value=0.42  Score=45.95  Aligned_cols=22  Identities=14%  Similarity=0.184  Sum_probs=18.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .+..|+|.+|+||||||..+.-
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            4677999999999999877654

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=88.24  E-value=0.11  Score=48.00  Aligned_cols=21  Identities=14%  Similarity=0.140  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .|+|-|+-|+||||+++.+.+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999887

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.18  E-value=0.12  Score=46.05  Aligned_cols=22  Identities=18%  Similarity=0.421  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|.+|+|||||.+.+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988764

>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=88.17  E-value=0.12  Score=49.65  Aligned_cols=24  Identities=13%  Similarity=0.014  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+++|+|..|.|||||++.+.--
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCC
Confidence            358999999999999999999873

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.17  E-value=0.13  Score=45.67  Aligned_cols=22  Identities=32%  Similarity=0.495  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.++|-+|+|||||+.++.++
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999988764

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.10  E-value=0.13  Score=45.74  Aligned_cols=21  Identities=19%  Similarity=0.379  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|.+|+|||+|.+.+.++
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568999999999999998864

>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=88.07  E-value=0.23  Score=47.69  Aligned_cols=41  Identities=15%  Similarity=0.191  Sum_probs=31.5

Q ss_pred             hhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          173 DDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       173 ~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ...+.++...+......---|.++|.+|+|||||...++..
T Consensus        15 ~~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          15 QTKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            34556667777665445566889999999999999999864

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.04  E-value=0.13  Score=45.58  Aligned_cols=22  Identities=18%  Similarity=0.176  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|-+|+|||||+.++.++
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3689999999999999987754

>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=88.02  E-value=0.12  Score=45.75  Aligned_cols=22  Identities=9%  Similarity=0.270  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.++|.+|+|||||+.++.++
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999998764

>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=87.98  E-value=0.13  Score=45.72  Aligned_cols=22  Identities=14%  Similarity=0.297  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|.+|+|||||+..+.++
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999888754

>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=87.97  E-value=0.12  Score=49.01  Aligned_cols=23  Identities=13%  Similarity=-0.022  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      +++|||.|..|+||||+|+.+.+
T Consensus         1 M~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           1 MKLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999865

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.95  E-value=0.13  Score=45.89  Aligned_cols=22  Identities=14%  Similarity=0.286  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|.+|+|||||...+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3788999999999999987764

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=87.86  E-value=0.072  Score=51.80  Aligned_cols=23  Identities=9%  Similarity=0.092  Sum_probs=17.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      ..||||.|..|+||||+|+.+.+
T Consensus         4 ~pIIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           4 HPIISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             SCEEEEESCC---CCTHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHHH
Confidence            56999999999999999998776

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.79  E-value=0.14  Score=45.43  Aligned_cols=21  Identities=14%  Similarity=0.338  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|.+|+|||||+.++.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999999988764

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.79  E-value=0.12  Score=46.33  Aligned_cols=23  Identities=13%  Similarity=0.274  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      --|.|+|.+|+|||+|+..+.++
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34779999999999999987764

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.74  E-value=0.14  Score=45.48  Aligned_cols=23  Identities=17%  Similarity=0.319  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .-|.|+|.+|+|||||...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45789999999999999987654

>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=87.69  E-value=0.12  Score=46.54  Aligned_cols=22  Identities=5%  Similarity=0.066  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|+|+|.+|+|||||..++.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999863

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.68  E-value=0.12  Score=46.29  Aligned_cols=22  Identities=9%  Similarity=0.197  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.++|.+|+|||||+..+..+
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987643

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.53  E-value=0.14  Score=45.88  Aligned_cols=22  Identities=14%  Similarity=0.283  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|..|+|||||+.++.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999987664

>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=87.51  E-value=0.14  Score=46.76  Aligned_cols=22  Identities=9%  Similarity=0.229  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|.+|+|||||+..+.++
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            4789999999999999988764

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=87.49  E-value=0.14  Score=45.73  Aligned_cols=23  Identities=17%  Similarity=0.030  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      --|.|+|.+|+|||||..++..+
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34679999999999999988764

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.46  E-value=0.15  Score=45.13  Aligned_cols=21  Identities=29%  Similarity=0.479  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|.+|+|||+|..++.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            679999999999999987754

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.09  E-value=0.14  Score=44.72  Aligned_cols=22  Identities=14%  Similarity=0.012  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.++|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998764

>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=87.07  E-value=0.21  Score=44.45  Aligned_cols=32  Identities=16%  Similarity=0.186  Sum_probs=23.7

Q ss_pred             HHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          180 LDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       180 ~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .+.+.+.. .++ |.++|.+|+|||||.+++.++
T Consensus         4 ~~~~~~~k-~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_           4 LSKIFGNK-EMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             HHHHHTTC-CEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             hhhhhCCC-eEE-EEEECCCCCCHHHHHHHHhcC
Confidence            44444332 466 558999999999999999865

>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=87.00  E-value=0.11  Score=46.93  Aligned_cols=21  Identities=14%  Similarity=0.150  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -|+|+|.+|+|||||..++.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999864

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=86.71  E-value=0.18  Score=44.83  Aligned_cols=24  Identities=25%  Similarity=0.317  Sum_probs=20.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      +--|.|+|-+|+|||||++++.++
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhC
Confidence            345789999999999999987654

>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=86.64  E-value=0.16  Score=47.63  Aligned_cols=25  Identities=12%  Similarity=0.212  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcC
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      .+.|..|.|.-|.|||||.+.+.+.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4789999999999999999998873

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.50  E-value=0.18  Score=44.75  Aligned_cols=21  Identities=14%  Similarity=0.252  Sum_probs=18.3

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.|+|..|+|||+|..++.++
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            668999999999999987754

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.45  E-value=0.17  Score=45.70  Aligned_cols=22  Identities=9%  Similarity=0.095  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|.+|+|||+|.+++.++
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            4789999999999999987764

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.26  E-value=0.18  Score=46.57  Aligned_cols=23  Identities=22%  Similarity=0.200  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      +-|.|+|.+|+|||||..++.+.
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            45899999999999999998764

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.23  E-value=0.2  Score=44.45  Aligned_cols=22  Identities=23%  Similarity=0.372  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|-+|+|||+|+.++.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999987654

>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=86.21  E-value=0.18  Score=45.01  Aligned_cols=21  Identities=19%  Similarity=0.286  Sum_probs=18.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 045113          192 AVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -|.++|.+|+|||||++.+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            477999999999999998865

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.19  E-value=0.17  Score=46.62  Aligned_cols=23  Identities=13%  Similarity=0.114  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ..|.|+|.+|+|||||..++.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999998764

>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=86.12  E-value=0.19  Score=44.94  Aligned_cols=21  Identities=14%  Similarity=0.284  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|.+|+|||||.+++.++
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999987653

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.09  E-value=0.16  Score=45.48  Aligned_cols=22  Identities=14%  Similarity=0.073  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|.+|+|||+|+..+.++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678999999999999887764

>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=86.08  E-value=0.18  Score=45.47  Aligned_cols=22  Identities=14%  Similarity=0.194  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|+|+|.+|+|||||..++.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4899999999999999998864

>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=86.07  E-value=0.13  Score=48.44  Aligned_cols=23  Identities=13%  Similarity=0.157  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhc
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      -.+++|+|..|.|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35999999999999999999875

>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=85.84  E-value=0.2  Score=45.11  Aligned_cols=21  Identities=29%  Similarity=0.384  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=85.72  E-value=0.19  Score=44.05  Aligned_cols=20  Identities=15%  Similarity=0.104  Sum_probs=18.1

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045113          193 VTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~  212 (821)
                      |+++|.+|+|||||..++..
T Consensus         4 I~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67999999999999999874

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.66  E-value=0.21  Score=44.31  Aligned_cols=21  Identities=14%  Similarity=0.379  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|-.|+|||||++.+.++
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999998764

>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=85.55  E-value=0.12  Score=46.06  Aligned_cols=21  Identities=24%  Similarity=0.455  Sum_probs=17.4

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|.+|+|||||..++.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            778999999999999987764

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.48  E-value=0.19  Score=45.89  Aligned_cols=19  Identities=16%  Similarity=0.244  Sum_probs=17.2

Q ss_pred             EEEEEcCCCChHHHHHHHH
Q 045113          192 AVTILDSIGLDKTAFAAEA  210 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v  210 (821)
                      -|.++|.+|+|||||+.++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4679999999999999987

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.36  E-value=0.22  Score=44.79  Aligned_cols=21  Identities=14%  Similarity=0.102  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|..|+|||+|++.+.++
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988764

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.35  E-value=0.21  Score=44.53  Aligned_cols=22  Identities=18%  Similarity=0.298  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.++|-+|+|||||+..+.++
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999887653

>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=85.31  E-value=1.4  Score=42.05  Aligned_cols=78  Identities=8%  Similarity=-0.023  Sum_probs=45.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCch----h-----------HHHH
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSS----R-----------LIIL  254 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~----~-----------~~~l  254 (821)
                      -.++.|.|.+|+||||+|..+..+.-....+ .+++++.  ..+..++...++.......    +           ....
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~-~v~~~s~--E~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQWGTAMGK-KVGLAML--EESVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQW  111 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEES--SSCHHHHHHHHHHHHTTCCGGGCHHHHHHHHHTSHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhhhhhccc-ceeEeee--ccchhhHHhHHHHHhhcCCchhhcccccchhhhHHHHHH
Confidence            3578899999999999997776421122233 3444443  3556667666665544321    0           2344


Q ss_pred             HHHhCCCcEEEEEecC
Q 045113          255 HEYLMTKRYLIVIDDV  270 (821)
Q Consensus       255 ~~~l~~kr~LlVlDdv  270 (821)
                      .+.+.+...+.+.|..
T Consensus       112 ~~~~~~~~~~~~~~~~  127 (277)
T d1cr2a_         112 FDELFGNDTFHLYDSF  127 (277)
T ss_dssp             HHHHHSSSCEEEECCC
T ss_pred             HHHhhccceeeeeccc
Confidence            4444555666666654

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=85.29  E-value=0.2  Score=44.18  Aligned_cols=21  Identities=29%  Similarity=0.256  Sum_probs=18.3

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|.+|+|||||...+..+
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            668999999999999987654

>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=85.13  E-value=0.27  Score=44.18  Aligned_cols=23  Identities=9%  Similarity=0.081  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      --|.|+|.+|+|||+|..++.++
T Consensus         6 iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           6 IKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999887764

>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=85.12  E-value=0.16  Score=45.66  Aligned_cols=25  Identities=8%  Similarity=-0.081  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHhcC
Q 045113          189 QLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       189 ~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ....|+|+|.+++|||||.+++...
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4667999999999999999988653

>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=84.98  E-value=0.2  Score=45.28  Aligned_cols=22  Identities=9%  Similarity=-0.006  Sum_probs=18.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.++|-+|+|||+|.+++..+
T Consensus         4 KivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3678999999999999987654

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.47  E-value=0.23  Score=44.40  Aligned_cols=23  Identities=13%  Similarity=0.209  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHhcC
Q 045113          191 SAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      --|.++|.+|+|||||...+.++
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999987654

>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=84.01  E-value=0.27  Score=42.88  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHhcC
Q 045113          190 LSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       190 ~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -.+|.+.|-=|+||||+++.+.+.
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEecCCCccHHHHHHHHHhh
Confidence            569999999999999999999863

>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=83.88  E-value=0.27  Score=44.57  Aligned_cols=21  Identities=10%  Similarity=0.123  Sum_probs=18.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|-+|+|||+|+.++.++
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999887654

>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=83.85  E-value=0.45  Score=44.08  Aligned_cols=36  Identities=22%  Similarity=0.245  Sum_probs=27.7

Q ss_pred             hhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCc
Q 045113          174 DRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGN  214 (821)
Q Consensus       174 ~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~  214 (821)
                      ..++++.++|.+     +...++|..|||||||..++..+.
T Consensus        84 ~g~~~L~~~l~~-----kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          84 MGIEELKEYLKG-----KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             TTHHHHHHHHSS-----SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             hhHhhHHHHhcC-----CeEEEECCCCCCHHHHHHhhcchh
Confidence            346677777732     467889999999999999998653

>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=82.98  E-value=1.3  Score=43.62  Aligned_cols=102  Identities=16%  Similarity=0.170  Sum_probs=55.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCchh---HHHHHHHhCCCcEEEEEe
Q 045113          192 AVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPSSR---LIILHEYLMTKRYLIVID  268 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~---~~~l~~~l~~kr~LlVlD  268 (821)
                      -|.|.|..|+||||+.+++..  .+-..- .++-+.-.....+..- ..+ -++....+   .+.++..|+..+=-||+.
T Consensus       168 nili~G~tgSGKTT~l~al~~--~i~~~~-rivtiEd~~El~l~~~-~~~-~~~~~~~~~~~~~ll~~~lR~~pd~iivg  242 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIME--FIPKEE-RIISIEDTEEIVFKHH-KNY-TQLFFGGNITSADCLKSCLRMRPDRIILG  242 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGG--GSCTTC-CEEEEESSCCCCCSSC-SSE-EEEECBTTBCHHHHHHHHTTSCCSEEEES
T ss_pred             CEEEEeeccccchHHHHHHhh--hccccc-ceeeccchhhhhcccc-ccc-ceeccccchhHHHHHHHHhccCCCcccCC
Confidence            478899999999999999987  222111 1121211111110000 000 00000001   456667787778889999


Q ss_pred             cCCCHHHHHHHHHhCCCCCCCcEEEEEecchhh
Q 045113          269 DVWSIEVWDIIREILPDNQNGSRVLITLAKIDT  301 (821)
Q Consensus       269 dv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v  301 (821)
                      .+.+.+.|+.+. ....++.|  ++.|..-.+.
T Consensus       243 EiR~~ea~~~l~-a~~tGh~g--~~tT~Ha~s~  272 (323)
T d1g6oa_         243 ELRSSEAYDFYN-VLCSGHKG--TLTTLHAGSS  272 (323)
T ss_dssp             CCCSTHHHHHHH-HHHTTCSC--EEEEECCSSH
T ss_pred             ccCchhHHHHHH-HHHhcCCc--EEEEECCCCH
Confidence            999888887654 44445545  4445443333

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=82.49  E-value=0.12  Score=45.30  Aligned_cols=20  Identities=10%  Similarity=0.222  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 045113          193 VTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~  212 (821)
                      |+++|.+|+|||||..++..
T Consensus         3 I~liG~~n~GKSSLin~l~g   22 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLN   22 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            78999999999999999875

>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=82.14  E-value=0.3  Score=44.29  Aligned_cols=21  Identities=14%  Similarity=0.091  Sum_probs=18.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 045113          193 VTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       193 i~i~G~gGiGKTtLa~~v~~~  213 (821)
                      |.++|-+|+|||+|..++..+
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            678999999999999988653

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.03  E-value=0.21  Score=44.49  Aligned_cols=22  Identities=14%  Similarity=0.188  Sum_probs=8.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 045113          192 AVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       192 vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      -|.|+|-+|+|||||...+..+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999877653

>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=81.12  E-value=0.63  Score=44.82  Aligned_cols=34  Identities=15%  Similarity=0.121  Sum_probs=28.0

Q ss_pred             HHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcC
Q 045113          180 LDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSG  213 (821)
Q Consensus       180 ~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~  213 (821)
                      ++.|..-++.+.||+|+|.-+.||+||+..++..
T Consensus        22 l~~l~~~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          22 LKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHHHcCCCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            4455554556999999999999999999999873

>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=80.73  E-value=0.37  Score=44.84  Aligned_cols=22  Identities=9%  Similarity=0.060  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHhc
Q 045113          191 SAVTILDSIGLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~gGiGKTtLa~~v~~  212 (821)
                      .-|.++|.+|+|||||++.+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4578999999999999988764

>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=80.53  E-value=0.42  Score=44.06  Aligned_cols=22  Identities=9%  Similarity=0.018  Sum_probs=18.6

Q ss_pred             eEEEEEcCC-CChHHHHHHHHhc
Q 045113          191 SAVTILDSI-GLDKTAFAAEAYS  212 (821)
Q Consensus       191 ~vi~i~G~g-GiGKTtLa~~v~~  212 (821)
                      +.+-|.|-| ||||||++..+..
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~   24 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQ   24 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHH
Confidence            567899998 9999998877765

>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=80.24  E-value=0.33  Score=45.40  Aligned_cols=51  Identities=16%  Similarity=0.118  Sum_probs=30.3

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCC
Q 045113          179 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPY  230 (821)
Q Consensus       179 i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~  230 (821)
                      +-+.|.++=+.-.++-|.|.+|+|||+||..+... .....=..+.|++...
T Consensus        15 LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~-~~~~~~~~~~~~s~e~   65 (242)
T d1tf7a1          15 FDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYN-GIIEFDEPGVFVTFEE   65 (242)
T ss_dssp             HHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHH-HHHHHCCCEEEEESSS
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHH-HHHhcCCCcccccccC
Confidence            33444444334679999999999999999764431 1122222455665443

>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=80.19  E-value=0.65  Score=47.51  Aligned_cols=124  Identities=16%  Similarity=0.170  Sum_probs=67.6

Q ss_pred             eeechhhHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHHhcCcccccccceeEEEEcCCCCCHHHHHHHHHHHhCCc
Q 045113          169 TVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSGNYVKHYFDCHAWVQEPYTCYADQILDIIIKFLMPS  248 (821)
Q Consensus       169 ~vGr~~~~~~i~~~L~~~~~~~~vi~i~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  248 (821)
                      -.|.....-+.++.+....  -.+|.|.|..|.||||....+.+  ++...-..++=+.-.-.+.+..+.+   .++...
T Consensus       139 ~LG~~~~~~~~l~~l~~~~--~GliLvtGpTGSGKSTTl~~~l~--~~~~~~~~i~tiEdPiE~~~~~~~q---~~v~~~  211 (401)
T d1p9ra_         139 SLGMTAHNHDNFRRLIKRP--HGIILVTGPTGSGKSTTLYAGLQ--ELNSSERNILTVEDPIEFDIDGIGQ---TQVNPR  211 (401)
T ss_dssp             GSCCCHHHHHHHHHHHTSS--SEEEEEECSTTSCHHHHHHHHHH--HHCCTTSCEEEEESSCCSCCSSSEE---EECBGG
T ss_pred             hhcccHHHHHHHHHHHhhh--hceEEEEcCCCCCccHHHHHHhh--hhcCCCceEEEeccCcccccCCCCe---eeecCC
Confidence            3466555554455555444  67999999999999998888776  2322111222222111111111000   000011


Q ss_pred             h--h-HHHHHHHhCCCcEEEEEecCCCHHHHHHHHHhCCCCCCCcEEEEEecchhhh
Q 045113          249 S--R-LIILHEYLMTKRYLIVIDDVWSIEVWDIIREILPDNQNGSRVLITLAKIDTV  302 (821)
Q Consensus       249 ~--~-~~~l~~~l~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iiiTtr~~~v~  302 (821)
                      .  + ...++..|+..+=.|++.++.+.+.-......-   ..|-.|+-|-.-.+..
T Consensus       212 ~~~~~~~~l~~~lR~dPDvi~igEiRd~~ta~~a~~aa---~tGhlV~tTlHa~~a~  265 (401)
T d1p9ra_         212 VDMTFARGLRAILRQDPDVVMVGEIRDLETAQIAVQAS---LTGHLVMSTLHTNTAV  265 (401)
T ss_dssp             GTBCHHHHHHHHGGGCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEECCSSSH
T ss_pred             cCCCHHHHHHHHHhhcCCEEEecCcCChHHHHHHHHHH---hcCCeEEEEeccCchH
Confidence            1  1 677888888888899999998876544333221   2355566665544444