Citrus Sinensis ID: 042981

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870------
Protein Sequence
MQQDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVSNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEGLDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEESFSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEYFNISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLPD
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccEEccccccccccccccccccccccccccHHHHHHHHHHHccccccccccEEEEEEEEccccHHHHHHHHHHcHHHHHccccccEEEEEcccccHHHHHHHHHHHHccccccccccHHHHHHHHcccccccEEEEEcccHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHcccccccccccccccHHHHccccccccccccHHHHcccccccccccccHHHHHHHHHHcccccccccccHHHHHHHHHHccccccccccccccEEEEcHHHHHHHHHHHHHcEEEEEEccccccccccccccEEEEEEEEccccccccccccccccEEEEEcccccccccccHHHHHHHHcccccccEEEccccccccccccccccccccccccccccccccccccccccccHHHHccccccEEccccccccccccccccccccccEEEcccccccccccccccccccccccccEEEccccccccccccccccccccccEEEEEcccccccccHHHHccccccccccEEEEEEccccccccccHHHHHHccccccccccEEEEEcccccccccccccccccEEEEccccccccccccccccccEEEEccccccEEEcccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccEEEEccccccccccccccccccccEEEEEcccccccccccccccccccccccEEEEEcccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHccccccccccEEEEcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccEEcccEEcccHHHHHHHHHHHcccccccccEEEEEEEccccccHHHHHHHHHccHHHHHHccEEEEEEEcccccHHHHHHHHHHHHHHHHcccHHHHHHHHcHHHccccccEEEEEEccHHHHHHHccccccccccccHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHcHHHccccccccccHHEEEcHccccccHHHHHHHHHHHcccccccEcHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHcccccccEEEHHHHHHHHHHHHcccEEEEEEcccccccccccccccEEEEEEEEccccccccHHcccccccEEEEcccccccccccccccHHHHccccccEEEEEccccccccccccccHHccccccccccccEEEEccccccccccccccccccEEEEEcccccHHccccHHcccccccEEEEccccccccccccccccccccEEEEEEcccccccccccccHHHccccHcccEEEccccccccccHHHcccccccccccEEEEccccccccccHHHHHHHHHccccccccEEEEEcccccccccHcccccccEEEEEccccccccccccccccccEEEEccccccccccHHHccccccHHHHHccccccccccccccccEEEEcccHcHHHccccccccccccccccccEEEEccccccccccccccccccccEEEEcccccHccccccccccccccccccEEEEccccccccccc
Coil and Loop (DISEMBL)
MQQDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQiegvdddnafslaphkknVRSFFRAVSNcfgsfkqlsLRQDIAVKIREinekpddiasqKDRFKFVENVsnhvkkpkqarttslidegevcgrvDEKNELLSKLLFESSEQQKGLHVISLvglggmgktTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEglddvwdgdynkwepffhclkhglhgskiLLTTRNESVARMMGSTNIIFIEQlteeesfsgrsfedcekLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQGlfaplllsyndlpsnsmvkrCFSYcaifpkeyniKKKELISLWMVQGYLNVEEDEEIEMTGEEYFNiskfkkddddddimsckmhDIVHDFAQFVSRKECLWVEINGTKESVINSFGDKvrhlglnfeggasfpmsiHGLNRLRTLLIYfqspsnpslnsSILSELFSKLACFRALVIGqrnfifdpypnlirEIPENVRKLIHLKYLNLSELCIERLPKTLCELYnlqkldirwCEDLRELPAGIGKLKKMRSLlnggtpllkympigisklTSLRTLEKFamgggvddisTCRLESLKNLQLLRECgieglsnvshldederlglHNMKNLLRLSlefdeegeeGRRKNQQLLEAlqpplnvkelgivsyggnifpkwltsltnlrdlrlkscvicehfpplgklplekltlyglygvkrvgneflgiegsseddpssssssssviafpklkslhIGAMEELEEWNYRITRkenisimprlssltiwycprlrvlpdylfqsttlqklsisycpimeelriledhrttdiprlssleieycpklnvlpd
Flexible Loop (DISEMBL)
MQQDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVSNCFGSFKQLSLRQDIAVKIREinekpddiasqkdRFKFVenvsnhvkkpkqarttslidegevcgrVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEGLDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLteeesfsgrsfedcEKLEPIGRKIARKCKGLPlaakatgnllrsksILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEYFNISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEhfpplgklpleKLTLYGLYGVKRVGNEFLGIEGsseddpssssssssviafpklKSLHIGAMEELEEWNYRITRkenisimprlsSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILedhrttdiprlssleieycpklnvlpd
Low Complexity Region (SEG)
MQQDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVSNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLIDEGEVCGRVDeknellskllfesseQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEGLDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEESFSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVeedeeiemtgeeYFNISKFKKddddddIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQspsnpslnssilsELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGLYGVKRVGNEFLGIEGsseddpssssssssVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLPD
Disordered region (IsUnstruct)
*****VVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVSNCFGSFKQLSLRQDIAVKIREI**************************************GEVCGRVDEKNELLSKLLFE***QQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEGLDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEE******SFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEYFNISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSP****LNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLS********************LQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGLYGVKRVGNEFLGI*****************IAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLN****
Disordered Region (DISOPRED)
***DKVVTFWLDQLKDASYDMEDVLDEWVFARL*************************FRAVSNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDR***********************DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEGLDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEESFSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEYFNISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGT******SFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDD***CRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEE******KNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGLYGVKRVGNEFLGIEGSSED************AFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLPD
Disordered Region (DISEMBL)
MQQDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVSNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEGLDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEESFSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEYFNISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFD********KNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGLYGVKRVGNEFLGI****************VIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLPD
Disordered Region (DISPRO)
***DKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVSNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFV**************TTSLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEGLDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEESFSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEYFNISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVL**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQQDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVSNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEGLDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEESFSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEYFNISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLPD
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	876	2.2.26 [Sep-21-2011]
Q7XA39	988	Putative disease resistan	N/A	no	0.864	0.766	0.304	2e-92
Q7XA42	979	Putative disease resistan	N/A	no	0.875	0.783	0.289	2e-89
Q7XA40	992	Putative disease resistan	N/A	no	0.860	0.760	0.296	2e-86
Q7XBQ9	970	Disease resistance protei	N/A	no	0.888	0.802	0.285	4e-85
Q9LRR4	1054	Putative disease resistan	yes	no	0.915	0.760	0.278	9e-82
Q9LRR5	1424	Putative disease resistan	no	no	0.888	0.546	0.294	1e-74
Q38834	852	Disease resistance RPP13-	no	no	0.674	0.693	0.284	7e-55
Q8W3K3	910	Putative disease resistan	no	no	0.695	0.669	0.271	6e-46
Q39214	926	Disease resistance protei	no	no	0.583	0.551	0.272	1e-45
Q8W4J9	908	Disease resistance protei	no	no	0.849	0.819	0.265	5e-40

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

 Score =  341 bits (874), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 279/916 (30%), Positives = 418/916 (45%), Gaps = 159/916 (17%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
           +DK +  WL +L  A+Y+++D+L E                         KN    F   
Sbjct: 54  KDKAIENWLQKLNSAAYEVDDILGEC------------------------KNEAIRFEQS 89

Query: 63  SNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLID 122
              F     ++ R  I  +++EI EK D I+ ++ +F F+E ++          T  ++ 
Sbjct: 90  RLGFYHPGIINFRHKIGRRMKEIMEKLDAISEERRKFHFLEKITERQAAAATRETGFVLT 149

Query: 123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE 182
           E +V GR  E++E++ K+L  +    + L V  ++G+GG+GKTTLAQ+ +N++ V ++F 
Sbjct: 150 EPKVYGRDKEEDEIV-KILINNVNVAEELPVFPIIGMGGLGKTTLAQMIFNDERVTKHFN 208

Query: 183 KVIWVCVSDTFEEIRVANAIIEG------------------------------LDDVWDG 212
             IWVCVSD F+E R+   II                                LDDVW+ 
Sbjct: 209 PKIWVCVSDDFDEKRLIKTIIGNIERSSPHVEDLASFQKKLQELLNGKRYLLVLDDVWND 268

Query: 213 DYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEES---FSGRSFE 269
           D  KW      L  G  G+ IL TTR E V  +MG+     +  L+  +S   F  R+F 
Sbjct: 269 DLEKWAKLRAVLTVGARGASILATTRLEKVGSIMGTLQPYHLSNLSPHDSLLLFMQRAFG 328

Query: 270 DCEKLEP----IGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQG 325
             ++  P    IG++I +KC G+PLAAK  G LLR K    EW+   D+E+W + +    
Sbjct: 329 QQKEANPNLVAIGKEIVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDNEIWSLPQDESS 388

Query: 326 LFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMT 385
           +   L LSY+ LP +  +++CF+YCA+FPK+  + K+ LI+LWM  G+L  + + E+E  
Sbjct: 389 ILPALRLSYHHLPLD--LRQCFAYCAVFPKDTKMIKENLITLWMAHGFLLSKGNLELEDV 446

Query: 386 GEEYFN----ISKFKKDDDDDDIMSCKMHDIVHDFAQ--FVSRKECLWV-EINGTKESVI 438
           G E +N     S F++ +        K+HD++HD A   F +   C  + EIN       
Sbjct: 447 GNEVWNELYLRSFFQEIEAKSGNTYFKIHDLIHDLATSLFSASASCGNIREIN------- 499

Query: 439 NSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACF 498
               D    + + F                   ++   SPS           L  K    
Sbjct: 500 --VKDYKHTVSIGFAA-----------------VVSSYSPS-----------LLKKFVSL 529

Query: 499 RALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDI 558
           R L +             + ++P ++  L+HL+YL+LS      LP+ LC+L NLQ LD+
Sbjct: 530 RVLNLSYSK---------LEQLPSSIGDLLHLRYLDLSCNNFRSLPERLCKLQNLQTLDV 580

Query: 559 RWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDIST 618
             C  L  LP    KL  +R L+  G PL    P  I  LT L+TL  F +G        
Sbjct: 581 HNCYSLNCLPKQTSKLSSLRHLVVDGCPLTS-TPPRIGLLTCLKTLGFFIVGSK----KG 635

Query: 619 CRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEG-EEGRRKNQ 677
            +L  LKNL L     I  L  V + D D    L    NL  LS+ +D +G      K  
Sbjct: 636 YQLGELKNLNLCGSISITHLERVKN-DTDAEANLSAKANLQSLSMSWDNDGPNRYESKEV 694

Query: 678 QLLEALQPPLNVKELGIVSYGGNIFPKWL--TSLTNLRDLRLKSCVICEHFPPLGKLP-L 734
           ++LEAL+P  N+K L I+++GG  FP W+  + L  +  +R+KSC  C   PP G+LP L
Sbjct: 695 KVLEALKPHPNLKYLEIIAFGGFRFPSWINHSVLEKVISVRIKSCKNCLCLPPFGELPCL 754

Query: 735 EKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNY 794
           E L L          N    +E   EDD  S  S+    +FP LK L I        W +
Sbjct: 755 ENLELQ---------NGSAEVEYVEEDDVHSRFSTRR--SFPSLKKLRI--------WFF 795

Query: 795 R----ITRKENISIMPRLSSLTIWYCPRLRVLPDY-------LFQSTTLQKL-SISYCPI 842
           R    + ++E     P L  + I YCP L V P         +  +T  + L SIS    
Sbjct: 796 RSLKGLMKEEGEEKFPMLEEMAILYCP-LFVFPTLSSVKKLEVHGNTNTRGLSSISNLST 854

Query: 843 MEELRILEDHRTTDIP 858
           +  LRI  ++R T +P
Sbjct: 855 LTSLRIGANYRATSLP 870

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.
Solanum bulbocastanum (taxid: 147425)

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

 Score =  330 bits (847), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 271/936 (28%), Positives = 427/936 (45%), Gaps = 169/936 (18%)

Query: 4   DKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVS 63
           DK +  WL +L  A+Y+++D+LDE+                       K     F ++  
Sbjct: 55  DKPLENWLQKLNAATYEVDDILDEY-----------------------KTKATRFLQSE- 90

Query: 64  NCFGSF--KQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLI 121
             +G +  K +  R  +  ++ ++ +K + IA ++ +F   E +    ++     T S++
Sbjct: 91  --YGRYHPKVIPFRHKVGKRMDQVMKKLNAIAEERKKFHLQEKIIE--RQAATRETGSVL 146

Query: 122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF 181
            E +V GR  EK+E++  L+  +S+ QK L V+ ++G+GG+GKTTL+Q+ +N+  V   F
Sbjct: 147 TEPQVYGRDKEKDEIVKILINTASDAQK-LSVLPILGMGGLGKTTLSQMVFNDQRVTERF 205

Query: 182 EKVIWVCVSDTFEEIRVANAIIEG------------------------------LDDVWD 211
              IW+C+SD F E R+  AI+E                               LDDVW+
Sbjct: 206 YPKIWICISDDFNEKRLIKAIVESIEGKSLSDMDLAPLQKKLQELLNGKRYFLVLDDVWN 265

Query: 212 GDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEES---FSGRSF 268
            D +KW      LK G  G+ +L TTR E V  +MG+     +  L+ E+    F  R+F
Sbjct: 266 EDQHKWANLRAVLKVGASGAFVLTTTRLEKVGSIMGTLQPYELSNLSPEDCWFLFMQRAF 325

Query: 269 EDCEKLEP----IGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQ 324
              E++ P    IG++I +KC G+PLAAK  G +LR K   +EW+   DS +W + +   
Sbjct: 326 GHQEEINPNLMAIGKEIVKKCGGVPLAAKTLGGILRFKREEREWEHVRDSPIWNLPQDES 385

Query: 325 GLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEM 384
            +   L LSY+ LP +  +++CF YCA+FPK+  + K+ LI+ WM  G+L  + + E+E 
Sbjct: 386 SILPALRLSYHHLPLD--LRQCFVYCAVFPKDTKMAKENLIAFWMAHGFLLSKGNLELED 443

Query: 385 TGEEYFN----ISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINS 440
            G E +N     S F++ + +      KMHD++HD A               T     N+
Sbjct: 444 VGNEVWNELYLRSFFQEIEVESGKTYFKMHDLIHDLA---------------TSLFSANT 488

Query: 441 FGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRA 500
               +R +  N++G                   Y  S     + SS    L  K    R 
Sbjct: 489 SSSNIREINANYDG-------------------YMMSIGFAEVVSSYSPSLLQKFVSLRV 529

Query: 501 LVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLS-ELCIERLPKTLCELYNLQKLDIR 559
           L +   N         + ++P ++  L+HL+YL+LS    I  LPK LC+L NLQ LD+ 
Sbjct: 530 LNLRNSN---------LNQLPSSIGDLVHLRYLDLSGNFRIRNLPKRLCKLQNLQTLDLH 580

Query: 560 WCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTC 619
           +C+ L  LP    KL  +R+LL  G  L    P  I  LT L++L  F +G         
Sbjct: 581 YCDSLSCLPKQTSKLGSLRNLLLDGCSLTS-TPPRIGLLTCLKSLSCFVIGKRKGH---- 635

Query: 620 RLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQL 679
           +L  LKNL L     I  L  V    + +   L    NL  L L +D +G+   R + ++
Sbjct: 636 QLGELKNLNLYGSISITKLDRVKKDTDAKEANLSAKANLHSLCLSWDLDGK--HRYDSEV 693

Query: 680 LEALQPPLNVKELGIVSYGGNIFPKWL--TSLTNLRDLRLKSCVICEHFPPLGKLP-LEK 736
           LEAL+P  N+K L I  +GG   P W+  + L N+  +R++ C  C   PP G+LP LE 
Sbjct: 694 LEALKPHSNLKYLEINGFGGIRLPDWMNQSVLKNVVSIRIRGCENCSCLPPFGELPCLES 753

Query: 737 LTLY-GLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYR 795
           L L+ G   V+ V           ED+            FP L+ L I     L+     
Sbjct: 754 LELHTGSADVEYV-----------EDNVHPGR-------FPSLRKLVIWDFSNLKG---- 791

Query: 796 ITRKENISIMPRLSSLTIWYCP--------RLRVLPDYLFQSTTLQKLSISYCPIMEELR 847
           + + E     P L  +T ++CP         ++ L   +  +T L+  SIS    +  L 
Sbjct: 792 LLKMEGEKQFPVLEEMTFYWCPMFVIPTLSSVKTLKVIVTDATVLR--SISNLRALTSLD 849

Query: 848 ILEDHRTTDIPR--------LSSLEIEYCPKLNVLP 875
           I ++   T +P         L  L+I +   L  LP
Sbjct: 850 ISDNVEATSLPEEMFKSLANLKYLKISFFRNLKELP 885

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

Solanum bulbocastanum (taxid: 147425)

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

 Score =  321 bits (822), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 272/916 (29%), Positives = 422/916 (46%), Gaps = 162/916 (17%)

Query: 5   KVVTFWLDQLKDASYDMEDVLDEWV--FARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
           K +  WL +L  A+Y+++D+LD+     AR K  + G                R   R +
Sbjct: 56  KAIKNWLQKLNVAAYEVDDILDDCKTEAARFKQAVLG----------------RYHPRTI 99

Query: 63  SNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLID 122
           + C+           +  +++E+ EK D IA ++  F   E +    ++  + +T  ++ 
Sbjct: 100 TFCY----------KVGKRMKEMMEKLDAIAEERRNFHLDERIIE--RQAARRQTGFVLT 147

Query: 123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE 182
           E +V GR  E++E++ K+L  +    + + V+ ++G+GG+GKTTLAQ+ +N+  +  +F 
Sbjct: 148 EPKVYGREKEEDEIV-KILINNVSYSEEVPVLPILGMGGLGKTTLAQMVFNDQRITEHFN 206

Query: 183 KVIWVCVSDTFEEIRVANAIIEG------------------------------LDDVWDG 212
             IWVCVSD F+E R+  AI+E                               LDDVW+ 
Sbjct: 207 LKIWVCVSDDFDEKRLIKAIVESIEGKSLGDMDLAPLQKKLQELLNGKRYFLVLDDVWNE 266

Query: 213 DYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEES---FSGRSF- 268
           D  KW+     LK G  G+ IL+TTR E +  +MG+  +  +  L++E+    F  R+F 
Sbjct: 267 DQEKWDNLRAVLKIGASGASILITTRLEKIGSIMGTLQLYQLSNLSQEDCWLLFKQRAFC 326

Query: 269 ---EDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQG 325
              E   KL  IG++I +KC G+PLAAK  G LLR K    EW+   DSE+W + +    
Sbjct: 327 HQTETSPKLMEIGKEIVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDSEIWNLPQDENS 386

Query: 326 LFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMT 385
           +   L LSY+ LP +  +++CF+YCA+FPK+  I+K+ LI+LWM   +L  + + E+E  
Sbjct: 387 VLPALRLSYHHLPLD--LRQCFAYCAVFPKDTKIEKEYLIALWMAHSFLLSKGNMELEDV 444

Query: 386 GEEYFN----ISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINSF 441
           G E +N     S F++ +        KMHD++HD A  +         I       IN  
Sbjct: 445 GNEVWNELYLRSFFQEIEVKSGKTYFKMHDLIHDLATSMFSASASSRSIRQ-----INVK 499

Query: 442 GDK-VRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRA 500
            D+ +  +  N++   S   S                     + SS    LF +    R 
Sbjct: 500 DDEDMMFIVTNYKDMMSIGFS--------------------EVVSSYSPSLFKRFVSLRV 539

Query: 501 LVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRW 560
           L +    F          ++P +V  L+HL+YL+LS   I  LPK LC+L NLQ LD+  
Sbjct: 540 LNLSNSEF---------EQLPSSVGDLVHLRYLDLSGNKICSLPKRLCKLQNLQTLDLYN 590

Query: 561 CEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCR 620
           C+ L  LP    KL  +R+L+    PL   MP  I  LT L+TL  F +G    +    +
Sbjct: 591 CQSLSCLPKQTSKLCSLRNLVLDHCPLTS-MPPRIGLLTCLKTLGYFVVG----ERKGYQ 645

Query: 621 LESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDE----EGEEGRRKN 676
           L  L+NL L     I  L  V +  E +   L    NL  LS+ +D     E EE +   
Sbjct: 646 LGELRNLNLRGAISITHLERVKNDMEAKEANLSAKANLHSLSMSWDRPNRYESEEVK--- 702

Query: 677 QQLLEALQPPLNVKELGIVSYGGNIFPKWL--TSLTNLRDLRLKSCVICEHFPPLGKLP- 733
             +LEAL+P  N+K L I+ + G   P W+  + L N+  + +  C  C   PP G+LP 
Sbjct: 703 --VLEALKPHPNLKYLEIIDFCGFCLPDWMNHSVLKNVVSILISGCENCSCLPPFGELPC 760

Query: 734 LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWN 793
           LE L L                +GS E +    S   +   FP L+ LHIG    L+   
Sbjct: 761 LESLELQ---------------DGSVEVEYVEDSGFLTRRRFPSLRKLHIGGFCNLK--- 802

Query: 794 YRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKL------------SISYCP 841
             + R +     P L  + I  CP + V P      ++++KL            SIS   
Sbjct: 803 -GLQRMKGAEQFPVLEEMKISDCP-MFVFPTL----SSVKKLEIWGEADAGGLSSISNLS 856

Query: 842 IMEELRILEDHRTTDI 857
            +  L+I  +H  T +
Sbjct: 857 TLTSLKIFSNHTVTSL 872

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

Solanum bulbocastanum (taxid: 147425)

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

 Score =  316 bits (810), Expect = 4e-85,   Method: Compositional matrix adjust.
 Identities = 269/942 (28%), Positives = 429/942 (45%), Gaps = 164/942 (17%)

Query: 4   DKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVS 63
           +K +  WL +L  A+Y+++D+LDE+                       K     F ++  
Sbjct: 55  NKPLENWLQKLNAATYEVDDILDEY-----------------------KTKATRFSQSE- 90

Query: 64  NCFGSF--KQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLI 121
             +G +  K +  R  +  ++ ++ +K   IA ++  F   E +    ++  +  T S++
Sbjct: 91  --YGRYHPKVIPFRHKVGKRMDQVMKKLKAIAEERKNFHLHEKIVE--RQAVRRETGSVL 146

Query: 122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF 181
            E +V GR  EK+E++  L+   S+ Q  L V+ ++G+GG+GKTTLAQ+ +N+  V  +F
Sbjct: 147 TEPQVYGRDKEKDEIVKILINNVSDAQH-LSVLPILGMGGLGKTTLAQMVFNDQRVTEHF 205

Query: 182 EKVIWVCVSDTFEEIRVANAIIEG-------------------------------LDDVW 210
              IW+CVS+ F+E R+  AI+E                                LDDVW
Sbjct: 206 HSKIWICVSEDFDEKRLIKAIVESIEGRPLLGEMDLAPLQKKLQELLNGKRYLLVLDDVW 265

Query: 211 DGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEES---FSGRS 267
           + D  KW      LK G  G+ +L TTR E V  +MG+     +  L++E+    F  R+
Sbjct: 266 NEDQQKWANLRAVLKVGASGASVLTTTRLEKVGSIMGTLQPYELSNLSQEDCWLLFMQRA 325

Query: 268 FEDCEKLEP----IGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIG 323
           F   E++ P    IG++I +K  G+PLAAK  G +L  K   + W+   DS +W + +  
Sbjct: 326 FGHQEEINPNLVAIGKEIVKKSGGVPLAAKTLGGILCFKREERAWEHVRDSPIWNLPQDE 385

Query: 324 QGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIE 383
             +   L LSY+ LP +  +K+CF+YCA+FPK+  ++K++LISLWM  G+L  + + E+E
Sbjct: 386 SSILPALRLSYHQLPLD--LKQCFAYCAVFPKDAKMEKEKLISLWMAHGFLLSKGNMELE 443

Query: 384 MTGEEYFN----ISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVIN 439
             G+E +      S F++ +  D     KMHD++HD A               T     N
Sbjct: 444 DVGDEVWKELYLRSFFQEIEVKDGKTYFKMHDLIHDLA---------------TSLFSAN 488

Query: 440 SFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFR 499
           +    +R +    +   +  MSI        ++ ++  P               K    R
Sbjct: 489 TSSSNIREIN---KHSYTHMMSI----GFAEVVFFYTLPP------------LEKFISLR 529

Query: 500 ALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIR 559
            L +G   F          ++P ++  L+HL+YLNL    +  LPK LC+L NLQ LD++
Sbjct: 530 VLNLGDSTF---------NKLPSSIGDLVHLRYLNLYGSGMRSLPKQLCKLQNLQTLDLQ 580

Query: 560 WCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTC 619
           +C  L  LP    KL  +R+LL  G+  L  MP  I  LT L+TL +F +G         
Sbjct: 581 YCTKLCCLPKETSKLGSLRNLLLDGSQSLTCMPPRIGSLTCLKTLGQFVVGRK----KGY 636

Query: 620 RLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQ-Q 678
           +L  L NL L     I  L  V +  + +   L    NL  LS+ ++  G       + +
Sbjct: 637 QLGELGNLNLYGSIKISHLERVKNDKDAKEANLSAKGNLHSLSMSWNNFGPHIYESEEVK 696

Query: 679 LLEALQPPLNVKELGIVSYGGNIFPKWL--TSLTNLRDLRLKSCVICEHFPPLGKLP-LE 735
           +LEAL+P  N+  L I  + G   P+W+  + L N+  + + +   C   PP G LP LE
Sbjct: 697 VLEALKPHSNLTSLKIYGFRGIHLPEWMNHSVLKNIVSILISNFRNCSCLPPFGDLPCLE 756

Query: 736 KLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYR 795
            L L+  +G   V       E   E D    S   + I FP L+ L I     L+     
Sbjct: 757 SLELH--WGSADV-------EYVEEVDIDVHSGFPTRIRFPSLRKLDIWDFGSLK----G 803

Query: 796 ITRKENISIMPRLSSLTIWYCP------RLRVL--------------PDYLFQS-TTLQK 834
           + +KE     P L  + I  CP       LR L              P+ +F++   L+ 
Sbjct: 804 LLKKEGEEQFPVLEEMIIHECPFLTLSSNLRALTSLRICYNKVATSFPEEMFKNLANLKY 863

Query: 835 LSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLPD 876
           L+IS C  ++EL          +  L SL+I+ C  L  LP+
Sbjct: 864 LTISRCNNLKELPT----SLASLNALKSLKIQLCCALESLPE 901

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

Solanum bulbocastanum (taxid: 147425)

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

 Score =  305 bits (781), Expect = 9e-82,   Method: Compositional matrix adjust.
 Identities = 259/931 (27%), Positives = 441/931 (47%), Gaps = 129/931 (13%)

Query: 4   DKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVS 63
           + VV  W+++L+D  Y  ED LD+     L+L I G +  ++  L    + +R       
Sbjct: 63  NPVVEKWVNELRDVVYHAEDALDDIATEALRLNI-GAESSSSNRL----RQLRGRMSLGD 117

Query: 64  NCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQA-RTTSLID 122
              G+ + L  R      + ++  + + +ASQ++     E  +     PKQ   TTSL+D
Sbjct: 118 FLDGNSEHLETR------LEKVTIRLERLASQRNILGLKELTA---MIPKQRLPTTSLVD 168

Query: 123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE 182
           E EV GR D+K+E++ + L   + +  G+ V+++VG+GG+GKTTL+QL YN+  V+  F 
Sbjct: 169 ESEVFGRDDDKDEIM-RFLIPENGKDNGITVVAIVGIGGVGKTTLSQLLYNDQHVRSYFG 227

Query: 183 KVIWVCVSDTFEEIRVANAIIEG--------------------------------LDDVW 210
             +W  VS+ F+  ++   + E                                 LDD+W
Sbjct: 228 TKVWAHVSEEFDVFKITKKVYESVTSRPCEFTDLDVLQVKLKERLTGTGLPFLLVLDDLW 287

Query: 211 DGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEESFS------ 264
           + ++  W+       H   GS+IL+TTR++ VA +M + ++  ++ L++ + +S      
Sbjct: 288 NENFADWDLLRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLFMKTV 347

Query: 265 -GRSFEDC--EKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEE 321
            G   E C   ++  +  +I  KC+GLPLA K  G +LR +  + EW++ L S +W +  
Sbjct: 348 FGNQ-EPCLNREIGDLAERIVHKCRGLPLAVKTLGGVLRFEGKVIEWERVLSSRIWDLPA 406

Query: 322 IGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLN-VEEDE 380
               L   L +SY  LP++  +KRCF+YC+IFPK +  +K +++ LWM +G+L      +
Sbjct: 407 DKSNLLPVLRVSYYYLPAH--LKRCFAYCSIFPKGHAFEKDKVVLLWMAEGFLQQTRSSK 464

Query: 381 EIEMTGEEYFNISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINS 440
            +E  G EYF+  + +            MHD +++ AQF S +     E +G K  V   
Sbjct: 465 NLEELGNEYFSELESRSLLQKTKTRYI-MHDFINELAQFASGEFSSKFE-DGCKLQV--- 519

Query: 441 FGDKVRHLGLNFEGGASFPMSIHGLNR---LRTLLIYFQSPSNPS--LNSSILSELFSKL 495
             ++ R+L    +  A  PM    L     LRT L    + S+ S  L+  +  +L   L
Sbjct: 520 -SERTRYLSYLRDNYAE-PMEFEALREVKFLRTFLPLSLTNSSRSCCLDQMVSEKLLPTL 577

Query: 496 ACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQK 555
              R L +         +  + R  P+  + + H ++L+LS   +E+LPK+LC +YNLQ 
Sbjct: 578 TRLRVLSLS--------HYKIARLPPDFFKNISHARFLDLSRTELEKLPKSLCYMYNLQT 629

Query: 556 LDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMG----- 610
           L + +C  L+ELP  I  L  +R L   GT  L+ MP    +L SL+TL  F +      
Sbjct: 630 LLLSYCSSLKELPTDISNLINLRYLDLIGTK-LRQMPRRFGRLKSLQTLTTFFVSASDGS 688

Query: 611 -----GGVDDI-STCRLESLKNLQLLRECGIEGLSNVSHLDEDE---RLGLHNMKNLLRL 661
                GG+ D+    ++  L+ +  + +     L++  HL E +   R G  + +N    
Sbjct: 689 RISELGGLHDLHGKLKIVELQRVVDVADAAEANLNSKKHLREIDFVWRTGSSSSEN---- 744

Query: 662 SLEFDEEGEEGRRKNQ-QLLEALQPPLNVKELGIVSYGGNIFPKWLT--SLTNLRDLRLK 718
                      R +N+ ++ E L+P  ++++L I  Y G  FP WL+  S + +  +RL+
Sbjct: 745 ------NTNPHRTQNEAEVFEKLRPHRHIEKLAIERYKGRRFPDWLSDPSFSRIVCIRLR 798

Query: 719 SCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPK 777
            C  C   P LG+LP L++L + G+ G++ +G +F                      F  
Sbjct: 799 ECQYCTSLPSLGQLPCLKELHISGMVGLQSIGRKFYF--------SDQQLRDQDQQPFRS 850

Query: 778 LKSLHIGAMEELEEW-NYRITRKENISIMPRLSSLTIWYCPRLR-VLPDYLFQSTTLQKL 835
           L++L    + + +EW + R+TR +   + P L  L I  CP L   LP +L    +L  L
Sbjct: 851 LETLRFDNLPDWQEWLDVRVTRGD---LFPSLKKLFILRCPELTGTLPTFL---PSLISL 904

Query: 836 SISYCPIMEELRILEDHRTTDIPRLSSLEIE 866
            I  C +++      DH       L +L I+
Sbjct: 905 HIYKCGLLD---FQPDHHEYSYRNLQTLSIK 932

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  281 bits (720), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 264/897 (29%), Positives = 414/897 (46%), Gaps = 119/897 (13%)

Query: 7   VTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVSNCF 66
           V  WL  +KDA +  ED+LDE     L+ ++       A  L    +N+ +   A+    
Sbjct: 63  VKHWLTGIKDAFFQAEDILDELQTEALRRRVVA----EAGGLGGLFQNLMAGREAIQ--- 115

Query: 67  GSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLIDEGEV 126
              K++  + +  V++ E + K  ++   K+   + E      ++  ++R   L  +G +
Sbjct: 116 ---KKIEPKMEKVVRLLEHHVKHIEVIGLKE---YSETREPQWRQASRSRPDDL-PQGRL 168

Query: 127 CGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIW 186
            GRV++K  L++ LL +         VIS+VG+ G+GKTTL ++ +N+  V  +FE  +W
Sbjct: 169 VGRVEDKLALVNLLLSDDEISIGKPAVISVVGMPGVGKTTLTEIVFNDYRVTEHFEVKMW 228

Query: 187 VCVSDTFEEIRVANAIIEG------------------------------LDDVWDGDYNK 216
           +     F    V  A+++                               LDD W    ++
Sbjct: 229 ISAGINFNVFTVTKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSE 288

Query: 217 WEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEESF---SGRSFEDC-- 271
           WE F         GSKI+LTTR+E V+ +  +  I  ++ +T EE +   S  +F +   
Sbjct: 289 WESFQVAFTDAEEGSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWELISRFAFGNISV 348

Query: 272 ----EKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQGLF 327
               ++LE IG++IA +CKGLPLAA+A  + LRSK    +W     +           + 
Sbjct: 349 GSINQELEGIGKRIAEQCKGLPLAARAIASHLRSKPNPDDWYAVSKN----FSSYTNSIL 404

Query: 328 APLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYL-NVEEDEEIEMTG 386
             L LSY+ LP    +KRCF+ C+IFPK +   ++EL+ LWM    L        +E  G
Sbjct: 405 PVLKLSYDSLPPQ--LKRCFALCSIFPKGHVFDREELVLLWMAIDLLYQPRSSRRLEDIG 462

Query: 387 EEYFN--ISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINSFGDK 444
            +Y    +++      D  + S  MHD+++D A+ VS   C  +E +   E         
Sbjct: 463 NDYLGDLVAQSFFQRLDITMTSFVMHDLMNDLAKAVSGDFCFRLEDDNIPE-----IPST 517

Query: 445 VRHLGLN---FEGGASFPMSIHGLNRLRTLLIYFQSPSNP---SLNSSILSELFSKLACF 498
            RH   +    +   +F  SI G   LRT+L  F SP++     L   +L+ L + L+  
Sbjct: 518 TRHFSFSRSQCDASVAF-RSICGAEFLRTIL-PFNSPTSLESLQLTEKVLNPLLNALSGL 575

Query: 499 RALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDI 558
           R L +             I  +P++++ L  L+YL+LS   I+ LP+ +C L NLQ L +
Sbjct: 576 RILSLSHYQ---------ITNLPKSLKGLKLLRYLDLSSTKIKELPEFVCTLCNLQTLLL 626

Query: 559 RWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDIST 618
             C DL  LP  I +L  +R L   GTPL++ MP GI KL SL+ L  F +G     +S 
Sbjct: 627 SNCRDLTSLPKSIAELINLRLLDLVGTPLVE-MPPGIKKLRSLQKLSNFVIG----RLSG 681

Query: 619 CRLESLKNLQLLR-ECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGE---EGRR 674
             L  LK L  LR    I  L NV+   E +  GL     L  L L++  +G     G  
Sbjct: 682 AGLHELKELSHLRGTLRISELQNVAFASEAKDAGLKRKPFLDGLILKWTVKGSGFVPGSF 741

Query: 675 K-----NQQLLEALQPPLNVKELGIVSYGGNIFPKWL--TSLTNLRDLRLKSCVICEHFP 727
                  +++L  L+P  ++K   I SY G  FPKWL  +S   +  + L SC +C   P
Sbjct: 742 NALACDQKEVLRMLEPHPHLKTFCIESYQGGAFPKWLGDSSFFGITSVTLSSCNLCISLP 801

Query: 728 PLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAM 786
           P+G+LP L+ L++     +++VG +F   E +S   P           F  L+ L    M
Sbjct: 802 PVGQLPSLKYLSIEKFNILQKVGLDFFFGENNSRGVP-----------FQSLQILKFYGM 850

Query: 787 EELEEWNYRITRKENISIMPRLSSLTIWYCPRLR-VLPDYLFQSTTLQKLSISYCPI 842
              +EW   I  +    I P L  L I  CP LR   P+ L  ST   +++IS CP+
Sbjct: 851 PRWDEW---ICPELEDGIFPCLQKLIIQRCPSLRKKFPEGLPSST---EVTISDCPL 901

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q38834|R13L4_ARATH Disease resistance RPP13-like protein 4 OS=Arabidopsis thaliana GN=RPP13L4 PE=2 SV=2

 Score =  216 bits (550), Expect = 7e-55,   Method: Compositional matrix adjust.
 Identities = 194/682 (28%), Positives = 334/682 (48%), Gaps = 91/682 (13%)

Query: 81  KIREINEKPDDIASQKD-RFKFVENVSNHVKKPKQARTTSLIDEGEVCGRVDEKNELLSK 139
           +++EINE+   I SQ +  F+F+   +          ++ + D  +V G   +K ++  +
Sbjct: 114 RLQEINERITKIKSQVEPYFEFITPSNVGRDNGTDRWSSPVYDHTQVVGLEGDKRKI-KE 172

Query: 140 LLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVA 199
            LF S++ Q  L +++ VG+GG+GKTT+AQ  +N+ E++  FE+ IWV VS TF E ++ 
Sbjct: 173 WLFRSNDSQ--LLIMAFVGMGGLGKTTIAQEVFNDKEIEHRFERRIWVSVSQTFTEEQIM 230

Query: 200 NAIIEGL-----------------------------DDVWDGDYNKWEPFFHCLKHGLHG 230
            +I+  L                             DDVWD + + W+  +  L  G  G
Sbjct: 231 RSILRNLGDASVGDDIGTLLRKIQQYLLGKRYLIVMDDVWDKNLSWWDKIYQGLPRG-QG 289

Query: 231 SKILLTTRNESVARMMGSTN--IIFIEQLTEEES---FSGRSFE----DCEK--LEPIGR 279
             +++TTR+ESVA+ + + +      E L+ + S   F   +F      CE+  LE +G+
Sbjct: 290 GSVIVTTRSESVAKRVQARDDKTHRPELLSPDNSWLLFCNVAFAANDGTCERPELEDVGK 349

Query: 280 KIARKCKGLPLAAKATGNLLRSKS-ILKEWQKTLDSEMWKVEEIGQ-----GLFAPLLLS 333
           +I  KCKGLPL  KA G LL  K  +  EW++   +E ++ E  G       + + L LS
Sbjct: 350 EIVTKCKGLPLTIKAVGGLLLCKDHVYHEWRRI--AEHFQDELRGNTSETDNVMSSLQLS 407

Query: 334 YNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEYFN-- 391
           Y++LPS+  +K C    +++P++  I K++L+  W+ +G++          +GE+ F+  
Sbjct: 408 YDELPSH--LKSCILTLSLYPEDCVIPKQQLVHGWIGEGFVMWRNGRSATESGEDCFSGL 465

Query: 392 ----ISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINSFGDKVRH 447
               + +         I++CK+HD+V D    +++K+           S  N  G   RH
Sbjct: 466 TNRCLIEVVDKTYSGTIITCKIHDMVRDLVIDIAKKD-----------SFSNPEGLNCRH 514

Query: 448 LGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRN 507
           LG++   G      I   ++LR ++   ++     LNS  L++ F+     R L I +  
Sbjct: 515 LGIS---GNFDEKQIKVNHKLRGVVSTTKTGEVNKLNSD-LAKKFTDCKYLRVLDISKS- 569

Query: 508 FIFDPYPNLIREIPENVRKLIHLKYLNLSELC-IERLPKTLCELYNLQKLDIRWCEDLRE 566
            IFD     + EI + +  L HL  L+LS    + + P+++ +L+NLQ LD  +C++L++
Sbjct: 570 -IFDAP---LSEILDEIASLQHLACLSLSNTHPLIQFPRSMEDLHNLQILDASYCQNLKQ 625

Query: 567 LPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKN 626
           L   I   KK+  L       L+  P GI  L  L  L  F      +    C+L  +KN
Sbjct: 626 LQPCIVLFKKLLVLDMTNCGSLECFPKGIGSLVKLEVLLGFKPARSNNG---CKLSEVKN 682

Query: 627 LQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLE-FDEEGEEGRRKNQQLLEALQP 685
           L  LR+ G+  L+    ++E+E   L N+  L+ +S+  +D  G++   K    ++AL P
Sbjct: 683 LTNLRKLGL-SLTRGDQIEEEELDSLINLSKLMSISINCYDSYGDDLITK----IDALTP 737

Query: 686 PLNVKELGIVSYGGNIFPKWLT 707
           P  + EL +  Y G   P WL+
Sbjct: 738 PHQLHELSLQFYPGKSSPSWLS 759

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8W3K3|DRL8_ARATH Putative disease resistance protein At1g58400 OS=Arabidopsis thaliana GN=At1g58400 PE=3 SV=1

 Score =  186 bits (473), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 206/760 (27%), Positives = 340/760 (44%), Gaps = 151/760 (19%)

Query: 147 QQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEGL 206
           ++  + ++S+ G+GG+GKTTLA+  +N+++VK  F+++ WVCVS  F    V   I++ L
Sbjct: 180 EEDDIQIVSVTGMGGLGKTTLARQVFNHEDVKHQFDRLAWVCVSQEFTRKNVWQMILQNL 239

Query: 207 ----------------------------------DDVW-DGDYNKWEPFFHCLKHGLHGS 231
                                             DD+W + D+    P F   K    G 
Sbjct: 240 TSRETKDEILQMEEAELHDELFQLLETSKSLIVFDDIWKEEDWGLINPIFPPKK----GW 295

Query: 232 KILLTTRNESVARMMGSTNIIFI--EQLTEEESF-----------SGRSFEDCEKLEPIG 278
           K+L+T+R E++A M G+   +    E LT  ES+               F+  +++E +G
Sbjct: 296 KVLITSRTETIA-MHGNRRYVNFKPECLTILESWILFQRIAMPRVDESEFKVDKEMEMMG 354

Query: 279 RKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQ---------GLFAP 329
           +++ + C GLPLA K  G LL +K    +W++   SE      +G+          ++  
Sbjct: 355 KQMIKYCGGLPLAVKVLGGLLAAKYTFHDWKRL--SENIGCHIVGRTDFSDGNNSSVYHV 412

Query: 330 LLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEE--DEEIEMTGE 387
           L LS+ +LPS   +K CF Y A FP+++NIK ++L   W  +G L       + I   GE
Sbjct: 413 LSLSFEELPS--YLKHCFLYLAHFPEDHNIKVEKLSYCWAAEGILEPRHYHGQTIRDVGE 470

Query: 388 EYF------NISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVINSF 441
            Y       N+   ++D       +C +HD++ +     +++E  +V+I        NS 
Sbjct: 471 SYIEELVRRNMVIAERDVTTLRFEACHLHDMMREVCLLKAKEEN-FVQIASILPPTANS- 528

Query: 442 GDKVRHLGLNFEGGASFPMSIH---GLN--RLRTLLIYFQSPSNPSLNSSILSELFSKLA 496
               ++ G +    +  P ++H    +N  +L++LLI ++   N   +  +L   F +L 
Sbjct: 529 ----QYPGTSRRFVSQNPTTLHVSRDINNPKLQSLLIVWE---NRRKSWKLLGSSFIRLE 581

Query: 497 CFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKL 556
             R L + +  F         R +P  + KLIHL+YLNL    + RLP +L  L  L  L
Sbjct: 582 LLRVLDLYKAKFEG-------RNLPSGIGKLIHLRYLNLDLARVSRLPSSLGNLRLLIYL 634

Query: 557 DIRWCEDLRELP---AGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGV 613
           DI  C     +P    G+ +L+ +R   N      K + +G+  L +L TLE F+     
Sbjct: 635 DINVCTKSLFVPNCLMGMHELRYLRLPFNTS----KEIKLGLCNLVNLETLENFS----- 685

Query: 614 DDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGR 673
                  LE L+ +  LR   I    ++S   E     +  M++L  LS+       +G 
Sbjct: 686 --TENSSLEDLRGMVSLRTLTIGLFKHIS--KETLFASILGMRHLENLSI----RTPDGS 737

Query: 674 RKNQQLLE--ALQPPLNVKELGIVSYGGNI-----FPKWLTSLTNLRDLRLKSCVICEHF 726
            K ++++E   +   +++K+L +  Y   +     FP  LTS++      L  C + E  
Sbjct: 738 SKFKRIMEDGIVLDAIHLKQLNLRLYMPKLPDEQHFPSHLTSIS------LDGCCLVEDP 791

Query: 727 PPLGKLPLEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAM 786
            P+    LEK  L  L  V+     F G    S D             FP+L  L+I  +
Sbjct: 792 LPI----LEK--LLELKEVRLDFRAFCGKRMVSSDG-----------GFPQLHRLYIWGL 834

Query: 787 EELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYL 826
            E EEW   I  + +   MPRL +LTIW C +L+ LPD L
Sbjct: 835 AEWEEW---IVEEGS---MPRLHTLTIWNCQKLKQLPDGL 868

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q39214|RPM1_ARATH Disease resistance protein RPM1 OS=Arabidopsis thaliana GN=RPM1 PE=1 SV=1

 Score =  185 bits (470), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 175/643 (27%), Positives = 291/643 (45%), Gaps = 132/643 (20%)

Query: 15  KDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVSNCFGSF---KQ 71
           +D +Y +ED+LDE+ +      I G                   +R+ +  + +F   + 
Sbjct: 72  RDLAYQIEDILDEFGY-----HIHG-------------------YRSCAKIWRAFHFPRY 107

Query: 72  LSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKP----------KQARTTSLI 121
           +  R  IA K+  +N     I+    R+   EN    +  P            + ++   
Sbjct: 108 MWARHSIAQKLGMVNVMIQSISDSMKRYYHSENYQAALLPPIDDGDAKWVNNISESSLFF 167

Query: 122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF 181
            E  + G    K +L+ +LL  S E Q+   V+++VG+GG GKTTL+   + +  V+R+F
Sbjct: 168 SENSLVGIDAPKGKLIGRLL--SPEPQRI--VVAVVGMGGSGKTTLSANIFKSQSVRRHF 223

Query: 182 EKVIWVCVSDTF-----------EEIRVANAIIEG------------------------- 205
           E   WV +S ++           E  + A+  I                           
Sbjct: 224 ESYAWVTISKSYVIEDVFRTMIKEFYKEADTQIPAELYSLGYRELVEKLVEYLQSKRYIV 283

Query: 206 -LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARM---MGSTNIIFIEQLTEEE 261
            LDDVW      W      L  G++GS++++TTR+ +VA     +GST    IE L E+E
Sbjct: 284 VLDDVWTTGL--WREISIALPDGIYGSRVMMTTRDMNVASFPYGIGSTKH-EIELLKEDE 340

Query: 262 S---FSGRSF----EDC--EKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTL 312
           +   FS ++F    E C  + LEPI RK+  +C+GLPLA  + G+++ +K    EW+K  
Sbjct: 341 AWVLFSNKAFPASLEQCRTQNLEPIARKLVERCQGLPLAIASLGSMMSTKKFESEWKKVY 400

Query: 313 DSEMWKVEEIGQ--GLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMV 370
            +  W++    +   + + + LS+NDLP    +KRCF YC++FP  Y +K+K LI +WM 
Sbjct: 401 STLNWELNNNHELKIVRSIMFLSFNDLPYP--LKRCFLYCSLFPVNYRMKRKRLIRMWMA 458

Query: 371 QGYLNVEEDEEIEMTGEEYFNISKFKKD------DDDDDIMSCKMHDIVHDFAQFVSRKE 424
           Q ++      + E   + Y N   ++        +      + KMHD++ + A  VS+ E
Sbjct: 459 QRFVEPIRGVKAEEVADSYLNELVYRNMLQVILWNPFGRPKAFKMHDVIWEIALSVSKLE 518

Query: 425 CLWVEINGTKES-----VINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPS 479
                 N   +       + ++G   RHL +  E     P SI   N L +LL+   +  
Sbjct: 519 RFCDVYNDDSDGDDAAETMENYGS--RHLCIQKEMT---PDSIRATN-LHSLLVCSSAKH 572

Query: 480 NPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELC 539
                     EL   L   RAL         D   + I ++P+ +  + +LKYLNLS+  
Sbjct: 573 K--------MELLPSLNLLRAL---------DLEDSSISKLPDCLVTMFNLKYLNLSKTQ 615

Query: 540 IERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLN 582
           ++ LPK   +L NL+ L+ +  + + ELP G+ KLKK+R L+ 
Sbjct: 616 VKELPKNFHKLVNLETLNTKHSK-IEELPLGMWKLKKLRYLIT 657

Disease resistance (R) protein that specifically recognizes the AvrRpm1 type III effector avirulence protein from Pseudomonas syringae. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Acts via its interaction with RIN4, and probably triggers the plant resistance when RIN4 is phosphorylated by AvrRpm1. It is then degraded at the onset of the hypersensitive response.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  166 bits (421), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 241/909 (26%), Positives = 384/909 (42%), Gaps = 165/909 (18%)

Query: 4   DKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVS 63
           D+V  F L+ +KD  +D ED+++ +V  +L  + +GV           KK+VR       
Sbjct: 56  DRVRNF-LEDVKDLVFDAEDIIESYVLNKLSGKGKGV-----------KKHVRRL----- 98

Query: 64  NCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQAR------- 116
            CF     L+ R  +A  I  I ++  ++  +   F   + +        Q R       
Sbjct: 99  ACF-----LTDRHKVASDIEGITKRISEVIGEMQSFGIQQIIDGGRSLSLQERQRVQREI 153

Query: 117 --TTSLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN 174
             T     E ++ G      EL+  L+     Q     V+S+ G+GG+GKTTLA+  +++
Sbjct: 154 RQTYPDSSESDLVGVEQSVKELVGHLVENDVHQ-----VVSIAGMGGIGKTTLARQVFHH 208

Query: 175 DEVKRNFEKVIWVCVSDTFEEIRVANAIIEGLDDVWDGD------YNKWEPFFHCLKHGL 228
           D V+R+F+   WVCVS  F +  V   I++ L    DGD      Y      F  L+ G 
Sbjct: 209 DLVRRHFDGFAWVCVSQQFTQKHVWQRILQELQP-HDGDILQMDEYALQRKLFQLLEAGR 267

Query: 229 H------------------------GSKILLTTRNESVARMMGSTNIIFIEQ-LTEEES- 262
           +                        G K+LLT+RNE V      T + F    L  EES 
Sbjct: 268 YLVVLDDVWKKEDWDVIKAVFPRKRGWKMLLTSRNEGVGIHADPTCLTFRASILNPEESW 327

Query: 263 -------FSGRSFEDC---EKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTL 312
                  F  R   +    E++E +G+++   C GLPLA KA G LL +K  + EW++  
Sbjct: 328 KLCERIVFPRRDETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKRVF 387

Query: 313 DS-------EMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELI 365
           D+         W  +     ++  L LSY DLP++  +K CF   A FP++  I    L 
Sbjct: 388 DNIGSQIVGGSWLDDNSLNSVYRILSLSYEDLPTH--LKHCFLNLAHFPEDSEISTYSLF 445

Query: 366 SLWMVQGYLNVEEDEEIEMTGEEYF-NISKFKKDDDDDDIMS-----CKMHDIVHDFAQF 419
             W  +G   + +   IE +GE Y   + +      DD+ +S     C+MHD++ +    
Sbjct: 446 YYWAAEG---IYDGSTIEDSGEYYLEELVRRNLVIADDNYLSWQSKYCQMHDMMREVCLS 502

Query: 420 VSRKE-CLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIH-GLNRLRTLLIYFQS 477
            +++E  L + I+ T  S IN+     R   L+   G +F +  H    ++R+L++    
Sbjct: 503 KAKEENFLQIIIDPTCTSTINA-QSPSRSRRLSIHSGKAFHILGHKNKTKVRSLIV---- 557

Query: 478 PSNPSLNSSIL---SELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLN 534
              P          + +F  L   R L +    F          ++P ++  LIHL+YL+
Sbjct: 558 ---PRFEEDYWIRSASVFHNLTLLRVLDLSWVKFEGG-------KLPCSIGGLIHLRYLS 607

Query: 535 LSELCIERLPKTLCELYNLQKLDIRW-CEDLRELPAGIGKLKKMRSLLNGGTPLL--KYM 591
           L E  +  LP T+  L  L  L++R   E+   +P  + ++ ++R L     PL      
Sbjct: 608 LYEAKVSHLPSTMRNLKLLLYLNLRVDTEEPIHVPNVLKEMIQLRYL---SLPLKMDDKT 664

Query: 592 PIGISKLTSLRTLEKFA-MGGGVDDISTCRLESLKNL--QLLRECGIEGLSNVSHLDEDE 648
            + +  L +L  L  F+     V D+   R+  L+ L   L   C  E LS+        
Sbjct: 665 KLELGDLVNLEYLYGFSTQHSSVTDL--LRMTKLRYLAVSLSERCNFETLSS-------- 714

Query: 649 RLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTS 708
              L  ++NL  L+  F  E        + +L+     +++K+LG+      I P     
Sbjct: 715 --SLRELRNLETLNFLFSLETYMVDYMGEFVLDHF---IHLKQLGLAVRMSKI-PDQHQF 768

Query: 709 LTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSS 768
             +L  L L  C + E   P+    LEKL    L  V+     FLG           S  
Sbjct: 769 PPHLVHLFLIYCGMEEDPMPI----LEKLL--HLKSVRLARKAFLG-----------SRM 811

Query: 769 SSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQ 828
             S   FP+L  + I    ELEEW   I  + +   MP L +LTI  C +L+ LPD L  
Sbjct: 812 VCSKGGFPQLCVIEISKESELEEW---IVEEGS---MPCLRTLTIDDCKKLKELPDGLKY 865

Query: 829 STTLQKLSI 837
            T+L++L I
Sbjct: 866 ITSLKELKI 874

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)

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	876
224122712	945	cc-nbs-lrr resistance protein [Populus t	0.923	0.856	0.420	1e-173
224114824	941	cc-nbs-lrr resistance protein [Populus t	0.906	0.843	0.407	1e-170
359482790	923	PREDICTED: putative disease resistance p	0.917	0.871	0.413	1e-169
359482784	919	PREDICTED: putative disease resistance p	0.918	0.875	0.419	1e-166
359482792	922	PREDICTED: putative disease resistance p	0.915	0.869	0.421	1e-166
224134406	987	cc-nbs-lrr resistance protein [Populus t	0.952	0.844	0.398	1e-165
147825450	927	hypothetical protein VITISV_000086 [Viti	0.918	0.868	0.419	1e-162
224115620	963	cc-nbs-lrr resistance protein [Populus t	0.928	0.844	0.406	1e-159
224122696	906	cc-nbs-lrr resistance protein [Populus t	0.860	0.832	0.404	1e-157
359482769	904	PREDICTED: putative disease resistance p	0.900	0.872	0.404	1e-157

>gi|224122712|ref|XP_002318907.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222859580|gb|EEE97127.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  616 bits (1589), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 381/907 (42%), Positives = 536/907 (59%), Gaps = 98/907 (10%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
           +DK V  W+D+LKDA YDM+DVLDEW  A L+ ++E  +++        ++ +R  F   
Sbjct: 58  KDKAVRDWVDKLKDACYDMDDVLDEWSTAILRWKMEEAEENTH-----SRQKIRCSFLG- 111

Query: 63  SNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLID 122
           S CF  F Q+  R+DIA+KI+E++EK DDIA ++ ++ F  ++     + ++  TTS +D
Sbjct: 112 SPCF-CFNQVVRRRDIALKIKEVSEKVDDIAKERAKYGF--DLYKGTDELQRLTTTSFVD 168

Query: 123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE 182
           E  V GR  EK  ++SKLL ESS + + + VISLVGLGG+GKTTLAQLA+N+ EV  +FE
Sbjct: 169 ESSVIGRDGEKRNVVSKLLAESSHEARDVDVISLVGLGGIGKTTLAQLAFNDSEVTAHFE 228

Query: 183 KVIWVCVSDTFEEIRVANAIIEGL------------------------------DDVWDG 212
           K IWVCVS+ F+EIR+A AI+E L                              DDVW  
Sbjct: 229 KKIWVCVSEPFDEIRIAKAILEQLEGRPTNLVELQSLLQGVSESITGKRLLLVLDDVWTE 288

Query: 213 DYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEE--------ESFS 264
           ++ +WE     L     GS+IL+TTR ++VA MMG+ + I IE+L++E         +F 
Sbjct: 289 NHGQWEQLKPSLTGCARGSRILVTTRKDAVATMMGTDHRINIEKLSDEICRSIFNHVAFQ 348

Query: 265 GRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQ 324
            RS ++ E+L  IG KIA KCKGLPLAAK  G L++SK   +EW++ L SE+W+++E+ +
Sbjct: 349 ERSEDERERLTDIGDKIANKCKGLPLAAKVLGGLMQSKRTREEWERVLSSELWRLDEVDR 408

Query: 325 G-----LFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEED 379
                 +F PLLLSY DLPS  +V+RCF YCA+FPK+Y + K EL+ +WM QGY+     
Sbjct: 409 DQVESRIFIPLLLSYYDLPS--VVRRCFLYCAMFPKDYEMGKYELVKMWMAQGYIKETSG 466

Query: 380 EEIEMTGEEYFNISKFKK--DDDDDDI---MSCKMHDIVHDFAQFVSRKECLWVEINGTK 434
            ++E+ GE YF++   +    D + DI   M  KMHDIVHDFAQ++++ ECL V++N   
Sbjct: 467 GDMELVGERYFHVLAARSFFQDFETDIFEGMKFKMHDIVHDFAQYMTKNECLTVDVNTLG 526

Query: 435 ESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSK 494
            + + +  ++VRHL +      SFP+SIH    LR+LLI      +PSL ++ L +LF +
Sbjct: 527 GATVETSIERVRHLSMMVSEETSFPVSIHKAKGLRSLLI---DTRDPSLGAA-LPDLFKQ 582

Query: 495 LACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELC-IERLPKTLCELYNL 553
           L C R+L +   +         I+EIP  V KLIHL+++NL+    +E LP+T+C+L NL
Sbjct: 583 LTCIRSLNLSASS---------IKEIPNEVGKLIHLRHVNLARCGELESLPETMCDLCNL 633

Query: 554 QKLDIRWCEDLRELPAGIGKLKKMRSL--LNGGTPLLKYMPIGISKLTSLRTLEKFAM-G 610
           Q LD+ WC  L+ELP  IGKL K+R L     G   + ++P GI ++T LRTL+ F + G
Sbjct: 634 QSLDVTWCRSLKELPNAIGKLIKLRHLRIYRSG---VDFIPKGIERITCLRTLDVFKVCG 690

Query: 611 GGVDDISTCRLESLKNLQLL------RECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLE 664
           GG ++     L  LKNL  +      R  G  G+ + S   E +   L N K L RL L 
Sbjct: 691 GGENESKAANLRELKNLNHIGGSLNIRNLG-GGIEDASDAAEAQ---LKNKKRLRRLELV 746

Query: 665 FDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICE 724
           FD E  E +     L+EALQPP N++ L I SYGG   P W+ +LT L  L L  C   E
Sbjct: 747 FDREKTELQANEGSLIEALQPPSNLEYLTISSYGGFDLPNWMMTLTRLLALELHDCTKLE 806

Query: 725 HFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHI 783
             PPLG+LP LE+L L  L  V+R+   FLGIE   E+   +    + V AFPKLK L I
Sbjct: 807 VLPPLGRLPNLERLALRSL-KVRRLDAGFLGIE-KDENASINEGEIARVTAFPKLKILEI 864

Query: 784 GAMEELEEWNYRITRKEN-----ISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSIS 838
             ++E +    R   +E+     ISIMP+L  LTI  CP LR LPDY+  +  LQ+L I 
Sbjct: 865 WNIKEWDGIERRSVGEEDATTTSISIMPQLRQLTIHNCPLLRALPDYVL-AAPLQELYIG 923

Query: 839 YCPIMEE 845
            CP + E
Sbjct: 924 GCPNLGE 930

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224114824|ref|XP_002332291.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222832453|gb|EEE70930.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  604 bits (1558), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 371/911 (40%), Positives = 536/911 (58%), Gaps = 117/911 (12%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
           +DK +  W+D+LKD  YDM+DVLDEW  A L+ ++E  +++      P +K +R  F  +
Sbjct: 54  KDKALRDWVDKLKDVCYDMDDVLDEWSTAILRWKMEEAEENT-----PSRKKIRCSF--L 106

Query: 63  SNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLID 122
            + F    Q+  R+DIA+KI+E+ EK DDIA ++  + F   +     + ++  +TSL+D
Sbjct: 107 GSPFFCLNQVVQRRDIALKIKEVCEKVDDIAKERAMYGF--ELYRATDELQRITSTSLVD 164

Query: 123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE 182
           E  V GR D++  ++SKLL ES ++   + VISLVG+GG+GKTTLAQLA+N+DEV  +FE
Sbjct: 165 ESSVIGRDDKREAVVSKLLGESIQEAGDVEVISLVGMGGIGKTTLAQLAFNDDEVTAHFE 224

Query: 183 KVIWVCVSDTFEEIRVANAIIEGL------------------------------DDVWDG 212
           K IWVCVSD F+E+R+  AI+E L                              DDVW  
Sbjct: 225 KKIWVCVSDPFDEVRIGKAILEQLEGRAPDLVELQSLLQRVSESIKGERFLLVLDDVWTE 284

Query: 213 DYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEE--------SFS 264
           ++ +WE     L     GS+IL+TTR  SVA MMG+ ++I +E+L++E         +F 
Sbjct: 285 NHRQWEQLKPSLTGCARGSRILVTTRKHSVATMMGTGHVINLEKLSDEVCRSIFNHVAFQ 344

Query: 265 GRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQ 324
            RS ++ E+L   G KIA KCKGLPLAAK  G L++SK   +EW++   SE+W ++E+ +
Sbjct: 345 QRSKDERERLTDTGDKIANKCKGLPLAAKVLGGLMQSKRTREEWERVFCSELWGLDEVDR 404

Query: 325 -----GLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEED 379
                G+F PLLLSY DLPS  MV+RCF YCA+FPK+Y ++K EL+ +W+ QGYL     
Sbjct: 405 DQVERGIFLPLLLSYYDLPS--MVRRCFLYCAMFPKDYEMRKYELVKMWIAQGYLKETSG 462

Query: 380 EEIEMTGEEYFNI-------SKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEING 432
            ++E  GE+YF +         FK  D +D  +  KMHDIVHDFAQ++++ ECL V++N 
Sbjct: 463 GDMEAVGEQYFQVLAARSFFQDFKTYDRED--VRFKMHDIVHDFAQYMTKNECLTVDVNN 520

Query: 433 TKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELF 492
            +E+ + +  ++VRHL +       FP+SIH    LR+L I      +P L ++ L ++F
Sbjct: 521 LREATVETSIERVRHLSMMLSKETYFPVSIHKAKGLRSLFI---DARDPWLGAA-LPDVF 576

Query: 493 SKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELC-IERLPKTLCELY 551
            +L C R+L +           +LI+EIP  V KLIHL++LNL++   +E LP+ +C+L 
Sbjct: 577 KQLTCIRSLNLSM---------SLIKEIPNEVGKLIHLRHLNLADCYKLESLPEIMCDLC 627

Query: 552 NLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAM-G 610
            LQ LD+  C  L ELP  IGKL K+R L   G+ ++ +MP GI ++T LRTL+ FA+ G
Sbjct: 628 KLQSLDVTTCRSLWELPKAIGKLIKLRHLRICGS-IVAFMPKGIERITCLRTLDWFAVCG 686

Query: 611 GGVDDISTCRLESLKNLQLLR--------ECGIEGLSNVSHLDEDERLGLHNMKNLLRLS 662
           GG D+     L  LKNL  +           G+EG  + +         L N K L  L 
Sbjct: 687 GGEDESKAANLRELKNLNHIGGSLRVYNLRGGLEGARDAAEAQ------LKNKKRLRCLQ 740

Query: 663 LEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVI 722
           L FD +     R+N  L+EALQPP +++ L I  YGG  FP W+ +LT L++L L   V 
Sbjct: 741 LYFDFD-----RENDILIEALQPPSDLEYLTISRYGGLDFPNWMMTLTRLQELTLDYYVN 795

Query: 723 CEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSL 781
            +  PPLG+LP LE L L GL  V+R+   F+GI+  +E +       + V AFPKLK L
Sbjct: 796 LKVLPPLGRLPNLESLELRGL-KVRRLDVGFIGIKSVNERE------IARVTAFPKLKKL 848

Query: 782 HIGAMEELEEWNYRITRKE---------NISIMPRLSSLTIWYCPRLRVLPDYLFQSTTL 832
            +  ++E+EEW+  I R+          +ISIMP+L  LTI  CP LR LPDY+  S  L
Sbjct: 849 WVLNLKEVEEWD-GIERRSVGEEDANTTSISIMPQLRQLTIRNCPLLRALPDYVLAS-PL 906

Query: 833 QKLSISYCPIM 843
           Q++ IS CPI+
Sbjct: 907 QEMVISICPIL 917

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482790|ref|XP_002268671.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  602 bits (1552), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 382/924 (41%), Positives = 536/924 (58%), Gaps = 120/924 (12%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
           +DK V  WL+ LKD +Y+MEDVLDEW  A L+ Q+EGV+            N  +  + V
Sbjct: 58  KDKSVQGWLESLKDMAYEMEDVLDEWSIAILQFQMEGVE------------NASTSKKKV 105

Query: 63  SNCFGS----FKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTT 118
           S C  S    FKQ++ R+DIA+KI+ I ++ DDI  ++ RF FV + S   ++P++  TT
Sbjct: 106 SFCMPSPCICFKQVASRRDIALKIKGIKQQLDDIERERIRFNFVSSRSE--ERPQRLITT 163

Query: 119 SLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVK 178
           S ID  EV GR  +K  +L  LL +  +++ GL+++S+VG GGMGKTTLAQLAY++ EVK
Sbjct: 164 SAIDISEVYGRDMDKKIILDHLLGKMCQEKSGLYIVSIVGTGGMGKTTLAQLAYSHSEVK 223

Query: 179 RNFEKVIWVCVSDTFEEIRVANAIIEG------------------------------LDD 208
            +F++ IWVCVSD ++ IRV  AI+E                               LDD
Sbjct: 224 VHFDERIWVCVSDPYDPIRVCRAIVEALQKKPCHLHDLEAVQQEIQTCIAGQKFLLVLDD 283

Query: 209 VWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEES------ 262
           VW  D   WE   + L  G  GS+IL TTR ESV +MM +T    + +L+ E+S      
Sbjct: 284 VWTEDNQLWEQLKNTLHCGAAGSRILATTRKESVVKMMRATYKHPLGELSSEQSRALFHQ 343

Query: 263 ---FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKV 319
              +   ++E  E+L+ IG KIA KCKGLPLA K  GNLLR K+  +EW+  L+SE+W++
Sbjct: 344 IAFYERSTWEKEEELKEIGEKIADKCKGLPLAIKTLGNLLRIKNSEEEWKNVLNSEVWQL 403

Query: 320 EEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEED 379
           +E  + +   LLLSY DLP    ++RCFS+CA+FPK+  I++ ELI LWM Q YL  +  
Sbjct: 404 DEFERDISPALLLSYYDLP--PAIQRCFSFCAVFPKDSVIERDELIKLWMAQSYLKSDGS 461

Query: 380 EEIEMTGEEYFN-------ISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEING 432
           +E+EM G  YF           F+K DDD +I+ CKMHDIVHDFAQF++  EC  VE++ 
Sbjct: 462 KEMEMVGRTYFEYLAARSFFQDFEK-DDDGNIIHCKMHDIVHDFAQFLTLNECFIVEVDN 520

Query: 433 TKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELF 492
            K+  ++ F  K+RH  L          S   +  L TLL      +  + +S +L E  
Sbjct: 521 QKKGSMDLFFQKIRHATLVVRESTPNFASTCNMKNLHTLL------AKRAFDSRVL-EAL 573

Query: 493 SKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSEL-CIERLPKTLCELY 551
             L C RAL +            LI E+P+ V KLIHL+YLNLS    +  LP+T+C+LY
Sbjct: 574 GHLTCLRALDLRSN--------QLIEELPKEVGKLIHLRYLNLSYCDSLRELPETICDLY 625

Query: 552 NLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGG 611
           NLQ L+I+ C  L++LP  +GKL  +R L N     L+ +P GI +L+SL+TL+ F +  
Sbjct: 626 NLQTLNIQACSRLQKLPQAMGKLINLRHLENYDADDLQGLPKGIGRLSSLQTLDVFIVSS 685

Query: 612 GVDDISTCRLESLKNLQLLR-ECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGE 670
             +D   C++E L+NL  LR    I+GL  V    E E+  L N  +L RL+LEF   GE
Sbjct: 686 HGND--ECQIEDLRNLNNLRGRLSIQGLDEVKDAGEAEKAELQNRVHLQRLTLEFG--GE 741

Query: 671 EGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWL--TSLTNLRDLRLKSCVICEHFPP 728
           EG    + + EALQP  N+K L I+ YG   +P W+  +SL  L+ L L+ C+ C   PP
Sbjct: 742 EG---TKGVAEALQPHPNLKFLCIIRYGDREWPNWMMGSSLAQLKILHLRFCIRCPCLPP 798

Query: 729 LGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAME 787
           LG+LP LE+L +  +YG+K +G+EFLG             SSS+V  FPKLK L+I  ++
Sbjct: 799 LGQLPVLEELGICFMYGLKYIGSEFLG-------------SSSTV--FPKLKGLYIYGLD 843

Query: 788 ELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELR 847
           EL++W   I  KE  SIMP L++L   +CP+L  LPD++ Q   LQKL+I Y P++E   
Sbjct: 844 ELKQWE--IKEKEERSIMPCLNALRAQHCPKLEGLPDHVLQRAPLQKLNIKYSPVLERRY 901

Query: 848 ---ILED-HRTTDIPRLSSLEIEY 867
              I ED H+ + IP     E+EY
Sbjct: 902 RKDIGEDGHKISHIP-----EVEY 920

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482784|ref|XP_002269044.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  591 bits (1524), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 383/912 (41%), Positives = 533/912 (58%), Gaps = 107/912 (11%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
           ++K V  WL++LKD +Y M+DV+DEW  A L+LQI+G +     S +  KK V S     
Sbjct: 58  KEKSVQGWLERLKDMAYQMDDVVDEWSTAILQLQIKGAE-----SASMSKKKVSSCIP-- 110

Query: 63  SNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLID 122
           S CF   KQ++ R+DIA+KI+ I ++ D IASQ+ +F F+ ++S   ++P++  TTS +D
Sbjct: 111 SPCF-CLKQVASRRDIALKIKGIKQQLDVIASQRSQFNFISSLS---EEPQRFITTSQLD 166

Query: 123 EGEVCGRVDEKNELLSKLLFES-SEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF 181
             EV GR  +KN +L  LL E+  E + G H+IS+VG GGMGKTTLAQLAYN+ EVK +F
Sbjct: 167 IPEVYGRDMDKNTILGHLLGETCQETESGPHIISIVGTGGMGKTTLAQLAYNHPEVKAHF 226

Query: 182 EKVIWVCVSDTFEEIRVANAIIE------------------------------GLDDVWD 211
           ++ IWVCVSD F+ IR+   I+E                               LDDVW 
Sbjct: 227 DERIWVCVSDPFDPIRIFREIVEILQRESPNLHSLEALQQKIQTCIAGKKFLLVLDDVWT 286

Query: 212 GDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEES--------F 263
            ++  WE     L  G  GS+IL+TTR ESV  MM +T +  + +L+E++S        F
Sbjct: 287 ENHQLWEQLNSTLSCGGVGSRILVTTRKESVVEMMRTTYMHSLGKLSEDKSRALFYQIAF 346

Query: 264 SGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIG 323
            G++ E  E  + IG KIA KCKGLPLA K  GNL+RSK   +EW+  L SE+WK++  G
Sbjct: 347 YGKNREKMEDFQEIGEKIADKCKGLPLAIKTLGNLMRSKHNREEWENVLCSEVWKLDVFG 406

Query: 324 QGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIE 383
           + +   LLLSY DLP    +KRCFS+CA+FPK+  I++ ELI LWM Q YL  +  +E+E
Sbjct: 407 RDISPALLLSYYDLPPT--IKRCFSFCAVFPKDSVIERDELIKLWMAQSYLKSDGSKEME 464

Query: 384 MTGEEYFN---ISKFKKD---DDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESV 437
           M G EYF       F +D   D DDDI+ CKMHDIVHDFAQF+++ EC  VE++  K+  
Sbjct: 465 MVGREYFEYLAARSFFQDFEKDGDDDIIRCKMHDIVHDFAQFLTQNECFVVEVDNQKKGS 524

Query: 438 INSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLAC 497
           ++ F  K+ H  L  +       S   +  L TLL      +  + +S +L E    L C
Sbjct: 525 MDLFFQKICHATLVVQESTLNFASTCNMKNLHTLL------AKSAFDSRVL-EALGHLTC 577

Query: 498 FRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSEL-CIERLPKTLCELYNLQKL 556
            RAL +         +  LI E+P+ V KLIHL+YL+LS    +  LP+T+C+LYNLQ L
Sbjct: 578 LRALDLS--------WNQLIEELPKEVGKLIHLRYLDLSRCQSLRELPETICDLYNLQTL 629

Query: 557 DIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDI 616
           +I++C  L++LP  +GKL  +R L N  T  LK +P GI +L+SL+TL+ F +    +D 
Sbjct: 630 NIQYCISLQKLPQAMGKLINLRHLEN-YTRSLKGLPKGIGRLSSLQTLDVFIVSSHGND- 687

Query: 617 STCRLESLKNLQLLR-ECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRK 675
             C++  L+NL  LR    I+GL  V    E E+  L N  +L RL+L F   GEEG + 
Sbjct: 688 -ECQIGDLRNLNNLRGGLSIQGLDEVKDAGEAEKAELKNRVSLHRLALVFG--GEEGTKG 744

Query: 676 NQQLLEALQPPLNVKELGIVSYGGNIFPKWL--TSLTNLRDLRLKSCVICEHFPPLGKLP 733
              + EALQP  N+K L I  YG   +P W+  +SL  L+ L + +C  C   PPLG+LP
Sbjct: 745 ---VAEALQPHPNLKSLCIYGYGDREWPNWMMGSSLAQLKILEIGNCRRCPCLPPLGQLP 801

Query: 734 -LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEW 792
            LEKL ++ +YGV  +G+EFLG             SSS+V  FPKLK L I  ++EL++W
Sbjct: 802 VLEKLVIWKMYGVIYIGSEFLG-------------SSSTV--FPKLKELRIFGLDELKQW 846

Query: 793 NYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELR---IL 849
              I  KE  SIMP L+ L   +CP+L  LPD++ Q T LQKL I   PI++      I 
Sbjct: 847 E--IKEKEERSIMPCLNHLRTEFCPKLEGLPDHVLQRTPLQKLYIEGSPILKRRYGKDIG 904

Query: 850 ED-HRTTDIPRL 860
           ED H+ + IP +
Sbjct: 905 EDRHKISHIPEV 916

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482792|ref|XP_002268589.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  590 bits (1522), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 385/914 (42%), Positives = 535/914 (58%), Gaps = 112/914 (12%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
           ++K V  WL++LKD +Y M+DV+DEW  A L+LQI+G +     S +  KK V S     
Sbjct: 58  KEKAVQGWLERLKDMAYQMDDVVDEWSTAILQLQIKGAE-----SASMSKKKVSSCI--P 110

Query: 63  SNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLID 122
           S CF   KQ++ R+DIA+K++ I ++ D IASQ+ +F F+ ++S   ++P++  TTS +D
Sbjct: 111 SPCF-CLKQVASRRDIALKVKSIKQQLDVIASQRSQFNFISSLS---EEPQRFITTSQLD 166

Query: 123 EGEVCGRVDEKNELLSKLLFESSEQQK-GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF 181
             EV GR  +KN +L  LL E+ ++ K G ++IS+VG GGMGKTTLAQLAYN+ EVK +F
Sbjct: 167 IPEVYGRDMDKNTILGHLLGETCQETKSGPYIISIVGTGGMGKTTLAQLAYNHPEVKAHF 226

Query: 182 EKVIWVCVSDTFEEIRVANAIIE------------------------------GLDDVWD 211
           ++ IWVCVSD F+ IR+   I+E                               LDDVW 
Sbjct: 227 DERIWVCVSDPFDPIRIFREIVEILQGESPNLHSLEALQQKIQTYIAGKKFLIVLDDVWT 286

Query: 212 GDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEES--------F 263
            ++  W      L  G  GS+IL TTR ESV +M+G+T    +E+L+ E++        F
Sbjct: 287 ENHQLWGQLKSTLNCGGVGSRILATTRKESVVKMVGTTYTHSLEELSREQARALFHQIAF 346

Query: 264 SGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIG 323
             +S E  E+L  IG  IA KCKGLPLA K  GNL+RSK   +EW+  L SE+W ++E  
Sbjct: 347 FEKSREKVEELNEIGENIADKCKGLPLAIKTLGNLMRSKHNREEWENVLCSEVWHLDEFE 406

Query: 324 QGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIE 383
           + +   LLLSY+DLP    ++RCFS+CA+FPK+  I + ELI LWM Q YL  +  +E+E
Sbjct: 407 RDISPALLLSYHDLP--PAIQRCFSFCAVFPKDSVIVRAELIKLWMAQSYLKSDGCKEME 464

Query: 384 MTGEEYFN-------ISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKES 436
           M G  YF           F+K DDD +I+ CKMHDIVHDFAQF+++ EC  VE++  K+ 
Sbjct: 465 MVGRTYFEYLAARSFFQDFEK-DDDGNIIRCKMHDIVHDFAQFLTQNECFIVEVDNQKKG 523

Query: 437 VINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLA 496
            ++ F  K+RH  L          S   +  L TLL      +  + +S +L E    L 
Sbjct: 524 SMDLFFQKIRHATLVVRESTPNFASTCNMKNLHTLL------AKKAFDSRVL-EALGNLT 576

Query: 497 CFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELC--IERLPKTLCELYNLQ 554
           C RAL +  RN        LI E+P+ V KLIHL+YLNLS LC  +  LP+T+C+LYNLQ
Sbjct: 577 CLRALDLS-RN-------RLIEELPKEVGKLIHLRYLNLS-LCYSLRELPETICDLYNLQ 627

Query: 555 KLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVD 614
            L+I+ C  +R+LP  +GKL  +R L N  T  LK +P GI +L+SL+TL+ F +    +
Sbjct: 628 TLNIQGC-IIRKLPQAMGKLINLRHLENYNTR-LKGLPKGIGRLSSLQTLDVFIVSSHGN 685

Query: 615 DISTCRLESLKNLQLLR-ECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGR 673
           D   C++  L+NL  LR    I+GL  V    E E+  L N   L RL L+F   GEEG 
Sbjct: 686 D--ECQIGDLRNLNNLRGRLSIQGLDEVKDAGEAEKAELKNKVYLQRLELKFG--GEEGT 741

Query: 674 RKNQQLLEALQPPLNVKELGIVSYGGNIFPKWL--TSLTNLRDLRLKSCVICEHFPPLGK 731
           +    + EALQP  N+K L I +YG   +P W+  +SL  L+ L L+ C+ C   PPLG+
Sbjct: 742 KG---VAEALQPHPNLKSLDIFNYGDREWPNWMMGSSLAQLKILHLRFCIRCPCLPPLGQ 798

Query: 732 LP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELE 790
           LP LE+L +  ++GV+ +G+EFLG             SSS+V  FPKLK L I  M+EL+
Sbjct: 799 LPILEELGILNMHGVQYIGSEFLG-------------SSSTV--FPKLKKLRISNMKELK 843

Query: 791 EWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELR--- 847
           +W   I  KE  SIMP L+ LT+  CP+L  LPD++ Q T LQKL I Y PI+E      
Sbjct: 844 QWE--IKEKEERSIMPCLNDLTMLACPKLEGLPDHMLQRTPLQKLYIKYSPILERRYRKD 901

Query: 848 ILED-HRTTDIPRL 860
           I ED H+ + IP +
Sbjct: 902 IGEDGHKISHIPEV 915

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134406|ref|XP_002321815.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222868811|gb|EEF05942.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  589 bits (1519), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 379/951 (39%), Positives = 531/951 (55%), Gaps = 117/951 (12%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
           +D  V  WL+ LKD SYDM+DVLDEW  A LK ++E  ++    +LAP K  V SF R+ 
Sbjct: 58  KDTAVKHWLNNLKDVSYDMDDVLDEWSTAVLKWEMEEAEN----ALAP-KSVVFSFLRSC 112

Query: 63  SNCFG------------------------SFKQLSLRQDIAVKIREINEKPDDIASQKDR 98
             CF                         SF++++ R DIA KI E+ +K +DIA +K  
Sbjct: 113 CFCFRRAEQAENALAPKSVVSSFLCSFCCSFRRVARRHDIAHKIIEVGQKLEDIAKRKAM 172

Query: 99  FKFVENVSNHVKKPKQARTTSLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVG 158
           F F   +   ++K    +TTS +D   V GR DEK  ++SKLL +SS++ + + VIS+VG
Sbjct: 173 FGF--ELHKAIEKEPDRQTTSFVDVSRVHGREDEKKNVISKLLCDSSQEGRKVQVISIVG 230

Query: 159 LGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEGL------------ 206
           +GG+GKTTLAQLAYN DE+K  FEK IWVCVS  F+E  VA AIIE L            
Sbjct: 231 MGGLGKTTLAQLAYNADEIKTYFEKRIWVCVSHPFDENTVAKAIIEDLSGAAPNLVELEP 290

Query: 207 ------------------DDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGS 248
                             DDVW+ +  KWEP    LK G  GS+IL+TTR ++VA+MM S
Sbjct: 291 LCKRISESIEGKKFLLVLDDVWEDNPRKWEPLKESLKCGAPGSRILVTTRKDTVAKMMES 350

Query: 249 TNIIFIEQLTEEE--------SFSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLR 300
              + + +LT+EE        +F GRS + CE    IGR+I  +CKGLPLAAK  G L++
Sbjct: 351 DYSLLLGKLTDEECWSVFSQVAFYGRSQDACEMFTEIGRQIVYRCKGLPLAAKTLGGLMQ 410

Query: 301 SKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIK 360
           SK+  ++W   L +E+W++EE+ +G+F PLLLSY DLP    ++ CF+YCA+FPK++ ++
Sbjct: 411 SKTTTEDWDNILSNELWEIEEVEKGIFPPLLLSYYDLP--VAIRSCFTYCAMFPKDHVME 468

Query: 361 KKELISLWMVQGYLNVEEDEEIEMTGEEYFNI---SKFKKD--DDDDDIMSCKMHDIVHD 415
           + +LI +WM QGYL     +E+E+ G+ YF I     F +D  + D+D +  KMHDIVHD
Sbjct: 469 RGKLIKMWMAQGYLKASPSKEMELVGKGYFEILATRAFFQDFQETDEDSIKFKMHDIVHD 528

Query: 416 FAQFVSRKECLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYF 475
           FAQF+ + EC  VE +  K     SF ++ RH  +     A FP SI+   +LR+LLI  
Sbjct: 529 FAQFLMKDECFTVETDVLKRQKTESFYERARHAIMTVSNWARFPQSIYKAGKLRSLLI-- 586

Query: 476 QSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNL 535
               N +  S  L EL  KL   R         +FD   + I EIP +V KL+HL+YL+ 
Sbjct: 587 -RSFNDTAISKPLLELLRKLTYLR---------LFDLSASQIEEIPSDVGKLLHLRYLDF 636

Query: 536 SELC--IERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPI 593
           S  C  ++ LP+T+ +LYNLQ LD+ WC  L++LP  + KL ++R L   G+  + ++P 
Sbjct: 637 S-YCKWLKELPETISDLYNLQSLDLTWCVALKKLPQKMRKLIRLRHLEIFGSG-VAFLPR 694

Query: 594 GISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLR-ECGIEGLSNVSHLDEDERLGL 652
           GI +LTSLRTL  F + GG        L  L NL  LR    IE L NV  ++E  +  +
Sbjct: 695 GIEELTSLRTLTNFIVSGGGGQSGAANLGELGNLSHLRGTLWIEKLLNVRDVNEAVKAEI 754

Query: 653 HNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNL 712
              K L+ L L F+ +  + R     L+EALQPP N++ L I  + G + PKW+ SLT L
Sbjct: 755 KKKKYLIGLYLLFNRDETDLRVDENALVEALQPPSNLQVLCISEFRGTLLPKWIMSLTKL 814

Query: 713 RDLRLKSCVICEHFPPLGKLP-LEKLTL--------YGLYGVKRVGNEFLGIEGSSEDDP 763
           R L +  C   E  PP G+LP LEKL +         G  G+  V N   GI    E+  
Sbjct: 815 RGLDISHCGSFEVLPPFGRLPYLEKLKIGVKTRKLDVGFLGLGPVNNGSEGISKKGEN-- 872

Query: 764 SSSSSSSSVIAFPKLKSLHIGAMEELEEWN---YRITRKEN-ISIMPRLSSLTIWYCPRL 819
                 + V AFPKLK L I  MEELE W+     +  K+   +IMP+L  L +  CP+L
Sbjct: 873 ---GEMAPVSAFPKLKELFIWKMEELEGWDGIGMGLGEKDTRTAIMPQLRELEVKGCPKL 929

Query: 820 RVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTD---IPRLSSLEIEY 867
           + LPDY+  +  L +L ++ CP++ E    E+ +  D   I  +S +EI Y
Sbjct: 930 KALPDYVL-TAPLVELRMNECPLLSER--YEEEKGEDWHKISHISEIEINY 977

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147825450|emb|CAN71072.1| hypothetical protein VITISV_000086 [Vitis vinifera]

 Score =  578 bits (1491), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 385/918 (41%), Positives = 525/918 (57%), Gaps = 113/918 (12%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
           ++K V  WL+ LKD +Y MEDVLDEW    L  Q+EGV+            N  +  + V
Sbjct: 58  KEKSVQDWLESLKDMAYQMEDVLDEWSIPILPFQMEGVE------------NASTSKKKV 105

Query: 63  SNCFGS----FKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTT 118
           S C  S    FKQ++ R+DIA+KI+ I +K DDI  +K+RF FV + S    +P  A  T
Sbjct: 106 SFCMPSPCICFKQVASRRDIALKIKGIKKKLDDIEREKNRFNFVSSRSEERSQPITA--T 163

Query: 119 SLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVK 178
           S ID  EV GR  +K  +L  LL +  +++ GL+++S+VG GGMGKTTLAQLAY++ EV+
Sbjct: 164 SAIDISEVYGRDMDKEIILDHLLGKKCQEKSGLYIVSIVGTGGMGKTTLAQLAYSHSEVE 223

Query: 179 RNFEKVIWVCVSDTFEEIRVANAIIEGL------------------------------DD 208
            +F++ IWVCVSD F+  RV  AI+E L                              DD
Sbjct: 224 FHFDERIWVCVSDPFDPSRVCRAIVEALEKESCNLHDLEALQQKIQTCIGGKKFLLVLDD 283

Query: 209 VWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEES------ 262
           VW  ++  WE     L  G  GS+IL+TTRNE+V  MM +T +  + +L+E++S      
Sbjct: 284 VWTENHQLWEQLKSILSCGAVGSRILVTTRNENVVEMMRTTYMHSLGKLSEDKSRELFYQ 343

Query: 263 --FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVE 320
             FSG++ E  E L+ IG KIA KCKGLPLA K  GNL+RSK   +EW+  L SE+WK++
Sbjct: 344 IAFSGKNREKMEDLKEIGEKIADKCKGLPLAIKTLGNLMRSKHNREEWENVLCSEVWKLD 403

Query: 321 EIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDE 380
             G  +   LLLSY+DLP    ++RCFS+CA+FPK+  I   ELI LWM Q YLN +  +
Sbjct: 404 VFGIYISPALLLSYHDLPPE--IQRCFSFCAVFPKDSVIWSDELIKLWMAQSYLNSDRSK 461

Query: 381 EIEMTGEEYFN-------ISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGT 433
           E+EM G  YF           F+K DDD +I+ CKMHDIVHDFAQF+++ EC  VE++  
Sbjct: 462 EMEMVGRTYFEYLAARSFFQDFEK-DDDGNIICCKMHDIVHDFAQFLTQNECFIVEVDNQ 520

Query: 434 KESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFS 493
           K+  ++ F  K+RH  L          S   +  L TLL   +   B S     L  L  
Sbjct: 521 KKGSMDLFFQKIRHATLVVRESTPNFASTCNMKNLHTLLA--KEEFBISXVLEALXNLLR 578

Query: 494 KLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELC--IERLPKTLCELY 551
            L C RAL +  RN        LI E+P+ V KLIHL+YLNLS LC  +  LP+T+C+LY
Sbjct: 579 HLTCLRALDLS-RN-------RLIEELPKEVGKLIHLRYLNLS-LCYRLRELPETICDLY 629

Query: 552 NLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGG 611
           NLQ L+I  C  L++LP  +GKL  +R L N  T  LK +P GI +L+SL+TL+ F +  
Sbjct: 630 NLQTLNIEGCSSLQKLPQAMGKLINLRHLENCNTGSLKGLPKGIGRLSSLQTLDVFIVSS 689

Query: 612 GVDDISTCRLESLKNLQLLR-ECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEF-DEEG 669
             +D   C++  L+NL  LR    I+ L  V    E E+  L N  +   L+LEF  +EG
Sbjct: 690 HGND--ECQIGDLRNLNNLRGGLSIQRLDEVKDAGEAEKAELKNRVHFQYLTLEFGKKEG 747

Query: 670 EEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWL--TSLTNLRDLRLKSCVICEHFP 727
            +G      + EALQP  N+K L I +YG   +P W+  +SL  L+ L + +C  C   P
Sbjct: 748 TKG------VAEALQPHPNLKSLDIFNYGDREWPNWMMGSSLAQLKILEIGNCRRCPCLP 801

Query: 728 PLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAM 786
            LG+LP LEKL ++G+ GVK +G+EFLG             SSS+V  FPKLK L+I  M
Sbjct: 802 LLGQLPVLEKLDIWGMDGVKYIGSEFLG-------------SSSTV--FPKLKELNISRM 846

Query: 787 EELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEEL 846
           +EL++W   I  KE  SIMP L+ L   +CP+L  LPD++ Q T LQKL I   PI+E  
Sbjct: 847 DELKQWE--IKGKEERSIMPCLNHLRTEFCPKLEGLPDHVLQRTPLQKLYIIDSPILERR 904

Query: 847 R---ILED-HRTTDIPRL 860
               I ED H+ + IP +
Sbjct: 905 YRKDIGEDRHKISHIPEV 922

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224115620|ref|XP_002332101.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222874921|gb|EEF12052.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  569 bits (1467), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 369/907 (40%), Positives = 520/907 (57%), Gaps = 94/907 (10%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
           +D++V  WLDQLKD SYDM+DVLDEW     K Q       +  +  P K   +     +
Sbjct: 58  KDQLVKHWLDQLKDVSYDMDDVLDEWGTEIAKSQ-------SKVNEHPRKNTRKVCSFMI 110

Query: 63  SNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLID 122
            +CF  F+++ LR+DIA+KI+E+NE+ D IA +K+RF F ++    +K+    +T S ID
Sbjct: 111 FSCF-RFREVGLRRDIALKIKELNERIDGIAIEKNRFHF-KSSEVVIKQHDHRKTVSFID 168

Query: 123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE 182
             EV GR  +K  + + LL ESS Q   L  ISLVG+GG+GKTTLAQL YN+ EV+ +F+
Sbjct: 169 AAEVKGRETDKGRVRNMLLTESS-QGPALRTISLVGMGGIGKTTLAQLVYNDHEVEIHFD 227

Query: 183 KVIWVCVSDTFEEIRVANAIIEGL------------------------------DDVWDG 212
           K IWVCVSD F+E ++A AI+E L                              DDVW+ 
Sbjct: 228 KRIWVCVSDPFDETKIAKAILEALKGSASDLIELQTLLENIQPLIRGKKFLLVLDDVWNE 287

Query: 213 DYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGS--TNIIFIEQLTEEESFSGRS--- 267
           D  KWE   + L  GL GS IL+TTR  +VA  MGS  T+I+ +  L+ +E +S  S   
Sbjct: 288 DSTKWEQLKYSLMCGLPGSSILVTTRKRNVASRMGSSPTDILELGLLSTDECWSLFSRLA 347

Query: 268 -FEDCEK----LEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWK-VEE 321
            FE   +    LE IGR+IA KCKGLPLAAK+ G+LLR KS ++EW+  L+S +W+  EE
Sbjct: 348 FFEKNSRERGDLEDIGRQIAAKCKGLPLAAKSLGSLLRFKSRIEEWESVLNSHVWESAEE 407

Query: 322 IGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEE 381
               + APL LSY DLPS+  ++RCFSYCA+FPK++  ++  L+ LWM QG+L    ++E
Sbjct: 408 AESKILAPLWLSYYDLPSD--MRRCFSYCAVFPKDFTFERDTLVKLWMAQGFLRETHNKE 465

Query: 382 IEMTGEEYFN-------ISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTK 434
           +E+ G + F           F+K+  D  I +CKMHD+VHD AQ +++ EC  V+I+G  
Sbjct: 466 MEVIGRQCFEALAARSFFQDFQKETGDGSIYACKMHDMVHDLAQNLTKNECSSVDIDGPT 525

Query: 435 ESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSK 494
           E  I+SF    RH  + F    SFP +IH L +LR+L++      +PS  ++ L  L + 
Sbjct: 526 ELKIDSFSINARHSMVVFRNYNSFPATIHSLKKLRSLIV----DGDPSSMNAALPNLIAN 581

Query: 495 LACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLS-ELCIERLPKTLCELYNL 553
           L+C R L +             I E+P N+ KLIHL++++ S    I+ LP+ + ELYN+
Sbjct: 582 LSCLRTLKLSGCG---------IEEVPSNIGKLIHLRHVDFSWNENIKELPEEMFELYNM 632

Query: 554 QKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPI-GISKLTSLRTLEKFAMGGG 612
             LD+ +C  L  LP  IG+L K+R L       L ++ + G+  LTSLR L+ F + G 
Sbjct: 633 LTLDVSFCNKLERLPDNIGRLAKLRHLSIHDWRDLSFVKMRGVKGLTSLRELDDFHVSGS 692

Query: 613 VDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEG 672
             + +   L +L +LQ      I  L +V   DE ++  L++ K+L  L L F    +  
Sbjct: 693 DKESNIGDLRNLNHLQ--GSLMISWLGDVKDPDEVKKAELNSKKHLAHLGLNFQSRTDRE 750

Query: 673 RRKNQQLLEALQPPLNVKELGIVSYGG----NIFPKWLTSLTNLRDLRLKSCVICEHFPP 728
           +  + ++LEAL+PP N+    I  Y G     +FP W   +  LR + L+     E+ PP
Sbjct: 751 KIHDDEVLEALEPPPNIYSSRIGYYQGVILLRVFPGW---INKLRAVELRDWRKIENLPP 807

Query: 729 LGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPS--SSSSSSSVIAFPKLKSLHIGA 785
           LGKLP LE L + G+  V RVG EFLG+   S+      +SSSS+++IAFPKLKSL    
Sbjct: 808 LGKLPSLEALHVIGMECVGRVGREFLGLGDDSDISIGEMTSSSSNTIIAFPKLKSLSFWD 867

Query: 786 MEELEEWNYRITRKE---NIS----IMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSIS 838
           MEE EEW       E   NIS    IMP L SL IW CP+L+ LPDY+ QSTTL++L I 
Sbjct: 868 MEEWEEWEGGEGGNEDKTNISISTIIMPSLRSLEIWDCPKLKALPDYVLQSTTLEQLKIR 927

Query: 839 YCPIMEE 845
             PI+ E
Sbjct: 928 GSPILGE 934

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122696|ref|XP_002318903.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222859576|gb|EEE97123.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  563 bits (1450), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 366/905 (40%), Positives = 508/905 (56%), Gaps = 151/905 (16%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
           +DK V  WLD+LKDA YDM+DVLDEW  A L+ ++E  +++        +K   SF R  
Sbjct: 58  KDKAVRDWLDKLKDACYDMDDVLDEWSTAILRWKMEEAEENTR----SRQKMRCSFLR-- 111

Query: 63  SNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLID 122
           S CF  F Q+  R+DIA+KI+E+ EK DDIA ++ ++ F          P +A       
Sbjct: 112 SPCF-CFNQVVRRRDIALKIKEVCEKVDDIAKERAKYGF---------DPYRA------- 154

Query: 123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE 182
                   DE   L S    + S + + + VISLVGLGGMGKTTLAQLA+N+ EV  +FE
Sbjct: 155 -------TDELQRLTSTSFVDESSEARDVDVISLVGLGGMGKTTLAQLAFNDAEVTAHFE 207

Query: 183 KVIWVCVSDTFEEIRVANAIIEGL------------------------------DDVWDG 212
           K IWVCVS+ F+E+R+A AIIE L                              DDVW  
Sbjct: 208 KKIWVCVSEPFDEVRIAKAIIEQLEGSPTNLVELQSLLQRVSESIKGKRFLLVLDDVWTE 267

Query: 213 DYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEE--------SFS 264
           ++ +WEP    LK G  GS+IL+TTR  SVA MMG+ ++I +E+L++E         +F 
Sbjct: 268 NHGQWEPLKLSLKGGAPGSRILVTTRKHSVATMMGTDHMINLERLSDEVCRSIFNHVAFH 327

Query: 265 GRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQ 324
            RS ++CE+L  I  KIA KCKGLPLAAK                         +E + +
Sbjct: 328 KRSKDECERLTEISDKIANKCKGLPLAAK-------------------------LEHVER 362

Query: 325 GLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEM 384
           G+F PLLLSY DLPS  +V+RCF YCA+FPK+Y + K EL+ +WM QGYL      ++E+
Sbjct: 363 GIFPPLLLSYYDLPS--VVRRCFLYCAMFPKDYEMVKDELVKMWMAQGYLKETSGGDMEL 420

Query: 385 TGEEYFNI---SKFKKD--DDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESVIN 439
            GE+YF +     F +D   D+D+ M+ KMHDIVHDFAQ++++ ECL V++N    + + 
Sbjct: 421 VGEQYFQVLAARSFFQDFETDEDEGMTFKMHDIVHDFAQYMTKNECLTVDVNTLGGATVE 480

Query: 440 SFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFR 499
           +  ++VRHL +      SFP+SIH    LR+LLI      +PSL ++ L +LF +L C R
Sbjct: 481 TSIERVRHLSMMLPNETSFPVSIHKAKGLRSLLI---DTRDPSLGAA-LPDLFKQLTCIR 536

Query: 500 ALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCI--ERLPKTLCELYNLQKLD 557
           +L + +           I+EIP  V KLIHL++LNL+  C+  E LP+T+C+L NLQ LD
Sbjct: 537 SLNLSRSQ---------IKEIPNEVGKLIHLRHLNLA-WCVELESLPETICDLCNLQSLD 586

Query: 558 IRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAM-GGGVDDI 616
           + WC  L+ELP  IGKL K+R L    +  + ++P GI ++T LRTL+KF + GGG ++ 
Sbjct: 587 VTWCRSLKELPKAIGKLIKLRHLWIDSSG-VAFIPKGIERITCLRTLDKFTVCGGGENES 645

Query: 617 STCRLESLKNLQ----LLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEG--- 669
               L  LKNL      LR   +  + NV  + +     L N K L  L LE++ +G   
Sbjct: 646 KAANLRELKNLNHIGGSLRIDKVRDIENVRDVVD----ALLNKKRL--LCLEWNFKGVDS 699

Query: 670 ----EEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEH 725
                E       L+E L+PP +++ L I  YGG   P W+ +LT LR L L  C   E 
Sbjct: 700 ILVKTELPEHEGSLIEVLRPPSDLENLTIRGYGGLDLPNWMMTLTRLRMLSLGPCENVEV 759

Query: 726 FPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIG 784
            PPLG+LP LE+L L+ L  V+R+   FLG+E    +        + V AFPKLKS  I 
Sbjct: 760 LPPLGRLPNLERLLLFFL-KVRRLDAGFLGVEKDENE-----GEIARVTAFPKLKSFRIR 813

Query: 785 AMEELEEWN---YRITRKEN-----ISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLS 836
            +EE+EEW+    R+  ++      ISIMP+L  L I  CP LR LPDY+  +  LQ+L 
Sbjct: 814 YLEEIEEWDGIERRVGEEDANTTSIISIMPQLQYLGIRKCPLLRALPDYVL-AAPLQELE 872

Query: 837 ISYCP 841
           I  CP
Sbjct: 873 IMGCP 877

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482769|ref|XP_003632834.1| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  563 bits (1450), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 372/920 (40%), Positives = 519/920 (56%), Gaps = 131/920 (14%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
           ++K V  WL++LKD +Y+M DVLDEW  A  + Q+EGV++      A   K   SF   +
Sbjct: 58  KEKSVQGWLERLKDMAYEMMDVLDEWSIAIFQFQMEGVEN------ASTSKTKVSF--CM 109

Query: 63  SNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTSLID 122
            + F  FKQ                    +AS++  F FV + S   ++P++  TTS ID
Sbjct: 110 PSPFIRFKQ--------------------VASERTDFNFVSSRSE--ERPQRLITTSAID 147

Query: 123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE 182
             EV GR  ++  +L  LL +   ++ GLH++S+VG GGMGKTTLA+LAYN+ +VK +F+
Sbjct: 148 ISEVYGRDMDEKMILDHLLGKKCLEKSGLHIVSVVGTGGMGKTTLARLAYNHRQVKAHFD 207

Query: 183 KVIWVCVSDTFEEIRVANAIIEGL------------------------------DDVWDG 212
           + IWVCVSD F+  RV  AI+E L                              DDVW  
Sbjct: 208 ERIWVCVSDPFDPFRVCRAIVEALQKGPCHLHDLEAVQQEIRTCIAGKKFLLVLDDVWTE 267

Query: 213 DYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEES---------F 263
           ++  WE   + L  G  GS+IL+TTR ESV +MMG+T +  + +L+ E+S         F
Sbjct: 268 NHQLWEQLRNTLTSGAVGSRILVTTRKESVVKMMGTTYMHSLGELSLEQSRALFHQIAFF 327

Query: 264 SGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIG 323
             RS+E  E+L+ IG KIA KCKGLPLA K  GNLLR K+  +EW+  L+SE+W+++E  
Sbjct: 328 EKRSWEKEEELKEIGEKIADKCKGLPLAIKTLGNLLRIKNSEEEWKNVLNSEVWQLDEFE 387

Query: 324 QGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIE 383
           + +   LLLSY DLP    ++RCFS+CA+FPK+  I + ELI LWM Q YL  +  +E+E
Sbjct: 388 RDISPALLLSYYDLP--PAIQRCFSFCAVFPKDSVIVRAELIKLWMAQSYLKSDGRKEME 445

Query: 384 MTGEEYFN---ISKFKKD---DDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKESV 437
           M G  YF       F +D   D D +I+ C+MHDIVHDFAQF+++ EC  VE++  K+  
Sbjct: 446 MVGRTYFEYLAARSFFQDFEKDTDGNIIRCEMHDIVHDFAQFLTQNECFIVEVDNQKKGS 505

Query: 438 INSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLAC 497
           ++ F  K+RH  L          S   +  L TLL      +  + +S +L E    L C
Sbjct: 506 MDLFFQKIRHATLVVRESTPNFASTCNMKNLHTLL------AKEAFDSRVL-EALGNLTC 558

Query: 498 FRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSEL-CIERLPKTLCELYNLQKL 556
            RAL +   ++        I E+P+ V KLIHL+YLNLS    +  LP+T+C+LYNLQ L
Sbjct: 559 LRALDLSSNDW--------IEELPKEVGKLIHLRYLNLSWCESLRELPETICDLYNLQTL 610

Query: 557 DIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDI 616
           +I  C  L++LP  +GKL  +R L N  T  LK +P GI +L+SL+TL+ F +    +D 
Sbjct: 611 NIEGCSSLQKLPHAMGKLINLRHLEN-YTRSLKGLPKGIGRLSSLQTLDVFIVSSHGND- 668

Query: 617 STCRLESLKNLQLLR-ECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDE-EGEEGRR 674
             C++  L+NL  LR    +EGL  V    E E+  L N  +   L+LEF E EG +G  
Sbjct: 669 -ECQIGDLRNLNNLRGRLSVEGLDEVKDAGEPEKAELKNRVHFQYLTLEFGEKEGTKG-- 725

Query: 675 KNQQLLEALQPPLNVKELGIVSYGGNIFPKWL--TSLTNLRDLRLKSCVICEHFPPLGKL 732
               + EALQP  N+K LGIV YG   +P W+  +SL  L+ L L  C  C   PPLG+L
Sbjct: 726 ----VAEALQPHPNLKSLGIVDYGDREWPNWMMGSSLAQLKILHLWFCKRCPCLPPLGQL 781

Query: 733 P-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEE 791
           P LEKL ++G+ GVK +G+EFLG             SSS+V  FPKLK L I  + EL++
Sbjct: 782 PVLEKLYIWGMDGVKYIGSEFLG-------------SSSTV--FPKLKELAISGLVELKQ 826

Query: 792 WNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELR---I 848
           W   I  KE  SIMP L+ L +  CP+L  LPD++ Q T LQKL I+  PI++      I
Sbjct: 827 WE--IKEKEERSIMPCLNHLIMRGCPKLEGLPDHVLQRTPLQKLDIAGSPILKRRYRKDI 884

Query: 849 LED-HRTTDIPRLSSLEIEY 867
            ED H+ + IP    +E+EY
Sbjct: 885 GEDRHKISHIP---EVEVEY 901

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	876
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.726	0.603	0.273	6.7e-77
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.681	0.419	0.313	8.2e-66
TAIR|locus:2078012	852	ZAR1 "HOPZ-ACTIVATED RESISTANC	0.501	0.515	0.280	1.3e-43
TAIR|locus:2077572	926	RPM1 "RESISTANCE TO P. SYRINGA	0.396	0.374	0.309	6.8e-41
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.503	0.244	0.258	1.5e-36
TAIR|locus:2169523	901	AT5G35450 [Arabidopsis thalian	0.465	0.452	0.252	2.4e-36
TAIR|locus:2152536	908	AT5G48620 [Arabidopsis thalian	0.577	0.557	0.254	5.9e-35
TAIR|locus:2037623	899	AT1G58410 [Arabidopsis thalian	0.586	0.571	0.245	2.2e-31
TAIR|locus:2037639	907	AT1G58390 "AT1G58390" [Arabido	0.503	0.486	0.245	3.3e-31
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.405	0.419	0.260	6.2e-31

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

 Score = 603 (217.3 bits), Expect = 6.7e-77, Sum P(2) = 6.7e-77
 Identities = 190/694 (27%), Positives = 321/694 (46%)

Query:   206 LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEESFS- 264
             LDD+W+ ++  W+       H   GS+IL+TTR++ VA +M + ++  ++ L++ + +S 
Sbjct:   283 LDDLWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSL 342

Query:   265 ------GRSFEDC--EKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEM 316
                   G   E C   ++  +  +I  KC+GLPLA K  G +LR +  + EW++ L S +
Sbjct:   343 FMKTVFGNQ-EPCLNREIGDLAERIVHKCRGLPLAVKTLGGVLRFEGKVIEWERVLSSRI 401

Query:   317 WKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLN- 375
             W +      L   L +SY  LP++  +KRCF+YC+IFPK +  +K +++ LWM +G+L  
Sbjct:   402 WDLPADKSNLLPVLRVSYYYLPAH--LKRCFAYCSIFPKGHAFEKDKVVLLWMAEGFLQQ 459

Query:   376 VXXXXXXXXXXXXYFNISKFKKXXXXXXIMSCKMHDIVHDFAQFVSRKECLWVEINGTKE 435
                          YF+  + +            MHD +++ AQF S +     E +G K 
Sbjct:   460 TRSSKNLEELGNEYFSELESRSLLQKTKTRYI-MHDFINELAQFASGEFSSKFE-DGCKL 517

Query:   436 SVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQXXXXXXXXXXXXXELFSKL 495
              V     ++ R+L    +  A  PM    L  ++ L  +               ++ S+ 
Sbjct:   518 QV----SERTRYLSYLRDNYAE-PMEFEALREVKFLRTFLPLSLTNSSRSCCLDQMVSEK 572

Query:   496 ACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQK 555
                   +   R      Y  + R  P+  + + H ++L+LS   +E+LPK+LC +YNLQ 
Sbjct:   573 LL--PTLTRLRVLSLSHY-KIARLPPDFFKNISHARFLDLSRTELEKLPKSLCYMYNLQT 629

Query:   556 LDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDD 615
             L + +C  L+ELP  I  L  +R L   GT L + MP    +L SL+TL  F +    D 
Sbjct:   630 LLLSYCSSLKELPTDISNLINLRYLDLIGTKL-RQMPRRFGRLKSLQTLTTFFVSAS-DG 687

Query:   616 ISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEF---DEEGEEG 672
                  L  L +L    +  I  L  V  + +     L++ K+L  +   +       E  
Sbjct:   688 SRISELGGLHDLH--GKLKIVELQRVVDVADAAEANLNSKKHLREIDFVWRTGSSSSENN 745

Query:   673 ----RRKNQ-QLLEALQPPLNVKELGIVSYGGNIFPKWLT--SLTNLRDLRLKSCVICEH 725
                 R +N+ ++ E L+P  ++++L I  Y G  FP WL+  S + +  +RL+ C  C  
Sbjct:   746 TNPHRTQNEAEVFEKLRPHRHIEKLAIERYKGRRFPDWLSDPSFSRIVCIRLRECQYCTS 805

Query:   726 FPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGXXXXXXXXXXXXXXVIAFPKLKSLHIG 784
              P LG+LP L++L + G+ G++ +G +F   +                  F  L++L   
Sbjct:   806 LPSLGQLPCLKELHISGMVGLQSIGRKFYFSDQQLRDQDQQ--------PFRSLETLRFD 857

Query:   785 AMEELEEW-NYRITRKENISIMPRLSSLTIWYCPRLR-VLPDYLFQSTTLQKLSISYCPI 842
              + + +EW + R+TR +   + P L  L I  CP L   LP +L    +L  L I  C +
Sbjct:   858 NLPDWQEWLDVRVTRGD---LFPSLKKLFILRCPELTGTLPTFL---PSLISLHIYKCGL 911

Query:   843 MEELRILEDHRTTDIPRLSSLEIEY-CPKLNVLP 875
             ++      DH       L +L I+  C  L   P
Sbjct:   912 LD---FQPDHHEYSYRNLQTLSIKSSCDTLVKFP 942

GO:0005576 "extracellular region" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009627 "systemic acquired resistance" evidence=RCA

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

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

 Score = 564 (203.6 bits), Expect = 8.2e-66, Sum P(3) = 8.2e-66
 Identities = 208/664 (31%), Positives = 307/664 (46%)

Query:   206 LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEESF-- 263
             LDD W    ++WE F         GSKI+LTTR+E V+ +  +  I  ++ +T EE +  
Sbjct:   278 LDDFWSESDSEWESFQVAFTDAEEGSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWEL 337

Query:   264 -SGRSFEDC------EKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEM 316
              S  +F +       ++LE IG++IA +CKGLPLAA+A  + LRSK    +W     +  
Sbjct:   338 ISRFAFGNISVGSINQELEGIGKRIAEQCKGLPLAARAIASHLRSKPNPDDWYAVSKN-- 395

Query:   317 WKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYL-N 375
                      +   L LSY+ LP    +KRCF+ C+IFPK +   ++EL+ LWM    L  
Sbjct:   396 --FSSYTNSILPVLKLSYDSLPPQ--LKRCFALCSIFPKGHVFDREELVLLWMAIDLLYQ 451

Query:   376 VXXXXXXXXXXXXYFN--ISKFKKXXXXXXIMSCKMHDIVHDFAQFVSRKECLWVEINGT 433
                          Y    +++         + S  MHD+++D A+ VS   C  +E +  
Sbjct:   452 PRSSRRLEDIGNDYLGDLVAQSFFQRLDITMTSFVMHDLMNDLAKAVSGDFCFRLEDDNI 511

Query:   434 KESVINSFGDKVRHLGLN-FEGGASFPM-SIHGLNRLRTLLIYFQXXXXXXXXXXXXXEL 491
              E  I S     RH   +  +  AS    SI G   LRT+L +               ++
Sbjct:   512 PE--IPS---TTRHFSFSRSQCDASVAFRSICGAEFLRTILPF--NSPTSLESLQLTEKV 564

Query:   492 FSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELY 551
              + L    AL  G R      Y   I  +P++++ L  L+YL+LS   I+ LP+ +C L 
Sbjct:   565 LNPL--LNALS-GLRILSLSHYQ--ITNLPKSLKGLKLLRYLDLSSTKIKELPEFVCTLC 619

Query:   552 NLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGG 611
             NLQ L +  C DL  LP  I +L  +R L   GTPL++ MP GI KL SL+ L  F +G 
Sbjct:   620 NLQTLLLSNCRDLTSLPKSIAELINLRLLDLVGTPLVE-MPPGIKKLRSLQKLSNFVIGR 678

Query:   612 GVDDISTCRLESLKNLQLLR-ECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGE 670
                 +S   L  LK L  LR    I  L NV+   E +  GL     L  L L++  +G 
Sbjct:   679 ----LSGAGLHELKELSHLRGTLRISELQNVAFASEAKDAGLKRKPFLDGLILKWTVKGS 734

Query:   671 ---EGRRK-----NQQLLEALQPPLNVKELGIVSYGGNIFPKWL--TSLTNLRDLRLKSC 720
                 G         +++L  L+P  ++K   I SY G  FPKWL  +S   +  + L SC
Sbjct:   735 GFVPGSFNALACDQKEVLRMLEPHPHLKTFCIESYQGGAFPKWLGDSSFFGITSVTLSSC 794

Query:   721 VICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGXXXXXXXXXXXXXXVIAFPKLK 779
              +C   PP+G+LP L+ L++     +++VG +F   E                + F  L+
Sbjct:   795 NLCISLPPVGQLPSLKYLSIEKFNILQKVGLDFFFGENNSRG-----------VPFQSLQ 843

Query:   780 SLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRV-LPDYLFQSTTLQKLSIS 838
              L    M   +EW   I  +    I P L  L I  CP LR   P+ L  ST   +++IS
Sbjct:   844 ILKFYGMPRWDEW---ICPELEDGIFPCLQKLIIQRCPSLRKKFPEGLPSST---EVTIS 897

Query:   839 YCPI 842
              CP+
Sbjct:   898 DCPL 901

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2078012 ZAR1 "HOPZ-ACTIVATED RESISTANCE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 382 (139.5 bits), Expect = 1.3e-43, Sum P(3) = 1.3e-43
 Identities = 137/489 (28%), Positives = 234/489 (47%)

Query:   206 LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTN--IIFIEQLTEEES- 262
             +DDVWD + + W+  +  L  G  GS +++TTR+ESVA+ + + +      E L+ + S 
Sbjct:   266 MDDVWDKNLSWWDKIYQGLPRGQGGS-VIVTTRSESVAKRVQARDDKTHRPELLSPDNSW 324

Query:   263 --FSGRSF--ED--CEK--LEPIGRKIARKCKGLPLAAKATGNLLRSKS-ILKEWQKTLD 313
               F   +F   D  CE+  LE +G++I  KCKGLPL  KA G LL  K  +  EW++  +
Sbjct:   325 LLFCNVAFAANDGTCERPELEDVGKEIVTKCKGLPLTIKAVGGLLLCKDHVYHEWRRIAE 384

Query:   314 ---SEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMV 370
                 E+         + + L LSY++LPS+  +K C    +++P++  I K++L+  W+ 
Sbjct:   385 HFQDELRGNTSETDNVMSSLQLSYDELPSH--LKSCILTLSLYPEDCVIPKQQLVHGWIG 442

Query:   371 QGYLNVXXXXXXXXXXXXYFN------ISKFKKXXXXXXIMSCKMHDIVHDFAQFVSRKE 424
             +G++               F+      + +         I++CK+HD+V D         
Sbjct:   443 EGFVMWRNGRSATESGEDCFSGLTNRCLIEVVDKTYSGTIITCKIHDMVRD--------- 493

Query:   425 CLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQXXXXXXXX 484
              L ++I   K+S  N  G   RHLG++   G      I   ++LR ++   +        
Sbjct:   494 -LVIDI-AKKDSFSNPEGLNCRHLGIS---GNFDEKQIKVNHKLRGVVSTTKTGEVNKLN 548

Query:   485 XXXXXELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELC-IERL 543
                  + F+     R L I +   IFD  P  + EI + +  L HL  L+LS    + + 
Sbjct:   549 SDLAKK-FTDCKYLRVLDISKS--IFDA-P--LSEILDEIASLQHLACLSLSNTHPLIQF 602

Query:   544 PKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRT 603
             P+++ +L+NLQ LD  +C++L++L   I   KK+  L       L+  P GI  L  L  
Sbjct:   603 PRSMEDLHNLQILDASYCQNLKQLQPCIVLFKKLLVLDMTNCGSLECFPKGIGSLVKLEV 662

Query:   604 LEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSL 663
             L  F      +    C+L  +KNL  LR+ G+  L+    ++E+E   L N+  L+ +S+
Sbjct:   663 LLGFKPARSNNG---CKLSEVKNLTNLRKLGLS-LTRGDQIEEEELDSLINLSKLMSISI 718

Query:   664 E-FDEEGEE 671
               +D  G++
Sbjct:   719 NCYDSYGDD 727

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 = 401 (146.2 bits), Expect = 6.8e-41, Sum P(4) = 6.8e-41
 Identities = 124/401 (30%), Positives = 194/401 (48%)

Query:   206 LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARM---MGSTNIIFIEQLTEEES 262
             LDDVW      W      L  G++GS++++TTR+ +VA     +GST    IE L E+E+
Sbjct:   285 LDDVWTTGL--WREISIALPDGIYGSRVMMTTRDMNVASFPYGIGSTKHE-IELLKEDEA 341

Query:   263 ---FSGRSF----EDC--EKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLD 313
                FS ++F    E C  + LEPI RK+  +C+GLPLA  + G+++ +K    EW+K   
Sbjct:   342 WVLFSNKAFPASLEQCRTQNLEPIARKLVERCQGLPLAIASLGSMMSTKKFESEWKKVYS 401

Query:   314 SEMWKVEEIGQGLFAP--LLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQ 371
             +  W++    +       + LS+NDLP    +KRCF YC++FP  Y +K+K LI +WM Q
Sbjct:   402 TLNWELNNNHELKIVRSIMFLSFNDLPYP--LKRCFLYCSLFPVNYRMKRKRLIRMWMAQ 459

Query:   372 GYLNVXXXXXXXXXXXXYFNISKFKKXXXXXXI------MSCKMHDIVHDFAQFVSRKEC 425
              ++              Y N   ++               + KMHD++ + A  VS+ E 
Sbjct:   460 RFVEPIRGVKAEEVADSYLNELVYRNMLQVILWNPFGRPKAFKMHDVIWEIALSVSKLER 519

Query:   426 LWVEINGTKES-----VINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQXXXX 480
                  N   +       + ++G   RHL +  E     P SI   N L +LL+       
Sbjct:   520 FCDVYNDDSDGDDAAETMENYGS--RHLCIQKE---MTPDSIRATN-LHSLLVC------ 567

Query:   481 XXXXXXXXXELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCI 540
                      EL   L   RAL         D   + I ++P+ +  + +LKYLNLS+  +
Sbjct:   568 --SSAKHKMELLPSLNLLRAL---------DLEDSSISKLPDCLVTMFNLKYLNLSKTQV 616

Query:   541 ERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLL 581
             + LPK   +L NL+ L+ +  + + ELP G+ KLKK+R L+
Sbjct:   617 KELPKNFHKLVNLETLNTKHSK-IEELPLGMWKLKKLRYLI 656

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

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

 Score = 340 (124.7 bits), Expect = 1.5e-36, Sum P(4) = 1.5e-36
 Identities = 127/492 (25%), Positives = 222/492 (45%)

Query:   230 GSKILLTTRNESVARMMGSTNIIFIEQLTEEESFS-------GRSFEDCEK-LEPIGRKI 281
             G+ I+LTTR +S+A+ +G+   I +E L +++ +S       G    D    L+ +G++I
Sbjct:   438 GNMIILTTRIQSIAKSLGTVQSIKLEALKDDDIWSLFKVHAFGNDKHDSSPGLQVLGKQI 497

Query:   282 ARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNS 341
             A + KG PLAAK  G+LL +   +  W   + SE WK  +   G+   L LSY+ L SN 
Sbjct:   498 ASELKGNPLAAKTVGSLLGTNLTIDHWDSIIKSEEWKSLQQAYGIMQALKLSYDHL-SNP 556

Query:   342 MVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVXXXXXXXXXXXXYFNI--SKFKKXX 399
             + ++C SYC++FPK Y+  K +LI +W+ QG++                 +  S F +  
Sbjct:   557 L-QQCVSYCSLFPKGYSFSKAQLIQIWIAQGFVEESSEKLEQKGWKYLAELVNSGFLQQV 615

Query:   400 XXXXIMS--CKMHDIVHDFAQFVSRKECLWVEINGTKESVINSFGDKVRHLGL------- 450
                   S    MHD++HD AQ VS+ E  +  I+G++          +RHL +       
Sbjct:   616 ESTRFSSEYFVMHDLMHDLAQKVSQTE--YATIDGSE---CTELAPSIRHLSIVTDSAYR 670

Query:   451 -----NFEGGASFP---MSIHGLNRLRTLLIYFQXXXXXXXXXXXXXELFSKLACFRALV 502
                  N      F    M +   ++LR+L++  Q             + F +    R L 
Sbjct:   671 KEKYRNISRNEVFEKRLMKVKSRSKLRSLVLIGQYDSHFFKYFK---DAFKEAQHLRLLQ 727

Query:   503 IGQRNFIFDPYPNLIREIPENVRKLIHLKYLNL-SELCIERLPKTLCELYNLQKLDIRWC 561
             I       D +   +  +  +     HL+YL + +E     LP++L + Y+LQ LDI + 
Sbjct:   728 ITATYADSDSF---LSSLVNST----HLRYLKIVTEESGRTLPRSLRKYYHLQVLDIGYR 780

Query:   562 EDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRL 621
               +  +   I  L  +R L+           IG  K+TSL+ L  F +    +++S   +
Sbjct:   781 FGIPRISNDINNLLSLRHLVAYDEVCSSIANIG--KMTSLQELGNFIVQ---NNLSGFEV 835

Query:   622 ESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLE 681
               LK++  L +  +  L NV   +E     L + ++L +L L + ++   G   ++   +
Sbjct:   836 TQLKSMNKLVQLSVSQLENVRTQEEACGAKLKDKQHLEKLHLSW-KDAWNGYDSDESYED 894

Query:   682 ALQPPLNVKELG 693
                  +N++  G
Sbjct:   895 EYGSDMNIETEG 906

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

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

 Score = 266 (98.7 bits), Expect = 2.4e-36, Sum P(4) = 2.4e-36
 Identities = 117/464 (25%), Positives = 203/464 (43%)

Query:   206 LDDVW-DGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQ-LTEEESF 263
             LDDVW + D+++ +  F   +    G K+LLT+RNE V      T + F  + L  +ES+
Sbjct:   270 LDDVWKEEDWDRIKEVFPRKR----GWKMLLTSRNEGVGLHADPTCLSFRARILNPKESW 325

Query:   264 S-------GRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEM 316
                      R+  + E++E IG+++   C GLPLA K  G LL +K    EW++   SE 
Sbjct:   326 KLFERIVPRRNETEYEEMEAIGKEMVTYCGGLPLAVKVLGGLLANKHTASEWKRV--SEN 383

Query:   317 WKVEEIGQG---------LFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISL 367
                + +G+          ++  L LSY DLP++  +K CF Y A FP++Y IK + L S 
Sbjct:   384 IGAQIVGKSCLDDNSLNSVYRILSLSYEDLPTD--LKHCFLYLAHFPEDYKIKTRTLYSY 441

Query:   368 WMVQG-Y--LNVXXXXXXXXXXXXYFNISKFKKXXXXXXIMSCKMHDIVHDFAQFVSRKE 424
             W  +G Y  L +              N+   +K      +  C+MHD++ +     ++ E
Sbjct:   442 WAAEGIYDGLTILDSGEDYLEELVRRNLVIAEKSNLSWRLKLCQMHDMMREVCISKAKVE 501

Query:   425 CLW--VEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQXXXXXX 482
                  +++  +  ++I     + R L ++   G +F +  H   ++R+LL+         
Sbjct:   502 NFLQIIKVPTSTSTIIAQSPSRSRRLTVH--SGKAFHILGHK-KKVRSLLVL----GLKE 554

Query:   483 XXXXXXXELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIER 542
                      F  L   R L +    F          ++P ++  LIHL++L+L +  +  
Sbjct:   555 DLWIQSASRFQSLPLLRVLDLSSVKFEGG-------KLPSSIGGLIHLRFLSLHQAVVSH 607

Query:   543 LPKTLCELYNLQKLDIRWCEDLRELPAGIGK-LKKMRSLLNGGTPLLKY--MPIGISKLT 599
             LP T+  L  +  L++     +   P  +   LK+M  L     PL  +    + +  L 
Sbjct:   608 LPSTIRNLKLMLYLNLHVAIGV---PVHVPNVLKEMLELRYLSLPLDMHDKTKLELGDLV 664

Query:   600 SLRTLEKFA-MGGGVDDISTCRLESLK--NLQLLRECGIEGLSN 640
             +L  L  F+     V D+   R+  L+   +     C  E LS+
Sbjct:   665 NLEYLWCFSTQHSSVTDL--LRMTKLRFFGVSFSERCTFENLSS 706

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

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

 Score = 263 (97.6 bits), Expect = 5.9e-35, Sum P(4) = 5.9e-35
 Identities = 147/577 (25%), Positives = 245/577 (42%)

Query:   206 LDDVWDG-DYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQ-LTEEES- 262
             LDDVW   D+++ +  F   +    G K+LLT+RNE V      T + F    L  EES 
Sbjct:   272 LDDVWKKEDWDRIKAVFPRKR----GWKMLLTSRNEGVGIHADPTCLTFRASILNPEESW 327

Query:   263 -------FSGRSFEDC---EKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTL 312
                    F  R   +    E++E +G+++   C GLPLA KA G LL +K  + EW++  
Sbjct:   328 KLCERIVFPRRDETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKRVS 387

Query:   313 DSEMWKV-------EEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELI 365
             D+   ++       +     +   L LSY DLP++  +K  F Y A FP++  I  ++L 
Sbjct:   388 DNIGSQIVGGSCLDDNSLNSVNRILSLSYEDLPTH--LKHRFLYLAHFPEDSKIYTQDLF 445

Query:   366 SLWMVQGYLN---VXXXXXXXXXXXXYFNISKFKKXXXXXXIMSCKMHDIVHDFAQFVSR 422
             + W  +G  +   +              N+              C+MHD++ +     ++
Sbjct:   446 NYWAAEGIYDGSTIQDSGEYYLEELVRRNLVIADNRYLSLEFNFCQMHDMMREVCLSKAK 505

Query:   423 KE-CLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLN-RLRTLLIYFQXXXX 480
             +E  L +  + T  S IN+     R    +   G +F +  H  N ++R+L++       
Sbjct:   506 EENFLQIIKDPTSTSTINAQSPS-RSRRFSIHSGKAFHILGHRNNPKVRSLIV----SRF 560

Query:   481 XXXXXXXXXELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCI 540
                       +F  L   R L + +  F          ++P ++  LIHL+YL+L    +
Sbjct:   561 EEDFWIRSASVFHNLTLLRVLDLSRVKFEGG-------KLPSSIGGLIHLRYLSLYGAVV 613

Query:   541 ERLPKTLCELYNLQKLDIRWCEDLRELPAGIGK-LKKMRSLLNGGTP--LLKYMPIGISK 597
               LP T+  L  L  L++R   D +E P  +   LK+M  L     P  +     + +  
Sbjct:   614 SHLPSTMRNLKLLLFLNLR--VDNKE-PIHVPNVLKEMLELRYLSLPQEMDDKTKLELGD 670

Query:   598 LTSLRTLEKFA-MGGGVDDISTCRLESLKNL--QLLRECGIEGLSNVSHLDEDERLGLHN 654
             L +L  L  F+     V D+   R+  L+NL   L   C  E LS+           L  
Sbjct:   671 LVNLEYLWYFSTQHSSVTDL--LRMTKLRNLGVSLSERCNFETLSS----------SLRE 718

Query:   655 MKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRD 714
             ++NL  L++ F  E        + +L+     +++K+LG+      I P       +L  
Sbjct:   719 LRNLEMLNVLFSPEIVMVDHMGEFVLDHF---IHLKQLGLAVRMSKI-PDQHQFPPHLAH 774

Query:   715 LRLKSCVICEH-FPPLGKL-PLEKLTL-YGLYGVKRV 748
             + L  CV+ E   P L KL  L+ + L YG +  +RV
Sbjct:   775 IHLVHCVMKEDPMPILEKLLHLKSVALSYGAFIGRRV 811

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

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

 Score = 264 (98.0 bits), Expect = 2.2e-31, Sum P(4) = 2.2e-31
 Identities = 148/602 (24%), Positives = 259/602 (43%)

Query:   191 DTFEEIRVANAIIEGLDDVW-DGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGST 249
             D F  +  +  +I  LDD+W + D++  +P F   K    G K+LLT+R ES+A M G T
Sbjct:   257 DLFRLLESSKTLIV-LDDIWKEEDWDLIKPIFPPKK----GWKVLLTSRTESIA-MRGDT 310

Query:   250 NIIFIEQ--LTEEESFS-----------GRSFEDCEKLEPIGRKIARKCKGLPLAAKATG 296
               I  +   L+  +S++              F+  E++E +G+K+ + C GL LA K  G
Sbjct:   311 TYISFKPKCLSIPDSWTLFQSIAMPRKDTSEFKVDEEMENMGKKMIKHCGGLSLAVKVLG 370

Query:   297 NLLRSKSILKEWQKTLDSEMWKVEEIGQG----LFAPLLLSYNDLPSNSMVKRCFSYCAI 352
              LL +K  L +W++  ++    + E   G    +   L +S+ +LP+   +K CF Y A 
Sbjct:   371 GLLAAKYTLHDWKRLSENIGSHIVERTSGNNSSIDHVLSVSFEELPN--YLKHCFLYLAH 428

Query:   353 FPKEYNIKKKELISLWMVQGYLNVXXXXXXXXXXX--XYF------NISKFKKXXXXXXI 404
             FP+++ I  ++L   W  +G                  Y       N+   ++       
Sbjct:   429 FPEDHEIDVEKLHYYWAAEGISERRRYDGETIRDTGDSYIEELVRRNMVISERDVMTSRF 488

Query:   405 MSCKMHDIVHDFAQFVSRKE-CLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIH 463
              +C++HD++ +   F +++E  L +  N +  S   + G   R +        +  +  +
Sbjct:   489 ETCRLHDMMREICLFKAKEENFLQIVSNHSPTSNPQTLGASRRFV---LHNPTTLHVERY 545

Query:   464 GLN-RLRTLLIYFQXXXXXXXXXXXXXELFSKLACFRALVIGQRNFIFDPYPNLIREIPE 522
               N +LR+L++ +               +F+++   R L + Q  F          ++P 
Sbjct:   546 KNNPKLRSLVVVYDDIGNRRWMLSGS--IFTRVKLLRVLDLVQAKFKGG-------KLPS 596

Query:   523 NVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLREL--PAGIGKLKKMRSL 580
             ++ KLIHL+YL+L +  +  LP +L  L  L  LDIR   D  ++  P     ++++R L
Sbjct:   597 DIGKLIHLRYLSLKDAKVSHLPSSLRNLVLLIYLDIR--TDFTDIFVPNVFMGMRELRYL 654

Query:   581 LNGGTPLLKYM----PIGISKLTSLRTLEKFAM-GGGVDDI-STCRLESL-------KNL 627
                   L ++M     + +S L  L  LE F+     ++D+    RL +L        +L
Sbjct:   655 -----ELPRFMHEKTKLELSNLEKLEALENFSTKSSSLEDLRGMVRLRTLVIILSEGTSL 709

Query:   628 QLLRE--CGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQ- 684
             Q L    CG+  L N   +   E  G++ M    R+ L+F    +         L  +Q 
Sbjct:   710 QTLSASVCGLRHLENFKIM---ENAGVNRMGEE-RMVLDFTYLKKLTLSIEMPRLPKIQH 765

Query:   685 -PP-LNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSC------VICEH--FPPLGKLPL 734
              P  L V +L       +  P  L  L  L+DL L         ++C    FP L KL L
Sbjct:   766 LPSHLTVLDLSYCCLEEDPMPI-LEKLLELKDLSLDYLSFSGRKMVCSAGGFPQLRKLAL 824

Query:   735 EK 736
             ++
Sbjct:   825 DE 826

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 257 (95.5 bits), Expect = 3.3e-31, Sum P(4) = 3.3e-31
 Identities = 124/505 (24%), Positives = 226/505 (44%)

Query:   193 FEEIRVANAIIEGLDDVW-DGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNI 251
             F+ +  + ++I   DD+W D D++  +P F   K    G K+LLT++NESVA + G    
Sbjct:   260 FQLLETSKSLIV-FDDIWKDEDWDLIKPIFPPNK----GWKVLLTSQNESVA-VRGDIKY 313

Query:   252 IFI--EQLTEEES---FSGRSF--EDC------EKLEPIGRKIARKCKGLPLAAKATGNL 298
             +    E L  E+S   F   +F  +D       E++E +G+++ + C GLPLA K  G L
Sbjct:   314 LNFKPECLAIEDSWTLFQRIAFPKKDASESKVDEEMEDMGKQMLKHCGGLPLAIKVLGGL 373

Query:   299 LRSKSILKEWQK---TLDSEM-WKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFP 354
             L +K  + +W++    + S++  +       ++  L +S+ +LPS   +K CF Y A FP
Sbjct:   374 LAAKYTMHDWERLSVNIGSDIVGRTSSNNSSIYHVLSMSFEELPS--YLKHCFLYLAHFP 431

Query:   355 KEYNIKKKELISLWMVQG------YLN---VXXXXXXXXXXXXYFNISKFKKXXXXXXIM 405
             +++ I  ++L   W  +G      Y N   +              N+  +++        
Sbjct:   432 EDHKINVEKLSYCWAAEGISTAEDYHNGETIQDVGQSYLEELVRRNMIIWERDATASRFG 491

Query:   406 SCKMHDIVHDFAQFVSRKE-CLWVEIN--GTKESVINSFGDKVRHLGLNFEGGASFPMSI 462
             +C +HD++ +   F +++E  L + +   G   S   +     R   L ++     P ++
Sbjct:   492 TCHLHDMMREVCLFKAKEENFLQIAVKSVGVTSSSTGNSQSPCRSRRLVYQ----CPTTL 547

Query:   463 H---GLN--RLRTLLIYFQXXXXXXXXXXXXXELFSKLACFRALVIGQRNFIFDPYPNLI 517
             H    +N  +LR+L++ +                F++L   R L +    F  D +  + 
Sbjct:   548 HVERDINNPKLRSLVVLWHDLWVENWKLLGTS--FTRLKLLRVLDL----FYVD-FEGM- 599

Query:   518 REIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKM 577
              ++P  +  LIHL+YL+L +  +  LP +L  L  L  L++    +   +P    ++ ++
Sbjct:   600 -KLPFGIGNLIHLRYLSLQDAKVSHLPSSLGNLMLLIYLNLDVDTEFIFVPDVFMRMHEL 658

Query:   578 RSLLNGGTPLLKYMPIGISKLTSLRTLEKFAM--GGGVDDISTCRLESLKNLQLLRECGI 635
             R  L     + K   + +  L  L TL  F+       D     RL +L  ++L R    
Sbjct:   659 R-YLKLPLHMHKKTRLSLRNLVKLETLVYFSTWHSSSKDLCGMTRLMTLA-IRLTRVTST 716

Query:   636 EGLS-NVSHLDEDERL---GLHNMK 656
             E LS ++S L   E L   G H+ K
Sbjct:   717 ETLSASISGLRNLEYLYIVGTHSKK 741

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 288 (106.4 bits), Expect = 6.2e-31, Sum P(2) = 6.2e-31
 Identities = 102/391 (26%), Positives = 179/391 (45%)

Query:   206 LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVAR-MMGSTNIIFIEQLTEEES-- 262
             +DDVWD D   WE     L     GSK+++TTR  ++A  + G+     +  LT EES  
Sbjct:   277 VDDVWDPD--AWESLKRALPCDHRGSKVIITTRIRAIAEGVEGTVYAHKLRFLTFEESWT 334

Query:   263 -FSGRSFEDCEK----LEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMW 317
              F  ++F + EK    L+  G+++ +KC GLPLA      LL S+    EW +   S +W
Sbjct:   335 LFERKAFSNIEKVDEDLQRTGKEMVKKCGGLPLAIVVLSGLL-SRKRTNEWHEVCAS-LW 392

Query:   318 K-VEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNV 376
             + +++    +     LS+ ++     +K CF Y ++FP++Y IK ++LI L + +G++  
Sbjct:   393 RRLKDNSIHISTVFDLSFKEMRHE--LKLCFLYFSVFPEDYEIKVEKLIHLLVAEGFIQE 450

Query:   377 XXXXXXXXXXXXYFNI----SKFK-KXXXXXXIMSCKMHDIVHDFAQFVSRKECLWVEIN 431
                         Y +     S  K +      +MSC++HD++ D A     KE  +V + 
Sbjct:   451 DEEMMMEDVARCYIDELVDRSLVKAERIERGKVMSCRIHDLLRDLA-IKKAKELNFVNVY 509

Query:   432 GTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLN-RLRTLLIYFQXXXXXXXXXXXXXE 490
               K+   +    +V H  +N      + +    +N R+R+ L   +              
Sbjct:   510 NEKQHSSDICRREVVHHLMN-----DYYLCDRRVNKRMRSFLFIGERRGFGYVNTTNL-- 562

Query:   491 LFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCEL 550
                KL   R  V+     +F    N+   +P+ + +LIHL+YL +++  +  LP ++  L
Sbjct:   563 ---KLKLLR--VLNMEGLLFVS-KNISNTLPDVIGELIHLRYLGIADTYVSILPASISNL 616

Query:   551 YNLQKLDIRWCEDLRELPAGIGKLKKMRSLL 581
               LQ LD     D  +    + KL  +R ++
Sbjct:   617 RFLQTLDASG-NDPFQYTTDLSKLTSLRHVI 646

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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_LG_XII001317 cc-nbs-lrr resistance protein (945 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

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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	876
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	1e-57
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	7e-05
COG0552	340	COG0552, FtsY, Signal recognition particle GTPase	3e-04

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

 Score =  199 bits (507), Expect = 1e-57
 Identities = 105/291 (36%), Positives = 155/291 (53%), Gaps = 50/291 (17%)

Query: 129 RVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVC 188
           R D    L+ KL     E    L V+ +VG+GG+GKTTLA+  YN+D V  +F+ V WV 
Sbjct: 1   REDMIEALIEKL----LEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVV 56

Query: 189 VSDTFEEIRVANAIIEG--------------------------------LDDVWDGDYNK 216
           VS T+ E R+   I++                                 LDDVW+   N 
Sbjct: 57  VSKTYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWE--KND 114

Query: 217 WEPFFHCLKHGLHGSKILLTTRNESVARMMGSTN-IIFIEQLTEEES---FSGRSFE--- 269
           W+        G +GS++++TTR+ESVA  MG T+    +E L  EES   FS + FE   
Sbjct: 115 WDKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKEL 174

Query: 270 -DCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQ--GL 326
             C +LE + ++I  KCKGLPLA K  G LL  KS ++EW+  L+    ++        +
Sbjct: 175 PPCPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEV 234

Query: 327 FAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVE 377
            + L LSY++LP +  +KRCF Y A+FP++YNI+K++LI LW+ +G++   
Sbjct: 235 LSILSLSYDNLPMH--LKRCFLYLALFPEDYNIRKEQLIKLWIAEGFVIPS 283

Length = 285

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

 Score = 45.7 bits (108), Expect = 7e-05
 Identities = 41/160 (25%), Positives = 64/160 (40%), Gaps = 7/160 (4%)

Query: 509 IFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELP 568
             D   N I  +P  +R L +LK L+LS   +  LPK L  L NL  LD+     + +LP
Sbjct: 144 ELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGN-KISDLP 202

Query: 569 AGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQ 628
             I  L  +  L      +++ +   +S L +L  LE           S   L +L+ L 
Sbjct: 203 PEIELLSALEELDLSNNSIIE-LLSSLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLD 261

Query: 629 LLRE-----CGIEGLSNVSHLDEDERLGLHNMKNLLRLSL 663
           L          +  L+N+  LD       + +  +  L L
Sbjct: 262 LSNNQISSISSLGSLTNLRELDLSGNSLSNALPLIALLLL 301

Length = 394

>gnl|CDD|223626 COG0552, FtsY, Signal recognition particle GTPase [Intracellular trafficking and secretion]

 Score = 43.8 bits (104), Expect = 3e-04
 Identities = 31/146 (21%), Positives = 62/146 (42%), Gaps = 13/146 (8%)

Query: 52  KKNVRSFFRAVSNCFGSFKQLSLRQDIAVKIREINEKPD---DIASQKDRFKFVENVSNH 108
            K  ++F + +   F    +  L +D+  ++ E+  + D   + A      + +E +   
Sbjct: 42  SKTKKNFGKGIKGLFLKKIKEKLDEDLLEELEELLIEADVGVETAE-----EIIEELRKR 96

Query: 109 VKKPKQARTTSLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTT-L 167
             K K+ +    + E      ++    +    L     ++K   VI  VG+ G+GKTT +
Sbjct: 97  EGKKKKIKDEETVKEALREALIEILRPVDKVDLPLEIPKEKKPFVILFVGVNGVGKTTTI 156

Query: 168 AQLAYNNDEVKRNFEKVIWVCVSDTF 193
           A+LA     +K+  + V+     DTF
Sbjct: 157 AKLAKY---LKQQGKSVLLA-AGDTF 178

Length = 340

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	876
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.97
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.96
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.93
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.9
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.9
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.9
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.89
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.87
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.82
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.79
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.75
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.58
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.57
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.53
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.47
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.45
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.43
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.4
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.38
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.37
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.21
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.17
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.81
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.8
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.72
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.64
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.64
PRK04841	903	transcriptional regulator MalT; Provisional	98.64
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.61
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.59
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.56
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.48
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.46
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.45
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.4
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.4
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.38
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.37
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.34
PLN03150	623	hypothetical protein; Provisional	98.34
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.32
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.3
PRK06893	229	DNA replication initiation factor; Validated	98.29
PF05729	166	NACHT: NACHT domain	98.28
KOG4341	483	consensus F-box protein containing LRR [General fu	98.25
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.25
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.23
PLN03150	623	hypothetical protein; Provisional	98.22
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.13
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.08
PF13173	128	AAA_14: AAA domain	98.08
PRK15386	426	type III secretion protein GogB; Provisional	98.05
PRK13342	413	recombination factor protein RarA; Reviewed	98.05
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.03
KOG4341	483	consensus F-box protein containing LRR [General fu	98.02
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.01
KOG2028	554	consensus ATPase related to the helicase subunit o	97.97
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.93
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.92
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.91
PRK09376	416	rho transcription termination factor Rho; Provisio	97.9
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.89
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.87
cd01128	249	rho_factor Transcription termination factor rho is	97.84
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.83
PRK15386	426	type III secretion protein GogB; Provisional	97.8
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	97.8
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.74
PRK12402	337	replication factor C small subunit 2; Reviewed	97.72
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.71
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.67
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.62
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	97.61
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	97.61
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.6
PRK08084	235	DNA replication initiation factor; Provisional	97.58
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	97.57
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.54
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.53
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.53
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	97.52
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.51
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.51
PLN03025	319	replication factor C subunit; Provisional	97.51
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.5
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.46
PRK08118	167	topology modulation protein; Reviewed	97.46
PRK05642	234	DNA replication initiation factor; Validated	97.45
PRK08727	233	hypothetical protein; Validated	97.45
PRK13341	725	recombination factor protein RarA/unknown domain f	97.44
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.44
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.43
PRK09087	226	hypothetical protein; Validated	97.42
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.34
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.33
PTZ00202	550	tuzin; Provisional	97.32
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.3
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.3
PRK08903	227	DnaA regulatory inactivator Hda; Validated	97.3
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.29
PRK04195	482	replication factor C large subunit; Provisional	97.27
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.26
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	97.26
PRK07471	365	DNA polymerase III subunit delta'; Validated	97.25
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.25
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	97.25
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.24
TIGR00767	415	rho transcription termination factor Rho. Members	97.23
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.23
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	97.21
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	97.18
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.17
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.16
COG3899	849	Predicted ATPase [General function prediction only	97.16
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.15
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.13
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.13
PRK09112	351	DNA polymerase III subunit delta'; Validated	97.12
PHA02544	316	44 clamp loader, small subunit; Provisional	97.03
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.02
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.01
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.0
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	96.96
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.96
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	96.95
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	96.94
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	96.94
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	96.92
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	96.89
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.89
PTZ00112	1164	origin recognition complex 1 protein; Provisional	96.81
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	96.78
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	96.75
COG0593	408	DnaA ATPase involved in DNA replication initiation	96.7
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.69
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	96.69
PRK06620	214	hypothetical protein; Validated	96.67
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	96.66
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	96.59
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	96.57
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.55
PRK14087	450	dnaA chromosomal replication initiation protein; P	96.52
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.51
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.5
PRK08116	268	hypothetical protein; Validated	96.48
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	96.47
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	96.41
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	96.4
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	96.38
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.34
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.31
PRK07261	171	topology modulation protein; Provisional	96.3
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	96.29
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	96.28
PF00004	132	AAA: ATPase family associated with various cellula	96.27
PRK06696	223	uridine kinase; Validated	96.27
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	96.25
CHL00181	287	cbbX CbbX; Provisional	96.25
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.24
PRK15455	644	PrkA family serine protein kinase; Provisional	96.22
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.18
PRK08181	269	transposase; Validated	96.17
PRK12422	445	chromosomal replication initiation protein; Provis	96.16
PRK05707	328	DNA polymerase III subunit delta'; Validated	96.11
PRK12377	248	putative replication protein; Provisional	96.09
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.08
COG3903	414	Predicted ATPase [General function prediction only	96.08
PRK00149	450	dnaA chromosomal replication initiation protein; R	96.05
PRK07952	244	DNA replication protein DnaC; Validated	96.03
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	96.03
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	96.03
PRK09183	259	transposase/IS protein; Provisional	95.99
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.99
PRK06921	266	hypothetical protein; Provisional	95.98
PRK08939	306	primosomal protein DnaI; Reviewed	95.94
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	95.92
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	95.86
PRK07667	193	uridine kinase; Provisional	95.86
PRK14086	617	dnaA chromosomal replication initiation protein; P	95.84
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.76
PRK06835	329	DNA replication protein DnaC; Validated	95.7
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	95.65
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.64
PRK08058	329	DNA polymerase III subunit delta'; Validated	95.64
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	95.63
PRK10865	857	protein disaggregation chaperone; Provisional	95.61
PTZ00301	210	uridine kinase; Provisional	95.61
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	95.59
PRK06526	254	transposase; Provisional	95.55
PRK07399	314	DNA polymerase III subunit delta'; Validated	95.55
PRK05541	176	adenylylsulfate kinase; Provisional	95.5
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	95.49
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.48
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.43
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	95.42
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	95.41
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	95.41
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	95.35
PRK06090	319	DNA polymerase III subunit delta'; Validated	95.35
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.32
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	95.31
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	95.3
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	95.27
KOG4252	246	consensus GTP-binding protein [Signal transduction	95.21
PRK05480	209	uridine/cytidine kinase; Provisional	95.2
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.15
PRK14088	440	dnaA chromosomal replication initiation protein; P	95.15
PRK08233	182	hypothetical protein; Provisional	95.14
PRK11608	326	pspF phage shock protein operon transcriptional ac	95.13
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.07
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.06
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.04
CHL00095	821	clpC Clp protease ATP binding subunit	94.94
PRK08769	319	DNA polymerase III subunit delta'; Validated	94.9
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	94.86
PRK03992	389	proteasome-activating nucleotidase; Provisional	94.86
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	94.84
CHL00095	821	clpC Clp protease ATP binding subunit	94.83
PRK06547	172	hypothetical protein; Provisional	94.82
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	94.79
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	94.78
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	94.77
PF14516	331	AAA_35: AAA-like domain	94.67
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	94.67
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	94.67
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	94.61
PRK13531	498	regulatory ATPase RavA; Provisional	94.6
PRK06762	166	hypothetical protein; Provisional	94.59
PF07726	131	AAA_3: ATPase family associated with various cellu	94.57
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	94.56
smart00382	148	AAA ATPases associated with a variety of cellular	94.53
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	94.47
TIGR02237	209	recomb_radB DNA repair and recombination protein R	94.47
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	94.46
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	94.44
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	94.42
PRK10865	857	protein disaggregation chaperone; Provisional	94.41
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	94.36
PRK03839	180	putative kinase; Provisional	94.36
PRK04040	188	adenylate kinase; Provisional	94.28
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	94.28
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	94.24
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	94.21
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.2
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	94.18
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	94.18
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	94.17
PHA00729	226	NTP-binding motif containing protein	94.15
PRK00625	173	shikimate kinase; Provisional	94.14
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	94.07
KOG1947	482	consensus Leucine rich repeat proteins, some prote	94.06
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	94.04
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	93.96
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	93.96
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	93.94
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	93.9
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	93.9
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	93.87
PRK00889	175	adenylylsulfate kinase; Provisional	93.87
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	93.84
PRK10536	262	hypothetical protein; Provisional	93.84
COG1484	254	DnaC DNA replication protein [DNA replication, rec	93.74
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	93.74
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	93.71
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	93.69
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	93.67
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	93.65
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	93.65
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	93.62
PRK05022	509	anaerobic nitric oxide reductase transcription reg	93.61
PRK00131	175	aroK shikimate kinase; Reviewed	93.61
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	93.6
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	93.59
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	93.52
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	93.49
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	93.47
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	93.44
) 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	93.42
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	93.37
PRK13947	171	shikimate kinase; Provisional	93.37
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	93.37
PRK03846	198	adenylylsulfate kinase; Provisional	93.34
PRK05439	311	pantothenate kinase; Provisional	93.33
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	93.33
PRK07993	334	DNA polymerase III subunit delta'; Validated	93.33
PRK06217	183	hypothetical protein; Validated	93.32
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	93.32
PHA02244	383	ATPase-like protein	93.29
KOG1947	482	consensus Leucine rich repeat proteins, some prote	93.29
PRK06871	325	DNA polymerase III subunit delta'; Validated	93.29
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	93.21
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	93.21
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	93.19
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	93.13
PRK13949	169	shikimate kinase; Provisional	93.08
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	93.06
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	93.06
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	93.06
COG2884	223	FtsE Predicted ATPase involved in cell division [C	93.05
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	93.03
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	93.02
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	93.01
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	93.0
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	92.99
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	92.97
TIGR00064	272	ftsY signal recognition particle-docking protein F	92.96
PRK06964	342	DNA polymerase III subunit delta'; Validated	92.96
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	92.93
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	92.91
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	92.91
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	92.9
cd01394	218	radB RadB. The archaeal protein radB shares simila	92.89
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	92.85
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	92.79
PRK00300	205	gmk guanylate kinase; Provisional	92.77
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	92.74
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	92.72
PRK13948	182	shikimate kinase; Provisional	92.7
KOG1969	877	consensus DNA replication checkpoint protein CHL12	92.67
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	92.67
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	92.63
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	92.6
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	92.6
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	92.58
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	92.57
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	92.57
PRK05057	172	aroK shikimate kinase I; Reviewed	92.57
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	92.57
PRK13975	196	thymidylate kinase; Provisional	92.56
PRK14530	215	adenylate kinase; Provisional	92.52
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	92.49
KOG0473	326	consensus Leucine-rich repeat protein [Function un	92.47
PLN02318	656	phosphoribulokinase/uridine kinase	92.47
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	92.4
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	92.4
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	92.39
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	92.38
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	92.34
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	92.32
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	92.31
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	92.29
PRK12339	197	2-phosphoglycerate kinase; Provisional	92.23
PRK13946	184	shikimate kinase; Provisional	92.17
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	92.13
PRK13236	296	nitrogenase reductase; Reviewed	92.03
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	92.03
PRK06761	282	hypothetical protein; Provisional	91.99
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	91.98
PF13245	76	AAA_19: Part of AAA domain	91.91
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	91.88
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	91.82
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	91.8
TIGR01287	275	nifH nitrogenase iron protein. This model describe	91.8
PRK14738	206	gmk guanylate kinase; Provisional	91.77
PRK13230	279	nitrogenase reductase-like protein; Reviewed	91.75
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	91.72
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	91.71
PRK13695	174	putative NTPase; Provisional	91.71
PRK13232	273	nifH nitrogenase reductase; Reviewed	91.7
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	91.62
PF00005	137	ABC_tran: ABC transporter This structure is on hol	91.61
cd03116	159	MobB Molybdenum is an essential trace element in t	91.59
PF11868	192	DUF3388: Protein of unknown function (DUF3388); In	91.57
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	91.56
cd02117	212	NifH_like This family contains the NifH (iron prot	91.55
COG1100	219	GTPase SAR1 and related small G proteins [General	91.52
PRK09825	176	idnK D-gluconate kinase; Provisional	91.5
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	91.46
PRK14737	186	gmk guanylate kinase; Provisional	91.43
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	91.42
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	91.41
PRK04182	180	cytidylate kinase; Provisional	91.41
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	91.39
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	91.38
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	91.37
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	91.33
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	91.31
PLN02200	234	adenylate kinase family protein	91.29
PLN02348	395	phosphoribulokinase	91.28
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	91.27
PRK14527	191	adenylate kinase; Provisional	91.27
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	91.24
cd02040	270	NifH NifH gene encodes component II (iron protein)	91.23
COG0714	329	MoxR-like ATPases [General function prediction onl	91.17
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	91.15
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	91.13
PRK08099	399	bifunctional DNA-binding transcriptional repressor	91.11
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	91.09
PLN02796	347	D-glycerate 3-kinase	91.09
PRK10416	318	signal recognition particle-docking protein FtsY;	91.08
PRK14974	336	cell division protein FtsY; Provisional	91.05
PRK15453	290	phosphoribulokinase; Provisional	91.04
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	91.04
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	90.98
PRK03731	171	aroL shikimate kinase II; Reviewed	90.95
PRK04301	317	radA DNA repair and recombination protein RadA; Va	90.89
PRK13768	253	GTPase; Provisional	90.86
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	90.85
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	90.85
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	90.84
PRK13233	275	nifH nitrogenase reductase; Reviewed	90.75
cd03114	148	ArgK-like The function of this protein family is u	90.74
PLN02165	334	adenylate isopentenyltransferase	90.73
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	90.69
PRK13235	274	nifH nitrogenase reductase; Reviewed	90.65
TIGR02236	310	recomb_radA DNA repair and recombination protein R	90.63
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	90.62
PRK15115	444	response regulator GlrR; Provisional	90.6
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	90.59
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	90.59
PLN03046	460	D-glycerate 3-kinase; Provisional	90.53
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	90.52
PRK08356	195	hypothetical protein; Provisional	90.49
PRK09435	332	membrane ATPase/protein kinase; Provisional	90.49
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	90.47
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	90.47
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	90.46
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	90.45
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	90.44
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	90.42
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	90.41
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	90.41
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	90.4
cd03269	210	ABC_putative_ATPase This subfamily is involved in	90.37
PRK13976	209	thymidylate kinase; Provisional	90.35
PRK13231	264	nitrogenase reductase-like protein; Reviewed	90.34
PRK10867	433	signal recognition particle protein; Provisional	90.33
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	90.32
PTZ00088	229	adenylate kinase 1; Provisional	90.28
cd00983	325	recA RecA is a bacterial enzyme which has roles in	90.26
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	90.24
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	90.23
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	90.23
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	90.18
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	90.13
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	90.12
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	90.11
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	90.11
COG4107	258	PhnK ABC-type phosphonate transport system, ATPase	90.08
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	90.07
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	90.07
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	90.04
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	90.04
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	90.03
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	90.02
PRK01184	184	hypothetical protein; Provisional	90.01
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	90.0
PRK15424	538	propionate catabolism operon regulatory protein Pr	89.99
cd03115	173	SRP The signal recognition particle (SRP) mediates	89.98
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	89.98
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	89.96
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	89.94
PRK14532	188	adenylate kinase; Provisional	89.94
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	89.94
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	89.92
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	89.88
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	89.87
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	89.87
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	89.85
PRK00698	205	tmk thymidylate kinase; Validated	89.84
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	89.81
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	89.76
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	89.74
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	89.74
smart00370	26	LRR Leucine-rich repeats, outliers.	89.74
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	89.71
PRK00771	437	signal recognition particle protein Srp54; Provisi	89.69
PF13555	62	AAA_29: P-loop containing region of AAA domain	89.68
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	89.66
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	89.66
COG0125	208	Tmk Thymidylate kinase [Nucleotide transport and m	89.65
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	89.62
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	89.56
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	89.54
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	89.54
cd02034	116	CooC The accessory protein CooC, which contains a	89.53
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	89.52
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	89.52
KOG3864	221	consensus Uncharacterized conserved protein [Funct	89.51
PHA02575	227	1 deoxynucleoside monophosphate kinase; Provisiona	89.47
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	89.43
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	89.39
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	89.39
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	89.38
CHL00176	638	ftsH cell division protein; Validated	89.37
PRK14531	183	adenylate kinase; Provisional	89.35
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	89.32
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	89.3
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	89.27
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	89.26
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	89.25
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	89.19
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	89.19
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	89.18
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	89.18
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	89.17
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	89.12

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.2e-81  Score=732.16  Aligned_cols=680  Identities=26%  Similarity=0.399  Sum_probs=500.9

Q ss_pred             cHHHHHHHHHHHHhHhhhhhHhhhHHHHHHHHHHhcCCCCcccccccccccccchhcccccccCCCcchhhhHHHHHHHH
Q 042981            4 DKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAVSNCFGSFKQLSLRQDIAVKIR   83 (876)
Q Consensus         4 ~~~~~~wl~~lr~~~yd~eD~lD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   83 (876)
                      ...+..|.+.+++++|++||+++.|.......+..+.        ........+..     |+     ..+++..+..+.
T Consensus        54 ~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~~--------l~~~~~~~~~~-----c~-----~~~~~~~~~~~~  115 (889)
T KOG4658|consen   54 LERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKANDL--------LSTRSVERQRL-----CL-----CGFCSKNVSDSY  115 (889)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH--------hhhhHHHHHHH-----hh-----hhhHhHhhhhhH
Confidence            3567899999999999999999999998866544322        00000011111     11     145566666666


Q ss_pred             HHHHhHHHHHhcccccceeeccc-cC--ccCCCCCccccCccCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecC
Q 042981           84 EINEKPDDIASQKDRFKFVENVS-NH--VKKPKQARTTSLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLG  160 (876)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~~~~~~-~~--~~~~~~~~~~~~~~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~g  160 (876)
                      .+.+|+..+.+....++...... ..  ......+++.+...+.. ||.+..++++++.|..++      ..+++|+|||
T Consensus       116 ~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~------~~iv~i~GMG  188 (889)
T KOG4658|consen  116 KYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRLMEDD------VGIVGIYGMG  188 (889)
T ss_pred             hHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcccc-ccHHHHHHHHHHHhccCC------CCEEEEECCC
Confidence            66666666666666655433221 11  11122344445555555 999999999999999653      3899999999


Q ss_pred             CchHHHHHHHHHcCcc-ccccCCeEEEEEeCCchhHHHHHHHHHHh--------------------------------cc
Q 042981          161 GMGKTTLAQLAYNNDE-VKRNFEKVIWVCVSDTFEEIRVANAIIEG--------------------------------LD  207 (876)
Q Consensus       161 GiGKTtLa~~v~~~~~-~~~~F~~~~wv~vs~~~~~~~~~~~i~~~--------------------------------lD  207 (876)
                      |+||||||++|+|+.. ++.+||.++||+||+.|+...++++|++.                                ||
T Consensus       189 GvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLD  268 (889)
T KOG4658|consen  189 GVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLD  268 (889)
T ss_pred             cccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEe
Confidence            9999999999999988 99999999999999999999999999985                                89


Q ss_pred             ccccCCccChhhHHhhhccCCCCCEEEEEcCchHHHHh-hCCcceEeCCCCCcccc--ccC-----CCcCCccchHHHHH
Q 042981          208 DVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARM-MGSTNIIFIEQLTEEES--FSG-----RSFEDCEKLEPIGR  279 (876)
Q Consensus       208 dvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~v~~~-~~~~~~~~l~~L~~~~~--~f~-----~~~~~~~~l~~~~~  279 (876)
                      |||++.  +|+.+..++|....||||++|||++.||.. |++...++++.|+++||  +|.     .....++.++++|+
T Consensus       269 DIW~~~--dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak  346 (889)
T KOG4658|consen  269 DIWEEV--DWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAK  346 (889)
T ss_pred             cccccc--cHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccccccccHHHHHH
Confidence            999984  799999999999999999999999999998 88899999999999999  443     33345566999999


Q ss_pred             HHHHHcCCCchHHHHhhhhhcCCccHHHHHHHhhhhhcccc----ccCCcchhhHhhcccCCCCchhHHHHHhHhccCCC
Q 042981          280 KIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVE----EIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPK  355 (876)
Q Consensus       280 ~i~~~c~GlPlai~~~~~~L~~~~~~~~w~~~~~~~~~~~~----~~~~~~~~~l~~sy~~L~~~~~lk~cfly~~~fp~  355 (876)
                      +|+++|+|+|||++++|+.|+.|.+.++|+++.+...+.+.    ...+.++++|++||++||+  ++|.||+|||+||+
T Consensus       347 ~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~--~lK~CFLycalFPE  424 (889)
T KOG4658|consen  347 EVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPE--ELKSCFLYCALFPE  424 (889)
T ss_pred             HHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhH--HHHHHHHhhccCCc
Confidence            99999999999999999999999999999999997766532    2346799999999999996  99999999999999


Q ss_pred             CceeChHHHHHHHHHcCccccC-CChhHHHHHHhhhhh---cccccC--CCCCCcceEEcChHHHHHHHHhcc-----cc
Q 042981          356 EYNIKKKELISLWMVQGYLNVE-EDEEIEMTGEEYFNI---SKFKKD--DDDDDIMSCKMHDIVHDFAQFVSR-----KE  424 (876)
Q Consensus       356 ~~~i~~~~li~~W~aeg~i~~~-~~~~~e~~~~~~~~~---~~~~~~--~~~~~~~~~~mHdlv~dla~~i~~-----~e  424 (876)
                      ||+|+++.||.+||||||+... .+.++++.|..|+.+   ......  ..++.. +|+|||+|||||.++|+     ++
T Consensus       425 D~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~-~~kmHDvvRe~al~ias~~~~~~e  503 (889)
T KOG4658|consen  425 DYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKE-TVKMHDVVREMALWIASDFGKQEE  503 (889)
T ss_pred             ccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhccccccee-EEEeeHHHHHHHHHHhcccccccc
Confidence            9999999999999999999884 458999999999988   111111  114445 99999999999999999     66


Q ss_pred             eEEEEeC-CccceecccCCCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEec
Q 042981          425 CLWVEIN-GTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVI  503 (876)
Q Consensus       425 ~~~~~~~-~~~~~~~~~~~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L  503 (876)
                      .+.+..+ +....+....+..+|++++.++.+..++... .+++|++|.+..+..    ....+...+|..++.||+|||
T Consensus       504 ~~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~-~~~~L~tLll~~n~~----~l~~is~~ff~~m~~LrVLDL  578 (889)
T KOG4658|consen  504 NQIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSS-ENPKLRTLLLQRNSD----WLLEISGEFFRSLPLLRVLDL  578 (889)
T ss_pred             ceEEECCcCccccccccchhheeEEEEeccchhhccCCC-CCCccceEEEeecch----hhhhcCHHHHhhCcceEEEEC
Confidence            6555433 2222333344678999999999887665543 566899999987741    134556777999999999999


Q ss_pred             CccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecC
Q 042981          504 GQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNG  583 (876)
Q Consensus       504 ~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~  583 (876)
                      ++        +-.+.++|++|++|.+||||+|+++.|..+|.++++|+.|++||+..+..+..+|..+..|++||+|.+.
T Consensus       579 s~--------~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~  650 (889)
T KOG4658|consen  579 SG--------NSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLP  650 (889)
T ss_pred             CC--------CCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheeccccccccccccchhhhcccccEEEee
Confidence            42        2356789999999999999999999999999999999999999999997777777777789999999987


Q ss_pred             CCCCCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEE
Q 042981          584 GTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSL  663 (876)
Q Consensus       584 ~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L  663 (876)
                      .... ..-...++.+.+|++|..+.+....    ...+..+..+..|+.+.+.-... ..........+..+.+|+.|.+
T Consensus       651 ~s~~-~~~~~~l~el~~Le~L~~ls~~~~s----~~~~e~l~~~~~L~~~~~~l~~~-~~~~~~~~~~~~~l~~L~~L~i  724 (889)
T KOG4658|consen  651 RSAL-SNDKLLLKELENLEHLENLSITISS----VLLLEDLLGMTRLRSLLQSLSIE-GCSKRTLISSLGSLGNLEELSI  724 (889)
T ss_pred             cccc-ccchhhHHhhhcccchhhheeecch----hHhHhhhhhhHHHHHHhHhhhhc-ccccceeecccccccCcceEEE
Confidence            6531 1111224455566666554443221    11123333444444322111100 0122334456778888999998


Q ss_pred             EeccCCccccchHHHHHhhCC---CCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCC-CCCCCCccc-Cce
Q 042981          664 EFDEEGEEGRRKNQQLLEALQ---PPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICE-HFPPLGKLP-LEK  736 (876)
Q Consensus       664 ~~~~~~~~~~~~~~~~~~~l~---~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~-~lp~l~~Lp-L~~  736 (876)
                      ..+.......    ...+...   ..+++..+.+.++.....+.|....++|+.|.+..|...+ .+|....+. ++.
T Consensus       725 ~~~~~~e~~~----~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~~~f~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~  798 (889)
T KOG4658|consen  725 LDCGISEIVI----EWEESLIVLLCFPNLSKVSILNCHMLRDLTWLLFAPHLTSLSLVSCRLLEDIIPKLKALLELKE  798 (889)
T ss_pred             EcCCCchhhc----ccccccchhhhHHHHHHHHhhccccccccchhhccCcccEEEEecccccccCCCHHHHhhhccc
Confidence            8776531100    0000000   1235556666666666667888788899999999888765 344444444 443

>PLN03210 Resistant to P

Probab=100.00  E-value=2.6e-64  Score=621.86  Aligned_cols=709  Identities=19%  Similarity=0.237  Sum_probs=433.7

Q ss_pred             HHHHHHHHhHHHHHhcccccceeeccc-------cCccCCCCCccccCccCCceeeccchHHHHHHHhhccCCcCCCCeE
Q 042981           80 VKIREINEKPDDIASQKDRFKFVENVS-------NHVKKPKQARTTSLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLH  152 (876)
Q Consensus        80 ~~i~~~~~~l~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~  152 (876)
                      .+++++++.+.+++...+.. ......       ....+......++..+.+++||+++.++++..+|....    ++++
T Consensus       134 ~~~~~w~~al~~~~~~~g~~-~~~~~~E~~~i~~Iv~~v~~~l~~~~~~~~~~~vG~~~~l~~l~~lL~l~~----~~~~  208 (1153)
T PLN03210        134 DEKIQWKQALTDVANILGYH-SQNWPNEAKMIEEIANDVLGKLNLTPSNDFEDFVGIEDHIAKMSSLLHLES----EEVR  208 (1153)
T ss_pred             hHHHHHHHHHHHHhCcCcee-cCCCCCHHHHHHHHHHHHHHhhccccCcccccccchHHHHHHHHHHHcccc----CceE
Confidence            56889999999988765421 110000       01111111122233345679999999999998886543    4789


Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEe---CCc-----------hh-HHHHHHH----HHH---------
Q 042981          153 VISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCV---SDT-----------FE-EIRVANA----IIE---------  204 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~v---s~~-----------~~-~~~~~~~----i~~---------  204 (876)
                      ||+||||||+||||||+++|+  ++..+|+..+|+..   +..           ++ ...+++.    ++.         
T Consensus       209 vvgI~G~gGiGKTTLA~~l~~--~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~  286 (1153)
T PLN03210        209 MVGIWGSSGIGKTTIARALFS--RLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYHL  286 (1153)
T ss_pred             EEEEEcCCCCchHHHHHHHHH--HHhhcCCeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCcccCCH
Confidence            999999999999999999998  78889998888742   111           01 0111221    111         


Q ss_pred             --------h------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchHHHHhhCCcceEeCCCCCcccc-------c
Q 042981          205 --------G------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEES-------F  263 (876)
Q Consensus       205 --------~------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~v~~~~~~~~~~~l~~L~~~~~-------~  263 (876)
                              .      |||||+.  +.|+.+.....+.++||+||||||+++++..++..++|+|+.|++++|       +
T Consensus       287 ~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~A  364 (1153)
T PLN03210        287 GAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSA  364 (1153)
T ss_pred             HHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHh
Confidence                    1      8999976  478888877777788999999999999999888889999999999999       3


Q ss_pred             cCCCcCCccchHHHHHHHHHHcCCCchHHHHhhhhhcCCccHHHHHHHhhhhhccccccCCcchhhHhhcccCCCCchhH
Q 042981          264 SGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMV  343 (876)
Q Consensus       264 f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~l  343 (876)
                      |+.. ..++++.+++++|+++|+|+|||++++|+.|+++. .++|+.++++.....   +.++.++|++||++|+++ ..
T Consensus       365 f~~~-~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~-~~~W~~~l~~L~~~~---~~~I~~~L~~SYd~L~~~-~~  438 (1153)
T PLN03210        365 FKKN-SPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRD-KEDWMDMLPRLRNGL---DGKIEKTLRVSYDGLNNK-KD  438 (1153)
T ss_pred             cCCC-CCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCC-HHHHHHHHHHHHhCc---cHHHHHHHHHhhhccCcc-ch
Confidence            4432 23456889999999999999999999999999874 789999998765432   346999999999999873 48


Q ss_pred             HHHHhHhccCCCCceeChHHHHHHHHHcCccccCCChhHHHHHHhhhhhcccccCCCCCCcceEEcChHHHHHHHHhccc
Q 042981          344 KRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEYFNISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRK  423 (876)
Q Consensus       344 k~cfly~~~fp~~~~i~~~~li~~W~aeg~i~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~mHdlv~dla~~i~~~  423 (876)
                      |.||+|||+||.++.+   +.+..|+|++......+  ++..++..+    +..  .++   +++|||++|+||+.++++
T Consensus       439 k~~Fl~ia~ff~~~~~---~~v~~~l~~~~~~~~~~--l~~L~~ksL----i~~--~~~---~~~MHdLl~~~~r~i~~~  504 (1153)
T PLN03210        439 KAIFRHIACLFNGEKV---NDIKLLLANSDLDVNIG--LKNLVDKSL----IHV--RED---IVEMHSLLQEMGKEIVRA  504 (1153)
T ss_pred             hhhhheehhhcCCCCH---HHHHHHHHhcCCCchhC--hHHHHhcCC----EEE--cCC---eEEhhhHHHHHHHHHHHh
Confidence            9999999999988654   45788888876643322  333333333    111  122   688999999999999877


Q ss_pred             ce-------E-EEEeCCccceecccCCCceEEEEeeecCCCCC---cccccCCCcceEEeeecCCCCC-CCCchhhhHHH
Q 042981          424 EC-------L-WVEINGTKESVINSFGDKVRHLGLNFEGGASF---PMSIHGLNRLRTLLIYFQSPSN-PSLNSSILSEL  491 (876)
Q Consensus       424 e~-------~-~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~~---~~~~~~~~~Lr~L~l~~~~~~~-~~~~~~~~~~~  491 (876)
                      +.       + |...+.......+....+++.+++..+....+   ...|.+|++|+.|.++.+.... +.....++.. 
T Consensus       505 ~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~-  583 (1153)
T PLN03210        505 QSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEG-  583 (1153)
T ss_pred             hcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccceeeecHHHHhcCccccEEEEecccccccccceeecCcc-
Confidence            63       2 21111111112234467788888877665543   5678899999999997653111 1111222333 


Q ss_pred             hccC-CcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccccc
Q 042981          492 FSKL-ACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAG  570 (876)
Q Consensus       492 ~~~l-~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~  570 (876)
                      |..+ ..||.|.+         .++.+..+|..+ .+.+|+.|+|++|.+..+|..+..+++|+.|+|++|..+..+|. 
T Consensus       584 ~~~lp~~Lr~L~~---------~~~~l~~lP~~f-~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~-  652 (1153)
T PLN03210        584 FDYLPPKLRLLRW---------DKYPLRCMPSNF-RPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPD-  652 (1153)
T ss_pred             hhhcCcccEEEEe---------cCCCCCCCCCcC-CccCCcEEECcCccccccccccccCCCCCEEECCCCCCcCcCCc-
Confidence            3333 45888888         555566666655 34666666666666666666666666666666666655666654 


Q ss_pred             ccCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhc
Q 042981          571 IGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERL  650 (876)
Q Consensus       571 i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~  650 (876)
                      ++.+++|++|++++|..+..+|..++++++|+.|....+..-.      .+..-.++++|+.|.++++..+..++.    
T Consensus       653 ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~------~Lp~~i~l~sL~~L~Lsgc~~L~~~p~----  722 (1153)
T PLN03210        653 LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLE------ILPTGINLKSLYRLNLSGCSRLKSFPD----  722 (1153)
T ss_pred             cccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcC------ccCCcCCCCCCCEEeCCCCCCcccccc----
Confidence            6666666666666666666666666666666666332211100      011111355555566655433322211    


Q ss_pred             cCcccccCCceEEEeccCCccccch--------------HHHHHh--------hCCCCCCccEEEEeecC-CCCCCchhh
Q 042981          651 GLHNMKNLLRLSLEFDEEGEEGRRK--------------NQQLLE--------ALQPPLNVKELGIVSYG-GNIFPKWLT  707 (876)
Q Consensus       651 ~l~~l~~L~~L~L~~~~~~~~~~~~--------------~~~~~~--------~l~~~~~L~~L~l~~~~-~~~lp~~l~  707 (876)
                         ...+|+.|+++.|.+.......              ......        ....+++|+.|.+.++. ...+|.+++
T Consensus       723 ---~~~nL~~L~L~~n~i~~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~  799 (1153)
T PLN03210        723 ---ISTNISWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQ  799 (1153)
T ss_pred             ---ccCCcCeeecCCCccccccccccccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChhhh
Confidence               1234555555544331100000              000000        00113455666665553 234566666


Q ss_pred             cccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeecccc
Q 042981          708 SLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAM  786 (876)
Q Consensus       708 ~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~  786 (876)
                      ++++|+.|+|++|...+.+|....++ |+.|++++|..+...+.                       ..++|+.|+++++
T Consensus       800 ~L~~L~~L~Ls~C~~L~~LP~~~~L~sL~~L~Ls~c~~L~~~p~-----------------------~~~nL~~L~Ls~n  856 (1153)
T PLN03210        800 NLHKLEHLEIENCINLETLPTGINLESLESLDLSGCSRLRTFPD-----------------------ISTNISDLNLSRT  856 (1153)
T ss_pred             CCCCCCEEECCCCCCcCeeCCCCCccccCEEECCCCCccccccc-----------------------cccccCEeECCCC
Confidence            66666666666665555555444555 66666666554322110                       1345666665554


Q ss_pred             ccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhcccc---------ccCCCCC
Q 042981          787 EELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILE---------DHRTTDI  857 (876)
Q Consensus       787 ~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~---------~~~~~~l  857 (876)
                       .++..      |..+..+++|+.|+|++|+.+..+|..+..+++|+.|++++|..+..++...         ......+
T Consensus       857 -~i~~i------P~si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l~~C~~L~~~~l~~~~~~~~~~~~n~~~~~  929 (1153)
T PLN03210        857 -GIEEV------PWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGALTEASWNGSPSEVAMATDNIHSKL  929 (1153)
T ss_pred             -CCccC------hHHHhcCCCCCEEECCCCCCcCccCcccccccCCCeeecCCCcccccccCCCCchhhhhhcccccccC
Confidence             23322      3345566666667776666666666666666666666666666665432211         0112344


Q ss_pred             CCcCEEEEccCCCCC
Q 042981          858 PRLSSLEIEYCPKLN  872 (876)
Q Consensus       858 p~L~~L~i~~c~~L~  872 (876)
                      |+...+.+.+|.+|.
T Consensus       930 p~~~~l~f~nC~~L~  944 (1153)
T PLN03210        930 PSTVCINFINCFNLD  944 (1153)
T ss_pred             CchhccccccccCCC
Confidence            555555666665554

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=6.8e-40  Score=347.95  Aligned_cols=242  Identities=38%  Similarity=0.654  Sum_probs=191.8

Q ss_pred             ccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHHh---
Q 042981          129 RVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEG---  205 (876)
Q Consensus       129 r~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~---  205 (876)
                      ||.++++|.+.|....    ++.++|+|+||||+||||||+++|++.+++.+|+.++||.++...+...+++.|+.+   
T Consensus         1 re~~~~~l~~~L~~~~----~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~   76 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNS----NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGE   76 (287)
T ss_dssp             -HHHHHHHHHHHHTTT----TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHhhCCC----CCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccc
Confidence            6889999999999753    378999999999999999999999977799999999999999988877777777755   


Q ss_pred             ------------------------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchHHHHhhCC-cceEeC
Q 042981          206 ------------------------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGS-TNIIFI  254 (876)
Q Consensus       206 ------------------------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~v~~~~~~-~~~~~l  254 (876)
                                                    |||||+..  .|+.+...++....||+||||||+..|+..++. ...|++
T Consensus        77 ~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l  154 (287)
T PF00931_consen   77 PDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEE--DLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIEL  154 (287)
T ss_dssp             C-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHH--HH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEEC
T ss_pred             cccccccccccccccccchhhhccccceeeeeeecccc--cccccccccccccccccccccccccccccccccccccccc
Confidence                                          89999874  898888888887789999999999999887764 789999


Q ss_pred             CCCCcccc--ccCCCc-----CCccchHHHHHHHHHHcCCCchHHHHhhhhhcCCccHHHHHHHhhhhhccccc---cCC
Q 042981          255 EQLTEEES--FSGRSF-----EDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEE---IGQ  324 (876)
Q Consensus       255 ~~L~~~~~--~f~~~~-----~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L~~~~~~~~w~~~~~~~~~~~~~---~~~  324 (876)
                      ++|+.+||  +|....     ...+.+.+++++|+++|+|+||||+++|++|+.+.+..+|+.+++...+...+   ...
T Consensus       155 ~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~  234 (287)
T PF00931_consen  155 EPLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDR  234 (287)
T ss_dssp             SS--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999  443221     23456778999999999999999999999997766678899998876555432   246


Q ss_pred             cchhhHhhcccCCCCchhHHHHHhHhccCCCCceeChHHHHHHHHHcCccccCC
Q 042981          325 GLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEE  378 (876)
Q Consensus       325 ~~~~~l~~sy~~L~~~~~lk~cfly~~~fp~~~~i~~~~li~~W~aeg~i~~~~  378 (876)
                      .+..++.+||+.||+  ++|.||+|||+||+++.|+++.++++|+|||||+..+
T Consensus       235 ~~~~~l~~s~~~L~~--~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~~  286 (287)
T PF00931_consen  235 SVFSALELSYDSLPD--ELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSKH  286 (287)
T ss_dssp             HHHHHHHHHHHSSHT--CCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC---
T ss_pred             cccccceechhcCCc--cHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCcccC
Confidence            689999999999999  9999999999999999999999999999999997653

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

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

Probab=99.97  E-value=3.6e-30  Score=319.77  Aligned_cols=280  Identities=24%  Similarity=0.294  Sum_probs=182.8

Q ss_pred             CceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccc------------
Q 042981          443 DKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFI------------  509 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~------------  509 (876)
                      .+++.|+++.+.+... +..+..+++|++|++++|.     +.+.++..++..+++|++|+|++|++.            
T Consensus        69 ~~v~~L~L~~~~i~~~~~~~~~~l~~L~~L~Ls~n~-----~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~  143 (968)
T PLN00113         69 SRVVSIDLSGKNISGKISSAIFRLPYIQTINLSNNQ-----LSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLE  143 (968)
T ss_pred             CcEEEEEecCCCccccCChHHhCCCCCCEEECCCCc-----cCCcCChHHhccCCCCCEEECcCCccccccCccccCCCC
Confidence            4677777777765433 5667777788888776554     334455566667777777777766552            


Q ss_pred             -cCCCCCccc-ccccccccCcccCeeeccCcccc-ccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCC
Q 042981          510 -FDPYPNLIR-EIPENVRKLIHLKYLNLSELCIE-RLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTP  586 (876)
Q Consensus       510 -~~~~~~~i~-~lp~~i~~L~~Lr~L~Ls~~~i~-~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~  586 (876)
                       ++.++|.+. .+|..++++.+|++|+|++|.+. .+|..++++++|++|+|++|.....+|..++++++|++|++++|.
T Consensus       144 ~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~  223 (968)
T PLN00113        144 TLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNN  223 (968)
T ss_pred             EEECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCc
Confidence             233555554 57778888888888888888875 778888888888888888887667788888888888888888888


Q ss_pred             CCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEec
Q 042981          587 LLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFD  666 (876)
Q Consensus       587 ~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~  666 (876)
                      +.+.+|..++++++|++|......     +.+.....+.++++|+.|.++++    .+....+..+.++++|+.|++++|
T Consensus       224 l~~~~p~~l~~l~~L~~L~L~~n~-----l~~~~p~~l~~l~~L~~L~L~~n----~l~~~~p~~l~~l~~L~~L~Ls~n  294 (968)
T PLN00113        224 LSGEIPYEIGGLTSLNHLDLVYNN-----LTGPIPSSLGNLKNLQYLFLYQN----KLSGPIPPSIFSLQKLISLDLSDN  294 (968)
T ss_pred             cCCcCChhHhcCCCCCEEECcCce-----eccccChhHhCCCCCCEEECcCC----eeeccCchhHhhccCcCEEECcCC
Confidence            877888888888888888432211     11112234566777777777663    223333445666777777777776


Q ss_pred             cCCccccchHHHHHhhCCCCCCccEEEEeecCCC-CCCchhhcccCCcEEEEecCCCCCCCCC-CCccc-CceEeecCCC
Q 042981          667 EEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGN-IFPKWLTSLTNLRDLRLKSCVICEHFPP-LGKLP-LEKLTLYGLY  743 (876)
Q Consensus       667 ~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~l~~l~~L~~L~L~~~~~~~~lp~-l~~Lp-L~~L~L~~~~  743 (876)
                      .+.+       .....+..+++|+.|++.+|... .+|.++..+++|+.|+|++|.+.+.+|. ++.++ |+.|++++|.
T Consensus       295 ~l~~-------~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~  367 (968)
T PLN00113        295 SLSG-------EIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNN  367 (968)
T ss_pred             eecc-------CCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCCCCcCcCChHHhCCCCCcEEECCCCe
Confidence            5521       11223334556666666665543 3455666666666666666666554443 45555 6666665554

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

Probab=99.96  E-value=4.1e-29  Score=310.34  Aligned_cols=399  Identities=18%  Similarity=0.164  Sum_probs=237.2

Q ss_pred             CceEEEEeeecCCC-CCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccc-cc
Q 042981          443 DKVRHLGLNFEGGA-SFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR-EI  520 (876)
Q Consensus       443 ~~lr~L~l~~~~~~-~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~-~l  520 (876)
                      .+++.|++++|.+. .+|..+.++++|++|++.+|.     +... .+..+.++++|++|+|         ++|.+. .+
T Consensus       164 ~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~-----l~~~-~p~~l~~l~~L~~L~L---------~~n~l~~~~  228 (968)
T PLN00113        164 SSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQ-----LVGQ-IPRELGQMKSLKWIYL---------GYNNLSGEI  228 (968)
T ss_pred             CCCCEEECccCcccccCChhhhhCcCCCeeeccCCC-----CcCc-CChHHcCcCCccEEEC---------cCCccCCcC
Confidence            45666666666553 335566666666666665543     1222 2233566666666666         333333 45


Q ss_pred             ccccccCcccCeeeccCcccc-ccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCC
Q 042981          521 PENVRKLIHLKYLNLSELCIE-RLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLT  599 (876)
Q Consensus       521 p~~i~~L~~Lr~L~Ls~~~i~-~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~  599 (876)
                      |..++++++|++|+|++|.+. .+|..++++++|++|++++|.....+|..+.++++|++|++++|.+.+.+|..+.+++
T Consensus       229 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~~~~~l~  308 (968)
T PLN00113        229 PYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQ  308 (968)
T ss_pred             ChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCC
Confidence            666666666777777666655 5666666666677777766655556666666666677776666666566666666666


Q ss_pred             CCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccch----
Q 042981          600 SLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRK----  675 (876)
Q Consensus       600 ~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~----  675 (876)
                      +|+.|......     +.+.....+..+++|+.|+++++    .+....+..+..+++|+.|++++|.+.+..+..    
T Consensus       309 ~L~~L~l~~n~-----~~~~~~~~~~~l~~L~~L~L~~n----~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~  379 (968)
T PLN00113        309 NLEILHLFSNN-----FTGKIPVALTSLPRLQVLQLWSN----KFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSS  379 (968)
T ss_pred             CCcEEECCCCc-----cCCcCChhHhcCCCCCEEECcCC----CCcCcCChHHhCCCCCcEEECCCCeeEeeCChhHhCc
Confidence            66666322111     00111223445566666666553    222223334555556666666655442111100    


Q ss_pred             -------------HHHHHhhCCCCCCccEEEEeecCCC-CCCchhhcccCCcEEEEecCCCCCCCCC-CCccc-CceEee
Q 042981          676 -------------NQQLLEALQPPLNVKELGIVSYGGN-IFPKWLTSLTNLRDLRLKSCVICEHFPP-LGKLP-LEKLTL  739 (876)
Q Consensus       676 -------------~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~l~~l~~L~~L~L~~~~~~~~lp~-l~~Lp-L~~L~L  739 (876)
                                   .......+..+++|+.|++.+|... .+|..+..+++|+.|+|++|.+.+.+|. +..+| |+.|++
T Consensus       380 ~~L~~L~l~~n~l~~~~p~~~~~~~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  459 (968)
T PLN00113        380 GNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSL  459 (968)
T ss_pred             CCCCEEECcCCEecccCCHHHhCCCCCCEEECcCCEeeeECChhHhcCCCCCEEECcCCcccCccChhhccCCCCcEEEC
Confidence                         0011122334456666666665543 3466666666777777777766654443 44566 777777


Q ss_pred             cCCCCceEeCcccccCCCCCCCCCCCCCC----CcccccCcccceeeccccccccccccccccccccCcccccceeeecc
Q 042981          740 YGLYGVKRVGNEFLGIEGSSEDDPSSSSS----SSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWY  815 (876)
Q Consensus       740 ~~~~~l~~~~~~~~~~~~l~~~~~~~~~~----~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~  815 (876)
                      ++|......+..+ +...+..++++.+.+    +..+..+++|+.|+++++.      +.+..|..+..+++|+.|+|++
T Consensus       460 ~~n~~~~~~p~~~-~~~~L~~L~ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~------l~~~~p~~~~~l~~L~~L~Ls~  532 (968)
T PLN00113        460 ARNKFFGGLPDSF-GSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENK------LSGEIPDELSSCKKLVSLDLSH  532 (968)
T ss_pred             cCceeeeecCccc-ccccceEEECcCCccCCccChhhhhhhccCEEECcCCc------ceeeCChHHcCccCCCEEECCC
Confidence            7766544433322 233455555554332    3445567788888776652      2223356677889999999999


Q ss_pred             CccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCCCCCCCC
Q 042981          816 CPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLPD  876 (876)
Q Consensus       816 c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~~lP~  876 (876)
                      |.....+|..+..+++|+.|++++|+....+|.    .+..+++|+.|++++|+-...+|+
T Consensus       533 N~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~----~l~~l~~L~~l~ls~N~l~~~~p~  589 (968)
T PLN00113        533 NQLSGQIPASFSEMPVLSQLDLSQNQLSGEIPK----NLGNVESLVQVNISHNHLHGSLPS  589 (968)
T ss_pred             CcccccCChhHhCcccCCEEECCCCcccccCCh----hHhcCcccCEEeccCCcceeeCCC
Confidence            977778888888899999999999987766654    456788999999999987767774

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

Probab=99.93  E-value=6.5e-28  Score=253.30  Aligned_cols=337  Identities=21%  Similarity=0.229  Sum_probs=220.8

Q ss_pred             CceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccc--cc
Q 042981          443 DKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR--EI  520 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~--~l  520 (876)
                      ..++.|.+....+..+|+.++.+.+|..|.+.+|.      ...+... ++.++.||.+++         ..|.+.  .+
T Consensus        32 t~~~WLkLnrt~L~~vPeEL~~lqkLEHLs~~HN~------L~~vhGE-Ls~Lp~LRsv~~---------R~N~LKnsGi   95 (1255)
T KOG0444|consen   32 TQMTWLKLNRTKLEQVPEELSRLQKLEHLSMAHNQ------LISVHGE-LSDLPRLRSVIV---------RDNNLKNSGI   95 (1255)
T ss_pred             hheeEEEechhhhhhChHHHHHHhhhhhhhhhhhh------hHhhhhh-hccchhhHHHhh---------hccccccCCC
Confidence            35677788777777788888888888888886665      2222222 677888888888         555554  48


Q ss_pred             ccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccc-cCcCCCceEecCCCCCCccCCccCCCCC
Q 042981          521 PENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGI-GKLKKMRSLLNGGTPLLKYMPIGISKLT  599 (876)
Q Consensus       521 p~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i-~~L~~L~~L~l~~~~~~~~~p~~i~~l~  599 (876)
                      |+.|-.|..|..||||+|++++.|..+.+.+++-+|+|++| .+..+|..+ .+|+.|-.|+|++|++ ..+|+.+..|.
T Consensus        96 P~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N-~IetIPn~lfinLtDLLfLDLS~NrL-e~LPPQ~RRL~  173 (1255)
T KOG0444|consen   96 PTDIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYN-NIETIPNSLFINLTDLLFLDLSNNRL-EMLPPQIRRLS  173 (1255)
T ss_pred             CchhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccC-ccccCCchHHHhhHhHhhhccccchh-hhcCHHHHHHh
Confidence            99999999999999999999999999999999999999998 677888764 5899999999999955 78898999999


Q ss_pred             CCCccCceeecCccCCCcccc-----ccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccc
Q 042981          600 SLRTLEKFAMGGGVDDISTCR-----LESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRR  674 (876)
Q Consensus       600 ~L~~L~~~~~~~~~~~ls~~~-----l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~  674 (876)
                      .|++|          ++++|.     +..|+.++.|..|.+++-   ......++.++..+.+|..++++.|.+.     
T Consensus       174 ~LqtL----------~Ls~NPL~hfQLrQLPsmtsL~vLhms~T---qRTl~N~Ptsld~l~NL~dvDlS~N~Lp-----  235 (1255)
T KOG0444|consen  174 MLQTL----------KLSNNPLNHFQLRQLPSMTSLSVLHMSNT---QRTLDNIPTSLDDLHNLRDVDLSENNLP-----  235 (1255)
T ss_pred             hhhhh----------hcCCChhhHHHHhcCccchhhhhhhcccc---cchhhcCCCchhhhhhhhhccccccCCC-----
Confidence            99999          444444     445666666666776653   2233445566778888888888888652     


Q ss_pred             hHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccc
Q 042981          675 KNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFL  753 (876)
Q Consensus       675 ~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~  753 (876)
                         .+.+.+-..++|++|++++|.++.+.-..+.-.+|+.|+|+.|++......+-.|| |+.|.+.+|.. .       
T Consensus       236 ---~vPecly~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~kLy~n~NkL-~-------  304 (1255)
T KOG0444|consen  236 ---IVPECLYKLRNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQLTVLPDAVCKLTKLTKLYANNNKL-T-------  304 (1255)
T ss_pred             ---cchHHHhhhhhhheeccCcCceeeeeccHHHHhhhhhhccccchhccchHHHhhhHHHHHHHhccCcc-c-------
Confidence               23334444455666666666555554444444556666666665533222344555 55555544331 1       


Q ss_pred             cCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCcc
Q 042981          754 GIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQ  833 (876)
Q Consensus       754 ~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~  833 (876)
                                 ..++|+.++.+.+|+.++..++ .|+-.      |+.++.++.|+.|.++.| .+-.+|.++.-++.|+
T Consensus       305 -----------FeGiPSGIGKL~~Levf~aanN-~LElV------PEglcRC~kL~kL~L~~N-rLiTLPeaIHlL~~l~  365 (1255)
T KOG0444|consen  305 -----------FEGIPSGIGKLIQLEVFHAANN-KLELV------PEGLCRCVKLQKLKLDHN-RLITLPEAIHLLPDLK  365 (1255)
T ss_pred             -----------ccCCccchhhhhhhHHHHhhcc-ccccC------chhhhhhHHHHHhccccc-ceeechhhhhhcCCcc
Confidence                       1123444555555555554443 23222      445555666666666555 4445666665566666


Q ss_pred             EEEEecCCCchh
Q 042981          834 KLSISYCPIMEE  845 (876)
Q Consensus       834 ~L~l~~~~~l~~  845 (876)
                      .|++.+|+++.-
T Consensus       366 vLDlreNpnLVM  377 (1255)
T KOG0444|consen  366 VLDLRENPNLVM  377 (1255)
T ss_pred             eeeccCCcCccC
Confidence            666666665543

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

Probab=99.90  E-value=3.4e-25  Score=231.93  Aligned_cols=170  Identities=19%  Similarity=0.234  Sum_probs=88.5

Q ss_pred             CCccEEEEeecCCCCC-CchhhcccCCcEEEEecCCCCC-CCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCCC
Q 042981          687 LNVKELGIVSYGGNIF-PKWLTSLTNLRDLRLKSCVICE-HFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDP  763 (876)
Q Consensus       687 ~~L~~L~l~~~~~~~l-p~~l~~l~~L~~L~L~~~~~~~-~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~  763 (876)
                      .+++.|++..|....+ -.|+..|+.|+.|+|++|.+.. .+....--+ |+.|+|+.|...+..+..|.....+..+.+
T Consensus       269 ~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnL  348 (873)
T KOG4194|consen  269 EKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNL  348 (873)
T ss_pred             cccceeecccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccccccCChhHHHHHHHhhhhcc
Confidence            3444444444333332 2244444444444444444433 122222223 444444444443333334444333444444


Q ss_pred             CCCCCC----cccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCC-CCCCCCCccEEEEe
Q 042981          764 SSSSSS----SSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPD-YLFQSTTLQKLSIS  838 (876)
Q Consensus       764 ~~~~~~----~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~-~l~~l~~L~~L~l~  838 (876)
                      +.+++.    ..+.++.+|++|+|+.+ .+ .|.+.. ....+..||+|++|.+.+| +++.+|. .|..+++|+.|+|.
T Consensus       349 s~Nsi~~l~e~af~~lssL~~LdLr~N-~l-s~~IED-aa~~f~gl~~LrkL~l~gN-qlk~I~krAfsgl~~LE~LdL~  424 (873)
T KOG4194|consen  349 SHNSIDHLAEGAFVGLSSLHKLDLRSN-EL-SWCIED-AAVAFNGLPSLRKLRLTGN-QLKSIPKRAFSGLEALEHLDLG  424 (873)
T ss_pred             cccchHHHHhhHHHHhhhhhhhcCcCC-eE-EEEEec-chhhhccchhhhheeecCc-eeeecchhhhccCcccceecCC
Confidence            433332    13456788888877665 22 233322 1234567899999999888 6777774 57778899999999


Q ss_pred             cCCCchhhccccccCCCCCCCcCEEEE
Q 042981          839 YCPIMEELRILEDHRTTDIPRLSSLEI  865 (876)
Q Consensus       839 ~~~~l~~l~~~~~~~~~~lp~L~~L~i  865 (876)
                      +|.+.    .+..+.+..+ .|+.|.+
T Consensus       425 ~Naia----SIq~nAFe~m-~Lk~Lv~  446 (873)
T KOG4194|consen  425 DNAIA----SIQPNAFEPM-ELKELVM  446 (873)
T ss_pred             CCcce----eecccccccc-hhhhhhh
Confidence            88643    2333344444 5666554

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

Probab=99.90  E-value=3.7e-26  Score=240.24  Aligned_cols=336  Identities=24%  Similarity=0.268  Sum_probs=257.8

Q ss_pred             CCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP  521 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp  521 (876)
                      -.++.||++..|.+..+...+..++.||++.+..|..    -...+|++ +-.+.-|.+|||         +.|.+.+.|
T Consensus        54 lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~L----KnsGiP~d-iF~l~dLt~lDL---------ShNqL~EvP  119 (1255)
T KOG0444|consen   54 LQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNL----KNSGIPTD-IFRLKDLTILDL---------SHNQLREVP  119 (1255)
T ss_pred             HhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhcccc----ccCCCCch-hcccccceeeec---------chhhhhhcc
Confidence            4578999999999988888899999999999977652    12345666 457999999999         888899999


Q ss_pred             cccccCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCC
Q 042981          522 ENVRKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTS  600 (876)
Q Consensus       522 ~~i~~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~  600 (876)
                      ..+..-+++-+|+||+|+|.++|.+ +-+|..|-.|||++| .+..+|..+..|.+|+.|.|++|++...--..+..|++
T Consensus       120 ~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~N-rLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPsmts  198 (1255)
T KOG0444|consen  120 TNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNN-RLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQLPSMTS  198 (1255)
T ss_pred             hhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccc-hhhhcCHHHHHHhhhhhhhcCCChhhHHHHhcCccchh
Confidence            9999999999999999999999976 568999999999998 78999999999999999999999764332233445666


Q ss_pred             CCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHH
Q 042981          601 LRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLL  680 (876)
Q Consensus       601 L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~  680 (876)
                      |++|.........    .|....+..|.+|+.++++.    +++ ...+..+-++.+|+.|+|+.|.+.....       
T Consensus       199 L~vLhms~TqRTl----~N~Ptsld~l~NL~dvDlS~----N~L-p~vPecly~l~~LrrLNLS~N~iteL~~-------  262 (1255)
T KOG0444|consen  199 LSVLHMSNTQRTL----DNIPTSLDDLHNLRDVDLSE----NNL-PIVPECLYKLRNLRRLNLSGNKITELNM-------  262 (1255)
T ss_pred             hhhhhcccccchh----hcCCCchhhhhhhhhccccc----cCC-CcchHHHhhhhhhheeccCcCceeeeec-------
Confidence            6666544333322    45566788889999999887    232 3345567889999999999998742111       


Q ss_pred             hhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCC-CCCC-CCccc-CceEeecCCCCceEeCcccccCCC
Q 042981          681 EALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICE-HFPP-LGKLP-LEKLTLYGLYGVKRVGNEFLGIEG  757 (876)
Q Consensus       681 ~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~-~lp~-l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~  757 (876)
                       ....-.+|+.|+++.|..+.+|..++.+++|++|.+.+|++.- .+|+ +|.|. |+.+...+|. ++.++.       
T Consensus       263 -~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN~-LElVPE-------  333 (1255)
T KOG0444|consen  263 -TEGEWENLETLNLSRNQLTVLPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANNK-LELVPE-------  333 (1255)
T ss_pred             -cHHHHhhhhhhccccchhccchHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhccc-cccCch-------
Confidence             1112357999999999999999999999999999999998753 5554 88888 9988887654 555443       


Q ss_pred             CCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEE
Q 042981          758 SSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSI  837 (876)
Q Consensus       758 l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l  837 (876)
                                   .+..|+.|+.|.|+++ .|-.      .|+.+.-+|.|+.|++..|+++..-|.--..-++|+.-+|
T Consensus       334 -------------glcRC~kL~kL~L~~N-rLiT------LPeaIHlL~~l~vLDlreNpnLVMPPKP~da~~~lefYNI  393 (1255)
T KOG0444|consen  334 -------------GLCRCVKLQKLKLDHN-RLIT------LPEAIHLLPDLKVLDLRENPNLVMPPKPNDARKKLEFYNI  393 (1255)
T ss_pred             -------------hhhhhHHHHHhccccc-ceee------chhhhhhcCCcceeeccCCcCccCCCCcchhhhcceeeec
Confidence                         3456999999987765 3322      2778888999999999999998865543222244554333

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

Probab=99.90  E-value=1.8e-24  Score=226.52  Aligned_cols=362  Identities=17%  Similarity=0.136  Sum_probs=255.5

Q ss_pred             CCceEEEEeeecCCCCC-cccccC--CCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccc
Q 042981          442 GDKVRHLGLNFEGGASF-PMSIHG--LNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR  518 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~-~~~~~~--~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~  518 (876)
                      +...+-++.+.+.+..+ ...+.+  .+.-++|++++|.      ...+....|.++++|+.+.+         ..|.+.
T Consensus        51 ~c~~~lldcs~~~lea~~~~~l~g~lp~~t~~LdlsnNk------l~~id~~~f~nl~nLq~v~l---------~~N~Lt  115 (873)
T KOG4194|consen   51 PCNTRLLDCSDRELEAIDKSRLKGFLPSQTQTLDLSNNK------LSHIDFEFFYNLPNLQEVNL---------NKNELT  115 (873)
T ss_pred             CCCceeeecCccccccccccccCCcCccceeeeeccccc------cccCcHHHHhcCCcceeeee---------ccchhh
Confidence            33455566666655443 111111  2456789997776      34455566899999999999         888899


Q ss_pred             ccccccccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCccccc-cccCcCCCceEecCCCCCCccCCccCC
Q 042981          519 EIPENVRKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPA-GIGKLKKMRSLLNGGTPLLKYMPIGIS  596 (876)
Q Consensus       519 ~lp~~i~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~~p~~i~  596 (876)
                      .+|.......||+.|+|.+|.|+++. +++..++.|++|||+.| .+.++|. .+..-.++++|+|++|.+...-...|.
T Consensus       116 ~IP~f~~~sghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN-~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~  194 (873)
T KOG4194|consen  116 RIPRFGHESGHLEKLDLRHNLISSVTSEELSALPALRSLDLSRN-LISEIPKPSFPAKVNIKKLNLASNRITTLETGHFD  194 (873)
T ss_pred             hcccccccccceeEEeeeccccccccHHHHHhHhhhhhhhhhhc-hhhcccCCCCCCCCCceEEeecccccccccccccc
Confidence            99988888889999999999999776 46888999999999999 5666654 456668899999999988655555677


Q ss_pred             CCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchH
Q 042981          597 KLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKN  676 (876)
Q Consensus       597 ~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~  676 (876)
                      .+.+|-+|          .++.|.+..|+                       ...|..+++|+.|+|..|.+.       
T Consensus       195 ~lnsL~tl----------kLsrNrittLp-----------------------~r~Fk~L~~L~~LdLnrN~ir-------  234 (873)
T KOG4194|consen  195 SLNSLLTL----------KLSRNRITTLP-----------------------QRSFKRLPKLESLDLNRNRIR-------  234 (873)
T ss_pred             ccchheee----------ecccCcccccC-----------------------HHHhhhcchhhhhhcccccee-------
Confidence            77777776          33333333221                       123445556666666666542       


Q ss_pred             HHHHhhCCCCCCccEEEEeecCCCCCCch-hhcccCCcEEEEecCCCCC-CCCCCCccc-CceEeecCCCCceEeCcccc
Q 042981          677 QQLLEALQPPLNVKELGIVSYGGNIFPKW-LTSLTNLRDLRLKSCVICE-HFPPLGKLP-LEKLTLYGLYGVKRVGNEFL  753 (876)
Q Consensus       677 ~~~~~~l~~~~~L~~L~l~~~~~~~lp~~-l~~l~~L~~L~L~~~~~~~-~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~  753 (876)
                      ....-.+..+++|+.|.+..|....+-+. +..+.+++.|+|+.|++.. .-.++-.|. |+.|+|+.|..-.+..+...
T Consensus       235 ive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~Ws  314 (873)
T KOG4194|consen  235 IVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWS  314 (873)
T ss_pred             eehhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheeecchhh
Confidence            11122345556666666766666666544 4489999999999999865 233456778 99999999988777777777


Q ss_pred             cCCCCCCCCCCCCCCC----cccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCC---CCCC
Q 042981          754 GIEGSSEDDPSSSSSS----SSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVL---PDYL  826 (876)
Q Consensus       754 ~~~~l~~~~~~~~~~~----~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l---p~~l  826 (876)
                      ....+..++++++.+.    .++..+..|++|.|+++ .+..     .....+..+.+|++|+|++|...-.+   ...|
T Consensus       315 ftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~N-si~~-----l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f  388 (873)
T KOG4194|consen  315 FTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHN-SIDH-----LAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAF  388 (873)
T ss_pred             hcccceeEeccccccccCChhHHHHHHHhhhhccccc-chHH-----HHhhHHHHhhhhhhhcCcCCeEEEEEecchhhh
Confidence            7788888888876653    45667788888866654 2332     22346678999999999999654333   2346


Q ss_pred             CCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCC
Q 042981          827 FQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCP  869 (876)
Q Consensus       827 ~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~  869 (876)
                      ..+++|++|.+.||+    +..+....+..++.|++|++.+++
T Consensus       389 ~gl~~LrkL~l~gNq----lk~I~krAfsgl~~LE~LdL~~Na  427 (873)
T KOG4194|consen  389 NGLPSLRKLRLTGNQ----LKSIPKRAFSGLEALEHLDLGDNA  427 (873)
T ss_pred             ccchhhhheeecCce----eeecchhhhccCcccceecCCCCc
Confidence            679999999999995    333445678999999999999885

>PLN03210 Resistant to P

Probab=99.89  E-value=5.2e-22  Score=246.41  Aligned_cols=349  Identities=20%  Similarity=0.205  Sum_probs=220.1

Q ss_pred             CCceEEEEeeecCCC-------CCcccccCCC-cceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCC
Q 042981          442 GDKVRHLGLNFEGGA-------SFPMSIHGLN-RLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPY  513 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~-------~~~~~~~~~~-~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~  513 (876)
                      ..+++.|.+..+...       .+|..+..++ +||.|.+.++.      ...++.. | .+.+|+.|++         .
T Consensus       557 m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~------l~~lP~~-f-~~~~L~~L~L---------~  619 (1153)
T PLN03210        557 MRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYP------LRCMPSN-F-RPENLVKLQM---------Q  619 (1153)
T ss_pred             CccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCC------CCCCCCc-C-CccCCcEEEC---------c
Confidence            345666666544211       2355555543 58888876553      2222322 2 4577888888         6


Q ss_pred             CCcccccccccccCcccCeeeccCcc-ccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCC
Q 042981          514 PNLIREIPENVRKLIHLKYLNLSELC-IERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMP  592 (876)
Q Consensus       514 ~~~i~~lp~~i~~L~~Lr~L~Ls~~~-i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p  592 (876)
                      ++.+..+|..+..+++|++|+|+++. +..+|. ++.+++|++|+|++|..+..+|..+.++++|++|++++|..+..+|
T Consensus       620 ~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~-ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp  698 (1153)
T PLN03210        620 GSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPD-LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILP  698 (1153)
T ss_pred             CccccccccccccCCCCCEEECCCCCCcCcCCc-cccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccC
Confidence            67777788778888888888888764 566764 7778888888888887778888888888888888888887777777


Q ss_pred             ccCCCCCCCCccCceeecCcc-----------CCCccccccccc---cCCCCCCeeeeCcCCCC---CcchhhhccCccc
Q 042981          593 IGISKLTSLRTLEKFAMGGGV-----------DDISTCRLESLK---NLQLLRECGIEGLSNVS---HLDEDERLGLHNM  655 (876)
Q Consensus       593 ~~i~~l~~L~~L~~~~~~~~~-----------~~ls~~~l~~L~---~L~~L~~L~l~~~~~~~---~~~~~~~~~l~~l  655 (876)
                      ..+ ++++|+.|....+....           .+++.+.+..++   .+++|+.|.+.++....   ......+......
T Consensus       699 ~~i-~l~sL~~L~Lsgc~~L~~~p~~~~nL~~L~L~~n~i~~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~  777 (1153)
T PLN03210        699 TGI-NLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLS  777 (1153)
T ss_pred             CcC-CCCCCCEEeCCCCCCccccccccCCcCeeecCCCccccccccccccccccccccccchhhccccccccchhhhhcc
Confidence            765 66777766433221100           011122222222   23344444443321100   0000000111234


Q ss_pred             ccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecC-CCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-
Q 042981          656 KNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYG-GNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-  733 (876)
Q Consensus       656 ~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~-~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-  733 (876)
                      ++|+.|+++.|...       ..+...+..+++|+.|++.+|. ...+|..+ .+++|+.|+|++|.....+|.+  .+ 
T Consensus       778 ~sL~~L~Ls~n~~l-------~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~~-~L~sL~~L~Ls~c~~L~~~p~~--~~n  847 (1153)
T PLN03210        778 PSLTRLFLSDIPSL-------VELPSSIQNLHKLEHLEIENCINLETLPTGI-NLESLESLDLSGCSRLRTFPDI--STN  847 (1153)
T ss_pred             ccchheeCCCCCCc-------cccChhhhCCCCCCEEECCCCCCcCeeCCCC-CccccCEEECCCCCcccccccc--ccc
Confidence            67888888877432       1233445677899999999864 56677766 7899999999999877766643  35 


Q ss_pred             CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeee
Q 042981          734 LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTI  813 (876)
Q Consensus       734 L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l  813 (876)
                      |+.|+|+++... .                    +|..+..+++|+.|++.+|.+|.....      ....+++|+.|++
T Consensus       848 L~~L~Ls~n~i~-~--------------------iP~si~~l~~L~~L~L~~C~~L~~l~~------~~~~L~~L~~L~l  900 (1153)
T PLN03210        848 ISDLNLSRTGIE-E--------------------VPWWIEKFSNLSFLDMNGCNNLQRVSL------NISKLKHLETVDF  900 (1153)
T ss_pred             cCEeECCCCCCc-c--------------------ChHHHhcCCCCCEEECCCCCCcCccCc------ccccccCCCeeec
Confidence            899999876432 1                    223355799999999999999987643      5668999999999


Q ss_pred             ccCccCCCCCCC-------------CCCCCCccEEEEecCCCchhh
Q 042981          814 WYCPRLRVLPDY-------------LFQSTTLQKLSISYCPIMEEL  846 (876)
Q Consensus       814 ~~c~~l~~lp~~-------------l~~l~~L~~L~l~~~~~l~~l  846 (876)
                      ++|+.+..++..             ...+++...+.+.+|..+...
T Consensus       901 ~~C~~L~~~~l~~~~~~~~~~~~n~~~~~p~~~~l~f~nC~~L~~~  946 (1153)
T PLN03210        901 SDCGALTEASWNGSPSEVAMATDNIHSKLPSTVCINFINCFNLDQE  946 (1153)
T ss_pred             CCCcccccccCCCCchhhhhhcccccccCCchhccccccccCCCch
Confidence            999988755421             012333455566777665443

syringae 6; Provisional

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

Probab=99.87  E-value=2e-24  Score=216.68  Aligned_cols=240  Identities=21%  Similarity=0.301  Sum_probs=171.4

Q ss_pred             CCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP  521 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp  521 (876)
                      -..+..+.++.|....+|+++..+..+..|+++.+.      ...+++. ...+..|+.|+.         +.|.+..+|
T Consensus        67 L~~l~vl~~~~n~l~~lp~aig~l~~l~~l~vs~n~------ls~lp~~-i~s~~~l~~l~~---------s~n~~~el~  130 (565)
T KOG0472|consen   67 LACLTVLNVHDNKLSQLPAAIGELEALKSLNVSHNK------LSELPEQ-IGSLISLVKLDC---------SSNELKELP  130 (565)
T ss_pred             ccceeEEEeccchhhhCCHHHHHHHHHHHhhcccch------HhhccHH-Hhhhhhhhhhhc---------cccceeecC
Confidence            345677788888888888888888888888887765      2333443 677888888998         777778889


Q ss_pred             cccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCC
Q 042981          522 ENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSL  601 (876)
Q Consensus       522 ~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L  601 (876)
                      ++|+.+..|..|+..+|+++++|.+++++.+|..|++.+| .+..+|...-++++|+||+...| .++.+|+.++.|.+|
T Consensus       131 ~~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~n-~l~~l~~~~i~m~~L~~ld~~~N-~L~tlP~~lg~l~~L  208 (565)
T KOG0472|consen  131 DSIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEGN-KLKALPENHIAMKRLKHLDCNSN-LLETLPPELGGLESL  208 (565)
T ss_pred             chHHHHhhhhhhhccccccccCchHHHHHHHHHHhhcccc-chhhCCHHHHHHHHHHhcccchh-hhhcCChhhcchhhh
Confidence            9999999999999999999999999999999999999988 56777776666999999998888 568899999999888


Q ss_pred             CccCceeecCccCCCcccccc---ccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHH
Q 042981          602 RTLEKFAMGGGVDDISTCRLE---SLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQ  678 (876)
Q Consensus       602 ~~L~~~~~~~~~~~ls~~~l~---~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~  678 (876)
                      ..|+          +..+.+.   +++.+..|..|++..    +.+.....+.+.++.+|..|++..|++.        +
T Consensus       209 ~~Ly----------L~~Nki~~lPef~gcs~L~Elh~g~----N~i~~lpae~~~~L~~l~vLDLRdNklk--------e  266 (565)
T KOG0472|consen  209 ELLY----------LRRNKIRFLPEFPGCSLLKELHVGE----NQIEMLPAEHLKHLNSLLVLDLRDNKLK--------E  266 (565)
T ss_pred             HHHH----------hhhcccccCCCCCccHHHHHHHhcc----cHHHhhHHHHhcccccceeeeccccccc--------c
Confidence            8873          2233333   444445555555543    2222222233446667777777777653        2


Q ss_pred             HHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCC
Q 042981          679 LLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVI  722 (876)
Q Consensus       679 ~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~  722 (876)
                      +.+.++...+|++|+++++..+.+|..++++ .|+.|-+.+|++
T Consensus       267 ~Pde~clLrsL~rLDlSNN~is~Lp~sLgnl-hL~~L~leGNPl  309 (565)
T KOG0472|consen  267 VPDEICLLRSLERLDLSNNDISSLPYSLGNL-HLKFLALEGNPL  309 (565)
T ss_pred             CchHHHHhhhhhhhcccCCccccCCcccccc-eeeehhhcCCch
Confidence            3333444556667777777766667767666 666676666654

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

Probab=99.82  E-value=2.2e-22  Score=222.43  Aligned_cols=276  Identities=25%  Similarity=0.253  Sum_probs=171.8

Q ss_pred             EEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccC
Q 042981          448 LGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKL  527 (876)
Q Consensus       448 L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L  527 (876)
                      ++++......+|..+..-..+..|.+..|.      ....|-++..+.-+|+.||+         ++|.+..+|..|+.+
T Consensus         3 vd~s~~~l~~ip~~i~~~~~~~~ln~~~N~------~l~~pl~~~~~~v~L~~l~l---------snn~~~~fp~~it~l   67 (1081)
T KOG0618|consen    3 VDASDEQLELIPEQILNNEALQILNLRRNS------LLSRPLEFVEKRVKLKSLDL---------SNNQISSFPIQITLL   67 (1081)
T ss_pred             cccccccCcccchhhccHHHHHhhhccccc------cccCchHHhhheeeeEEeec---------cccccccCCchhhhH
Confidence            344444555556655555557777765543      12223344455555999999         777888888888889


Q ss_pred             cccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCccCce
Q 042981          528 IHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKF  607 (876)
Q Consensus       528 ~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~  607 (876)
                      .+|+.|+++.|.|.++|.+++++.+|++|+|.+| .+..+|.++..+++|+.|++++|.+ +.+|.-+..++.+..+...
T Consensus        68 ~~L~~ln~s~n~i~~vp~s~~~~~~l~~lnL~~n-~l~~lP~~~~~lknl~~LdlS~N~f-~~~Pl~i~~lt~~~~~~~s  145 (1081)
T KOG0618|consen   68 SHLRQLNLSRNYIRSVPSSCSNMRNLQYLNLKNN-RLQSLPASISELKNLQYLDLSFNHF-GPIPLVIEVLTAEEELAAS  145 (1081)
T ss_pred             HHHhhcccchhhHhhCchhhhhhhcchhheeccc-hhhcCchhHHhhhcccccccchhcc-CCCchhHHhhhHHHHHhhh
Confidence            9999999999999999988899999999999877 7888999999999999999998876 6677666666555554221


Q ss_pred             eecCc--------------cCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCcccc
Q 042981          608 AMGGG--------------VDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGR  673 (876)
Q Consensus       608 ~~~~~--------------~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~  673 (876)
                      .....              ...+....+.++..++.  .|++...    ...   ...+.++.+|+.|....|.+.....
T Consensus       146 ~N~~~~~lg~~~ik~~~l~~n~l~~~~~~~i~~l~~--~ldLr~N----~~~---~~dls~~~~l~~l~c~rn~ls~l~~  216 (1081)
T KOG0618|consen  146 NNEKIQRLGQTSIKKLDLRLNVLGGSFLIDIYNLTH--QLDLRYN----EME---VLDLSNLANLEVLHCERNQLSELEI  216 (1081)
T ss_pred             cchhhhhhccccchhhhhhhhhcccchhcchhhhhe--eeecccc----hhh---hhhhhhccchhhhhhhhcccceEEe
Confidence            11000              00000111111222222  1333331    111   1234455555555554444321000


Q ss_pred             -----------chHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCC------------------
Q 042981          674 -----------RKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICE------------------  724 (876)
Q Consensus       674 -----------~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~------------------  724 (876)
                                 ............+.+|++++++.+....+|+|++.+.+|+.|...+|.++.                  
T Consensus       217 ~g~~l~~L~a~~n~l~~~~~~p~p~nl~~~dis~n~l~~lp~wi~~~~nle~l~~n~N~l~~lp~ri~~~~~L~~l~~~~  296 (1081)
T KOG0618|consen  217 SGPSLTALYADHNPLTTLDVHPVPLNLQYLDISHNNLSNLPEWIGACANLEALNANHNRLVALPLRISRITSLVSLSAAY  296 (1081)
T ss_pred             cCcchheeeeccCcceeeccccccccceeeecchhhhhcchHHHHhcccceEecccchhHHhhHHHHhhhhhHHHHHhhh
Confidence                       000012223344679999999999999999999999999999999887631                  


Q ss_pred             ----CCCC-CCccc-CceEeecCCCCceEeC
Q 042981          725 ----HFPP-LGKLP-LEKLTLYGLYGVKRVG  749 (876)
Q Consensus       725 ----~lp~-l~~Lp-L~~L~L~~~~~l~~~~  749 (876)
                          .+|+ ++.+. |+.|+|..|.......
T Consensus       297 nel~yip~~le~~~sL~tLdL~~N~L~~lp~  327 (1081)
T KOG0618|consen  297 NELEYIPPFLEGLKSLRTLDLQSNNLPSLPD  327 (1081)
T ss_pred             hhhhhCCCcccccceeeeeeehhccccccch
Confidence                2333 34477 8899998877554443

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

Probab=99.79  E-value=2.3e-21  Score=194.88  Aligned_cols=334  Identities=21%  Similarity=0.233  Sum_probs=160.7

Q ss_pred             EEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccccccc
Q 042981          447 HLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRK  526 (876)
Q Consensus       447 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~  526 (876)
                      .+.+.+|.+..+|+..-+|+.|+.|++..|.      ...+|++ ++.+.+|..|+|         ..|.+..+| .|++
T Consensus       164 ~l~~~~n~l~~l~~~~i~m~~L~~ld~~~N~------L~tlP~~-lg~l~~L~~LyL---------~~Nki~~lP-ef~g  226 (565)
T KOG0472|consen  164 KLDLEGNKLKALPENHIAMKRLKHLDCNSNL------LETLPPE-LGGLESLELLYL---------RRNKIRFLP-EFPG  226 (565)
T ss_pred             HhhccccchhhCCHHHHHHHHHHhcccchhh------hhcCChh-hcchhhhHHHHh---------hhcccccCC-CCCc
Confidence            3444444444444444445555555554332      2333443 455555555555         555555555 4555


Q ss_pred             CcccCeeeccCccccccchhhc-cCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCccC
Q 042981          527 LIHLKYLNLSELCIERLPKTLC-ELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLE  605 (876)
Q Consensus       527 L~~Lr~L~Ls~~~i~~lp~~i~-~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~  605 (876)
                      +..|+.|+++.|.|+.+|..++ .|.+|.+|||+.| .++++|.+++.|++|.+||+++|.+ ..+|..+|++ .|+.| 
T Consensus       227 cs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdN-klke~Pde~clLrsL~rLDlSNN~i-s~Lp~sLgnl-hL~~L-  302 (565)
T KOG0472|consen  227 CSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDN-KLKEVPDEICLLRSLERLDLSNNDI-SSLPYSLGNL-HLKFL-  302 (565)
T ss_pred             cHHHHHHHhcccHHHhhHHHHhcccccceeeecccc-ccccCchHHHHhhhhhhhcccCCcc-ccCCcccccc-eeeeh-
Confidence            5666666666666666665554 5666666666665 4566666666666666666666643 4455555555 55544 


Q ss_pred             ceeecCccCCCcccccccccc----------CCCCCC----eeeeCcCCCC----CcchhhhccCcccccCCceEEEecc
Q 042981          606 KFAMGGGVDDISTCRLESLKN----------LQLLRE----CGIEGLSNVS----HLDEDERLGLHNMKNLLRLSLEFDE  667 (876)
Q Consensus       606 ~~~~~~~~~~ls~~~l~~L~~----------L~~L~~----L~l~~~~~~~----~~~~~~~~~l~~l~~L~~L~L~~~~  667 (876)
                               .+.++.+..+..          |+.|+.    =.++.-+.-.    ..+.........+.+.+.|+++.-+
T Consensus       303 ---------~leGNPlrTiRr~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~~q  373 (565)
T KOG0472|consen  303 ---------ALEGNPLRTIRREIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITTKILDVSDKQ  373 (565)
T ss_pred             ---------hhcCCchHHHHHHHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCCcccchhhhhhhhhhcccccc
Confidence                     122222221100          001111    0000000000    0000011111223344444444433


Q ss_pred             CCccccchHHHHHhhCCCCCCccEEEEe------------------------ecCCCCCCchhhcccCCcEEEEecCCCC
Q 042981          668 EGEEGRRKNQQLLEALQPPLNVKELGIV------------------------SYGGNIFPKWLTSLTNLRDLRLKSCVIC  723 (876)
Q Consensus       668 ~~~~~~~~~~~~~~~l~~~~~L~~L~l~------------------------~~~~~~lp~~l~~l~~L~~L~L~~~~~~  723 (876)
                      +....    .++++.-. ..-....+++                        ++...-+|..++.+++|+.|+|++|.+.
T Consensus       374 lt~VP----dEVfea~~-~~~Vt~VnfskNqL~elPk~L~~lkelvT~l~lsnn~isfv~~~l~~l~kLt~L~L~NN~Ln  448 (565)
T KOG0472|consen  374 LTLVP----DEVFEAAK-SEIVTSVNFSKNQLCELPKRLVELKELVTDLVLSNNKISFVPLELSQLQKLTFLDLSNNLLN  448 (565)
T ss_pred             cccCC----HHHHHHhh-hcceEEEecccchHhhhhhhhHHHHHHHHHHHhhcCccccchHHHHhhhcceeeecccchhh
Confidence            32111    11111110 0012233333                        3333333445556666666666666554


Q ss_pred             CCCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeecccccccccccccccccccc
Q 042981          724 EHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENI  802 (876)
Q Consensus       724 ~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~  802 (876)
                      .-...++.+- |+.|+++.|.. ...+..                    .-....|+.+-.+++ .+..     ..+..+
T Consensus       449 ~LP~e~~~lv~Lq~LnlS~NrF-r~lP~~--------------------~y~lq~lEtllas~n-qi~~-----vd~~~l  501 (565)
T KOG0472|consen  449 DLPEEMGSLVRLQTLNLSFNRF-RMLPEC--------------------LYELQTLETLLASNN-QIGS-----VDPSGL  501 (565)
T ss_pred             hcchhhhhhhhhheeccccccc-ccchHH--------------------HhhHHHHHHHHhccc-cccc-----cChHHh
Confidence            3333355555 66666665421 111110                    111223333322222 2322     223457


Q ss_pred             CcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCc
Q 042981          803 SIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIM  843 (876)
Q Consensus       803 ~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l  843 (876)
                      .+|.+|..|++.+| .+..+|..++++++|++|++.||+.-
T Consensus       502 ~nm~nL~tLDL~nN-dlq~IPp~LgnmtnL~hLeL~gNpfr  541 (565)
T KOG0472|consen  502 KNMRNLTTLDLQNN-DLQQIPPILGNMTNLRHLELDGNPFR  541 (565)
T ss_pred             hhhhhcceeccCCC-chhhCChhhccccceeEEEecCCccC
Confidence            78999999999888 67789999999999999999999864

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

Probab=99.75  E-value=2.8e-20  Score=205.99  Aligned_cols=378  Identities=21%  Similarity=0.201  Sum_probs=200.7

Q ss_pred             ceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccc
Q 042981          444 KVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPEN  523 (876)
Q Consensus       444 ~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~  523 (876)
                      ++.+|++++|.+..+|..+..+.+|+.|.+..|.      +...+ ....++++|++|.|         .+|.+..+|.+
T Consensus        46 ~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~------i~~vp-~s~~~~~~l~~lnL---------~~n~l~~lP~~  109 (1081)
T KOG0618|consen   46 KLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNY------IRSVP-SSCSNMRNLQYLNL---------KNNRLQSLPAS  109 (1081)
T ss_pred             eeEEeeccccccccCCchhhhHHHHhhcccchhh------HhhCc-hhhhhhhcchhhee---------ccchhhcCchh
Confidence            3778888888888888888888888888887665      33333 33677888888888         77777888888


Q ss_pred             cccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCc
Q 042981          524 VRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRT  603 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~  603 (876)
                      +..+.+|+||++++|.+..+|.-+..+..++.++.++|..+..++..    . .+++++..|.+.+.++.+++.++.  +
T Consensus       110 ~~~lknl~~LdlS~N~f~~~Pl~i~~lt~~~~~~~s~N~~~~~lg~~----~-ik~~~l~~n~l~~~~~~~i~~l~~--~  182 (1081)
T KOG0618|consen  110 ISELKNLQYLDLSFNHFGPIPLVIEVLTAEEELAASNNEKIQRLGQT----S-IKKLDLRLNVLGGSFLIDIYNLTH--Q  182 (1081)
T ss_pred             HHhhhcccccccchhccCCCchhHHhhhHHHHHhhhcchhhhhhccc----c-chhhhhhhhhcccchhcchhhhhe--e
Confidence            88888888888888888888888888888888888777433333332    1 556666666555666666655555  2


Q ss_pred             cCceeecCccCCCc-----------cccccccc-cCC----------------------CCCCeeeeCcCCCCCcchhhh
Q 042981          604 LEKFAMGGGVDDIS-----------TCRLESLK-NLQ----------------------LLRECGIEGLSNVSHLDEDER  649 (876)
Q Consensus       604 L~~~~~~~~~~~ls-----------~~~l~~L~-~L~----------------------~L~~L~l~~~~~~~~~~~~~~  649 (876)
                      |+.....-...+++           .+.+..+. ..+                      +|+.++++.    +.+ ...+
T Consensus       183 ldLr~N~~~~~dls~~~~l~~l~c~rn~ls~l~~~g~~l~~L~a~~n~l~~~~~~p~p~nl~~~dis~----n~l-~~lp  257 (1081)
T KOG0618|consen  183 LDLRYNEMEVLDLSNLANLEVLHCERNQLSELEISGPSLTALYADHNPLTTLDVHPVPLNLQYLDISH----NNL-SNLP  257 (1081)
T ss_pred             eecccchhhhhhhhhccchhhhhhhhcccceEEecCcchheeeeccCcceeeccccccccceeeecch----hhh-hcch
Confidence            21111100000000           00111000 001                      122222222    011 1122


Q ss_pred             ccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCC-
Q 042981          650 LGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPP-  728 (876)
Q Consensus       650 ~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~-  728 (876)
                      .++..+.+|+.+....|.+.        .++..+.+..+|+.|.+..|....+|.....++.|+.|+|..|++. .+|. 
T Consensus       258 ~wi~~~~nle~l~~n~N~l~--------~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~~N~L~-~lp~~  328 (1081)
T KOG0618|consen  258 EWIGACANLEALNANHNRLV--------ALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQSNNLP-SLPDN  328 (1081)
T ss_pred             HHHHhcccceEecccchhHH--------hhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeehhcccc-ccchH
Confidence            34445555555555555442        1222222333444444444444445555555666666666666542 1221 


Q ss_pred             ------------------------CCc--cc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCC---C-cccccCcc
Q 042981          729 ------------------------LGK--LP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSS---S-SSVIAFPK  777 (876)
Q Consensus       729 ------------------------l~~--Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~---~-~~~~~~~~  777 (876)
                                              .+.  .+ |+.|++.+|...+.....+.+...+.+++++.+.+   | +.+..++.
T Consensus       329 ~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~  408 (1081)
T KOG0618|consen  329 FLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEE  408 (1081)
T ss_pred             HHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHH
Confidence                                    111  22 44444444433333322333333333333333211   1 12334555


Q ss_pred             cceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCC
Q 042981          778 LKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDI  857 (876)
Q Consensus       778 L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~l  857 (876)
                      |++|+++++ .|..+      +.....++.|++|...+| .+..+| .+..++.|+.+|++.|..- .+....  ... -
T Consensus       409 LeeL~LSGN-kL~~L------p~tva~~~~L~tL~ahsN-~l~~fP-e~~~l~qL~~lDlS~N~L~-~~~l~~--~~p-~  475 (1081)
T KOG0618|consen  409 LEELNLSGN-KLTTL------PDTVANLGRLHTLRAHSN-QLLSFP-ELAQLPQLKVLDLSCNNLS-EVTLPE--ALP-S  475 (1081)
T ss_pred             hHHHhcccc-hhhhh------hHHHHhhhhhHHHhhcCC-ceeech-hhhhcCcceEEecccchhh-hhhhhh--hCC-C
Confidence            555555554 34433      234445666666666555 455566 5667788888888766432 221110  011 1


Q ss_pred             CCcCEEEEccCCCC
Q 042981          858 PRLSSLEIEYCPKL  871 (876)
Q Consensus       858 p~L~~L~i~~c~~L  871 (876)
                      |.|++|+++|++++
T Consensus       476 p~LkyLdlSGN~~l  489 (1081)
T KOG0618|consen  476 PNLKYLDLSGNTRL  489 (1081)
T ss_pred             cccceeeccCCccc
Confidence            68999999988754

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.58  E-value=1.1e-14  Score=167.80  Aligned_cols=258  Identities=19%  Similarity=0.198  Sum_probs=174.6

Q ss_pred             CcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcC
Q 042981          496 ACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLK  575 (876)
Q Consensus       496 ~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~  575 (876)
                      ..-.+|+|         +.+.+..+|+.+.  .+|+.|++++|.++.+|..   +++|++|++++| .+..+|..   .+
T Consensus       201 ~~~~~LdL---------s~~~LtsLP~~l~--~~L~~L~L~~N~Lt~LP~l---p~~Lk~LdLs~N-~LtsLP~l---p~  262 (788)
T PRK15387        201 NGNAVLNV---------GESGLTTLPDCLP--AHITTLVIPDNNLTSLPAL---PPELRTLEVSGN-QLTSLPVL---PP  262 (788)
T ss_pred             CCCcEEEc---------CCCCCCcCCcchh--cCCCEEEccCCcCCCCCCC---CCCCcEEEecCC-ccCcccCc---cc
Confidence            34567888         6777778888775  3788899999988888863   578899999888 56677753   46


Q ss_pred             CCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCcccccccccc-CCCCCCeeeeCcCCCCCcchhhhccCcc
Q 042981          576 KMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKN-LQLLRECGIEGLSNVSHLDEDERLGLHN  654 (876)
Q Consensus       576 ~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~-L~~L~~L~l~~~~~~~~~~~~~~~~l~~  654 (876)
                      +|++|++++|.+ ..+|...   ++|+.|          ++++|.+..++. +++|+.|+++++. +..++    .   .
T Consensus       263 sL~~L~Ls~N~L-~~Lp~lp---~~L~~L----------~Ls~N~Lt~LP~~p~~L~~LdLS~N~-L~~Lp----~---l  320 (788)
T PRK15387        263 GLLELSIFSNPL-THLPALP---SGLCKL----------WIFGNQLTSLPVLPPGLQELSVSDNQ-LASLP----A---L  320 (788)
T ss_pred             ccceeeccCCch-hhhhhch---hhcCEE----------ECcCCccccccccccccceeECCCCc-cccCC----C---C
Confidence            788888888865 4555432   445555          334555555543 3567778777631 12211    1   1


Q ss_pred             cccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-
Q 042981          655 MKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-  733 (876)
Q Consensus       655 l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-  733 (876)
                      ..+|+.|++++|.+....         .  .+.+|+.|++++|....+|..   .++|+.|++++|.+.. +|.+  .+ 
T Consensus       321 p~~L~~L~Ls~N~L~~LP---------~--lp~~Lq~LdLS~N~Ls~LP~l---p~~L~~L~Ls~N~L~~-LP~l--~~~  383 (788)
T PRK15387        321 PSELCKLWAYNNQLTSLP---------T--LPSGLQELSVSDNQLASLPTL---PSELYKLWAYNNRLTS-LPAL--PSG  383 (788)
T ss_pred             cccccccccccCcccccc---------c--cccccceEecCCCccCCCCCC---Ccccceehhhcccccc-Cccc--ccc
Confidence            135777888887663110         1  235788999998888887763   3578888898888753 5542  24 


Q ss_pred             CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeee
Q 042981          734 LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTI  813 (876)
Q Consensus       734 L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l  813 (876)
                      |+.|++++|... .++                       ...++|+.|+++++ .+..+      |.   .+.+|+.|++
T Consensus       384 L~~LdLs~N~Lt-~LP-----------------------~l~s~L~~LdLS~N-~LssI------P~---l~~~L~~L~L  429 (788)
T PRK15387        384 LKELIVSGNRLT-SLP-----------------------VLPSELKELMVSGN-RLTSL------PM---LPSGLLSLSV  429 (788)
T ss_pred             cceEEecCCccc-CCC-----------------------CcccCCCEEEccCC-cCCCC------Cc---chhhhhhhhh
Confidence            888888876522 111                       12467999988887 35433      21   2457899999


Q ss_pred             ccCccCCCCCCCCCCCCCccEEEEecCCCchh
Q 042981          814 WYCPRLRVLPDYLFQSTTLQKLSISYCPIMEE  845 (876)
Q Consensus       814 ~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~  845 (876)
                      ++| .++.+|..+.++++|+.|+|++|+.-..
T Consensus       430 s~N-qLt~LP~sl~~L~~L~~LdLs~N~Ls~~  460 (788)
T PRK15387        430 YRN-QLTRLPESLIHLSSETTVNLEGNPLSER  460 (788)
T ss_pred             ccC-cccccChHHhhccCCCeEECCCCCCCch
Confidence            998 5778999999999999999999986544

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.57  E-value=1.6e-14  Score=166.47  Aligned_cols=262  Identities=19%  Similarity=0.138  Sum_probs=162.7

Q ss_pred             eEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccccc
Q 042981          445 VRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENV  524 (876)
Q Consensus       445 lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i  524 (876)
                      -..|+++.+.++.+|..+.  ++|+.|.+.+|.      ...++    ..+++|++|+|         ++|.+..+|.. 
T Consensus       203 ~~~LdLs~~~LtsLP~~l~--~~L~~L~L~~N~------Lt~LP----~lp~~Lk~LdL---------s~N~LtsLP~l-  260 (788)
T PRK15387        203 NAVLNVGESGLTTLPDCLP--AHITTLVIPDNN------LTSLP----ALPPELRTLEV---------SGNQLTSLPVL-  260 (788)
T ss_pred             CcEEEcCCCCCCcCCcchh--cCCCEEEccCCc------CCCCC----CCCCCCcEEEe---------cCCccCcccCc-
Confidence            3456677777777666654  467777776654      12222    12467788888         66666666643 


Q ss_pred             ccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          525 RKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       525 ~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                        .++|+.|+|++|.++.+|...   .+|+.|++++| .+..+|..   +++|++|++++|.+ ..+|...   .+|+.|
T Consensus       261 --p~sL~~L~Ls~N~L~~Lp~lp---~~L~~L~Ls~N-~Lt~LP~~---p~~L~~LdLS~N~L-~~Lp~lp---~~L~~L  327 (788)
T PRK15387        261 --PPGLLELSIFSNPLTHLPALP---SGLCKLWIFGN-QLTSLPVL---PPGLQELSVSDNQL-ASLPALP---SELCKL  327 (788)
T ss_pred             --ccccceeeccCCchhhhhhch---hhcCEEECcCC-cccccccc---ccccceeECCCCcc-ccCCCCc---cccccc
Confidence              356778888888877777633   46777788877 56666652   46788888887755 3445322   233333


Q ss_pred             CceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCC
Q 042981          605 EKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQ  684 (876)
Q Consensus       605 ~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~  684 (876)
                                .++.|.+..++.++                           .+|+.|+|++|.+....           .
T Consensus       328 ----------~Ls~N~L~~LP~lp---------------------------~~Lq~LdLS~N~Ls~LP-----------~  359 (788)
T PRK15387        328 ----------WAYNNQLTSLPTLP---------------------------SGLQELSVSDNQLASLP-----------T  359 (788)
T ss_pred             ----------ccccCccccccccc---------------------------cccceEecCCCccCCCC-----------C
Confidence                      12233332222111                           35677777777653110           0


Q ss_pred             CCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCCC
Q 042981          685 PPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDP  763 (876)
Q Consensus       685 ~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~  763 (876)
                      .+.+|+.|.+.+|....+|..   ..+|+.|+|++|.+.+ +|..  .+ |+.|++++|... .++.             
T Consensus       360 lp~~L~~L~Ls~N~L~~LP~l---~~~L~~LdLs~N~Lt~-LP~l--~s~L~~LdLS~N~Ls-sIP~-------------  419 (788)
T PRK15387        360 LPSELYKLWAYNNRLTSLPAL---PSGLKELIVSGNRLTS-LPVL--PSELKELMVSGNRLT-SLPM-------------  419 (788)
T ss_pred             CCcccceehhhccccccCccc---ccccceEEecCCcccC-CCCc--ccCCCEEEccCCcCC-CCCc-------------
Confidence            134677788888777777764   3579999999998764 5532  34 999999987632 1111             


Q ss_pred             CCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCC
Q 042981          764 SSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYL  826 (876)
Q Consensus       764 ~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l  826 (876)
                                .+.+|+.|+++++ .+..+      |..+..+++|+.|+|++|+.....|..+
T Consensus       420 ----------l~~~L~~L~Ls~N-qLt~L------P~sl~~L~~L~~LdLs~N~Ls~~~~~~L  465 (788)
T PRK15387        420 ----------LPSGLLSLSVYRN-QLTRL------PESLIHLSSETTVNLEGNPLSERTLQAL  465 (788)
T ss_pred             ----------chhhhhhhhhccC-ccccc------ChHHhhccCCCeEECCCCCCCchHHHHH
Confidence                      2346888887775 34432      5567789999999999997766555443

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

Probab=99.53  E-value=7.8e-16  Score=155.40  Aligned_cols=377  Identities=20%  Similarity=0.181  Sum_probs=227.8

Q ss_pred             CCCceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          441 FGDKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       441 ~~~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      .|.....|.|..|.++.+ +.+|..+++||.|++++|.      +..+-++.|..++.|..|-+-        .+|.|+.
T Consensus        65 LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~------Is~I~p~AF~GL~~l~~Lvly--------g~NkI~~  130 (498)
T KOG4237|consen   65 LPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNN------ISFIAPDAFKGLASLLSLVLY--------GNNKITD  130 (498)
T ss_pred             CCCcceEEEeccCCcccCChhhccchhhhceecccccc------hhhcChHhhhhhHhhhHHHhh--------cCCchhh
Confidence            477888999999999988 6789999999999998776      567778889999998888771        3488899


Q ss_pred             ccc-ccccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCccccc-cccCcCCCceEecCCCCCC--------
Q 042981          520 IPE-NVRKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPA-GIGKLKKMRSLLNGGTPLL--------  588 (876)
Q Consensus       520 lp~-~i~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~--------  588 (876)
                      +|. .|++|..|+.|.+.-|.+..++ ..+..|++|..|.+..| ....++. .+..+..++++.+..|.+.        
T Consensus       131 l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn-~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wl  209 (498)
T KOG4237|consen  131 LPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDN-KIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWL  209 (498)
T ss_pred             hhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccch-hhhhhccccccchhccchHhhhcCccccccccchh
Confidence            994 4789999999999999988665 46888999999999888 5666666 6888899999988777531        


Q ss_pred             ----ccCCccCCCCCCCCccCceee------------c---------CccCCCccccccccccCCCCCCeeeeCcCCCCC
Q 042981          589 ----KYMPIGISKLTSLRTLEKFAM------------G---------GGVDDISTCRLESLKNLQLLRECGIEGLSNVSH  643 (876)
Q Consensus       589 ----~~~p~~i~~l~~L~~L~~~~~------------~---------~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~  643 (876)
                          ...|..++......-...+..            .         ....-...+....++.|++|++|++++    +.
T Consensus       210 a~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsn----N~  285 (498)
T KOG4237|consen  210 ADDLAMNPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSN----NK  285 (498)
T ss_pred             hhHHhhchhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCC----Cc
Confidence                112222222221111100000            0         000001122223466778888888877    45


Q ss_pred             cchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCC-CchhhcccCCcEEEEecCCC
Q 042981          644 LDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIF-PKWLTSLTNLRDLRLKSCVI  722 (876)
Q Consensus       644 ~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l-p~~l~~l~~L~~L~L~~~~~  722 (876)
                      +......+|.+...++.|.|..|++.       ...-..+....+|+.|++.+|.++.+ |..+..+..|..|+|-.|.+
T Consensus       286 i~~i~~~aFe~~a~l~eL~L~~N~l~-------~v~~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~l~~Np~  358 (498)
T KOG4237|consen  286 ITRIEDGAFEGAAELQELYLTRNKLE-------FVSSGMFQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLNLLSNPF  358 (498)
T ss_pred             cchhhhhhhcchhhhhhhhcCcchHH-------HHHHHhhhccccceeeeecCCeeEEEecccccccceeeeeehccCcc
Confidence            55556667777888888888877652       11223455667788888888877665 55666778888888877664


Q ss_pred             CC--CCCCCC--------------ccc--CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeecc
Q 042981          723 CE--HFPPLG--------------KLP--LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIG  784 (876)
Q Consensus       723 ~~--~lp~l~--------------~Lp--L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~  784 (876)
                      .=  .+.+++              +-|  ++.+.++....-+..-.   +.+.   .  +....+.....++.+.+..=.
T Consensus       359 ~CnC~l~wl~~Wlr~~~~~~~~~Cq~p~~~~~~~~~dv~~~~~~c~---~~ee---~--~~~~s~~cP~~c~c~~tVvRc  430 (498)
T KOG4237|consen  359 NCNCRLAWLGEWLRKKSVVGNPRCQSPGFVRQIPISDVAFGDFRCG---GPEE---L--GCLTSSPCPPPCTCLDTVVRC  430 (498)
T ss_pred             cCccchHHHHHHHhhCCCCCCCCCCCCchhccccchhccccccccC---Cccc---c--CCCCCCCCCCCcchhhhhHhh
Confidence            21  111111              112  33333333221111000   0000   0  000001111123333333211


Q ss_pred             ccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEE
Q 042981          785 AMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLE  864 (876)
Q Consensus       785 ~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~  864 (876)
                      ....++.+      |..  --..-.+|++.+| ..+.+|..  .+.+| .+++++|+.    ..+.+..+.++.+|.+|-
T Consensus       431 Snk~lk~l------p~~--iP~d~telyl~gn-~~~~vp~~--~~~~l-~~dls~n~i----~~Lsn~tf~n~tql~tli  494 (498)
T KOG4237|consen  431 SNKLLKLL------PRG--IPVDVTELYLDGN-AITSVPDE--LLRSL-LLDLSNNRI----SSLSNYTFSNMTQLSTLI  494 (498)
T ss_pred             cccchhhc------CCC--CCchhHHHhcccc-hhcccCHH--HHhhh-hcccccCce----ehhhcccccchhhhheeE
Confidence            11122211      111  1223456777777 55667765  56778 889999863    344556788888888888


Q ss_pred             Ecc
Q 042981          865 IEY  867 (876)
Q Consensus       865 i~~  867 (876)
                      |+.
T Consensus       495 lsy  497 (498)
T KOG4237|consen  495 LSY  497 (498)
T ss_pred             Eec
Confidence            865

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.47  E-value=9e-14  Score=161.52  Aligned_cols=132  Identities=22%  Similarity=0.325  Sum_probs=89.5

Q ss_pred             CceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccc
Q 042981          443 DKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPE  522 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~  522 (876)
                      .+...+.+..++++.+|..+.  ++|+.|++.+|.      ...++..++   .+|++|++         ++|.+..+|.
T Consensus       178 ~~~~~L~L~~~~LtsLP~~Ip--~~L~~L~Ls~N~------LtsLP~~l~---~nL~~L~L---------s~N~LtsLP~  237 (754)
T PRK15370        178 NNKTELRLKILGLTTIPACIP--EQITTLILDNNE------LKSLPENLQ---GNIKTLYA---------NSNQLTSIPA  237 (754)
T ss_pred             cCceEEEeCCCCcCcCCcccc--cCCcEEEecCCC------CCcCChhhc---cCCCEEEC---------CCCccccCCh
Confidence            345667777777777766553  578888887665      223344332   47888888         6666677776


Q ss_pred             ccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCC
Q 042981          523 NVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLR  602 (876)
Q Consensus       523 ~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~  602 (876)
                      .+.  .+|+.|+|++|.+..+|..+.  .+|++|++++| .+..+|..+.  ++|++|++++|.+ ..+|..+.  ++|+
T Consensus       238 ~l~--~~L~~L~Ls~N~L~~LP~~l~--s~L~~L~Ls~N-~L~~LP~~l~--~sL~~L~Ls~N~L-t~LP~~lp--~sL~  307 (754)
T PRK15370        238 TLP--DTIQEMELSINRITELPERLP--SALQSLDLFHN-KISCLPENLP--EELRYLSVYDNSI-RTLPAHLP--SGIT  307 (754)
T ss_pred             hhh--ccccEEECcCCccCcCChhHh--CCCCEEECcCC-ccCccccccC--CCCcEEECCCCcc-ccCcccch--hhHH
Confidence            554  368888888888888887764  57888888877 5667777654  4788888888855 44554432  2444


Q ss_pred             cc
Q 042981          603 TL  604 (876)
Q Consensus       603 ~L  604 (876)
                      .|
T Consensus       308 ~L  309 (754)
T PRK15370        308 HL  309 (754)
T ss_pred             HH
Confidence            44

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.45  E-value=1.3e-13  Score=160.26  Aligned_cols=245  Identities=19%  Similarity=0.236  Sum_probs=137.5

Q ss_pred             CcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcC
Q 042981          496 ACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLK  575 (876)
Q Consensus       496 ~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~  575 (876)
                      .+...|++         +++.+..+|..+.  .+|+.|+|++|.|+.+|..+.  .+|++|++++| .+..+|..+.  .
T Consensus       178 ~~~~~L~L---------~~~~LtsLP~~Ip--~~L~~L~Ls~N~LtsLP~~l~--~nL~~L~Ls~N-~LtsLP~~l~--~  241 (754)
T PRK15370        178 NNKTELRL---------KILGLTTIPACIP--EQITTLILDNNELKSLPENLQ--GNIKTLYANSN-QLTSIPATLP--D  241 (754)
T ss_pred             cCceEEEe---------CCCCcCcCCcccc--cCCcEEEecCCCCCcCChhhc--cCCCEEECCCC-ccccCChhhh--c
Confidence            34677777         6666777776664  478888888888888887664  58888888887 5667776553  4


Q ss_pred             CCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCccc
Q 042981          576 KMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNM  655 (876)
Q Consensus       576 ~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l  655 (876)
                      +|+.|++++|.+ ..+|..+.  ++|+.|          +++.+.+..++.                        .+.  
T Consensus       242 ~L~~L~Ls~N~L-~~LP~~l~--s~L~~L----------~Ls~N~L~~LP~------------------------~l~--  282 (754)
T PRK15370        242 TIQEMELSINRI-TELPERLP--SALQSL----------DLFHNKISCLPE------------------------NLP--  282 (754)
T ss_pred             cccEEECcCCcc-CcCChhHh--CCCCEE----------ECcCCccCcccc------------------------ccC--
Confidence            688888888865 46665543  355555          233333332221                        010  


Q ss_pred             ccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-C
Q 042981          656 KNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-L  734 (876)
Q Consensus       656 ~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L  734 (876)
                      .+|+.|++++|.+....        ..+  +.+|+.|++.+|....+|..+  .++|+.|++++|.+.+ +|. .-.+ |
T Consensus       283 ~sL~~L~Ls~N~Lt~LP--------~~l--p~sL~~L~Ls~N~Lt~LP~~l--~~sL~~L~Ls~N~Lt~-LP~-~l~~sL  348 (754)
T PRK15370        283 EELRYLSVYDNSIRTLP--------AHL--PSGITHLNVQSNSLTALPETL--PPGLKTLEAGENALTS-LPA-SLPPEL  348 (754)
T ss_pred             CCCcEEECCCCccccCc--------ccc--hhhHHHHHhcCCccccCCccc--cccceeccccCCcccc-CCh-hhcCcc
Confidence            23444555444432100        000  124555555555555555433  2466666666666543 332 1113 6


Q ss_pred             ceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeec
Q 042981          735 EKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIW  814 (876)
Q Consensus       735 ~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~  814 (876)
                      +.|++++|... .++.                    .  ..++|+.|++++| .+..+      |..+  .++|+.|+++
T Consensus       349 ~~L~Ls~N~L~-~LP~--------------------~--lp~~L~~LdLs~N-~Lt~L------P~~l--~~sL~~LdLs  396 (754)
T PRK15370        349 QVLDVSKNQIT-VLPE--------------------T--LPPTITTLDVSRN-ALTNL------PENL--PAALQIMQAS  396 (754)
T ss_pred             cEEECCCCCCC-cCCh--------------------h--hcCCcCEEECCCC-cCCCC------CHhH--HHHHHHHhhc
Confidence            66666665421 1111                    0  1346777777766 34432      2222  2467788888


Q ss_pred             cCccCCCCCCCC----CCCCCccEEEEecCCC
Q 042981          815 YCPRLRVLPDYL----FQSTTLQKLSISYCPI  842 (876)
Q Consensus       815 ~c~~l~~lp~~l----~~l~~L~~L~l~~~~~  842 (876)
                      +| .+..+|..+    ..++++..|++.+|+.
T Consensus       397 ~N-~L~~LP~sl~~~~~~~~~l~~L~L~~Npl  427 (754)
T PRK15370        397 RN-NLVRLPESLPHFRGEGPQPTRIIVEYNPF  427 (754)
T ss_pred             cC-CcccCchhHHHHhhcCCCccEEEeeCCCc
Confidence            87 455666543    3346778888888875

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

Probab=99.43  E-value=3.4e-15  Score=133.37  Aligned_cols=166  Identities=25%  Similarity=0.326  Sum_probs=97.4

Q ss_pred             cCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCccC
Q 042981          526 KLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLE  605 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~  605 (876)
                      ++.+...|-||+|.++.+|+.|..|.+|+.|++.+| .++++|..++.|++|++|+++-|++ ..+|.+||.++.|+.| 
T Consensus        31 ~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nn-qie~lp~~issl~klr~lnvgmnrl-~~lprgfgs~p~levl-  107 (264)
T KOG0617|consen   31 NMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNN-QIEELPTSISSLPKLRILNVGMNRL-NILPRGFGSFPALEVL-  107 (264)
T ss_pred             chhhhhhhhcccCceeecCCcHHHhhhhhhhhcccc-hhhhcChhhhhchhhhheecchhhh-hcCccccCCCchhhhh-
Confidence            455566666666666666666666677777776665 5666666667777777776666643 5566666666666666 


Q ss_pred             ceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCC
Q 042981          606 KFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQP  685 (876)
Q Consensus       606 ~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~  685 (876)
                               |+..+.+.+                      ...+..|..++.|+.|+|+.|.+.        .+......
T Consensus       108 ---------dltynnl~e----------------------~~lpgnff~m~tlralyl~dndfe--------~lp~dvg~  148 (264)
T KOG0617|consen  108 ---------DLTYNNLNE----------------------NSLPGNFFYMTTLRALYLGDNDFE--------ILPPDVGK  148 (264)
T ss_pred             ---------hcccccccc----------------------ccCCcchhHHHHHHHHHhcCCCcc--------cCChhhhh
Confidence                     222221111                      111223444555555555555431        11122223


Q ss_pred             CCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc
Q 042981          686 PLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP  733 (876)
Q Consensus       686 ~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp  733 (876)
                      +.+|+-|.+..+..-.+|..++.++.|++|++.+|++.-..|.++.+.
T Consensus       149 lt~lqil~lrdndll~lpkeig~lt~lrelhiqgnrl~vlppel~~l~  196 (264)
T KOG0617|consen  149 LTNLQILSLRDNDLLSLPKEIGDLTRLRELHIQGNRLTVLPPELANLD  196 (264)
T ss_pred             hcceeEEeeccCchhhCcHHHHHHHHHHHHhcccceeeecChhhhhhh
Confidence            344555555555556678888889999999999988765555555443

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.40  E-value=1.7e-13  Score=161.72  Aligned_cols=153  Identities=29%  Similarity=0.338  Sum_probs=112.4

Q ss_pred             cCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCc--ccccccc-cccCcccCeeeccCcc
Q 042981          463 HGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNL--IREIPEN-VRKLIHLKYLNLSELC  539 (876)
Q Consensus       463 ~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~--i~~lp~~-i~~L~~Lr~L~Ls~~~  539 (876)
                      .+....|...+.++.      ...+..  -..++.|++|-+         ..|.  +..++.. |..|+.|++|||++|.
T Consensus       520 ~~~~~~rr~s~~~~~------~~~~~~--~~~~~~L~tLll---------~~n~~~l~~is~~ff~~m~~LrVLDLs~~~  582 (889)
T KOG4658|consen  520 KSWNSVRRMSLMNNK------IEHIAG--SSENPKLRTLLL---------QRNSDWLLEISGEFFRSLPLLRVLDLSGNS  582 (889)
T ss_pred             cchhheeEEEEeccc------hhhccC--CCCCCccceEEE---------eecchhhhhcCHHHHhhCcceEEEECCCCC
Confidence            455677888887665      111111  234557999988         5553  5566644 6889999999999876


Q ss_pred             -ccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCcc
Q 042981          540 -IERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDIST  618 (876)
Q Consensus       540 -i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~  618 (876)
                       +.++|++|++|-+|++|+++++ .+..+|.++.+|++|.+|++..+.....+|..+..|++|++|..+....   ....
T Consensus       583 ~l~~LP~~I~~Li~LryL~L~~t-~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~---~~~~  658 (889)
T KOG4658|consen  583 SLSKLPSSIGELVHLRYLDLSDT-GISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSAL---SNDK  658 (889)
T ss_pred             ccCcCChHHhhhhhhhcccccCC-CccccchHHHHHHhhheeccccccccccccchhhhcccccEEEeecccc---ccch
Confidence             7899999999999999999998 6889999999999999999999877666666666699999997665441   1113


Q ss_pred             ccccccccCCCCCCeeee
Q 042981          619 CRLESLKNLQLLRECGIE  636 (876)
Q Consensus       619 ~~l~~L~~L~~L~~L~l~  636 (876)
                      ..+.++.+|..|+.+.+.
T Consensus       659 ~~l~el~~Le~L~~ls~~  676 (889)
T KOG4658|consen  659 LLLKELENLEHLENLSIT  676 (889)
T ss_pred             hhHHhhhcccchhhheee
Confidence            345555566666555553

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

Probab=99.38  E-value=2.4e-14  Score=144.82  Aligned_cols=133  Identities=23%  Similarity=0.188  Sum_probs=106.1

Q ss_pred             CCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc-ccccccCcccCe
Q 042981          454 GGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI-PENVRKLIHLKY  532 (876)
Q Consensus       454 ~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l-p~~i~~L~~Lr~  532 (876)
                      ++.++|..+.  +.-..+.+..|.      +..+++.+|+.+++||.|||         ++|.|+.| |+.|.+|..|-.
T Consensus        57 GL~eVP~~LP--~~tveirLdqN~------I~~iP~~aF~~l~~LRrLdL---------S~N~Is~I~p~AF~GL~~l~~  119 (498)
T KOG4237|consen   57 GLTEVPANLP--PETVEIRLDQNQ------ISSIPPGAFKTLHRLRRLDL---------SKNNISFIAPDAFKGLASLLS  119 (498)
T ss_pred             CcccCcccCC--CcceEEEeccCC------cccCChhhccchhhhceecc---------cccchhhcChHhhhhhHhhhH
Confidence            3455565543  345667776665      67889999999999999999         77777775 677888998888


Q ss_pred             eeccC-ccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCc-cCCCCCCCCcc
Q 042981          533 LNLSE-LCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPI-GISKLTSLRTL  604 (876)
Q Consensus       533 L~Ls~-~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~L  604 (876)
                      |-+.+ |.|+.+|. .|++|..||.|.+.-|+........+..|++|..|.+..|.+ ..++. .+..+.+++++
T Consensus       120 Lvlyg~NkI~~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~~-q~i~~~tf~~l~~i~tl  193 (498)
T KOG4237|consen  120 LVLYGNNKITDLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNKI-QSICKGTFQGLAAIKTL  193 (498)
T ss_pred             HHhhcCCchhhhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccchhh-hhhccccccchhccchH
Confidence            87766 88999997 589999999999998866666777899999999999999955 55665 57778888887

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

Probab=99.37  E-value=1.2e-14  Score=129.94  Aligned_cols=154  Identities=21%  Similarity=0.334  Sum_probs=112.2

Q ss_pred             cccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccc
Q 042981          461 SIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCI  540 (876)
Q Consensus       461 ~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i  540 (876)
                      .+.+++++..|.+++|.      ...+++. +..+.+|++|++         .+|.++++|.+|+.|+.||.|+++-|.+
T Consensus        28 gLf~~s~ITrLtLSHNK------l~~vppn-ia~l~nlevln~---------~nnqie~lp~~issl~klr~lnvgmnrl   91 (264)
T KOG0617|consen   28 GLFNMSNITRLTLSHNK------LTVVPPN-IAELKNLEVLNL---------SNNQIEELPTSISSLPKLRILNVGMNRL   91 (264)
T ss_pred             cccchhhhhhhhcccCc------eeecCCc-HHHhhhhhhhhc---------ccchhhhcChhhhhchhhhheecchhhh
Confidence            34456677777776655      2333343 567788888888         7778888888888888888888888888


Q ss_pred             cccchhhccCCcccEEeecCCCCC-ccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccc
Q 042981          541 ERLPKTLCELYNLQKLDIRWCEDL-RELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTC  619 (876)
Q Consensus       541 ~~lp~~i~~L~~L~~L~L~~~~~l-~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~  619 (876)
                      ..+|..|+.++.|++|||.+|... ..+|..|..++.|+-|+++.|.+ ..+|..++++++||.|......-      -.
T Consensus        92 ~~lprgfgs~p~levldltynnl~e~~lpgnff~m~tlralyl~dndf-e~lp~dvg~lt~lqil~lrdndl------l~  164 (264)
T KOG0617|consen   92 NILPRGFGSFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDF-EILPPDVGKLTNLQILSLRDNDL------LS  164 (264)
T ss_pred             hcCccccCCCchhhhhhccccccccccCCcchhHHHHHHHHHhcCCCc-ccCChhhhhhcceeEEeeccCch------hh
Confidence            888888888888888888887433 35788888888888888888876 67788888888888884322111      11


Q ss_pred             cccccccCCCCCCeeeeC
Q 042981          620 RLESLKNLQLLRECGIEG  637 (876)
Q Consensus       620 ~l~~L~~L~~L~~L~l~~  637 (876)
                      ..++++.|++|+.|.|.+
T Consensus       165 lpkeig~lt~lrelhiqg  182 (264)
T KOG0617|consen  165 LPKEIGDLTRLRELHIQG  182 (264)
T ss_pred             CcHHHHHHHHHHHHhccc
Confidence            234566788888888877

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

Probab=99.21  E-value=1e-12  Score=142.06  Aligned_cols=96  Identities=23%  Similarity=0.200  Sum_probs=55.6

Q ss_pred             hHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccc-------cchhhccCCcccEEeecC
Q 042981          488 LSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIER-------LPKTLCELYNLQKLDIRW  560 (876)
Q Consensus       488 ~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~-------lp~~i~~L~~L~~L~L~~  560 (876)
                      ....+..+..|++|+++++.+.    ......++..+...+.|++|+++++.+..       ++..+.++++|+.|++++
T Consensus        15 ~~~~~~~l~~L~~l~l~~~~l~----~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~   90 (319)
T cd00116          15 ATELLPKLLCLQVLRLEGNTLG----EEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSD   90 (319)
T ss_pred             hHHHHHHHhhccEEeecCCCCc----HHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccC
Confidence            3445666677777877433321    11113355556666677777777766542       334456667777777777


Q ss_pred             CCCCccccccccCcCC---CceEecCCCCC
Q 042981          561 CEDLRELPAGIGKLKK---MRSLLNGGTPL  587 (876)
Q Consensus       561 ~~~l~~lp~~i~~L~~---L~~L~l~~~~~  587 (876)
                      |......+..+..+.+   |++|++++|.+
T Consensus        91 ~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~  120 (319)
T cd00116          91 NALGPDGCGVLESLLRSSSLQELKLNNNGL  120 (319)
T ss_pred             CCCChhHHHHHHHHhccCcccEEEeeCCcc
Confidence            6544444444544444   77777776644

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=99.17  E-value=1.4e-11  Score=133.30  Aligned_cols=126  Identities=17%  Similarity=0.139  Sum_probs=69.1

Q ss_pred             cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCc
Q 042981          459 PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSEL  538 (876)
Q Consensus       459 ~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~  538 (876)
                      ...+..+.+|+.|.+.++.....  ....+...+...+.|+.|+++.+.+..  ....+..++..+..+++|++|+|++|
T Consensus        16 ~~~~~~l~~L~~l~l~~~~l~~~--~~~~i~~~l~~~~~l~~l~l~~~~~~~--~~~~~~~~~~~l~~~~~L~~L~l~~~   91 (319)
T cd00116          16 TELLPKLLCLQVLRLEGNTLGEE--AAKALASALRPQPSLKELCLSLNETGR--IPRGLQSLLQGLTKGCGLQELDLSDN   91 (319)
T ss_pred             HHHHHHHhhccEEeecCCCCcHH--HHHHHHHHHhhCCCceEEeccccccCC--cchHHHHHHHHHHhcCceeEEEccCC
Confidence            33444556677777765541100  011233335566667777774443310  01122334455666777888888777


Q ss_pred             ccc-ccchhhccCCc---ccEEeecCCCCCc----cccccccCc-CCCceEecCCCCCC
Q 042981          539 CIE-RLPKTLCELYN---LQKLDIRWCEDLR----ELPAGIGKL-KKMRSLLNGGTPLL  588 (876)
Q Consensus       539 ~i~-~lp~~i~~L~~---L~~L~L~~~~~l~----~lp~~i~~L-~~L~~L~l~~~~~~  588 (876)
                      .+. ..+..+..+.+   |+.|++++|....    .+...+..+ ++|+.|++++|.+.
T Consensus        92 ~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~  150 (319)
T cd00116          92 ALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLE  150 (319)
T ss_pred             CCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCC
Confidence            765 34444544444   8888887774331    233344555 77788888777654

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).

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

Probab=98.81  E-value=2.3e-10  Score=121.64  Aligned_cols=101  Identities=34%  Similarity=0.523  Sum_probs=76.9

Q ss_pred             hccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccc
Q 042981          492 FSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGI  571 (876)
Q Consensus       492 ~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i  571 (876)
                      +..|..|..|.|         +.|.+..+|+.+++|..|.||+|+.|+++.+|..++.|+ |+.|-+++| +++.+|..+
T Consensus        94 ~~~f~~Le~liL---------y~n~~r~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~sNN-kl~~lp~~i  162 (722)
T KOG0532|consen   94 ACAFVSLESLIL---------YHNCIRTIPEAICNLEALTFLDLSSNQLSHLPDGLCDLP-LKVLIVSNN-KLTSLPEEI  162 (722)
T ss_pred             HHHHHHHHHHHH---------HhccceecchhhhhhhHHHHhhhccchhhcCChhhhcCc-ceeEEEecC-ccccCCccc
Confidence            566677777777         777777788888888888888888888888888877665 788888876 677788888


Q ss_pred             cCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          572 GKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       572 ~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      +.+..|.+|+.+.|.+ ..+|..++.+.+|+.|
T Consensus       163 g~~~tl~~ld~s~nei-~slpsql~~l~slr~l  194 (722)
T KOG0532|consen  163 GLLPTLAHLDVSKNEI-QSLPSQLGYLTSLRDL  194 (722)
T ss_pred             ccchhHHHhhhhhhhh-hhchHHhhhHHHHHHH
Confidence            8778888888887755 5666666666666666

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

Probab=98.80  E-value=2.5e-10  Score=121.37  Aligned_cols=133  Identities=22%  Similarity=0.344  Sum_probs=110.5

Q ss_pred             eEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccccc
Q 042981          445 VRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENV  524 (876)
Q Consensus       445 lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i  524 (876)
                      ....+++.|.+..+|..+..+..|..+.++.|.      +.. .+....++..|.+|||         +.|.+..+|..+
T Consensus        77 t~~aDlsrNR~~elp~~~~~f~~Le~liLy~n~------~r~-ip~~i~~L~~lt~l~l---------s~NqlS~lp~~l  140 (722)
T KOG0532|consen   77 TVFADLSRNRFSELPEEACAFVSLESLILYHNC------IRT-IPEAICNLEALTFLDL---------SSNQLSHLPDGL  140 (722)
T ss_pred             hhhhhccccccccCchHHHHHHHHHHHHHHhcc------cee-cchhhhhhhHHHHhhh---------ccchhhcCChhh
Confidence            455678888888888888888899999998775      222 3444778899999999         788888899988


Q ss_pred             ccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCC
Q 042981          525 RKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGIS  596 (876)
Q Consensus       525 ~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~  596 (876)
                      |.| -|+.|-+++|+++.+|+.++-+..|..||.+.| .+..+|..++.+.+|+.|++..|++ ..+|+.+.
T Consensus       141 C~l-pLkvli~sNNkl~~lp~~ig~~~tl~~ld~s~n-ei~slpsql~~l~slr~l~vrRn~l-~~lp~El~  209 (722)
T KOG0532|consen  141 CDL-PLKVLIVSNNKLTSLPEEIGLLPTLAHLDVSKN-EIQSLPSQLGYLTSLRDLNVRRNHL-EDLPEELC  209 (722)
T ss_pred             hcC-cceeEEEecCccccCCcccccchhHHHhhhhhh-hhhhchHHhhhHHHHHHHHHhhhhh-hhCCHHHh
Confidence            876 489999999999999999999999999999988 6888999999999999999999966 56676655

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

Probab=98.72  E-value=4.1e-09  Score=109.03  Aligned_cols=215  Identities=21%  Similarity=0.163  Sum_probs=108.9

Q ss_pred             ccCcccCeeeccCccccccch--hhccCCcccEEeecCCCCC--ccccccccCcCCCceEecCCCCCCccCCccCCCCCC
Q 042981          525 RKLIHLKYLNLSELCIERLPK--TLCELYNLQKLDIRWCEDL--RELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTS  600 (876)
Q Consensus       525 ~~L~~Lr~L~Ls~~~i~~lp~--~i~~L~~L~~L~L~~~~~l--~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~  600 (876)
                      .++.+|+...|.++.+...+.  ....|++++.|||++|-..  ..+-..+..|++|+.|+++.|.+..  |  ++.   
T Consensus       118 sn~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~--~--~~s---  190 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSN--F--ISS---  190 (505)
T ss_pred             hhHHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccC--C--ccc---
Confidence            456677777777777666553  5666777777777776221  1223334577888888888775421  1  000   


Q ss_pred             CCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHH
Q 042981          601 LRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLL  680 (876)
Q Consensus       601 L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~  680 (876)
                      ..+.                     .+++|+.|.++.|.-.   .......+..+++|+.|+|..|..            
T Consensus       191 ~~~~---------------------~l~~lK~L~l~~CGls---~k~V~~~~~~fPsl~~L~L~~N~~------------  234 (505)
T KOG3207|consen  191 NTTL---------------------LLSHLKQLVLNSCGLS---WKDVQWILLTFPSLEVLYLEANEI------------  234 (505)
T ss_pred             cchh---------------------hhhhhheEEeccCCCC---HHHHHHHHHhCCcHHHhhhhcccc------------
Confidence            0000                     1223333344333211   011111223445555555555521            


Q ss_pred             hhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCC--CCCCCCccc-CceEeecCCCCceEeCcccccCCC
Q 042981          681 EALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICE--HFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEG  757 (876)
Q Consensus       681 ~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~--~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~  757 (876)
                                        .........-+..|+.|+|++|++..  ..+..+.+| |..|+++.+..-+.-..   ..  
T Consensus       235 ------------------~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~---d~--  291 (505)
T KOG3207|consen  235 ------------------ILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIASIAEP---DV--  291 (505)
T ss_pred             ------------------cceecchhhhhhHHhhccccCCcccccccccccccccchhhhhccccCcchhcCC---Cc--
Confidence                              00001112235566777777776654  345566677 77777666543221110   00  


Q ss_pred             CCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccC
Q 042981          758 SSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRL  819 (876)
Q Consensus       758 l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l  819 (876)
                               .+..-...||+|++|.+..+ +..+|..    ...+..+++|+.|.+..|+..
T Consensus       292 ---------~s~~kt~~f~kL~~L~i~~N-~I~~w~s----l~~l~~l~nlk~l~~~~n~ln  339 (505)
T KOG3207|consen  292 ---------ESLDKTHTFPKLEYLNISEN-NIRDWRS----LNHLRTLENLKHLRITLNYLN  339 (505)
T ss_pred             ---------cchhhhcccccceeeecccC-ccccccc----cchhhccchhhhhhccccccc
Confidence                     00001235788888877776 4555544    334456777777777666543

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

Probab=98.64  E-value=1.6e-08  Score=112.49  Aligned_cols=102  Identities=33%  Similarity=0.472  Sum_probs=85.3

Q ss_pred             hccCCcceEEecCccccccCCCCCcccccccccccCc-ccCeeeccCccccccchhhccCCcccEEeecCCCCCcccccc
Q 042981          492 FSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLI-HLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAG  570 (876)
Q Consensus       492 ~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~-~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~  570 (876)
                      ...++.+..|++         .++.+..+|..++.+. +|++|++++|.+..+|..++.+++|+.|++++| .+..+|..
T Consensus       112 ~~~~~~l~~L~l---------~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N-~l~~l~~~  181 (394)
T COG4886         112 LLELTNLTSLDL---------DNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFN-DLSDLPKL  181 (394)
T ss_pred             hhcccceeEEec---------CCcccccCccccccchhhcccccccccchhhhhhhhhccccccccccCCc-hhhhhhhh
Confidence            345578999999         8888888888888774 999999999999999888999999999999998 68888887


Q ss_pred             ccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          571 IGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       571 i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      .+.+++|+.|++++|.+ ..+|..++.+..|++|
T Consensus       182 ~~~~~~L~~L~ls~N~i-~~l~~~~~~~~~L~~l  214 (394)
T COG4886         182 LSNLSNLNNLDLSGNKI-SDLPPEIELLSALEEL  214 (394)
T ss_pred             hhhhhhhhheeccCCcc-ccCchhhhhhhhhhhh
Confidence            77899999999999955 6777766666667777

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

Probab=98.64  E-value=2e-08  Score=95.18  Aligned_cols=130  Identities=27%  Similarity=0.297  Sum_probs=50.0

Q ss_pred             cCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccc
Q 042981          463 HGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIER  542 (876)
Q Consensus       463 ~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~  542 (876)
                      .+..++|.|++.++.      +.. +..+-..+.+|++|+|         ++|.+..++ .+..+++|+.|++++|.|+.
T Consensus        16 ~n~~~~~~L~L~~n~------I~~-Ie~L~~~l~~L~~L~L---------s~N~I~~l~-~l~~L~~L~~L~L~~N~I~~   78 (175)
T PF14580_consen   16 NNPVKLRELNLRGNQ------IST-IENLGATLDKLEVLDL---------SNNQITKLE-GLPGLPRLKTLDLSNNRISS   78 (175)
T ss_dssp             ---------------------------S--TT-TT--EEE----------TTS--S--T-T----TT--EEE--SS---S
T ss_pred             ccccccccccccccc------ccc-ccchhhhhcCCCEEEC---------CCCCCcccc-CccChhhhhhcccCCCCCCc
Confidence            445567888887765      222 2222235778899999         777777774 57778999999999999998


Q ss_pred             cchhh-ccCCcccEEeecCCCCCcccc--ccccCcCCCceEecCCCCCCccCC----ccCCCCCCCCccCceeecC
Q 042981          543 LPKTL-CELYNLQKLDIRWCEDLRELP--AGIGKLKKMRSLLNGGTPLLKYMP----IGISKLTSLRTLEKFAMGG  611 (876)
Q Consensus       543 lp~~i-~~L~~L~~L~L~~~~~l~~lp--~~i~~L~~L~~L~l~~~~~~~~~p----~~i~~l~~L~~L~~~~~~~  611 (876)
                      +++.+ ..+++|++|++++|. +..+-  ..+..+++|++|++.+|++... +    .-+..+++|+.|+...+..
T Consensus        79 i~~~l~~~lp~L~~L~L~~N~-I~~l~~l~~L~~l~~L~~L~L~~NPv~~~-~~YR~~vi~~lP~Lk~LD~~~V~~  152 (175)
T PF14580_consen   79 ISEGLDKNLPNLQELYLSNNK-ISDLNELEPLSSLPKLRVLSLEGNPVCEK-KNYRLFVIYKLPSLKVLDGQDVTE  152 (175)
T ss_dssp             -CHHHHHH-TT--EEE-TTS----SCCCCGGGGG-TT--EEE-TT-GGGGS-TTHHHHHHHH-TT-SEETTEETTS
T ss_pred             cccchHHhCCcCCEEECcCCc-CCChHHhHHHHcCCCcceeeccCCcccch-hhHHHHHHHHcChhheeCCEEccH
Confidence            87665 368999999999884 43332  3467889999999999976432 2    1245667777776554443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.64  E-value=4.9e-07  Score=112.52  Aligned_cols=254  Identities=16%  Similarity=0.186  Sum_probs=141.3

Q ss_pred             HHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCch-hHHHHH--------------
Q 042981          135 ELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-EEIRVA--------------  199 (876)
Q Consensus       135 ~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~--------------  199 (876)
                      ++.+.|...     ...+++.|+|++|.||||++.+..+.      ++.++|+++...- +...+.              
T Consensus        21 rl~~~l~~~-----~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~~~   89 (903)
T PRK04841         21 RLLAKLSGA-----NNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAALQQATNGH   89 (903)
T ss_pred             HHHHHHhcc-----cCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHHHHhcCcc
Confidence            455555432     25789999999999999999887752      2368999986332 211111              


Q ss_pred             --------------------HHHHHh-----------ccccccCCccChhhHH-hhhccCCCCCEEEEEcCchH---HHH
Q 042981          200 --------------------NAIIEG-----------LDDVWDGDYNKWEPFF-HCLKHGLHGSKILLTTRNES---VAR  244 (876)
Q Consensus       200 --------------------~~i~~~-----------lDdvw~~~~~~~~~l~-~~l~~~~~gs~iivTTR~~~---v~~  244 (876)
                                          ..++..           |||+...+......+. ..++....+-++|||||...   ...
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~~~~~  169 (903)
T PRK04841         90 CSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPLGIAN  169 (903)
T ss_pred             cchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCCchHh
Confidence                                111111           7888654433333333 33444455678889999842   111


Q ss_pred             hhCCcceEeCC----CCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHHHHhhhhhcCCccHHHHHHHhhhhhcc
Q 042981          245 MMGSTNIIFIE----QLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWK  318 (876)
Q Consensus       245 ~~~~~~~~~l~----~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L~~~~~~~~w~~~~~~~~~~  318 (876)
                      ........++.    +|+.+|+  +|...... +--.+...+|.+.|+|.|+++..++..++.......  ...    +.
T Consensus       170 l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~-~~~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~~~--~~~----~~  242 (903)
T PRK04841        170 LRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSS-PIEAAESSRLCDDVEGWATALQLIALSARQNNSSLH--DSA----RR  242 (903)
T ss_pred             HHhcCcceecCHHhCCCCHHHHHHHHHhccCC-CCCHHHHHHHHHHhCChHHHHHHHHHHHhhCCCchh--hhh----Hh
Confidence            11123355566    8888888  55432211 112345678999999999999998877754421000  000    11


Q ss_pred             ccc-cCCcchhhHhh-cccCCCCchhHHHHHhHhccCCCCceeChHHHHHHHHHcCccccCCChhHHHHHHhhhhhcccc
Q 042981          319 VEE-IGQGLFAPLLL-SYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEYFNISKFK  396 (876)
Q Consensus       319 ~~~-~~~~~~~~l~~-sy~~L~~~~~lk~cfly~~~fp~~~~i~~~~li~~W~aeg~i~~~~~~~~e~~~~~~~~~~~~~  396 (876)
                      +.. ....+...+.- -++.||+  +.+..++..|+++   .++.. +.     ..+....   ..++.-+.......+.
T Consensus       243 ~~~~~~~~~~~~l~~~v~~~l~~--~~~~~l~~~a~~~---~~~~~-l~-----~~l~~~~---~~~~~L~~l~~~~l~~  308 (903)
T PRK04841        243 LAGINASHLSDYLVEEVLDNVDL--ETRHFLLRCSVLR---SMNDA-LI-----VRVTGEE---NGQMRLEELERQGLFI  308 (903)
T ss_pred             hcCCCchhHHHHHHHHHHhcCCH--HHHHHHHHhcccc---cCCHH-HH-----HHHcCCC---cHHHHHHHHHHCCCee
Confidence            111 11234554443 3789999  8999999999987   23322 22     1111111   1222222222222222


Q ss_pred             cCCCCCCcceEEcChHHHHHHHHhc
Q 042981          397 KDDDDDDIMSCKMHDIVHDFAQFVS  421 (876)
Q Consensus       397 ~~~~~~~~~~~~mHdlv~dla~~i~  421 (876)
                      ...++... .|+.|++++++.....
T Consensus       309 ~~~~~~~~-~yr~H~L~r~~l~~~l  332 (903)
T PRK04841        309 QRMDDSGE-WFRYHPLFASFLRHRC  332 (903)
T ss_pred             EeecCCCC-EEehhHHHHHHHHHHH
Confidence            21122223 6889999999987654

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.61  E-value=1e-07  Score=102.52  Aligned_cols=249  Identities=19%  Similarity=0.161  Sum_probs=126.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAII  203 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  203 (876)
                      .+++|+++.++.+..++...... ......+.|+|++|+||||||+.+.+.  ....|.   ++..+. ......+..++
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~-~~~~~~~ll~GppG~GKT~la~~ia~~--l~~~~~---~~~~~~-~~~~~~l~~~l   97 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKR-GEALDHVLLYGPPGLGKTTLANIIANE--MGVNIR---ITSGPA-LEKPGDLAAIL   97 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhc-CCCCCcEEEECCCCccHHHHHHHHHHH--hCCCeE---EEeccc-ccChHHHHHHH
Confidence            56999999999988877642211 224567889999999999999999983  332221   121111 11111222222


Q ss_pred             Hh--------ccccccCCccChhhHHhhhccC-------------------CCCCEEEEEcCchHHHHhhC--CcceEeC
Q 042981          204 EG--------LDDVWDGDYNKWEPFFHCLKHG-------------------LHGSKILLTTRNESVARMMG--STNIIFI  254 (876)
Q Consensus       204 ~~--------lDdvw~~~~~~~~~l~~~l~~~-------------------~~gs~iivTTR~~~v~~~~~--~~~~~~l  254 (876)
                      ..        +|++..-.....+.+...+.+.                   .+.+-|..|||...+.....  -...+++
T Consensus        98 ~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~~~~l  177 (328)
T PRK00080         98 TNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGIVQRL  177 (328)
T ss_pred             HhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCeeeec
Confidence            22        6776433221222222222111                   12344566777544433221  1347899


Q ss_pred             CCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHHHhhhhhcCCccHHHHHHHhhhhhcccc-ccCCcchhh
Q 042981          255 EQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVE-EIGQGLFAP  329 (876)
Q Consensus       255 ~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L~~~~~~~~w~~~~~~~~~~~~-~~~~~~~~~  329 (876)
                      ++++.++.  ++....  ....--.+....|++.|+|.|-.+..+...+      ..|..+....  .+. ..-......
T Consensus       178 ~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~------~~~a~~~~~~--~I~~~~v~~~l~~  249 (328)
T PRK00080        178 EFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRV------RDFAQVKGDG--VITKEIADKALDM  249 (328)
T ss_pred             CCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHHHH------HHHHHHcCCC--CCCHHHHHHHHHH
Confidence            99999887  222111  1112234578899999999996544444322      1222111100  000 000123344


Q ss_pred             HhhcccCCCCchhHHHHHh-HhccCCCCceeC--------------hHHHHH-HHHHcCccccCC-ChhHHHHHHhhh
Q 042981          330 LLLSYNDLPSNSMVKRCFS-YCAIFPKEYNIK--------------KKELIS-LWMVQGYLNVEE-DEEIEMTGEEYF  390 (876)
Q Consensus       330 l~~sy~~L~~~~~lk~cfl-y~~~fp~~~~i~--------------~~~li~-~W~aeg~i~~~~-~~~~e~~~~~~~  390 (876)
                      +...|..|+.  ..+.-+. ....|+.+. +.              .+..++ +-+..|||.... +....+.|.+|+
T Consensus       250 ~~~~~~~l~~--~~~~~l~~~~~~~~~~~-~~~~~~a~~lg~~~~~~~~~~e~~Li~~~li~~~~~gr~~~~~~~~~~  324 (328)
T PRK00080        250 LGVDELGLDE--MDRKYLRTIIEKFGGGP-VGLDTLAAALGEERDTIEDVYEPYLIQQGFIQRTPRGRVATPKAYEHL  324 (328)
T ss_pred             hCCCcCCCCH--HHHHHHHHHHHHcCCCc-eeHHHHHHHHCCCcchHHHHhhHHHHHcCCcccCCchHHHHHHHHHHh
Confidence            5567777877  4455443 555665542 22              223344 556666664332 244445555554

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

Probab=98.59  E-value=1.6e-08  Score=104.79  Aligned_cols=151  Identities=17%  Similarity=0.080  Sum_probs=104.5

Q ss_pred             CCceEEEEeeecCCCCCc--ccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          442 GDKVRHLGLNFEGGASFP--MSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~--~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      -+++|.+++.+......+  .....|+++|.|+++.|-.+    .......+...+++|+.|+|+.|.+....+.+ .  
T Consensus       120 ~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~----nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~-~--  192 (505)
T KOG3207|consen  120 LKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFH----NWFPVLKIAEQLPSLENLNLSSNRLSNFISSN-T--  192 (505)
T ss_pred             HHhhhheeecCccccccchhhhhhhCCcceeecchhhhHH----hHHHHHHHHHhcccchhcccccccccCCcccc-c--
Confidence            567888888887765543  35678999999999876421    12334566789999999999777664221111 1  


Q ss_pred             cccccccCcccCeeeccCcccc--ccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCC--ccC
Q 042981          520 IPENVRKLIHLKYLNLSELCIE--RLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMP--IGI  595 (876)
Q Consensus       520 lp~~i~~L~~Lr~L~Ls~~~i~--~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p--~~i  595 (876)
                          -..+.+|+.|.|+.|.++  .+-.-...+++|+.|+|.+|.....-......++.|+.|+|++|.+. .++  ..+
T Consensus       193 ----~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li-~~~~~~~~  267 (505)
T KOG3207|consen  193 ----TLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLI-DFDQGYKV  267 (505)
T ss_pred             ----hhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCccc-cccccccc
Confidence                135789999999999988  33344557899999999998533333333456788999999999663 344  345


Q ss_pred             CCCCCCCcc
Q 042981          596 SKLTSLRTL  604 (876)
Q Consensus       596 ~~l~~L~~L  604 (876)
                      +.++.|..|
T Consensus       268 ~~l~~L~~L  276 (505)
T KOG3207|consen  268 GTLPGLNQL  276 (505)
T ss_pred             ccccchhhh
Confidence            667777766

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

Probab=98.56  E-value=5.3e-08  Score=92.39  Aligned_cols=123  Identities=24%  Similarity=0.234  Sum_probs=51.9

Q ss_pred             CCceEEEEeeecCCCCCccccc-CCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc
Q 042981          442 GDKVRHLGLNFEGGASFPMSIH-GLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI  520 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l  520 (876)
                      +.+.|.|++.++.+..+ +.+. .+.+|+.|++++|.      +..+ .. +..++.|++|++         ++|.+..+
T Consensus        18 ~~~~~~L~L~~n~I~~I-e~L~~~l~~L~~L~Ls~N~------I~~l-~~-l~~L~~L~~L~L---------~~N~I~~i   79 (175)
T PF14580_consen   18 PVKLRELNLRGNQISTI-ENLGATLDKLEVLDLSNNQ------ITKL-EG-LPGLPRLKTLDL---------SNNRISSI   79 (175)
T ss_dssp             -------------------S--TT-TT--EEE-TTS--------S---TT-----TT--EEE-----------SS---S-
T ss_pred             ccccccccccccccccc-cchhhhhcCCCEEECCCCC------Cccc-cC-ccChhhhhhccc---------CCCCCCcc
Confidence            45679999999998875 3454 57899999998876      2222 22 678999999999         88888888


Q ss_pred             cccc-ccCcccCeeeccCccccccc--hhhccCCcccEEeecCCCCCccccc----cccCcCCCceEecC
Q 042981          521 PENV-RKLIHLKYLNLSELCIERLP--KTLCELYNLQKLDIRWCEDLRELPA----GIGKLKKMRSLLNG  583 (876)
Q Consensus       521 p~~i-~~L~~Lr~L~Ls~~~i~~lp--~~i~~L~~L~~L~L~~~~~l~~lp~----~i~~L~~L~~L~l~  583 (876)
                      ++.+ ..+++|+.|+|++|.|..+-  ..+..+++|++|+|.+|. +...+.    .+..+|+|+.||-.
T Consensus        80 ~~~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NP-v~~~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   80 SEGLDKNLPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGNP-VCEKKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             CHHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT--EEE-TT-G-GGGSTTHHHHHHHH-TT-SEETTE
T ss_pred             ccchHHhCCcCCEEECcCCcCCChHHhHHHHcCCCcceeeccCCc-ccchhhHHHHHHHHcChhheeCCE
Confidence            7666 46899999999999998654  357789999999999995 443333    36789999999853

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

Probab=98.48  E-value=7.5e-08  Score=107.20  Aligned_cols=186  Identities=27%  Similarity=0.320  Sum_probs=119.0

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccchhhccCC-cccEEeecCCCCCccccccccCcCCCceEecCCCCCCccC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELY-NLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYM  591 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~-~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~  591 (876)
                      ..+.+...+..+..+..+..|++.+|.++.+|...+.+. +|+.|++++| .+..+|..++.+++|+.|+++.|.+ ..+
T Consensus       101 ~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N-~i~~l~~~~~~l~~L~~L~l~~N~l-~~l  178 (394)
T COG4886         101 NLNRLRSNISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDN-KIESLPSPLRNLPNLKNLDLSFNDL-SDL  178 (394)
T ss_pred             cccccccCchhhhcccceeEEecCCcccccCccccccchhhccccccccc-chhhhhhhhhccccccccccCCchh-hhh
Confidence            445444444556667889999999999999999998885 9999999998 6888888899999999999999966 667


Q ss_pred             CccCCCCCCCCccCceeecCccCCCcccccccccc---C-CCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEecc
Q 042981          592 PIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKN---L-QLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDE  667 (876)
Q Consensus       592 p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~---L-~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~  667 (876)
                      |...+.+++|+.|          +++++.+..++.   + ..|..+.+++...     ......+.++.++..+.+..|.
T Consensus       179 ~~~~~~~~~L~~L----------~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~-----~~~~~~~~~~~~l~~l~l~~n~  243 (394)
T COG4886         179 PKLLSNLSNLNNL----------DLSGNKISDLPPEIELLSALEELDLSNNSI-----IELLSSLSNLKNLSGLELSNNK  243 (394)
T ss_pred             hhhhhhhhhhhhe----------eccCCccccCchhhhhhhhhhhhhhcCCcc-----eecchhhhhcccccccccCCce
Confidence            7766688888888          556666666654   2 2366666655211     1112234455555555555443


Q ss_pred             CCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCC
Q 042981          668 EGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICE  724 (876)
Q Consensus       668 ~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~  724 (876)
                      ..        .....+..+++++.|+++++....++. ++.+.+|+.|+++++.+..
T Consensus       244 ~~--------~~~~~~~~l~~l~~L~~s~n~i~~i~~-~~~~~~l~~L~~s~n~~~~  291 (394)
T COG4886         244 LE--------DLPESIGNLSNLETLDLSNNQISSISS-LGSLTNLRELDLSGNSLSN  291 (394)
T ss_pred             ee--------eccchhccccccceecccccccccccc-ccccCccCEEeccCccccc
Confidence            31        012223333445555555555444444 4445555555555554433

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

Probab=98.46  E-value=1.8e-08  Score=101.65  Aligned_cols=92  Identities=20%  Similarity=0.226  Sum_probs=48.8

Q ss_pred             hccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCcc----ccccch-------hhccCCcccEEeecC
Q 042981          492 FSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELC----IERLPK-------TLCELYNLQKLDIRW  560 (876)
Q Consensus       492 ~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~----i~~lp~-------~i~~L~~L~~L~L~~  560 (876)
                      ...+..+..++||+|.|-..    -...+.+.+.+.++|+..+++.-.    ..++|+       .+..+++|++|||+.
T Consensus        26 ~~~~~s~~~l~lsgnt~G~E----Aa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSD  101 (382)
T KOG1909|consen   26 LEPMDSLTKLDLSGNTFGTE----AARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSD  101 (382)
T ss_pred             hcccCceEEEeccCCchhHH----HHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccc
Confidence            44556666666633332100    001133444455566666665432    124443       344566788888887


Q ss_pred             CCCCcccccc----ccCcCCCceEecCCCCC
Q 042981          561 CEDLRELPAG----IGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       561 ~~~l~~lp~~----i~~L~~L~~L~l~~~~~  587 (876)
                      |-.-..-+..    +..+..|+||++.+|.+
T Consensus       102 NA~G~~g~~~l~~ll~s~~~L~eL~L~N~Gl  132 (382)
T KOG1909|consen  102 NAFGPKGIRGLEELLSSCTDLEELYLNNCGL  132 (382)
T ss_pred             cccCccchHHHHHHHHhccCHHHHhhhcCCC
Confidence            7543333333    45678888888888843

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.45  E-value=9.9e-07  Score=94.30  Aligned_cols=168  Identities=23%  Similarity=0.196  Sum_probs=91.3

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeC---CchhHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVS---DTFEEIRVAN  200 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs---~~~~~~~~~~  200 (876)
                      .+|||++..++.+..++...... ......+.++|++|+|||+||+++.+.  ....|.   .+..+   ...+....+.
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~-~~~~~~~ll~Gp~G~GKT~la~~ia~~--~~~~~~---~~~~~~~~~~~~l~~~l~   77 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMR-QEALDHLLLYGPPGLGKTTLAHIIANE--MGVNLK---ITSGPALEKPGDLAAILT   77 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhc-CCCCCeEEEECCCCCCHHHHHHHHHHH--hCCCEE---EeccchhcCchhHHHHHH
Confidence            46999999999998888643211 123556789999999999999999983  332221   12211   1112222222


Q ss_pred             HHHHh----ccccccCCccChhhHHhhhccC-------------------CCCCEEEEEcCchHHHHhhC--CcceEeCC
Q 042981          201 AIIEG----LDDVWDGDYNKWEPFFHCLKHG-------------------LHGSKILLTTRNESVARMMG--STNIIFIE  255 (876)
Q Consensus       201 ~i~~~----lDdvw~~~~~~~~~l~~~l~~~-------------------~~gs~iivTTR~~~v~~~~~--~~~~~~l~  255 (876)
                      .+-..    +|++..-.....+.+...+...                   .+.+-|..||+...+....-  -...++++
T Consensus        78 ~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~~~~l~  157 (305)
T TIGR00635        78 NLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLE  157 (305)
T ss_pred             hcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcceEEEeC
Confidence            21111    6666433222222232222110                   12444556777654433211  13467899


Q ss_pred             CCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHHHhhh
Q 042981          256 QLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAKATGN  297 (876)
Q Consensus       256 ~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~~~~~  297 (876)
                      +++.++.  ++....  ....--.+....|++.|+|.|-.+..++.
T Consensus       158 ~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~  203 (305)
T TIGR00635       158 FYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLR  203 (305)
T ss_pred             CCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHH
Confidence            9999887  222111  11112245678899999999976654444

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.

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

Probab=98.40  E-value=6.1e-08  Score=95.27  Aligned_cols=76  Identities=21%  Similarity=0.191  Sum_probs=54.7

Q ss_pred             cCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          526 KLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      ....|..||||+|.|+.+-+++.-++.++.|++++|. +..+-. +..|++|++|++++|.+ ..+...-.++.+.++|
T Consensus       282 TWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~-i~~v~n-La~L~~L~~LDLS~N~L-s~~~Gwh~KLGNIKtL  357 (490)
T KOG1259|consen  282 TWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNR-IRTVQN-LAELPQLQLLDLSGNLL-AECVGWHLKLGNIKTL  357 (490)
T ss_pred             hHhhhhhccccccchhhhhhhhhhccceeEEeccccc-eeeehh-hhhcccceEeecccchh-HhhhhhHhhhcCEeee
Confidence            3466888999999999888888888899999999884 444433 78888899999988844 3333222345555555

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.40  E-value=5e-06  Score=92.52  Aligned_cols=205  Identities=15%  Similarity=0.091  Sum_probs=108.0

Q ss_pred             cCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHH----
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR----  197 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~----  197 (876)
                      .++.++||+++.+++...+...-.  +.....+.|+|++|+||||+++.++++..-....-..++|......+...    
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~--~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~  105 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALR--GSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSE  105 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhC--CCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHH
Confidence            456799999999999998854321  12345578999999999999999998432222112344554433222222    


Q ss_pred             -------------------HHHHHHHh-----------ccccccCC----ccChhhHHhhhccCCCCCE--EEEEcCchH
Q 042981          198 -------------------VANAIIEG-----------LDDVWDGD----YNKWEPFFHCLKHGLHGSK--ILLTTRNES  241 (876)
Q Consensus       198 -------------------~~~~i~~~-----------lDdvw~~~----~~~~~~l~~~l~~~~~gs~--iivTTR~~~  241 (876)
                                         +...+.+.           ||+++.-.    .+.+..+...+.. ..+++  ||.++....
T Consensus       106 i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~~  184 (394)
T PRK00411        106 IARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDLT  184 (394)
T ss_pred             HHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCcc
Confidence                               22222211           68776532    1122233222222 23444  566666554


Q ss_pred             HHHhhC-------CcceEeCCCCCcccc--c--------cCCCcCCccchHHHHHHHHHHcCCCchHHHHhhhhh--c--
Q 042981          242 VARMMG-------STNIIFIEQLTEEES--F--------SGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLL--R--  300 (876)
Q Consensus       242 v~~~~~-------~~~~~~l~~L~~~~~--~--------f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L--~--  300 (876)
                      +.....       ....+.+.+++.++.  +        |....-....++.+++......|..+.|+.++-.+.  +  
T Consensus       185 ~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~  264 (394)
T PRK00411        185 FLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAER  264 (394)
T ss_pred             hhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH
Confidence            433221       124678899998876  1        211111222334444444444566888877765432  1  


Q ss_pred             -CC--ccHHHHHHHhhhhhccccccCCcchhhHhhcccCCCC
Q 042981          301 -SK--SILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPS  339 (876)
Q Consensus       301 -~~--~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~  339 (876)
                       ++  -+.+.+..+.+...          .....-.+..||.
T Consensus       265 ~~~~~I~~~~v~~a~~~~~----------~~~~~~~~~~L~~  296 (394)
T PRK00411        265 EGSRKVTEEDVRKAYEKSE----------IVHLSEVLRTLPL  296 (394)
T ss_pred             cCCCCcCHHHHHHHHHHHH----------HHHHHHHHhcCCH
Confidence             11  23455555554321          1223345778887

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

Probab=98.38  E-value=1.1e-08  Score=103.24  Aligned_cols=173  Identities=17%  Similarity=0.122  Sum_probs=100.2

Q ss_pred             cccccCcccCeeeccCcccc-----ccchhhccCCcccEEeecCCCCC----cccccc-------ccCcCCCceEecCCC
Q 042981          522 ENVRKLIHLKYLNLSELCIE-----RLPKTLCELYNLQKLDIRWCEDL----RELPAG-------IGKLKKMRSLLNGGT  585 (876)
Q Consensus       522 ~~i~~L~~Lr~L~Ls~~~i~-----~lp~~i~~L~~L~~L~L~~~~~l----~~lp~~-------i~~L~~L~~L~l~~~  585 (876)
                      +.+..+..+.+|+||+|.+.     .+.+.+.+.++|+.-++++- ..    .++|..       +...++|+.|+||.|
T Consensus        24 ~~~~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~-ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDN  102 (382)
T KOG1909|consen   24 EELEPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDM-FTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDN  102 (382)
T ss_pred             HHhcccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhh-hcCCcHHHHHHHHHHHHHHHhcCCceeEeecccc
Confidence            33456788999999999876     44556777888999888754 22    234443       345678899999888


Q ss_pred             CCCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchh---------hhccCcccc
Q 042981          586 PLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDED---------ERLGLHNMK  656 (876)
Q Consensus       586 ~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~---------~~~~l~~l~  656 (876)
                      -+....++.+      ..|                   ++.+..|+.|.+.+|.--......         ......+.+
T Consensus       103 A~G~~g~~~l------~~l-------------------l~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~  157 (382)
T KOG1909|consen  103 AFGPKGIRGL------EEL-------------------LSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKP  157 (382)
T ss_pred             ccCccchHHH------HHH-------------------HHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCc
Confidence            5532222221      111                   233556677777765332221111         222344556


Q ss_pred             cCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCC-----CCchhhcccCCcEEEEecCCCC
Q 042981          657 NLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNI-----FPKWLTSLTNLRDLRLKSCVIC  723 (876)
Q Consensus       657 ~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~-----lp~~l~~l~~L~~L~L~~~~~~  723 (876)
                      .|+.+....|.+...+.   ...-..+..++.|+.+.+..+.+..     +-..+..+++|+.|+|.+|.+.
T Consensus       158 ~Lrv~i~~rNrlen~ga---~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft  226 (382)
T KOG1909|consen  158 KLRVFICGRNRLENGGA---TALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFT  226 (382)
T ss_pred             ceEEEEeeccccccccH---HHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhh
Confidence            77777777776643322   2233344455677777776665432     1112336677777777777653

>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=98.37  E-value=3.9e-07  Score=70.73  Aligned_cols=57  Identities=25%  Similarity=0.319  Sum_probs=30.3

Q ss_pred             ccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCC
Q 042981          529 HLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGT  585 (876)
Q Consensus       529 ~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~  585 (876)
                      +|++|++++|.++.+|. .+.++++|++|++++|.....-|..|..+++|++|++++|
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            45555555555555553 4555556666666555322222334555666666666555

...

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

Probab=98.34  E-value=6.9e-08  Score=94.89  Aligned_cols=127  Identities=27%  Similarity=0.301  Sum_probs=85.1

Q ss_pred             CCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP  521 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp  521 (876)
                      ++.+..++++.|.+..+-++..-.|++|.|+++.|.      +.. ... +..+.+|..|||         ++|.+.++-
T Consensus       283 Wq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~------i~~-v~n-La~L~~L~~LDL---------S~N~Ls~~~  345 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQIDESVKLAPKLRRLILSQNR------IRT-VQN-LAELPQLQLLDL---------SGNLLAECV  345 (490)
T ss_pred             HhhhhhccccccchhhhhhhhhhccceeEEeccccc------eee-ehh-hhhcccceEeec---------ccchhHhhh
Confidence            566777788888777776777777788888886654      111 122 566777788888         555555554


Q ss_pred             cccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccc--cccccCcCCCceEecCCCCC
Q 042981          522 ENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLREL--PAGIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       522 ~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~l--p~~i~~L~~L~~L~l~~~~~  587 (876)
                      ..-.+|-+.+.|+|++|.|..+ +.+++|.+|..||+++| .+..+  -.+|++|+.|++|.+.+|++
T Consensus       346 Gwh~KLGNIKtL~La~N~iE~L-SGL~KLYSLvnLDl~~N-~Ie~ldeV~~IG~LPCLE~l~L~~NPl  411 (490)
T KOG1259|consen  346 GWHLKLGNIKTLKLAQNKIETL-SGLRKLYSLVNLDLSSN-QIEELDEVNHIGNLPCLETLRLTGNPL  411 (490)
T ss_pred             hhHhhhcCEeeeehhhhhHhhh-hhhHhhhhheecccccc-chhhHHHhcccccccHHHHHhhcCCCc
Confidence            4445566777788888877766 35777778888888777 34333  23577777777777777755

>PLN03150 hypothetical protein; Provisional

Probab=98.34  E-value=6.2e-07  Score=104.57  Aligned_cols=92  Identities=27%  Similarity=0.429  Sum_probs=78.1

Q ss_pred             cceEEecCccccccCCCCCccc-ccccccccCcccCeeeccCcccc-ccchhhccCCcccEEeecCCCCCccccccccCc
Q 042981          497 CFRALVIGQRNFIFDPYPNLIR-EIPENVRKLIHLKYLNLSELCIE-RLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL  574 (876)
Q Consensus       497 ~Lr~L~L~~~~~~~~~~~~~i~-~lp~~i~~L~~Lr~L~Ls~~~i~-~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L  574 (876)
                      .++.|+|         +++.+. .+|..+++|.+|++|+|++|.+. .+|..++.+++|++|+|++|.....+|..+++|
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  489 (623)
T PLN03150        419 FIDGLGL---------DNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQL  489 (623)
T ss_pred             EEEEEEC---------CCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcC
Confidence            4777888         445444 57888999999999999999987 888889999999999999997777899999999


Q ss_pred             CCCceEecCCCCCCccCCccCCC
Q 042981          575 KKMRSLLNGGTPLLKYMPIGISK  597 (876)
Q Consensus       575 ~~L~~L~l~~~~~~~~~p~~i~~  597 (876)
                      ++|++|++++|.+.+.+|..++.
T Consensus       490 ~~L~~L~Ls~N~l~g~iP~~l~~  512 (623)
T PLN03150        490 TSLRILNLNGNSLSGRVPAALGG  512 (623)
T ss_pred             CCCCEEECcCCcccccCChHHhh
Confidence            99999999999888888887754

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

Probab=98.32  E-value=1.3e-08  Score=99.88  Aligned_cols=111  Identities=22%  Similarity=0.248  Sum_probs=66.5

Q ss_pred             CcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCch----hhcccCCcEEEEecCCCCC--C
Q 042981          652 LHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKW----LTSLTNLRDLRLKSCVICE--H  725 (876)
Q Consensus       652 l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~----l~~l~~L~~L~L~~~~~~~--~  725 (876)
                      +.+|+.|.+|+|+|+.+...   ........  -.++|..|+++|+.-.-.-+.    ...+++|..|+|++|....  .
T Consensus       256 ~~scs~L~~LNlsWc~l~~~---~Vtv~V~h--ise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~  330 (419)
T KOG2120|consen  256 LSSCSRLDELNLSWCFLFTE---KVTVAVAH--ISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDC  330 (419)
T ss_pred             HHhhhhHhhcCchHhhccch---hhhHHHhh--hchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchH
Confidence            44566666666666654211   00111111  124677777777653322222    2378999999999997654  2


Q ss_pred             CCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeecccc
Q 042981          726 FPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAM  786 (876)
Q Consensus       726 lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~  786 (876)
                      +..+-+++ |++|.++.|..+  +++.+..                 +...|+|.+|++.+|
T Consensus       331 ~~~~~kf~~L~~lSlsRCY~i--~p~~~~~-----------------l~s~psl~yLdv~g~  373 (419)
T KOG2120|consen  331 FQEFFKFNYLQHLSLSRCYDI--IPETLLE-----------------LNSKPSLVYLDVFGC  373 (419)
T ss_pred             HHHHHhcchheeeehhhhcCC--ChHHeee-----------------eccCcceEEEEeccc
Confidence            33466789 999999999754  3344333                 345788888877776

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

Probab=98.30  E-value=2.6e-06  Score=88.29  Aligned_cols=123  Identities=25%  Similarity=0.361  Sum_probs=78.7

Q ss_pred             ccCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHH
Q 042981          121 IDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAN  200 (876)
Q Consensus       121 ~~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  200 (876)
                      +....++|-...+.++++         ...+.-+-+||++|+||||||+.+..  .....|     ..+|-.++-.+-.+
T Consensus        27 vGQ~HLlg~~~~lrr~v~---------~~~l~SmIl~GPPG~GKTTlA~liA~--~~~~~f-----~~~sAv~~gvkdlr   90 (436)
T COG2256          27 VGQEHLLGEGKPLRRAVE---------AGHLHSMILWGPPGTGKTTLARLIAG--TTNAAF-----EALSAVTSGVKDLR   90 (436)
T ss_pred             cChHhhhCCCchHHHHHh---------cCCCceeEEECCCCCCHHHHHHHHHH--hhCCce-----EEeccccccHHHHH
Confidence            334456666665555553         34677788999999999999999987  444444     34444443333344


Q ss_pred             HHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEE--EcCchHH---HHhhCCcceEeCCCCCccc
Q 042981          201 AIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILL--TTRNESV---ARMMGSTNIIFIEQLTEEE  261 (876)
Q Consensus       201 ~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iiv--TTR~~~v---~~~~~~~~~~~l~~L~~~~  261 (876)
                      .+++.              +|.|..-+..+-+.+   +|.-..|.-|+|  ||-|..-   ....+...+|++++|+.+|
T Consensus        91 ~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~d  167 (436)
T COG2256          91 EIIEEARKNRLLGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPALLSRARVFELKPLSSED  167 (436)
T ss_pred             HHHHHHHHHHhcCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHH
Confidence            44433              888876554444444   455556877777  7776632   2233457899999999988


Q ss_pred             c
Q 042981          262 S  262 (876)
Q Consensus       262 ~  262 (876)
                      -
T Consensus       168 i  168 (436)
T COG2256         168 I  168 (436)
T ss_pred             H
Confidence            6

>PRK06893 DNA replication initiation factor; Validated

Probab=98.29  E-value=3.7e-06  Score=85.16  Aligned_cols=138  Identities=18%  Similarity=0.203  Sum_probs=79.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCch-hHHHHHHHHHHh----ccccccCC-ccChhh-HHhh
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-EEIRVANAIIEG----LDDVWDGD-YNKWEP-FFHC  223 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~----lDdvw~~~-~~~~~~-l~~~  223 (876)
                      .+.+.|+|..|+|||+||+++++.  .......+.|+.+.... ...++...+-..    +||+|... ...|+. +...
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~dlLilDDi~~~~~~~~~~~~l~~l  116 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNH--YLLNQRTAIYIPLSKSQYFSPAVLENLEQQDLVCLDDLQAVIGNEEWELAIFDL  116 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEeeHHHhhhhhHHHHhhcccCCEEEEeChhhhcCChHHHHHHHHH
Confidence            357899999999999999999983  33334456777765311 111222222211    89999742 245664 4444


Q ss_pred             hccC-CCCCEEEEEcCc----------hHHHHhhCCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCC
Q 042981          224 LKHG-LHGSKILLTTRN----------ESVARMMGSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGL  288 (876)
Q Consensus       224 l~~~-~~gs~iivTTR~----------~~v~~~~~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~Gl  288 (876)
                      +... ..|+.|||||.+          .+++..++....++++++++++.  ++....  ..-.--.++..-|++++.|-
T Consensus       117 ~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~l~l~~~v~~~L~~~~~~d  196 (229)
T PRK06893        117 FNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRGIELSDEVANFLLKRLDRD  196 (229)
T ss_pred             HHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCC
Confidence            4432 246666555443          46666666678999999998876  221110  11111234555666666654


Q ss_pred             ch
Q 042981          289 PL  290 (876)
Q Consensus       289 Pl  290 (876)
                      .-
T Consensus       197 ~r  198 (229)
T PRK06893        197 MH  198 (229)
T ss_pred             HH
Confidence            43

>PF05729 NACHT: NACHT domain

Probab=98.28  E-value=2e-06  Score=82.83  Aligned_cols=111  Identities=21%  Similarity=0.320  Sum_probs=67.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCcccccc----CCeEEEEEeCCchhHH---HHHHHHHHh-------------------
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRN----FEKVIWVCVSDTFEEI---RVANAIIEG-------------------  205 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----F~~~~wv~vs~~~~~~---~~~~~i~~~-------------------  205 (876)
                      +++.|+|.+|+||||++++++.+..-...    +...+|+...+..+..   .+...+..+                   
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            57899999999999999998874322222    4566677665533322   222222221                   


Q ss_pred             ------ccc---cccCCcc----ChhhHH-hhhcc-CCCCCEEEEEcCchHH---HHhhCCcceEeCCCCCcccc
Q 042981          206 ------LDD---VWDGDYN----KWEPFF-HCLKH-GLHGSKILLTTRNESV---ARMMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       206 ------lDd---vw~~~~~----~~~~l~-~~l~~-~~~gs~iivTTR~~~v---~~~~~~~~~~~l~~L~~~~~  262 (876)
                            +|+   +......    .+..+. ..++. ...+.+|+||+|....   .........+++.++++++.
T Consensus        81 ~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~  155 (166)
T PF05729_consen   81 KRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDI  155 (166)
T ss_pred             CceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHH
Confidence                  444   4332211    233333 33333 3568999999998766   33344456899999998876

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

Probab=98.25  E-value=6.2e-08  Score=99.94  Aligned_cols=286  Identities=17%  Similarity=0.196  Sum_probs=142.9

Q ss_pred             ccCcccCeeeccCcc-cc--ccchhhccCCcccEEeecCCCCCccc--cccccCcCCCceEecCCCCCCccCCccCCCCC
Q 042981          525 RKLIHLKYLNLSELC-IE--RLPKTLCELYNLQKLDIRWCEDLREL--PAGIGKLKKMRSLLNGGTPLLKYMPIGISKLT  599 (876)
Q Consensus       525 ~~L~~Lr~L~Ls~~~-i~--~lp~~i~~L~~L~~L~L~~~~~l~~l--p~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~  599 (876)
                      .+++++..|++.++. |+  .+-..-..+++|+.|++..|..++..  -.-...+++|.+|+++.|.....        .
T Consensus       161 ~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~--------~  232 (483)
T KOG4341|consen  161 SNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKLKYLNLSWCPQISG--------N  232 (483)
T ss_pred             hhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhHHHhhhccCchhhc--------C
Confidence            456666666666664 22  11122234667777777766544432  11123566777777776632211        1


Q ss_pred             CCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHH
Q 042981          600 SLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQL  679 (876)
Q Consensus       600 ~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~  679 (876)
                      +++.+                   ......++.+...+|.....  +++...-..+..+..+++..+..     ......
T Consensus       233 gv~~~-------------------~rG~~~l~~~~~kGC~e~~l--e~l~~~~~~~~~i~~lnl~~c~~-----lTD~~~  286 (483)
T KOG4341|consen  233 GVQAL-------------------QRGCKELEKLSLKGCLELEL--EALLKAAAYCLEILKLNLQHCNQ-----LTDEDL  286 (483)
T ss_pred             cchHH-------------------hccchhhhhhhhcccccccH--HHHHHHhccChHhhccchhhhcc-----ccchHH
Confidence            22222                   11222244444444432211  11111112333445555443321     112223


Q ss_pred             HhhCCCCCCccEEEEeecCCC-CCCch-hh-cccCCcEEEEecCCCCCC--CCCCC-ccc-CceEeecCCCCceEeCccc
Q 042981          680 LEALQPPLNVKELGIVSYGGN-IFPKW-LT-SLTNLRDLRLKSCVICEH--FPPLG-KLP-LEKLTLYGLYGVKRVGNEF  752 (876)
Q Consensus       680 ~~~l~~~~~L~~L~l~~~~~~-~lp~~-l~-~l~~L~~L~L~~~~~~~~--lp~l~-~Lp-L~~L~L~~~~~l~~~~~~~  752 (876)
                      ...-.....|+.|..+++... ..+-| ++ +.++|+.|-++.|+..+.  +..++ .-+ |+.+++.+|......  .+
T Consensus       287 ~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~--tL  364 (483)
T KOG4341|consen  287 WLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDG--TL  364 (483)
T ss_pred             HHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhh--hH
Confidence            333334556777777665431 11111 22 567888888888874332  22233 234 777777665432211  12


Q ss_pred             ccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCC-CCCCCCCCCCC
Q 042981          753 LGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLR-VLPDYLFQSTT  831 (876)
Q Consensus       753 ~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~-~lp~~l~~l~~  831 (876)
                      ..                ....+|.|+.|.+++|....+-.+. .....-..+..|+.|.+++|+.+. ..-..+..+++
T Consensus       365 ~s----------------ls~~C~~lr~lslshce~itD~gi~-~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~  427 (483)
T KOG4341|consen  365 AS----------------LSRNCPRLRVLSLSHCELITDEGIR-HLSSSSCSLEGLEVLELDNCPLITDATLEHLSICRN  427 (483)
T ss_pred             hh----------------hccCCchhccCChhhhhhhhhhhhh-hhhhccccccccceeeecCCCCchHHHHHHHhhCcc
Confidence            21                1236888888888877655443110 001122367778888888887765 33345566788


Q ss_pred             ccEEEEecCCCchhhccccccCCCCCCCcCEEEE
Q 042981          832 LQKLSISYCPIMEELRILEDHRTTDIPRLSSLEI  865 (876)
Q Consensus       832 L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i  865 (876)
                      |+.+++.+|..+..-+...  +..++|++++...
T Consensus       428 Leri~l~~~q~vtk~~i~~--~~~~lp~i~v~a~  459 (483)
T KOG4341|consen  428 LERIELIDCQDVTKEAISR--FATHLPNIKVHAY  459 (483)
T ss_pred             cceeeeechhhhhhhhhHH--HHhhCccceehhh
Confidence            8888888887765533322  3456777666544

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

Probab=98.25  E-value=1.2e-05  Score=84.41  Aligned_cols=145  Identities=16%  Similarity=0.113  Sum_probs=84.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHHh-------------------------
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEG-------------------------  205 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~-------------------------  205 (876)
                      ..++.|+|+.|+||||+++.+++..... .+ ..+|+... ..+..++++.|...                         
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~-~~-~~~~~~~~-~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~  119 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQE-RV-VAAKLVNT-RVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQF  119 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCC-Ce-EEeeeeCC-CCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHH
Confidence            4578999999999999999999853311 11 22343322 12222222222111                         


Q ss_pred             ---------ccccccCCccChhhHHhhhcc---CCCCCEEEEEcCchHHHHhhC----------CcceEeCCCCCcccc-
Q 042981          206 ---------LDDVWDGDYNKWEPFFHCLKH---GLHGSKILLTTRNESVARMMG----------STNIIFIEQLTEEES-  262 (876)
Q Consensus       206 ---------lDdvw~~~~~~~~~l~~~l~~---~~~gs~iivTTR~~~v~~~~~----------~~~~~~l~~L~~~~~-  262 (876)
                               +||+|.-+...++.+......   ......|++|.... ....+.          ....+++++++.+|. 
T Consensus       120 ~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~  198 (269)
T TIGR03015       120 AAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREETR  198 (269)
T ss_pred             hCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHHHH
Confidence                     899988765566666533221   12222445555432 222211          134678999999987 


Q ss_pred             -ccCC----Cc-CCc-cchHHHHHHHHHHcCCCchHHHHhhhhh
Q 042981          263 -FSGR----SF-EDC-EKLEPIGRKIARKCKGLPLAAKATGNLL  299 (876)
Q Consensus       263 -~f~~----~~-~~~-~~l~~~~~~i~~~c~GlPlai~~~~~~L  299 (876)
                       ++..    .. ... .--.+..+.|++.++|.|..|..++..+
T Consensus       199 ~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       199 EYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence             2211    11 111 2235788999999999999999998776

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.

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

Probab=98.23  E-value=1.4e-06  Score=67.64  Aligned_cols=58  Identities=28%  Similarity=0.415  Sum_probs=50.6

Q ss_pred             CcceEEecCccccccCCCCCcccccc-cccccCcccCeeeccCccccccch-hhccCCcccEEeecCCC
Q 042981          496 ACFRALVIGQRNFIFDPYPNLIREIP-ENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCE  562 (876)
Q Consensus       496 ~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~  562 (876)
                      ++|++|++         ++|.+..+| ..+.++++|++|++++|.++.+|+ .|.++++|++|++++|.
T Consensus         1 p~L~~L~l---------~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDL---------SNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEE---------TSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEEC---------CCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            46889999         788888888 467899999999999999998875 68999999999999984

...

>PLN03150 hypothetical protein; Provisional

Probab=98.22  E-value=2.2e-06  Score=100.07  Aligned_cols=108  Identities=24%  Similarity=0.268  Sum_probs=87.5

Q ss_pred             cceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccc-ccccccccCcccCeeeccCcccc-ccc
Q 042981          467 RLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR-EIPENVRKLIHLKYLNLSELCIE-RLP  544 (876)
Q Consensus       467 ~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~-~lp~~i~~L~~Lr~L~Ls~~~i~-~lp  544 (876)
                      .++.|.+.++.     +.+.++.. +..+++|+.|+|         ++|.+. .+|..++.+.+|++|+|++|.++ .+|
T Consensus       419 ~v~~L~L~~n~-----L~g~ip~~-i~~L~~L~~L~L---------s~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP  483 (623)
T PLN03150        419 FIDGLGLDNQG-----LRGFIPND-ISKLRHLQSINL---------SGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIP  483 (623)
T ss_pred             EEEEEECCCCC-----ccccCCHH-HhCCCCCCEEEC---------CCCcccCcCChHHhCCCCCCEEECCCCCCCCCCc
Confidence            46778886554     33444444 789999999999         566554 68889999999999999999998 889


Q ss_pred             hhhccCCcccEEeecCCCCCccccccccCc-CCCceEecCCCCCCc
Q 042981          545 KTLCELYNLQKLDIRWCEDLRELPAGIGKL-KKMRSLLNGGTPLLK  589 (876)
Q Consensus       545 ~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L-~~L~~L~l~~~~~~~  589 (876)
                      ..+++|++|++|+|++|...+.+|..+..+ .++..+++.+|..+.
T Consensus       484 ~~l~~L~~L~~L~Ls~N~l~g~iP~~l~~~~~~~~~l~~~~N~~lc  529 (623)
T PLN03150        484 ESLGQLTSLRILNLNGNSLSGRVPAALGGRLLHRASFNFTDNAGLC  529 (623)
T ss_pred             hHHhcCCCCCEEECcCCcccccCChHHhhccccCceEEecCCcccc
Confidence            999999999999999998778999988764 567888888885433

>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=98.13  E-value=3.9e-06  Score=86.02  Aligned_cols=43  Identities=33%  Similarity=0.282  Sum_probs=34.9

Q ss_pred             eeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          126 VCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       126 ~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |+||+++.++|.+++..+      ..+.+.|+|..|+|||+|++++.+.
T Consensus         1 F~gR~~el~~l~~~l~~~------~~~~~~l~G~rg~GKTsLl~~~~~~   43 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG------PSQHILLYGPRGSGKTSLLKEFINE   43 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--------SSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhh------cCcEEEEEcCCcCCHHHHHHHHHHH
Confidence            689999999999988753      3477889999999999999999873

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

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.08  E-value=2.1e-05  Score=84.10  Aligned_cols=164  Identities=16%  Similarity=0.199  Sum_probs=110.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC----ccccccCCeEEEEE-eCCchhHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN----DEVKRNFEKVIWVC-VSDTFEEIRV  198 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~----~~~~~~F~~~~wv~-vs~~~~~~~~  198 (876)
                      .+++|.+..++.+..++..+     .-.+..-++|+.|+||||+|+.+++.    .....|.|...|.. -+.......+
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~-----~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~i   78 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKN-----RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDI   78 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcC-----CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHH
Confidence            46889888889998888643     23467789999999999999988862    12345667766665 3344444443


Q ss_pred             HHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchHHH-Hh-hCCcceEeCCCCCcccc
Q 042981          199 ANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVA-RM-MGSTNIIFIEQLTEEES  262 (876)
Q Consensus       199 ~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~v~-~~-~~~~~~~~l~~L~~~~~  262 (876)
                       +++.+.              +|++..-+...|+.++..+.....++.+|++|.+.+.. .. .+....+++.++++++.
T Consensus        79 -r~~~~~~~~~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~  157 (313)
T PRK05564         79 -RNIIEEVNKKPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEI  157 (313)
T ss_pred             -HHHHHHHhcCcccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHH
Confidence             333332              77776656678999999999888899999998765422 11 22357999999999987


Q ss_pred             --ccCCCcCCccchHHHHHHHHHHcCCCchHHHHh
Q 042981          263 --FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKAT  295 (876)
Q Consensus       263 --~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~  295 (876)
                        +......  .--.+.+..++..++|.|..+...
T Consensus       158 ~~~l~~~~~--~~~~~~~~~l~~~~~g~~~~a~~~  190 (313)
T PRK05564        158 EKFISYKYN--DIKEEEKKSAIAFSDGIPGKVEKF  190 (313)
T ss_pred             HHHHHHHhc--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence              2221110  111334667889999988765433

>PF13173 AAA_14: AAA domain

Probab=98.08  E-value=1.1e-05  Score=73.47  Aligned_cols=106  Identities=24%  Similarity=0.254  Sum_probs=72.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHH----HHHHHHHh---------ccccccCCccCh
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR----VANAIIEG---------LDDVWDGDYNKW  217 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~----~~~~i~~~---------lDdvw~~~~~~~  217 (876)
                      -+++.|.|+.|+|||||+++++++..   ....++++...+......    +.+.+.+.         +|+|-..  ..|
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iDEiq~~--~~~   76 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPDLLEYFLELIKPGKKYIFIDEIQYL--PDW   76 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhhhHHHHHHhhccCCcEEEEehhhhh--ccH
Confidence            36899999999999999999987422   335677887776544321    12222221         7888544  478


Q ss_pred             hhHHhhhccCCCCCEEEEEcCchHHHHhh------CCcceEeCCCCCccc
Q 042981          218 EPFFHCLKHGLHGSKILLTTRNESVARMM------GSTNIIFIEQLTEEE  261 (876)
Q Consensus       218 ~~l~~~l~~~~~gs~iivTTR~~~v~~~~------~~~~~~~l~~L~~~~  261 (876)
                      ......+-+.....+|++|+.+......-      |....+++.||+..|
T Consensus        77 ~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E  126 (128)
T PF13173_consen   77 EDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFRE  126 (128)
T ss_pred             HHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHH
Confidence            88777776665678999999987766431      234577888888765

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.05  E-value=1.1e-05  Score=86.21  Aligned_cols=62  Identities=24%  Similarity=0.316  Sum_probs=30.7

Q ss_pred             CcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCc
Q 042981          527 LIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPI  593 (876)
Q Consensus       527 L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~  593 (876)
                      +.++++|++++|.++.+|.   -..+|++|.+++|..+..+|..+  .++|++|++++|..+..+|.
T Consensus        51 ~~~l~~L~Is~c~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP~  112 (426)
T PRK15386         51 ARASGRLYIKDCDIESLPV---LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLPE  112 (426)
T ss_pred             hcCCCEEEeCCCCCcccCC---CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCccccccccc
Confidence            3455555555555555551   12245555555555555555433  23555566555533344443

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.05  E-value=3.4e-05  Score=85.68  Aligned_cols=159  Identities=21%  Similarity=0.227  Sum_probs=90.0

Q ss_pred             CceeeccchHHH---HHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCC--chhHHHH
Q 042981          124 GEVCGRVDEKNE---LLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSD--TFEEIRV  198 (876)
Q Consensus       124 ~~~vGr~~~~~~---i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~--~~~~~~~  198 (876)
                      +++||.+..++.   +..++..      .....+.|+|++|+||||+|+.+++.  ....|..   +..+.  .-+.+.+
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~------~~~~~ilL~GppGtGKTtLA~~ia~~--~~~~~~~---l~a~~~~~~~ir~i   80 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEA------GRLSSMILWGPPGTGKTTLARIIAGA--TDAPFEA---LSAVTSGVKDLREV   80 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHc------CCCceEEEECCCCCCHHHHHHHHHHH--hCCCEEE---EecccccHHHHHHH
Confidence            357777766544   5555542      24557788999999999999999973  3333321   11111  1122333


Q ss_pred             HHHHHH-----h-----ccccccCCccChhhHHhhhccCCCCCEEEE--EcCchH--HH-HhhCCcceEeCCCCCcccc-
Q 042981          199 ANAIIE-----G-----LDDVWDGDYNKWEPFFHCLKHGLHGSKILL--TTRNES--VA-RMMGSTNIIFIEQLTEEES-  262 (876)
Q Consensus       199 ~~~i~~-----~-----lDdvw~~~~~~~~~l~~~l~~~~~gs~iiv--TTR~~~--v~-~~~~~~~~~~l~~L~~~~~-  262 (876)
                      ......     .     +|++|.-+....+.+...+..   |..++|  ||.+..  +. ...+....+++.+++.++. 
T Consensus        81 i~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~  157 (413)
T PRK13342         81 IEEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIE  157 (413)
T ss_pred             HHHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHH
Confidence            333211     1     899987655555556555543   555555  344432  21 1223347899999999887 


Q ss_pred             -ccCCC----cCCc-cchHHHHHHHHHHcCCCchHHHHhh
Q 042981          263 -FSGRS----FEDC-EKLEPIGRKIARKCKGLPLAAKATG  296 (876)
Q Consensus       263 -~f~~~----~~~~-~~l~~~~~~i~~~c~GlPlai~~~~  296 (876)
                       ++...    .... +--.+....|++.|+|-+..+..+-
T Consensus       158 ~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~L  197 (413)
T PRK13342        158 QLLKRALEDKERGLVELDDEALDALARLANGDARRALNLL  197 (413)
T ss_pred             HHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHH
Confidence             22211    0011 2234567788889999886654433

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=98.03  E-value=8.3e-06  Score=79.10  Aligned_cols=166  Identities=23%  Similarity=0.280  Sum_probs=84.5

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEE---eCCchhHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVC---VSDTFEEIRVAN  200 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~---vs~~~~~~~~~~  200 (876)
                      +++||.+.-++.+.-++..... .++.+.-+-+||++|+||||||+.+.+  +....|.   +++   +....+...++.
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~-r~~~l~h~lf~GPPG~GKTTLA~IIA~--e~~~~~~---~~sg~~i~k~~dl~~il~   97 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKK-RGEALDHMLFYGPPGLGKTTLARIIAN--ELGVNFK---ITSGPAIEKAGDLAAILT   97 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHC-TTS---EEEEESSTTSSHHHHHHHHHH--HCT--EE---EEECCC--SCHHHHHHHH
T ss_pred             HHccCcHHHHhhhHHHHHHHHh-cCCCcceEEEECCCccchhHHHHHHHh--ccCCCeE---eccchhhhhHHHHHHHHH
Confidence            5799988877776544432211 023577788999999999999999998  5555553   222   233344444444


Q ss_pred             HHHHh----ccccccCCccChhhHHhhhccCC--------CC-----------CEEEEEcCchHHHHhhCC--cceEeCC
Q 042981          201 AIIEG----LDDVWDGDYNKWEPFFHCLKHGL--------HG-----------SKILLTTRNESVARMMGS--TNIIFIE  255 (876)
Q Consensus       201 ~i~~~----lDdvw~~~~~~~~~l~~~l~~~~--------~g-----------s~iivTTR~~~v~~~~~~--~~~~~l~  255 (876)
                      .+-+.    +|.+..-+...-+.+..++-++.        .+           +-|=-|||...+..-+..  .-+.+++
T Consensus        98 ~l~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLrdRFgi~~~l~  177 (233)
T PF05496_consen   98 NLKEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLRDRFGIVLRLE  177 (233)
T ss_dssp             T--TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCCTTSSEEEE--
T ss_pred             hcCCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccchhHHhhcceecchh
Confidence            43222    78886655444445555554421        11           123347776544433322  1244788


Q ss_pred             CCCcccc---ccCCCc-CCccchHHHHHHHHHHcCCCchHHHHh
Q 042981          256 QLTEEES---FSGRSF-EDCEKLEPIGRKIARKCKGLPLAAKAT  295 (876)
Q Consensus       256 ~L~~~~~---~f~~~~-~~~~~l~~~~~~i~~~c~GlPlai~~~  295 (876)
                      ..+.+|-   +-.... -..+--.+.+.+|+++|.|-|--+.-+
T Consensus       178 ~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrGtPRiAnrl  221 (233)
T PF05496_consen  178 FYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRGTPRIANRL  221 (233)
T ss_dssp             --THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTTSHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCCChHHHHHH
Confidence            8887776   111111 112233567899999999999654433

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.

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

Probab=98.02  E-value=3.7e-07  Score=94.33  Aligned_cols=306  Identities=19%  Similarity=0.173  Sum_probs=155.3

Q ss_pred             CcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccccc-ccCcccCeeeccCcc-ccc-
Q 042981          466 NRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENV-RKLIHLKYLNLSELC-IER-  542 (876)
Q Consensus       466 ~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i-~~L~~Lr~L~Ls~~~-i~~-  542 (876)
                      ..||.|.+.++.    .....-...+...++++..|.+..+....+.       .-.++ ..+..|++|+|..|. |+. 
T Consensus       138 g~lk~LSlrG~r----~v~~sslrt~~~~CpnIehL~l~gc~~iTd~-------s~~sla~~C~~l~~l~L~~c~~iT~~  206 (483)
T KOG4341|consen  138 GFLKELSLRGCR----AVGDSSLRTFASNCPNIEHLALYGCKKITDS-------SLLSLARYCRKLRHLNLHSCSSITDV  206 (483)
T ss_pred             cccccccccccc----cCCcchhhHHhhhCCchhhhhhhcceeccHH-------HHHHHHHhcchhhhhhhcccchhHHH
Confidence            457778887765    1122334455677888888887332211110       11122 456788888887743 442 


Q ss_pred             -cchhhccCCcccEEeecCCCCCcc--ccccccCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccc
Q 042981          543 -LPKTLCELYNLQKLDIRWCEDLRE--LPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTC  619 (876)
Q Consensus       543 -lp~~i~~L~~L~~L~L~~~~~l~~--lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~  619 (876)
                       +-.-...+++|.+|+++.|..+..  +-.-...+.+|+.+.+.||.   ..        .|+.|....           
T Consensus       207 ~Lk~la~gC~kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~---e~--------~le~l~~~~-----------  264 (483)
T KOG4341|consen  207 SLKYLAEGCRKLKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCL---EL--------ELEALLKAA-----------  264 (483)
T ss_pred             HHHHHHHhhhhHHHhhhccCchhhcCcchHHhccchhhhhhhhcccc---cc--------cHHHHHHHh-----------
Confidence             212244678888888888864433  11112233334444443431   11        111110000           


Q ss_pred             cccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhC-CCCCCccEEEEeecC
Q 042981          620 RLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEAL-QPPLNVKELGIVSYG  698 (876)
Q Consensus       620 ~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l-~~~~~L~~L~l~~~~  698 (876)
                           .....+-++++..+..+++..  ....-.++..|+.|..+.+...      ....+..+ ....+|+.|.+.++.
T Consensus       265 -----~~~~~i~~lnl~~c~~lTD~~--~~~i~~~c~~lq~l~~s~~t~~------~d~~l~aLg~~~~~L~~l~l~~c~  331 (483)
T KOG4341|consen  265 -----AYCLEILKLNLQHCNQLTDED--LWLIACGCHALQVLCYSSCTDI------TDEVLWALGQHCHNLQVLELSGCQ  331 (483)
T ss_pred             -----ccChHhhccchhhhccccchH--HHHHhhhhhHhhhhcccCCCCC------chHHHHHHhcCCCceEEEeccccc
Confidence                 011112222332332222221  1111235667777777665432      22233333 345688888887765


Q ss_pred             CCC-C-Cchhh-cccCCcEEEEecCCCCC--CCCCCC-ccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcc
Q 042981          699 GNI-F-PKWLT-SLTNLRDLRLKSCVICE--HFPPLG-KLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSS  771 (876)
Q Consensus       699 ~~~-l-p~~l~-~l~~L~~L~L~~~~~~~--~lp~l~-~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~  771 (876)
                      .-. . -..++ +.+.|+.+++..|....  .+-.+. ..| |+.|.|++|..+...+......               .
T Consensus       332 ~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~~---------------~  396 (483)
T KOG4341|consen  332 QFSDRGFTMLGRNCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLSS---------------S  396 (483)
T ss_pred             hhhhhhhhhhhcCChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhhh---------------c
Confidence            211 0 11122 56788888888876533  222222 346 8888888777554432221111               1


Q ss_pred             cccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCC--CCCCCCCCCCccEEEE
Q 042981          772 VIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRV--LPDYLFQSTTLQKLSI  837 (876)
Q Consensus       772 ~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~--lp~~l~~l~~L~~L~l  837 (876)
                      ..+...|+.|.+++|+...+-..     +.+..+++|+.+++-+|.....  +-..-.++|+++...+
T Consensus       397 ~c~~~~l~~lEL~n~p~i~d~~L-----e~l~~c~~Leri~l~~~q~vtk~~i~~~~~~lp~i~v~a~  459 (483)
T KOG4341|consen  397 SCSLEGLEVLELDNCPLITDATL-----EHLSICRNLERIELIDCQDVTKEAISRFATHLPNIKVHAY  459 (483)
T ss_pred             cccccccceeeecCCCCchHHHH-----HHHhhCcccceeeeechhhhhhhhhHHHHhhCccceehhh
Confidence            23566788888888876665443     3455778888888888866552  2223455666665544

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

Probab=98.01  E-value=9.8e-07  Score=98.37  Aligned_cols=100  Identities=29%  Similarity=0.378  Sum_probs=63.3

Q ss_pred             hccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccc
Q 042981          492 FSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGI  571 (876)
Q Consensus       492 ~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i  571 (876)
                      +..+++|..|++         .+|.+..+...+..+.+|++|+|++|.|+.+.. +..+..|+.|++.+| .+..++ .+
T Consensus        91 l~~~~~l~~l~l---------~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~~-l~~l~~L~~L~l~~N-~i~~~~-~~  158 (414)
T KOG0531|consen   91 LSKLKSLEALDL---------YDNKIEKIENLLSSLVNLQVLDLSFNKITKLEG-LSTLTLLKELNLSGN-LISDIS-GL  158 (414)
T ss_pred             cccccceeeeec---------cccchhhcccchhhhhcchheeccccccccccc-hhhccchhhheeccC-cchhcc-CC
Confidence            456677777777         666666665556677777777777777776643 666677777777777 444443 35


Q ss_pred             cCcCCCceEecCCCCCCccCCcc-CCCCCCCCcc
Q 042981          572 GKLKKMRSLLNGGTPLLKYMPIG-ISKLTSLRTL  604 (876)
Q Consensus       572 ~~L~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L  604 (876)
                      ..+++|+.+++++|.+...-+ . ...+.+|+.+
T Consensus       159 ~~l~~L~~l~l~~n~i~~ie~-~~~~~~~~l~~l  191 (414)
T KOG0531|consen  159 ESLKSLKLLDLSYNRIVDIEN-DELSELISLEEL  191 (414)
T ss_pred             ccchhhhcccCCcchhhhhhh-hhhhhccchHHH
Confidence            557777777777775532222 1 2444555544

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

Probab=97.97  E-value=2e-05  Score=80.09  Aligned_cols=108  Identities=26%  Similarity=0.328  Sum_probs=73.0

Q ss_pred             CCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHHh---------------ccccccC
Q 042981          148 QKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEG---------------LDDVWDG  212 (876)
Q Consensus       148 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~---------------lDdvw~~  212 (876)
                      ++.+.-+.+||++|+||||||+.+.+..+-..    ..||..|-+-.-..-.++|+++               +|.|..-
T Consensus       159 q~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRF  234 (554)
T KOG2028|consen  159 QNRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRF  234 (554)
T ss_pred             cCCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhh
Confidence            34677888999999999999999998543322    5577776654444444555544               7888654


Q ss_pred             CccChhhHHhhhccCCCCCEEEE--EcCchHH---HHhhCCcceEeCCCCCcccc
Q 042981          213 DYNKWEPFFHCLKHGLHGSKILL--TTRNESV---ARMMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       213 ~~~~~~~l~~~l~~~~~gs~iiv--TTR~~~v---~~~~~~~~~~~l~~L~~~~~  262 (876)
                      +..+-+.   .+|.-.+|+-++|  ||.+..-   +.......++.+++|+.++-
T Consensus       235 NksQQD~---fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v  286 (554)
T KOG2028|consen  235 NKSQQDT---FLPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAV  286 (554)
T ss_pred             hhhhhhc---ccceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHH
Confidence            3222222   4677777887776  7777642   33345678999999998876

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.93  E-value=3.7e-05  Score=78.21  Aligned_cols=125  Identities=22%  Similarity=0.291  Sum_probs=70.6

Q ss_pred             cchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhH-HHHHHHHHHh---
Q 042981          130 VDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE-IRVANAIIEG---  205 (876)
Q Consensus       130 ~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~-~~~~~~i~~~---  205 (876)
                      +..++.+..++..      .....|.|+|..|+||||||+++++.  ........+++.++.-.+. ..+...+-..   
T Consensus        23 ~~~~~~l~~~~~~------~~~~~lll~G~~G~GKT~la~~~~~~--~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~lL   94 (226)
T TIGR03420        23 AELLAALRQLAAG------KGDRFLYLWGESGSGKSHLLQAACAA--AEERGKSAIYLPLAELAQADPEVLEGLEQADLV   94 (226)
T ss_pred             HHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHH--HHhcCCcEEEEeHHHHHHhHHHHHhhcccCCEE
Confidence            3455666665432      24467889999999999999999973  3333445566665543221 1222211111   


Q ss_pred             -ccccccCCcc-Ch-hhHHhhhcc-CCCCCEEEEEcCchH---------HHHhhCCcceEeCCCCCcccc
Q 042981          206 -LDDVWDGDYN-KW-EPFFHCLKH-GLHGSKILLTTRNES---------VARMMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       206 -lDdvw~~~~~-~~-~~l~~~l~~-~~~gs~iivTTR~~~---------v~~~~~~~~~~~l~~L~~~~~  262 (876)
                       +||+..-... .| +.+...+.. ...+.+||+||+...         +...+.....+++.++++++.
T Consensus        95 vIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~  164 (226)
T TIGR03420        95 CLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEK  164 (226)
T ss_pred             EEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHH
Confidence             7888654322 23 335444432 123457899887532         222332345788888887554

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.

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

Probab=97.92  E-value=1.5e-06  Score=96.83  Aligned_cols=191  Identities=32%  Similarity=0.390  Sum_probs=115.1

Q ss_pred             cCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccC
Q 042981          494 KLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGK  573 (876)
Q Consensus       494 ~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~  573 (876)
                      .+..+..+.+         ..+.+..+-..++.+.+|.+|++.+|.|..+...+..+++|++|++++| .+..+. .+..
T Consensus        70 ~l~~l~~l~l---------~~n~i~~~~~~l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N-~I~~i~-~l~~  138 (414)
T KOG0531|consen   70 SLTSLKELNL---------RQNLIAKILNHLSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFN-KITKLE-GLST  138 (414)
T ss_pred             HhHhHHhhcc---------chhhhhhhhcccccccceeeeeccccchhhcccchhhhhcchheecccc-cccccc-chhh
Confidence            4556666667         6666666556678899999999999999988777889999999999999 566664 3788


Q ss_pred             cCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccccccc-----cccCCCCCCeeeeCcCCCCCcchhh
Q 042981          574 LKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLES-----LKNLQLLRECGIEGLSNVSHLDEDE  648 (876)
Q Consensus       574 L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~-----L~~L~~L~~L~l~~~~~~~~~~~~~  648 (876)
                      ++.|+.|++.+|.+ ..+ .++..+++|+.+          +++.+.+..     +..+..++.+.+.+...    ..  
T Consensus       139 l~~L~~L~l~~N~i-~~~-~~~~~l~~L~~l----------~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i----~~--  200 (414)
T KOG0531|consen  139 LTLLKELNLSGNLI-SDI-SGLESLKSLKLL----------DLSYNRIVDIENDELSELISLEELDLGGNSI----RE--  200 (414)
T ss_pred             ccchhhheeccCcc-hhc-cCCccchhhhcc----------cCCcchhhhhhhhhhhhccchHHHhccCCch----hc--
Confidence            88899999999966 222 345556666666          333443332     24445555555554211    10  


Q ss_pred             hccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCC--ccEEEEeecCCCCCCchhhcccCCcEEEEecCCC
Q 042981          649 RLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLN--VKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVI  722 (876)
Q Consensus       649 ~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~--L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~  722 (876)
                      ...+..+..+..+++..|.+.         .++.+.....  |+.+.+.++.....+..+..+.++..|++.++++
T Consensus       201 i~~~~~~~~l~~~~l~~n~i~---------~~~~l~~~~~~~L~~l~l~~n~i~~~~~~~~~~~~l~~l~~~~n~~  267 (414)
T KOG0531|consen  201 IEGLDLLKKLVLLSLLDNKIS---------KLEGLNELVMLHLRELYLSGNRISRSPEGLENLKNLPVLDLSSNRI  267 (414)
T ss_pred             ccchHHHHHHHHhhcccccce---------eccCcccchhHHHHHHhcccCccccccccccccccccccchhhccc
Confidence            111223333444444444331         1111222222  5566666666555444455556666666666554

>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=97.91  E-value=1.3e-05  Score=56.77  Aligned_cols=39  Identities=31%  Similarity=0.431  Sum_probs=25.6

Q ss_pred             cccCeeeccCccccccchhhccCCcccEEeecCCCCCccc
Q 042981          528 IHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLREL  567 (876)
Q Consensus       528 ~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~l  567 (876)
                      ++|++|++++|.|+.+|..+++|++|++|++++| .+..+
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N-~i~~i   39 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNN-PISDI   39 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSS-CCSBE
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCC-CCCCC
Confidence            3577777777777777777777777777777777 34443

...

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.90  E-value=1.1e-05  Score=84.97  Aligned_cols=51  Identities=22%  Similarity=0.089  Sum_probs=43.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCch--hHHHHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF--EEIRVANAII  203 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~~~~~i~  203 (876)
                      +...|+|++|+||||||++||++.... +|+.++||.+++.+  ++.++++.|.
T Consensus       170 QR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIl  222 (416)
T PRK09376        170 QRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVK  222 (416)
T ss_pred             ceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhc
Confidence            567899999999999999999965444 89999999999987  6677777764

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.89  E-value=3.8e-05  Score=72.05  Aligned_cols=107  Identities=21%  Similarity=0.200  Sum_probs=64.4

Q ss_pred             eeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHH---
Q 042981          127 CGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAII---  203 (876)
Q Consensus       127 vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~---  203 (876)
                      +|++..++.+...+...      ..+.+.|+|.+|+||||+|+++++.  ....-..++++..++..........+.   
T Consensus         1 ~~~~~~~~~i~~~~~~~------~~~~v~i~G~~G~GKT~l~~~i~~~--~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~   72 (151)
T cd00009           1 VGQEEAIEALREALELP------PPKNLLLYGPPGTGKTTLARAIANE--LFRPGAPFLYLNASDLLEGLVVAELFGHFL   72 (151)
T ss_pred             CchHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHH--hhcCCCCeEEEehhhhhhhhHHHHHhhhhh
Confidence            36778888888877642      3467889999999999999999984  222223466666665443322221111   


Q ss_pred             ----Hh-----------ccccccCCccChhhHHhhhccC------CCCCEEEEEcCchH
Q 042981          204 ----EG-----------LDDVWDGDYNKWEPFFHCLKHG------LHGSKILLTTRNES  241 (876)
Q Consensus       204 ----~~-----------lDdvw~~~~~~~~~l~~~l~~~------~~gs~iivTTR~~~  241 (876)
                          ..           +||++.........+...+...      ..+.+||+||....
T Consensus        73 ~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          73 VRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             HhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                00           8999753212223333333332      35778888887643

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

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

Probab=97.87  E-value=8.4e-07  Score=87.52  Aligned_cols=160  Identities=20%  Similarity=0.250  Sum_probs=102.4

Q ss_pred             CcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCC---CCchhhcccCCcEEEEecCCCCCCCCC
Q 042981          652 LHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNI---FPKWLTSLTNLRDLRLKSCVICEHFPP  728 (876)
Q Consensus       652 l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~---lp~~l~~l~~L~~L~L~~~~~~~~lp~  728 (876)
                      ++.|++|+.|+|.++.+       ++.+...+....+|+.|+++++.|-.   +.--+.+++.|..|+|++|.+....-.
T Consensus       206 Ls~C~kLk~lSlEg~~L-------dD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vt  278 (419)
T KOG2120|consen  206 LSQCSKLKNLSLEGLRL-------DDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVT  278 (419)
T ss_pred             HHHHHhhhhcccccccc-------CcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhh
Confidence            45566666666666655       23344445555677777777665532   112244889999999999987553211


Q ss_pred             --CCcc-c-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCc
Q 042981          729 --LGKL-P-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISI  804 (876)
Q Consensus       729 --l~~L-p-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~  804 (876)
                        .... + |+.|+|+++...-... .+..                ....+|+|..|+|+++..++.-.+     ..+..
T Consensus       279 v~V~hise~l~~LNlsG~rrnl~~s-h~~t----------------L~~rcp~l~~LDLSD~v~l~~~~~-----~~~~k  336 (419)
T KOG2120|consen  279 VAVAHISETLTQLNLSGYRRNLQKS-HLST----------------LVRRCPNLVHLDLSDSVMLKNDCF-----QEFFK  336 (419)
T ss_pred             HHHhhhchhhhhhhhhhhHhhhhhh-HHHH----------------HHHhCCceeeeccccccccCchHH-----HHHHh
Confidence              2223 4 8888888865321111 1111                123689999999999887776333     45668


Q ss_pred             ccccceeeeccCccCCCCCC---CCCCCCCccEEEEecCCC
Q 042981          805 MPRLSSLTIWYCPRLRVLPD---YLFQSTTLQKLSISYCPI  842 (876)
Q Consensus       805 l~~L~~L~l~~c~~l~~lp~---~l~~l~~L~~L~l~~~~~  842 (876)
                      |+.|++|.++.|..+.  |.   .+...|+|.+|++.+|-.
T Consensus       337 f~~L~~lSlsRCY~i~--p~~~~~l~s~psl~yLdv~g~vs  375 (419)
T KOG2120|consen  337 FNYLQHLSLSRCYDII--PETLLELNSKPSLVYLDVFGCVS  375 (419)
T ss_pred             cchheeeehhhhcCCC--hHHeeeeccCcceEEEEeccccC
Confidence            9999999999996543  32   356678999999999843

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

Probab=97.84  E-value=2.4e-05  Score=79.34  Aligned_cols=51  Identities=24%  Similarity=0.078  Sum_probs=44.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCc--hhHHHHHHHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT--FEEIRVANAI  202 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~~~~~i  202 (876)
                      -..++|+|.+|+|||||++++|++.... +|+.++|+++++.  +++.++++.+
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I   68 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSV   68 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHh
Confidence            4678999999999999999999965444 8999999998877  8899999988

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.

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.83  E-value=4.7e-06  Score=82.36  Aligned_cols=57  Identities=26%  Similarity=0.446  Sum_probs=30.7

Q ss_pred             CcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCC------CCCCCCccEEE
Q 042981          775 FPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDY------LFQSTTLQKLS  836 (876)
Q Consensus       775 ~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~------l~~l~~L~~L~  836 (876)
                      ||.+-.|.+... ++.+|..    .+.+..||.|.-|.++++|....+-.+      +..+++++.|+
T Consensus       223 ~p~~~~LnL~~~-~idswas----vD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llIaRL~~v~vLN  285 (418)
T KOG2982|consen  223 FPSLSCLNLGAN-NIDSWAS----VDALNGFPQLVDLRVSENPLSDPLRGGERRFLLIARLTKVQVLN  285 (418)
T ss_pred             CCcchhhhhccc-ccccHHH----HHHHcCCchhheeeccCCcccccccCCcceEEEEeeccceEEec
Confidence            444444444433 3444433    345556777777777777766544321      34456666554

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.80  E-value=0.00011  Score=78.59  Aligned_cols=57  Identities=23%  Similarity=0.463  Sum_probs=34.8

Q ss_pred             cccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCC-CcCEEEEccCCCC
Q 042981          806 PRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIP-RLSSLEIEYCPKL  871 (876)
Q Consensus       806 ~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp-~L~~L~i~~c~~L  871 (876)
                      ++|+.|.+++|..+ .+|..+  ..+|+.|+++.|... .+..    ....+| ++ .|.+.+|-++
T Consensus       156 sSLk~L~Is~c~~i-~LP~~L--P~SLk~L~ls~n~~~-sLeI----~~~sLP~nl-~L~f~n~lkL  213 (426)
T PRK15386        156 PSLKTLSLTGCSNI-ILPEKL--PESLQSITLHIEQKT-TWNI----SFEGFPDGL-DIDLQNSVLL  213 (426)
T ss_pred             CcccEEEecCCCcc-cCcccc--cccCcEEEecccccc-cccC----ccccccccc-Eechhhhccc
Confidence            68999999998654 455544  268899998876321 1111    122343 55 7777777544

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=97.80  E-value=0.0003  Score=80.15  Aligned_cols=259  Identities=18%  Similarity=0.202  Sum_probs=142.0

Q ss_pred             HHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCch-hHHHHHHHHHHh------
Q 042981          133 KNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-EEIRVANAIIEG------  205 (876)
Q Consensus       133 ~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~------  205 (876)
                      +.++++.|...     .+.+++-|..++|.|||||+-+...  +.. .=..++|.+.++.- +..++..-++..      
T Consensus        24 R~rL~~~L~~~-----~~~RL~li~APAGfGKttl~aq~~~--~~~-~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p   95 (894)
T COG2909          24 RPRLLDRLRRA-----NDYRLILISAPAGFGKTTLLAQWRE--LAA-DGAAVAWLSLDESDNDPARFLSYLIAALQQATP   95 (894)
T ss_pred             cHHHHHHHhcC-----CCceEEEEeCCCCCcHHHHHHHHHH--hcC-cccceeEeecCCccCCHHHHHHHHHHHHHHhCc
Confidence            45577777643     3689999999999999999988864  221 22468999987653 233333222222      


Q ss_pred             ---------------------------------------ccccccCCccChhh-HHhhhccCCCCCEEEEEcCchH---H
Q 042981          206 ---------------------------------------LDDVWDGDYNKWEP-FFHCLKHGLHGSKILLTTRNES---V  242 (876)
Q Consensus       206 ---------------------------------------lDdvw~~~~~~~~~-l~~~l~~~~~gs~iivTTR~~~---v  242 (876)
                                                             |||..-........ +.-.+.....+-..|||||+.-   +
T Consensus        96 ~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~l  175 (894)
T COG2909          96 TLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGL  175 (894)
T ss_pred             cccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCcc
Confidence                                                   56654333233333 3333445566888999999862   2


Q ss_pred             HHhhCCcceEeCC----CCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHHHHhhhhhcCCccHHHHHHHhhhhh
Q 042981          243 ARMMGSTNIIFIE----QLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEM  316 (876)
Q Consensus       243 ~~~~~~~~~~~l~----~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L~~~~~~~~w~~~~~~~~  316 (876)
                      ++.--.+...++.    .++.+|+  ||.... ..+--+.-.+.+.+..+|-+-|+..++=.++...+.+.--..+.-. 
T Consensus       176 a~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~-~l~Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~LsG~-  253 (894)
T COG2909         176 ARLRLRDELLEIGSEELRFDTEEAAAFLNDRG-SLPLDAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRGLSGA-  253 (894)
T ss_pred             cceeehhhHHhcChHhhcCChHHHHHHHHHcC-CCCCChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhhccch-
Confidence            2211112222222    2445555  333222 1222334567888899999999988888887443333222222210 


Q ss_pred             ccccccCCcchhhHh-hcccCCCCchhHHHHHhHhccCCCCceeChHHHHHHHHHcCccccCCChhHHHHHHhhhhhccc
Q 042981          317 WKVEEIGQGLFAPLL-LSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEYFNISKF  395 (876)
Q Consensus       317 ~~~~~~~~~~~~~l~-~sy~~L~~~~~lk~cfly~~~fp~~~~i~~~~li~~W~aeg~i~~~~~~~~e~~~~~~~~~~~~  395 (876)
                            .+.+...|. --++.||+  ++|..++-||+++.=    -..|+..-.     ..   .+-.++-++.-+.+.+
T Consensus       254 ------~~~l~dYL~eeVld~Lp~--~l~~FLl~~svl~~f----~~eL~~~Lt-----g~---~ng~amLe~L~~~gLF  313 (894)
T COG2909         254 ------ASHLSDYLVEEVLDRLPP--ELRDFLLQTSVLSRF----NDELCNALT-----GE---ENGQAMLEELERRGLF  313 (894)
T ss_pred             ------HHHHHHHHHHHHHhcCCH--HHHHHHHHHHhHHHh----hHHHHHHHh-----cC---CcHHHHHHHHHhCCCc
Confidence                  011111111 23688999  899999999988541    112222111     11   1222223333333444


Q ss_pred             ccCCCCCCcceEEcChHHHHHHHHhcc
Q 042981          396 KKDDDDDDIMSCKMHDIVHDFAQFVSR  422 (876)
Q Consensus       396 ~~~~~~~~~~~~~mHdlv~dla~~i~~  422 (876)
                      ....++... .|+.|.+..||-+.--.
T Consensus       314 l~~Ldd~~~-WfryH~LFaeFL~~r~~  339 (894)
T COG2909         314 LQRLDDEGQ-WFRYHHLFAEFLRQRLQ  339 (894)
T ss_pred             eeeecCCCc-eeehhHHHHHHHHhhhc
Confidence            433334444 79999999999865433

>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=97.74  E-value=2.7e-05  Score=55.17  Aligned_cols=41  Identities=27%  Similarity=0.362  Sum_probs=35.1

Q ss_pred             CcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccch
Q 042981          496 ACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPK  545 (876)
Q Consensus       496 ~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~  545 (876)
                      ++|++|++         ++|.+..+|..+++|++|++|++++|.|+.+|.
T Consensus         1 ~~L~~L~l---------~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDL---------SNNQITDLPPELSNLPNLETLNLSNNPISDISP   41 (44)
T ss_dssp             TT-SEEEE---------TSSS-SSHGGHGTTCTTSSEEEETSSCCSBEGG
T ss_pred             CcceEEEc---------cCCCCcccCchHhCCCCCCEEEecCCCCCCCcC
Confidence            47899999         888899999889999999999999999997764

...

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.72  E-value=0.00015  Score=78.83  Aligned_cols=160  Identities=15%  Similarity=0.119  Sum_probs=88.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc-cCC-eEEEEEeCCch--------
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR-NFE-KVIWVCVSDTF--------  193 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~F~-~~~wv~vs~~~--------  193 (876)
                      ++++|++..++.+..++...      ..+.+-++|..|+||||+|+.+.+.  +.. .+. ..+.+.+++-.        
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~GtGKT~la~~~~~~--l~~~~~~~~~~~i~~~~~~~~~~~~~~   86 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSP------NLPHLLVQGPPGSGKTAAVRALARE--LYGDPWENNFTEFNVADFFDQGKKYLV   86 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHH--hcCcccccceEEechhhhhhcchhhhh
Confidence            46889999999988877532      3345779999999999999998763  221 122 22344443211        


Q ss_pred             -----------------hHHHHHHHHHHh---------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-
Q 042981          194 -----------------EEIRVANAIIEG---------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-  240 (876)
Q Consensus       194 -----------------~~~~~~~~i~~~---------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-  240 (876)
                                       .....++.+++.               +||+..-....+..+...+.......++|+||... 
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  166 (337)
T PRK12402         87 EDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPS  166 (337)
T ss_pred             cCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChh
Confidence                             012233333321               67774433333445555555444567788877543 


Q ss_pred             HHHHhh-CCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchH
Q 042981          241 SVARMM-GSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLA  291 (876)
Q Consensus       241 ~v~~~~-~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPla  291 (876)
                      .+.... .....+++.+++.++.  +.....  ....--.+....+++.++|-+-.
T Consensus       167 ~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~~~gdlr~  222 (337)
T PRK12402        167 KLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRK  222 (337)
T ss_pred             hCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHH
Confidence            222222 2345777888887765  211110  01111234566677777765433

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.71  E-value=0.00025  Score=77.30  Aligned_cols=162  Identities=17%  Similarity=0.190  Sum_probs=96.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccc-------------------ccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVK-------------------RNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-------------------~~F~~~  184 (876)
                      .+++|.+..++.+...+....     -.+.+-++|+.|+||||+|+.+.+.-...                   ..+...
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~-----~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~   90 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGR-----IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDL   90 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            468999998988888876432     34667899999999999999987632100                   112223


Q ss_pred             EEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-hCC
Q 042981          185 IWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-MGS  248 (876)
Q Consensus       185 ~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-~~~  248 (876)
                      .++..+....... .+.+++.              +|++..-+...++.+...+.......++|++|.+. .+... .+.
T Consensus        91 ~~~~~~~~~~v~~-ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SR  169 (363)
T PRK14961         91 IEIDAASRTKVEE-MREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSR  169 (363)
T ss_pred             EEecccccCCHHH-HHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhh
Confidence            3333322222222 2333322              78876655556777887777766677777776543 34332 233


Q ss_pred             cceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchH
Q 042981          249 TNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLA  291 (876)
Q Consensus       249 ~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPla  291 (876)
                      ...+++.+++.++.  +.....  ....--.+....|++.++|-|-.
T Consensus       170 c~~~~~~~l~~~el~~~L~~~~~~~g~~i~~~al~~ia~~s~G~~R~  216 (363)
T PRK14961        170 CLQFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRD  216 (363)
T ss_pred             ceEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHH
Confidence            57899999998886  111100  01111234566778888887643

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

Probab=97.67  E-value=4.8e-05  Score=74.65  Aligned_cols=47  Identities=26%  Similarity=0.328  Sum_probs=32.1

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .||||+++.+++...|. ...  ....+++.|+|.+|+|||+|+++++..
T Consensus         1 ~fvgR~~e~~~l~~~l~-~~~--~~~~~~~ll~G~~G~GKT~ll~~~~~~   47 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLD-AAQ--SGSPRNLLLTGESGSGKTSLLRALLDR   47 (185)
T ss_dssp             --TT-HHHHHHHHHTTG-GTS--S-----EEE-B-TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH-HHH--cCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999996 222  346699999999999999999999884

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

Probab=97.62  E-value=7.2e-06  Score=71.70  Aligned_cols=91  Identities=19%  Similarity=0.179  Sum_probs=50.6

Q ss_pred             CCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCcccccc
Q 042981          464 GLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERL  543 (876)
Q Consensus       464 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~l  543 (876)
                      ...+|...++++|.      ....++.+-..++.++.|+|         .+|.+..+|..+..++.||.|+++.|.+...
T Consensus        51 ~~~el~~i~ls~N~------fk~fp~kft~kf~t~t~lNl---------~~neisdvPeE~Aam~aLr~lNl~~N~l~~~  115 (177)
T KOG4579|consen   51 KGYELTKISLSDNG------FKKFPKKFTIKFPTATTLNL---------ANNEISDVPEELAAMPALRSLNLRFNPLNAE  115 (177)
T ss_pred             CCceEEEEecccch------hhhCCHHHhhccchhhhhhc---------chhhhhhchHHHhhhHHhhhcccccCccccc
Confidence            33444455554443      23334444445555666666         5555666666666666666666666666666


Q ss_pred             chhhccCCcccEEeecCCCCCcccccc
Q 042981          544 PKTLCELYNLQKLDIRWCEDLRELPAG  570 (876)
Q Consensus       544 p~~i~~L~~L~~L~L~~~~~l~~lp~~  570 (876)
                      |.-|..|.+|-.|+..+| -..++|-+
T Consensus       116 p~vi~~L~~l~~Lds~~n-a~~eid~d  141 (177)
T KOG4579|consen  116 PRVIAPLIKLDMLDSPEN-ARAEIDVD  141 (177)
T ss_pred             hHHHHHHHhHHHhcCCCC-ccccCcHH
Confidence            666666666666666555 34444443

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.61  E-value=0.00034  Score=81.63  Aligned_cols=166  Identities=17%  Similarity=0.182  Sum_probs=102.3

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccc-------------------ccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVK-------------------RNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-------------------~~F~~~  184 (876)
                      .++||.+..++.+.+++....     -...+-++|..|+||||+|+.+++.-...                   ..|.-+
T Consensus        16 ddIIGQe~Iv~~LknaI~~~r-----l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dv   90 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQR-----LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDL   90 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-----CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceE
Confidence            469999999998888886432     23556799999999999999998632111                   012223


Q ss_pred             EEEEeCCch---hHHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHh-hCCc
Q 042981          185 IWVCVSDTF---EEIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARM-MGST  249 (876)
Q Consensus       185 ~wv~vs~~~---~~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~-~~~~  249 (876)
                      +++..+...   +++.+.+.+...          ||++..-+...++.++..+-......++|++|.+ ..+... ....
T Consensus        91 iEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlSRC  170 (944)
T PRK14949         91 IEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRC  170 (944)
T ss_pred             EEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHHhh
Confidence            444333212   223333332211          8888776667788888888776666776665554 444432 2345


Q ss_pred             ceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHHH
Q 042981          250 NIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAKA  294 (876)
Q Consensus       250 ~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~~  294 (876)
                      ..|++++|+.++.  ......  +...--.+....|++.++|.|--+..
T Consensus       171 q~f~fkpLs~eEI~~~L~~il~~EgI~~edeAL~lIA~~S~Gd~R~ALn  219 (944)
T PRK14949        171 LQFNLKSLTQDEIGTQLNHILTQEQLPFEAEALTLLAKAANGSMRDALS  219 (944)
T ss_pred             eEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHH
Confidence            7999999999887  221111  11122345678899999998854433

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.61  E-value=0.00035  Score=78.84  Aligned_cols=166  Identities=20%  Similarity=0.209  Sum_probs=98.3

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcc----c---------------cccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDE----V---------------KRNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~----~---------------~~~F~~~  184 (876)
                      .+++|.+..++.+...+....     -...+-++|+.|+||||+|+.+++.-.    .               ...|...
T Consensus        16 ~diiGq~~~v~~L~~~i~~~r-----l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dl   90 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQK-----VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDL   90 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCce
Confidence            468999999988888886432     335677899999999999999876211    0               0123344


Q ss_pred             EEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEE-EcCchHHHHh-hCC
Q 042981          185 IWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILL-TTRNESVARM-MGS  248 (876)
Q Consensus       185 ~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iiv-TTR~~~v~~~-~~~  248 (876)
                      +++.......+..+ +.+++.              +|++..-+...++.++..+.......++|+ ||....+... ...
T Consensus        91 ieidaas~~gvd~i-r~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~SR  169 (546)
T PRK14957         91 IEIDAASRTGVEET-KEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSR  169 (546)
T ss_pred             EEeecccccCHHHH-HHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHHHh
Confidence            45544333333222 223222              888876666677888888887666676665 4444444433 234


Q ss_pred             cceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCc-hHHHHh
Q 042981          249 TNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLP-LAAKAT  295 (876)
Q Consensus       249 ~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlP-lai~~~  295 (876)
                      ...+++++++.++-  +.....  ....--......|++.++|-+ -|+..+
T Consensus       170 c~~~~f~~Ls~~eI~~~L~~il~~egi~~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        170 CIQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             eeeEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            67999999998875  111100  011112334456677777744 344333

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.60  E-value=0.00034  Score=80.00  Aligned_cols=167  Identities=16%  Similarity=0.134  Sum_probs=103.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc-------------------cccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV-------------------KRNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-------------------~~~F~~~  184 (876)
                      .++||.+..++.|..++....     -.+.+-++|..|+||||+|+.+.+.-..                   .+.|...
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gR-----L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~Dv   90 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGR-----LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDY   90 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceE
Confidence            469999999999988886432     2456679999999999999877652111                   1123335


Q ss_pred             EEEEeCCchhH---HHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-hCCc
Q 042981          185 IWVCVSDTFEE---IRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-MGST  249 (876)
Q Consensus       185 ~wv~vs~~~~~---~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-~~~~  249 (876)
                      +++..+....+   +++++.....          ||++..-+...|+.++..+.......++|+||.+. .+... .+..
T Consensus        91 iEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRC  170 (830)
T PRK07003         91 VEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRC  170 (830)
T ss_pred             EEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhhe
Confidence            55555443332   2233322211          88887776667888888887766678888877764 33322 2335


Q ss_pred             ceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCc-hHHHHh
Q 042981          250 NIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLP-LAAKAT  295 (876)
Q Consensus       250 ~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlP-lai~~~  295 (876)
                      ..|++++++.++.  .+....  +...--.+..+.|++.++|-. -|+..+
T Consensus       171 q~f~Fk~Ls~eeIv~~L~~Il~~EgI~id~eAL~lIA~~A~GsmRdALsLL  221 (830)
T PRK07003        171 LQFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQGSMRDALSLT  221 (830)
T ss_pred             EEEecCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            7899999998886  111100  111122455677888888744 455443

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.58  E-value=0.00041  Score=70.56  Aligned_cols=110  Identities=19%  Similarity=0.209  Sum_probs=64.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchh-HHHHHHHHHHh----ccccccCC-ccChhh-HHhh
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE-EIRVANAIIEG----LDDVWDGD-YNKWEP-FFHC  223 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~~~~~i~~~----lDdvw~~~-~~~~~~-l~~~  223 (876)
                      ...+.|+|+.|+|||+|++++++.  ....-..+.++.+..... ..++.+.+-+.    +||+-... ...|+. +...
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~--~~~~~~~v~y~~~~~~~~~~~~~~~~~~~~dlliiDdi~~~~~~~~~~~~lf~l  122 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAE--LSQRGRAVGYVPLDKRAWFVPEVLEGMEQLSLVCIDNIECIAGDELWEMAIFDL  122 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEEHHHHhhhhHHHHHHhhhCCEEEEeChhhhcCCHHHHHHHHHH
Confidence            357899999999999999999873  333333456666654221 12222222111    78884421 134554 2233


Q ss_pred             hccC-CCC-CEEEEEcCch---------HHHHhhCCcceEeCCCCCcccc
Q 042981          224 LKHG-LHG-SKILLTTRNE---------SVARMMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       224 l~~~-~~g-s~iivTTR~~---------~v~~~~~~~~~~~l~~L~~~~~  262 (876)
                      +... ..| .++|+||+..         ++...+....+++++++++++-
T Consensus       123 ~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~  172 (235)
T PRK08084        123 YNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEK  172 (235)
T ss_pred             HHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHH
Confidence            3221 123 3699999743         3444555667889998886654

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.57  E-value=0.00048  Score=77.88  Aligned_cols=163  Identities=18%  Similarity=0.200  Sum_probs=100.7

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc-------------------cccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV-------------------KRNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-------------------~~~F~~~  184 (876)
                      .++||.+..++.+..++....     -.+.+-++|..|+||||+|+.+.+.-..                   .+.|.-.
T Consensus        15 ddVIGQe~vv~~L~~aI~~gr-----l~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDv   89 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGR-----LHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDL   89 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCce
Confidence            469999999999998887432     3467789999999999999988753111                   1123334


Q ss_pred             EEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHH-hhCC
Q 042981          185 IWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVAR-MMGS  248 (876)
Q Consensus       185 ~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~-~~~~  248 (876)
                      +.+..+....+..+ +.++..              +|+|..-+...++.++..+.....+.++|++|.+. .+.. ..+.
T Consensus        90 iEIDAAs~~~VddI-Reli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSR  168 (702)
T PRK14960         90 IEIDAASRTKVEDT-RELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISR  168 (702)
T ss_pred             EEecccccCCHHHH-HHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHh
Confidence            44544433333322 333332              78887665566777887777766677888777653 3322 2234


Q ss_pred             cceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHH
Q 042981          249 TNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAA  292 (876)
Q Consensus       249 ~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai  292 (876)
                      ...+++++++.++.  ......  +...--.+....|++.++|-+-.+
T Consensus       169 Cq~feFkpLs~eEI~k~L~~Il~kEgI~id~eAL~~IA~~S~GdLRdA  216 (702)
T PRK14960        169 CLQFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQGSLRDA  216 (702)
T ss_pred             hheeeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHH
Confidence            57899999998886  111100  111222345567888888866443

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.54  E-value=0.00056  Score=76.72  Aligned_cols=161  Identities=19%  Similarity=0.148  Sum_probs=97.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc----------c-------------
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR----------N-------------  180 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----------~-------------  180 (876)
                      .+++|.+..++.+...+...     .-.+-+-++|..|+||||+|+.+++.-....          .             
T Consensus        21 ~dliGq~~vv~~L~~ai~~~-----ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~   95 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILND-----RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHN   95 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCC
Confidence            46899888888877766542     2335678999999999999999976321100          0             


Q ss_pred             CCeEEEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEE-EcCchHHHHh
Q 042981          181 FEKVIWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILL-TTRNESVARM  245 (876)
Q Consensus       181 F~~~~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iiv-TTR~~~v~~~  245 (876)
                      ...+..+.......+..+ +.+++.              +|+++.-+...|+.+...+......+++|+ ||+...+...
T Consensus        96 h~Dv~eidaas~~~vd~I-r~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~t  174 (507)
T PRK06645         96 HPDIIEIDAASKTSVDDI-RRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPAT  174 (507)
T ss_pred             CCcEEEeeccCCCCHHHH-HHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHH
Confidence            112233333333333332 333332              899988766788888888877666666654 5555555543


Q ss_pred             h-CCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCch
Q 042981          246 M-GSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPL  290 (876)
Q Consensus       246 ~-~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPl  290 (876)
                      . .....+++++++.++.  ++....  +...--.+....|++.++|.+-
T Consensus       175 I~SRc~~~ef~~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~GslR  224 (507)
T PRK06645        175 IISRCQRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSAR  224 (507)
T ss_pred             HHhcceEEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH
Confidence            3 2356899999998886  221111  1111123445667788887653

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.53  E-value=0.00048  Score=77.62  Aligned_cols=162  Identities=22%  Similarity=0.176  Sum_probs=98.3

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccC------------------CeEE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF------------------EKVI  185 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F------------------~~~~  185 (876)
                      ++++|.+..++.+..++....     -...+-++|+.|+||||+|+.+++.-...+.+                  ..+.
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~-----l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~   88 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGR-----LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVL   88 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceE
Confidence            468999888888888776532     33567899999999999999987632211111                  1234


Q ss_pred             EEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHhh-CCc
Q 042981          186 WVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARMM-GST  249 (876)
Q Consensus       186 wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~~-~~~  249 (876)
                      ++..+....... .+++.+.              +|+++..+...++.+...+........+|++|.. ..+...+ ...
T Consensus        89 el~~~~~~~vd~-iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc  167 (504)
T PRK14963         89 EIDAASNNSVED-VRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRT  167 (504)
T ss_pred             EecccccCCHHH-HHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcce
Confidence            444433222222 2223221              8988776666788888888776556566655543 3443322 235


Q ss_pred             ceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchH
Q 042981          250 NIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLA  291 (876)
Q Consensus       250 ~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPla  291 (876)
                      ..+++.+++.++.  +.....  ....--.+....|++.++|.+--
T Consensus       168 ~~~~f~~ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s~GdlR~  213 (504)
T PRK14963        168 QHFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADGAMRD  213 (504)
T ss_pred             EEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHH
Confidence            6899999999887  221110  01111245667888888887743

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

Probab=97.53  E-value=6.1e-05  Score=87.69  Aligned_cols=133  Identities=23%  Similarity=0.274  Sum_probs=94.7

Q ss_pred             CCceEEEEeeecCC--CCCcccc-cCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccc
Q 042981          442 GDKVRHLGLNFEGG--ASFPMSI-HGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR  518 (876)
Q Consensus       442 ~~~lr~L~l~~~~~--~~~~~~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~  518 (876)
                      ..++++|++++...  ..++..+ ..+|.|++|.+.+-.     +.......++.++++|+.||+         +++.+.
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~-----~~~~dF~~lc~sFpNL~sLDI---------S~TnI~  186 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQ-----FDNDDFSQLCASFPNLRSLDI---------SGTNIS  186 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCce-----ecchhHHHHhhccCccceeec---------CCCCcc
Confidence            35677888776442  1223333 357999999996543     233335566899999999999         777777


Q ss_pred             ccccccccCcccCeeeccCccccccc--hhhccCCcccEEeecCCCCCcccccc-------ccCcCCCceEecCCCCCCc
Q 042981          519 EIPENVRKLIHLKYLNLSELCIERLP--KTLCELYNLQKLDIRWCEDLRELPAG-------IGKLKKMRSLLNGGTPLLK  589 (876)
Q Consensus       519 ~lp~~i~~L~~Lr~L~Ls~~~i~~lp--~~i~~L~~L~~L~L~~~~~l~~lp~~-------i~~L~~L~~L~l~~~~~~~  589 (876)
                      .+ ..++.|++|+.|.+++-.+..-.  ..+.+|++|++||++....... +..       -..||+||.||.+++.+..
T Consensus       187 nl-~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~-~~ii~qYlec~~~LpeLrfLDcSgTdi~~  264 (699)
T KOG3665|consen  187 NL-SGISRLKNLQVLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDD-TKIIEQYLECGMVLPELRFLDCSGTDINE  264 (699)
T ss_pred             Cc-HHHhccccHHHHhccCCCCCchhhHHHHhcccCCCeeeccccccccc-hHHHHHHHHhcccCccccEEecCCcchhH
Confidence            77 77899999999999988877543  3678899999999997643322 211       1358999999999886544


Q ss_pred             c
Q 042981          590 Y  590 (876)
Q Consensus       590 ~  590 (876)
                      .
T Consensus       265 ~  265 (699)
T KOG3665|consen  265 E  265 (699)
T ss_pred             H
Confidence            3

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=97.52  E-value=0.00015  Score=79.88  Aligned_cols=51  Identities=18%  Similarity=0.173  Sum_probs=40.8

Q ss_pred             cCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++.++||++++++|...|.....  +.....+.|+|++|+|||+++++++++
T Consensus        13 ~p~~l~gRe~e~~~l~~~l~~~~~--~~~~~~i~I~G~~GtGKT~l~~~~~~~   63 (365)
T TIGR02928        13 VPDRIVHRDEQIEELAKALRPILR--GSRPSNVFIYGKTGTGKTAVTKYVMKE   63 (365)
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence            345799999999999999875321  123456899999999999999999974

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.51  E-value=0.00043  Score=78.05  Aligned_cols=167  Identities=15%  Similarity=0.126  Sum_probs=101.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc------------------------cc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV------------------------KR  179 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~------------------------~~  179 (876)
                      .++||.+..++.|.+++....     -.+.+-++|..|+||||+|+.+.+.-..                        ..
T Consensus        16 ddVIGQe~vv~~L~~al~~gR-----LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG   90 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQR-----LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAG   90 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcC
Confidence            469999999999998887532     3456788999999999999888652111                        01


Q ss_pred             cCCeEEEEEeCCchhH---HHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEc-CchHHHHh
Q 042981          180 NFEKVIWVCVSDTFEE---IRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTT-RNESVARM  245 (876)
Q Consensus       180 ~F~~~~wv~vs~~~~~---~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTT-R~~~v~~~  245 (876)
                      .|...+++..+....+   +++.+.+...          +|++..-+...++.++..+.....+.++|++| ....+...
T Consensus        91 ~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpT  170 (700)
T PRK12323         91 RFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVT  170 (700)
T ss_pred             CCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhH
Confidence            2223445554433333   3333332211          88887776677888888877655566655544 44555433


Q ss_pred             h-CCcceEeCCCCCcccc--ccCCC--cCCccchHHHHHHHHHHcCCCchHHHHh
Q 042981          246 M-GSTNIIFIEQLTEEES--FSGRS--FEDCEKLEPIGRKIARKCKGLPLAAKAT  295 (876)
Q Consensus       246 ~-~~~~~~~l~~L~~~~~--~f~~~--~~~~~~l~~~~~~i~~~c~GlPlai~~~  295 (876)
                      + +....|.++.++.++.  .....  .+...--.+..+.|++.++|.|.-+..+
T Consensus       171 IrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        171 VLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             HHHHHHhcccCCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            2 3357899999998887  11110  0111112344577899999988644433

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

Probab=97.51  E-value=4.3e-06  Score=92.18  Aligned_cols=87  Identities=29%  Similarity=0.308  Sum_probs=49.9

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccccc-ccCcCCCceEecCCCCCCccC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAG-IGKLKKMRSLLNGGTPLLKYM  591 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~~  591 (876)
                      +.|.+..+-+++.-+++|+.|||++|+++..- .+..|++|.+|||++| .+..+|.- ...+ +|..|.+++|.+ ..+
T Consensus       172 syN~L~~mD~SLqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN-~L~~vp~l~~~gc-~L~~L~lrnN~l-~tL  247 (1096)
T KOG1859|consen  172 SYNRLVLMDESLQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYN-CLRHVPQLSMVGC-KLQLLNLRNNAL-TTL  247 (1096)
T ss_pred             chhhHHhHHHHHHHHHHhhhhccchhhhhhhH-HHHhcccccccccccc-hhccccccchhhh-hheeeeecccHH-Hhh
Confidence            34444444455555666777777777766554 5666677777777766 45555542 1122 366667766644 222


Q ss_pred             CccCCCCCCCCcc
Q 042981          592 PIGISKLTSLRTL  604 (876)
Q Consensus       592 p~~i~~l~~L~~L  604 (876)
                       .+|.+|++|+.|
T Consensus       248 -~gie~LksL~~L  259 (1096)
T KOG1859|consen  248 -RGIENLKSLYGL  259 (1096)
T ss_pred             -hhHHhhhhhhcc
Confidence             345666666666

>PLN03025 replication factor C subunit; Provisional

Probab=97.51  E-value=0.00033  Score=75.09  Aligned_cols=132  Identities=16%  Similarity=0.136  Sum_probs=75.7

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCC-eEEEEEeCCchhHHHH---H
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEIRV---A  199 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~~---~  199 (876)
                      .+++|.++.++.+..++...      +.+-+-++|..|+||||+|+.+.+.- ....|. .++-+..++......+   .
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~G~GKTtla~~la~~l-~~~~~~~~~~eln~sd~~~~~~vr~~i   85 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDG------NMPNLILSGPPGTGKTTSILALAHEL-LGPNYKEAVLELNASDDRGIDVVRNKI   85 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHHH-hcccCccceeeecccccccHHHHHHHH
Confidence            46889888788777766532      33446799999999999999988731 122232 2222333443332222   2


Q ss_pred             HHHHHh-------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-hCCcceEeCCCCCcccc
Q 042981          200 NAIIEG-------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-MGSTNIIFIEQLTEEES  262 (876)
Q Consensus       200 ~~i~~~-------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-~~~~~~~~l~~L~~~~~  262 (876)
                      +...+.             +|++..-.....+.+...+......+++|+++... .+... ......++++++++++.
T Consensus        86 ~~~~~~~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~~~l  163 (319)
T PLN03025         86 KMFAQKKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEI  163 (319)
T ss_pred             HHHHhccccCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCCHHHH
Confidence            221111             78776554444555666565545567777776542 22211 11235788888887775

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

Probab=97.50  E-value=9.4e-06  Score=70.99  Aligned_cols=72  Identities=25%  Similarity=0.336  Sum_probs=38.3

Q ss_pred             CCCcccccccccc-cCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCC
Q 042981          513 YPNLIREIPENVR-KLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGT  585 (876)
Q Consensus       513 ~~~~i~~lp~~i~-~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~  585 (876)
                      ++|.+..+|+.+. ..+.+..|+|++|.|..+|..+..++.|+.|+++.| .+...|..|..|.+|-.|+..+|
T Consensus        61 s~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N-~l~~~p~vi~~L~~l~~Lds~~n  133 (177)
T KOG4579|consen   61 SDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFN-PLNAEPRVIAPLIKLDMLDSPEN  133 (177)
T ss_pred             ccchhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccC-ccccchHHHHHHHhHHHhcCCCC
Confidence            4455555555542 233555555555555555555555555555555555 34444555555555555555554

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=97.46  E-value=0.00056  Score=67.97  Aligned_cols=167  Identities=22%  Similarity=0.223  Sum_probs=88.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAII  203 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  203 (876)
                      .++||.++-++.+.-++..... .++.+--+-++|++|+||||||.-+.+  +....+....=-.+-+.-|...++..+-
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~-r~e~lDHvLl~GPPGlGKTTLA~IIA~--Emgvn~k~tsGp~leK~gDlaaiLt~Le  102 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKK-RGEALDHVLLFGPPGLGKTTLAHIIAN--ELGVNLKITSGPALEKPGDLAAILTNLE  102 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHh-cCCCcCeEEeeCCCCCcHHHHHHHHHH--HhcCCeEecccccccChhhHHHHHhcCC
Confidence            4799998888887766655432 145677889999999999999999998  4444432111111222223333333211


Q ss_pred             Hh----ccccccCCccChhhHHhhhcc--------CCCCCEEE-----------EEcCchHHHHhhCC--cceEeCCCCC
Q 042981          204 EG----LDDVWDGDYNKWEPFFHCLKH--------GLHGSKIL-----------LTTRNESVARMMGS--TNIIFIEQLT  258 (876)
Q Consensus       204 ~~----lDdvw~~~~~~~~~l~~~l~~--------~~~gs~ii-----------vTTR~~~v~~~~~~--~~~~~l~~L~  258 (876)
                      +.    +|.+..-+...-+.+..++.+        .++++|.|           -|||...+..-+..  .-+.+++.-+
T Consensus       103 ~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G~lt~PLrdRFGi~~rlefY~  182 (332)
T COG2255         103 EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRDRFGIIQRLEFYT  182 (332)
T ss_pred             cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccccccccchhHHhcCCeeeeecCC
Confidence            11    455544332222223333322        12344433           37876544432221  2355666666


Q ss_pred             cccc---ccCCCc-CCccchHHHHHHHHHHcCCCchHHH
Q 042981          259 EEES---FSGRSF-EDCEKLEPIGRKIARKCKGLPLAAK  293 (876)
Q Consensus       259 ~~~~---~f~~~~-~~~~~l~~~~~~i~~~c~GlPlai~  293 (876)
                      .+|-   +-..+. -.-.--.+-+.+|+++..|-|--+.
T Consensus       183 ~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRGTPRIAn  221 (332)
T COG2255         183 VEELEEIVKRSAKILGIEIDEEAALEIARRSRGTPRIAN  221 (332)
T ss_pred             HHHHHHHHHHHHHHhCCCCChHHHHHHHHhccCCcHHHH
Confidence            6654   111110 0111224567899999999996443

>PRK08118 topology modulation protein; Reviewed

Probab=97.46  E-value=7.4e-05  Score=71.37  Aligned_cols=52  Identities=31%  Similarity=0.559  Sum_probs=36.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCcccc-ccCCeEE----EEEeCCchhHHHHHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVK-RNFEKVI----WVCVSDTFEEIRVANAIIE  204 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~F~~~~----wv~vs~~~~~~~~~~~i~~  204 (876)
                      +.|.|+|++|+||||||+.+++...+. -+||..+    |+.+++. ...+++++++.
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~~w~~~~~~-~~~~~~~~~~~   58 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKPNWEGVPKE-EQITVQNELVK   58 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcccCCcCCCHH-HHHHHHHHHhc
Confidence            358899999999999999999854443 4578777    5555543 44445555554

>PRK05642 DNA replication initiation factor; Validated

Probab=97.45  E-value=0.0013  Score=66.68  Aligned_cols=110  Identities=19%  Similarity=0.336  Sum_probs=63.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhH-HHHHHHHHHh----ccccccC-CccChhh-HHhh
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE-IRVANAIIEG----LDDVWDG-DYNKWEP-FFHC  223 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~-~~~~~~i~~~----lDdvw~~-~~~~~~~-l~~~  223 (876)
                      ...+.|+|..|+|||.||+++++  .....-..++|++..+-... ..+.+.+-..    +||+-.. ....|+. +...
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~--~~~~~~~~v~y~~~~~~~~~~~~~~~~~~~~d~LiiDDi~~~~~~~~~~~~Lf~l  122 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACL--RFEQRGEPAVYLPLAELLDRGPELLDNLEQYELVCLDDLDVIAGKADWEEALFHL  122 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHhCCCcEEEeeHHHHHhhhHHHHHhhhhCCEEEEechhhhcCChHHHHHHHHH
Confidence            36789999999999999999987  33222235677776442221 1222222221    8988532 1235554 4444


Q ss_pred             hcc-CCCCCEEEEEcCchH---------HHHhhCCcceEeCCCCCcccc
Q 042981          224 LKH-GLHGSKILLTTRNES---------VARMMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       224 l~~-~~~gs~iivTTR~~~---------v~~~~~~~~~~~l~~L~~~~~  262 (876)
                      +.. ...|..||+|++...         +...++...++++++++.++-
T Consensus       123 ~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~  171 (234)
T PRK05642        123 FNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDK  171 (234)
T ss_pred             HHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHH
Confidence            432 234678999887432         222233346778888877665

>PRK08727 hypothetical protein; Validated

Probab=97.45  E-value=0.0009  Score=67.97  Aligned_cols=109  Identities=17%  Similarity=0.142  Sum_probs=62.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhH-HHHHHHHHHh----ccccccCC-ccChhh-HHhhh
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE-IRVANAIIEG----LDDVWDGD-YNKWEP-FFHCL  224 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~-~~~~~~i~~~----lDdvw~~~-~~~~~~-l~~~l  224 (876)
                      ..+.|+|..|+|||+||+++++  ...+....+.++.+.+.... .+..+.+-..    +||+.... ...|.. +...+
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~--~~~~~~~~~~y~~~~~~~~~~~~~~~~l~~~dlLiIDDi~~l~~~~~~~~~lf~l~  119 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCA--AAEQAGRSSAYLPLQAAAGRLRDALEALEGRSLVALDGLESIAGQREDEVALFDFH  119 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHH--HHHHcCCcEEEEeHHHhhhhHHHHHHHHhcCCEEEEeCcccccCChHHHHHHHHHH
Confidence            4599999999999999999987  34444445667765442211 1222222211    88885321 123443 33322


Q ss_pred             cc-CCCCCEEEEEcCch---------HHHHhhCCcceEeCCCCCcccc
Q 042981          225 KH-GLHGSKILLTTRNE---------SVARMMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       225 ~~-~~~gs~iivTTR~~---------~v~~~~~~~~~~~l~~L~~~~~  262 (876)
                      .. ..+|..||+|++..         ++...+.....+++++++.++-
T Consensus       120 n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~  167 (233)
T PRK08727        120 NRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVAR  167 (233)
T ss_pred             HHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHH
Confidence            22 23466799999842         2333333456788888876654

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

Probab=97.44  E-value=0.00033  Score=82.04  Aligned_cols=125  Identities=20%  Similarity=0.285  Sum_probs=71.1

Q ss_pred             CceeeccchHH---HHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeC--CchhHHHH
Q 042981          124 GEVCGRVDEKN---ELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVS--DTFEEIRV  198 (876)
Q Consensus       124 ~~~vGr~~~~~---~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs--~~~~~~~~  198 (876)
                      ++++|.+..+.   .+...+..      .....+-|+|++|+||||||+.+++  .....|..   +..+  ..-+.+..
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~------~~~~slLL~GPpGtGKTTLA~aIA~--~~~~~f~~---lna~~~~i~dir~~   96 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKA------DRVGSLILYGPPGVGKTTLARIIAN--HTRAHFSS---LNAVLAGVKDLRAE   96 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhc------CCCceEEEECCCCCCHHHHHHHHHH--HhcCccee---ehhhhhhhHHHHHH
Confidence            45888877664   34444432      2455678999999999999999998  44444421   1111  11122222


Q ss_pred             HHHHHH---h--------ccccccCCccChhhHHhhhccCCCCCEEEE--EcCch--HHHHh-hCCcceEeCCCCCcccc
Q 042981          199 ANAIIE---G--------LDDVWDGDYNKWEPFFHCLKHGLHGSKILL--TTRNE--SVARM-MGSTNIIFIEQLTEEES  262 (876)
Q Consensus       199 ~~~i~~---~--------lDdvw~~~~~~~~~l~~~l~~~~~gs~iiv--TTR~~--~v~~~-~~~~~~~~l~~L~~~~~  262 (876)
                      ...+..   .        ||||+.-+...++.+...+.   .|+.++|  ||.+.  .+... ......+++++|+.++.
T Consensus        97 i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~aL~SR~~v~~l~pLs~edi  173 (725)
T PRK13341         97 VDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDL  173 (725)
T ss_pred             HHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhhHhhccccceecCCCCHHHH
Confidence            222211   1        89987655445555554443   3555655  34443  22222 22356899999998776

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

Probab=97.44  E-value=6.3e-05  Score=87.57  Aligned_cols=135  Identities=23%  Similarity=0.115  Sum_probs=79.8

Q ss_pred             cccCeeeccCcccc--ccchhhc-cCCcccEEeecCCCCC-ccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCc
Q 042981          528 IHLKYLNLSELCIE--RLPKTLC-ELYNLQKLDIRWCEDL-RELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRT  603 (876)
Q Consensus       528 ~~Lr~L~Ls~~~i~--~lp~~i~-~L~~L~~L~L~~~~~l-~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~  603 (876)
                      .+|++|++++...-  .-|..++ -||.|++|.+.+-... .++-.-..++++|+.||++++.+. .+ .++++|++|+.
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~-nl-~GIS~LknLq~  199 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNIS-NL-SGISRLKNLQV  199 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCcc-Cc-HHHhccccHHH
Confidence            56777777775422  2233344 3788888888763221 112223457788888888888653 33 67888888888


Q ss_pred             cCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCc--chhhhccCcccccCCceEEEeccC
Q 042981          604 LEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHL--DEDERLGLHNMKNLLRLSLEFDEE  668 (876)
Q Consensus       604 L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~--~~~~~~~l~~l~~L~~L~L~~~~~  668 (876)
                      |......-..    ...+.+|-+|++|+.|+|+.-......  ...-...-..+++|+.|+.+++..
T Consensus       200 L~mrnLe~e~----~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi  262 (699)
T KOG3665|consen  200 LSMRNLEFES----YQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDI  262 (699)
T ss_pred             HhccCCCCCc----hhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcch
Confidence            8655443322    345667777888888888874332221  111111223467788888776654

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.43  E-value=0.00073  Score=72.82  Aligned_cols=160  Identities=14%  Similarity=0.079  Sum_probs=88.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEe--CCchhHH---HH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCV--SDTFEEI---RV  198 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~v--s~~~~~~---~~  198 (876)
                      .+++|+++.++.+..++...      ..+.+-|+|..|+||||+|+.+.+.- ....+.. .++.+  ++.....   ..
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~------~~~~~ll~G~~G~GKt~~~~~l~~~l-~~~~~~~-~~i~~~~~~~~~~~~~~~~   88 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEK------NMPHLLFAGPPGTGKTTAALALAREL-YGEDWRE-NFLELNASDERGIDVIRNK   88 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHH-cCCcccc-ceEEeccccccchHHHHHH
Confidence            45889999999998888542      34457999999999999999998731 1112221 22222  2222211   22


Q ss_pred             HHHHHHh------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-hCCcceEeCCCCCcccc--
Q 042981          199 ANAIIEG------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-MGSTNIIFIEQLTEEES--  262 (876)
Q Consensus       199 ~~~i~~~------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-~~~~~~~~l~~L~~~~~--  262 (876)
                      .......            +|++..-....+..+...+......+++|+++... .+... ......+++.+++.++.  
T Consensus        89 i~~~~~~~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l~~~ei~~  168 (319)
T PRK00440         89 IKEFARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAE  168 (319)
T ss_pred             HHHHHhcCCCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCCCCHHHHHH
Confidence            2222221            56664333334455666666555567777777432 22111 12234788888888876  


Q ss_pred             ccCCCc--CCccchHHHHHHHHHHcCCCchH
Q 042981          263 FSGRSF--EDCEKLEPIGRKIARKCKGLPLA  291 (876)
Q Consensus       263 ~f~~~~--~~~~~l~~~~~~i~~~c~GlPla  291 (876)
                      +.....  ....--.+....+++.++|-+--
T Consensus       169 ~l~~~~~~~~~~i~~~al~~l~~~~~gd~r~  199 (319)
T PRK00440        169 RLRYIAENEGIEITDDALEAIYYVSEGDMRK  199 (319)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHcCCCHHH
Confidence            111100  00111244567778888886644

>PRK09087 hypothetical protein; Validated

Probab=97.42  E-value=0.00042  Score=69.74  Aligned_cols=133  Identities=20%  Similarity=0.238  Sum_probs=73.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHHh---ccccccCCccChhhHHhhhcc-
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEG---LDDVWDGDYNKWEPFFHCLKH-  226 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~---lDdvw~~~~~~~~~l~~~l~~-  226 (876)
                      -+.+.|+|..|+|||+|++..++...       ..++... .+... +...+...   +||+.... ..-+.+...+.. 
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~-------~~~i~~~-~~~~~-~~~~~~~~~l~iDDi~~~~-~~~~~lf~l~n~~  113 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSD-------ALLIHPN-EIGSD-AANAAAEGPVLIEDIDAGG-FDETGLFHLINSV  113 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcC-------CEEecHH-HcchH-HHHhhhcCeEEEECCCCCC-CCHHHHHHHHHHH
Confidence            36689999999999999999887422       1244332 12211 11222111   78884321 111223333322 


Q ss_pred             CCCCCEEEEEcCc---------hHHHHhhCCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHH
Q 042981          227 GLHGSKILLTTRN---------ESVARMMGSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAK  293 (876)
Q Consensus       227 ~~~gs~iivTTR~---------~~v~~~~~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~  293 (876)
                      ...|..||+|++.         ++....+....+++++++++++-  ++....  ....--+++..-|++.+.|-.-++.
T Consensus       114 ~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~~~~~l~~ev~~~La~~~~r~~~~l~  193 (226)
T PRK09087        114 RQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFADRQLYVDPHVVYYLVSRMERSLFAAQ  193 (226)
T ss_pred             HhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhhhHHHHH
Confidence            1236679998873         34555566678999999998776  222111  1111124566667777776555544

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.34  E-value=0.0019  Score=70.47  Aligned_cols=170  Identities=12%  Similarity=0.041  Sum_probs=102.1

Q ss_pred             CceeeccchHHHHHHHhhccCCc----CCCCeEEEEEEecCCchHHHHHHHHHcCccc------------------cccC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSE----QQKGLHVISLVGLGGMGKTTLAQLAYNNDEV------------------KRNF  181 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~----~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~------------------~~~F  181 (876)
                      .+++|.+..++.+...+......    +..-.+-+-++|+.|+||||+|+.+.+.---                  ...+
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            35889998889888888754210    0012456789999999999999887641000                  0112


Q ss_pred             CeEEEEEeC-CchhH---HHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-
Q 042981          182 EKVIWVCVS-DTFEE---IRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-  245 (876)
Q Consensus       182 ~~~~wv~vs-~~~~~---~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-  245 (876)
                      +-..++... ....+   +++.+.+...          +|++..-+....+.+...+.....+..+|++|.+. .+... 
T Consensus        85 pD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTI  164 (394)
T PRK07940         85 PDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTI  164 (394)
T ss_pred             CCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHH
Confidence            223333322 22222   3333332221          78887666556677777777766677777777664 44433 


Q ss_pred             hCCcceEeCCCCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHHHHhh
Q 042981          246 MGSTNIIFIEQLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATG  296 (876)
Q Consensus       246 ~~~~~~~~l~~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~~  296 (876)
                      .+....+.+.+++.++.  +.......   -.+.+..+++.++|.|..+..+.
T Consensus       165 rSRc~~i~f~~~~~~~i~~~L~~~~~~---~~~~a~~la~~s~G~~~~A~~l~  214 (394)
T PRK07940        165 RSRCRHVALRTPSVEAVAEVLVRRDGV---DPETARRAARASQGHIGRARRLA  214 (394)
T ss_pred             HhhCeEEECCCCCHHHHHHHHHHhcCC---CHHHHHHHHHHcCCCHHHHHHHh
Confidence            23457999999998887  33221111   13556788999999987654443

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.33  E-value=0.00079  Score=78.16  Aligned_cols=47  Identities=34%  Similarity=0.396  Sum_probs=38.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDE  176 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~  176 (876)
                      ++++|++..++.+...+...      ....+.|+|.+|+||||+|+.+++..+
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~------~~~~vlL~Gp~GtGKTTLAr~i~~~~~  200 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASP------FPQHIILYGPPGVGKTTAARLALEEAK  200 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcC------CCCeEEEECCCCCCHHHHHHHHHHhhh
Confidence            46899999999888777432      345799999999999999999987543

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.

>PTZ00202 tuzin; Provisional

Probab=97.32  E-value=0.00094  Score=71.16  Aligned_cols=78  Identities=15%  Similarity=0.198  Sum_probs=57.4

Q ss_pred             cCccCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHH
Q 042981          119 SLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRV  198 (876)
Q Consensus       119 ~~~~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~  198 (876)
                      ...+...|+||+++...+...|...+.   ...+++.|.|++|+|||||++.+...  ..  + ...++...   +..++
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~---~~privvLtG~~G~GKTTLlR~~~~~--l~--~-~qL~vNpr---g~eEl  325 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDT---AHPRIVVFTGFRGCGKSSLCRSAVRK--EG--M-PAVFVDVR---GTEDT  325 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCC---CCceEEEEECCCCCCHHHHHHHHHhc--CC--c-eEEEECCC---CHHHH
Confidence            334567899999999999998865432   24569999999999999999999863  22  1 12233222   56899


Q ss_pred             HHHHHHhcc
Q 042981          199 ANAIIEGLD  207 (876)
Q Consensus       199 ~~~i~~~lD  207 (876)
                      ++.++.+|.
T Consensus       326 Lr~LL~ALG  334 (550)
T PTZ00202        326 LRSVVKALG  334 (550)
T ss_pred             HHHHHHHcC
Confidence            999999976

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.30  E-value=0.00099  Score=74.45  Aligned_cols=170  Identities=20%  Similarity=0.192  Sum_probs=93.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccc-------------------ccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVK-------------------RNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-------------------~~F~~~  184 (876)
                      +++||.+..++.+...+...     .-.+.+-++|+.|+||||+|+.+.+.-...                   ..+...
T Consensus        14 ~divGq~~i~~~L~~~i~~~-----~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv   88 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKN-----SISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDV   88 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCcc
Confidence            46999887777777766532     123567899999999999999997631110                   011123


Q ss_pred             EEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHhh-CC
Q 042981          185 IWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARMM-GS  248 (876)
Q Consensus       185 ~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~~-~~  248 (876)
                      ..+..+.......+ +.|.+.              +|++..-.....+.+...+........+|++|.+ ..+.... ..
T Consensus        89 ~el~aa~~~gid~i-R~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~SR  167 (472)
T PRK14962         89 IELDAASNRGIDEI-RKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISR  167 (472)
T ss_pred             EEEeCcccCCHHHH-HHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhcC
Confidence            33444332222222 223222              7877544334456666666554444444444433 4444433 34


Q ss_pred             cceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCC-CchHHHHhhhhh
Q 042981          249 TNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKG-LPLAAKATGNLL  299 (876)
Q Consensus       249 ~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~G-lPlai~~~~~~L  299 (876)
                      ...+++.+++.++.  +.....  ....--.+....|++.++| ++.|+..+..+.
T Consensus       168 ~~vv~f~~l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s~GdlR~aln~Le~l~  223 (472)
T PRK14962        168 CQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVW  223 (472)
T ss_pred             cEEEEECCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            56899999998886  111100  0111123455677777754 567776665543

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.30  E-value=0.0011  Score=75.00  Aligned_cols=159  Identities=16%  Similarity=0.164  Sum_probs=96.7

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc-------------------cccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV-------------------KRNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-------------------~~~F~~~  184 (876)
                      .++||-+..++.+..++....     -...+-++|+.|+||||+|+.+.+.---                   ...|.-+
T Consensus        16 ~divGq~~v~~~L~~~~~~~~-----l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~   90 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQY-----LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDL   90 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-----CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceE
Confidence            469999999999999886532     3356789999999999999888762111                   1123334


Q ss_pred             EEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHh-hCC
Q 042981          185 IWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARM-MGS  248 (876)
Q Consensus       185 ~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~-~~~  248 (876)
                      +.+..+....+..+ +.+++.              +|+|..-+.+..+.++..+.......++|++|.+ ..+... .+.
T Consensus        91 ~eidaas~~~v~~i-R~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SR  169 (509)
T PRK14958         91 FEVDAASRTKVEDT-RELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSR  169 (509)
T ss_pred             EEEcccccCCHHHH-HHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHH
Confidence            55554444444433 334432              8888776666777788887776667777766544 333322 223


Q ss_pred             cceEeCCCCCcccc------ccCCCcCCccchHHHHHHHHHHcCCCch
Q 042981          249 TNIIFIEQLTEEES------FSGRSFEDCEKLEPIGRKIARKCKGLPL  290 (876)
Q Consensus       249 ~~~~~l~~L~~~~~------~f~~~~~~~~~l~~~~~~i~~~c~GlPl  290 (876)
                      ...+++++++.++-      .+....  ..--......|++.++|-+-
T Consensus       170 c~~~~f~~l~~~~i~~~l~~il~~eg--i~~~~~al~~ia~~s~GslR  215 (509)
T PRK14958        170 CLQFHLAQLPPLQIAAHCQHLLKEEN--VEFENAALDLLARAANGSVR  215 (509)
T ss_pred             hhhhhcCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCcHH
Confidence            46788888887764      111111  11112334566777777653

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=97.30  E-value=0.0014  Score=66.52  Aligned_cols=107  Identities=17%  Similarity=0.187  Sum_probs=56.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHHh----ccccccCCccChhhHHhhhc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEG----LDDVWDGDYNKWEPFFHCLK  225 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~----lDdvw~~~~~~~~~l~~~l~  225 (876)
                      ....+.|+|..|+|||+||+++++... .... ...+++..+....   ....-..    +||+..-+...-+.+...+.
T Consensus        41 ~~~~~~l~G~~G~GKT~La~ai~~~~~-~~~~-~~~~i~~~~~~~~---~~~~~~~~~liiDdi~~l~~~~~~~L~~~~~  115 (227)
T PRK08903         41 ADRFFYLWGEAGSGRSHLLQALVADAS-YGGR-NARYLDAASPLLA---FDFDPEAELYAVDDVERLDDAQQIALFNLFN  115 (227)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH-hCCC-cEEEEehHHhHHH---HhhcccCCEEEEeChhhcCchHHHHHHHHHH
Confidence            345788999999999999999998321 2222 3445554432211   1111111    78885433222233444443


Q ss_pred             cC-CCCC-EEEEEcCchHHHH--------hhCCcceEeCCCCCccc
Q 042981          226 HG-LHGS-KILLTTRNESVAR--------MMGSTNIIFIEQLTEEE  261 (876)
Q Consensus       226 ~~-~~gs-~iivTTR~~~v~~--------~~~~~~~~~l~~L~~~~  261 (876)
                      .. ..|. .||+|++......        .+.....+++.++++++
T Consensus       116 ~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~  161 (227)
T PRK08903        116 RVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDAD  161 (227)
T ss_pred             HHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHH
Confidence            21 2344 3666666432221        22224678888888764

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.29  E-value=0.0011  Score=76.18  Aligned_cols=166  Identities=18%  Similarity=0.182  Sum_probs=100.0

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccc-------------------ccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVK-------------------RNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-------------------~~F~~~  184 (876)
                      .++||.+..++.+...+....     -...+-++|..|+||||+|+.+.+.-...                   +.|.-.
T Consensus        16 ~divGQe~vv~~L~~~l~~~r-----l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~   90 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGR-----LHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDL   90 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCc
Confidence            469999988888888776431     23556799999999999999887631110                   112223


Q ss_pred             EEEEeCCchh---HHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHh-hCCc
Q 042981          185 IWVCVSDTFE---EIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARM-MGST  249 (876)
Q Consensus       185 ~wv~vs~~~~---~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~-~~~~  249 (876)
                      +.+..+....   ++++...+...          +|++..-+....+.++..+-......++|++|.+ ..+... .+..
T Consensus        91 ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SRC  170 (647)
T PRK07994         91 IEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC  170 (647)
T ss_pred             eeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhhh
Confidence            3444332222   23333332211          8888776666788888888776666666665554 444432 2346


Q ss_pred             ceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHHH
Q 042981          250 NIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAKA  294 (876)
Q Consensus       250 ~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~~  294 (876)
                      ..|++++++.++.  ......  +....-......|++.++|.+--+..
T Consensus       171 ~~~~f~~Ls~~ei~~~L~~il~~e~i~~e~~aL~~Ia~~s~Gs~R~Al~  219 (647)
T PRK07994        171 LQFHLKALDVEQIRQQLEHILQAEQIPFEPRALQLLARAADGSMRDALS  219 (647)
T ss_pred             eEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHH
Confidence            7999999999887  111100  11112234557788999997754433

>PRK04195 replication factor C large subunit; Provisional

Probab=97.27  E-value=0.0052  Score=69.83  Aligned_cols=158  Identities=21%  Similarity=0.172  Sum_probs=89.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAII  203 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  203 (876)
                      .+++|.++.++++.+|+..-..  ....+.+-|+|++|+||||+|++++++  ..  |+ .+-+..++...... ...++
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~--g~~~~~lLL~GppG~GKTtla~ala~e--l~--~~-~ielnasd~r~~~~-i~~~i   85 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLK--GKPKKALLLYGPPGVGKTSLAHALAND--YG--WE-VIELNASDQRTADV-IERVA   85 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhc--CCCCCeEEEECCCCCCHHHHHHHHHHH--cC--CC-EEEEcccccccHHH-HHHHH
Confidence            4699999999999999865321  123678999999999999999999984  21  33 22334444322222 22221


Q ss_pred             Hh----------------ccccccCCc----cChhhHHhhhccCCCCCEEEEEcCch-HHHH-hh-CCcceEeCCCCCcc
Q 042981          204 EG----------------LDDVWDGDY----NKWEPFFHCLKHGLHGSKILLTTRNE-SVAR-MM-GSTNIIFIEQLTEE  260 (876)
Q Consensus       204 ~~----------------lDdvw~~~~----~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~-~~-~~~~~~~l~~L~~~  260 (876)
                      ..                +|++..-..    ..+..+...+...  +..||+|+.+. .+.. .. .....+++.+++.+
T Consensus        86 ~~~~~~~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~--~~~iIli~n~~~~~~~k~Lrsr~~~I~f~~~~~~  163 (482)
T PRK04195         86 GEAATSGSLFGARRKLILLDEVDGIHGNEDRGGARAILELIKKA--KQPIILTANDPYDPSLRELRNACLMIEFKRLSTR  163 (482)
T ss_pred             HHhhccCcccCCCCeEEEEecCcccccccchhHHHHHHHHHHcC--CCCEEEeccCccccchhhHhccceEEEecCCCHH
Confidence            11                677754321    2345555555532  34466666432 1111 11 23457888888877


Q ss_pred             cc------ccCCCcCCccchHHHHHHHHHHcCCCchHHH
Q 042981          261 ES------FSGRSFEDCEKLEPIGRKIARKCKGLPLAAK  293 (876)
Q Consensus       261 ~~------~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~  293 (876)
                      +.      .+....  ..--.+....|++.++|-.-++.
T Consensus       164 ~i~~~L~~i~~~eg--i~i~~eaL~~Ia~~s~GDlR~ai  200 (482)
T PRK04195        164 SIVPVLKRICRKEG--IECDDEALKEIAERSGGDLRSAI  200 (482)
T ss_pred             HHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHH
Confidence            75      111111  11123566788888888554443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.26  E-value=0.0015  Score=74.83  Aligned_cols=163  Identities=17%  Similarity=0.177  Sum_probs=98.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc------------------------cc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV------------------------KR  179 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~------------------------~~  179 (876)
                      +++||-+..++.+..++....     -...+-++|..|+||||+|+.+.+.--.                        .+
T Consensus        16 ~dviGQe~vv~~L~~~l~~~r-----l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g   90 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQR-----LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSG   90 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcC
Confidence            468998888888888876532     3467789999999999999888431100                        01


Q ss_pred             cCCeEEEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEc-CchHHHH
Q 042981          180 NFEKVIWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTT-RNESVAR  244 (876)
Q Consensus       180 ~F~~~~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTT-R~~~v~~  244 (876)
                      .|.-.+++..+....+..+ +++++.              +|+|..-+.+.++.++..+.......++|++| ....+..
T Consensus        91 ~h~D~~eldaas~~~Vd~i-Reli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~  169 (618)
T PRK14951         91 RFVDYTELDAASNRGVDEV-QQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPV  169 (618)
T ss_pred             CCCceeecCcccccCHHHH-HHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhH
Confidence            2223344444433333222 333332              89998777677888888777765666666555 4344443


Q ss_pred             h-hCCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHH
Q 042981          245 M-MGSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAA  292 (876)
Q Consensus       245 ~-~~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai  292 (876)
                      . ......+++++++.++.  +.....  ....--.+....|++.++|-+--+
T Consensus       170 TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~ie~~AL~~La~~s~GslR~a  222 (618)
T PRK14951        170 TVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLARAARGSMRDA  222 (618)
T ss_pred             HHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHH
Confidence            2 33467899999998876  221100  111112345677777888766433

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=97.26  E-value=0.0012  Score=75.64  Aligned_cols=162  Identities=15%  Similarity=0.184  Sum_probs=94.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc-------------------cccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV-------------------KRNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-------------------~~~F~~~  184 (876)
                      .++||.+..++.+..++....     -.+.+-++|..|+||||+|+.+.+.-..                   ...|...
T Consensus        16 ddIIGQe~vv~~L~~ai~~~r-----l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~Dv   90 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGR-----LHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDL   90 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccce
Confidence            479999999999999887532     2457889999999999999988652100                   0112222


Q ss_pred             EEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-hCC
Q 042981          185 IWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-MGS  248 (876)
Q Consensus       185 ~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-~~~  248 (876)
                      +.+..+....+. ..+++++.              +|++..-+....+.++..+.......++|++|.+. .+... .+.
T Consensus        91 lEidaAs~~gVd-~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSR  169 (709)
T PRK08691         91 LEIDAASNTGID-NIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSR  169 (709)
T ss_pred             EEEeccccCCHH-HHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHH
Confidence            344434333332 22333332              78886555445666777776555566777776543 33221 223


Q ss_pred             cceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchH
Q 042981          249 TNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLA  291 (876)
Q Consensus       249 ~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPla  291 (876)
                      ...|++.+++.++.  +.....  +...--.+....|++.++|-+.-
T Consensus       170 C~~f~f~~Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A~GslRd  216 (709)
T PRK08691        170 CLQFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRD  216 (709)
T ss_pred             HhhhhcCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCHHH
Confidence            45778888888775  111100  01111234567778888877643

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=97.25  E-value=0.0026  Score=68.79  Aligned_cols=166  Identities=14%  Similarity=0.059  Sum_probs=102.6

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCc-----ccc-------------------
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNND-----EVK-------------------  178 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~-----~~~-------------------  178 (876)
                      -.+++|.++.++.+.+.+....     -...+-++|+.|+||+|+|..+.+.-     .-.                   
T Consensus        18 ~~~iiGq~~~~~~L~~~~~~~r-----l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c   92 (365)
T PRK07471         18 TTALFGHAAAEAALLDAYRSGR-----LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVA   92 (365)
T ss_pred             hhhccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHH
Confidence            3579999999898988887532     34568899999999999997665410     000                   


Q ss_pred             -----ccCCeEEEEEe--CC-------chhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCC
Q 042981          179 -----RNFEKVIWVCV--SD-------TFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHG  230 (876)
Q Consensus       179 -----~~F~~~~wv~v--s~-------~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~g  230 (876)
                           ....-..||.-  .+       ...+.. .+++.+.              +|++..-+......+...+.....+
T Consensus        93 ~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~  171 (365)
T PRK07471         93 RRIAAGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPAR  171 (365)
T ss_pred             HHHHccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCC
Confidence                 11122334431  01       122222 2333332              8888777777778888888776667


Q ss_pred             CEEEEEcCch-HHHHh-hCCcceEeCCCCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHHHHhh
Q 042981          231 SKILLTTRNE-SVARM-MGSTNIIFIEQLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATG  296 (876)
Q Consensus       231 s~iivTTR~~-~v~~~-~~~~~~~~l~~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~~  296 (876)
                      ..+|++|.+. .+... .+....+.+.+++.++.  +........  .......+++.++|.|..+..+.
T Consensus       172 ~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~--~~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        172 SLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDL--PDDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             eEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccC--CHHHHHHHHHHcCCCHHHHHHHh
Confidence            7777777765 33322 23467999999999998  222211111  11222678999999998665553

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

Probab=97.25  E-value=0.00054  Score=74.30  Aligned_cols=68  Identities=18%  Similarity=0.141  Sum_probs=54.0

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVA  199 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~  199 (876)
                      .++++.++..+.++..|...        +.|.++|++|+|||++|+++++.......|+.+.||++++.++..++.
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--------~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI  242 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--------KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFI  242 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--------CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHh
Confidence            45788888999999888742        457789999999999999999854444568889999999887755543

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=97.25  E-value=0.0016  Score=73.64  Aligned_cols=168  Identities=14%  Similarity=0.149  Sum_probs=97.0

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccc-------------------ccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVK-------------------RNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-------------------~~F~~~  184 (876)
                      .+++|.+..++.+...+....     -.+.+-++|+.|+||||+|+.+.+.-.-.                   ......
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~r-----l~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~Di   90 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNK-----LTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSVDI   90 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCCce
Confidence            468999999999988886432     34668899999999999999886521100                   001123


Q ss_pred             EEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEc-CchHHHHh-hCC
Q 042981          185 IWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTT-RNESVARM-MGS  248 (876)
Q Consensus       185 ~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTT-R~~~v~~~-~~~  248 (876)
                      .++..+....+..+ +.+++.              +|++..-+...++.+...+........+|++| ....+... ...
T Consensus        91 ieIdaas~igVd~I-ReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~SR  169 (605)
T PRK05896         91 VELDAASNNGVDEI-RNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISR  169 (605)
T ss_pred             EEeccccccCHHHH-HHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHHhh
Confidence            44543332322222 233322              78886655567777888777665566666555 33344332 234


Q ss_pred             cceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCc-hHHHHhhh
Q 042981          249 TNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLP-LAAKATGN  297 (876)
Q Consensus       249 ~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlP-lai~~~~~  297 (876)
                      ...+++.+++.++.  +.....  ....--.+.+..+++.++|-+ .|+..+-.
T Consensus       170 cq~ieF~~Ls~~eL~~~L~~il~kegi~Is~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        170 CQRYNFKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             hhhcccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            56889999988876  111100  000111344567777777744 44444443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.24  E-value=0.0018  Score=72.04  Aligned_cols=161  Identities=19%  Similarity=0.194  Sum_probs=96.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC------cc------------cc-ccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN------DE------------VK-RNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~------~~------------~~-~~F~~~  184 (876)
                      .++||.+..++.+...+..+     .-.+-+-++|..|+||||+|+.+.+-      +.            +. ..+.-+
T Consensus        13 ~dliGQe~vv~~L~~a~~~~-----ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv   87 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLN-----KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV   87 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence            56899888877777766542     12357889999999999999888651      00            11 123334


Q ss_pred             EEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcC-chHHHHhh-CC
Q 042981          185 IWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTR-NESVARMM-GS  248 (876)
Q Consensus       185 ~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR-~~~v~~~~-~~  248 (876)
                      +.+..+....+..+ +.+++.              +|++..-+.+..+.+...+.......++|++|. .+.+...+ ..
T Consensus        88 ~eidaas~~~vddI-R~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~SR  166 (491)
T PRK14964         88 IEIDAASNTSVDDI-KVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISR  166 (491)
T ss_pred             EEEecccCCCHHHH-HHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHHh
Confidence            55565544443332 333332              788866555567778888877767777776654 34554432 34


Q ss_pred             cceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCch
Q 042981          249 TNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPL  290 (876)
Q Consensus       249 ~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPl  290 (876)
                      ...+++++++.++-  +.....  +...--.+....|++.++|-+-
T Consensus       167 c~~~~f~~l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~GslR  212 (491)
T PRK14964        167 CQRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMR  212 (491)
T ss_pred             heeeecccccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH
Confidence            57888888888775  111100  0111123345567777776553

>TIGR00767 rho transcription termination factor Rho

Probab=97.23  E-value=0.00046  Score=73.55  Aligned_cols=52  Identities=19%  Similarity=0.040  Sum_probs=43.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCc--hhHHHHHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT--FEEIRVANAIIE  204 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~~~~~i~~  204 (876)
                      +.++|+|.+|.|||||++.+++.... ++|+..+||.+++.  .++.++++.++.
T Consensus       169 q~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg  222 (415)
T TIGR00767       169 QRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKG  222 (415)
T ss_pred             CEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhc
Confidence            57899999999999999999995333 37999999999976  788888888844

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

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.23  E-value=0.0024  Score=69.99  Aligned_cols=166  Identities=14%  Similarity=0.130  Sum_probs=95.1

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc--------------------cccCCe
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV--------------------KRNFEK  183 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--------------------~~~F~~  183 (876)
                      .+++|.+..++.+.+++....     -.+.+-++|..|+||||+|+.+.+.-.-                    ..+|+.
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~-----~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~   88 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGR-----IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV   88 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE
Confidence            468999999999998886432     3457789999999999999887653110                    113333


Q ss_pred             EEEEEeCCch---hHHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH-HHHhh-CC
Q 042981          184 VIWVCVSDTF---EEIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES-VARMM-GS  248 (876)
Q Consensus       184 ~~wv~vs~~~---~~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~~~~-~~  248 (876)
                       .++.-+...   +.+++...+...          +|++..-....++.+...+........+|++|.+.+ +...+ ..
T Consensus        89 -~~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~sr  167 (355)
T TIGR02397        89 -IEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSR  167 (355)
T ss_pred             -EEeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHhh
Confidence             344333211   233344332221          677644433456667777766556677777765543 33222 23


Q ss_pred             cceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHHHh
Q 042981          249 TNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAKAT  295 (876)
Q Consensus       249 ~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~~~  295 (876)
                      ...+++.++++++.  +.....  ....--.+....+++.++|-|..+...
T Consensus       168 ~~~~~~~~~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g~~~~a~~~  218 (355)
T TIGR02397       168 CQRFDFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSL  218 (355)
T ss_pred             eeEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCChHHHHHH
Confidence            45778888877765  111100  000111356677778888877554433

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.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.21  E-value=0.0013  Score=72.58  Aligned_cols=166  Identities=14%  Similarity=0.124  Sum_probs=96.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccc-------------------------
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVK-------------------------  178 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-------------------------  178 (876)
                      .+++|.+..++.+..++..+     .-...+-++|+.|+||||+|+.+.+.-.-.                         
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~-----~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~   90 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMG-----RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDF   90 (397)
T ss_pred             hhccChHHHHHHHHHHHHhC-----CcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHH
Confidence            46899888888888877642     123557799999999999998876521110                         


Q ss_pred             ---ccCCeEEEEEeCCch---hHHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEc-CchH
Q 042981          179 ---RNFEKVIWVCVSDTF---EEIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTT-RNES  241 (876)
Q Consensus       179 ---~~F~~~~wv~vs~~~---~~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTT-R~~~  241 (876)
                         .+++.. .+.-+...   +++++...+...          +|++..-+.+.|+.+...+......+.+|++| +...
T Consensus        91 ~~~~~~n~~-~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~k  169 (397)
T PRK14955         91 DAGTSLNIS-EFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHK  169 (397)
T ss_pred             hcCCCCCeE-eecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHH
Confidence               122222 22221222   222232222111          78876555557888888887766677766655 4444


Q ss_pred             HHHhhC-CcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCch-HHHHh
Q 042981          242 VARMMG-STNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPL-AAKAT  295 (876)
Q Consensus       242 v~~~~~-~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPl-ai~~~  295 (876)
                      +..... ....++++++++++.  +.....  ....--.+.+..+++.++|-+- |+..+
T Consensus       170 l~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~~s~g~lr~a~~~L  229 (397)
T PRK14955        170 IPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSIL  229 (397)
T ss_pred             hHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            443322 245788999988776  222111  1111224567888899999664 44433

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=97.18  E-value=0.0027  Score=62.31  Aligned_cols=134  Identities=15%  Similarity=0.118  Sum_probs=80.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccc--------------------ccCCeEEEEEeC-CchhHHHHHHHHHHh----
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVK--------------------RNFEKVIWVCVS-DTFEEIRVANAIIEG----  205 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~--------------------~~F~~~~wv~vs-~~~~~~~~~~~i~~~----  205 (876)
                      ...+-++|..|+||||+|+.+.+.-.-.                    .+.|. .++... .....+.+ +++++.    
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~-~~~~~~~~~~~~~~i-~~i~~~~~~~   91 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDL-HRLEPEGQSIKVDQV-RELVEFLSRT   91 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcE-EEeccccCcCCHHHH-HHHHHHHccC
Confidence            3678899999999999998876521111                    12222 333322 22333232 233332    


Q ss_pred             ----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHhh-CCcceEeCCCCCcccc--ccCCCcCCc
Q 042981          206 ----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARMM-GSTNIIFIEQLTEEES--FSGRSFEDC  271 (876)
Q Consensus       206 ----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~~-~~~~~~~l~~L~~~~~--~f~~~~~~~  271 (876)
                                +|++..-+.+.++.+...+......+.+|++|++. .+...+ .....+++.+++.++.  +.....   
T Consensus        92 ~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~g---  168 (188)
T TIGR00678        92 PQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQG---  168 (188)
T ss_pred             cccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHcC---
Confidence                      78776555556777888887766677777777654 333222 2356899999998886  222111   


Q ss_pred             cchHHHHHHHHHHcCCCch
Q 042981          272 EKLEPIGRKIARKCKGLPL  290 (876)
Q Consensus       272 ~~l~~~~~~i~~~c~GlPl  290 (876)
                       --.+.+..|++.++|.|.
T Consensus       169 -i~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       169 -ISEEAAELLLALAGGSPG  186 (188)
T ss_pred             -CCHHHHHHHHHHcCCCcc
Confidence             124567888888988775

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.

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

Probab=97.17  E-value=1.3e-05  Score=88.56  Aligned_cols=126  Identities=21%  Similarity=0.262  Sum_probs=96.2

Q ss_pred             CCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP  521 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp  521 (876)
                      +.++...+.++|.+..+-.++.-++.|++|+++.|.      ...  -+.+..++.|++|||         +.|.+..+|
T Consensus       163 Wn~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk------~~~--v~~Lr~l~~LkhLDl---------syN~L~~vp  225 (1096)
T KOG1859|consen  163 WNKLATASFSYNRLVLMDESLQLLPALESLNLSHNK------FTK--VDNLRRLPKLKHLDL---------SYNCLRHVP  225 (1096)
T ss_pred             hhhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhh------hhh--hHHHHhccccccccc---------ccchhcccc
Confidence            567777888888877666777788999999998776      122  225788999999999         667777777


Q ss_pred             cc-cccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccc--ccccCcCCCceEecCCCCC
Q 042981          522 EN-VRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELP--AGIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       522 ~~-i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp--~~i~~L~~L~~L~l~~~~~  587 (876)
                      .- ...+ +|..|+|++|.++++- .|.+|++|+.||+++|- +...-  .-++.|..|+.|+|.||++
T Consensus       226 ~l~~~gc-~L~~L~lrnN~l~tL~-gie~LksL~~LDlsyNl-l~~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  226 QLSMVGC-KLQLLNLRNNALTTLR-GIENLKSLYGLDLSYNL-LSEHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             ccchhhh-hheeeeecccHHHhhh-hHHhhhhhhccchhHhh-hhcchhhhHHHHHHHHHHHhhcCCcc
Confidence            32 2233 4999999999999884 58999999999999983 33211  2267888999999999965

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

Probab=97.16  E-value=0.0001  Score=72.20  Aligned_cols=67  Identities=22%  Similarity=0.202  Sum_probs=43.7

Q ss_pred             ccccccCcccCeeeccCcccc----ccc-------hhhccCCcccEEeecCCCCCcccccc----ccCcCCCceEecCCC
Q 042981          521 PENVRKLIHLKYLNLSELCIE----RLP-------KTLCELYNLQKLDIRWCEDLRELPAG----IGKLKKMRSLLNGGT  585 (876)
Q Consensus       521 p~~i~~L~~Lr~L~Ls~~~i~----~lp-------~~i~~L~~L~~L~L~~~~~l~~lp~~----i~~L~~L~~L~l~~~  585 (876)
                      ...|.+-.+|+..+++.-...    ++|       +.+-+|++|++.+|+.|-.-...|..    |++-+.|.||.+++|
T Consensus        51 ~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~Nn  130 (388)
T COG5238          51 CNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNN  130 (388)
T ss_pred             HHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecC
Confidence            344444556666666543211    233       34567899999999988666565554    467788999999988


Q ss_pred             CC
Q 042981          586 PL  587 (876)
Q Consensus       586 ~~  587 (876)
                      .+
T Consensus       131 Gl  132 (388)
T COG5238         131 GL  132 (388)
T ss_pred             CC
Confidence            44

>COG3899 Predicted ATPase [General function prediction only]

Probab=97.16  E-value=0.0009  Score=80.53  Aligned_cols=222  Identities=16%  Similarity=0.170  Sum_probs=126.8

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeC---Cc--h-hHHHH
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVS---DT--F-EEIRV  198 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs---~~--~-~~~~~  198 (876)
                      .++||+.+.+.+...+.....   ..-.|+.+.|..|||||+|++.|..  .+.+.+...+--..+   .+  + .....
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~---g~~~~~lv~G~sGIGKsalv~ev~~--~i~~~~~~~i~~~f~q~~~~ipl~~lvq~   75 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSK---GRGEVVLVAGESGIGKSALVNEVHK--PITQQRGYFIKGKFDQFERNIPLSPLVQA   75 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhC---CCeEEEEEeecCCCcHHHHHHHHHH--HHhccceeeeHhhcccccCCCchHHHHHH
Confidence            378999999999998876542   3557999999999999999999987  444332211111111   11  1 11122


Q ss_pred             HHHHHHh-------------------------------------------------------------------------
Q 042981          199 ANAIIEG-------------------------------------------------------------------------  205 (876)
Q Consensus       199 ~~~i~~~-------------------------------------------------------------------------  205 (876)
                      +++++.+                                                                         
T Consensus        76 ~r~l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~p  155 (849)
T COG3899          76 FRDLMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHP  155 (849)
T ss_pred             HHHHHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCC
Confidence            2222221                                                                         


Q ss_pred             ----ccccccCCccChhhHHhhhccCC----CCCEEEE--EcCch-HHHH-hhCCcceEeCCCCCcccc------ccCCC
Q 042981          206 ----LDDVWDGDYNKWEPFFHCLKHGL----HGSKILL--TTRNE-SVAR-MMGSTNIIFIEQLTEEES------FSGRS  267 (876)
Q Consensus       206 ----lDdvw~~~~~~~~~l~~~l~~~~----~gs~iiv--TTR~~-~v~~-~~~~~~~~~l~~L~~~~~------~f~~~  267 (876)
                          +||+..-|....+-+......-.    ....|..  |.+.. .... .-.....+.+.||+..+.      .++..
T Consensus       156 lVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~  235 (849)
T COG3899         156 LVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCT  235 (849)
T ss_pred             eEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCc
Confidence                67873333222222222222211    0112333  22322 1111 122357899999999987      23321


Q ss_pred             cCCccchHHHHHHHHHHcCCCchHHHHhhhhhcCC------ccHHHHHHHhhhhhccccccCCcchhhHhhcccCCCCch
Q 042981          268 FEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSK------SILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNS  341 (876)
Q Consensus       268 ~~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L~~~------~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~  341 (876)
                         .....+..+.|++|-+|.|+-+.-+-..+...      .+...|..-..+.  ......+.+...+..-.+.||.  
T Consensus       236 ---~~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i--~~~~~~~~vv~~l~~rl~kL~~--  308 (849)
T COG3899         236 ---KLLPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASL--GILATTDAVVEFLAARLQKLPG--  308 (849)
T ss_pred             ---ccccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhc--CCchhhHHHHHHHHHHHhcCCH--
Confidence               34456788999999999999998888777653      2233343211110  0011112244456777889998  


Q ss_pred             hHHHHHhHhccCCCCce
Q 042981          342 MVKRCFSYCAIFPKEYN  358 (876)
Q Consensus       342 ~lk~cfly~~~fp~~~~  358 (876)
                      ..++..-..|++...+.
T Consensus       309 ~t~~Vl~~AA~iG~~F~  325 (849)
T COG3899         309 TTREVLKAAACIGNRFD  325 (849)
T ss_pred             HHHHHHHHHHHhCccCC
Confidence            78888888888865544

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.15  E-value=0.0021  Score=70.66  Aligned_cols=161  Identities=15%  Similarity=0.107  Sum_probs=92.3

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc--cC-----------------CeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR--NF-----------------EKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~F-----------------~~~  184 (876)
                      .++||.+..++.+..++....     -...+-++|..|+||||+|+.+.+.-....  .+                 ..+
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~r-----i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~dv   92 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGK-----IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGISSDV   92 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccCCccc
Confidence            468999988888888876432     234678999999999999999976311100  00                 011


Q ss_pred             EEEEeCCch---hHHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEE-EcCchHHHHh-hCCc
Q 042981          185 IWVCVSDTF---EEIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILL-TTRNESVARM-MGST  249 (876)
Q Consensus       185 ~wv~vs~~~---~~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iiv-TTR~~~v~~~-~~~~  249 (876)
                      +.+......   +++++...+...          +|++..-+.+.++.++..+........+|+ ||....+... .+..
T Consensus        93 iEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SRC  172 (484)
T PRK14956         93 LEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRC  172 (484)
T ss_pred             eeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhhh
Confidence            122221222   222333332211          788877666778888887766555555554 4444455333 2345


Q ss_pred             ceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCc
Q 042981          250 NIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLP  289 (876)
Q Consensus       250 ~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlP  289 (876)
                      ..|.+.+++.++-  ......  +...--.+....|++.++|-+
T Consensus       173 q~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S~Gd~  216 (484)
T PRK14956        173 QDFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGSV  216 (484)
T ss_pred             heeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCChH
Confidence            6899999987765  111100  111112345567777787766

>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=97.13  E-value=0.001  Score=66.67  Aligned_cols=133  Identities=17%  Similarity=0.257  Sum_probs=65.2

Q ss_pred             Cceeecc-chHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCC--eEEEEEeCCchhHH--H-
Q 042981          124 GEVCGRV-DEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE--KVIWVCVSDTFEEI--R-  197 (876)
Q Consensus       124 ~~~vGr~-~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~--~~~wv~vs~~~~~~--~-  197 (876)
                      +.++|-. +..-...+.+....   +.....+.|+|..|+|||.|.+++++  ++.+...  .+++++..+ |...  . 
T Consensus         9 nfv~g~~N~~a~~~~~~ia~~~---~~~~~~l~l~G~~G~GKTHLL~Ai~~--~~~~~~~~~~v~y~~~~~-f~~~~~~~   82 (219)
T PF00308_consen    9 NFVVGESNELAYAAAKAIAENP---GERYNPLFLYGPSGLGKTHLLQAIAN--EAQKQHPGKRVVYLSAEE-FIREFADA   82 (219)
T ss_dssp             CS--TTTTHHHHHHHHHHHHST---TTSSSEEEEEESTTSSHHHHHHHHHH--HHHHHCTTS-EEEEEHHH-HHHHHHHH
T ss_pred             cCCcCCcHHHHHHHHHHHHhcC---CCCCCceEEECCCCCCHHHHHHHHHH--HHHhccccccceeecHHH-HHHHHHHH
Confidence            3455642 22333444444332   22445678999999999999999998  4443322  355555432 2110  0 


Q ss_pred             H-------HHHHHHh-----ccccccCCc-cChhh-HHhhhcc-CCCCCEEEEEcCch---------HHHHhhCCcceEe
Q 042981          198 V-------ANAIIEG-----LDDVWDGDY-NKWEP-FFHCLKH-GLHGSKILLTTRNE---------SVARMMGSTNIIF  253 (876)
Q Consensus       198 ~-------~~~i~~~-----lDdvw~~~~-~~~~~-l~~~l~~-~~~gs~iivTTR~~---------~v~~~~~~~~~~~  253 (876)
                      +       +++-++.     +||+..-.. ..|.. +...+.. ...|-+||+|++..         ++...+...-+++
T Consensus        83 ~~~~~~~~~~~~~~~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~  162 (219)
T PF00308_consen   83 LRDGEIEEFKDRLRSADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVE  162 (219)
T ss_dssp             HHTTSHHHHHHHHCTSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEE
T ss_pred             HHcccchhhhhhhhcCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhh
Confidence            0       1111111     899865432 23433 2232222 13467899999632         2333344455777


Q ss_pred             CCCCCcccc
Q 042981          254 IEQLTEEES  262 (876)
Q Consensus       254 l~~L~~~~~  262 (876)
                      +++++.++.
T Consensus       163 l~~pd~~~r  171 (219)
T PF00308_consen  163 LQPPDDEDR  171 (219)
T ss_dssp             E----HHHH
T ss_pred             cCCCCHHHH
Confidence            777765553

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.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.13  E-value=0.0024  Score=73.36  Aligned_cols=163  Identities=17%  Similarity=0.142  Sum_probs=97.1

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc------------------------
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR------------------------  179 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------------  179 (876)
                      .+++|.+..++.+...+..+.     -..-+-++|..|+||||+|+.+.+.-....                        
T Consensus        24 ~dliGq~~~v~~L~~~~~~gr-----i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i~~g   98 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGR-----IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAIMEG   98 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHHhcC
Confidence            479999999999998886532     345688999999999999998876211000                        


Q ss_pred             cCCeEEEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEc-CchHHHH
Q 042981          180 NFEKVIWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTT-RNESVAR  244 (876)
Q Consensus       180 ~F~~~~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTT-R~~~v~~  244 (876)
                      ...-++++.......+.. .+.|++.              +|++..-+....+.+...+.....++++|++| ..+.+..
T Consensus        99 ~h~Dv~e~~a~s~~gvd~-IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~  177 (598)
T PRK09111         99 RHVDVLEMDAASHTGVDD-IREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPV  177 (598)
T ss_pred             CCCceEEecccccCCHHH-HHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhH
Confidence            111233444333333333 2334333              78876555556777887777766677776655 4444443


Q ss_pred             hh-CCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHH
Q 042981          245 MM-GSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAA  292 (876)
Q Consensus       245 ~~-~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai  292 (876)
                      .+ .....+++.+++.++.  +.....  ....--.+....|++.++|-+.-+
T Consensus       178 tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~Gdlr~a  230 (598)
T PRK09111        178 TVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVEDEALALIARAAEGSVRDG  230 (598)
T ss_pred             HHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHH
Confidence            32 2356889999988776  221110  011112345667777888766444

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=97.12  E-value=0.0051  Score=66.13  Aligned_cols=168  Identities=14%  Similarity=0.078  Sum_probs=100.1

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc-----c--cc---------------
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV-----K--RN---------------  180 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-----~--~~---------------  180 (876)
                      -..++|-++..+.+...+....     -...+-|+|..|+||||+|..+.+.---     .  ..               
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~gr-----l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i~   96 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREGK-----LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQIA   96 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcCC-----CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHHH
Confidence            4569999999999998886532     3456889999999999999877652110     0  00               


Q ss_pred             ---CCeEEEEEeC---------CchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEE
Q 042981          181 ---FEKVIWVCVS---------DTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKIL  234 (876)
Q Consensus       181 ---F~~~~wv~vs---------~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~ii  234 (876)
                         .+...++...         +...+.. .+.+.+.              +|++..-+....+.+...+........+|
T Consensus        97 ~~~hPdl~~l~~~~~~~~~~~~~~I~vd~-iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fi  175 (351)
T PRK09112         97 QGAHPNLLHITRPFDEKTGKFKTAITVDE-IRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFI  175 (351)
T ss_pred             cCCCCCEEEeecccccccccccccCCHHH-HHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEE
Confidence               0011223211         1111222 2233322              78887766667777888777655555655


Q ss_pred             EEcCc-hHHHHhh-CCcceEeCCCCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHHHHhh
Q 042981          235 LTTRN-ESVARMM-GSTNIIFIEQLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATG  296 (876)
Q Consensus       235 vTTR~-~~v~~~~-~~~~~~~l~~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~~  296 (876)
                      ++|.. ..+.... +....+++.+++.++.  +.........--.+....+++.++|.|..+..+.
T Consensus       176 Lit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        176 LISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQGSDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             EEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            55543 3333222 2357999999999998  2221111111124456789999999998765544

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.03  E-value=0.0018  Score=69.68  Aligned_cols=106  Identities=19%  Similarity=0.114  Sum_probs=64.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHH---
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAN---  200 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~---  200 (876)
                      ++++|.++.++.+..++..+     .-..++-++|..|+||||+|+.+++.  ....   ...+..+. .....+..   
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~-----~~~~~lll~G~~G~GKT~la~~l~~~--~~~~---~~~i~~~~-~~~~~i~~~l~   89 (316)
T PHA02544         21 DECILPAADKETFKSIVKKG-----RIPNMLLHSPSPGTGKTTVAKALCNE--VGAE---VLFVNGSD-CRIDFVRNRLT   89 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcC-----CCCeEEEeeCcCCCCHHHHHHHHHHH--hCcc---ceEeccCc-ccHHHHHHHHH
Confidence            56899999999999888642     23467788999999999999999873  2222   23344443 22222111   


Q ss_pred             HHHHh-----------ccccccC-CccChhhHHhhhccCCCCCEEEEEcCch
Q 042981          201 AIIEG-----------LDDVWDG-DYNKWEPFFHCLKHGLHGSKILLTTRNE  240 (876)
Q Consensus       201 ~i~~~-----------lDdvw~~-~~~~~~~l~~~l~~~~~gs~iivTTR~~  240 (876)
                      .....           +|++... ..+..+.+...+.....+.++|+||...
T Consensus        90 ~~~~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~  141 (316)
T PHA02544         90 RFASTVSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNK  141 (316)
T ss_pred             HHHHhhcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCCh
Confidence            11111           7887544 2122233444455555678899988654

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.02  E-value=0.0007  Score=74.05  Aligned_cols=58  Identities=21%  Similarity=0.239  Sum_probs=41.3

Q ss_pred             cCCceeeccchHHHHHHHhhccCCc-------CCCCeEEEEEEecCCchHHHHHHHHHcCccccccC
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSE-------QQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF  181 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F  181 (876)
                      ...++.|+++.+++|.+.+...-..       +-...+-+.++|++|+|||++|+++++  +....|
T Consensus       120 ~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~--~l~~~~  184 (364)
T TIGR01242       120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAH--ETNATF  184 (364)
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHH--hCCCCE
Confidence            3457999999999998877432110       012345688999999999999999998  444443

Many proteins may score above the trusted cutoff because an internal

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

Probab=97.01  E-value=0.00076  Score=61.77  Aligned_cols=57  Identities=26%  Similarity=0.356  Sum_probs=39.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCcccc---ccCCeEEEEEeCCchhHHHHHHHHHHhc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVK---RNFEKVIWVCVSDTFEEIRVANAIIEGL  206 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~F~~~~wv~vs~~~~~~~~~~~i~~~l  206 (876)
                      +-+++.|+|.+|+|||++++++.++....   ..-..++|+.+....+...+...|++++
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l   62 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEAL   62 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHh
Confidence            34788999999999999999998742110   0134567998888778888888888774

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=97.00  E-value=0.0015  Score=65.82  Aligned_cols=158  Identities=18%  Similarity=0.106  Sum_probs=95.5

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEE-EEeCCchhHHHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIW-VCVSDTFEEIRVANAI  202 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~w-v~vs~~~~~~~~~~~i  202 (876)
                      .+++|.+..+.-+.+.+..      ....+.-.+|++|.|||+-|.+..+.---.+.|.+++- .++|+.-...-+-.++
T Consensus        36 de~~gQe~vV~~L~~a~~~------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Ki  109 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLR------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKI  109 (346)
T ss_pred             HhhcchHHHHHHHHHHHhh------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhh
Confidence            4688988888888887765      25688899999999999988777653222345665533 4455432211111110


Q ss_pred             ------HHh----------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHhh-CCcceEeCCCCC
Q 042981          203 ------IEG----------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARMM-GSTNIIFIEQLT  258 (876)
Q Consensus       203 ------~~~----------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~~-~~~~~~~l~~L~  258 (876)
                            ...                ||++..-..+.|..++..+.+....+|.++.+-.- .+..-. +...-|.-++|.
T Consensus       110 k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~KfrFk~L~  189 (346)
T KOG0989|consen  110 KNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFKKLK  189 (346)
T ss_pred             cCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHHHhcCCCcc
Confidence                  000                78887777789999999998877777766655443 222211 224567788888


Q ss_pred             cccc----ccCCCcCCccchHHHHHHHHHHcCC
Q 042981          259 EEES----FSGRSFEDCEKLEPIGRKIARKCKG  287 (876)
Q Consensus       259 ~~~~----~f~~~~~~~~~l~~~~~~i~~~c~G  287 (876)
                      +++.    -+-...+.-+--.+.-+.|++.++|
T Consensus       190 d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S~G  222 (346)
T KOG0989|consen  190 DEDIVDRLEKIASKEGVDIDDDALKLIAKISDG  222 (346)
T ss_pred             hHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCC
Confidence            7766    1111111111223445677777777

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.96  E-value=0.0044  Score=70.62  Aligned_cols=161  Identities=17%  Similarity=0.176  Sum_probs=93.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc-------------------cccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV-------------------KRNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-------------------~~~F~~~  184 (876)
                      .+++|.+..++.+..++....     -.+.+-++|..|+||||+|+.+.+.-..                   ...|.-.
T Consensus        16 ~divGq~~v~~~L~~~i~~~~-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~   90 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQR-----LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDL   90 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            468999998888888887432     2356679999999999999988652111                   0123334


Q ss_pred             EEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHh-hCC
Q 042981          185 IWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARM-MGS  248 (876)
Q Consensus       185 ~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~-~~~  248 (876)
                      +++..+....+.. .+++++.              +|++..-+....+.++..+........+|++|.+ ..+... .+.
T Consensus        91 ~ei~~~~~~~vd~-ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SR  169 (527)
T PRK14969         91 IEVDAASNTQVDA-MRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSR  169 (527)
T ss_pred             eEeeccccCCHHH-HHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHH
Confidence            4554433332222 2333332              7888665555677777777776566777666644 333321 122


Q ss_pred             cceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCch
Q 042981          249 TNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPL  290 (876)
Q Consensus       249 ~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPl  290 (876)
                      ...+++++++.++.  ......  +...--......|++.++|.+-
T Consensus       170 c~~~~f~~l~~~~i~~~L~~il~~egi~~~~~al~~la~~s~Gslr  215 (527)
T PRK14969        170 CLQFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLARAAAGSMR  215 (527)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH
Confidence            46788888887775  111100  0111123345667777777553

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

Probab=96.96  E-value=0.00077  Score=63.56  Aligned_cols=33  Identities=27%  Similarity=0.240  Sum_probs=14.5

Q ss_pred             ccCeeeccCccccccch--hhccCCcccEEeecCC
Q 042981          529 HLKYLNLSELCIERLPK--TLCELYNLQKLDIRWC  561 (876)
Q Consensus       529 ~Lr~L~Ls~~~i~~lp~--~i~~L~~L~~L~L~~~  561 (876)
                      +|..|.|.+|+|.++-+  -+..++.|++|.+-+|
T Consensus        89 ~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltll~N  123 (233)
T KOG1644|consen   89 NLKTLILTNNSIQELGDLDPLASCPKLEYLTLLGN  123 (233)
T ss_pred             ccceEEecCcchhhhhhcchhccCCccceeeecCC
Confidence            34444444444443322  2334444555544444

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

Probab=96.95  E-value=0.00025  Score=69.59  Aligned_cols=193  Identities=20%  Similarity=0.132  Sum_probs=109.8

Q ss_pred             cccCcccCeeeccCcccc-----ccchhhccCCcccEEeecCCCCCc----cccc-------cccCcCCCceEecCCCCC
Q 042981          524 VRKLIHLKYLNLSELCIE-----RLPKTLCELYNLQKLDIRWCEDLR----ELPA-------GIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~-----~lp~~i~~L~~L~~L~L~~~~~l~----~lp~-------~i~~L~~L~~L~l~~~~~  587 (876)
                      +..+..+..++||+|.|.     .+...|.+-.+|+..+++.- ..+    ++|+       .+-++++|+..+|+.|.+
T Consensus        26 l~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~-ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAf  104 (388)
T COG5238          26 LEMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDA-FTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAF  104 (388)
T ss_pred             HHhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhh-hhcccHHHHHHHHHHHHHHHhcCCcceeeecccccc
Confidence            334667788888888776     44555777889999988764 222    2333       356889999999999988


Q ss_pred             CccCCcc----CCCCCCCCccCceeecCccCCCcccccc-ccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceE
Q 042981          588 LKYMPIG----ISKLTSLRTLEKFAMGGGVDDISTCRLE-SLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLS  662 (876)
Q Consensus       588 ~~~~p~~----i~~l~~L~~L~~~~~~~~~~~ls~~~l~-~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~  662 (876)
                      ....|+.    |++-+.|.+|....++-+.  +.+..+. .|-+|                   +......+.+.|+...
T Consensus       105 g~~~~e~L~d~is~~t~l~HL~l~NnGlGp--~aG~rigkal~~l-------------------a~nKKaa~kp~Le~vi  163 (388)
T COG5238         105 GSEFPEELGDLISSSTDLVHLKLNNNGLGP--IAGGRIGKALFHL-------------------AYNKKAADKPKLEVVI  163 (388)
T ss_pred             CcccchHHHHHHhcCCCceeEEeecCCCCc--cchhHHHHHHHHH-------------------HHHhhhccCCCceEEE
Confidence            7666654    4556677777443332221  1111111 01000                   0111233456677777


Q ss_pred             EEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCch--------hhcccCCcEEEEecCCCCCCCC-----CC
Q 042981          663 LEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKW--------LTSLTNLRDLRLKSCVICEHFP-----PL  729 (876)
Q Consensus       663 L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~--------l~~l~~L~~L~L~~~~~~~~lp-----~l  729 (876)
                      ...|.+...+..   ..--.+..+.+|+.+.+..|.+.  |..        +..+++|+.|+|.+|.++..-.     .+
T Consensus       164 cgrNRlengs~~---~~a~~l~sh~~lk~vki~qNgIr--pegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al  238 (388)
T COG5238         164 CGRNRLENGSKE---LSAALLESHENLKEVKIQQNGIR--PEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADAL  238 (388)
T ss_pred             eccchhccCcHH---HHHHHHHhhcCceeEEeeecCcC--cchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHh
Confidence            766665322211   11223344467777777776643  432        2367888888888887643110     12


Q ss_pred             Cccc-CceEeecCCC
Q 042981          730 GKLP-LEKLTLYGLY  743 (876)
Q Consensus       730 ~~Lp-L~~L~L~~~~  743 (876)
                      ...+ |+.|.+..|-
T Consensus       239 ~~W~~lrEL~lnDCl  253 (388)
T COG5238         239 CEWNLLRELRLNDCL  253 (388)
T ss_pred             cccchhhhccccchh
Confidence            3345 6777777664

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.94  E-value=0.0038  Score=72.33  Aligned_cols=160  Identities=17%  Similarity=0.152  Sum_probs=99.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcc---------------------ccccCC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDE---------------------VKRNFE  182 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~---------------------~~~~F~  182 (876)
                      .+++|.+..++.+..++...     .-.+.+-++|..|+||||+|+.+.+.-.                     ...+|+
T Consensus        17 ~~viGq~~~~~~L~~~i~~~-----~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n   91 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATN-----KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYN   91 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCc
Confidence            46999999999999888643     2346678999999999999987765211                     122455


Q ss_pred             eEEEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEc-CchHHHHhh-
Q 042981          183 KVIWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTT-RNESVARMM-  246 (876)
Q Consensus       183 ~~~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTT-R~~~v~~~~-  246 (876)
                      . ..+..+.......+. +++++              +|++..-+.+.++.+...+.....++.+|++| +...+.... 
T Consensus        92 ~-~~ld~~~~~~vd~Ir-~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~  169 (614)
T PRK14971         92 I-HELDAASNNSVDDIR-NLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTIL  169 (614)
T ss_pred             e-EEecccccCCHHHHH-HHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHH
Confidence            3 233444333333332 33322              78876666567888888888766677766554 545554432 


Q ss_pred             CCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCch
Q 042981          247 GSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPL  290 (876)
Q Consensus       247 ~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPl  290 (876)
                      ....++++++++.++.  +.....  ..-.--.+....|++.++|-.-
T Consensus       170 SRc~iv~f~~ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s~gdlr  217 (614)
T PRK14971        170 SRCQIFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADGGMR  217 (614)
T ss_pred             hhhheeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH
Confidence            3467899999999886  221100  0111123456778888888553

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.94  E-value=0.0066  Score=69.42  Aligned_cols=168  Identities=15%  Similarity=0.106  Sum_probs=99.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc----------------------cccC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV----------------------KRNF  181 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~----------------------~~~F  181 (876)
                      .++||.+..++.+..++..+.     -...+-++|..|+||||+|+.+.+.-.-                      ..+.
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~   87 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGR-----INHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSI   87 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCc
Confidence            469999998999888886432     3456789999999999999888752110                      0112


Q ss_pred             CeEEEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEc-CchHHHHh-
Q 042981          182 EKVIWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTT-RNESVARM-  245 (876)
Q Consensus       182 ~~~~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTT-R~~~v~~~-  245 (876)
                      | ++.+..+....+..+ ++|.+.              +|++..-+....+.|+..+........+|++| ....+... 
T Consensus        88 d-vieidaas~~gvd~i-Rel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~TI  165 (584)
T PRK14952         88 D-VVELDAASHGGVDDT-RELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTI  165 (584)
T ss_pred             e-EEEeccccccCHHHH-HHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHHH
Confidence            2 334443332222222 233322              78887666667778888887766666666555 44444433 


Q ss_pred             hCCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCc-hHHHHhhhh
Q 042981          246 MGSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLP-LAAKATGNL  298 (876)
Q Consensus       246 ~~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlP-lai~~~~~~  298 (876)
                      .+....|++.+++.++.  +.....  ....--.+....|++.++|-+ -|+..+-.+
T Consensus       166 ~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i~~~al~~Ia~~s~GdlR~aln~Ldql  223 (584)
T PRK14952        166 RSRTHHYPFRLLPPRTMRALIARICEQEGVVVDDAVYPLVIRAGGGSPRDTLSVLDQL  223 (584)
T ss_pred             HHhceEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            23467899999988775  111100  011112345566777888755 344444443

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=96.92  E-value=0.0048  Score=73.51  Aligned_cols=161  Identities=14%  Similarity=0.093  Sum_probs=98.0

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccc----------------------ccC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVK----------------------RNF  181 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~----------------------~~F  181 (876)
                      .++||.+..++.|..++....     -.+.+-++|..|+||||+|+.+.+.-...                      .++
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~r-----i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~   89 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGR-----INHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSL   89 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCC
Confidence            468999988888888887532     33567899999999999998886532110                      122


Q ss_pred             CeEEEEEeCCchh---HHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEcC-chHHHHhh-
Q 042981          182 EKVIWVCVSDTFE---EIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTR-NESVARMM-  246 (876)
Q Consensus       182 ~~~~wv~vs~~~~---~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR-~~~v~~~~-  246 (876)
                      | ++++.-.....   ++++...+...          ||++..-+.+.++.|+..+......+.+|++|. ...+...+ 
T Consensus        90 d-v~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIr  168 (824)
T PRK07764         90 D-VTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIR  168 (824)
T ss_pred             c-EEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHH
Confidence            2 23443322222   23332222211          788877666778888888887766777666554 34454433 


Q ss_pred             CCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCch
Q 042981          247 GSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPL  290 (876)
Q Consensus       247 ~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPl  290 (876)
                      .....|++..++.++-  +.....  +...--.+....|++.++|-+.
T Consensus       169 SRc~~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgGdlR  216 (824)
T PRK07764        169 SRTHHYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGGSVR  216 (824)
T ss_pred             hheeEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH
Confidence            3467899999988776  211110  1111123345678888888663

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.89  E-value=0.0058  Score=70.36  Aligned_cols=167  Identities=14%  Similarity=0.132  Sum_probs=97.5

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc--------------------------
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV--------------------------  177 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--------------------------  177 (876)
                      .++||.+..++.+...+..+.     -...+-++|+.|+||||+|+.+.+.-..                          
T Consensus        16 ~eivGQe~i~~~L~~~i~~~r-----i~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~   90 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDR-----VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDF   90 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHH
Confidence            468998888888888776422     3355889999999999999877652111                          


Q ss_pred             --cccCCeEEEEEeCCch---hHHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEc-CchH
Q 042981          178 --KRNFEKVIWVCVSDTF---EEIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTT-RNES  241 (876)
Q Consensus       178 --~~~F~~~~wv~vs~~~---~~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTT-R~~~  241 (876)
                        ..+|+...+ ......   +++.+...+...          +|++..-+...++.+...+......+.+|++| +...
T Consensus        91 ~~g~~~n~~~~-d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~k  169 (620)
T PRK14954         91 DAGTSLNISEF-DAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHK  169 (620)
T ss_pred             hccCCCCeEEe-cccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhh
Confidence              123443222 221222   223333333111          78876655556777888887766666665555 4444


Q ss_pred             HHHh-hCCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCC-chHHHHhh
Q 042981          242 VARM-MGSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGL-PLAAKATG  296 (876)
Q Consensus       242 v~~~-~~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~Gl-Plai~~~~  296 (876)
                      +... ......+++.+++.++.  +.....  ....--.+.+..|++.++|- -.|+..+.
T Consensus       170 Ll~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I~~eal~~La~~s~Gdlr~al~eLe  230 (620)
T PRK14954        170 IPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQGSMRDAQSILD  230 (620)
T ss_pred             hhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHH
Confidence            4433 23467899999998886  221110  01111245667888888884 44444433

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.89  E-value=0.00082  Score=70.93  Aligned_cols=51  Identities=14%  Similarity=0.221  Sum_probs=42.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .+++|.++.++++++++...........+++.++|++|.||||||+.+.+.
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            379999999999999997644321335689999999999999999999873

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

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=96.81  E-value=0.0055  Score=70.88  Aligned_cols=52  Identities=17%  Similarity=0.102  Sum_probs=40.8

Q ss_pred             cCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++.+.||+++.++|...|...-.. .....++-|.|++|.|||+.++.|.+.
T Consensus       753 VPD~LPhREeEIeeLasfL~paIkg-sgpnnvLYIyG~PGTGKTATVK~VLrE  804 (1164)
T PTZ00112        753 VPKYLPCREKEIKEVHGFLESGIKQ-SGSNQILYISGMPGTGKTATVYSVIQL  804 (1164)
T ss_pred             CCCcCCChHHHHHHHHHHHHHHHhc-CCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            3467999999999999988753221 123367889999999999999999863

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.78  E-value=0.0072  Score=68.94  Aligned_cols=171  Identities=16%  Similarity=0.134  Sum_probs=98.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc-------------------cCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR-------------------NFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~F~~~  184 (876)
                      .+++|.+..++.|...+...     .-...+-++|..|+||||+|+.+.+.--...                   ...-+
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~-----ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv   90 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQEN-----RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDV   90 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCce
Confidence            46889887777777777542     1246778899999999999998876321110                   01113


Q ss_pred             EEEEeCCchhHHHH--HHHHHHh-----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHhh-CCc
Q 042981          185 IWVCVSDTFEEIRV--ANAIIEG-----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARMM-GST  249 (876)
Q Consensus       185 ~wv~vs~~~~~~~~--~~~i~~~-----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~~-~~~  249 (876)
                      +++..+....+..+  +.+.+..           +|++..-+...++.|...+........+|++|.+ ..+...+ ...
T Consensus        91 ~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SRc  170 (624)
T PRK14959         91 VEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRC  170 (624)
T ss_pred             EEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhhh
Confidence            44433222222222  1111111           7877655555677787777654445566665554 4444332 234


Q ss_pred             ceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCC-chHHHHhhhhh
Q 042981          250 NIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGL-PLAAKATGNLL  299 (876)
Q Consensus       250 ~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~Gl-Plai~~~~~~L  299 (876)
                      ..+++++++.++.  ++....  ....--.+....|++.++|- -.|+..+..++
T Consensus       171 q~i~F~pLs~~eL~~~L~~il~~egi~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        171 QHFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             hccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            6889999998887  222100  01112245667788888884 46777766544

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.75  E-value=0.0082  Score=65.91  Aligned_cols=161  Identities=16%  Similarity=0.175  Sum_probs=86.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc------cccCCeE-EEEEeCCch---
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV------KRNFEKV-IWVCVSDTF---  193 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~------~~~F~~~-~wv~vs~~~---  193 (876)
                      .+++|.+..++.+...+....     -.+.+-++|+.|+||||+|+.+.+.-.-      ...|... +-+......   
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~-----~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~   91 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNH-----LAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVD   91 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHH
Confidence            468999999999988886432     3468889999999999999988763111      1122221 112211212   


Q ss_pred             hHHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEc-CchHHHHh-hCCcceEeCCCCCccc
Q 042981          194 EEIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTT-RNESVARM-MGSTNIIFIEQLTEEE  261 (876)
Q Consensus       194 ~~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTT-R~~~v~~~-~~~~~~~~l~~L~~~~  261 (876)
                      ++..+...+...          +|++..-....++.+...+........+|++| ....+... ......++.+++++++
T Consensus        92 ~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~v~~~~~~~~~  171 (367)
T PRK14970         92 DIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKD  171 (367)
T ss_pred             HHHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhcceeEecCCccHHH
Confidence            222222221111          67764433345666766665544455666555 33333222 2234578888888776


Q ss_pred             c--ccCCCc--CCccchHHHHHHHHHHcCCCc
Q 042981          262 S--FSGRSF--EDCEKLEPIGRKIARKCKGLP  289 (876)
Q Consensus       262 ~--~f~~~~--~~~~~l~~~~~~i~~~c~GlP  289 (876)
                      .  +.....  ..-.--.+....+++.++|-+
T Consensus       172 l~~~l~~~~~~~g~~i~~~al~~l~~~~~gdl  203 (367)
T PRK14970        172 IKEHLAGIAVKEGIKFEDDALHIIAQKADGAL  203 (367)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCH
Confidence            5  111100  000111345566667777643

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=96.70  E-value=0.022  Score=61.49  Aligned_cols=111  Identities=22%  Similarity=0.212  Sum_probs=65.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHH----------h-----ccccccCCc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIE----------G-----LDDVWDGDY  214 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~----------~-----lDdvw~~~~  214 (876)
                      ....+-|||..|+|||.|++++.+  ...........+.++...-..+....+.+          +     +||++.-..
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign--~~~~~~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y~~dlllIDDiq~l~g  189 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGN--EALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKYSLDLLLIDDIQFLAG  189 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHH--HHHhhCCCceEEeccHHHHHHHHHHHHHhhhHHHHHHhhccCeeeechHhHhcC
Confidence            467899999999999999999999  56666653334444432222222222222          2     799875321


Q ss_pred             -cChhh-HHhhhcc-CCCCCEEEEEcCc---------hHHHHhhCCcceEeCCCCCcccc
Q 042981          215 -NKWEP-FFHCLKH-GLHGSKILLTTRN---------ESVARMMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       215 -~~~~~-l~~~l~~-~~~gs~iivTTR~---------~~v~~~~~~~~~~~l~~L~~~~~  262 (876)
                       +.|+. +...|.. ...|-.||+|++.         .++...+...-++++.+.+.+..
T Consensus       190 k~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r  249 (408)
T COG0593         190 KERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETR  249 (408)
T ss_pred             ChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHH
Confidence             23333 3333332 1234489999863         34444555566778877776654

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.69  E-value=0.00092  Score=66.64  Aligned_cols=204  Identities=17%  Similarity=0.150  Sum_probs=109.9

Q ss_pred             CCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCC-CCCCccEEEEeecCC--CCCC
Q 042981          627 LQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQ-PPLNVKELGIVSYGG--NIFP  703 (876)
Q Consensus       627 L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~-~~~~L~~L~l~~~~~--~~lp  703 (876)
                      .+.++.+++.+..- ... ......+.+++.|+.|+|+.|.+.        ..+..++ |..+|+.|.++|...  ....
T Consensus        70 ~~~v~elDL~~N~i-SdW-seI~~ile~lP~l~~LNls~N~L~--------s~I~~lp~p~~nl~~lVLNgT~L~w~~~~  139 (418)
T KOG2982|consen   70 VTDVKELDLTGNLI-SDW-SEIGAILEQLPALTTLNLSCNSLS--------SDIKSLPLPLKNLRVLVLNGTGLSWTQST  139 (418)
T ss_pred             hhhhhhhhcccchh-ccH-HHHHHHHhcCccceEeeccCCcCC--------CccccCcccccceEEEEEcCCCCChhhhh
Confidence            34556666655211 111 223344667778888888877663        2233342 556777777766442  1223


Q ss_pred             chhhcccCCcEEEEecCCCCC---CCCCCCcc-c-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCccc
Q 042981          704 KWLTSLTNLRDLRLKSCVICE---HFPPLGKL-P-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKL  778 (876)
Q Consensus       704 ~~l~~l~~L~~L~L~~~~~~~---~lp~l~~L-p-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L  778 (876)
                      +.+..++.++.|+++.|..-.   +-...... | ++.|.+..|....+...  ..                ....||++
T Consensus       140 s~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~--~~----------------l~r~Fpnv  201 (418)
T KOG2982|consen  140 SSLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNK--NK----------------LSRIFPNV  201 (418)
T ss_pred             hhhhcchhhhhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHH--Hh----------------HHhhcccc
Confidence            334466777777777774211   11111111 2 44444444332211110  00                01258888


Q ss_pred             ceeeccccccccccccccccccccCcccccceeeeccCccCCCCC--CCCCCCCCccEEEEecCCCchhhccccc--cCC
Q 042981          779 KSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLP--DYLFQSTTLQKLSISYCPIMEELRILED--HRT  854 (876)
Q Consensus       779 ~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp--~~l~~l~~L~~L~l~~~~~l~~l~~~~~--~~~  854 (876)
                      ..+.+..|| +.....    ......+|.+-.|+++.+ .+.+..  ..+..+++|..|.++++|....+.....  -.+
T Consensus       202 ~sv~v~e~P-lK~~s~----ek~se~~p~~~~LnL~~~-~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llI  275 (418)
T KOG2982|consen  202 NSVFVCEGP-LKTESS----EKGSEPFPSLSCLNLGAN-NIDSWASVDALNGFPQLVDLRVSENPLSDPLRGGERRFLLI  275 (418)
T ss_pred             hheeeecCc-ccchhh----cccCCCCCcchhhhhccc-ccccHHHHHHHcCCchhheeeccCCcccccccCCcceEEEE
Confidence            888887774 333222    234456788888888887 344322  2456789999999999998766544221  134


Q ss_pred             CCCCCcCEEE
Q 042981          855 TDIPRLSSLE  864 (876)
Q Consensus       855 ~~lp~L~~L~  864 (876)
                      +.||+++.|+
T Consensus       276 aRL~~v~vLN  285 (418)
T KOG2982|consen  276 ARLTKVQVLN  285 (418)
T ss_pred             eeccceEEec
Confidence            6677777665

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=96.69  E-value=0.013  Score=66.15  Aligned_cols=164  Identities=17%  Similarity=0.158  Sum_probs=97.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCc----ccc----------------ccCCe
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNND----EVK----------------RNFEK  183 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~----~~~----------------~~F~~  183 (876)
                      .+++|-+..++.+...+...     .-.++.-++|..|+||||+|+.+.+.-    ...                .|++ 
T Consensus        14 deiiGqe~v~~~L~~~I~~g-----rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~d-   87 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNN-----RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHID-   87 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCe-
Confidence            46999888888888888543     234567899999999999998776521    000                1122 


Q ss_pred             EEEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-hC
Q 042981          184 VIWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-MG  247 (876)
Q Consensus       184 ~~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-~~  247 (876)
                      ++.+..+.......+. ++++.              +|++..-+.+..+.++..+......+++|++|.+. .+... ..
T Consensus        88 v~eldaas~~gId~IR-elie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~S  166 (535)
T PRK08451         88 IIEMDAASNRGIDDIR-ELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILS  166 (535)
T ss_pred             EEEeccccccCHHHHH-HHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHh
Confidence            2333333222233332 22221              78886666566777888887766677777777653 22221 22


Q ss_pred             CcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHHH
Q 042981          248 STNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAKA  294 (876)
Q Consensus       248 ~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~~  294 (876)
                      ....+++.+++.++.  +.....  ....--.+....|++.++|-+--+..
T Consensus       167 Rc~~~~F~~Ls~~ei~~~L~~Il~~EGi~i~~~Al~~Ia~~s~GdlR~aln  217 (535)
T PRK08451        167 RTQHFRFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGNGSLRDTLT  217 (535)
T ss_pred             hceeEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHH
Confidence            357899999998886  111100  11111245677888899988744433

>PRK06620 hypothetical protein; Validated

Probab=96.67  E-value=0.0039  Score=62.18  Aligned_cols=92  Identities=21%  Similarity=0.341  Sum_probs=51.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHHh-----ccccccCCccChh--hHHhhh
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEG-----LDDVWDGDYNKWE--PFFHCL  224 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~-----lDdvw~~~~~~~~--~l~~~l  224 (876)
                      +.+-|+|+.|+|||+|++.+++...  .     .++.  ..+...    ...+.     +||+.     .|.  .+...+
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~--~-----~~~~--~~~~~~----~~~~~~d~lliDdi~-----~~~~~~lf~l~  106 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSN--A-----YIIK--DIFFNE----EILEKYNAFIIEDIE-----NWQEPALLHIF  106 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccC--C-----EEcc--hhhhch----hHHhcCCEEEEeccc-----cchHHHHHHHH
Confidence            6789999999999999999887432  1     1221  111111    12222     78884     232  122222


Q ss_pred             cc-CCCCCEEEEEcCch-------HHHHhhCCcceEeCCCCCccc
Q 042981          225 KH-GLHGSKILLTTRNE-------SVARMMGSTNIIFIEQLTEEE  261 (876)
Q Consensus       225 ~~-~~~gs~iivTTR~~-------~v~~~~~~~~~~~l~~L~~~~  261 (876)
                      .. ...|..||+|++..       +....+...-+++++++++++
T Consensus       107 N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~  151 (214)
T PRK06620        107 NIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDEL  151 (214)
T ss_pred             HHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHH
Confidence            21 13477899998743       222333344577777777554

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.66  E-value=0.012  Score=68.33  Aligned_cols=163  Identities=17%  Similarity=0.147  Sum_probs=93.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccc---------------------ccCC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVK---------------------RNFE  182 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---------------------~~F~  182 (876)
                      .+++|.+..++.+..++....     -.+.+-++|..|+||||+|+.+.+.-...                     .+.|
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~-----i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d   90 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGR-----VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVD   90 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCe
Confidence            479999998888888886432     23566799999999999999887521110                     0111


Q ss_pred             eEEEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHhh-
Q 042981          183 KVIWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARMM-  246 (876)
Q Consensus       183 ~~~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~~-  246 (876)
                       ++.+..+....... .+++++.              +|++..-+.+..+.+...+........+|++|.+ ..+.... 
T Consensus        91 -~~~i~~~~~~~vd~-ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI~  168 (585)
T PRK14950         91 -VIEMDAASHTSVDD-AREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATIL  168 (585)
T ss_pred             -EEEEeccccCCHHH-HHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHHH
Confidence             23333322233222 2333332              7777554445566777777666556677666643 3343322 


Q ss_pred             CCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHH
Q 042981          247 GSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAK  293 (876)
Q Consensus       247 ~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~  293 (876)
                      .....+++++++.++.  +.....  ....--.+....|++.++|-+..+.
T Consensus       169 SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~Gdlr~al  219 (585)
T PRK14950        169 SRCQRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAE  219 (585)
T ss_pred             hccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHH
Confidence            2345778888877765  111100  0011123556788888888775443

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=96.59  E-value=0.017  Score=67.08  Aligned_cols=167  Identities=15%  Similarity=0.137  Sum_probs=97.8

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc-----------------cccCCeEEE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV-----------------KRNFEKVIW  186 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-----------------~~~F~~~~w  186 (876)
                      .+++|.+..++.+...+....     -.+.+-++|+.|+||||+|+.+.+.--.                 ..+++ +++
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~r-----l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~D-vie   91 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNK-----ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLD-IIE   91 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCc-EEE
Confidence            468999998888888886532     3456778999999999999888652100                 01111 223


Q ss_pred             EEeCCch---hHHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEE-EcCchHHHHh-hCCcce
Q 042981          187 VCVSDTF---EEIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILL-TTRNESVARM-MGSTNI  251 (876)
Q Consensus       187 v~vs~~~---~~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iiv-TTR~~~v~~~-~~~~~~  251 (876)
                      +......   +++.+...+-..          +|++..-....+..++..+-.......+|+ ||+...+... ......
T Consensus        92 idaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SRcq~  171 (725)
T PRK07133         92 MDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQR  171 (725)
T ss_pred             EeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhhcee
Confidence            3322211   233444333321          788866555677788877776555656554 4444455432 334568


Q ss_pred             EeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCc-hHHHHhh
Q 042981          252 IFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLP-LAAKATG  296 (876)
Q Consensus       252 ~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlP-lai~~~~  296 (876)
                      +++.+++.++.  +.....  ....--.+.+..|++.++|-+ .|+..+.
T Consensus       172 ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS~GslR~AlslLe  221 (725)
T PRK07133        172 FNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAE  221 (725)
T ss_pred             EEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            99999998886  221100  011112345677888888865 4444433

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=96.57  E-value=0.013  Score=65.50  Aligned_cols=166  Identities=18%  Similarity=0.203  Sum_probs=92.8

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc---------------------cccCC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV---------------------KRNFE  182 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~---------------------~~~F~  182 (876)
                      .+++|.+..++.+..++....     -.+.+-++|..|+||||+|+.+.+.-.-                     ..+++
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~-----i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d   91 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNR-----AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD   91 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc
Confidence            468999999998888886432     2366789999999999999888652100                     11233


Q ss_pred             eEEEEEeCCch---hHHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHh-hC
Q 042981          183 KVIWVCVSDTF---EEIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARM-MG  247 (876)
Q Consensus       183 ~~~wv~vs~~~---~~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~-~~  247 (876)
                       .+++.-....   +++.+.+.+...          +|++..-.....+.+...+.....+..+|++|.. ..+... ..
T Consensus        92 -~~~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~tI~s  170 (451)
T PRK06305         92 -VLEIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILS  170 (451)
T ss_pred             -eEEeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcchHHHH
Confidence             2223221222   222222222111          6776544334556677777665556677766643 333322 22


Q ss_pred             CcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCc-hHHHHh
Q 042981          248 STNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLP-LAAKAT  295 (876)
Q Consensus       248 ~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlP-lai~~~  295 (876)
                      ....++++++++++.  +.....  ....--.+.+..|++.++|-+ .|+..+
T Consensus       171 Rc~~v~f~~l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~s~gdlr~a~~~L  223 (451)
T PRK06305        171 RCQKMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARAAQGSLRDAESLY  223 (451)
T ss_pred             hceEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            356889999998886  211110  011112345677888888754 444443

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=96.55  E-value=0.0062  Score=68.18  Aligned_cols=119  Identities=17%  Similarity=0.189  Sum_probs=71.5

Q ss_pred             hHHHHHHHHHHHHhHHHHHhcccccceeeccc--------cCcc-CCCCCccccCccCCceeeccchHHHHHHHhhccCC
Q 042981           75 RQDIAVKIREINEKPDDIASQKDRFKFVENVS--------NHVK-KPKQARTTSLIDEGEVCGRVDEKNELLSKLLFESS  145 (876)
Q Consensus        75 ~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~--------~~~~-~~~~~~~~~~~~~~~~vGr~~~~~~i~~~L~~~~~  145 (876)
                      ...+-+.+.+=..|++.+-.....|++...--        +... ..-....+--.-+.+-+|.++-+++|++++-...-
T Consensus       353 P~~v~kv~~eEl~kL~~le~~~sEfnvtrNYLdwlt~LPWgk~S~En~dl~~Ak~iLdeDHYgm~dVKeRILEfiAV~kL  432 (906)
T KOG2004|consen  353 PDHVLKVIDEELTKLKLLEPSSSEFNVTRNYLDWLTSLPWGKSSTENLDLARAKEILDEDHYGMEDVKERILEFIAVGKL  432 (906)
T ss_pred             cHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhCCCCCCChhhhhHHHHHHhhcccccchHHHHHHHHHHHHHHhh
Confidence            34444445555556666666667776542210        0000 00001111122345689999999999999865432


Q ss_pred             cCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHH
Q 042981          146 EQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRV  198 (876)
Q Consensus       146 ~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~  198 (876)
                      .+.-+-++++++|++|||||.+|+.|+.  ...+.|-   -++|..-.|+.+|
T Consensus       433 rgs~qGkIlCf~GPPGVGKTSI~kSIA~--ALnRkFf---RfSvGG~tDvAeI  480 (906)
T KOG2004|consen  433 RGSVQGKILCFVGPPGVGKTSIAKSIAR--ALNRKFF---RFSVGGMTDVAEI  480 (906)
T ss_pred             cccCCCcEEEEeCCCCCCcccHHHHHHH--HhCCceE---EEeccccccHHhh
Confidence            1133568999999999999999999997  5555552   3456665555544

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=96.52  E-value=0.017  Score=64.59  Aligned_cols=144  Identities=19%  Similarity=0.208  Sum_probs=78.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccC--CeEEEEEeCCchhH-H-------HHHHHHHH---h-----ccccccC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNF--EKVIWVCVSDTFEE-I-------RVANAIIE---G-----LDDVWDG  212 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F--~~~~wv~vs~~~~~-~-------~~~~~i~~---~-----lDdvw~~  212 (876)
                      ..-+.|+|..|+|||+|++++.+  .+....  ..+++++..+-... .       .......+   .     +||+-..
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~--~l~~~~~~~~v~yv~~~~f~~~~~~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l  218 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKN--YIESNFSDLKVSYMSGDEFARKAVDILQKTHKEIEQFKNEICQNDVLIIDDVQFL  218 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHH--HHHHhCCCCeEEEEEHHHHHHHHHHHHHHhhhHHHHHHHHhccCCEEEEeccccc
Confidence            35588999999999999999998  333222  23445554321110 0       01111111   1     8998543


Q ss_pred             Cc-cCh-hhHHhhhcc-CCCCCEEEEEcCch---------HHHHhhCCcceEeCCCCCcccc--ccCCCc---CC-ccch
Q 042981          213 DY-NKW-EPFFHCLKH-GLHGSKILLTTRNE---------SVARMMGSTNIIFIEQLTEEES--FSGRSF---ED-CEKL  274 (876)
Q Consensus       213 ~~-~~~-~~l~~~l~~-~~~gs~iivTTR~~---------~v~~~~~~~~~~~l~~L~~~~~--~f~~~~---~~-~~~l  274 (876)
                      .. +.| +.+...+.. ...|..||+|+...         ++...+...-++.+++++.++-  +.....   .. ..--
T Consensus       219 ~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~  298 (450)
T PRK14087        219 SYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVT  298 (450)
T ss_pred             cCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCC
Confidence            21 122 234443332 23455788886632         3333444566888999998876  211111   00 1123


Q ss_pred             HHHHHHHHHHcCCCchHHHHhh
Q 042981          275 EPIGRKIARKCKGLPLAAKATG  296 (876)
Q Consensus       275 ~~~~~~i~~~c~GlPlai~~~~  296 (876)
                      +++..-|++.+.|.|-.+.-+-
T Consensus       299 ~evl~~Ia~~~~gd~R~L~gaL  320 (450)
T PRK14087        299 EEAINFISNYYSDDVRKIKGSV  320 (450)
T ss_pred             HHHHHHHHHccCCCHHHHHHHH
Confidence            5677888888888776655444

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

Probab=96.51  E-value=0.0035  Score=59.28  Aligned_cols=104  Identities=23%  Similarity=0.246  Sum_probs=76.6

Q ss_pred             cCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhh-cccCCcEEEEecCCCCC--CCCCCCccc
Q 042981          657 NLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLT-SLTNLRDLRLKSCVICE--HFPPLGKLP  733 (876)
Q Consensus       657 ~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~-~l~~L~~L~L~~~~~~~--~lp~l~~Lp  733 (876)
                      ....++|+.|.+         ..++.++.++.|..|.+.+|.+..+-..+. .+++|..|.|.+|.+..  ++.++..+|
T Consensus        43 ~~d~iDLtdNdl---------~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p  113 (233)
T KOG1644|consen   43 QFDAIDLTDNDL---------RKLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCP  113 (233)
T ss_pred             ccceecccccch---------hhcccCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCC
Confidence            445667776643         345567777888888888888888755555 67899999999999864  777888999


Q ss_pred             -CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeecccc
Q 042981          734 -LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAM  786 (876)
Q Consensus       734 -L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~  786 (876)
                       |++|.+-+|+.-.......+-                 +..+|+|+.|++...
T Consensus       114 ~L~~Ltll~Npv~~k~~YR~yv-----------------l~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  114 KLEYLTLLGNPVEHKKNYRLYV-----------------LYKLPSLRTLDFQKV  150 (233)
T ss_pred             ccceeeecCCchhcccCceeEE-----------------EEecCcceEeehhhh
Confidence             999999988765544333222                 336899999988764

>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=96.50  E-value=0.002  Score=58.09  Aligned_cols=21  Identities=43%  Similarity=0.504  Sum_probs=19.9

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ||.|.|++|+||||+|+.+.+
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

...

>PRK08116 hypothetical protein; Validated

Probab=96.48  E-value=0.0035  Score=64.86  Aligned_cols=86  Identities=23%  Similarity=0.297  Sum_probs=50.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhH-------------HHHHHHHHHh----ccccccCCc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE-------------IRVANAIIEG----LDDVWDGDY  214 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~-------------~~~~~~i~~~----lDdvw~~~~  214 (876)
                      ..+.++|..|+|||.||.++++  .+...-..++++++++-.+.             .++.+.+...    |||+-.+..
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~--~l~~~~~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l~~~dlLviDDlg~e~~  192 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIAN--ELIEKGVPVIFVNFPQLLNRIKSTYKSSGKEDENEIIRSLVNADLLILDDLGAERD  192 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEEHHHHHHHHHHHHhccccccHHHHHHHhcCCCEEEEecccCCCC
Confidence            3578999999999999999998  44333345677775442221             1122222111    899954433


Q ss_pred             cChhh--HHhhhcc-CCCCCEEEEEcCc
Q 042981          215 NKWEP--FFHCLKH-GLHGSKILLTTRN  239 (876)
Q Consensus       215 ~~~~~--l~~~l~~-~~~gs~iivTTR~  239 (876)
                      .+|..  +...+.. -..|..+||||..
T Consensus       193 t~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        193 TEWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             CHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            45644  3333332 2346679999864

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

Probab=96.47  E-value=0.031  Score=60.39  Aligned_cols=78  Identities=22%  Similarity=0.239  Sum_probs=56.1

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCC-e-EEEEEeCCchhHHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE-K-VIWVCVSDTFEEIRVANA  201 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~-~-~~wv~vs~~~~~~~~~~~  201 (876)
                      ..+.+|+++.+++...|...-.  +....-+.|+|..|+|||+.++.|.+  ++..... . ++.|.+-......+++..
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~--~~~p~n~~iyG~~GTGKT~~~~~v~~--~l~~~~~~~~~~yINc~~~~t~~~i~~~   92 (366)
T COG1474          17 EELPHREEEINQLASFLAPALR--GERPSNIIIYGPTGTGKTATVKFVME--ELEESSANVEVVYINCLELRTPYQVLSK   92 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhc--CCCCccEEEECCCCCCHhHHHHHHHH--HHHhhhccCceEEEeeeeCCCHHHHHHH
Confidence            3489999999999988875332  12223388999999999999999998  4444322 1 577777666667777777


Q ss_pred             HHHh
Q 042981          202 IIEG  205 (876)
Q Consensus       202 i~~~  205 (876)
                      |+++
T Consensus        93 i~~~   96 (366)
T COG1474          93 ILNK   96 (366)
T ss_pred             HHHH
Confidence            7763

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.41  E-value=0.028  Score=63.37  Aligned_cols=162  Identities=17%  Similarity=0.160  Sum_probs=89.7

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcc-----c--------------cccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDE-----V--------------KRNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~-----~--------------~~~F~~~  184 (876)
                      .+++|.+..++.+..++....     -.+.+-++|..|+||||+|+.+...-.     .              ...|...
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~-----i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~   90 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQR-----VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDL   90 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcE
Confidence            468899999998888886532     235667899999999999988765211     0              0112234


Q ss_pred             EEEEeCCchh---HHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEc-CchHHHHh-hCCc
Q 042981          185 IWVCVSDTFE---EIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTT-RNESVARM-MGST  249 (876)
Q Consensus       185 ~wv~vs~~~~---~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTT-R~~~v~~~-~~~~  249 (876)
                      .++..+....   .+.+...+-..          +|++..-.....+.+...+........+|++| +...+... ....
T Consensus        91 ~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~SRc  170 (486)
T PRK14953         91 IEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRC  170 (486)
T ss_pred             EEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHHHhc
Confidence            4444433222   22222222111          78876554445667777776655555665554 43333322 2234


Q ss_pred             ceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCch
Q 042981          250 NIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPL  290 (876)
Q Consensus       250 ~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPl  290 (876)
                      ..+++.+++.++-  +.....  ....--.+....|++.++|.+-
T Consensus       171 ~~i~f~~ls~~el~~~L~~i~k~egi~id~~al~~La~~s~G~lr  215 (486)
T PRK14953        171 QRFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEGGMR  215 (486)
T ss_pred             eEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH
Confidence            5788888887775  111100  0011122445566667777544

>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=96.40  E-value=0.023  Score=53.90  Aligned_cols=125  Identities=18%  Similarity=0.173  Sum_probs=74.9

Q ss_pred             eccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC----ccc--------------cccCCeEEEEEe
Q 042981          128 GRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN----DEV--------------KRNFEKVIWVCV  189 (876)
Q Consensus       128 Gr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~----~~~--------------~~~F~~~~wv~v  189 (876)
                      |-++..+.+.+.+...     .-...+-++|..|+||+|+|..+.+.    ...              .....-..|+.-
T Consensus         1 gq~~~~~~L~~~~~~~-----~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~   75 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSG-----RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKP   75 (162)
T ss_dssp             S-HHHHHHHHHHHHCT-----C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEET
T ss_pred             CcHHHHHHHHHHHHcC-----CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEec
Confidence            4445556666666532     23457889999999999998776542    111              023445566655


Q ss_pred             CCc---hhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH-HHHh-hCCcc
Q 042981          190 SDT---FEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES-VARM-MGSTN  250 (876)
Q Consensus       190 s~~---~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~~~-~~~~~  250 (876)
                      ...   .....+. .+.+.              +|++..-+.+.+..++..+-....++++|++|++.+ +... .+...
T Consensus        76 ~~~~~~i~i~~ir-~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~  154 (162)
T PF13177_consen   76 DKKKKSIKIDQIR-EIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQ  154 (162)
T ss_dssp             TTSSSSBSHHHHH-HHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSE
T ss_pred             ccccchhhHHHHH-HHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhce
Confidence            443   4444443 55544              788887777888899999988888999999998764 3332 33456


Q ss_pred             eEeCCCCC
Q 042981          251 IIFIEQLT  258 (876)
Q Consensus       251 ~~~l~~L~  258 (876)
                      .+.+.+++
T Consensus       155 ~i~~~~ls  162 (162)
T PF13177_consen  155 VIRFRPLS  162 (162)
T ss_dssp             EEEE----
T ss_pred             EEecCCCC
Confidence            66666654

...

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.38  E-value=0.025  Score=65.58  Aligned_cols=164  Identities=16%  Similarity=0.117  Sum_probs=93.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc---------------------cCC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR---------------------NFE  182 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---------------------~F~  182 (876)
                      .+++|.+..++.+..++....     -..-+-++|..|+||||+|+.+.+.--...                     ...
T Consensus        16 ~~liGq~~i~~~L~~~l~~~r-----l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~h~   90 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNR-----IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGNAL   90 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCCCc
Confidence            468999988888888887532     235677899999999999998876311100                     000


Q ss_pred             eEEEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHhh-
Q 042981          183 KVIWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARMM-  246 (876)
Q Consensus       183 ~~~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~~-  246 (876)
                      .++.+.......+.. .+++++.              +|++..-+.+.++.++..+........+|++|.+ ..+...+ 
T Consensus        91 D~~ei~~~~~~~vd~-IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTIr  169 (620)
T PRK14948         91 DVIEIDAASNTGVDN-IRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTII  169 (620)
T ss_pred             cEEEEeccccCCHHH-HHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHHH
Confidence            122233222222222 2333332              7877655555677788887765555665555544 3443322 


Q ss_pred             CCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHH
Q 042981          247 GSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAK  293 (876)
Q Consensus       247 ~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~  293 (876)
                      .....+++..++.++.  +.....  ....--.+....|++.++|-+..+.
T Consensus       170 SRc~~~~f~~l~~~ei~~~L~~ia~kegi~is~~al~~La~~s~G~lr~A~  220 (620)
T PRK14948        170 SRCQRFDFRRIPLEAMVQHLSEIAEKESIEIEPEALTLVAQRSQGGLRDAE  220 (620)
T ss_pred             hheeEEEecCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHH
Confidence            2356788888887765  111100  0011112456778888888665443

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.34  E-value=0.015  Score=60.25  Aligned_cols=49  Identities=20%  Similarity=0.210  Sum_probs=32.8

Q ss_pred             ceeeccchHHHHHHHhhcc---------CCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          125 EVCGRVDEKNELLSKLLFE---------SSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~---------~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|.+..+++|.+.....         .-...+...-+.++|.+|+||||+|+.+++
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~   64 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGK   64 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHH
Confidence            4889887776665433210         000023445678999999999999999976

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.

>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=96.31  E-value=0.011  Score=56.33  Aligned_cols=107  Identities=22%  Similarity=0.256  Sum_probs=60.0

Q ss_pred             eeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHH--
Q 042981          126 VCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAII--  203 (876)
Q Consensus       126 ~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~--  203 (876)
                      +||....+.++++.+.....   ...+ |-|+|..|+||+.+|+.+++.-  ...-..-+-|.++. ++...+-..+.  
T Consensus         1 liG~s~~m~~~~~~~~~~a~---~~~p-VlI~GE~GtGK~~lA~~IH~~s--~r~~~pfi~vnc~~-~~~~~~e~~LFG~   73 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAAS---SDLP-VLITGETGTGKELLARAIHNNS--PRKNGPFISVNCAA-LPEELLESELFGH   73 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTT---STS--EEEECSTTSSHHHHHHHHHHCS--TTTTS-EEEEETTT-S-HHHHHHHHHEB
T ss_pred             CEeCCHHHHHHHHHHHHHhC---CCCC-EEEEcCCCCcHHHHHHHHHHhh--hcccCCeEEEehhh-hhcchhhhhhhcc
Confidence            47888888888888876443   1344 4599999999999999999832  11112223344443 23333333322  


Q ss_pred             ----------------Hh-------ccccccCCccChhhHHhhhccC------C-----CCCEEEEEcCc
Q 042981          204 ----------------EG-------LDDVWDGDYNKWEPFFHCLKHG------L-----HGSKILLTTRN  239 (876)
Q Consensus       204 ----------------~~-------lDdvw~~~~~~~~~l~~~l~~~------~-----~gs~iivTTR~  239 (876)
                                      ++       ||+|..-....-..|...+..+      .     ...|||.||..
T Consensus        74 ~~~~~~~~~~~~~G~l~~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~  143 (168)
T PF00158_consen   74 EKGAFTGARSDKKGLLEQANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSK  143 (168)
T ss_dssp             CSSSSTTTSSEBEHHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS
T ss_pred             ccccccccccccCCceeeccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecCc
Confidence                            22       7888765544445565555432      1     14678888774

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 ....

>PRK07261 topology modulation protein; Provisional

Probab=96.30  E-value=0.0054  Score=58.90  Aligned_cols=35  Identities=23%  Similarity=0.410  Sum_probs=25.0

Q ss_pred             EEEEEecCCchHHHHHHHHHcCcccc-ccCCeEEEE
Q 042981          153 VISLVGLGGMGKTTLAQLAYNNDEVK-RNFEKVIWV  187 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~~~~~-~~F~~~~wv  187 (876)
                      .|.|+|++|+||||||+++.....+. -+.|...|-
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~   37 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQ   37 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEec
Confidence            48899999999999999987632221 234555553

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=96.29  E-value=0.019  Score=63.94  Aligned_cols=38  Identities=32%  Similarity=0.399  Sum_probs=27.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccC--CeEEEEEeC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNF--EKVIWVCVS  190 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F--~~~~wv~vs  190 (876)
                      ...+.|+|..|+|||+||+++++  .+....  ..+++++..
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~--~l~~~~~~~~v~yi~~~  175 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGN--EILENNPNAKVVYVSSE  175 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH--HHHHhCCCCcEEEEEHH
Confidence            45688999999999999999998  444333  245566544

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).

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.28  E-value=0.016  Score=67.08  Aligned_cols=133  Identities=13%  Similarity=0.151  Sum_probs=79.5

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccc--------------------ccCCe
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVK--------------------RNFEK  183 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--------------------~~F~~  183 (876)
                      .+++|.+.-++.+...+....     -.+.+-++|..|+||||+|+.+.+.---.                    .++|.
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d~   90 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGR-----VAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVDV   90 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCCe
Confidence            479999988888888876431     23567799999999999998876531100                    12222


Q ss_pred             EEEEEeCCch---hHHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEc-CchHHHHhh-CC
Q 042981          184 VIWVCVSDTF---EEIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTT-RNESVARMM-GS  248 (876)
Q Consensus       184 ~~wv~vs~~~---~~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTT-R~~~v~~~~-~~  248 (876)
                       +.+......   +++++...+-..          +|++..-+....+.+...+........+|++| ....+.... ..
T Consensus        91 -~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI~SR  169 (576)
T PRK14965         91 -FEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSR  169 (576)
T ss_pred             -eeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHHHHh
Confidence             222222222   223333222111          78886655556777887777665566666554 444554332 23


Q ss_pred             cceEeCCCCCcccc
Q 042981          249 TNIIFIEQLTEEES  262 (876)
Q Consensus       249 ~~~~~l~~L~~~~~  262 (876)
                      ...+++++++.++.
T Consensus       170 c~~~~f~~l~~~~i  183 (576)
T PRK14965        170 CQRFDFRRIPLQKI  183 (576)
T ss_pred             hhhhhcCCCCHHHH
Confidence            56778888887665

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=96.27  E-value=0.013  Score=53.47  Aligned_cols=21  Identities=48%  Similarity=0.477  Sum_probs=19.2

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |-|+|..|+||||+|+.+++.
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            568999999999999999984

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 ....

>PRK06696 uridine kinase; Validated

Probab=96.27  E-value=0.0081  Score=60.66  Aligned_cols=42  Identities=24%  Similarity=0.219  Sum_probs=33.8

Q ss_pred             ccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          129 RVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       129 r~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.+-+++|.+.+....   .....+|+|.|.+|+||||+|+++..
T Consensus         3 ~~~~~~~la~~~~~~~---~~~~~iI~I~G~sgsGKSTlA~~L~~   44 (223)
T PRK06696          3 RKQLIKELAEHILTLN---LTRPLRVAIDGITASGKTTFADELAE   44 (223)
T ss_pred             HHHHHHHHHHHHHHhC---CCCceEEEEECCCCCCHHHHHHHHHH
Confidence            5566777777776533   23678999999999999999999987

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.25  E-value=0.036  Score=60.94  Aligned_cols=135  Identities=23%  Similarity=0.249  Sum_probs=82.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCch----hHHHHHHHHHHh---------ccccccCCccChhh
Q 042981          153 VISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF----EEIRVANAIIEG---------LDDVWDGDYNKWEP  219 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~----~~~~~~~~i~~~---------lDdvw~~~~~~~~~  219 (876)
                      ++.|.|+-++||||+++.+...  ..+.   .+++...+..    ...+.++.....         ||.|-..  ..|+.
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~--~~~~---~iy~~~~d~~~~~~~l~d~~~~~~~~~~~~~~yifLDEIq~v--~~W~~  111 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKG--LLEE---IIYINFDDLRLDRIELLDLLRAYIELKEREKSYIFLDEIQNV--PDWER  111 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhh--CCcc---eEEEEecchhcchhhHHHHHHHHHHhhccCCceEEEecccCc--hhHHH
Confidence            9999999999999999766652  2222   4555433321    222222222221         8888654  58999


Q ss_pred             HHhhhccCCCCCEEEEEcCchHHHHh------hCCcceEeCCCCCccccc-cCCCcCCccchHHHHHHHHHHcCCCchHH
Q 042981          220 FFHCLKHGLHGSKILLTTRNESVARM------MGSTNIIFIEQLTEEESF-SGRSFEDCEKLEPIGRKIARKCKGLPLAA  292 (876)
Q Consensus       220 l~~~l~~~~~gs~iivTTR~~~v~~~------~~~~~~~~l~~L~~~~~~-f~~~~~~~~~l~~~~~~i~~~c~GlPlai  292 (876)
                      ....+.+.++. +|++|+-+..+...      .|....+++-||+..|.+ +.......... ...-+-.-..||.|-++
T Consensus       112 ~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~~~~~~~~~~~-~~~f~~Yl~~GGfP~~v  189 (398)
T COG1373         112 ALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKLKGEEIEPSKL-ELLFEKYLETGGFPESV  189 (398)
T ss_pred             HHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhhcccccchhHH-HHHHHHHHHhCCCcHHH
Confidence            88888887666 89999887655432      234678899999988872 21111011111 22333444688999887


Q ss_pred             HHhh
Q 042981          293 KATG  296 (876)
Q Consensus       293 ~~~~  296 (876)
                      ..-.
T Consensus       190 ~~~~  193 (398)
T COG1373         190 KADL  193 (398)
T ss_pred             hCcc
Confidence            6543

>CHL00181 cbbX CbbX; Provisional

Probab=96.25  E-value=0.024  Score=59.38  Aligned_cols=49  Identities=24%  Similarity=0.249  Sum_probs=30.6

Q ss_pred             ceeeccchHHHHHHHh---hcc-----CC-cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          125 EVCGRVDEKNELLSKL---LFE-----SS-EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L---~~~-----~~-~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +++|.++.+++|.++.   ...     .. .....-..+.++|.+|+||||+|+.+++
T Consensus        24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~   81 (287)
T CHL00181         24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMAD   81 (287)
T ss_pred             hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            5778776666554432   111     00 0011223477899999999999999976

>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=96.24  E-value=0.0023  Score=37.63  Aligned_cols=21  Identities=29%  Similarity=0.612  Sum_probs=14.0

Q ss_pred             ccCeeeccCccccccchhhcc
Q 042981          529 HLKYLNLSELCIERLPKTLCE  549 (876)
Q Consensus       529 ~Lr~L~Ls~~~i~~lp~~i~~  549 (876)
                      +|++|+|++|.++.+|++|++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            467777777777777766554

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 ....

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.22  E-value=0.0029  Score=70.24  Aligned_cols=49  Identities=20%  Similarity=0.299  Sum_probs=40.0

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +++|.++.+++|++.|..........-+++.++|+.|+||||||+.+.+
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            6899999999999999433211133557999999999999999999986

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=96.18  E-value=0.0034  Score=70.54  Aligned_cols=57  Identities=25%  Similarity=0.364  Sum_probs=44.7

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccC
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF  181 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F  181 (876)
                      +.+-+|.++-+++|++.|....-...-.-+++++||++|||||.|++.|++  ...+.|
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~--al~Rkf  378 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAK--ALGRKF  378 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHH--HhCCCE
Confidence            456799999999999999653221122347999999999999999999997  566666

>PRK08181 transposase; Validated

Probab=96.17  E-value=0.006  Score=62.78  Aligned_cols=86  Identities=21%  Similarity=0.160  Sum_probs=48.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchh----------HHHHHHHHHHh----ccccccCCccCh
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE----------EIRVANAIIEG----LDDVWDGDYNKW  217 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~----------~~~~~~~i~~~----lDdvw~~~~~~~  217 (876)
                      .-+.|+|..|+|||.||.++.+  ........+.|+++.+-++          ..+.++.+.+.    |||+-......|
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~--~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l~~~dLLIIDDlg~~~~~~~  184 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGL--ALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKLDKFDLLILDDLAYVTKDQA  184 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHH--HHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHHhcCCEEEEeccccccCCHH
Confidence            3488999999999999999987  3333334556766543222          11222222222    898854433333


Q ss_pred             h--hHHhhhccC-CCCCEEEEEcCch
Q 042981          218 E--PFFHCLKHG-LHGSKILLTTRNE  240 (876)
Q Consensus       218 ~--~l~~~l~~~-~~gs~iivTTR~~  240 (876)
                      .  .+...+... ..+ .+||||...
T Consensus       185 ~~~~Lf~lin~R~~~~-s~IiTSN~~  209 (269)
T PRK08181        185 ETSVLFELISARYERR-SILITANQP  209 (269)
T ss_pred             HHHHHHHHHHHHHhCC-CEEEEcCCC
Confidence            2  244444321 224 588888753

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=96.16  E-value=0.032  Score=62.22  Aligned_cols=37  Identities=32%  Similarity=0.441  Sum_probs=26.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEe
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCV  189 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~v  189 (876)
                      ..-+.|+|..|+|||+||+++.+  .+...--.+++++.
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~--~l~~~~~~v~yi~~  177 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVH--ALRESGGKILYVRS  177 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHH--HHHHcCCCEEEeeH
Confidence            45688999999999999999998  34333234455554

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=96.11  E-value=0.035  Score=59.17  Aligned_cols=144  Identities=15%  Similarity=0.115  Sum_probs=89.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccc-------------------cccCCeEEEEEeC---CchhH---HHHHHHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEV-------------------KRNFEKVIWVCVS---DTFEE---IRVANAIIE  204 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~-------------------~~~F~~~~wv~vs---~~~~~---~~~~~~i~~  204 (876)
                      -..-+-++|+.|+||||+|+.+.+.---                   .+..+-..|+.-.   +...+   +++.+.+..
T Consensus        21 ~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~~~  100 (328)
T PRK05707         21 HPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFVVQ  100 (328)
T ss_pred             cceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHHhh
Confidence            3466789999999999999877652110                   0112334455322   22333   333333322


Q ss_pred             h----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-hCCcceEeCCCCCcccc--ccCCCcCC
Q 042981          205 G----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-MGSTNIIFIEQLTEEES--FSGRSFED  270 (876)
Q Consensus       205 ~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-~~~~~~~~l~~L~~~~~--~f~~~~~~  270 (876)
                      .          +|++..-+.+..+.+...+-....++.+|+||.+. .+... .+....+.+.+++.++.  +.....  
T Consensus       101 ~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~--  178 (328)
T PRK05707        101 TAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQAL--  178 (328)
T ss_pred             ccccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhc--
Confidence            1          88887777778888888888776778888888775 34333 33467899999999888  222111  


Q ss_pred             ccchHHHHHHHHHHcCCCchHHHHh
Q 042981          271 CEKLEPIGRKIARKCKGLPLAAKAT  295 (876)
Q Consensus       271 ~~~l~~~~~~i~~~c~GlPlai~~~  295 (876)
                      ...-.+-+..++..++|.|..+..+
T Consensus       179 ~~~~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        179 PESDERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             ccCChHHHHHHHHHcCCCHHHHHHH
Confidence            0112334567789999999766554

>PRK12377 putative replication protein; Provisional

Probab=96.09  E-value=0.0077  Score=61.17  Aligned_cols=86  Identities=20%  Similarity=0.188  Sum_probs=50.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHH-------HHHHHHHh--------ccccccCCcc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR-------VANAIIEG--------LDDVWDGDYN  215 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~-------~~~~i~~~--------lDdvw~~~~~  215 (876)
                      ...+.|+|..|+|||+||.++.+  .+......++++++.+-.....       ...++++.        |||+-.....
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~--~l~~~g~~v~~i~~~~l~~~l~~~~~~~~~~~~~l~~l~~~dLLiIDDlg~~~~s  178 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGN--RLLAKGRSVIVVTVPDVMSRLHESYDNGQSGEKFLQELCKVDLLVLDEIGIQRET  178 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHHcCCCeEEEEHHHHHHHHHHHHhccchHHHHHHHhcCCCEEEEcCCCCCCCC
Confidence            35789999999999999999998  4444444567777654332111       11223332        8998544334


Q ss_pred             Chhh--HHhhhccC-CCCCEEEEEcC
Q 042981          216 KWEP--FFHCLKHG-LHGSKILLTTR  238 (876)
Q Consensus       216 ~~~~--l~~~l~~~-~~gs~iivTTR  238 (876)
                      .|..  +...+... ...--+||||-
T Consensus       179 ~~~~~~l~~ii~~R~~~~~ptiitSN  204 (248)
T PRK12377        179 KNEQVVLNQIIDRRTASMRSVGMLTN  204 (248)
T ss_pred             HHHHHHHHHHHHHHHhcCCCEEEEcC
Confidence            5543  33333321 12233677775

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=96.08  E-value=0.0035  Score=61.92  Aligned_cols=60  Identities=18%  Similarity=0.234  Sum_probs=36.6

Q ss_pred             CcccCeeeccCccccccchhhccCCcccEEeecCC--CCCccccccccCcCCCceEecCCCCC
Q 042981          527 LIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWC--EDLRELPAGIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       527 L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~--~~l~~lp~~i~~L~~L~~L~l~~~~~  587 (876)
                      +..|++|++.+..++++- .+-.|++|++|.++.|  +....++.-..++++|++|++++|++
T Consensus        42 ~~~le~ls~~n~gltt~~-~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki  103 (260)
T KOG2739|consen   42 FVELELLSVINVGLTTLT-NFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKI  103 (260)
T ss_pred             ccchhhhhhhccceeecc-cCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCcc
Confidence            344555555555444331 2334778888888777  44455555556668888888888854

>COG3903 Predicted ATPase [General function prediction only]

Probab=96.08  E-value=0.0067  Score=64.13  Aligned_cols=200  Identities=23%  Similarity=0.246  Sum_probs=114.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCC-eEEEEEeCCchhHH----------------------HHHHHHHHh-
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEI----------------------RVANAIIEG-  205 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~----------------------~~~~~i~~~-  205 (876)
                      ..|-+.++|.|||||||++-++..   +...|. .+++|....--|..                      .+...+... 
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            568899999999999999988875   555664 33344322211111                      112222211 


Q ss_pred             ----ccccccCCccChhhHHhhhccCCCCCEEEEEcCchHHHHhhCCcceEeCCCCCcccc---ccCC-------CcCCc
Q 042981          206 ----LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIFIEQLTEEES---FSGR-------SFEDC  271 (876)
Q Consensus       206 ----lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~v~~~~~~~~~~~l~~L~~~~~---~f~~-------~~~~~  271 (876)
                          +|+.-.- .+.-..+...+-.+...-.|+.|+|.....   ..+..+.+.+|+..+.   .|-.       .+...
T Consensus        90 ~llvldncehl-~~~~a~~i~all~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l~  165 (414)
T COG3903          90 ALLVLDNCEHL-LDACAALIVALLGACPRLAILATSREAILV---AGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWLT  165 (414)
T ss_pred             HHHHhcCcHHH-HHHHHHHHHHHHccchhhhhHHHhHhhhcc---cccccccCCccccCCchhHHHHHHHHHhccceeec
Confidence                4443111 011112233344444455677887754322   2356788888887762   2211       11122


Q ss_pred             cchHHHHHHHHHHcCCCchHHHHhhhhhcCCccHHHHHHHhhhhhccccc-------cCCcchhhHhhcccCCCCchhHH
Q 042981          272 EKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWKVEE-------IGQGLFAPLLLSYNDLPSNSMVK  344 (876)
Q Consensus       272 ~~l~~~~~~i~~~c~GlPlai~~~~~~L~~~~~~~~w~~~~~~~~~~~~~-------~~~~~~~~l~~sy~~L~~~~~lk  344 (876)
                      ..-......|.++..|.|++|...++..+.-.. .+--.-++.....+.+       -.....+.+.+||.-|..  ..+
T Consensus       166 ~~~~a~v~~icr~ldg~~laielaaarv~sl~~-~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtg--we~  242 (414)
T COG3903         166 DDNAAAVAEICRRLDGIPLAIELAAARVRSLSP-DEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTG--WER  242 (414)
T ss_pred             CCchHHHHHHHHHhhcchHHHHHHHHHHHhcCH-HHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhh--HHH
Confidence            334567889999999999999999998876531 2222222211111111       124567789999999988  677


Q ss_pred             HHHhHhccCCCCcee
Q 042981          345 RCFSYCAIFPKEYNI  359 (876)
Q Consensus       345 ~cfly~~~fp~~~~i  359 (876)
                      --|--++.|...+.-
T Consensus       243 ~~~~rLa~~~g~f~~  257 (414)
T COG3903         243 ALFGRLAVFVGGFDL  257 (414)
T ss_pred             HHhcchhhhhhhhcc
Confidence            778777777665543

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=96.05  E-value=0.03  Score=63.22  Aligned_cols=108  Identities=23%  Similarity=0.221  Sum_probs=59.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCC--eEEEEEeCCchhHHHHHHH--------H---HHh-----ccccccC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE--KVIWVCVSDTFEEIRVANA--------I---IEG-----LDDVWDG  212 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~--~~~wv~vs~~~~~~~~~~~--------i---~~~-----lDdvw~~  212 (876)
                      ..-+.|+|..|+|||+||+++.+  .+...+.  .+++++..+-.  .++...        .   +..     |||+...
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~--~~~~~~~~~~v~yi~~~~~~--~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l  223 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGN--YILEKNPNAKVVYVTSEKFT--NDFVNALRNNTMEEFKEKYRSVDVLLIDDIQFL  223 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHHhCCCCeEEEEEHHHHH--HHHHHHHHcCcHHHHHHHHhcCCEEEEehhhhh
Confidence            45688999999999999999998  4544442  34566544311  111111        1   111     7888543


Q ss_pred             CccC-h-hhHHhhhcc-CCCCCEEEEEcCch--H-------HHHhhCCcceEeCCCCCcccc
Q 042981          213 DYNK-W-EPFFHCLKH-GLHGSKILLTTRNE--S-------VARMMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       213 ~~~~-~-~~l~~~l~~-~~~gs~iivTTR~~--~-------v~~~~~~~~~~~l~~L~~~~~  262 (876)
                      .... + +.+...+.. ...|..||+||...  .       +...+.....+++++.+.++-
T Consensus       224 ~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r  285 (450)
T PRK00149        224 AGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETR  285 (450)
T ss_pred             cCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHH
Confidence            2111 2 233332221 12355688887643  1       222333445778888777665

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.03  E-value=0.01  Score=60.19  Aligned_cols=87  Identities=17%  Similarity=0.215  Sum_probs=50.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchh------------HHHHHHHHHHh----ccccccCCc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE------------EIRVANAIIEG----LDDVWDGDY  214 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~------------~~~~~~~i~~~----lDdvw~~~~  214 (876)
                      ...+.++|.+|+|||+||.++.+.  +...-..++++++++-..            ..++.+.+...    +||+-....
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~--l~~~g~~v~~it~~~l~~~l~~~~~~~~~~~~~~l~~l~~~dlLvIDDig~~~~  176 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNE--LLLRGKSVLIITVADIMSAMKDTFSNSETSEEQLLNDLSNVDLLVIDEIGVQTE  176 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEEHHHHHHHHHHHHhhccccHHHHHHHhccCCEEEEeCCCCCCC
Confidence            357889999999999999999983  333334567777655332            11222222211    899876555


Q ss_pred             cChhh--HHhhhcc-CCCCCEEEEEcCc
Q 042981          215 NKWEP--FFHCLKH-GLHGSKILLTTRN  239 (876)
Q Consensus       215 ~~~~~--l~~~l~~-~~~gs~iivTTR~  239 (876)
                      .+|+.  +...+.. -...-.+||||-.
T Consensus       177 s~~~~~~l~~Ii~~Ry~~~~~tiitSNl  204 (244)
T PRK07952        177 SRYEKVIINQIVDRRSSSKRPTGMLTNS  204 (244)
T ss_pred             CHHHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence            56664  3333322 1122347777753

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=96.03  E-value=0.047  Score=62.64  Aligned_cols=133  Identities=13%  Similarity=0.078  Sum_probs=81.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc--------------------cccCCe
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV--------------------KRNFEK  183 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--------------------~~~F~~  183 (876)
                      .+++|-+..++.+..++...     .-.+.+-++|..|+||||+|+.+.+.--.                    ..+++.
T Consensus        16 ~diiGqe~iv~~L~~~i~~~-----~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv   90 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESN-----KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDV   90 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCe
Confidence            46999999999998888643     23456889999999999999988763111                    113332


Q ss_pred             EEEEEeCCchhHHHH---HHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHh-hCC
Q 042981          184 VIWVCVSDTFEEIRV---ANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARM-MGS  248 (876)
Q Consensus       184 ~~wv~vs~~~~~~~~---~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~-~~~  248 (876)
                       +++..........+   ...+...          +|++..-+...++.+...+........+|++|.. ..+... ...
T Consensus        91 -~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~SR  169 (563)
T PRK06647         91 -IEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSR  169 (563)
T ss_pred             -EEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHHHh
Confidence             33332222222222   2222211          7887665555677788777766666777666543 344332 223


Q ss_pred             cceEeCCCCCcccc
Q 042981          249 TNIIFIEQLTEEES  262 (876)
Q Consensus       249 ~~~~~l~~L~~~~~  262 (876)
                      ...++..+++.++-
T Consensus       170 c~~~~f~~l~~~el  183 (563)
T PRK06647        170 CQHFNFRLLSLEKI  183 (563)
T ss_pred             ceEEEecCCCHHHH
Confidence            45788888877664

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=96.03  E-value=0.018  Score=60.33  Aligned_cols=21  Identities=38%  Similarity=0.409  Sum_probs=18.1

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -+.++|.+|+||||+|+.+++
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~   80 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQ   80 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            477999999999999977765

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.

>PRK09183 transposase/IS protein; Provisional

Probab=95.99  E-value=0.0095  Score=61.39  Aligned_cols=22  Identities=41%  Similarity=0.434  Sum_probs=19.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+.|+|..|+|||+||.++.+
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~  124 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGY  124 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHH
Confidence            4577999999999999999976

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=95.99  E-value=0.0043  Score=57.30  Aligned_cols=101  Identities=14%  Similarity=0.172  Sum_probs=59.2

Q ss_pred             eeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc-cccCCeEEEEEeCCchhHHHHHHHHHHh
Q 042981          127 CGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV-KRNFEKVIWVCVSDTFEEIRVANAIIEG  205 (876)
Q Consensus       127 vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~  205 (876)
                      ||....++++.+.+..-..    .-..|-|.|..|+||+++|+.++....- ...|..+   .... .+     .++++.
T Consensus         1 vG~S~~~~~l~~~l~~~a~----~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~---~~~~-~~-----~~~l~~   67 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAK----SSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVI---DCAS-LP-----AELLEQ   67 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHC----SSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCC---CHHC-TC-----HHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhC----CCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEe---chhh-Cc-----HHHHHH
Confidence            5677777777777765322    2345689999999999999999974322 1223221   1111 11     233333


Q ss_pred             -------ccccccCCccChhhHHhhhccC-CCCCEEEEEcCch
Q 042981          206 -------LDDVWDGDYNKWEPFFHCLKHG-LHGSKILLTTRNE  240 (876)
Q Consensus       206 -------lDdvw~~~~~~~~~l~~~l~~~-~~gs~iivTTR~~  240 (876)
                             ++++..-+.+....+...+... ....|+|.||+..
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                   6777555545556676666643 5678999998754

>PRK06921 hypothetical protein; Provisional

Probab=95.98  E-value=0.013  Score=60.51  Aligned_cols=39  Identities=33%  Similarity=0.395  Sum_probs=29.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccccc-CCeEEEEEeCC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRN-FEKVIWVCVSD  191 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-F~~~~wv~vs~  191 (876)
                      ...+.++|..|+|||+||.++.+  .+... -..+++++..+
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~--~l~~~~g~~v~y~~~~~  156 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAAN--ELMRKKGVPVLYFPFVE  156 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH--HHhhhcCceEEEEEHHH
Confidence            45689999999999999999998  44333 34566777544

>PRK08939 primosomal protein DnaI; Reviewed

Probab=95.94  E-value=0.017  Score=60.95  Aligned_cols=108  Identities=17%  Similarity=0.196  Sum_probs=60.4

Q ss_pred             eccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHH------HHHH
Q 042981          128 GRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR------VANA  201 (876)
Q Consensus       128 Gr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~------~~~~  201 (876)
                      ++....+...+++..-..  ....+-+.|+|..|+|||.||.++++.  +...=..+.+++++.-+..-+      -...
T Consensus       135 ~~~~~~~~~~~fi~~~~~--~~~~~gl~L~G~~G~GKThLa~Aia~~--l~~~g~~v~~~~~~~l~~~lk~~~~~~~~~~  210 (306)
T PRK08939        135 DRLDALMAALDFLEAYPP--GEKVKGLYLYGDFGVGKSYLLAAIANE--LAKKGVSSTLLHFPEFIRELKNSISDGSVKE  210 (306)
T ss_pred             HHHHHHHHHHHHHHHhhc--cCCCCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEEEHHHHHHHHHHHHhcCcHHH
Confidence            344444445555543221  123467889999999999999999984  333223456776653211110      0112


Q ss_pred             HHHh--------ccccccCCccChhh--HHhhh-ccC-CCCCEEEEEcCc
Q 042981          202 IIEG--------LDDVWDGDYNKWEP--FFHCL-KHG-LHGSKILLTTRN  239 (876)
Q Consensus       202 i~~~--------lDdvw~~~~~~~~~--l~~~l-~~~-~~gs~iivTTR~  239 (876)
                      .++.        |||+-.+....|..  +...+ ... ..+-.+|+||--
T Consensus       211 ~l~~l~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        211 KIDAVKEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             HHHHhcCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            2222        89997666667864  54444 221 234568888763

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

Probab=95.92  E-value=0.088  Score=54.19  Aligned_cols=154  Identities=19%  Similarity=0.217  Sum_probs=88.7

Q ss_pred             hHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccc-----ccCCeEEEEEeCCchhHHHHHHHHHHh-
Q 042981          132 EKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVK-----RNFEKVIWVCVSDTFEEIRVANAIIEG-  205 (876)
Q Consensus       132 ~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-----~~F~~~~wv~vs~~~~~~~~~~~i~~~-  205 (876)
                      ..+++.++|..+.   .....-+.|||-.|.|||+++++..+..-..     ..+ .++.|.....++..++...|+.+ 
T Consensus        45 ~L~~L~~Ll~~P~---~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~-PVv~vq~P~~p~~~~~Y~~IL~~l  120 (302)
T PF05621_consen   45 ALDRLEELLEYPK---RHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERI-PVVYVQMPPEPDERRFYSAILEAL  120 (302)
T ss_pred             HHHHHHHHHhCCc---ccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccc-cEEEEecCCCCChHHHHHHHHHHh
Confidence            4455555555443   3466779999999999999999988642211     111 46667777888999999888887 


Q ss_pred             ------------------------------ccccccC---CccChhhHHhhhc---cCCCCCEEEEEcCchHHHHhh---
Q 042981          206 ------------------------------LDDVWDG---DYNKWEPFFHCLK---HGLHGSKILLTTRNESVARMM---  246 (876)
Q Consensus       206 ------------------------------lDdvw~~---~~~~~~~l~~~l~---~~~~gs~iivTTR~~~v~~~~---  246 (876)
                                                    +|.+.+-   ...+-..+...++   +.-.=+-|.|-|+..--|-..   
T Consensus       121 gaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~Q  200 (302)
T PF05621_consen  121 GAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQ  200 (302)
T ss_pred             CcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHH
Confidence                                          5666431   1112222333332   222234455555433222111   


Q ss_pred             --CCcceEeCCCCCcccc------ccCC----CcCCccchHHHHHHHHHHcCCCc
Q 042981          247 --GSTNIIFIEQLTEEES------FSGR----SFEDCEKLEPIGRKIARKCKGLP  289 (876)
Q Consensus       247 --~~~~~~~l~~L~~~~~------~f~~----~~~~~~~l~~~~~~i~~~c~GlP  289 (876)
                        +...++.+..-..++.      .|..    .....-...++++.|...++|+.
T Consensus       201 La~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~i  255 (302)
T PF05621_consen  201 LASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLI  255 (302)
T ss_pred             HHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCch
Confidence              1234666666666554      1211    11222345678999999999976

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

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=95.86  E-value=0.062  Score=61.87  Aligned_cols=133  Identities=14%  Similarity=0.151  Sum_probs=78.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc--------------------cccCCe
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV--------------------KRNFEK  183 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--------------------~~~F~~  183 (876)
                      .+++|.+..++.+..++....     -.+.+-++|..|+||||+|+.+.+.--.                    ..++| 
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~d-   89 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGK-----ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMD-   89 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCC-
Confidence            579999998998888887532     3466778999999999999887652110                    11333 


Q ss_pred             EEEEEeCCchh---HHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEc-CchHHHHh-hCC
Q 042981          184 VIWVCVSDTFE---EIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTT-RNESVARM-MGS  248 (876)
Q Consensus       184 ~~wv~vs~~~~---~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTT-R~~~v~~~-~~~  248 (876)
                      ++.+..+....   ++.+...+...          +|++..-....+..+...+........+|++| ....+... .+.
T Consensus        90 v~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~SR  169 (559)
T PRK05563         90 VIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSR  169 (559)
T ss_pred             eEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHhH
Confidence            23333332222   22333332211          78876555556777777776655555555544 44333322 223


Q ss_pred             cceEeCCCCCcccc
Q 042981          249 TNIIFIEQLTEEES  262 (876)
Q Consensus       249 ~~~~~l~~L~~~~~  262 (876)
                      ...++..+++.++.
T Consensus       170 c~~~~f~~~~~~ei  183 (559)
T PRK05563        170 CQRFDFKRISVEDI  183 (559)
T ss_pred             heEEecCCCCHHHH
Confidence            45677777776665

>PRK07667 uridine kinase; Provisional

Probab=95.86  E-value=0.016  Score=57.00  Aligned_cols=37  Identities=24%  Similarity=0.329  Sum_probs=29.5

Q ss_pred             HHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          133 KNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       133 ~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+.|.+.+....    ++..+|+|-|.+|+||||+|+.+..
T Consensus         3 ~~~~~~~~~~~~----~~~~iIgI~G~~gsGKStla~~L~~   39 (193)
T PRK07667          3 TNELINIMKKHK----ENRFILGIDGLSRSGKTTFVANLKE   39 (193)
T ss_pred             HHHHHHHHHhcC----CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            456676665543    3558999999999999999999987

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=95.84  E-value=0.064  Score=61.12  Aligned_cols=109  Identities=17%  Similarity=0.194  Sum_probs=61.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccC--CeEEEEEeCCchhH--HH-------HHHHHHHh-----ccccccCCc-
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNF--EKVIWVCVSDTFEE--IR-------VANAIIEG-----LDDVWDGDY-  214 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F--~~~~wv~vs~~~~~--~~-------~~~~i~~~-----lDdvw~~~~-  214 (876)
                      ..+.|+|..|+|||.|++++++  .....+  -.+++++..+-.+.  ..       .+++-+..     |||+..... 
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~--~a~~~~~g~~V~Yitaeef~~el~~al~~~~~~~f~~~y~~~DLLlIDDIq~l~gk  392 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGH--YARRLYPGTRVRYVSSEEFTNEFINSIRDGKGDSFRRRYREMDILLVDDIQFLEDK  392 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHH--HHHHhCCCCeEEEeeHHHHHHHHHHHHHhccHHHHHHHhhcCCEEEEehhccccCC
Confidence            4589999999999999999998  444333  24456665431110  00       11111112     888865422 


Q ss_pred             cChhh-HHhhhcc-CCCCCEEEEEcCch---------HHHHhhCCcceEeCCCCCcccc
Q 042981          215 NKWEP-FFHCLKH-GLHGSKILLTTRNE---------SVARMMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       215 ~~~~~-l~~~l~~-~~~gs~iivTTR~~---------~v~~~~~~~~~~~l~~L~~~~~  262 (876)
                      +.|.. +...+.. ...|..|||||+..         .+...+...-++++++.+.+.-
T Consensus       393 e~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR  451 (617)
T PRK14086        393 ESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETR  451 (617)
T ss_pred             HHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHH
Confidence            23332 3333322 12356788888752         2333444567888888887765

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.76  E-value=0.009  Score=54.45  Aligned_cols=33  Identities=24%  Similarity=0.329  Sum_probs=25.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCcccccc-CCeEEE
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRN-FEKVIW  186 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-F~~~~w  186 (876)
                      --|.|.||+|+||||+++.+.+  .++.. |...-+
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e--~L~~~g~kvgGf   39 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAE--KLREKGYKVGGF   39 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHH--HHHhcCceeeeE
Confidence            4579999999999999999997  44443 654433

>PRK06835 DNA replication protein DnaC; Validated

Probab=95.70  E-value=0.014  Score=62.07  Aligned_cols=86  Identities=22%  Similarity=0.351  Sum_probs=50.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHH------------HHHHHHHh----ccccccCCcc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR------------VANAIIEG----LDDVWDGDYN  215 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~------------~~~~i~~~----lDdvw~~~~~  215 (876)
                      .-+.++|..|+|||+||.++.+  .+.+.-..++++++.+-++.-.            ....+.+.    |||+-.....
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~--~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l~~~DLLIIDDlG~e~~t  261 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAK--ELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLLINCDLLIIDDLGTEKIT  261 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHH--HHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHhccCCEEEEeccCCCCCC
Confidence            5689999999999999999998  3333323567777655333111            11222221    8998655434


Q ss_pred             Chhh--HHhhhccC-CCCCEEEEEcCc
Q 042981          216 KWEP--FFHCLKHG-LHGSKILLTTRN  239 (876)
Q Consensus       216 ~~~~--l~~~l~~~-~~gs~iivTTR~  239 (876)
                      .|..  +...+... ..+-.+||||..
T Consensus       262 ~~~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        262 EFSKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            4432  33333321 235568888864

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

Probab=95.65  E-value=0.034  Score=66.65  Aligned_cols=99  Identities=15%  Similarity=0.223  Sum_probs=61.0

Q ss_pred             CceeeccchHHHHHHHhhccCC---cCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCch-------
Q 042981          124 GEVCGRVDEKNELLSKLLFESS---EQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF-------  193 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-------  193 (876)
                      ..++|.+..++.+.+.+.....   ..+....++-++|+.|+|||+||+.++.  ..   +...+.+..++-.       
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~--~l---~~~~~~~d~se~~~~~~~~~  528 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAE--AL---GVHLERFDMSEYMEKHTVSR  528 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHH--Hh---cCCeEEEeCchhhhcccHHH
Confidence            3578999888988888764211   0012345788999999999999999987  23   2223444433311       


Q ss_pred             -----------hHHHHHHHHHHh-------ccccccCCccChhhHHhhhccC
Q 042981          194 -----------EEIRVANAIIEG-------LDDVWDGDYNKWEPFFHCLKHG  227 (876)
Q Consensus       194 -----------~~~~~~~~i~~~-------lDdvw~~~~~~~~~l~~~l~~~  227 (876)
                                 +....+...++.       ||++..-..+.++.+...+..+
T Consensus       529 lig~~~gyvg~~~~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g  580 (731)
T TIGR02639       529 LIGAPPGYVGFEQGGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYA  580 (731)
T ss_pred             HhcCCCCCcccchhhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhccC
Confidence                       111122222222       8888877767777777776654

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.64  E-value=0.0015  Score=64.63  Aligned_cols=99  Identities=21%  Similarity=0.214  Sum_probs=56.6

Q ss_pred             CCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccc
Q 042981          465 LNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLP  544 (876)
Q Consensus       465 ~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp  544 (876)
                      +.+.+.|++.++.      ..+  -.+..+++.|+||.|         +-|.|..+ ..+..+..|+.|.|+.|.|..+-
T Consensus        18 l~~vkKLNcwg~~------L~D--Isic~kMp~lEVLsL---------SvNkIssL-~pl~rCtrLkElYLRkN~I~sld   79 (388)
T KOG2123|consen   18 LENVKKLNCWGCG------LDD--ISICEKMPLLEVLSL---------SVNKISSL-APLQRCTRLKELYLRKNCIESLD   79 (388)
T ss_pred             HHHhhhhcccCCC------ccH--HHHHHhcccceeEEe---------eccccccc-hhHHHHHHHHHHHHHhcccccHH
Confidence            3455556665544      111  123567777777777         55555554 33566777777777777776554


Q ss_pred             h--hhccCCcccEEeecCCCCCccccc-----cccCcCCCceEe
Q 042981          545 K--TLCELYNLQKLDIRWCEDLRELPA-----GIGKLKKMRSLL  581 (876)
Q Consensus       545 ~--~i~~L~~L~~L~L~~~~~l~~lp~-----~i~~L~~L~~L~  581 (876)
                      +  .+.+|++|++|-|..|.-.+.-+.     .+.-|++|+.||
T Consensus        80 EL~YLknlpsLr~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   80 ELEYLKNLPSLRTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             HHHHHhcCchhhhHhhccCCcccccchhHHHHHHHHcccchhcc
Confidence            3  355677777777766644333322     134556666654

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=95.64  E-value=0.066  Score=57.48  Aligned_cols=132  Identities=11%  Similarity=0.113  Sum_probs=79.1

Q ss_pred             ceee-ccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc--------------------cccCCe
Q 042981          125 EVCG-RVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV--------------------KRNFEK  183 (876)
Q Consensus       125 ~~vG-r~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--------------------~~~F~~  183 (876)
                      .++| -+..++.+...+...     .-....-++|..|+||||+|+.+.+.---                    ..|-|.
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~-----~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~   80 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKN-----RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDV   80 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCE
Confidence            3566 555666666666432     23467789999999999999887542100                    012232


Q ss_pred             EEEEEe-CCchhHHHH---HHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHhh-C
Q 042981          184 VIWVCV-SDTFEEIRV---ANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARMM-G  247 (876)
Q Consensus       184 ~~wv~v-s~~~~~~~~---~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~~-~  247 (876)
                       .++.. +....+..+   ...+-..          +|++..-+.+..+.++..+.....++.+|++|.+. .+.... +
T Consensus        81 -~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrS  159 (329)
T PRK08058         81 -HLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILS  159 (329)
T ss_pred             -EEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHh
Confidence             23322 222333222   2222211          77776555556777888888877788888888654 333322 3


Q ss_pred             CcceEeCCCCCcccc
Q 042981          248 STNIIFIEQLTEEES  262 (876)
Q Consensus       248 ~~~~~~l~~L~~~~~  262 (876)
                      ....+++.+++.++.
T Consensus       160 Rc~~i~~~~~~~~~~  174 (329)
T PRK08058        160 RCQVVEFRPLPPESL  174 (329)
T ss_pred             hceeeeCCCCCHHHH
Confidence            467899999998887

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=95.63  E-value=0.033  Score=67.31  Aligned_cols=50  Identities=26%  Similarity=0.327  Sum_probs=38.2

Q ss_pred             CceeeccchHHHHHHHhhccCC---cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESS---EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.+..++.|.+.+.....   .......++.++|+.|+|||.||+++..
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~  618 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAE  618 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999998864211   0123456889999999999999988765

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=95.61  E-value=0.032  Score=67.72  Aligned_cols=50  Identities=18%  Similarity=0.295  Sum_probs=38.0

Q ss_pred             CceeeccchHHHHHHHhhccCC---cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESS---EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.+..++.+...+.....   ..+....++.++|..|+|||++|+.+++
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~  620 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALAN  620 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999888865321   0012235788999999999999999986

>PTZ00301 uridine kinase; Provisional

Probab=95.61  E-value=0.012  Score=58.20  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|+|.|.+|+||||||+.+.+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~   25 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVS   25 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHH
Confidence            47999999999999999999876

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

Probab=95.59  E-value=0.011  Score=56.92  Aligned_cols=87  Identities=23%  Similarity=0.295  Sum_probs=45.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchh----------HHHHHHHHHHh----ccccccCCccC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE----------EIRVANAIIEG----LDDVWDGDYNK  216 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~----------~~~~~~~i~~~----lDdvw~~~~~~  216 (876)
                      -.-+.|+|..|+|||.||.++.+.  ...+=-.+.|+.+++-++          ..+..+.+...    |||+-.....+
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~--~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~~~dlLilDDlG~~~~~~  124 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANE--AIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLKRVDLLILDDLGYEPLSE  124 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHH--HHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHHTSSCEEEETCTSS---H
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHH--hccCCcceeEeecCceeccccccccccchhhhcCccccccEecccccceeeecc
Confidence            356899999999999999999873  222222456776553222          12233333333    89986554344


Q ss_pred             hhh--HHhhhccC-CCCCEEEEEcCch
Q 042981          217 WEP--FFHCLKHG-LHGSKILLTTRNE  240 (876)
Q Consensus       217 ~~~--l~~~l~~~-~~gs~iivTTR~~  240 (876)
                      |..  +...+... .++ .+||||.-.
T Consensus       125 ~~~~~l~~ii~~R~~~~-~tIiTSN~~  150 (178)
T PF01695_consen  125 WEAELLFEIIDERYERK-PTIITSNLS  150 (178)
T ss_dssp             HHHHCTHHHHHHHHHT--EEEEEESS-
T ss_pred             cccccchhhhhHhhccc-CeEeeCCCc
Confidence            432  22222211 123 588888743

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.

>PRK06526 transposase; Provisional

Probab=95.55  E-value=0.01  Score=60.79  Aligned_cols=22  Identities=32%  Similarity=0.258  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-+.|+|.+|+|||+||.++.+
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~  120 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGI  120 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHH
Confidence            4578999999999999999876

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=95.55  E-value=0.078  Score=56.24  Aligned_cols=164  Identities=16%  Similarity=0.126  Sum_probs=96.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCc---c---------c-cccCCeEEEEEeC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNND---E---------V-KRNFEKVIWVCVS  190 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~---~---------~-~~~F~~~~wv~vs  190 (876)
                      .+++|.+..++.+...+..+.     -....-++|..|+||+++|..+.+.-   .         + ...++-..|+.-.
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~r-----l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~   78 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNR-----IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPT   78 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEecc
Confidence            368999999999988886532     24788999999999999887765421   0         0 1223344555421


Q ss_pred             -----Cc------------------hhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEE
Q 042981          191 -----DT------------------FEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKI  233 (876)
Q Consensus       191 -----~~------------------~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~i  233 (876)
                           +.                  ..+. -.++|.+.              +|++..-+....+.++..+-... ...+
T Consensus        79 ~~~~g~~~~~~~~~~~~~~~~~~~~I~id-~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~f  156 (314)
T PRK07399         79 YQHQGKLITASEAEEAGLKRKAPPQIRLE-QIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTL  156 (314)
T ss_pred             ccccccccchhhhhhccccccccccCcHH-HHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeE
Confidence                 10                  0011 12334332              67776555567777888876655 4455


Q ss_pred             EEEcCc-hHHHHh-hCCcceEeCCCCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHHHHh
Q 042981          234 LLTTRN-ESVARM-MGSTNIIFIEQLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKAT  295 (876)
Q Consensus       234 ivTTR~-~~v~~~-~~~~~~~~l~~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~  295 (876)
                      |++|.+ ..+... .+....+++.++++++.  +...... .......-..++..++|.|..+...
T Consensus       157 ILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~-~~~~~~~~~~l~~~a~Gs~~~al~~  221 (314)
T PRK07399        157 ILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGD-EEILNINFPELLALAQGSPGAAIAN  221 (314)
T ss_pred             EEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhc-cccchhHHHHHHHHcCCCHHHHHHH
Confidence            555544 444433 23467999999999887  2221111 0111111357889999999765543

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.50  E-value=0.015  Score=56.41  Aligned_cols=36  Identities=39%  Similarity=0.632  Sum_probs=29.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEE
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWV  187 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  187 (876)
                      ...+|.|+|+.|+||||+|+.+++  +....+...+++
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            457999999999999999999997  565566666555

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=95.49  E-value=0.054  Score=53.86  Aligned_cols=99  Identities=15%  Similarity=0.122  Sum_probs=58.3

Q ss_pred             cCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCC--chhHHHHH
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSD--TFEEIRVA  199 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~--~~~~~~~~  199 (876)
                      .-++++|.+..++.+++-...=-.  .....-+-+||..|.|||++++++.+.  ....  ..--|.|.+  -.+..++.
T Consensus        25 ~l~~L~Gie~Qk~~l~~Nt~~Fl~--G~pannvLL~G~rGtGKSSlVkall~~--y~~~--GLRlIev~k~~L~~l~~l~   98 (249)
T PF05673_consen   25 RLDDLIGIERQKEALIENTEQFLQ--GLPANNVLLWGARGTGKSSLVKALLNE--YADQ--GLRLIEVSKEDLGDLPELL   98 (249)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHc--CCCCcceEEecCCCCCHHHHHHHHHHH--Hhhc--CceEEEECHHHhccHHHHH
Confidence            446799999999988864432111  112344667999999999999999872  2211  111233333  23445555


Q ss_pred             HHHHHh-------ccccccC-CccChhhHHhhhcc
Q 042981          200 NAIIEG-------LDDVWDG-DYNKWEPFFHCLKH  226 (876)
Q Consensus       200 ~~i~~~-------lDdvw~~-~~~~~~~l~~~l~~  226 (876)
                      ..+-..       +||.--+ +......++..+..
T Consensus        99 ~~l~~~~~kFIlf~DDLsFe~~d~~yk~LKs~LeG  133 (249)
T PF05673_consen   99 DLLRDRPYKFILFCDDLSFEEGDTEYKALKSVLEG  133 (249)
T ss_pred             HHHhcCCCCEEEEecCCCCCCCcHHHHHHHHHhcC
Confidence            544433       7887533 23345566666654

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=95.48  E-value=0.029  Score=65.17  Aligned_cols=109  Identities=18%  Similarity=0.324  Sum_probs=70.2

Q ss_pred             CceeeccchHHHHHHHhhccCCc---CCCCeEEEEEEecCCchHHHHHHHHHcCccccccC---CeEEEEEeCCchhHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSE---QQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF---EKVIWVCVSDTFEEIR  197 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~---~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F---~~~~wv~vs~~~~~~~  197 (876)
                      ..++|.+..++.|.+.+......   .+....+.-.+|+.|||||-||+++..     .-|   +..+-+..|+ |..+.
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~-----~Lfg~e~aliR~DMSE-y~EkH  564 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAE-----ALFGDEQALIRIDMSE-YMEKH  564 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHH-----HhcCCCccceeechHH-HHHHH
Confidence            46899999999999888653221   134567888899999999999998875     234   3334444444 32222


Q ss_pred             HHHHHHHh--------------------------ccccccCCccChhhHHhhhccCC----C-------CCEEEEEcC
Q 042981          198 VANAIIEG--------------------------LDDVWDGDYNKWEPFFHCLKHGL----H-------GSKILLTTR  238 (876)
Q Consensus       198 ~~~~i~~~--------------------------lDdvw~~~~~~~~~l~~~l~~~~----~-------gs~iivTTR  238 (876)
                      -...++-.                          ||.|-.-..+..+.+...|.+|.    .       .+-||+||-
T Consensus       565 sVSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN  642 (786)
T COG0542         565 SVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSN  642 (786)
T ss_pred             HHHHHhCCCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecc
Confidence            22222222                          88887766667777788877652    2       355666664

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=95.43  E-value=0.011  Score=58.55  Aligned_cols=61  Identities=20%  Similarity=0.170  Sum_probs=25.3

Q ss_pred             ccccceeeeccCccC--CCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEcc
Q 042981          805 MPRLSSLTIWYCPRL--RVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEY  867 (876)
Q Consensus       805 l~~L~~L~l~~c~~l--~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~  867 (876)
                      +|+|++|++++|++-  .+++ .+..+.+|..|++.+|.... +..-....+.-+|+|+.|+-.+
T Consensus        90 ~P~l~~l~ls~Nki~~lstl~-pl~~l~nL~~Ldl~n~~~~~-l~dyre~vf~ll~~L~~LD~~d  152 (260)
T KOG2739|consen   90 APNLKVLNLSGNKIKDLSTLR-PLKELENLKSLDLFNCSVTN-LDDYREKVFLLLPSLKYLDGCD  152 (260)
T ss_pred             CCceeEEeecCCccccccccc-hhhhhcchhhhhcccCCccc-cccHHHHHHHHhhhhccccccc
Confidence            355555555555321  1222 12334445555555554332 1111112334455555554443

>TIGR00763 lon ATP-dependent protease La

Probab=95.42  E-value=0.02  Score=68.93  Aligned_cols=50  Identities=24%  Similarity=0.304  Sum_probs=38.0

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.++.+++|.+++..........-+++.++|++|+|||++|+.+.+
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~  369 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAK  369 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999876532110012335899999999999999999997

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.

>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=95.41  E-value=0.021  Score=55.85  Aligned_cols=53  Identities=26%  Similarity=0.286  Sum_probs=34.6

Q ss_pred             eccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEE
Q 042981          128 GRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVC  188 (876)
Q Consensus       128 Gr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~  188 (876)
                      .+..+....++.|.        ...++.+.|.+|.|||.||-+..-+.-..+.|+.++++.
T Consensus         4 p~~~~Q~~~~~al~--------~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~R   56 (205)
T PF02562_consen    4 PKNEEQKFALDALL--------NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITR   56 (205)
T ss_dssp             --SHHHHHHHHHHH--------H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE
T ss_pred             CCCHHHHHHHHHHH--------hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEe
Confidence            34556666777776        235889999999999999977765433457788887774

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=95.41  E-value=0.046  Score=66.63  Aligned_cols=114  Identities=16%  Similarity=0.263  Sum_probs=68.6

Q ss_pred             CceeeccchHHHHHHHhhccCCc---CCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchh---HH-
Q 042981          124 GEVCGRVDEKNELLSKLLFESSE---QQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE---EI-  196 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~---~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~---~~-  196 (876)
                      ..++|.+..++.+.+.+......   .+....++.++|..|+|||++|+.+...  ....-...+.+..+.-.+   .. 
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~--l~~~~~~~i~~d~s~~~~~~~~~~  642 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEF--LFDDEDAMVRIDMSEYMEKHSVAR  642 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHH--hcCCCCcEEEEechhhcccchHHH
Confidence            45899999999999988753210   0123467889999999999999999862  211112223333332111   11 


Q ss_pred             ---------------HHHHHHHHh------ccccccCCccChhhHHhhhccCC-----------CCCEEEEEcCc
Q 042981          197 ---------------RVANAIIEG------LDDVWDGDYNKWEPFFHCLKHGL-----------HGSKILLTTRN  239 (876)
Q Consensus       197 ---------------~~~~~i~~~------lDdvw~~~~~~~~~l~~~l~~~~-----------~gs~iivTTR~  239 (876)
                                     .+...+-..      ||++..-..+.+..+...+..+.           ..+-||+||..
T Consensus       643 l~g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn~  717 (852)
T TIGR03346       643 LIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNL  717 (852)
T ss_pred             hcCCCCCccCcccccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCCc
Confidence                           122222211      89987777777888888775542           23447777754

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=95.35  E-value=0.019  Score=55.99  Aligned_cols=24  Identities=33%  Similarity=0.448  Sum_probs=22.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+.+|||-|.+|.||||+|+.++.
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~   30 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSE   30 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHH
Confidence            568999999999999999999997

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=95.35  E-value=0.22  Score=52.69  Aligned_cols=153  Identities=11%  Similarity=0.039  Sum_probs=95.0

Q ss_pred             hHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc-----Cccc-------------cccCCeEEEEEe---C
Q 042981          132 EKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN-----NDEV-------------KRNFEKVIWVCV---S  190 (876)
Q Consensus       132 ~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~-----~~~~-------------~~~F~~~~wv~v---s  190 (876)
                      ..+++...+..+     .-...+-++|..|+||+++|+.+.+     ++..             ....+-..||.-   +
T Consensus        11 ~~~~l~~~~~~~-----rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~   85 (319)
T PRK06090         11 VWQNWKAGLDAG-----RIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEG   85 (319)
T ss_pred             HHHHHHHHHHcC-----CcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCC
Confidence            445566555432     2346788999999999999988754     1110             112223445542   2


Q ss_pred             CchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-hCCcceEeC
Q 042981          191 DTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-MGSTNIIFI  254 (876)
Q Consensus       191 ~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-~~~~~~~~l  254 (876)
                      +...+..+ +.+.+.              +|++..-+.+.++.+...+-....++.+|++|.+. .+... .+....+.+
T Consensus        86 ~~I~vdqi-R~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~  164 (319)
T PRK06090         86 KSITVEQI-RQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVV  164 (319)
T ss_pred             CcCCHHHH-HHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeC
Confidence            23444433 233222              78877666678888988888877788887777664 44433 345678999


Q ss_pred             CCCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHHHHhh
Q 042981          255 EQLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATG  296 (876)
Q Consensus       255 ~~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~~  296 (876)
                      .+++.++.  +......  +    .+..+++.++|.|+.+..+.
T Consensus       165 ~~~~~~~~~~~L~~~~~--~----~~~~~l~l~~G~p~~A~~~~  202 (319)
T PRK06090        165 TPPSTAQAMQWLKGQGI--T----VPAYALKLNMGSPLKTLAMM  202 (319)
T ss_pred             CCCCHHHHHHHHHHcCC--c----hHHHHHHHcCCCHHHHHHHh
Confidence            99998887  2222111  1    23567899999999776553

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.32  E-value=0.012  Score=57.88  Aligned_cols=21  Identities=43%  Similarity=0.605  Sum_probs=20.0

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ||+|.|.+|+||||+|+++..
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            799999999999999999986

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 ....

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=95.31  E-value=0.11  Score=54.10  Aligned_cols=51  Identities=22%  Similarity=0.219  Sum_probs=37.1

Q ss_pred             CceeeccchHHHHHHHhhccCCc-------CCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSE-------QQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++=|.++.+++|.+...-+--.       +-..++=|-++|++|.|||-||++|++.
T Consensus       151 ~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~  208 (406)
T COG1222         151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQ  208 (406)
T ss_pred             hhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhc
Confidence            45667888888888766432110       1234577889999999999999999984

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

Probab=95.30  E-value=0.041  Score=57.45  Aligned_cols=76  Identities=21%  Similarity=0.227  Sum_probs=61.7

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHH
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAI  202 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  202 (876)
                      ++.+.+|+.+.+.+...+...+.   .-+..|-|.|..|.|||.+.+++++..  ..   ..+|+++-+.|..+-++..|
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~---~~PS~~~iyG~sgTGKT~~~r~~l~~~--n~---~~vw~n~~ecft~~~lle~I   76 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSC---TIPSIVHIYGHSGTGKTYLVRQLLRKL--NL---ENVWLNCVECFTYAILLEKI   76 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCc---ccceeEEEeccCCCchhHHHHHHHhhc--CC---cceeeehHHhccHHHHHHHH
Confidence            56788999999999988765432   234566899999999999999999843  22   35899999999999999999


Q ss_pred             HHhc
Q 042981          203 IEGL  206 (876)
Q Consensus       203 ~~~l  206 (876)
                      +.++
T Consensus        77 L~~~   80 (438)
T KOG2543|consen   77 LNKS   80 (438)
T ss_pred             HHHh
Confidence            8874

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=95.27  E-value=0.061  Score=55.75  Aligned_cols=21  Identities=43%  Similarity=0.483  Sum_probs=18.7

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -|-+.|.+|+|||++|+++.+
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~   43 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVAR   43 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            356899999999999999986

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).

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=95.21  E-value=0.071  Score=49.01  Aligned_cols=108  Identities=16%  Similarity=0.257  Sum_probs=68.5

Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHHhccccccCC-ccChhhHHhhhccCCCCC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEGLDDVWDGD-YNKWEPFFHCLKHGLHGS  231 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~lDdvw~~~-~~~~~~l~~~l~~~~~gs  231 (876)
                      -+.|||-||+||+++.+..|.. -..+.+...+||..-.    +.+.-.+=..---.|+.. .++.+.+-.+.-.+...|
T Consensus        22 K~vivGng~VGKssmiqryCkg-ifTkdykktIgvdfle----rqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa~   96 (246)
T KOG4252|consen   22 KFVIVGNGSVGKSSMIQRYCKG-IFTKDYKKTIGVDFLE----RQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQAS   96 (246)
T ss_pred             EEEEECCCccchHHHHHHHhcc-ccccccccccchhhhh----HHHHhhHHHHHHHHHHhccchhHHHHHHHHhccccce
Confidence            3569999999999999999962 1234456788886433    221111100011236542 356677777777788888


Q ss_pred             EEEEEcCchHHHHhhCCcceEeCCCCCccccccCCCcCCccchHHHHHHHHHHcCCCchHHH
Q 042981          232 KILLTTRNESVARMMGSTNIIFIEQLTEEESFSGRSFEDCEKLEPIGRKIARKCKGLPLAAK  293 (876)
Q Consensus       232 ~iivTTR~~~v~~~~~~~~~~~l~~L~~~~~~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~  293 (876)
                      ..+..|-++.--+                            ...+.-++|.+.|+-.|+.++
T Consensus        97 vLVFSTTDr~SFe----------------------------a~~~w~~kv~~e~~~IPtV~v  130 (246)
T KOG4252|consen   97 VLVFSTTDRYSFE----------------------------ATLEWYNKVQKETERIPTVFV  130 (246)
T ss_pred             EEEEecccHHHHH----------------------------HHHHHHHHHHHHhccCCeEEe
Confidence            7777776653222                            245667889999999998653

>PRK05480 uridine/cytidine kinase; Provisional

Probab=95.20  E-value=0.016  Score=58.00  Aligned_cols=24  Identities=38%  Similarity=0.534  Sum_probs=22.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +..+|+|.|..|+||||||+.++.
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~   28 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYE   28 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            568999999999999999999987

>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=95.15  E-value=0.015  Score=52.88  Aligned_cols=20  Identities=40%  Similarity=0.591  Sum_probs=18.7

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|.|..|+||||+|+.+.+
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            68999999999999999987

...

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=95.15  E-value=0.039  Score=61.69  Aligned_cols=39  Identities=28%  Similarity=0.359  Sum_probs=28.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccC-C-eEEEEEeCC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNF-E-KVIWVCVSD  191 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F-~-~~~wv~vs~  191 (876)
                      ..-+.|+|..|+|||+||+++++  .+.... . .++|++..+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~--~l~~~~~~~~v~yi~~~~  170 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGN--YVVQNEPDLRVMYITSEK  170 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHH--HHHHhCCCCeEEEEEHHH
Confidence            34589999999999999999998  444433 3 456666543

>PRK08233 hypothetical protein; Provisional

Probab=95.14  E-value=0.016  Score=56.46  Aligned_cols=23  Identities=30%  Similarity=0.488  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|+|.|.+|+||||||+.+..
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~   25 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTH   25 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            47999999999999999999986

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=95.13  E-value=0.064  Score=57.47  Aligned_cols=46  Identities=17%  Similarity=0.174  Sum_probs=37.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|....++++++.+.....    .-.-|-|+|-.|+||+++|+.++.
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~----~~~pVlI~GE~GtGK~~lA~~iH~   51 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAP----LDKPVLIIGERGTGKELIASRLHY   51 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhC----CCCCEEEECCCCCcHHHHHHHHHH
Confidence            3589999999999988876542    223467999999999999999986

>TIGR00235 udk uridine kinase

Probab=95.07  E-value=0.018  Score=57.45  Aligned_cols=24  Identities=38%  Similarity=0.465  Sum_probs=22.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-.+|+|+|..|+||||||+.+..
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHH
Confidence            458999999999999999999986

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.06  E-value=0.0015  Score=64.59  Aligned_cols=104  Identities=22%  Similarity=0.224  Sum_probs=77.0

Q ss_pred             ccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccc--c
Q 042981          493 SKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPA--G  570 (876)
Q Consensus       493 ~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~--~  570 (876)
                      +.+.+.+.|++         .+|.+..|. -+..|+.|++|.||-|.|++|-+ +..+++|+.|.|+.| .+..+-.  -
T Consensus        16 sdl~~vkKLNc---------wg~~L~DIs-ic~kMp~lEVLsLSvNkIssL~p-l~rCtrLkElYLRkN-~I~sldEL~Y   83 (388)
T KOG2123|consen   16 SDLENVKKLNC---------WGCGLDDIS-ICEKMPLLEVLSLSVNKISSLAP-LQRCTRLKELYLRKN-CIESLDELEY   83 (388)
T ss_pred             hHHHHhhhhcc---------cCCCccHHH-HHHhcccceeEEeeccccccchh-HHHHHHHHHHHHHhc-ccccHHHHHH
Confidence            34667788888         777776652 23679999999999999999854 889999999999998 4544432  3


Q ss_pred             ccCcCCCceEecCCCCCCccCCcc-----CCCCCCCCccCcee
Q 042981          571 IGKLKKMRSLLNGGTPLLKYMPIG-----ISKLTSLRTLEKFA  608 (876)
Q Consensus       571 i~~L~~L~~L~l~~~~~~~~~p~~-----i~~l~~L~~L~~~~  608 (876)
                      +.++++|+.|-|..|+-.+.-+..     +.-|++|+.|+...
T Consensus        84 LknlpsLr~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLDnv~  126 (388)
T KOG2123|consen   84 LKNLPSLRTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLDNVP  126 (388)
T ss_pred             HhcCchhhhHhhccCCcccccchhHHHHHHHHcccchhccCcc
Confidence            578999999999888766655432     34567777775443

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.04  E-value=0.0015  Score=61.72  Aligned_cols=88  Identities=18%  Similarity=0.380  Sum_probs=62.3

Q ss_pred             cccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCC-CCCCCCCCCccEEEEecCCCchhhcccc
Q 042981          772 VIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVL-PDYLFQSTTLQKLSISYCPIMEELRILE  850 (876)
Q Consensus       772 ~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l-p~~l~~l~~L~~L~l~~~~~l~~l~~~~  850 (876)
                      +..+++++.|.+.+|..+.+|.+...    .+..|+|+.|+|++|+.+++- -.++..+++|+.|.|++-+.+.......
T Consensus       121 L~~l~~i~~l~l~~ck~~dD~~L~~l----~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~l~~v~~~e~~~  196 (221)
T KOG3864|consen  121 LRDLRSIKSLSLANCKYFDDWCLERL----GGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYDLPYVANLELVQ  196 (221)
T ss_pred             HhccchhhhheeccccchhhHHHHHh----cccccchheeeccCCCeechhHHHHHHHhhhhHHHHhcCchhhhchHHHH
Confidence            44688999999999999999987332    236899999999999988733 3456778999999999877654432221


Q ss_pred             ccCCCCCCCcCEE
Q 042981          851 DHRTTDIPRLSSL  863 (876)
Q Consensus       851 ~~~~~~lp~L~~L  863 (876)
                      ...-..||+++..
T Consensus       197 ~~Le~aLP~c~I~  209 (221)
T KOG3864|consen  197 RQLEEALPKCDIV  209 (221)
T ss_pred             HHHHHhCccccee
Confidence            1122456665443

>CHL00095 clpC Clp protease ATP binding subunit

Probab=94.94  E-value=0.019  Score=69.65  Aligned_cols=44  Identities=27%  Similarity=0.292  Sum_probs=36.5

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++||+++++++++.|....      ..-+.++|.+|+|||++|+.++.
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            358999999999999997542      22345999999999999999877

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=94.90  E-value=0.21  Score=52.86  Aligned_cols=156  Identities=12%  Similarity=0.050  Sum_probs=91.7

Q ss_pred             chHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCc-----cc-----------cccCCeEEEEEe--CC-
Q 042981          131 DEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNND-----EV-----------KRNFEKVIWVCV--SD-  191 (876)
Q Consensus       131 ~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~-----~~-----------~~~F~~~~wv~v--s~-  191 (876)
                      ...+.+...+..+     .-..-+-++|..|+||+|+|..+.+.-     ..           .....-..||..  .. 
T Consensus        11 ~~~~~l~~~~~~~-----rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~   85 (319)
T PRK08769         11 RAYDQTVAALDAG-----RLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRT   85 (319)
T ss_pred             HHHHHHHHHHHcC-----CcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcc
Confidence            3455566555432     234578899999999999997765421     00           111233445521  11 


Q ss_pred             ------chhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-hCCc
Q 042981          192 ------TFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-MGST  249 (876)
Q Consensus       192 ------~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-~~~~  249 (876)
                            ...++ -.+++.+.              +|++..-+...-+.++..+-....++.+|++|.+. .+... .+..
T Consensus        86 ~~k~~~~I~id-qIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRC  164 (319)
T PRK08769         86 GDKLRTEIVIE-QVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRC  164 (319)
T ss_pred             cccccccccHH-HHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhh
Confidence                  11122 22333332              77776655556667888887777788887777753 44433 2346


Q ss_pred             ceEeCCCCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHHHHhh
Q 042981          250 NIIFIEQLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATG  296 (876)
Q Consensus       250 ~~~~l~~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~~  296 (876)
                      ..+.+.+++.++.  +..... .   -..-+..++..++|.|+.+..+.
T Consensus       165 q~i~~~~~~~~~~~~~L~~~~-~---~~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        165 QRLEFKLPPAHEALAWLLAQG-V---SERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             eEeeCCCcCHHHHHHHHHHcC-C---ChHHHHHHHHHcCCCHHHHHHHh
Confidence            7889999998887  222211 1   12235678999999998775544

>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=94.86  E-value=0.019  Score=45.50  Aligned_cols=22  Identities=32%  Similarity=0.522  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      +|.|.|..|+||||+|+.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999988863

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=94.86  E-value=0.015  Score=64.02  Aligned_cols=51  Identities=20%  Similarity=0.193  Sum_probs=38.1

Q ss_pred             CCceeeccchHHHHHHHhhccCCc-------CCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSE-------QQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++.|+++.++++.+.+...-..       +-...+-|-++|.+|+|||++|+++++
T Consensus       130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~  187 (389)
T PRK03992        130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAH  187 (389)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHH
Confidence            346889999999998876431100       012356688999999999999999998

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.84  E-value=0.14  Score=55.79  Aligned_cols=130  Identities=22%  Similarity=0.225  Sum_probs=74.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEe------CCch---hHHHHHHHHHHh------ccccccCCc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCV------SDTF---EEIRVANAIIEG------LDDVWDGDY  214 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~v------s~~~---~~~~~~~~i~~~------lDdvw~~~~  214 (876)
                      .+..+-+.|++|+|||+||..+..    ...|+.+--++-      |+..   .+++++.+-.+.      +||+-.-  
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~----~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdiErL--  610 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIAL----SSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDIERL--  610 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHh----hcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcchhhh--
Confidence            566777899999999999999985    456775544432      2211   223333333333      6776321  


Q ss_pred             cChh------------hHHhhhcc-CCCCCEE--EEEcCchHHHHhhCC----cceEeCCCCCcccc---ccCCCc-CCc
Q 042981          215 NKWE------------PFFHCLKH-GLHGSKI--LLTTRNESVARMMGS----TNIIFIEQLTEEES---FSGRSF-EDC  271 (876)
Q Consensus       215 ~~~~------------~l~~~l~~-~~~gs~i--ivTTR~~~v~~~~~~----~~~~~l~~L~~~~~---~f~~~~-~~~  271 (876)
                      -+|-            .+...+.. ..+|-|.  +-||..+.|.+.|+-    ...|.|+.++.-+-   +....+ -..
T Consensus       611 iD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~~n~fsd  690 (744)
T KOG0741|consen  611 LDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEELNIFSD  690 (744)
T ss_pred             hcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHHHHHccCCCc
Confidence            1232            22223332 2346564  447778889998873    46888888887333   211111 223


Q ss_pred             cchHHHHHHHHHHc
Q 042981          272 EKLEPIGRKIARKC  285 (876)
Q Consensus       272 ~~l~~~~~~i~~~c  285 (876)
                      .+...++++.+.+|
T Consensus       691 ~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  691 DEVRAIAEQLLSKK  704 (744)
T ss_pred             chhHHHHHHHhccc
Confidence            44556667776666

>CHL00095 clpC Clp protease ATP binding subunit

Probab=94.83  E-value=0.071  Score=64.82  Aligned_cols=50  Identities=14%  Similarity=0.204  Sum_probs=37.2

Q ss_pred             CceeeccchHHHHHHHhhccCC---cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESS---EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.+..++.|...+.....   ..+....++-++|+.|+|||+||+.+.+
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~  561 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALAS  561 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHH
Confidence            4689999999999888763211   0022345677899999999999998875

>PRK06547 hypothetical protein; Provisional

Probab=94.82  E-value=0.037  Score=53.02  Aligned_cols=25  Identities=36%  Similarity=0.450  Sum_probs=22.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ...+|+|.|..|+||||+|+.+.+.
T Consensus        14 ~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         14 GMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999999863

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=94.79  E-value=0.12  Score=50.60  Aligned_cols=114  Identities=18%  Similarity=0.170  Sum_probs=65.4

Q ss_pred             cCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHH
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANA  201 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~  201 (876)
                      +-..++|.+..++.+++--..=..  .....-|-+||..|.||+.|+|++.+  .+.+..-..+=|+-.+-.+...+...
T Consensus        58 ~L~~l~Gvd~qk~~L~~NT~~F~~--G~pANnVLLwGaRGtGKSSLVKA~~~--e~~~~glrLVEV~k~dl~~Lp~l~~~  133 (287)
T COG2607          58 DLADLVGVDRQKEALVRNTEQFAE--GLPANNVLLWGARGTGKSSLVKALLN--EYADEGLRLVEVDKEDLATLPDLVEL  133 (287)
T ss_pred             CHHHHhCchHHHHHHHHHHHHHHc--CCcccceEEecCCCCChHHHHHHHHH--HHHhcCCeEEEEcHHHHhhHHHHHHH
Confidence            345799999888888764332110  11233467999999999999999998  55555444333332333333333333


Q ss_pred             HHHh-------cccccc-CCccChhhHHhhhccC--CCCCEEEE-EcCc
Q 042981          202 IIEG-------LDDVWD-GDYNKWEPFFHCLKHG--LHGSKILL-TTRN  239 (876)
Q Consensus       202 i~~~-------lDdvw~-~~~~~~~~l~~~l~~~--~~gs~iiv-TTR~  239 (876)
                      +-..       .||.-- ++......++.++..+  +...-||+ .|.+
T Consensus       134 Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSN  182 (287)
T COG2607         134 LRARPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSN  182 (287)
T ss_pred             HhcCCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecC
Confidence            2222       688743 3344666677777654  23344444 3443

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=94.78  E-value=0.11  Score=51.22  Aligned_cols=47  Identities=21%  Similarity=0.188  Sum_probs=28.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANA  201 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~  201 (876)
                      ++..|.|.+|.||||+++.+...  .... ...+.+..........+.+.
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~--~~~~-g~~v~~~apT~~Aa~~L~~~   65 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEA--LEAA-GKRVIGLAPTNKAAKELREK   65 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHH--HHHT-T--EEEEESSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCHHHHHHHHHHH--HHhC-CCeEEEECCcHHHHHHHHHh
Confidence            67888999999999999988762  2222 23444444444444444444

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=94.77  E-value=0.024  Score=68.47  Aligned_cols=44  Identities=30%  Similarity=0.322  Sum_probs=36.7

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.++||+.+++++++.|....      ..-+.++|.+|+||||+|+.+.+
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            468999999999999887542      23345999999999999999887

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.

>PF14516 AAA_35: AAA-like domain

Probab=94.67  E-value=0.63  Score=50.04  Aligned_cols=60  Identities=13%  Similarity=0.164  Sum_probs=41.0

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCC
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  191 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  191 (876)
                      .+..|.|...-+++.+.+...       -..+.|.|+-.+|||+|...+.+..+- ..+ .++++.+..
T Consensus        10 ~~~Yi~R~~~e~~~~~~i~~~-------G~~~~I~apRq~GKTSll~~l~~~l~~-~~~-~~v~id~~~   69 (331)
T PF14516_consen   10 SPFYIERPPAEQECYQEIVQP-------GSYIRIKAPRQMGKTSLLLRLLERLQQ-QGY-RCVYIDLQQ   69 (331)
T ss_pred             CCcccCchHHHHHHHHHHhcC-------CCEEEEECcccCCHHHHHHHHHHHHHH-CCC-EEEEEEeec
Confidence            344677886677777777643       257899999999999999888773222 233 344666544

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=94.67  E-value=0.037  Score=56.15  Aligned_cols=25  Identities=28%  Similarity=0.478  Sum_probs=23.0

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ....+|+|.|..|.|||||++.+..
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~   55 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEA   55 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999999986

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=94.67  E-value=0.027  Score=52.32  Aligned_cols=21  Identities=43%  Similarity=0.521  Sum_probs=19.2

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ||-++|++|+||||+|+.+..
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            678999999999999999885

...

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=94.61  E-value=0.1  Score=55.85  Aligned_cols=45  Identities=18%  Similarity=0.138  Sum_probs=34.3

Q ss_pred             eeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          126 VCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       126 ~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ++|....++++.+.+..-..    .-.-|-|+|..|+||+++|+.+++.
T Consensus         1 liG~S~~m~~~~~~~~~~a~----~~~pVLI~GE~GtGK~~lAr~iH~~   45 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAP----LDRPVLIIGERGTGKELIAARLHYL   45 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhC----CCCCEEEECCCCChHHHHHHHHHHh
Confidence            46777778888877765432    2234689999999999999999863

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

>PRK13531 regulatory ATPase RavA; Provisional

Probab=94.60  E-value=0.037  Score=60.99  Aligned_cols=42  Identities=19%  Similarity=0.132  Sum_probs=35.7

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|+++.++.+...+..+.        -|-|.|.+|+|||++|+.+..
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            358999999999988887543        377999999999999999987

>PRK06762 hypothetical protein; Provisional

Probab=94.59  E-value=0.026  Score=54.03  Aligned_cols=22  Identities=36%  Similarity=0.480  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|+.|+||||+|+.+.+
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~   24 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQE   24 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999986

>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=94.57  E-value=0.02  Score=50.65  Aligned_cols=27  Identities=37%  Similarity=0.548  Sum_probs=18.4

Q ss_pred             EEEEecCCchHHHHHHHHHcCccccccCC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNNDEVKRNFE  182 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~~~~~~~F~  182 (876)
                      |-|+|.+|+||||+|+.+..  .+...|.
T Consensus         2 vLleg~PG~GKT~la~~lA~--~~~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALAR--SLGLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHH--HTT--EE
T ss_pred             EeeECCCccHHHHHHHHHHH--HcCCcee
Confidence            56899999999999999997  5666664

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.

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=94.56  E-value=0.033  Score=54.84  Aligned_cols=52  Identities=21%  Similarity=0.245  Sum_probs=39.2

Q ss_pred             CceeeccchHHH---HHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCc
Q 042981          124 GEVCGRVDEKNE---LLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNND  175 (876)
Q Consensus       124 ~~~vGr~~~~~~---i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  175 (876)
                      +++||.++.+.+   |++.|...+.=++...+-|-.+|++|.|||.+|+++.+..
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~  175 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA  175 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc
Confidence            578998877654   5556654332235678889999999999999999999843

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=94.53  E-value=0.035  Score=51.19  Aligned_cols=37  Identities=35%  Similarity=0.355  Sum_probs=26.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVS  190 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  190 (876)
                      ..+.|+|.+|+||||+|+.+...  .......++.+..+
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~~   39 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARE--LGPPGGGVIYIDGE   39 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhc--cCCCCCCEEEECCE
Confidence            57899999999999999999873  33322234455443

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.

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=94.47  E-value=0.12  Score=55.78  Aligned_cols=126  Identities=17%  Similarity=0.169  Sum_probs=78.5

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc---------------------cCCe
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR---------------------NFEK  183 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---------------------~F~~  183 (876)
                      +++|-+....++..+.....    ....-+-++|+.|+||||+|.++.+.  +..                     .++.
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~----~~~halL~~Gp~G~Gktt~a~~lA~~--l~~~~~~~~~~~~~~~~~~~~~~~~~~d   75 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG----RLPHALLFYGPPGVGKTTAALALAKE--LLCENPTGLLPCGHCRSCKLIPAGNHPD   75 (325)
T ss_pred             CcccchhHHHHHHHHHHhcC----CCCceeeeeCCCCCCHHHHHHHHHHH--HhCCCcccCCcccchhhhhHHhhcCCCc
Confidence            46677777888888877432    12334889999999999999888763  211                     1245


Q ss_pred             EEEEEeCCchh---HHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh
Q 042981          184 VIWVCVSDTFE---EIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM  245 (876)
Q Consensus       184 ~~wv~vs~~~~---~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~  245 (876)
                      +..+..|+...   ..+..+++.+.              +|++..-+.+.-..++..+.......++|++|.+. .+...
T Consensus        76 ~lel~~s~~~~~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~t  155 (325)
T COG0470          76 FLELNPSDLRKIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPT  155 (325)
T ss_pred             eEEecccccCCCcchHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccch
Confidence            56666666554   34455555554              67776555455566666676677788888888732 33332


Q ss_pred             h-CCcceEeCCC
Q 042981          246 M-GSTNIIFIEQ  256 (876)
Q Consensus       246 ~-~~~~~~~l~~  256 (876)
                      . .....+++.+
T Consensus       156 I~SRc~~i~f~~  167 (325)
T COG0470         156 IRSRCQRIRFKP  167 (325)
T ss_pred             hhhcceeeecCC
Confidence            2 1234555555

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=94.47  E-value=0.06  Score=53.78  Aligned_cols=48  Identities=19%  Similarity=0.272  Sum_probs=36.0

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAN  200 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  200 (876)
                      .-+++-|+|.+|+|||++|.++..  .....-..++|++... ++..++.+
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~--~~~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAV--NAARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH--HHHhCCCeEEEEECCC-CCHHHHHH
Confidence            458999999999999999988765  2333456789999876 66555443

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>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=94.46  E-value=0.04  Score=57.83  Aligned_cols=51  Identities=24%  Similarity=0.317  Sum_probs=43.8

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.+++|.++.++++++.+.......+..-+|+-++|+.|.||||||+.+-+
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            457999999999999999876543356779999999999999999998876

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

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

Probab=94.44  E-value=0.032  Score=66.84  Aligned_cols=44  Identities=30%  Similarity=0.274  Sum_probs=36.5

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.++||+++++++++.|....      ..-+.++|.+|+|||++|+.+.+
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            368999999999999887542      22356899999999999999987

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=94.42  E-value=0.025  Score=30.74  Aligned_cols=17  Identities=35%  Similarity=0.665  Sum_probs=9.7

Q ss_pred             CCcCEEEEccCCCCCCCC
Q 042981          858 PRLSSLEIEYCPKLNVLP  875 (876)
Q Consensus       858 p~L~~L~i~~c~~L~~lP  875 (876)
                      |+|+.|++++|. |++||
T Consensus         1 ~~L~~L~l~~n~-L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNR-LTSLP   17 (17)
T ss_dssp             TT-SEEEETSS---SSE-
T ss_pred             CccCEEECCCCC-CCCCc
Confidence            467777887775 77776

...

>PRK10865 protein disaggregation chaperone; Provisional

Probab=94.41  E-value=0.032  Score=67.64  Aligned_cols=44  Identities=25%  Similarity=0.286  Sum_probs=36.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.++||+.+++++++.|....      ..-+.++|.+|+||||+|+.+..
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            359999999999999997542      23355899999999999998887

>TIGR01817 nifA Nif-specific regulatory protein

Probab=94.36  E-value=0.16  Score=58.82  Aligned_cols=49  Identities=16%  Similarity=0.218  Sum_probs=39.1

Q ss_pred             cCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ....++|....++++++.+..-..    .-.-|-|+|..|+|||++|+.+++.
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a~----~~~pvli~Ge~GtGK~~lA~~ih~~  242 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVAR----SNSTVLLRGESGTGKELIAKAIHYL  242 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHhC----cCCCEEEECCCCccHHHHHHHHHHh
Confidence            346799999999999988865432    2234679999999999999999974

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.

>PRK03839 putative kinase; Provisional

Probab=94.36  E-value=0.029  Score=54.53  Aligned_cols=21  Identities=38%  Similarity=0.692  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|.|+|++|+||||+|+++++
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~   22 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAE   22 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999987

>PRK04040 adenylate kinase; Provisional

Probab=94.28  E-value=0.035  Score=54.11  Aligned_cols=22  Identities=36%  Similarity=0.610  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|+|++|+||||+++.+.+
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~   24 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALE   24 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHH
Confidence            6899999999999999999987

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=94.28  E-value=0.042  Score=65.69  Aligned_cols=51  Identities=27%  Similarity=0.341  Sum_probs=39.9

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.+.+|.++-+++|+++|..........-.++.++|++|+||||+|+.+..
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~  371 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAK  371 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999988742211122346899999999999999999986

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=94.24  E-value=0.034  Score=54.45  Aligned_cols=24  Identities=29%  Similarity=0.321  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.++|.|+|+.|+||||+|+.+..
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999985

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.

>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=94.21  E-value=0.037  Score=53.58  Aligned_cols=21  Identities=43%  Similarity=0.620  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|+|.|..|+||||||+.+..
T Consensus         1 ii~i~G~sgsGKttla~~l~~   21 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSN   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999986

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.20  E-value=0.086  Score=56.92  Aligned_cols=50  Identities=20%  Similarity=0.256  Sum_probs=36.1

Q ss_pred             CceeeccchHHHHHHHhhcc-------CC-cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE-------SS-EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~-------~~-~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.++.++.+...+...       .. ......+-|-++|+.|+||||+|+++..
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~   69 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAK   69 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHH
Confidence            45889888888886666532       00 0012346788999999999999999987

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.

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=94.18  E-value=0.13  Score=61.13  Aligned_cols=49  Identities=18%  Similarity=0.247  Sum_probs=37.3

Q ss_pred             ceeeccchHHHHHHHhhccCC---cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          125 EVCGRVDEKNELLSKLLFESS---EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|.++.++.|.+.+.....   ..+.....+-++|+.|+|||++|+.+..
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~  510 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSK  510 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHH
Confidence            489999999999888864211   0022345788999999999999999986

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=94.18  E-value=0.061  Score=50.03  Aligned_cols=35  Identities=40%  Similarity=0.350  Sum_probs=26.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEE
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVC  188 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~  188 (876)
                      .||-|.|..|.||||||+++.+  ++...-..+.++.
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~--~L~~~g~~~~~LD   37 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALER--RLFARGIKVYLLD   37 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHH--HHHHTTS-EEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHH--HHHHcCCcEEEec
Confidence            5888999999999999999998  5555444555553

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 ....

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=94.17  E-value=0.062  Score=55.86  Aligned_cols=25  Identities=32%  Similarity=0.344  Sum_probs=21.8

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ....+|||.|..|+||||+|+.+..
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~   84 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQA   84 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999987754

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.

>PHA00729 NTP-binding motif containing protein

Probab=94.15  E-value=0.066  Score=53.02  Aligned_cols=24  Identities=33%  Similarity=0.378  Sum_probs=21.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +...|.|.|.+|+||||||..+.+
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~   39 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVAR   39 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHH
Confidence            456788999999999999999887

>PRK00625 shikimate kinase; Provisional

Probab=94.14  E-value=0.033  Score=53.37  Aligned_cols=20  Identities=35%  Similarity=0.479  Sum_probs=18.8

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.++||.|+||||+++.+.+
T Consensus         3 I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          3 IFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999986

>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=94.07  E-value=0.066  Score=52.52  Aligned_cols=53  Identities=26%  Similarity=0.260  Sum_probs=31.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCC-chhHHHHHHHHHHh
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-TFEEIRVANAIIEG  205 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~  205 (876)
                      ++||.+||+.|+||||.+-+++.  +.+..=..+..|+... .....+-++...+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa--~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~   54 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAA--RLKLKGKKVALISADTYRIGAVEQLKTYAEI   54 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHH--HHHHTT--EEEEEESTSSTHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHH--HHhhccccceeecCCCCCccHHHHHHHHHHH
Confidence            37999999999999987765554  2333334566777543 22333344444444

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 ....

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

Probab=94.06  E-value=0.0033  Score=72.17  Aligned_cols=166  Identities=22%  Similarity=0.274  Sum_probs=81.6

Q ss_pred             ccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeec-CCC-CCC----chhhcccCCcEEEEecCCCCC--C
Q 042981          654 NMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSY-GGN-IFP----KWLTSLTNLRDLRLKSCVICE--H  725 (876)
Q Consensus       654 ~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~-~~~-~lp----~~l~~l~~L~~L~L~~~~~~~--~  725 (876)
                      .+++|+.|.+..+....     ...........++|+.|++.++ ... ..+    .....+++|+.|++++|...+  .
T Consensus       186 ~~~~L~~l~l~~~~~~~-----~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~  260 (482)
T KOG1947|consen  186 SCPLLKRLSLSGCSKIT-----DDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIG  260 (482)
T ss_pred             hCchhhHhhhcccccCC-----hhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchh
Confidence            46777777776553210     1113344556677888887762 111 111    122256778888888777322  2


Q ss_pred             CCCCCc-cc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccC
Q 042981          726 FPPLGK-LP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENIS  803 (876)
Q Consensus       726 lp~l~~-Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~  803 (876)
                      +..+.. .| |+.|.+.+|..+.  +..+..                ....+++|++|++++|..+.+...    .....
T Consensus       261 l~~l~~~c~~L~~L~l~~c~~lt--~~gl~~----------------i~~~~~~L~~L~l~~c~~~~d~~l----~~~~~  318 (482)
T KOG1947|consen  261 LSALASRCPNLETLSLSNCSNLT--DEGLVS----------------IAERCPSLRELDLSGCHGLTDSGL----EALLK  318 (482)
T ss_pred             HHHHHhhCCCcceEccCCCCccc--hhHHHH----------------HHHhcCcccEEeeecCccchHHHH----HHHHH
Confidence            222332 56 7777766665422  111111                123577777777777766644322    11223


Q ss_pred             cccccceeeeccCcc---CCCC--CCCCCCC-CCccEEEEecCCCchhh
Q 042981          804 IMPRLSSLTIWYCPR---LRVL--PDYLFQS-TTLQKLSISYCPIMEEL  846 (876)
Q Consensus       804 ~l~~L~~L~l~~c~~---l~~l--p~~l~~l-~~L~~L~l~~~~~l~~l  846 (876)
                      .+|+|+.|.+..+..   ++.+  -...... ..+..+.+.+|+.+..+
T Consensus       319 ~c~~l~~l~~~~~~~c~~l~~~~l~~~~~~~~d~~~~~~~~~~~~l~~~  367 (482)
T KOG1947|consen  319 NCPNLRELKLLSLNGCPSLTDLSLSGLLTLTSDDLAELILRSCPKLTDL  367 (482)
T ss_pred             hCcchhhhhhhhcCCCccHHHHHHHHhhccCchhHhHHHHhcCCCcchh
Confidence            456555555444332   2211  1111111 14566666666666554

>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=94.04  E-value=0.076  Score=50.81  Aligned_cols=74  Identities=19%  Similarity=0.192  Sum_probs=46.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccc-ccCCeEEEEEeCCchhH---HHHHHHHHHh--------------ccccccC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVK-RNFEKVIWVCVSDTFEE---IRVANAIIEG--------------LDDVWDG  212 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~F~~~~wv~vs~~~~~---~~~~~~i~~~--------------lDdvw~~  212 (876)
                      ..++-+.|+.|+|||.||+++.+  .+. +.....+-+..++-...   .......+..              ||++...
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~--~l~~~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~~~~~gVVllDEidKa   80 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAE--LLFVGSERPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVGAEEGGVVLLDEIDKA   80 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHH--HHT-SSCCEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHHHHHHTEEEEETGGGC
T ss_pred             EEEEEEECCCCCCHHHHHHHHHH--HhccCCccchHHHhhhcccccchHHhhhhhhhhcccceeeccchhhhhhHHHhhc
Confidence            46788999999999999999987  343 34445555555542220   1111111111              8888776


Q ss_pred             Cc-----------cChhhHHhhhcc
Q 042981          213 DY-----------NKWEPFFHCLKH  226 (876)
Q Consensus       213 ~~-----------~~~~~l~~~l~~  226 (876)
                      ..           ..|..+...+..
T Consensus        81 ~~~~~~~~~v~~~~V~~~LL~~le~  105 (171)
T PF07724_consen   81 HPSNSGGADVSGEGVQNSLLQLLEG  105 (171)
T ss_dssp             SHTTTTCSHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHHHHHHHHHhcc
Confidence            66           567777777654

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 ....

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=93.96  E-value=0.034  Score=53.85  Aligned_cols=21  Identities=38%  Similarity=0.616  Sum_probs=19.7

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ||+|.|.+|+||||+|+.+..
T Consensus         1 ii~i~G~sgsGKTtla~~l~~   21 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQR   21 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999987

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.

>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=93.96  E-value=0.032  Score=55.98  Aligned_cols=21  Identities=29%  Similarity=0.457  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|+|.|..|+||||+|+.+..
T Consensus         1 IigI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHH
Confidence            589999999999999999986

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=93.94  E-value=0.033  Score=55.08  Aligned_cols=21  Identities=38%  Similarity=0.564  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ||+|.|..|+||||||+.+..
T Consensus         1 iigi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999876

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.

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=93.90  E-value=0.041  Score=52.96  Aligned_cols=23  Identities=43%  Similarity=0.505  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|+|=||=|+||||||+++.+
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~   26 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAE   26 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHH
Confidence            47899999999999999999997

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=93.90  E-value=0.097  Score=53.40  Aligned_cols=51  Identities=20%  Similarity=0.221  Sum_probs=36.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCcccccc----CCeEEEEEeCCchhHHHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRN----FEKVIWVCVSDTFEEIRVAN  200 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~~~~  200 (876)
                      .-.++.|+|.+|+||||||.+++-.......    -..++|++....++..++.+
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~   72 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQ   72 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHH
Confidence            4579999999999999999888643222221    36789999888777655433

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 .

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=93.87  E-value=0.059  Score=51.21  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=22.0

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...|++|+|..|+|||||++.+..
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~   28 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIP   28 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHH
Confidence            567999999999999999999986

>PRK00889 adenylylsulfate kinase; Provisional

Probab=93.87  E-value=0.051  Score=52.55  Aligned_cols=24  Identities=33%  Similarity=0.405  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-.+|.|+|++|+||||+|+++..
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~   26 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAE   26 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346999999999999999999987

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=93.84  E-value=0.072  Score=47.89  Aligned_cols=38  Identities=29%  Similarity=0.375  Sum_probs=27.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHH
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  196 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~  196 (876)
                      .-|-|.|-+|+||||+|+++....    .   .-|+++|+-....
T Consensus         8 PNILvtGTPG~GKstl~~~lae~~----~---~~~i~isd~vkEn   45 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEKT----G---LEYIEISDLVKEN   45 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHHh----C---CceEehhhHHhhh
Confidence            457799999999999999998521    1   2367777644333

>PRK10536 hypothetical protein; Provisional

Probab=93.84  E-value=0.22  Score=50.27  Aligned_cols=53  Identities=15%  Similarity=0.278  Sum_probs=38.5

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~  184 (876)
                      ..+.++.......+.++..        ..+|.+.|..|.|||+||.++..+.-..+.|+.+
T Consensus        55 ~~i~p~n~~Q~~~l~al~~--------~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kI  107 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES--------KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRI  107 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc--------CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEE
Confidence            3467788888888888853        2488999999999999998877642223445443

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

Probab=93.74  E-value=0.071  Score=54.66  Aligned_cols=66  Identities=21%  Similarity=0.306  Sum_probs=41.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHH-----------HHHHHHHHh----ccccccCCcc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI-----------RVANAIIEG----LDDVWDGDYN  215 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~-----------~~~~~i~~~----lDdvw~~~~~  215 (876)
                      ..-+.++|.+|+|||.||.++.+.  +.+.=-.+.++++.+-+..-           ++.+.+...    |||+-.....
T Consensus       105 ~~nl~l~G~~G~GKThLa~Ai~~~--l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~l~~~dlLIiDDlG~~~~~  182 (254)
T COG1484         105 GENLVLLGPPGVGKTHLAIAIGNE--LLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRELKKVDLLIIDDIGYEPFS  182 (254)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHH--HHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHHhhcCCEEEEecccCccCC
Confidence            345889999999999999999984  43322356677765533221           122222222    8998765545


Q ss_pred             Chh
Q 042981          216 KWE  218 (876)
Q Consensus       216 ~~~  218 (876)
                      .|.
T Consensus       183 ~~~  185 (254)
T COG1484         183 QEE  185 (254)
T ss_pred             HHH
Confidence            555

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=93.74  E-value=0.054  Score=49.87  Aligned_cols=38  Identities=32%  Similarity=0.432  Sum_probs=26.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCcccc-ccCCeEEEEEeCC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVK-RNFEKVIWVCVSD  191 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~F~~~~wv~vs~  191 (876)
                      +||.|+|..|+|||||++.+.+  ... ..+...+..+...
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

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=93.71  E-value=0.041  Score=29.91  Aligned_cols=16  Identities=38%  Similarity=0.588  Sum_probs=6.4

Q ss_pred             ccCeeeccCccccccc
Q 042981          529 HLKYLNLSELCIERLP  544 (876)
Q Consensus       529 ~Lr~L~Ls~~~i~~lp  544 (876)
                      +|+.|+|++|.++++|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            4555555555555444

...

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=93.69  E-value=0.054  Score=49.79  Aligned_cols=23  Identities=35%  Similarity=0.647  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|+.|+|.+|+||||+.+.+-.
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~   26 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALK   26 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHH
Confidence            68999999999999999887765

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=93.67  E-value=0.049  Score=52.91  Aligned_cols=23  Identities=39%  Similarity=0.535  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      +++.|+|+.|+||||+|+.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999998763

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.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=93.65  E-value=0.16  Score=60.61  Aligned_cols=47  Identities=23%  Similarity=0.372  Sum_probs=37.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..++|....++++++.+..-..    .-.-|-|+|..|+|||++|+.+++.
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~----~~~pVLI~GE~GTGK~~lA~~ih~~  422 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQ----SDSTVLILGETGTGKELIARAIHNL  422 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhC----CCCCEEEECCCCcCHHHHHHHHHHh
Confidence            4699999999998877764322    2245789999999999999999974

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=93.65  E-value=0.13  Score=46.72  Aligned_cols=82  Identities=13%  Similarity=0.210  Sum_probs=30.9

Q ss_pred             cccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccc-ccccCcccCeeeccCcc
Q 042981          461 SIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPE-NVRKLIHLKYLNLSELC  539 (876)
Q Consensus       461 ~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~-~i~~L~~Lr~L~Ls~~~  539 (876)
                      .|.++++|+.+.+...       ...+....|..++.|+.+.+         ..+ +..++. .+.++..|+++.+.. .
T Consensus         7 ~F~~~~~l~~i~~~~~-------~~~I~~~~F~~~~~l~~i~~---------~~~-~~~i~~~~F~~~~~l~~i~~~~-~   68 (129)
T PF13306_consen    7 AFYNCSNLESITFPNT-------IKKIGENAFSNCTSLKSINF---------PNN-LTSIGDNAFSNCKSLESITFPN-N   68 (129)
T ss_dssp             TTTT-TT--EEEETST---------EE-TTTTTT-TT-SEEEE---------SST-TSCE-TTTTTT-TT-EEEEETS-T
T ss_pred             HHhCCCCCCEEEECCC-------eeEeChhhcccccccccccc---------ccc-ccccceeeeecccccccccccc-c
Confidence            3445555555555321       12333344555555555555         322 333332 234444555555544 3


Q ss_pred             ccccch-hhccCCcccEEeecC
Q 042981          540 IERLPK-TLCELYNLQKLDIRW  560 (876)
Q Consensus       540 i~~lp~-~i~~L~~L~~L~L~~  560 (876)
                      +..++. .+..+.+|+.+++..
T Consensus        69 ~~~i~~~~F~~~~~l~~i~~~~   90 (129)
T PF13306_consen   69 LKSIGDNAFSNCTNLKNIDIPS   90 (129)
T ss_dssp             T-EE-TTTTTT-TTECEEEETT
T ss_pred             ccccccccccccccccccccCc
Confidence            333333 233455555555543

>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=93.62  E-value=0.12  Score=47.62  Aligned_cols=42  Identities=36%  Similarity=0.357  Sum_probs=29.0

Q ss_pred             EEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHH
Q 042981          154 ISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAN  200 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  200 (876)
                      |-++|..|+|||+||+.+++  ....   ...-+.++...+..++..
T Consensus         2 vlL~G~~G~GKt~l~~~la~--~~~~---~~~~i~~~~~~~~~dl~g   43 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAA--LLGR---PVIRINCSSDTTEEDLIG   43 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHH--HHTC---EEEEEE-TTTSTHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHH--Hhhc---ceEEEEecccccccccee
Confidence            56899999999999999987  3321   233456777677666543

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.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=93.61  E-value=0.22  Score=57.06  Aligned_cols=48  Identities=21%  Similarity=0.303  Sum_probs=39.1

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ...++|....++++.+.+..-..    .-.-|-|+|..|+|||++|+.+++.
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a~----~~~pVlI~Ge~GtGK~~~A~~ih~~  233 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVAA----SDLNVLILGETGVGKELVARAIHAA  233 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHhC----CCCcEEEECCCCccHHHHHHHHHHh
Confidence            45699999999999988876432    2345779999999999999999974

>PRK00131 aroK shikimate kinase; Reviewed

Probab=93.61  E-value=0.051  Score=52.44  Aligned_cols=23  Identities=35%  Similarity=0.485  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...|.|+|++|+||||+|+.+..
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~   26 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAK   26 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHH
Confidence            45889999999999999999987

>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=93.60  E-value=0.39  Score=44.60  Aligned_cols=23  Identities=43%  Similarity=0.599  Sum_probs=21.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .+++|+|..|.|||||++.+...
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCC
Confidence            68999999999999999999874

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=93.59  E-value=0.059  Score=65.71  Aligned_cols=44  Identities=25%  Similarity=0.282  Sum_probs=36.1

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.++||+.+++++++.|....      ..-+.++|.+|+|||++|+.+.+
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            359999999999999997542      23345899999999999998877

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=93.52  E-value=0.093  Score=47.41  Aligned_cols=24  Identities=42%  Similarity=0.324  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -.+|.+.|.-|.||||+++.+.+.
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            358999999999999999999874

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.

>TIGR03263 guanyl_kin guanylate kinase

Probab=93.49  E-value=0.055  Score=52.57  Aligned_cols=22  Identities=32%  Similarity=0.539  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|+|+.|+||||||+.+.+
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~   23 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLE   23 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHc
Confidence            5799999999999999999987

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.

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

Probab=93.47  E-value=0.13  Score=52.58  Aligned_cols=42  Identities=26%  Similarity=0.357  Sum_probs=32.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCC-eEEEEEeCCchhH
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEE  195 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~  195 (876)
                      +-++|+|..|+||||||+.+++  .++.+|+ .++++.+.+....
T Consensus        70 Qr~~If~~~G~GKTtLa~~i~~--~i~~~~~~~~V~~~iGer~~E  112 (274)
T cd01133          70 GKIGLFGGAGVGKTVLIMELIN--NIAKAHGGYSVFAGVGERTRE  112 (274)
T ss_pred             CEEEEecCCCCChhHHHHHHHH--HHHhcCCCEEEEEEeccCcHH
Confidence            5689999999999999999998  5555564 5666777776543

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=93.44  E-value=0.046  Score=53.30  Aligned_cols=21  Identities=29%  Similarity=0.317  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ||.|+|++|+||||+|+.+..
T Consensus         1 ~i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999986

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.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=93.42  E-value=0.12  Score=45.67  Aligned_cols=50  Identities=16%  Similarity=0.204  Sum_probs=34.9

Q ss_pred             CceeeccchHHHHHHHhhccCC-cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESS-EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~-~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|..-..+.|++.+..--. ......-|++.+|..|+|||.+|+.+.+
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            3578877777777766653211 1135678999999999999987666654

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

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=93.37  E-value=0.27  Score=51.32  Aligned_cols=38  Identities=39%  Similarity=0.426  Sum_probs=28.7

Q ss_pred             eccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHH
Q 042981          128 GRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLA  171 (876)
Q Consensus       128 Gr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v  171 (876)
                      +|..+..--+++|+.      +.+..|.+.|.+|.|||.||-+.
T Consensus       228 prn~eQ~~ALdlLld------~dI~lV~L~G~AGtGKTlLALaA  265 (436)
T COG1875         228 PRNAEQRVALDLLLD------DDIDLVSLGGKAGTGKTLLALAA  265 (436)
T ss_pred             cccHHHHHHHHHhcC------CCCCeEEeeccCCccHhHHHHHH
Confidence            355555666677774      47899999999999999888543

>PRK13947 shikimate kinase; Provisional

Probab=93.37  E-value=0.052  Score=52.21  Aligned_cols=21  Identities=38%  Similarity=0.537  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -|.|+|++|+||||+|+.+.+
T Consensus         3 ~I~l~G~~GsGKst~a~~La~   23 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVAT   23 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            378999999999999999987

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=93.37  E-value=0.11  Score=54.84  Aligned_cols=47  Identities=26%  Similarity=0.320  Sum_probs=31.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVA  199 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~  199 (876)
                      .+++-+.|.|||||||+|-+..-  ........++-|+.....+...++
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~--~lA~~g~kvLlvStDPAhsL~d~f   48 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAV--KLAESGKKVLLVSTDPAHSLGDVF   48 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHH--HHHHcCCcEEEEEeCCCCchHhhh
Confidence            47899999999999999977443  333444556666665554444433

>PRK03846 adenylylsulfate kinase; Provisional

Probab=93.34  E-value=0.07  Score=52.73  Aligned_cols=25  Identities=32%  Similarity=0.361  Sum_probs=22.5

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +...+|.|+|+.|+||||||+.+..
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~   46 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEE   46 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3568999999999999999999986

>PRK05439 pantothenate kinase; Provisional

Probab=93.33  E-value=0.11  Score=54.42  Aligned_cols=26  Identities=35%  Similarity=0.400  Sum_probs=23.0

Q ss_pred             CCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          148 QKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       148 ~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ....-||+|.|..|+||||+|+.+..
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~  108 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQA  108 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34678999999999999999998875

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=93.33  E-value=0.044  Score=47.88  Aligned_cols=20  Identities=40%  Similarity=0.509  Sum_probs=17.9

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |-|+|.+|+|||++|+.+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~   20 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAK   20 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999876

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

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=93.33  E-value=0.89  Score=48.74  Aligned_cols=157  Identities=15%  Similarity=0.118  Sum_probs=94.1

Q ss_pred             chHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC-----ccc--------------cccCCeEEEEEeC-
Q 042981          131 DEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN-----DEV--------------KRNFEKVIWVCVS-  190 (876)
Q Consensus       131 ~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~-----~~~--------------~~~F~~~~wv~vs-  190 (876)
                      ..-+++...+..+     .-..-+-+.|..|+||+|+|.++..-     +.-              ....+-..++.-. 
T Consensus         9 ~~~~~l~~~~~~~-----rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~   83 (334)
T PRK07993          9 PDYEQLVGSYQAG-----RGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEK   83 (334)
T ss_pred             HHHHHHHHHHHcC-----CcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEeccc
Confidence            3455666666543     23467789999999999999876431     110              1122233444322 


Q ss_pred             --CchhHH---HHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-hCCcceEe
Q 042981          191 --DTFEEI---RVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-MGSTNIIF  253 (876)
Q Consensus       191 --~~~~~~---~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-~~~~~~~~  253 (876)
                        ....++   ++.+.+...          +|++..-+.+..+.++..+-....++.+|++|.+. .+... .+....+.
T Consensus        84 ~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~  163 (334)
T PRK07993         84 GKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHY  163 (334)
T ss_pred             ccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcccccc
Confidence              123332   233333222          78887766677888888888877788888777764 45433 33456889


Q ss_pred             CCCCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHHHHh
Q 042981          254 IEQLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKAT  295 (876)
Q Consensus       254 l~~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~  295 (876)
                      +.+++.++.  +.......   -.+-+..++..++|.|..+..+
T Consensus       164 ~~~~~~~~~~~~L~~~~~~---~~~~a~~~~~la~G~~~~Al~l  204 (334)
T PRK07993        164 LAPPPEQYALTWLSREVTM---SQDALLAALRLSAGAPGAALAL  204 (334)
T ss_pred             CCCCCHHHHHHHHHHccCC---CHHHHHHHHHHcCCCHHHHHHH
Confidence            999988887  22221111   1233667899999999654433

>PRK06217 hypothetical protein; Validated

Probab=93.32  E-value=0.055  Score=52.72  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=20.0

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .|.|.|++|.||||+|+++...
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999874

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=93.32  E-value=0.072  Score=63.22  Aligned_cols=43  Identities=28%  Similarity=0.264  Sum_probs=35.9

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++||+++++++++.|....     . .-+-++|.+|+|||++|+.+++
T Consensus       187 ~liGR~~ei~~~i~iL~r~~-----~-~n~LLvGppGvGKT~lae~la~  229 (758)
T PRK11034        187 PLIGREKELERAIQVLCRRR-----K-NNPLLVGESGVGKTAIAEGLAW  229 (758)
T ss_pred             cCcCCCHHHHHHHHHHhccC-----C-CCeEEECCCCCCHHHHHHHHHH
Confidence            58999999999999888642     1 2235899999999999999886

>PHA02244 ATPase-like protein

Probab=93.29  E-value=0.21  Score=53.16  Aligned_cols=20  Identities=30%  Similarity=0.396  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |-|+|..|+|||+||+++++
T Consensus       122 VLL~GppGtGKTtLA~aLA~  141 (383)
T PHA02244        122 VFLKGGAGSGKNHIAEQIAE  141 (383)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999999987

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

Probab=93.29  E-value=0.0087  Score=68.69  Aligned_cols=164  Identities=23%  Similarity=0.302  Sum_probs=93.8

Q ss_pred             CCCccEEEEeecCCCC---CCchhhcccCCcEEEEecC-CCCCCCC-----CCCccc-CceEeecCCCCceEeCcccccC
Q 042981          686 PLNVKELGIVSYGGNI---FPKWLTSLTNLRDLRLKSC-VICEHFP-----PLGKLP-LEKLTLYGLYGVKRVGNEFLGI  755 (876)
Q Consensus       686 ~~~L~~L~l~~~~~~~---lp~~l~~l~~L~~L~L~~~-~~~~~lp-----~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~  755 (876)
                      .++|+.|.+.++....   +-.....+++|+.|++++| ......+     .....+ |+.|++..+..+...+-...  
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l--  264 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSAL--  264 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHH--
Confidence            6788888887765332   2233447889999999874 2222111     122345 77777777664322211111  


Q ss_pred             CCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCC--CCCCCCCCCCCcc
Q 042981          756 EGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLR--VLPDYLFQSTTLQ  833 (876)
Q Consensus       756 ~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~--~lp~~l~~l~~L~  833 (876)
                                      ...+++|+.|.+..|..+++..+    ......+|+|++|+|++|..+.  .+.....++++|+
T Consensus       265 ----------------~~~c~~L~~L~l~~c~~lt~~gl----~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~  324 (482)
T KOG1947|consen  265 ----------------ASRCPNLETLSLSNCSNLTDEGL----VSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLR  324 (482)
T ss_pred             ----------------HhhCCCcceEccCCCCccchhHH----HHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchh
Confidence                            12478888888887876655444    2234467889999998887753  1232334466655


Q ss_pred             EEEEecC---CCchhhccccccCCCCCC--CcCEEEEccCCCCCCC
Q 042981          834 KLSISYC---PIMEELRILEDHRTTDIP--RLSSLEIEYCPKLNVL  874 (876)
Q Consensus       834 ~L~l~~~---~~l~~l~~~~~~~~~~lp--~L~~L~i~~c~~L~~l  874 (876)
                      .|.+..+   +.++.+...   .....+  .+..+.+.+|++++.+
T Consensus       325 ~l~~~~~~~c~~l~~~~l~---~~~~~~~d~~~~~~~~~~~~l~~~  367 (482)
T KOG1947|consen  325 ELKLLSLNGCPSLTDLSLS---GLLTLTSDDLAELILRSCPKLTDL  367 (482)
T ss_pred             hhhhhhcCCCccHHHHHHH---HhhccCchhHhHHHHhcCCCcchh
Confidence            5554443   345443221   122222  6777788888887653

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=93.29  E-value=0.74  Score=48.85  Aligned_cols=154  Identities=10%  Similarity=0.044  Sum_probs=91.1

Q ss_pred             hHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC-----cccc--------------ccCCeEEEEEe--C
Q 042981          132 EKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN-----DEVK--------------RNFEKVIWVCV--S  190 (876)
Q Consensus       132 ~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~-----~~~~--------------~~F~~~~wv~v--s  190 (876)
                      ..+.+...+..+     .-..-+-+.|+.|+||+|+|+++.+-     +...              +..+-..++.-  +
T Consensus        10 ~~~~l~~~~~~~-----rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~   84 (325)
T PRK06871         10 TYQQITQAFQQG-----LGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDN   84 (325)
T ss_pred             HHHHHHHHHHcC-----CcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccC
Confidence            345555555432     23467779999999999999887642     1100              01122333421  2


Q ss_pred             CchhHHH---HHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-hCCcceEeCC
Q 042981          191 DTFEEIR---VANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-MGSTNIIFIE  255 (876)
Q Consensus       191 ~~~~~~~---~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-~~~~~~~~l~  255 (876)
                      ....+..   +.+.+...          +|++..-+.+..+.++..+-....+..+|++|.+. .+... .+....+.+.
T Consensus        85 ~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~  164 (325)
T PRK06871         85 KDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIH  164 (325)
T ss_pred             CCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCC
Confidence            2233333   22222221          78887777678888888888877788888887764 44433 3346799999


Q ss_pred             CCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHHH
Q 042981          256 QLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAAK  293 (876)
Q Consensus       256 ~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~  293 (876)
                      +++.++.  +.......   -..-+...++.++|.|..+.
T Consensus       165 ~~~~~~~~~~L~~~~~~---~~~~~~~~~~l~~g~p~~A~  201 (325)
T PRK06871        165 PPEEQQALDWLQAQSSA---EISEILTALRINYGRPLLAL  201 (325)
T ss_pred             CCCHHHHHHHHHHHhcc---ChHHHHHHHHHcCCCHHHHH
Confidence            9999887  22211111   11124566788999996443

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=93.21  E-value=0.084  Score=51.43  Aligned_cols=36  Identities=36%  Similarity=0.449  Sum_probs=28.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEE
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVC  188 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~  188 (876)
                      .++|.|+|+.|+|||||++++..  .....|...++.+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~--~~~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQ--EFPDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHH--HSTTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH--hcccccccceeec
Confidence            37889999999999999999987  4556675444444

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 ....

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=93.21  E-value=0.13  Score=51.95  Aligned_cols=46  Identities=22%  Similarity=0.252  Sum_probs=34.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRV  198 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~  198 (876)
                      .-.++-|+|.+|+||||+|.++...  ....-..++|++.. .++..++
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~--~~~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVE--AAKNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEECC-CCCHHHH
Confidence            4579999999999999999888763  33334678899877 5555443

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=93.19  E-value=0.16  Score=55.06  Aligned_cols=50  Identities=22%  Similarity=0.247  Sum_probs=36.9

Q ss_pred             CceeeccchHHHHHHHhhcc--------CCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE--------SSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~--------~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.++.++.+..++...        ........+-|-++|+.|+||||||+.+..
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk   72 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAK   72 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHH
Confidence            45899999998888777531        000011246789999999999999999987

>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=93.13  E-value=0.047  Score=32.00  Aligned_cols=21  Identities=29%  Similarity=0.528  Sum_probs=12.0

Q ss_pred             cccEEeecCCCCCccccccccC
Q 042981          552 NLQKLDIRWCEDLRELPAGIGK  573 (876)
Q Consensus       552 ~L~~L~L~~~~~l~~lp~~i~~  573 (876)
                      +|++|||++| .+..+|.+|++
T Consensus         1 ~L~~Ldls~n-~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGN-NLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSS-EESEEGTTTTT
T ss_pred             CccEEECCCC-cCEeCChhhcC
Confidence            4666666666 44456655443

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 ....

>PRK13949 shikimate kinase; Provisional

Probab=93.08  E-value=0.065  Score=51.31  Aligned_cols=21  Identities=48%  Similarity=0.510  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -|.|+|+.|+||||+|+.+.+
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999987

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=93.06  E-value=0.12  Score=50.44  Aligned_cols=21  Identities=48%  Similarity=0.776  Sum_probs=18.0

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|+|.|-||+||||+|..+..
T Consensus         2 kIaI~GKGG~GKTtiaalll~   22 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLK   22 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHH
Confidence            589999999999999987443

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=93.06  E-value=0.095  Score=49.50  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=21.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++.|.|+.|+|||||+++++.+
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~   27 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLED   27 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            67889999999999999999984

>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=93.06  E-value=0.11  Score=52.22  Aligned_cols=36  Identities=22%  Similarity=0.445  Sum_probs=29.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEe
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCV  189 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~v  189 (876)
                      -.++|+|..|.|||||+..+..  ...+.|+.+++++-
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            3578999999999999998886  47778987777654

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

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=93.05  E-value=0.15  Score=48.08  Aligned_cols=25  Identities=36%  Similarity=0.652  Sum_probs=22.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCcc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDE  176 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~  176 (876)
                      ..+.++|..|.||||+.+.+|..++
T Consensus        29 ef~fl~GpSGAGKSTllkLi~~~e~   53 (223)
T COG2884          29 EFVFLTGPSGAGKSTLLKLIYGEER   53 (223)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhhc
Confidence            5788999999999999999997544

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=93.03  E-value=0.078  Score=52.65  Aligned_cols=26  Identities=35%  Similarity=0.483  Sum_probs=22.3

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ++...|-++||+|.||||..|.++.+
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~h   42 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSH   42 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHH
Confidence            45677888999999999999999873

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=93.02  E-value=0.069  Score=51.61  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.+.|++|+||||+|+.+..
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~   24 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQS   24 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999986

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.01  E-value=0.17  Score=54.33  Aligned_cols=24  Identities=33%  Similarity=0.408  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|+|+|.+|+||||++.++..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~  263 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAW  263 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHH
Confidence            458999999999999999988875

>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=0.061  Score=50.17  Aligned_cols=21  Identities=38%  Similarity=0.620  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ||.|+|..|+||||+|+.+..
T Consensus         1 ~I~i~G~~GsGKst~a~~la~   21 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAK   21 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999986

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=92.99  E-value=0.064  Score=50.30  Aligned_cols=21  Identities=29%  Similarity=0.594  Sum_probs=19.0

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++.|+|+.|+||||+|+.+..
T Consensus         1 li~l~G~~GsGKST~a~~l~~   21 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAE   21 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHh
Confidence            467899999999999999987

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=92.97  E-value=0.074  Score=48.89  Aligned_cols=21  Identities=38%  Similarity=0.577  Sum_probs=19.3

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|.|+|+.|+|||||++.+..
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~   21 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLE   21 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHh
Confidence            378999999999999999987

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=92.96  E-value=0.13  Score=53.48  Aligned_cols=39  Identities=31%  Similarity=0.388  Sum_probs=27.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVS  190 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  190 (876)
                      ..++|.++|.+|+||||.+.++..  .....-..+++++..
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            568999999999999998877765  333332345555543

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.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=92.96  E-value=0.97  Score=48.38  Aligned_cols=85  Identities=14%  Similarity=0.123  Sum_probs=56.9

Q ss_pred             ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHh-hCCcceEeCCCCCcccc--ccCCCcCCccchHHHHHHH
Q 042981          206 LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARM-MGSTNIIFIEQLTEEES--FSGRSFEDCEKLEPIGRKI  281 (876)
Q Consensus       206 lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~-~~~~~~~~l~~L~~~~~--~f~~~~~~~~~l~~~~~~i  281 (876)
                      +|++..-+.+.++.++..+-....++.+|++|.+ ..+... .+....+.+.+++.++.  +..... . +.    ....
T Consensus       138 I~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~-~-~~----~~~~  211 (342)
T PRK06964        138 LYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG-V-AD----ADAL  211 (342)
T ss_pred             EechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC-C-Ch----HHHH
Confidence            7888777777888999988888788877776665 444433 33457899999998887  332211 1 11    1235


Q ss_pred             HHHcCCCchHHHHhh
Q 042981          282 ARKCKGLPLAAKATG  296 (876)
Q Consensus       282 ~~~c~GlPlai~~~~  296 (876)
                      +..++|.|..+..+.
T Consensus       212 l~~~~Gsp~~Al~~~  226 (342)
T PRK06964        212 LAEAGGAPLAALALA  226 (342)
T ss_pred             HHHcCCCHHHHHHHH
Confidence            778899997655443

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=92.93  E-value=0.068  Score=57.06  Aligned_cols=41  Identities=39%  Similarity=0.454  Sum_probs=27.5

Q ss_pred             CeEEEEEEecCCchHH-HHHHHHHcCccccccCCeEEEEEeCC
Q 042981          150 GLHVISLVGLGGMGKT-TLAQLAYNNDEVKRNFEKVIWVCVSD  191 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKT-tLa~~v~~~~~~~~~F~~~~wv~vs~  191 (876)
                      +-+||.+||+.||||| |||+..++-. ....=..++.|+...
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~-~~~~~~kVaiITtDt  243 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYV-MLKKKKKVAIITTDT  243 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHH-hhccCcceEEEEecc
Confidence            3689999999999999 5777766522 112224566666543

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=92.91  E-value=0.1  Score=49.53  Aligned_cols=40  Identities=35%  Similarity=0.428  Sum_probs=29.2

Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchh
Q 042981          153 VISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE  194 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~  194 (876)
                      ++.|+|.+|+||||+|+.+...  ....-..++|+.....+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~--~~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALN--IATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHH--HHhcCCEEEEEECCcchH
Confidence            4679999999999999998763  333335677777765543

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.

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=92.91  E-value=0.76  Score=46.31  Aligned_cols=50  Identities=24%  Similarity=0.256  Sum_probs=35.7

Q ss_pred             ceeeccchHHHHHHHhhccCCc-------CCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          125 EVCGRVDEKNELLSKLLFESSE-------QQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ++=|.+...++|.+...-.-..       +-...+-|-++|.+|.|||-||++|+|.
T Consensus       186 diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANq  242 (440)
T KOG0726|consen  186 DIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQ  242 (440)
T ss_pred             ccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcc
Confidence            4567788888887765432110       1234566778999999999999999985

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=92.90  E-value=0.13  Score=53.37  Aligned_cols=42  Identities=29%  Similarity=0.297  Sum_probs=34.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCch
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF  193 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~  193 (876)
                      .-+++.|.|.+|+|||++|.+...  +..+....++||+..+..
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~--~~~~~ge~vlyvs~~e~~   63 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLY--EGAREGEPVLYVSTEESP   63 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHH--HHHhcCCcEEEEEecCCH
Confidence            568999999999999999976665  455558899999988754

>cd01394 radB RadB

Probab=92.89  E-value=0.19  Score=50.63  Aligned_cols=43  Identities=23%  Similarity=0.162  Sum_probs=31.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchh
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE  194 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~  194 (876)
                      .-.++.|.|.+|+||||+|.++..  .....=..++|++....++
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~--~~~~~g~~v~yi~~e~~~~   60 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAV--ETAGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH--HHHhcCCeEEEEECCCCCH
Confidence            458899999999999999988775  2322334677887665554

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=92.85  E-value=0.15  Score=51.55  Aligned_cols=49  Identities=20%  Similarity=0.219  Sum_probs=35.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccC------CeEEEEEeCCchhHHHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF------EKVIWVCVSDTFEEIRVAN  200 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F------~~~~wv~vs~~~~~~~~~~  200 (876)
                      .-.++.|+|.+|.|||+||.++...  ....-      ..++|++....++..++.+
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~--~~~~~~~~g~~~~v~yi~~e~~~~~~rl~~   72 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVE--AQLPGELGGLEGKVVYIDTEGAFRPERLVQ   72 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHH--hhcccccCCCcceEEEEecCCCCCHHHHHH
Confidence            4579999999999999999887652  21222      4678998887777655543

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.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=92.79  E-value=0.08  Score=49.21  Aligned_cols=20  Identities=40%  Similarity=0.687  Sum_probs=18.3

Q ss_pred             EEEEEecCCchHHHHHHHHH
Q 042981          153 VISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~  172 (876)
                      .|+|.|.+|+||||+++.+-
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999886

>PRK00300 gmk guanylate kinase; Provisional

Probab=92.77  E-value=0.077  Score=52.82  Aligned_cols=24  Identities=33%  Similarity=0.422  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -.+|+|+|..|+||||||+.+...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999873

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=92.74  E-value=0.084  Score=51.59  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++.|+|+.|+|||||++.+...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            47899999999999999999763

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=92.72  E-value=0.33  Score=55.77  Aligned_cols=46  Identities=13%  Similarity=0.050  Sum_probs=35.5

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.++|....++++++.+..-..    .-.-|-|+|-.|+||+++|++++.
T Consensus       204 ~~~ig~s~~~~~~~~~~~~~A~----~~~pvlI~GE~GtGK~~lA~aiH~  249 (520)
T PRK10820        204 SQIVAVSPKMRQVVEQARKLAM----LDAPLLITGDTGTGKDLLAYACHL  249 (520)
T ss_pred             cceeECCHHHHHHHHHHHHHhC----CCCCEEEECCCCccHHHHHHHHHH
Confidence            4689999888888887754322    123367999999999999999876

>PRK13948 shikimate kinase; Provisional

Probab=92.70  E-value=0.088  Score=50.84  Aligned_cols=24  Identities=21%  Similarity=0.318  Sum_probs=21.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ....|.++||.|+||||+++.+.+
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~   32 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSR   32 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            457788999999999999999987

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=92.67  E-value=0.25  Score=56.18  Aligned_cols=52  Identities=27%  Similarity=0.335  Sum_probs=38.6

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHHh
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEG  205 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~  205 (876)
                      +.-+|+-++|++|+||||||.-|+++.-    | .++=|..|+.-....+-+.|...
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqaG----Y-sVvEINASDeRt~~~v~~kI~~a  375 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQAG----Y-SVVEINASDERTAPMVKEKIENA  375 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhcC----c-eEEEecccccccHHHHHHHHHHH
Confidence            4568999999999999999999987432    2 35567788877766666665544

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=92.67  E-value=0.079  Score=50.96  Aligned_cols=22  Identities=36%  Similarity=0.469  Sum_probs=19.7

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .|.|.|.+|+||||+|+.+.+.
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3679999999999999999874

>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=92.63  E-value=0.19  Score=50.40  Aligned_cols=38  Identities=37%  Similarity=0.501  Sum_probs=27.9

Q ss_pred             hHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          132 EKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       132 ~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +..++++.+....    .+..+|+|.|.+|+||+||..++..
T Consensus        14 ~~~~ll~~l~~~~----g~a~~iGiTG~PGaGKSTli~~l~~   51 (266)
T PF03308_consen   14 EARELLKRLYPHT----GRAHVIGITGPPGAGKSTLIDALIR   51 (266)
T ss_dssp             HHHHHHHHHGGGT----T-SEEEEEEE-TTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhc----CCceEEEeeCCCCCcHHHHHHHHHH
Confidence            4556676666542    3568999999999999999988766

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.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=92.60  E-value=0.14  Score=50.45  Aligned_cols=22  Identities=41%  Similarity=0.635  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.||||||+.+.-
T Consensus        34 e~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          34 ETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhc
Confidence            5899999999999999999985

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=92.60  E-value=0.17  Score=47.28  Aligned_cols=36  Identities=28%  Similarity=0.409  Sum_probs=29.2

Q ss_pred             chHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCc
Q 042981          131 DEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNND  175 (876)
Q Consensus       131 ~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  175 (876)
                      +..+++.+.|.        + +++.++|..|+|||||...+..+.
T Consensus        24 ~g~~~l~~~l~--------~-k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLK--------G-KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHT--------T-SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhc--------C-CEEEEECCCCCCHHHHHHHHHhhc
Confidence            45677777774        2 789999999999999999998753

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>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=92.58  E-value=0.095  Score=46.76  Aligned_cols=22  Identities=32%  Similarity=0.545  Sum_probs=19.6

Q ss_pred             EEEEecCCchHHHHHHHHHcCc
Q 042981          154 ISLVGLGGMGKTTLAQLAYNND  175 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~~  175 (876)
                      |.|+|..|+|||||.+.+...+
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            6799999999999999998754

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.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=92.57  E-value=0.11  Score=44.89  Aligned_cols=21  Identities=33%  Similarity=0.365  Sum_probs=19.5

Q ss_pred             EEEEEEecCCchHHHHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~  172 (876)
                      ..++|+|..|.|||||++.+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            678999999999999999976

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=92.57  E-value=0.089  Score=49.43  Aligned_cols=27  Identities=30%  Similarity=0.497  Sum_probs=21.9

Q ss_pred             EEEEEecCCchHHHHHHHHHcCccccccC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNNDEVKRNF  181 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~~~~~~~F  181 (876)
                      -|.++||.|+||||+.+++.+  ...-.|
T Consensus         4 ~IvLiG~mGaGKSTIGr~LAk--~L~~~F   30 (172)
T COG0703           4 NIVLIGFMGAGKSTIGRALAK--ALNLPF   30 (172)
T ss_pred             cEEEEcCCCCCHhHHHHHHHH--HcCCCc
Confidence            467899999999999999987  444444

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=92.57  E-value=0.088  Score=50.58  Aligned_cols=22  Identities=36%  Similarity=0.425  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.|.|+|+.|.||||+|+.+.+
T Consensus         5 ~~I~liG~~GaGKStl~~~La~   26 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQ   26 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHH
Confidence            4689999999999999999987

>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=92.57  E-value=0.084  Score=49.71  Aligned_cols=20  Identities=45%  Similarity=0.699  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|+|+.|.||||+|+.+..
T Consensus         2 i~l~G~~GsGKstla~~la~   21 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAK   21 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            67999999999999999986

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.

>PRK13975 thymidylate kinase; Provisional

Probab=92.56  E-value=0.091  Score=51.87  Aligned_cols=22  Identities=41%  Similarity=0.563  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|+.|+||||+|+.+.+
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~   24 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAE   24 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999987

>PRK14530 adenylate kinase; Provisional

Probab=92.52  E-value=0.085  Score=52.93  Aligned_cols=21  Identities=33%  Similarity=0.332  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|.|+|++|+||||+|+.+..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999976

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=92.49  E-value=0.1  Score=52.02  Aligned_cols=25  Identities=36%  Similarity=0.530  Sum_probs=23.1

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++++|+++|..|+|||||.+++.+
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~   44 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLID   44 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999998876

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>KOG0473 consensus Leucine-rich repeat protein [Function unknown]

Probab=92.47  E-value=0.008  Score=57.97  Aligned_cols=86  Identities=17%  Similarity=0.112  Sum_probs=62.8

Q ss_pred             hccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccc
Q 042981          492 FSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGI  571 (876)
Q Consensus       492 ~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i  571 (876)
                      ...++...+||+         +.|.+..+-..+.-+..|..|+++.|.|..+|..++.+..+..+++..| .....|.++
T Consensus        38 i~~~kr~tvld~---------~s~r~vn~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n-~~~~~p~s~  107 (326)
T KOG0473|consen   38 IASFKRVTVLDL---------SSNRLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKN-NHSQQPKSQ  107 (326)
T ss_pred             hhccceeeeehh---------hhhHHHhhccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhcc-chhhCCccc
Confidence            445667777787         5555555555566677777788888888888888877777777777766 677778888


Q ss_pred             cCcCCCceEecCCCCC
Q 042981          572 GKLKKMRSLLNGGTPL  587 (876)
Q Consensus       572 ~~L~~L~~L~l~~~~~  587 (876)
                      ++++.++++++.++.+
T Consensus       108 ~k~~~~k~~e~k~~~~  123 (326)
T KOG0473|consen  108 KKEPHPKKNEQKKTEF  123 (326)
T ss_pred             cccCCcchhhhccCcc
Confidence            8888888888777754

>PLN02318 phosphoribulokinase/uridine kinase

Probab=92.47  E-value=0.15  Score=57.49  Aligned_cols=25  Identities=28%  Similarity=0.586  Sum_probs=22.9

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++.+|+|.|..|.||||||+.+..
T Consensus        63 ~~riIIGIaGpSGSGKTTLAk~Lag   87 (656)
T PLN02318         63 DGIILVGVAGPSGAGKTVFTEKVLN   87 (656)
T ss_pred             CCeEEEEEECCCCCcHHHHHHHHHh
Confidence            3678999999999999999999986

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=92.40  E-value=0.096  Score=48.97  Aligned_cols=23  Identities=30%  Similarity=0.523  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|++|+|+-|+|||||..++-.
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~   24 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVR   24 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHH
Confidence            47999999999999999999876

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=92.40  E-value=0.084  Score=49.61  Aligned_cols=21  Identities=38%  Similarity=0.490  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      |++|+|+.|+|||||+.++..
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~   21 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVK   21 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999987

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.

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=92.39  E-value=0.11  Score=50.35  Aligned_cols=64  Identities=20%  Similarity=0.209  Sum_probs=42.1

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccC-CeEEEEEeCCchh
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF-EKVIWVCVSDTFE  194 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F-~~~~wv~vs~~~~  194 (876)
                      .++||-++.++++--.-.      +++.+-+-|-||+|+||||-+..+.+. -+...+ +.+.=...|+.-.
T Consensus        27 ~dIVGNe~tv~rl~via~------~gnmP~liisGpPG~GKTTsi~~LAr~-LLG~~~ke~vLELNASdeRG   91 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAK------EGNMPNLIISGPPGTGKTTSILCLARE-LLGDSYKEAVLELNASDERG   91 (333)
T ss_pred             HHhhCCHHHHHHHHHHHH------cCCCCceEeeCCCCCchhhHHHHHHHH-HhChhhhhHhhhccCccccc
Confidence            479999988888765444      236777889999999999977776652 112222 3444455555443

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=92.38  E-value=0.099  Score=57.79  Aligned_cols=56  Identities=25%  Similarity=0.293  Sum_probs=38.2

Q ss_pred             CceeeccchHHHHHHHhhccCCc-------CCCCeEEEEEEecCCchHHHHHHHHHcCccccccC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSE-------QQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF  181 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F  181 (876)
                      .++.|.+..+++|.+.+...-..       +-...+-+.++|.+|+|||++|+++++  +....|
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            35678888888888776421000       012345677999999999999999998  444444

>TIGR03689 pup_AAA proteasome ATPase

Probab=92.34  E-value=0.17  Score=56.88  Aligned_cols=51  Identities=20%  Similarity=0.194  Sum_probs=37.1

Q ss_pred             CceeeccchHHHHHHHhhccCC-------cCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESS-------EQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++.|.+..+++|.+.+...--       -+-...+-+-++|++|.|||++|+++++.
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~e  239 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANS  239 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHh
Confidence            4688899999988887642100       00123456889999999999999999983

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.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=92.32  E-value=0.088  Score=49.24  Aligned_cols=21  Identities=48%  Similarity=0.645  Sum_probs=19.2

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ||.|+|.+|+||||+|+.+..
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~   21 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEE   21 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            578999999999999999886

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=92.31  E-value=0.22  Score=49.16  Aligned_cols=21  Identities=43%  Similarity=0.632  Sum_probs=19.8

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|+|.|+.|+||||+++.+.+
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~   22 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAE   22 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999987

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=92.29  E-value=0.13  Score=56.46  Aligned_cols=51  Identities=22%  Similarity=0.204  Sum_probs=37.1

Q ss_pred             CceeeccchHHHHHHHhhccCC-------cCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESS-------EQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++.|.+..+++|.+.+...-.       -+-...+-|.++|.+|.|||++|+++++.
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~  202 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHH  202 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            4688998888888876642100       00123567889999999999999999983

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=92.23  E-value=0.12  Score=50.76  Aligned_cols=23  Identities=22%  Similarity=0.367  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|.|.|.+|+||||+|+.+..
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~   25 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIAR   25 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999987

>PRK13946 shikimate kinase; Provisional

Probab=92.17  E-value=0.1  Score=50.91  Aligned_cols=23  Identities=35%  Similarity=0.486  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+.|.++|+.|+||||+|+.+.+
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~   32 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLAT   32 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999999987

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=92.13  E-value=0.18  Score=51.31  Aligned_cols=63  Identities=27%  Similarity=0.278  Sum_probs=39.4

Q ss_pred             HHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHH
Q 042981          134 NELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVAN  200 (876)
Q Consensus       134 ~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~  200 (876)
                      .+++..+...    .++..||+|.|.+|+||+||..++-..-.-+.+=-.++=|.-|..|.--.++.
T Consensus        38 ~~ll~~l~p~----tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLG  100 (323)
T COG1703          38 RELLRALYPR----TGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILG  100 (323)
T ss_pred             HHHHHHHhhc----CCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccc
Confidence            4556555543    34778999999999999999987766322222222344455566665444443

>PRK13236 nitrogenase reductase; Reviewed

Probab=92.03  E-value=0.13  Score=54.31  Aligned_cols=25  Identities=32%  Similarity=0.594  Sum_probs=20.9

Q ss_pred             CCCeEEEEEEecCCchHHHHHHHHH
Q 042981          148 QKGLHVISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       148 ~~~~~vi~I~G~gGiGKTtLa~~v~  172 (876)
                      +++.+||++.|-|||||||.|-.+.
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA   27 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTL   27 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHH
Confidence            4578999999999999999775544

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=92.03  E-value=0.17  Score=52.42  Aligned_cols=35  Identities=31%  Similarity=0.306  Sum_probs=26.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEe
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCV  189 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~v  189 (876)
                      ++|+|+|.+|+|||||+.++..  ..++.. .++-|..
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~--~L~~~G-~V~~IKh   36 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVD--RLSGRG-RVGTVKH   36 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH--HHHhCC-CEEEEEE
Confidence            6899999999999999999887  454444 3555544

>PRK06761 hypothetical protein; Provisional

Probab=91.99  E-value=0.2  Score=51.78  Aligned_cols=23  Identities=35%  Similarity=0.562  Sum_probs=21.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ++|.|.|+.|+||||+|+.+++.
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~   26 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDI   26 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999999973

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=91.98  E-value=0.19  Score=48.85  Aligned_cols=42  Identities=29%  Similarity=0.320  Sum_probs=29.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.+..+..+.-....        ..=|-++|..|+|||++|+.+-.
T Consensus         3 ~dI~GQe~aKrAL~iAAaG--------~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG--------GHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC--------C--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHcC--------CCCeEEECCCCCCHHHHHHHHHH
Confidence            4688888777776554432        24578999999999999999874

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PF13245 AAA_19: Part of AAA domain

Probab=91.91  E-value=0.33  Score=39.15  Aligned_cols=22  Identities=36%  Similarity=0.401  Sum_probs=16.8

Q ss_pred             EEEEEEecCCchHH-HHHHHHHc
Q 042981          152 HVISLVGLGGMGKT-TLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKT-tLa~~v~~  173 (876)
                      +++.|.|.+|.||| |+++.+..
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            57778999999999 55555554

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=91.88  E-value=0.28  Score=54.39  Aligned_cols=40  Identities=28%  Similarity=0.257  Sum_probs=26.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVS  190 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  190 (876)
                      -+++.++|++|+||||++.++.........-..++.|+..
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D  260 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLD  260 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECC
Confidence            4699999999999999887765421101222355666643

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=91.82  E-value=0.098  Score=49.85  Aligned_cols=20  Identities=35%  Similarity=0.592  Sum_probs=18.1

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|+|+.|+||||+|+.+.+
T Consensus         1 i~l~G~~GsGKSTla~~l~~   20 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAH   20 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999886

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=91.80  E-value=0.14  Score=53.70  Aligned_cols=24  Identities=42%  Similarity=0.374  Sum_probs=21.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+++.|+|..|+||||++..+..
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~  216 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAA  216 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999988775

>TIGR01287 nifH nitrogenase iron protein

Probab=91.80  E-value=0.11  Score=54.40  Aligned_cols=22  Identities=36%  Similarity=0.540  Sum_probs=18.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.|+|+|-||+||||+|..+..
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~   22 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAA   22 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHH
Confidence            4689999999999998866654

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>PRK14738 gmk guanylate kinase; Provisional

Probab=91.77  E-value=0.15  Score=50.65  Aligned_cols=24  Identities=17%  Similarity=0.284  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+.|.|+|..|+|||||++++..
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~   35 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRE   35 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHh
Confidence            568899999999999999999975

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=91.75  E-value=0.12  Score=54.19  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=18.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|+|+|-||+||||+|-.+..
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~   23 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAA   23 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHH
Confidence            6899999999999998866554

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=91.72  E-value=0.39  Score=49.66  Aligned_cols=25  Identities=36%  Similarity=0.371  Sum_probs=23.1

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+..+|.|+|..|+|||||+..+.+
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~  126 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLM  126 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999999887

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=91.71  E-value=0.13  Score=50.26  Aligned_cols=23  Identities=35%  Similarity=0.510  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|+|+|+.|+||||.|+.+-+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            36899999999999999997764

>PRK13695 putative NTPase; Provisional

Probab=91.71  E-value=0.15  Score=49.17  Aligned_cols=21  Identities=38%  Similarity=0.449  Sum_probs=19.2

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |+|+|.+|+|||||++.+++.
T Consensus         3 i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          3 IGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999874

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=91.70  E-value=0.12  Score=53.99  Aligned_cols=22  Identities=36%  Similarity=0.539  Sum_probs=18.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +||+|+|-||+||||+|..+..
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~   23 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTA   23 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHH
Confidence            6789999999999998876654

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=91.62  E-value=0.32  Score=53.36  Aligned_cols=24  Identities=42%  Similarity=0.443  Sum_probs=21.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...||.++|..|+||||+|.+++.
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~  122 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAY  122 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999987765

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.

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=91.61  E-value=0.15  Score=46.87  Aligned_cols=23  Identities=30%  Similarity=0.504  Sum_probs=21.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .+++|+|..|.|||||.+.+...
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~   34 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGL   34 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CEEEEEccCCCccccceeeeccc
Confidence            58999999999999999999873

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=91.59  E-value=0.15  Score=48.05  Aligned_cols=22  Identities=45%  Similarity=0.613  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++++|+|..|+|||||+..+..
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~   23 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIP   23 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999886

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>PF11868 DUF3388: Protein of unknown function (DUF3388); InterPro: IPR024514 This domain is found in a family of bacterial proteins that are functionally uncharacterised

Probab=91.57  E-value=0.24  Score=44.92  Aligned_cols=52  Identities=25%  Similarity=0.352  Sum_probs=34.4

Q ss_pred             hHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHH--HHHHHHcCccccccCCeEEEEEeCCchh
Q 042981          132 EKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTT--LAQLAYNNDEVKRNFEKVIWVCVSDTFE  194 (876)
Q Consensus       132 ~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTt--La~~v~~~~~~~~~F~~~~wv~vs~~~~  194 (876)
                      +..-++++|..---  .++-++|||-||+-||||-  +|..||.+.         -|.-+|.+.=
T Consensus        37 eLGlLVDFmaEl~K--~~Gh~lIGiRGmPRVGKTEsivAasVcAnK---------rW~f~SSTli   90 (192)
T PF11868_consen   37 ELGLLVDFMAELFK--EEGHKLIGIRGMPRVGKTESIVAASVCANK---------RWLFLSSTLI   90 (192)
T ss_pred             HhccHHHHHHHHHH--hcCceEEeecCCCccCchhHHHHHhhhcCc---------eEEEeeHHHH
Confidence            44445554432110  2367999999999999994  667788643         3888887543

Proteins in this family are typically between 261 to 275 amino acids in length and have a N-terminal ACT domain.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=91.56  E-value=0.13  Score=48.96  Aligned_cols=20  Identities=35%  Similarity=0.351  Sum_probs=16.9

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |+|.|..|+|||||++++..
T Consensus         2 I~i~G~~stGKTTL~~~L~~   21 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAA   21 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999986

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=91.55  E-value=0.13  Score=51.42  Aligned_cols=22  Identities=36%  Similarity=0.546  Sum_probs=18.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|+|.|-||+||||++-.+..
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~   22 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSA   22 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHH
Confidence            4789999999999997766554

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=91.52  E-value=0.13  Score=51.69  Aligned_cols=23  Identities=39%  Similarity=0.560  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .-|.|+|.+|+|||||+.++.++
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~   28 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGD   28 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcC
Confidence            45789999999999999998875

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=91.50  E-value=0.14  Score=49.33  Aligned_cols=22  Identities=23%  Similarity=0.374  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++.|+|..|.||||+++.+..
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~   25 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAA   25 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999997

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=91.46  E-value=0.46  Score=56.40  Aligned_cols=47  Identities=21%  Similarity=0.205  Sum_probs=36.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      +.++|....++++++.+.....   .... |-|+|..|+||+++|+++++.
T Consensus       325 ~~l~g~s~~~~~~~~~~~~~a~---~~~p-vli~Ge~GtGK~~~A~~ih~~  371 (638)
T PRK11388        325 DHMPQDSPQMRRLIHFGRQAAK---SSFP-VLLCGEEGVGKALLAQAIHNE  371 (638)
T ss_pred             cceEECCHHHHHHHHHHHHHhC---cCCC-EEEECCCCcCHHHHHHHHHHh
Confidence            4689999888888887765432   1233 679999999999999999873

>PRK14737 gmk guanylate kinase; Provisional

Probab=91.43  E-value=0.17  Score=49.28  Aligned_cols=24  Identities=21%  Similarity=0.339  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.|+|+.|+|||||++++..
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~   26 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLE   26 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHh
Confidence            457899999999999999999986

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=91.42  E-value=0.17  Score=44.95  Aligned_cols=21  Identities=24%  Similarity=0.469  Sum_probs=19.4

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |+|+|+.|+|||||..++.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            789999999999999999973

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=91.41  E-value=0.15  Score=46.50  Aligned_cols=24  Identities=46%  Similarity=0.588  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNND  175 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~  175 (876)
                      +.|-++|..|.|||||++++-..+
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            457899999999999999997753

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>PRK04182 cytidylate kinase; Provisional

Probab=91.41  E-value=0.14  Score=49.60  Aligned_cols=21  Identities=43%  Similarity=0.640  Sum_probs=19.9

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|.|.|+.|+||||+|+.+.+
T Consensus         2 ~I~i~G~~GsGKstia~~la~   22 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAE   22 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999987

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=91.39  E-value=0.16  Score=48.27  Aligned_cols=23  Identities=30%  Similarity=0.570  Sum_probs=19.9

Q ss_pred             EEEEEecCCchHHHHHHHHHcCc
Q 042981          153 VISLVGLGGMGKTTLAQLAYNND  175 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~~  175 (876)
                      .|+++|.+|+|||||+.++..+.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999988643

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=91.38  E-value=0.17  Score=58.96  Aligned_cols=44  Identities=30%  Similarity=0.330  Sum_probs=33.5

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.++||+++++++++.|....-    +-+|  ++|-+|||||++|.-++.
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~K----NNPv--LiGEpGVGKTAIvEGLA~  213 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTK----NNPV--LVGEPGVGKTAIVEGLAQ  213 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCC----CCCe--EecCCCCCHHHHHHHHHH
Confidence            3589999999999999986532    2233  579999999997655443

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=91.37  E-value=0.28  Score=51.88  Aligned_cols=22  Identities=36%  Similarity=0.499  Sum_probs=18.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +++-+.|-|||||||+|-+..-
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~   23 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALAL   23 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHH
Confidence            6889999999999999966543

...

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=91.33  E-value=0.55  Score=53.56  Aligned_cols=47  Identities=15%  Similarity=0.183  Sum_probs=35.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..++|....+.++...+.....    .-..|-|+|-.|+|||++|+.+++.
T Consensus       138 ~~lig~s~~~~~l~~~~~~~~~----~~~~vli~Ge~GtGK~~lA~~ih~~  184 (469)
T PRK10923        138 TDIIGEAPAMQDVFRIIGRLSR----SSISVLINGESGTGKELVAHALHRH  184 (469)
T ss_pred             ccceecCHHHHHHHHHHHHHhc----cCCeEEEEeCCCCcHHHHHHHHHhc
Confidence            3589988888888777654322    2244679999999999999999874

>TIGR00602 rad24 checkpoint protein rad24

Probab=91.31  E-value=0.21  Score=57.81  Aligned_cols=51  Identities=18%  Similarity=0.221  Sum_probs=39.8

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -++++|-++.++++..++....-. ....+++.|+|..|.||||+++.+...
T Consensus        83 ldel~~~~~ki~~l~~~l~~~~~~-~~~~~illL~GP~GsGKTTl~~~la~~  133 (637)
T TIGR00602        83 QHELAVHKKKIEEVETWLKAQVLE-NAPKRILLITGPSGCGKSTTIKILSKE  133 (637)
T ss_pred             HHHhcCcHHHHHHHHHHHHhcccc-cCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999888653221 123468999999999999999999873

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PLN02200 adenylate kinase family protein

Probab=91.29  E-value=0.17  Score=51.29  Aligned_cols=24  Identities=21%  Similarity=0.200  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.|.|++|+||||+|+.+.+
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998875

>PLN02348 phosphoribulokinase

Probab=91.28  E-value=0.17  Score=54.31  Aligned_cols=25  Identities=32%  Similarity=0.408  Sum_probs=22.9

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +...+|+|.|..|.||||+|+.+.+
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~   71 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTS   71 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999999987

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=91.27  E-value=0.13  Score=47.13  Aligned_cols=22  Identities=45%  Similarity=0.626  Sum_probs=20.1

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      +|.|-|.+|.||||+|+.+.++
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~   23 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEH   23 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHH
Confidence            6889999999999999999874

>PRK14527 adenylate kinase; Provisional

Probab=91.27  E-value=0.16  Score=49.89  Aligned_cols=24  Identities=29%  Similarity=0.313  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.|+|.+|+||||+|+.+.+
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~   28 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQ   28 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999876

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=91.24  E-value=0.27  Score=47.65  Aligned_cols=34  Identities=29%  Similarity=0.323  Sum_probs=26.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEE
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVC  188 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~  188 (876)
                      .|++|+|+.|.|||||.+.+..-+.   .=+..+||.
T Consensus        29 evv~iiGpSGSGKSTlLRclN~LE~---~~~G~I~i~   62 (240)
T COG1126          29 EVVVIIGPSGSGKSTLLRCLNGLEE---PDSGSITVD   62 (240)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCcC---CCCceEEEC
Confidence            6899999999999999999986333   334667764

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=91.23  E-value=0.15  Score=53.25  Aligned_cols=22  Identities=36%  Similarity=0.539  Sum_probs=18.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|+|.|-||+||||+|-.+..
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~   23 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSA   23 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHH
Confidence            5788889999999998877664

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=91.17  E-value=0.39  Score=51.69  Aligned_cols=61  Identities=21%  Similarity=0.180  Sum_probs=41.8

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHH
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRV  198 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~  198 (876)
                      .++|.++.+..+...+...        +-+-+.|.+|+|||+||+++..  ....   ...+|.+.......++
T Consensus        25 ~~~g~~~~~~~~l~a~~~~--------~~vll~G~PG~gKT~la~~lA~--~l~~---~~~~i~~t~~l~p~d~   85 (329)
T COG0714          25 VVVGDEEVIELALLALLAG--------GHVLLEGPPGVGKTLLARALAR--ALGL---PFVRIQCTPDLLPSDL   85 (329)
T ss_pred             eeeccHHHHHHHHHHHHcC--------CCEEEECCCCccHHHHHHHHHH--HhCC---CeEEEecCCCCCHHHh
Confidence            4888888887777777643        3367899999999999999987  3332   2344555544444443

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=91.15  E-value=0.41  Score=47.09  Aligned_cols=22  Identities=41%  Similarity=0.545  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..|+|.|..|+||||+|+.+.+
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~   25 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKK   25 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999987

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=91.13  E-value=0.15  Score=48.59  Aligned_cols=20  Identities=40%  Similarity=0.537  Sum_probs=17.6

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|.|..|+|||||++.+.+
T Consensus         2 i~iTG~pG~GKTTll~k~i~   21 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIE   21 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHH
Confidence            67999999999999999987

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=91.11  E-value=0.15  Score=56.06  Aligned_cols=25  Identities=24%  Similarity=0.268  Sum_probs=22.4

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-++.|+|+|..|.||||||+++.+
T Consensus       217 ~~~~~IvI~G~~gsGKTTL~~~La~  241 (399)
T PRK08099        217 FFVRTVAILGGESSGKSTLVNKLAN  241 (399)
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            3568899999999999999999886

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=91.09  E-value=0.15  Score=43.38  Aligned_cols=21  Identities=52%  Similarity=0.664  Sum_probs=18.6

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++.+.|.+|+||||++..+..
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~   21 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAA   21 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            477899999999999988876

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

>PLN02796 D-glycerate 3-kinase

Probab=91.09  E-value=0.43  Score=50.51  Aligned_cols=24  Identities=33%  Similarity=0.253  Sum_probs=22.1

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..-+|+|.|..|.||||||+.+..
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~  122 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVY  122 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHH
Confidence            567899999999999999999986

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=91.08  E-value=0.19  Score=53.34  Aligned_cols=24  Identities=38%  Similarity=0.437  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...|++++|+.|+||||++..+..
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~  136 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAH  136 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            568999999999999999988876

>PRK14974 cell division protein FtsY; Provisional

Probab=91.05  E-value=0.29  Score=52.19  Aligned_cols=24  Identities=38%  Similarity=0.374  Sum_probs=20.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.++|+.|+||||++.+++.
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~  162 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAY  162 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            468999999999999998877765

>PRK15453 phosphoribulokinase; Provisional

Probab=91.04  E-value=0.19  Score=51.48  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|+|.|..|+||||+|+.+.+
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~   27 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEK   27 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            567999999999999999998875

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=91.04  E-value=0.21  Score=53.77  Aligned_cols=23  Identities=35%  Similarity=0.361  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.++.++|+.|+||||++.++..
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~  159 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAA  159 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            47999999999999999988876

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=90.98  E-value=0.17  Score=48.61  Aligned_cols=21  Identities=38%  Similarity=0.621  Sum_probs=19.8

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|.|.|..|+||||+|+.+.+
T Consensus         2 iI~i~G~~GSGKstia~~la~   22 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAE   22 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            789999999999999999976

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=90.95  E-value=0.15  Score=48.99  Aligned_cols=22  Identities=36%  Similarity=0.442  Sum_probs=19.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.|.|+|+.|+||||+|+.+.+
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~   24 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQ   24 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3578899999999999999986

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=90.89  E-value=0.36  Score=51.62  Aligned_cols=52  Identities=19%  Similarity=0.260  Sum_probs=37.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccC----CeEEEEEeCCchhHHHHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF----EKVIWVCVSDTFEEIRVANA  201 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F----~~~~wv~vs~~~~~~~~~~~  201 (876)
                      .-.++-|+|.+|+|||++|.++.-.......+    ..++||+....|+..++.+.
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~  156 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQM  156 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHH
Confidence            45788999999999999997776432221111    47899999998888776543

>PRK13768 GTPase; Provisional

Probab=90.86  E-value=0.26  Score=50.67  Aligned_cols=22  Identities=32%  Similarity=0.528  Sum_probs=19.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++.|.|.||+||||++..+..
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~   24 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSD   24 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHH
Confidence            5789999999999999977765

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=90.85  E-value=0.25  Score=52.71  Aligned_cols=44  Identities=20%  Similarity=0.255  Sum_probs=34.3

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+||.++.+..++-.+...      ...-+.|.|..|+|||||++.+..
T Consensus         4 ~~ivgq~~~~~al~~~~~~~------~~g~vli~G~~G~gKttl~r~~~~   47 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDP------KIGGVMVMGDRGTGKSTAVRALAA   47 (337)
T ss_pred             cccccHHHHHHHHHHHhcCC------CCCeEEEEcCCCCCHHHHHHHHHH
Confidence            45899988888876666643      334467999999999999999974

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=90.85  E-value=0.21  Score=50.65  Aligned_cols=19  Identities=32%  Similarity=0.413  Sum_probs=16.5

Q ss_pred             EEecCCchHHHHHHHHHcC
Q 042981          156 LVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       156 I~G~gGiGKTtLa~~v~~~  174 (876)
                      |+|++|+||||+++.+.+.
T Consensus         1 ViGpaGSGKTT~~~~~~~~   19 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEW   19 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHH
Confidence            6899999999999998873

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=90.84  E-value=0.21  Score=53.31  Aligned_cols=45  Identities=18%  Similarity=0.245  Sum_probs=35.5

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -..+||.++.+..++..+...      .+.-|-|.|..|+||||+|+.+++
T Consensus        16 f~~ivGq~~~k~al~~~~~~p------~~~~vli~G~~GtGKs~~ar~~~~   60 (350)
T CHL00081         16 FTAIVGQEEMKLALILNVIDP------KIGGVMIMGDRGTGKSTTIRALVD   60 (350)
T ss_pred             HHHHhChHHHHHHHHHhccCC------CCCeEEEEcCCCCCHHHHHHHHHH
Confidence            457999998888777666543      445566999999999999999975

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=90.75  E-value=0.18  Score=52.79  Aligned_cols=22  Identities=36%  Similarity=0.558  Sum_probs=18.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +||+|+|-|||||||+|..+..
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~   24 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAA   24 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Confidence            6899999999999998876554

>cd03114 ArgK-like The function of this protein family is unkown

Probab=90.74  E-value=0.17  Score=47.15  Aligned_cols=21  Identities=38%  Similarity=0.613  Sum_probs=18.7

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++++.|.+|+||||++..+..
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~   21 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALIT   21 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            478999999999999988875

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>PLN02165 adenylate isopentenyltransferase

Probab=90.73  E-value=0.19  Score=52.89  Aligned_cols=24  Identities=25%  Similarity=0.317  Sum_probs=21.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-++|+|+|+.|+||||||..+..
T Consensus        42 ~g~iivIiGPTGSGKStLA~~LA~   65 (334)
T PLN02165         42 KDKVVVIMGATGSGKSRLSVDLAT   65 (334)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHH
Confidence            446999999999999999999886

>cd04155 Arl3 Arl3 subfamily

Probab=90.69  E-value=0.21  Score=48.07  Aligned_cols=24  Identities=29%  Similarity=0.358  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ...|+|+|..|+|||||.+.+...
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcC
Confidence            345899999999999999999874

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=90.65  E-value=0.18  Score=52.79  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=18.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +||+|+|-||+||||+|-.+..
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~   23 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVA   23 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHH
Confidence            6899999999999998766543

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=90.63  E-value=0.42  Score=51.01  Aligned_cols=52  Identities=19%  Similarity=0.234  Sum_probs=37.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccc----cCCeEEEEEeCCchhHHHHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRVANA  201 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~~  201 (876)
                      .-.|+-|+|.+|+||||++.+++-......    .=..++||+....|+..++.+.
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~  149 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQM  149 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHH
Confidence            458899999999999999987765322211    0127899999988888776543

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.

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=90.62  E-value=0.16  Score=49.16  Aligned_cols=21  Identities=43%  Similarity=0.564  Sum_probs=19.2

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|+|.|+.|+||||+|+.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999875

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>PRK15115 response regulator GlrR; Provisional

Probab=90.60  E-value=1.6  Score=49.46  Aligned_cols=46  Identities=24%  Similarity=0.242  Sum_probs=32.6

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++|....+.++.+....-..   .+ ..|-|.|..|+|||++|+.+++.
T Consensus       135 ~lig~s~~~~~~~~~~~~~a~---~~-~~vli~Ge~GtGk~~lA~~ih~~  180 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVAQ---SD-VSVLINGQSGTGKEILAQAIHNA  180 (444)
T ss_pred             cccccCHHHHHHHHHHHhhcc---CC-CeEEEEcCCcchHHHHHHHHHHh
Confidence            477877777776665543221   12 34569999999999999999874

>TIGR00750 lao LAO/AO transport system ATPase

Probab=90.59  E-value=0.31  Score=51.64  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=22.3

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ....+|+|+|.+|+|||||+..+..
T Consensus        32 ~~~~~i~i~G~~G~GKttl~~~l~~   56 (300)
T TIGR00750        32 GNAHRVGITGTPGAGKSTLLEALGM   56 (300)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            3678999999999999999988776

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=90.59  E-value=0.16  Score=52.33  Aligned_cols=20  Identities=40%  Similarity=0.607  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.++|++|+||||+|+.+..
T Consensus         2 Ivl~G~pGSGKST~a~~La~   21 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAK   21 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            67999999999999999886

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.

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=90.53  E-value=0.4  Score=51.77  Aligned_cols=24  Identities=33%  Similarity=0.218  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..-||+|.|..|.|||||++.+..
T Consensus       211 ~PlIIGIsG~qGSGKSTLa~~L~~  234 (460)
T PLN03046        211 PPLVIGFSAPQGCGKTTLVFALDY  234 (460)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            568999999999999999999864

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=90.52  E-value=0.19  Score=51.34  Aligned_cols=38  Identities=24%  Similarity=0.269  Sum_probs=28.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccc--ccCCeEEEEE
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVK--RNFEKVIWVC  188 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~F~~~~wv~  188 (876)
                      -++|-++|++|.|||+|.+++++.-.++  +.+....-+.
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liE  216 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIE  216 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEE
Confidence            3889999999999999999999865443  3444433443

>PRK08356 hypothetical protein; Provisional

Probab=90.49  E-value=0.21  Score=49.18  Aligned_cols=21  Identities=33%  Similarity=0.442  Sum_probs=19.2

Q ss_pred             EEEEEEecCCchHHHHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~  172 (876)
                      .+|+|.|+.|+||||+|+.+-
T Consensus         6 ~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          6 MIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            578999999999999999983

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=90.49  E-value=0.33  Score=51.59  Aligned_cols=36  Identities=31%  Similarity=0.386  Sum_probs=26.9

Q ss_pred             HHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          134 NELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       134 ~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++++.+...    .....+|+|.|.+|+|||||+..+..
T Consensus        43 ~~l~~~~~~~----~~~~~~igi~G~~GaGKSTl~~~l~~   78 (332)
T PRK09435         43 QELLDALLPH----TGNALRIGITGVPGVGKSTFIEALGM   78 (332)
T ss_pred             HHHHHHHhhc----CCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            4455555432    23678999999999999999988765

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=90.47  E-value=0.89  Score=50.96  Aligned_cols=24  Identities=42%  Similarity=0.361  Sum_probs=21.1

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-++|+|+|.+|+||||++.++..
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa  372 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQ  372 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999988775

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=90.47  E-value=0.59  Score=45.93  Aligned_cols=51  Identities=24%  Similarity=0.248  Sum_probs=36.3

Q ss_pred             CceeeccchHHHHHHHhhccCCc-------CCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSE-------QQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++=|.+-.+++|.+...-.-..       +-+..+-|-++|++|.|||.||++|.++
T Consensus       155 ~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~  212 (408)
T KOG0727|consen  155 ADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANH  212 (408)
T ss_pred             cccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhc
Confidence            45677888888887765422110       1124566788999999999999999984

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=90.46  E-value=0.26  Score=54.20  Aligned_cols=50  Identities=28%  Similarity=0.236  Sum_probs=34.4

Q ss_pred             CceeeccchHHHHHHHhhcc-------CC---cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE-------SS---EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~-------~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.+..++.+...+...       ..   +....-.-|-++|..|+|||++|+.+.+
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~  130 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLAR  130 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHH
Confidence            46899998888775544210       00   0011235688999999999999999986

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=90.45  E-value=0.72  Score=52.37  Aligned_cols=40  Identities=30%  Similarity=0.268  Sum_probs=29.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  191 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  191 (876)
                      ..-|-|.|..|+|||+||+++++... +++.-.+.+|+.+.
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~  470 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCST  470 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechh
Confidence            34578999999999999999998544 44444455666554

>cd01131 PilT Pilus retraction ATPase PilT

Probab=90.44  E-value=0.29  Score=48.23  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=19.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|+|..|.||||++..+..
T Consensus         2 GlilI~GptGSGKTTll~~ll~   23 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMID   23 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999988765

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=90.42  E-value=0.42  Score=52.02  Aligned_cols=24  Identities=33%  Similarity=0.290  Sum_probs=21.1

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...++.++|.+|+||||+|.++..
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~  245 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAA  245 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999988875

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=90.41  E-value=0.32  Score=48.83  Aligned_cols=22  Identities=36%  Similarity=0.613  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~G   51 (216)
T TIGR00960        30 EMVFLVGHSGAGKSTFLKLILG   51 (216)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            6899999999999999999996

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=90.41  E-value=0.54  Score=47.05  Aligned_cols=21  Identities=19%  Similarity=0.298  Sum_probs=19.5

Q ss_pred             EEEEEEecCCchHHHHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~  172 (876)
                      +++.|.|+.|.||||+.+.+.
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~   51 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVA   51 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            789999999999999999984

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 clam

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=90.40  E-value=0.32  Score=49.06  Aligned_cols=23  Identities=39%  Similarity=0.579  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+++|||..|.||||+|+.+..
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~   61 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILG   61 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHc
Confidence            46899999999999999999986

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=90.37  E-value=0.33  Score=48.51  Aligned_cols=33  Identities=21%  Similarity=0.238  Sum_probs=25.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEE
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWV  187 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  187 (876)
                      .+++|+|..|.|||||++.+....   ......+|+
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~~---~~~~G~i~~   59 (210)
T cd03269          27 EIFGLLGPNGAGKTTTIRMILGII---LPDSGEVLF   59 (210)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC---CCCceEEEE
Confidence            689999999999999999999632   233455554

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13976 thymidylate kinase; Provisional

Probab=90.35  E-value=0.33  Score=48.20  Aligned_cols=21  Identities=38%  Similarity=0.599  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|+|-|..|+||||+++.+++
T Consensus         2 fIv~EGiDGsGKsTq~~~L~~   22 (209)
T PRK13976          2 FITFEGIDGSGKTTQSRLLAE   22 (209)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999997

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=90.34  E-value=0.22  Score=51.87  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|+|.|-||+||||+|..+..
T Consensus         2 ~~~iav~~KGGvGKTT~a~nLA~   24 (264)
T PRK13231          2 MKKIAIYGKGGIGKSTTVSNMAA   24 (264)
T ss_pred             ceEEEEECCCCCcHHHHHHHHhc
Confidence            36899999999999999988776

>PRK10867 signal recognition particle protein; Provisional

Probab=90.33  E-value=0.63  Score=51.43  Aligned_cols=24  Identities=46%  Similarity=0.469  Sum_probs=20.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...||.++|.+|+||||.|..+..
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~  122 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAK  122 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHH
Confidence            468999999999999998876665

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=90.32  E-value=0.21  Score=50.52  Aligned_cols=23  Identities=26%  Similarity=0.393  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+++|+|+.|.|||||.+.++.
T Consensus        28 G~i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          28 GEITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            47899999999999999999996

>PTZ00088 adenylate kinase 1; Provisional

Probab=90.28  E-value=0.19  Score=50.52  Aligned_cols=20  Identities=40%  Similarity=0.615  Sum_probs=18.7

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|+|++|+||||+|+.+.+
T Consensus         9 Ivl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999976

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=90.26  E-value=0.39  Score=50.75  Aligned_cols=45  Identities=24%  Similarity=0.293  Sum_probs=34.1

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  196 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~  196 (876)
                      .-+++-|+|.+|+||||||.+++-  .....-..++||+....++..
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~--~~~~~g~~~vyId~E~~~~~~   98 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIA--EAQKLGGTVAFIDAEHALDPV   98 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH--HHHHcCCCEEEECccccHHHH
Confidence            457888999999999999987664  233334578899888777753

RecA couples ATP hydrolysis to DNA strand exchange.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=90.24  E-value=0.22  Score=49.85  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        28 ~~~~l~G~nGsGKSTLl~~l~G   49 (211)
T cd03225          28 EFVLIVGPNGSGKSTLLRLLNG   49 (211)
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            6899999999999999999986

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=90.23  E-value=0.77  Score=41.47  Aligned_cols=112  Identities=12%  Similarity=0.186  Sum_probs=58.4

Q ss_pred             ceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-
Q 042981          444 KVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-  521 (876)
Q Consensus       444 ~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-  521 (876)
                      +++.+.+.. ....+ ...|.++.+|+.+.+..+       ...+....|..++.|+.+.+         .. .+..++ 
T Consensus        13 ~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-------~~~i~~~~F~~~~~l~~i~~---------~~-~~~~i~~   74 (129)
T PF13306_consen   13 NLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-------LTSIGDNAFSNCKSLESITF---------PN-NLKSIGD   74 (129)
T ss_dssp             T--EEEETS-T--EE-TTTTTT-TT-SEEEESST-------TSCE-TTTTTT-TT-EEEEE---------TS-TT-EE-T
T ss_pred             CCCEEEECC-CeeEeChhhccccccccccccccc-------ccccceeeeecccccccccc---------cc-ccccccc
Confidence            566666653 34444 567888889999998543       23445566889989999999         44 344444 


Q ss_pred             cccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCcccc-ccccCcCCC
Q 042981          522 ENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELP-AGIGKLKKM  577 (876)
Q Consensus       522 ~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp-~~i~~L~~L  577 (876)
                      ..+..+.+|+.+.+..+ +..++. .+.+. +|+.+.+..+  +..++ ..|.++++|
T Consensus        75 ~~F~~~~~l~~i~~~~~-~~~i~~~~f~~~-~l~~i~~~~~--~~~i~~~~F~~~~~l  128 (129)
T PF13306_consen   75 NAFSNCTNLKNIDIPSN-ITEIGSSSFSNC-NLKEINIPSN--ITKIEENAFKNCTKL  128 (129)
T ss_dssp             TTTTT-TTECEEEETTT--BEEHTTTTTT--T--EEE-TTB---SS----GGG-----
T ss_pred             ccccccccccccccCcc-ccEEchhhhcCC-CceEEEECCC--ccEECCccccccccC
Confidence            34577899999999776 676665 46666 8898888753  33333 345555555

>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=90.23  E-value=0.23  Score=48.14  Aligned_cols=22  Identities=32%  Similarity=0.567  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G   48 (178)
T cd03229          27 EIVALLGPSGSGKSTLLRCIAG   48 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            6899999999999999999985

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=90.18  E-value=0.35  Score=51.75  Aligned_cols=39  Identities=26%  Similarity=0.295  Sum_probs=27.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVS  190 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  190 (876)
                      ..+++.|+|..|+||||++..+...  ....=..+.+|+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~--l~~~g~~V~lItaD  243 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQ--LLKQNRTVGFITTD  243 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEeCC
Confidence            4689999999999999999887753  22222345566554

>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=90.13  E-value=0.24  Score=47.61  Aligned_cols=22  Identities=41%  Similarity=0.608  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~G   47 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAG   47 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHc
Confidence            6899999999999999999986

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.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=90.12  E-value=0.22  Score=50.13  Aligned_cols=22  Identities=32%  Similarity=0.548  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        31 ~~~~l~G~nGsGKSTLl~~i~G   52 (218)
T cd03255          31 EFVAIVGPSGSGKSTLLNILGG   52 (218)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhC
Confidence            6899999999999999999986

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=90.11  E-value=1.1  Score=53.43  Aligned_cols=101  Identities=18%  Similarity=0.225  Sum_probs=62.9

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCC--CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCC-----ch----
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQK--GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSD-----TF----  193 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-----~~----  193 (876)
                      .++|.++.+..|-+.+......-..  ..-.+-+.|+.|+|||-||+++..  -+-+..+..+-|+.|+     ..    
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~--~~Fgse~~~IriDmse~~evskligsp  640 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAE--YVFGSEENFIRLDMSEFQEVSKLIGSP  640 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHH--HHcCCccceEEechhhhhhhhhccCCC
Confidence            5788888888888888765421111  456778899999999999999876  3434444555555554     10    


Q ss_pred             ------hH-HHHHHHHHHh------ccccccCCccChhhHHhhhccC
Q 042981          194 ------EE-IRVANAIIEG------LDDVWDGDYNKWEPFFHCLKHG  227 (876)
Q Consensus       194 ------~~-~~~~~~i~~~------lDdvw~~~~~~~~~l~~~l~~~  227 (876)
                            .. ..+...+-+.      +|+|...+.+....+...+..|
T Consensus       641 ~gyvG~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~lD~G  687 (898)
T KOG1051|consen  641 PGYVGKEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLDRG  687 (898)
T ss_pred             cccccchhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHHhcC
Confidence                  11 1222222222      8999776655566566666654

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=90.11  E-value=0.23  Score=47.26  Aligned_cols=21  Identities=29%  Similarity=0.563  Sum_probs=18.7

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|.+|+|||||++++.+.
T Consensus         3 i~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        3 LVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999988764

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=90.08  E-value=0.24  Score=45.73  Aligned_cols=22  Identities=41%  Similarity=0.575  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|++|||..|.|||||.+.+..
T Consensus        33 eVLgiVGESGSGKtTLL~~is~   54 (258)
T COG4107          33 EVLGIVGESGSGKTTLLKCISG   54 (258)
T ss_pred             cEEEEEecCCCcHHhHHHHHhc
Confidence            5999999999999999998876

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=90.07  E-value=0.25  Score=49.56  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      . .+++|+|..|.|||||++.+..
T Consensus        23 ~-e~~~i~G~nGsGKSTLl~~l~G   45 (214)
T cd03297          23 E-EVTGIFGASGAGKSTLLRCIAG   45 (214)
T ss_pred             c-eeEEEECCCCCCHHHHHHHHhC
Confidence            6 8999999999999999999986

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.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=90.07  E-value=0.38  Score=52.72  Aligned_cols=51  Identities=29%  Similarity=0.332  Sum_probs=35.3

Q ss_pred             CCceeeccchHHHHHHHhh-------c--cCCc-C--CCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          123 EGEVCGRVDEKNELLSKLL-------F--ESSE-Q--QKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~-------~--~~~~-~--~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +..++|.++.++.+...+.       .  .... .  ......|.++|+.|+|||++|+.+..
T Consensus        76 ~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~  138 (413)
T TIGR00382        76 DEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLAR  138 (413)
T ss_pred             cceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHH
Confidence            3568999988888866551       1  0000 0  01125788999999999999999986

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>TIGR02012 tigrfam_recA protein RecA

Probab=90.04  E-value=0.42  Score=50.44  Aligned_cols=45  Identities=20%  Similarity=0.270  Sum_probs=33.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  196 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~  196 (876)
                      .-+++-|+|..|+||||||.++...  ....=..++||+.-..++..
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~--~~~~g~~v~yId~E~~~~~~   98 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDPV   98 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEcccchhHHH
Confidence            4579999999999999999776652  33333567888877766653

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.

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=90.04  E-value=0.21  Score=49.19  Aligned_cols=20  Identities=40%  Similarity=0.410  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|.|++|+||||+|+.+..
T Consensus         2 I~i~G~pGsGKst~a~~La~   21 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAK   21 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68999999999999999986

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=90.03  E-value=0.23  Score=48.75  Aligned_cols=22  Identities=36%  Similarity=0.548  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        19 e~~~i~G~nGsGKSTLl~~i~G   40 (190)
T TIGR01166        19 EVLALLGANGAGKSTLLLHLNG   40 (190)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999986

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd04163 Era Era subfamily

Probab=90.02  E-value=0.28  Score=46.46  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..+|+++|..|+|||||+.++...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999998763

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>PRK01184 hypothetical protein; Provisional

Probab=90.01  E-value=0.23  Score=48.42  Aligned_cols=18  Identities=33%  Similarity=0.732  Sum_probs=16.7

Q ss_pred             EEEEEEecCCchHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQ  169 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~  169 (876)
                      .+|+|+|+.|+||||+|+
T Consensus         2 ~~i~l~G~~GsGKsT~a~   19 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK   19 (184)
T ss_pred             cEEEEECCCCCCHHHHHH
Confidence            589999999999999987

>cd01858 NGP_1 NGP-1

Probab=90.00  E-value=0.46  Score=44.88  Aligned_cols=25  Identities=12%  Similarity=0.324  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNND  175 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~  175 (876)
                      ...|+++|++|+|||||..++..+.
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~~  126 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSKK  126 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcCC
Confidence            3567899999999999999998753

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=89.99  E-value=0.38  Score=54.83  Aligned_cols=47  Identities=19%  Similarity=0.311  Sum_probs=37.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .+++|....++++.+.+..-..    .-.-|-|.|..|+||+++|+.+++.
T Consensus       219 ~~iiG~S~~m~~~~~~i~~~A~----s~~pVLI~GE~GTGKe~~A~~IH~~  265 (538)
T PRK15424        219 GDLLGQSPQMEQVRQTILLYAR----SSAAVLIQGETGTGKELAAQAIHRE  265 (538)
T ss_pred             hheeeCCHHHHHHHHHHHHHhC----CCCcEEEECCCCCCHHHHHHHHHHh
Confidence            4599999999988888764322    2245779999999999999999974

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=89.98  E-value=0.35  Score=46.53  Aligned_cols=21  Identities=57%  Similarity=0.599  Sum_probs=19.1

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++.++|++|+||||++..+..
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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=89.98  E-value=0.24  Score=47.20  Aligned_cols=21  Identities=19%  Similarity=0.378  Sum_probs=19.0

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|.+|+|||||+.++.++
T Consensus         3 i~~vG~~~vGKTsli~~l~~~   23 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEG   23 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999988864

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=89.96  E-value=0.32  Score=47.51  Aligned_cols=37  Identities=30%  Similarity=0.364  Sum_probs=25.8

Q ss_pred             EEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCc
Q 042981          154 ISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  192 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~  192 (876)
                      +.|.|.+|+|||+||.++... -.+.. ..++|++..++
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~-~~~~g-~~v~~~s~e~~   38 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYA-GLARG-EPGLYVTLEES   38 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH-HHHCC-CcEEEEECCCC
Confidence            578999999999999876542 12222 45778877654

A related protein is found in archaea.

>cd01862 Rab7 Rab7 subfamily

Probab=89.94  E-value=0.24  Score=47.49  Aligned_cols=21  Identities=33%  Similarity=0.550  Sum_probs=18.9

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |+|+|.+|+|||||+..+.++
T Consensus         3 i~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           3 VIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999988764

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>PRK14532 adenylate kinase; Provisional

Probab=89.94  E-value=0.22  Score=48.78  Aligned_cols=20  Identities=30%  Similarity=0.293  Sum_probs=18.3

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|+|++|+||||+|+.+..
T Consensus         3 i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999999986

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=89.94  E-value=0.37  Score=48.32  Aligned_cols=33  Identities=30%  Similarity=0.418  Sum_probs=25.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEE
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWV  187 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  187 (876)
                      .+++|+|..|.|||||++.+..-   .......+++
T Consensus        29 ~~~~l~G~nGsGKSTLl~~i~Gl---~~~~~G~i~~   61 (214)
T TIGR02673        29 EFLFLTGPSGAGKTTLLKLLYGA---LTPSRGQVRI   61 (214)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCCceEEE
Confidence            58999999999999999999863   2234455544

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=89.92  E-value=0.22  Score=52.47  Aligned_cols=22  Identities=27%  Similarity=0.460  Sum_probs=19.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +||+|+|-||+||||+|-.+..
T Consensus         1 ~vIav~gKGGvGKTT~a~nLA~   22 (296)
T TIGR02016         1 RIIAIYGKGGSGKSFTTTNLSH   22 (296)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999998877665

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=89.88  E-value=0.2  Score=52.04  Aligned_cols=21  Identities=29%  Similarity=0.474  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|+|.|..|.||||+++.+..
T Consensus         1 iigI~G~sGsGKSTl~~~L~~   21 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTS   21 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999985

This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=89.87  E-value=0.38  Score=48.42  Aligned_cols=33  Identities=24%  Similarity=0.268  Sum_probs=25.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEE
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWV  187 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  187 (876)
                      .+++|+|..|.|||||.+.+...   .......+++
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G~---~~~~~G~i~~   59 (220)
T cd03265          27 EIFGLLGPNGAGKTTTIKMLTTL---LKPTSGRATV   59 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC---CCCCceEEEE
Confidence            68999999999999999999863   2334455554

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. 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.

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=89.87  E-value=0.25  Score=49.69  Aligned_cols=22  Identities=45%  Similarity=0.567  Sum_probs=18.9

Q ss_pred             EEEEEEec-CCchHHHHHHHHHc
Q 042981          152 HVISLVGL-GGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~-gGiGKTtLa~~v~~  173 (876)
                      ++|+|+|. ||+||||++-.+..
T Consensus         2 ~~iai~s~kGGvG~TTltAnLA~   24 (243)
T PF06564_consen    2 KVIAIVSPKGGVGKTTLTANLAW   24 (243)
T ss_pred             cEEEEecCCCCCCHHHHHHHHHH
Confidence            68999996 88999999977765

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=89.85  E-value=0.34  Score=55.62  Aligned_cols=44  Identities=25%  Similarity=0.332  Sum_probs=35.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++++|.+..++.+...+...      ...-|-|+|..|+||||+|+.+++
T Consensus        65 ~~iiGqs~~i~~l~~al~~~------~~~~vLi~Ge~GtGKt~lAr~i~~  108 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCGP------NPQHVIIYGPPGVGKTAAARLVLE  108 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHH
Confidence            36999999999888776432      224457899999999999999986

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>PRK00698 tmk thymidylate kinase; Validated

Probab=89.84  E-value=0.25  Score=49.14  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|+|.|+.|+||||+++.+.+
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~   25 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKE   25 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999986

>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family

Probab=89.81  E-value=0.48  Score=47.74  Aligned_cols=41  Identities=24%  Similarity=0.313  Sum_probs=27.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchh
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE  194 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~  194 (876)
                      +.|+|+|-|||||+|.+..+.-  -....-..++-|-.+.+.|
T Consensus         1 r~IAiYGKGGIGKST~~~Nlsa--ala~~G~kVl~iGCDPK~D   41 (273)
T PF00142_consen    1 RKIAIYGKGGIGKSTTASNLSA--ALAEMGKKVLQIGCDPKAD   41 (273)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH--HHHHTT--EEEEEESSSST
T ss_pred             CeEEEEcCCCcccChhhhHHHH--HHHhccceeeEecccCCCc
Confidence            4689999999999999987754  2333334566666555443

Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=89.76  E-value=0.39  Score=46.82  Aligned_cols=23  Identities=35%  Similarity=0.317  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -..+.|+|..|.||||+++.+..
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~   47 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLA   47 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            36799999999999999999886

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=89.74  E-value=0.8  Score=52.24  Aligned_cols=47  Identities=15%  Similarity=0.194  Sum_probs=37.3

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .+++|....++++.+.+..-..    .-.-|-|.|..|+||+++|+.+++.
T Consensus       212 ~~iiG~S~~m~~~~~~i~~~A~----~~~pVLI~GE~GTGKe~lA~~IH~~  258 (526)
T TIGR02329       212 DDLLGASAPMEQVRALVRLYAR----SDATVLILGESGTGKELVAQAIHQL  258 (526)
T ss_pred             hheeeCCHHHHHHHHHHHHHhC----CCCcEEEECCCCcCHHHHHHHHHHh
Confidence            4599999999988888764322    2245779999999999999999974

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>smart00369 LRR_TYP Leucine-rich repeats, typical (most populated) subfamily

Probab=89.74  E-value=0.25  Score=30.22  Aligned_cols=21  Identities=33%  Similarity=0.414  Sum_probs=14.3

Q ss_pred             CcccCeeeccCccccccchhh
Q 042981          527 LIHLKYLNLSELCIERLPKTL  547 (876)
Q Consensus       527 L~~Lr~L~Ls~~~i~~lp~~i  547 (876)
                      |.+|++|+|++|.|+.+|...
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            356777777777777777653

>smart00370 LRR Leucine-rich repeats, outliers

Probab=89.74  E-value=0.25  Score=30.22  Aligned_cols=21  Identities=33%  Similarity=0.414  Sum_probs=14.3

Q ss_pred             CcccCeeeccCccccccchhh
Q 042981          527 LIHLKYLNLSELCIERLPKTL  547 (876)
Q Consensus       527 L~~Lr~L~Ls~~~i~~lp~~i  547 (876)
                      |.+|++|+|++|.|+.+|...
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            356777777777777777653

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=89.71  E-value=0.53  Score=44.92  Aligned_cols=31  Identities=26%  Similarity=0.389  Sum_probs=26.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCe
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEK  183 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~  183 (876)
                      ..+|.+-|..|+|||||..+..+  ..++.|..
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~--~L~~~~~~   43 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLR--ALKDEYKI   43 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHH--HHHhhCCe
Confidence            47899999999999999999887  56666653

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=89.69  E-value=0.57  Score=51.89  Aligned_cols=24  Identities=46%  Similarity=0.461  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.++|..|+||||.|..++.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~  117 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLAR  117 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            578999999999999999988876

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=89.68  E-value=0.36  Score=36.88  Aligned_cols=20  Identities=35%  Similarity=0.454  Sum_probs=17.7

Q ss_pred             EEEEEecCCchHHHHHHHHH
Q 042981          153 VISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~  172 (876)
                      +..|.|..|+|||||..++.
T Consensus        25 ~tli~G~nGsGKSTllDAi~   44 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQ   44 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            78999999999999997654

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=89.66  E-value=0.39  Score=48.94  Aligned_cols=22  Identities=36%  Similarity=0.576  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G   49 (236)
T TIGR03864        28 EFVALLGPNGAGKSTLFSLLTR   49 (236)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            6899999999999999999986

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=89.66  E-value=0.36  Score=48.23  Aligned_cols=21  Identities=38%  Similarity=0.591  Sum_probs=20.1

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +++|+|..|.|||||++.++.
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~G   47 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILAT   47 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhC
Confidence            899999999999999999986

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. 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.

>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]

Probab=89.65  E-value=0.68  Score=45.62  Aligned_cols=50  Identities=22%  Similarity=0.211  Sum_probs=34.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAII  203 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  203 (876)
                      ..|+|=|+-|+||||.++.++.  .++...-.++|..-.......+..+.++
T Consensus         4 ~fI~iEGiDGaGKTT~~~~L~~--~l~~~g~~v~~trEP~~~~ige~iR~~l   53 (208)
T COG0125           4 MFIVIEGIDGAGKTTQAELLKE--RLEERGIKVVLTREPGGTPIGEKIRELL   53 (208)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEeCCCCChHHHHHHHHH
Confidence            5789999999999999999998  5555544566665444444444444443

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

Probab=89.62  E-value=0.98  Score=48.91  Aligned_cols=81  Identities=15%  Similarity=0.149  Sum_probs=55.9

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHH
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAI  202 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i  202 (876)
                      ++.++||+.++..+.+++...-+  .....-+.|.|-+|.|||.+...|+.+..-...=.+++.+..-.--...+++..|
T Consensus       149 p~~l~gRe~e~~~v~~F~~~hle--~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI  226 (529)
T KOG2227|consen  149 PGTLKGRELEMDIVREFFSLHLE--LNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKI  226 (529)
T ss_pred             CCCccchHHHHHHHHHHHHhhhh--cccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHH
Confidence            45799999999999999987654  3456778999999999999999999753221111233445443334455666666


Q ss_pred             HHh
Q 042981          203 IEG  205 (876)
Q Consensus       203 ~~~  205 (876)
                      ...
T Consensus       227 ~~~  229 (529)
T KOG2227|consen  227 FSS  229 (529)
T ss_pred             HHH
Confidence            655

>smart00072 GuKc Guanylate kinase homologues

Probab=89.56  E-value=0.32  Score=47.34  Aligned_cols=23  Identities=35%  Similarity=0.413  Sum_probs=20.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ++|.|+|+.|+||+||++.+...
T Consensus         3 r~ivl~Gpsg~GK~tl~~~L~~~   25 (184)
T smart00072        3 RPIVLSGPSGVGKGTLLAELIQE   25 (184)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhc
Confidence            67899999999999999999873

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=89.54  E-value=0.27  Score=48.42  Aligned_cols=23  Identities=22%  Similarity=0.391  Sum_probs=21.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .+++|+|..|.|||||++.+...
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G~   49 (195)
T PRK13541         27 AITYIKGANGCGKSSLLRMIAGI   49 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999873

>cd04113 Rab4 Rab4 subfamily

Probab=89.54  E-value=0.27  Score=46.56  Aligned_cols=21  Identities=29%  Similarity=0.476  Sum_probs=18.8

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|.+|+|||||++++.+.
T Consensus         3 i~v~G~~~vGKTsli~~l~~~   23 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVEN   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999998764

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=89.53  E-value=0.41  Score=42.39  Aligned_cols=20  Identities=50%  Similarity=0.798  Sum_probs=18.4

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.+.|.||+||||++..+.+
T Consensus         2 i~~~GkgG~GKTt~a~~la~   21 (116)
T cd02034           2 IAITGKGGVGKTTIAALLAR   21 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68999999999999998876

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=89.52  E-value=0.91  Score=49.34  Aligned_cols=42  Identities=26%  Similarity=0.261  Sum_probs=30.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCch
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF  193 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~  193 (876)
                      .-.++.|.|.+|+|||||+.++...  ....-..++|++..+..
T Consensus        81 ~GslvLI~G~pG~GKStLllq~a~~--~a~~g~~VlYvs~EEs~  122 (372)
T cd01121          81 PGSVILIGGDPGIGKSTLLLQVAAR--LAKRGGKVLYVSGEESP  122 (372)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCcCH
Confidence            3468999999999999999888752  33333467788765543

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.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=89.52  E-value=0.32  Score=47.39  Aligned_cols=24  Identities=42%  Similarity=0.450  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.|.|..|.||||+|+.+..
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~   40 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEK   40 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999986

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.51  E-value=0.032  Score=53.08  Aligned_cols=83  Identities=17%  Similarity=0.195  Sum_probs=46.1

Q ss_pred             CcEEEEecCCCCC-CCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccc
Q 042981          712 LRDLRLKSCVICE-HFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEEL  789 (876)
Q Consensus       712 L~~L~L~~~~~~~-~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L  789 (876)
                      ++.++-+++.+.. .+..+..++ ++.|.+.+|..+..-.-++.+                  ..+|+|+.|+|++|++.
T Consensus       103 IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~------------------~~~~~L~~L~lsgC~rI  164 (221)
T KOG3864|consen  103 IEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLG------------------GLAPSLQDLDLSGCPRI  164 (221)
T ss_pred             EEEEecCCchHHHHHHHHHhccchhhhheeccccchhhHHHHHhc------------------ccccchheeeccCCCee
Confidence            4455555554432 334455566 666666666554332222221                  14677777777777776


Q ss_pred             cccccccccccccCcccccceeeeccCc
Q 042981          790 EEWNYRITRKENISIMPRLSSLTIWYCP  817 (876)
Q Consensus       790 ~~~~~~~~~~~~~~~l~~L~~L~l~~c~  817 (876)
                      ++...     ..+..+++|+.|.|.+-+
T Consensus       165 T~~GL-----~~L~~lknLr~L~l~~l~  187 (221)
T KOG3864|consen  165 TDGGL-----ACLLKLKNLRRLHLYDLP  187 (221)
T ss_pred             chhHH-----HHHHHhhhhHHHHhcCch
Confidence            66543     344567777777776543

>PHA02575 1 deoxynucleoside monophosphate kinase; Provisional

Probab=89.47  E-value=0.27  Score=48.35  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=19.1

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|+|+||.|+||+|.|+.+-.
T Consensus         2 iI~i~G~~gsGKstva~~~~~   22 (227)
T PHA02575          2 LIAISGKKRSGKDTVADFIIE   22 (227)
T ss_pred             EEEEeCCCCCCHHHHHHHHHh
Confidence            799999999999999998854

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=89.43  E-value=0.28  Score=45.88  Aligned_cols=23  Identities=35%  Similarity=0.423  Sum_probs=20.2

Q ss_pred             EEEEEecCCchHHHHHHHHHcCc
Q 042981          153 VISLVGLGGMGKTTLAQLAYNND  175 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~~  175 (876)
                      -|+++|..|+|||||+.++....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999988754

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=89.39  E-value=0.27  Score=51.32  Aligned_cols=20  Identities=30%  Similarity=0.594  Sum_probs=16.5

Q ss_pred             EEEEEecCCchHHHHHHHHH
Q 042981          153 VISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~  172 (876)
                      +|++.|-||+||||+|-.+.
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA   21 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLS   21 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHH
Confidence            57888999999999776654

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=89.39  E-value=0.27  Score=49.21  Aligned_cols=22  Identities=41%  Similarity=0.623  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G   48 (213)
T cd03259          27 EFLALLGPSGCGKTTLLRLIAG   48 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            6899999999999999999986

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional

Probab=89.38  E-value=0.36  Score=52.83  Aligned_cols=30  Identities=30%  Similarity=0.428  Sum_probs=25.1

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF  181 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F  181 (876)
                      +.-||+|+|..|+|||||+..+..  +.+..+
T Consensus         4 ~~~~i~i~G~~gsGKTTl~~~l~~--~l~~~~   33 (369)
T PRK14490          4 HPFEIAFCGYSGSGKTTLITALVR--RLSERF   33 (369)
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHH--HHhhCc
Confidence            457999999999999999999997  555554

>CHL00176 ftsH cell division protein; Validated

Probab=89.37  E-value=0.24  Score=57.76  Aligned_cols=51  Identities=25%  Similarity=0.232  Sum_probs=34.4

Q ss_pred             CceeeccchHHHHHHHhh---ccCC---cCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLL---FESS---EQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~---~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .+++|.++.++++.+.+.   ....   -+....+-|-++|++|+|||+||+++++.
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e  239 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGE  239 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            468898876666655442   2110   00123456889999999999999999873

>PRK14531 adenylate kinase; Provisional

Probab=89.35  E-value=0.28  Score=47.77  Aligned_cols=21  Identities=29%  Similarity=0.298  Sum_probs=19.2

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|.|+|++|+||||+|+.+..
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~   24 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCA   24 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999976

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=89.32  E-value=0.63  Score=54.24  Aligned_cols=42  Identities=21%  Similarity=0.299  Sum_probs=32.5

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++++|.++.++.+...+...        +-+-++|+.|+||||+|+.+.+
T Consensus        18 ~~viG~~~a~~~l~~a~~~~--------~~~ll~G~pG~GKT~la~~la~   59 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQK--------RNVLLIGEPGVGKSMLAKAMAE   59 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcC--------CCEEEECCCCCCHHHHHHHHHH
Confidence            46889888777766656432        2344899999999999999987

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=89.30  E-value=0.36  Score=45.10  Aligned_cols=24  Identities=38%  Similarity=0.439  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +..||=+.|..|.||||+|.+++.
T Consensus        22 ~~~viW~TGLSGsGKSTiA~ale~   45 (197)
T COG0529          22 KGAVIWFTGLSGSGKSTIANALEE   45 (197)
T ss_pred             CCeEEEeecCCCCCHHHHHHHHHH
Confidence            457888999999999999999997

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=89.27  E-value=0.44  Score=48.02  Aligned_cols=22  Identities=36%  Similarity=0.628  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G   48 (222)
T cd03224          27 EIVALLGRNGAGKTTLLKTIMG   48 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHhC
Confidence            6899999999999999999986

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). 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.

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=89.26  E-value=0.68  Score=47.61  Aligned_cols=54  Identities=28%  Similarity=0.335  Sum_probs=38.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccccc----CCeEEEEEeCCchhHHHHHHHHHHh
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRN----FEKVIWVCVSDTFEEIRVANAIIEG  205 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~~~~~i~~~  205 (876)
                      -.|.=|+|.+|+|||.|+-+++-...+...    =..++|++-...|...++.+ |++.
T Consensus        38 g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~-i~~~   95 (256)
T PF08423_consen   38 GSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQ-IAER   95 (256)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHH-HHHH
T ss_pred             CcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHH-Hhhc
Confidence            468899999999999999777643333221    13689999999999888754 5543

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 ....

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=89.25  E-value=0.28  Score=49.98  Aligned_cols=22  Identities=32%  Similarity=0.664  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G   48 (235)
T cd03261          27 EILAIIGPSGSGKSTLLRLIVG   48 (235)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999986

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.

>cd00879 Sar1 Sar1 subfamily

Probab=89.19  E-value=0.29  Score=47.88  Aligned_cols=23  Identities=35%  Similarity=0.527  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..|+|+|.+|+|||||++.+..+
T Consensus        20 ~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879          20 AKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            44599999999999999998864

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=89.19  E-value=0.29  Score=49.35  Aligned_cols=22  Identities=36%  Similarity=0.619  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        31 ~~~~i~G~nGsGKSTLl~~l~G   52 (220)
T cd03293          31 EFVALVGPSGCGKSTLLRIIAG   52 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            6899999999999999999986

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.

>cd01864 Rab19 Rab19 subfamily

Probab=89.18  E-value=0.29  Score=46.58  Aligned_cols=22  Identities=32%  Similarity=0.353  Sum_probs=19.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-|.|+|.+|+|||||+.++..
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~   25 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKS   25 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhh
Confidence            4578999999999999988765

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=89.18  E-value=0.29  Score=49.34  Aligned_cols=22  Identities=32%  Similarity=0.540  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.++.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G   50 (220)
T cd03263          29 EIFGLLGHNGAGKTTTLKMLTG   50 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999996

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=89.17  E-value=0.3  Score=46.31  Aligned_cols=21  Identities=33%  Similarity=0.517  Sum_probs=19.0

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|.+|+|||||++.+.+.
T Consensus         3 v~v~G~~~~GKTtli~~l~~~   23 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDG   23 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999999864

Rab GTPases are implicated in vesicle trafficking.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=89.12  E-value=0.27  Score=49.22  Aligned_cols=22  Identities=32%  Similarity=0.572  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~G   47 (213)
T cd03235          26 EFLAIVGPNGAGKSTLLKAILG   47 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHcC
Confidence            6899999999999999999986

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.

---

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	876
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	9e-89
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	3e-76
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-51
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-17
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-09
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	5e-15
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-12
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-08
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	2e-14
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	8e-14
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	9e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	9e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-11
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-10
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	7e-08
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-07
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	7e-08
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-07
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	6e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-07
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-07
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	7e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	8e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-04
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-05
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	3e-06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	7e-06
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	3e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	7e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	4e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	5e-04
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	7e-06
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	7e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	9e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-05
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	1e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	1e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	3e-05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	5e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	8e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	9e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-04
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	2e-04
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	3e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	4e-04
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	4e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	5e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	5e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	7e-04
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	6e-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 =  292 bits (750), Expect = 9e-89
 Identities = 93/606 (15%), Positives = 184/606 (30%), Gaps = 112/606 (18%)

Query: 2   QQDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHK--KNVRSFF 59
            ++ ++       KD       ++D  + +   L I   +          +    ++   
Sbjct: 5   ARNCLLQHREALEKD--IKTSYIMDH-MISDGFLTISEEEKVRNEPTQQQRAAMLIKMIL 61

Query: 60  RAVSNCFGSFKQLSLRQDIAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQARTTS 119
           +  ++ + SF    L +      +++     D           ++VS      +      
Sbjct: 62  KKDNDSYVSFYNALLHE----GYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEG 117

Query: 120 LIDE--GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV 177
            + +       R    N +  KL     + +     +++ G+ G GK+ LA  A  +  +
Sbjct: 118 GVPQRPVVFVTRKKLVNAIQQKLS----KLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSL 173

Query: 178 KRNF--EKVIWVCVSDTF--EEIRVANAIIEG---------------------------- 205
                   V WV V        +     +                               
Sbjct: 174 LEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLR 233

Query: 206 --------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIF--IE 255
                   LDDVWD            LK      +ILLTTR++SV   +     +     
Sbjct: 234 KHPRSLLILDDVWDSWV---------LKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVES 284

Query: 256 QLTEEES---FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSK-SILKEWQKT 311
            L +E+     S         L      I ++CKG PL     G LLR   +  + + K 
Sbjct: 285 SLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQ 344

Query: 312 LDSEMWKVEEIG-----QGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELIS 366
           L ++ +K          + L   + +S   L  +  +K  ++  +I  K+  +  K L  
Sbjct: 345 LQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED--IKDYYTDLSILQKDVKVPTKVLCI 402

Query: 367 LWMVQGYLNVEEDEEIEMTGEEYFN--ISK-FKKDDDDDDIMSCKMHDIVHDFAQFVSRK 423
           LW       +E +E      E+     ++K     D +       +HD+  DF    +  
Sbjct: 403 LWD------METEE-----VEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNCS 451

Query: 424 ECLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSL 483
           +   +      + +I       R+   +          ++  N L   +   +       
Sbjct: 452 QLQDL-----HKKIITQ---FQRYHQPHTLSP-DQEDCMYWYNFLAYHMASAK------- 495

Query: 484 NSSILSELFSKLACFRA--LVIGQRNFIFD--PYPNLI-REIPENVRKLIHLKYLNLSEL 538
               L  L   L   +A   ++G  + I +   Y +++  +             LN   L
Sbjct: 496 MHKELCALMFSLDWIKAKTELVGPAHLIHEFVEYRHILDEKDCAVSENFQEFLSLNGHLL 555

Query: 539 CIERLP 544
             +  P
Sbjct: 556 GRQPFP 561

>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 =  258 bits (659), Expect = 3e-76
 Identities = 68/516 (13%), Positives = 148/516 (28%), Gaps = 95/516 (18%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRAV 62
            D      L  L+  +   ED  +       +L+                 N    +R  
Sbjct: 19  HDFEPRDALTYLEGKNIFTEDHSELISKMSTRLERI--------------ANFLRIYRRQ 64

Query: 63  SNCFGSFKQLSLRQDIAVKIREINEKPDDIASQK---DRFKFVENVSNHVKKPKQARTTS 119
           ++  G         +    + +  E   D A  +    R   +    +     ++    +
Sbjct: 65  ASELGPLID-FFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGN 123

Query: 120 LIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDE--V 177
           +  +     R    + ++ KL             + L G  G GK+ +A  A +  +  +
Sbjct: 124 VPKQMTCYIREYHVDRVIKKLD---EMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLI 180

Query: 178 KRNFEKVIWVCVSDTFEE-----IRVANAIIEG--------------------------- 205
             N++ ++W+  S T  +           +++                            
Sbjct: 181 GINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALI 240

Query: 206 --------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTNIIF-IEQ 256
                    DDV   +  +W              + L+TTR+  ++     T     +  
Sbjct: 241 DRPNTLFVFDDVVQEETIRW--AQEL------RLRCLVTTRDVEISNAASQTCEFIEVTS 292

Query: 257 LTEEESFS-----GRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQ-- 309
           L  +E +      G      EK E +  K      G P            K+  K  Q  
Sbjct: 293 LEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLN 352

Query: 310 -----KTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKEL 364
                + L           + L   L      L      +   ++  + P   +I  K  
Sbjct: 353 NKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDE--DRSALAFAVVMPPGVDIPVKLW 410

Query: 365 ISLWMVQGYLNVEEDEEIEMTGEEYFN--ISK-FKKDDDDDDIMSCKMHDIVHDFAQFVS 421
             +  V       E+E+++    +       +          +++ K+  I+H F + V 
Sbjct: 411 SCVIPVDICS--NEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVV 468

Query: 422 RKECLWVEINGTKESVI----NSFGDKVRHLGLNFE 453
             + +   I+  ++ ++    N+     RH+  +F+
Sbjct: 469 DAQTIANGISILEQRLLEIGNNNVSVPERHIPSHFQ 504

>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 =  193 bits (491), Expect = 6e-51
 Identities = 108/741 (14%), Positives = 212/741 (28%), Gaps = 235/741 (31%)

Query: 3   QDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKN-VRSFF-- 59
           +D +  F    + +  +D +DV D     +  L  E +D      ++    +     F  
Sbjct: 19  KDILSVFEDAFVDN--FDCKDVQD---MPKSILSKEEIDH---IIMSKDAVSGTLRLFWT 70

Query: 60  --RAVSNCFGSFKQLSLRQD---IAVKIREINEKPDDIASQKDRFKFVENVSNHVKKPKQ 114
                      F +  LR +   +   I+    +P           ++E         + 
Sbjct: 71  LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM-----MTRMYIEQRD------RL 119

Query: 115 ARTTSLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN 174
                +  +  V  R+    +L   LL    E +   +V+ + G+ G GKT +A     +
Sbjct: 120 YNDNQVFAKYNVS-RLQPYLKLRQALL----ELRPAKNVL-IDGVLGSGKTWVALDVCLS 173

Query: 175 DEVKRNFE-KVIWVCV---------------------------SDTFEEIRV-ANAIIEG 205
            +V+   + K+ W+ +                           SD    I++  ++I   
Sbjct: 174 YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233

Query: 206 L----------------DDVWDGDYNKWEPF-FHCLKHGLHGSKILLTTRNESVARMMGS 248
           L                 +V +     W  F   C        KILLTTR + V   + +
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNA--KAWNAFNLSC--------KILLTTRFKQVTDFLSA 283

Query: 249 --TNIIFIEQ----LTEEES---FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLL 299
             T  I ++     LT +E             + L P            P         +
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL-P-----REVLTTNPRRLSIIAESI 337

Query: 300 RSKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNI 359
           R    L  W         K+  I       +  S N L      ++ F   ++FP   +I
Sbjct: 338 RDG--LATWDNWKHVNCDKLTTI-------IESSLNVLEPAEY-RKMFDRLSVFPPSAHI 387

Query: 360 KKKELISLWMVQGYLNVEEDEEIEMTGEEYFNISKFKKDDDDDDIMSCKMHDIVHDFAQF 419
               L  +W      +V + + + +   +    S  +K   +    +  +  I       
Sbjct: 388 PTILLSLIW-----FDVIKSDVMVVV-NKLHKYSLVEKQPKE---STISIPSI-----YL 433

Query: 420 VSRKECLWVEINGTKESVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPS 479
             + +                  +    L              H     R+++ ++  P 
Sbjct: 434 ELKVKL-----------------ENEYAL--------------H-----RSIVDHYNIPK 457

Query: 480 NPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELC 539
               +  I   L           IG        +               HLK +   E  
Sbjct: 458 TFDSDDLIPPYLDQYFYSH----IG--------H---------------HLKNIEHPER- 489

Query: 540 IERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLT 599
           +         ++    LD R+ E          K++   +  N    +L       + L 
Sbjct: 490 MTLFRM----VF----LDFRFLE---------QKIRHDSTAWNASGSIL-------NTLQ 525

Query: 600 SLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLL 659
            L+  + +      D      + ++ +   L +               E L      +LL
Sbjct: 526 QLKFYKPYICDN--DPKYERLVNAILD--FLPKIE-------------ENLICSKYTDLL 568

Query: 660 RLSLEFDEEG--EEGRRKNQQ 678
           R++L  ++E   EE  ++ Q+
Sbjct: 569 RIALMAEDEAIFEEAHKQVQR 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 = 64.1 bits (155), Expect = 2e-10
 Identities = 101/656 (15%), Positives = 180/656 (27%), Gaps = 195/656 (29%)

Query: 142 FESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVC--VSDTFEEI--- 196
           FE+ E Q     I               L+   D    NF+     C  V D  + I   
Sbjct: 9   FETGEHQYQYKDI---------------LSVFEDAFVDNFD-----CKDVQDMPKSILSK 48

Query: 197 RVANAIIEGLDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGS---TNIIF 253
              + II   D V       W                LL+ + E V + +      N  F
Sbjct: 49  EEIDHIIMSKDAVSGTLRLFW---------------TLLSKQEEMVQKFVEEVLRINYKF 93

Query: 254 I-EQLTEEE---SFSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSI--LKE 307
           +   +  E+   S   R + +            R      + AK   N+ R +    L++
Sbjct: 94  LMSPIKTEQRQPSMMTRMYIEQRD---------RLYNDNQVFAK--YNVSRLQPYLKLRQ 142

Query: 308 WQKTLDSEMWKVEE--IGQG---LFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKK 362
               L      + +  +G G   +   + LSY        V+    +  IF         
Sbjct: 143 ALLELRPAKNVLIDGVLGSGKTWVALDVCLSYK-------VQCKMDF-KIF--------- 185

Query: 363 ELISLWMVQGYLNVEEDEEIEMTGEEYFNISK-FKKDDDDDDIMSCKMHDIVHDFAQFVS 421
                W+     N   +  +EM  +  + I   +    D    +  ++H I  +  + + 
Sbjct: 186 -----WLNLKNCN-SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239

Query: 422 RK---ECLWV--EINGTKESVINSFGDKVRHL----------GLNFEGGASFPMSIH--G 464
            K    CL V   +   K    N+F    + L           L+        +  H   
Sbjct: 240 SKPYENCLLVLLNVQNAK--AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT 297

Query: 465 LNRLRTLLIYFQSPSNPSLNSSILSELFSKL---ACFRA-LVIGQRNFIFDPYPNLIREI 520
           L                SL    L      L           +     I       IR+ 
Sbjct: 298 LTPDEVK----------SLLLKYLDCRPQDLPREVLTTNPRRLS----II---AESIRDG 340

Query: 521 P---ENVRKLIHLKYLNLSELCIERL-PKTLCELYN------------LQKLDIRWCEDL 564
               +N + +   K   + E  +  L P    ++++               L + W + +
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI 400

Query: 565 RELPAGI-GKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLES 623
           +     +  KL K  SL+       K   I I  +  L    K      +++        
Sbjct: 401 KSDVMVVVNKLHK-YSLVEKQP---KESTISIPSI-YLELKVK------LENEYALHRSI 449

Query: 624 LKNLQLLRECGIEGLSNVS-----------HLDEDERLGLHNMKNLLRLSLEFDEEGEEG 672
           + +  + +    + L               HL   E      +  ++ L   F E     
Sbjct: 450 VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE----- 504

Query: 673 RRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTN-LRDLRLKSCVICEHFP 727
            +K    +       N                   S+ N L+ L+     IC++ P
Sbjct: 505 -QK----IRHDSTAWNAS----------------GSILNTLQQLKFYKPYICDNDP 539

>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 = 62.9 bits (152), Expect = 3e-10
 Identities = 81/522 (15%), Positives = 167/522 (31%), Gaps = 137/522 (26%)

Query: 399 DDDDDIMSCKMHDIVHDFAQ-FVSRKECLWVEINGTKESVINSFGDKVRHLGLNFEGGAS 457
           D +      +  DI+  F   FV   +C  V+ +  K S+++   +++ H+ +       
Sbjct: 8   DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQ-DMPK-SILSK--EEIDHI-IM------ 56

Query: 458 FPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRN--FIFDPYPN 515
              S   ++    L     S         ++ +   ++         + N  F+  P   
Sbjct: 57  ---SKDAVSGTLRLFWTLLSK-----QEEMVQKFVEEVL--------RINYKFLMSPIKT 100

Query: 516 LIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLK 575
             R+ P  + ++ +++  +      +   K     YN+ +L       LR+       L 
Sbjct: 101 EQRQ-PSMMTRM-YIEQRDRLYNDNQVFAK-----YNVSRLQPYL--KLRQ------ALL 145

Query: 576 KMRS----LLNGGTPLLKYMPIGISK--LTS--LRTLE-KFAMGGGVD--DISTCRLES- 623
           ++R     L++G       +  G  K  +      + + +  M   +   ++  C     
Sbjct: 146 ELRPAKNVLIDG-------VL-GSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET 197

Query: 624 -LKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRR--KNQQLL 680
            L+ LQ L          +  +D +      +  N   + L       E RR  K++   
Sbjct: 198 VLEMLQKL----------LYQIDPNWTSRSDHSSN---IKLRIHSIQAELRRLLKSKPYE 244

Query: 681 EALQPPL---NVKELGIVSYGGNIFP---KWL-----TSLTNLRDLRLKSCVICEHFPPL 729
             L   L   NV+         N F    K L       +T+       + +  +H    
Sbjct: 245 NCL---LVLLNVQNAKAW----NAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM- 296

Query: 730 GKLPLEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAM--E 787
              P E  +L   Y         L      +D P    +++     P+  S+ I     +
Sbjct: 297 TLTPDEVKSLLLKY---------LDC--RPQDLPREVLTTN-----PRRLSI-IAESIRD 339

Query: 788 ELEEW-NYRITRKENISIMPRLSSLTIWYCPRLR-------VLP-DYLFQSTTLQKL--- 835
            L  W N++    + ++ +   SSL +      R       V P      +  L  +   
Sbjct: 340 GLATWDNWKHVNCDKLTTI-IESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFD 398

Query: 836 SISYCP--IMEELR---ILEDHRTTDIPRLSSLEIEYCPKLN 872
            I      ++ +L    ++E         + S+ +E   KL 
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLE 440

>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 = 56.8 bits (136), Expect = 3e-08
 Identities = 95/647 (14%), Positives = 189/647 (29%), Gaps = 202/647 (31%)

Query: 302 KSILKEWQKTLDSEMWKVEEI-GQG--------LFAPLLLSYNDLPSNSMVKRCFSYCAI 352
           K +    +  L  E  +++ I            LF   LLS        MV++      +
Sbjct: 36  KDVQDMPKSILSKE--EIDHIIMSKDAVSGTLRLFW-TLLSKQ----EEMVQKFVE--EV 86

Query: 353 FPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEYFNISKFKKDDDDDDIMSCKMHDI 412
               Y          +++       E  +  M    Y  I +  +  +D+ + + K +  
Sbjct: 87  LRINYK---------FLMSPI--KTEQRQPSMMTRMY--IEQRDRLYNDNQVFA-KYN-- 130

Query: 413 VHDFAQFVSRKECL-------WVEINGT----KES-VINSFGDKVRHLGLNFE------G 454
           V     ++  ++ L        V I+G     K    ++          ++F+       
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK 190

Query: 455 GASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFD-PY 513
             + P ++  L  L+ L   +Q   N +  S   S +  ++   +A +   R  +   PY
Sbjct: 191 NCNSPETV--LEMLQKL--LYQIDPNWTSRSDHSSNIKLRIHSIQAEL---RRLLKSKPY 243

Query: 514 PN-LIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIG 572
            N L+  +  NV+        NLS  C     K L        L  R+ +    L A   
Sbjct: 244 ENCLL--VLLNVQNAKAWNAFNLS--C-----KIL--------LTTRFKQVTDFLSAATT 286

Query: 573 KLKKMRSLLNGGTP------LLKYMPIGISKL------TSLRTLEKFAMGGGVDDISTCR 620
               +       TP      LLKY+      L      T+ R L   A            
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIA------------ 334

Query: 621 LESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLL 680
            ES+++              ++  D  + +    +  ++  SL   E  E      +++ 
Sbjct: 335 -ESIRD-------------GLATWDNWKHVNCDKLTTIIESSLNVLEPAEY-----RKMF 375

Query: 681 EALQPPLNVKELGIVSYGGNIFPK------------WLTSLTN-----LRDLRLKSCVIC 723
           + L                 +FP             W   + +     +  L   S V  
Sbjct: 376 DRLS----------------VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK 419

Query: 724 EHFPPLGKLPLEKLTLYGLYGV------------KRVGNEFLGIEGSSEDDPSSSSSSS- 770
           +            +++  +Y              + + + +   +    DD         
Sbjct: 420 QPKE-------STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY 472

Query: 771 --SVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQ 828
             S I        H+  +E  E            ++   +      +    R L   +  
Sbjct: 473 FYSHIGH------HLKNIEHPERM----------TLFRMV------FL-DFRFLEQKIRH 509

Query: 829 STTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLP 875
            +T    S S    +++L+  + +   + P+   L       L+ LP
Sbjct: 510 DSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAI---LDFLP 553

>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 = 83.8 bits (208), Expect = 1e-17
 Identities = 66/410 (16%), Positives = 120/410 (29%), Gaps = 119/410 (29%)

Query: 457 SFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRAL--VIGQRNF----IF 510
            +   +    R           +    NS+            +A   ++           
Sbjct: 27  PYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRVAL 86

Query: 511 DPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAG 570
           +     + + P+   +L HL+++ +    +  LP T+ +   L+ L +     LR LPA 
Sbjct: 87  ELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARN-PLRALPAS 145

Query: 571 IGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLL 630
           I  L ++R L     P L  +P  ++   +    +               L +L++L+L 
Sbjct: 146 IASLNRLRELSIRACPELTELPEPLASTDASGEHQG--------------LVNLQSLRL- 190

Query: 631 RECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVK 690
              GI  L             + N++NL  L +          R +   L AL       
Sbjct: 191 EWTGIRSLPA----------SIANLQNLKSLKI----------RNSP--LSAL------- 221

Query: 691 ELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPP-LGKLP-LEKLTLYGLYGVKRV 748
                          +  L  L +L L+ C    ++PP  G    L++L L         
Sbjct: 222 ------------GPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKD------- 262

Query: 749 GNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRL 808
            +  L +       P                   I  + +LE+                 
Sbjct: 263 CSNLLTL-------PLD-----------------IHRLTQLEK----------------- 281

Query: 809 SSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIP 858
             L +  C  L  LP  + Q      + +           L+ HR    P
Sbjct: 282 --LDLRGCVNLSRLPSLIAQLPANCIILVPPH----LQAQLDQHRPVARP 325

>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 = 59.6 bits (145), Expect = 2e-09
 Identities = 57/378 (15%), Positives = 97/378 (25%), Gaps = 121/378 (32%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
             +R   + + +       + +               N Q ++ R    L+     +   
Sbjct: 23  TALRPYHDVLSQWQRHYNADRN---RWHSAWRQANSNNPQ-IETRTGRALKATADLLEDA 78

Query: 575 K--KMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLES-------LK 625
                 +L     PL    P    +L+ L+ +           I    L           
Sbjct: 79  TQPGRVALELRSVPL-PQFPDQAFRLSHLQHM----------TIDAAGLMELPDTMQQFA 127

Query: 626 NLQLL--RECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEAL 683
            L+ L      +  L             + ++  L  LS+         R   +  L  L
Sbjct: 128 GLETLTLARNPLRALPA----------SIASLNRLRELSI---------RACPE--LTEL 166

Query: 684 QPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPP-LGKLP-LEKLTLYG 741
            P                       L NL+ LRL+   I    P  +  L  L+ L +  
Sbjct: 167 -PE---------PLASTDASGEHQGLVNLQSLRLEWTGI-RSLPASIANLQNLKSLKIRN 215

Query: 742 LYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKEN 801
                   +    +         +                 I  + +LEE          
Sbjct: 216 --------SPLSAL-------GPA-----------------IHHLPKLEE---------- 233

Query: 802 ISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLS 861
                    L +  C  LR  P        L++L +  C  +  L         DI RL+
Sbjct: 234 ---------LDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTL-------PLDIHRLT 277

Query: 862 SLE---IEYCPKLNVLPD 876
            LE   +  C  L+ LP 
Sbjct: 278 QLEKLDLRGCVNLSRLPS 295

>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 = 48.8 bits (117), Expect = 5e-06
 Identities = 44/354 (12%), Positives = 83/354 (23%), Gaps = 124/354 (35%)

Query: 552 NLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMP------IGISKLTSLRTLE 605
             + L  +    LR     + + ++  +                   I      +L+   
Sbjct: 13  GRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATA 72

Query: 606 KFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEF 665
                   D +          L  LR   +    +              + +L  +++  
Sbjct: 73  --------DLLEDATQPGRVAL-ELRSVPLPQFPD----------QAFRLSHLQHMTI-- 111

Query: 666 DEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEH 725
                         L  L                   P  +     L  L L    +   
Sbjct: 112 --------DAAG--LMEL-------------------PDTMQQFAGLETLTLARNPL-RA 141

Query: 726 FPP-LGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSL-- 781
            P  +  L  L +L++                                    P+L  L  
Sbjct: 142 LPASIASLNRLRELSIRA---------------------------------CPELTELPE 168

Query: 782 HIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCP 841
            + + +   E             +  L SL + +   +R LP  +     L+ L I   P
Sbjct: 169 PLASTDASGE----------HQGLVNLQSLRLEWT-GIRSLPASIANLQNLKSLKIRNSP 217

Query: 842 I------------MEELRILEDHRTTDIP-------RLSSLEIEYCPKLNVLPD 876
           +            +EEL +       + P        L  L ++ C  L  LP 
Sbjct: 218 LSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPL 271

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 76.8 bits (189), Expect = 2e-14
 Identities = 79/357 (22%), Positives = 127/357 (35%), Gaps = 83/357 (23%)

Query: 119 SLIDEGEV-------CGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQ-L 170
           +++ EG V         R    + +  KL   + E       +++ G+ G GK+ LA   
Sbjct: 112 TVLCEGGVPQRPVIFVTRKKLVHAIQQKLWKLNGEPG----WVTIYGMAGCGKSVLAAEA 167

Query: 171 AYNNDEVKRNFE-KVIWVCV--------------------SDTFEEIRVANAIIEG---- 205
             ++  ++  F   V WV +                     +     R+   I E     
Sbjct: 168 VRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRL 227

Query: 206 --------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVA-RMMGSTN 250
                         LDDVWD            LK   +  +ILLTTR++SV   +MG  +
Sbjct: 228 RVLMLRKHPRSLLILDDVWDPWV---------LKAFDNQCQILLTTRDKSVTDSVMGPKH 278

Query: 251 IIFIE-QLTEEES---FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLL-----RS 301
           ++ +E  L  E+     S       E L      I ++CKG PL     G LL     R 
Sbjct: 279 VVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRW 338

Query: 302 KSILKEWQKTLDSEMWKV-EEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIK 360
              L++ Q      + K      + L   + +S   L  +   K  ++  +I  K+  + 
Sbjct: 339 AYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDI--KDYYTDLSILQKDVKVP 396

Query: 361 KKELISLWMVQGYLNVEEDEEIEMTGEEYFNIS-KFKKDDDDDDIMSCKMHDIVHDF 416
            K L  LW +       E EE+E   +E+ N S  F   +          HD+  DF
Sbjct: 397 TKVLCVLWDL-------ETEEVEDILQEFVNKSLLFCNRNGKSFCYYL--HDLQVDF 444

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 74.9 bits (184), Expect = 8e-14
 Identities = 69/507 (13%), Positives = 128/507 (25%), Gaps = 135/507 (26%)

Query: 439 NSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTL-LIYFQSPSNPSLNSSILSELFSKLAC 497
                 +     +        M +    RL    L+      NP +   I  +    L  
Sbjct: 369 EELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEM-KPIKKDSRISL-- 425

Query: 498 FRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSE-------------------- 537
                   ++       N I  I + +++L  L+ +  +                     
Sbjct: 426 --------KDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYA 477

Query: 538 LCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSL---------LNGGTPLL 588
              E    +   L +L  +++  C ++ +LP  +  L +++SL                 
Sbjct: 478 KQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADW 537

Query: 589 KYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLES---------LKNLQLL--RECGIEG 637
             +         ++             +    LE          +  L LL      +  
Sbjct: 538 TRLADDEDTGPKIQIF----------YMGYNNLEEFPASASLQKMVKLGLLDCVHNKVRH 587

Query: 638 LSNVSHLDEDERLGLHN-------------MKNLLRLSLEFDEEGEEGRRKNQQLLEALQ 684
           L       +   L L                  +  L              N+  L+ + 
Sbjct: 588 LEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGF----------SHNK--LKYIP 635

Query: 685 PPLNVKEL-----------GIVSYGGNIF-PKWLTSLTNLRDLRLKSCVICEHFPP--LG 730
              N K +            I S G NI          N   + L    I + FP     
Sbjct: 636 NIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEI-QKFPTELFA 694

Query: 731 KLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEEL 789
               +  + L          N    I      + S      +      L ++ +      
Sbjct: 695 TGSPISTIILS--------NNLMTSIP-----ENSLKPKDGNYKNTYLLTTIDLR----- 736

Query: 790 EEWNY--RITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELR 847
             +N    ++     + +P LS++ + Y       P     S+ L+   I +    E  R
Sbjct: 737 --FNKLTSLSDDFRATTLPYLSNMDVSYN-CFSSFPTQPLNSSQLKAFGIRHQRDAEGNR 793

Query: 848 ILEDHRTTDIPRLSSLEIEYCPKLNVL 874
           IL        P      I  CP L  L
Sbjct: 794 IL-----RQWPT----GITTCPSLIQL 811

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 63.4 bits (154), Expect = 3e-10
 Identities = 63/519 (12%), Positives = 137/519 (26%), Gaps = 116/519 (22%)

Query: 421 SRKECLWVEINGTKESVINSFGDKVRHLGL---NFEGGASFPMSIHGLNRLRTLLIYF-- 475
           +++  +W +  G     +++ G +V  L L     +G    P +I  L  L+ L      
Sbjct: 305 NKELDMWGDQPGVD---LDNNG-RVTGLSLAGFGAKG--RVPDAIGQLTELKVLSFGTHS 358

Query: 476 --QSPSNPSLNSSILSELFSKLACFR------ALVIGQRNFIFDPYPNLIREIPE--NVR 525
              S                +    R       L   QR  + D   + I   PE   ++
Sbjct: 359 ETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIK 418

Query: 526 KLIHLK----YLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLL 581
           K   +      +      I  + K +  L  LQ +              +          
Sbjct: 419 KDSRISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSP-FTYDNIAVDWEDANSDYA 477

Query: 582 NGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLES--------LKNLQLL--R 631
                  +   +  S L  L  +          ++  C   +        L  LQ L   
Sbjct: 478 K----QYENEELSWSNLKDLTDV----------ELYNCPNMTQLPDFLYDLPELQSLNIA 523

Query: 632 ECGIEGLSNVSHLDEDERLGLHNMKNLLRLSL------EFDEEGEEGRRKN-QQL----- 679
                  + +                +    +      EF       +      L     
Sbjct: 524 CNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHN 583

Query: 680 ----LEALQPPLNVKELGIVSYGGN----IFPKWLTSLTNLRDLRLKSCVICEHFPP--- 728
               LEA    + + +L +     N    I   +      +  L      + ++ P    
Sbjct: 584 KVRHLEAFGTNVKLTDLKL---DYNQIEEIPEDFCAFTDQVEGLGFSHNKL-KYIPNIFN 639

Query: 729 LGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAME 787
              +  +  +            N+             + S S          ++ +    
Sbjct: 640 AKSVYVMGSVDFS--------YNKIGSE-------GRNISCSMDDYKGINASTVTL---- 680

Query: 788 ELEEWNYRITR--KENISIMPRLSSLTIWYCPRLRVLPDYLFQS--------TTLQKLSI 837
               +N  I +   E  +    +S++ +     +  +P+   +           L  + +
Sbjct: 681 ---SYN-EIQKFPTELFATGSPISTIILSNN-LMTSIPENSLKPKDGNYKNTYLLTTIDL 735

Query: 838 SYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLPD 876
            +  +     + +D R T +P LS++++ Y    +  P 
Sbjct: 736 RFNKLTS---LSDDFRATTLPYLSNMDVSYN-CFSSFPT 770

>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 = 2e-06
 Identities = 19/101 (18%), Positives = 34/101 (33%), Gaps = 17/101 (16%)

Query: 515 NLIREIPENVR--KLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDL------RE 566
           N +  + ++ R   L +L  +++S  C    P        L+   IR   D       R+
Sbjct: 738 NKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQ 797

Query: 567 LPAGIGKLKKMRSLL---NGGTPLLKYMPIGISKLTSLRTL 604
            P GI     +  L    N     ++ +   +     L  L
Sbjct: 798 WPTGITTCPSLIQLQIGSN----DIRKVDEKL--TPQLYIL 832

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 45.3 bits (107), Expect = 9e-05
 Identities = 30/225 (13%), Positives = 68/225 (30%), Gaps = 62/225 (27%)

Query: 515 NLIREIPE--NVRKLIHLKYLNLSELCIERLPKTL------CELYNLQKLDIRWCEDLRE 566
           N ++ IP   N + +  +  ++ S   I    + +       +  N   + + + E +++
Sbjct: 629 NKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNE-IQK 687

Query: 567 LPAGI-GKLKKMRSL-LNG------GTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDIST 618
            P  +      + ++ L+           LK           L T+          D+  
Sbjct: 688 FPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTI----------DLRF 737

Query: 619 CRLESLKNLQLLRECGIEGLSNVSHLD-EDERL-----GLHNMKNLLRLSLEFDEEGEEG 672
            +L SL +     +     L  +S++D              N   L    +    + E  
Sbjct: 738 NKLTSLSD-----DFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEG- 791

Query: 673 RRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRL 717
              N+ L                      +P  +T+  +L  L++
Sbjct: 792 ---NRIL--------------------RQWPTGITTCPSLIQLQI 813

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 68.9 bits (169), Expect = 4e-12
 Identities = 70/560 (12%), Positives = 144/560 (25%), Gaps = 157/560 (28%)

Query: 421 SRKECLWVEINGTKESVINSFGDKVRHL---GLNFEGGASFPMSIHGLNRLRTL------ 471
           +++  +W    G     +NS G +V  L   G    G    P +I  L  L  L      
Sbjct: 63  NKELDMWGAQPGVS---LNSNG-RVTGLSLEGFGASG--RVPDAIGQLTELEVLALGSHG 116

Query: 472 LIYFQSPSNPS----------LNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP 521
               +    P                +    + +                      + I 
Sbjct: 117 EKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIK 176

Query: 522 ENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIR-------------------WCE 562
           ++ R  +    +      I  + K +  L  L++  +                    + +
Sbjct: 177 KSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQ 236

Query: 563 DLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLE 622
             +        LK +  +     P L  +P  +  L  ++ +          +++  R  
Sbjct: 237 QYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLI----------NVACNRGI 286

Query: 623 S----------------LKNLQLLR-----------ECGIEGLSNVSHLD------EDER 649
           S                 + +Q++            E  ++ +  +  L+      E + 
Sbjct: 287 SGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKL 346

Query: 650 LGLHNMKNLLRLSLE---FDEEGEEGRRKNQQL---------LEALQPPLNVKEL----- 692
               +   L  L+L      E         +Q+         L+ +    + K +     
Sbjct: 347 PAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSA 406

Query: 693 ---------GIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPP--LGKLP-LEKLTLY 740
                     +     +          N+  + L +  I   FP         L  + L 
Sbjct: 407 IDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQI-SKFPKELFSTGSPLSSINLM 465

Query: 741 GLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHI------GAMEELEEWNY 794
                   GN    I  +S  D + +  ++       L S+ +         ++      
Sbjct: 466 --------GNMLTEIPKNSLKDENENFKNT-----YLLTSIDLRFNKLTKLSDDFRATT- 511

Query: 795 RITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRT 854
                     +P L  + + Y       P     S+TL+   I      +  R L     
Sbjct: 512 ----------LPYLVGIDLSYN-SFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTL----- 555

Query: 855 TDIPRLSSLEIEYCPKLNVL 874
            + P      I  CP L  L
Sbjct: 556 REWPE----GITLCPSLTQL 571

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 45.0 bits (107), Expect = 9e-05
 Identities = 30/293 (10%), Positives = 73/293 (24%), Gaps = 95/293 (32%)

Query: 457 SFPMSIHGLNRLRTLLIYFQSPSNPSLN--SSILSELFSKLACFRALVIGQRNFIFDPYP 514
               +     +L +L + +        N  + I +           L             
Sbjct: 344 GKLPAFGSEIKLASLNLAY--------NQITEIPANFCGFTEQVENLSFAH--------- 386

Query: 515 NLIREIPEN--VRKLIHLKYLNLS--------ELCIERLPKTLCELYNLQKLDIRWCEDL 564
           N ++ IP     + +  +  ++ S            + L  T  +  N+  +++   + +
Sbjct: 387 NKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQ-I 445

Query: 565 RELPAGI-GKLKKMRSL------LNG-GTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDI 616
            + P  +      + S+      L       LK           L ++          D+
Sbjct: 446 SKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSI----------DL 495

Query: 617 STCRLES---------LKNLQLLR--ECGIEGL-SNVSHLDEDERLGLHNMKNLLRLSLE 664
              +L           L  L  +           +   +    +  G+ N ++       
Sbjct: 496 RFNKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQG---- 551

Query: 665 FDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRL 717
                      N+ L                       P+ +T   +L  L++
Sbjct: 552 -----------NRTL-------------------REW-PEGITLCPSLTQLQI 573

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 45.0 bits (107), Expect = 1e-04
 Identities = 21/159 (13%), Positives = 36/159 (22%), Gaps = 53/159 (33%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPK--------TLCELYNLQKLD--------- 557
            + +   E       L  +NL    +  +PK             Y L  +D         
Sbjct: 444 QISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLTKL 503

Query: 558 ---IRWCE------------DLRELPAGIGKLKKMRSLLNGGTP------LLKYMPIGIS 596
               R                  + P        ++               L+  P GI+
Sbjct: 504 SDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGIT 563

Query: 597 KLTSLRTLEKFAMGGGVDDISTCRLES-----LKNLQLL 630
              SL  L           I +  +         N+ +L
Sbjct: 564 LCPSLTQL----------QIGSNDIRKVNEKITPNISVL 592

>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 = 64.5 bits (158), Expect = 5e-11
 Identities = 62/370 (16%), Positives = 122/370 (32%), Gaps = 112/370 (30%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
             +  I   +  L +L+YLNL+   I  +   L  L  L  L I   + + ++ A +  L
Sbjct: 54  EKVASIQG-IEYLTNLEYLNLNGNQITDIS-PLSNLVKLTNLYIGTNK-ITDISA-LQNL 109

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCR-------LESLKNL 627
             +R L      +       ++ LT + +L          ++           L ++  L
Sbjct: 110 TNLRELYLNEDNISD--ISPLANLTKMYSL----------NLGANHNLSDLSPLSNMTGL 157

Query: 628 QLLR--ECGIEGLSNVSHLDEDERLGLH-----------NMKNLLRLSLEFDEEGEEGRR 674
             L   E  ++ ++ +++L +   L L+           ++ +L   +            
Sbjct: 158 NYLTVTESKVKDVTPIANLTDLYSLSLNYNQIEDISPLASLTSLHYFTA----------Y 207

Query: 675 KNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP- 733
            NQ  +  + P                    + ++T L  L++ +  I     PL  L  
Sbjct: 208 VNQ--ITDITP--------------------VANMTRLNSLKIGNNKI-TDLSPLANLSQ 244

Query: 734 LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWN 793
           L  L +          N+   I    +                KLK L++G        +
Sbjct: 245 LTWLEIG--------TNQISDINAVKD--------------LTKLKMLNVG--------S 274

Query: 794 YRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHR 853
            +I+    ++ + +L+SL +          + +   T L  L +S   I           
Sbjct: 275 NQISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHI----------- 323

Query: 854 TTDIPRLSSL 863
            TDI  L+SL
Sbjct: 324 -TDIRPLASL 332

>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 = 57.9 bits (141), Expect = 5e-09
 Identities = 41/251 (16%), Positives = 79/251 (31%), Gaps = 52/251 (20%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
           + I +I   +  L  +  LNL           L  +  L  L +   + ++++   I  L
Sbjct: 120 DNISDIS-PLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESK-VKDVTP-IANL 176

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCR------LESLKNLQ 628
             + SL      +       ++ LTSL                  +      + ++  L 
Sbjct: 177 TDLYSLSLNYNQIED--ISPLASLTSLHYF----------TAYVNQITDITPVANMTRLN 224

Query: 629 LLR--ECGIEGLSNVSHLDEDERL-----------GLHNMKNLLRLSLEFDEEGEEGRRK 675
            L+     I  LS +++L +   L            + ++  L  L++            
Sbjct: 225 SLKIGNNKITDLSPLANLSQLTWLEIGTNQISDINAVKDLTKLKMLNVG----------S 274

Query: 676 NQQLLEALQPPLNVKELGIVSYGGN----IFPKWLTSLTNLRDLRLKSCVICEHFPPLGK 731
           NQ  +  +    N+ +L  +    N       + +  LTNL  L L    I     PL  
Sbjct: 275 NQ--ISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHI-TDIRPLAS 331

Query: 732 LP-LEKLTLYG 741
           L  ++      
Sbjct: 332 LSKMDSADFAN 342

>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 = 62.7 bits (153), Expect = 3e-10
 Identities = 63/379 (16%), Positives = 129/379 (34%), Gaps = 95/379 (25%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
             I+ I + V  L +L  +N S   +  +   L  L  L  + +   + + ++   +  L
Sbjct: 56  LGIKSI-DGVEYLNNLTQINFSNNQLTDIT-PLKNLTKLVDILMNNNQ-IADITP-LANL 111

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECG 634
             +  L      +       +  LT+L  L          ++S+  +  +  L       
Sbjct: 112 TNLTGLTLFNNQITD--IDPLKNLTNLNRL----------ELSSNTISDISAL------- 152

Query: 635 IEGLSNVSHLDEDERL----GLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVK 690
             GL+++  L    ++     L N+  L RL +            N+  +  +     + 
Sbjct: 153 -SGLTSLQQLSFGNQVTDLKPLANLTTLERLDI----------SSNK--VSDISVLAKLT 199

Query: 691 ELGIVSYGGN----IFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGV 745
            L  +    N    I P  L  LTNL +L L    + +    L  L  L  L L      
Sbjct: 200 NLESLIATNNQISDITP--LGILTNLDELSLNGNQL-KDIGTLASLTNLTDLDLA----- 251

Query: 746 KRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIM 805
               N+                  S++     L  L      EL+    +I+    ++ +
Sbjct: 252 ---NNQI-----------------SNLAPLSGLTKL-----TELKLGANQISNISPLAGL 286

Query: 806 PRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPI--------MEELRIL--EDHRTT 855
             L++L +    +L  +   +     L  L++ +  I        + +L+ L   +++ +
Sbjct: 287 TALTNLELNEN-QLEDISP-ISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKVS 344

Query: 856 DIPRLSSLEIEYCPKLNVL 874
           D+  L++L       +N L
Sbjct: 345 DVSSLANL-----TNINWL 358

>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 = 60.0 bits (146), Expect = 2e-09
 Identities = 44/248 (17%), Positives = 77/248 (31%), Gaps = 62/248 (25%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELY----------------NLQKLDI 558
           N + E+PE  + L  L   N +   +  LP  L  L                  L+ +D+
Sbjct: 101 NSLTELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDV 160

Query: 559 RWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDIST 618
                L++LP     L+ + +  N     L+ +P  +  L  L  +              
Sbjct: 161 DNNS-LKKLPDLPPSLEFIAAGNN----QLEELP-ELQNLPFLTAI----------YADN 204

Query: 619 CRLESL----KNLQLLRECGIEGLSN--VSHLDEDERLGLHNMKNLLRLSLEFDEEGEEG 672
             L+ L     +L+ +         N  +  L E     L N+  L  +  +        
Sbjct: 205 NSLKKLPDLPLSLESIV------AGNNILEELPE-----LQNLPFLTTIYAD-------- 245

Query: 673 RRKNQQLLEALQPPL-NVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGK 731
              N   L+ L     +++ L +        P+   SLT L         + E  P L  
Sbjct: 246 --NNL--LKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYY 301

Query: 732 LPLEKLTL 739
           L      +
Sbjct: 302 LNASSNEI 309

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 46.9 bits (112), Expect = 2e-05
 Identities = 56/371 (15%), Positives = 105/371 (28%), Gaps = 96/371 (25%)

Query: 521 PENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSL 580
           P NV     L+        +  +P     + +  +    W E  R  P G G+ ++    
Sbjct: 5   PRNV-SNTFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQRE---- 59

Query: 581 LNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESL----KNLQLLR----- 631
                  +    +          L          +++   L SL     +L+ L      
Sbjct: 60  -------MAVSRLRDCLDRQAHEL----------ELNNLGLSSLPELPPHLESLVASCNS 102

Query: 632 ----ECGIEGLSNVSHLD-EDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPP 686
                   + L ++   +   + L       L  L +            NQ  LE L   
Sbjct: 103 LTELPELPQSLKSLLVDNNNLKALS-DLPPLLEYLGV----------SNNQ--LEKLPEL 149

Query: 687 LNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGV 745
            N   L I+    N   K      +L  +   +  + E  P L  LP L  +        
Sbjct: 150 QNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQL-EELPELQNLPFLTAIYAD----- 203

Query: 746 KRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIM 805
               N    +                      L+S+  G        N  +     +  +
Sbjct: 204 ---NNSLKKLPDL----------------PLSLESIVAG--------NNILEELPELQNL 236

Query: 806 PRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEI 865
           P L+++       L+ LPD      +L+ L++    +  +L  L          L+ L++
Sbjct: 237 PFLTTIYADNN-LLKTLPDLP---PSLEALNVRDNYL-TDLPEL-------PQSLTFLDV 284

Query: 866 EYCPKLNVLPD 876
                 + L +
Sbjct: 285 SEN-IFSGLSE 294

>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 = 45.8 bits (109), Expect = 4e-05
 Identities = 45/238 (18%), Positives = 75/238 (31%), Gaps = 47/238 (19%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
           NL++ +P+       L+ LN+ +  +  LP+    L  L   +         L      L
Sbjct: 247 NLLKTLPD---LPPSLEALNVRDNYLTDLPELPQSLTFLDVSENI----FSGLSELPPNL 299

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESL----KNLQLL 630
             + +  N    L            SL  L          ++S  +L  L      L+ L
Sbjct: 300 YYLNASSNEIRSL-------CDLPPSLEEL----------NVSNNKLIELPALPPRLERL 342

Query: 631 R--ECGIEGL-SNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPL 687
                 +  +     +L   ++L +    N LR       E  E  R N  L E  + P 
Sbjct: 343 IASFNHLAEVPELPQNL---KQLHVEY--NPLR-EFPDIPESVEDLRMNSHLAEVPELPQ 396

Query: 688 NVKELGIVSYGGN---IFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGL 742
           N+K+L +     N    FP    S+ +LR    +                +KL     
Sbjct: 397 NLKQLHV---ETNPLREFPDIPESVEDLRMNSERVV----DPYEFAHETTDKLEDDVF 447

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 55.8 bits (135), Expect = 5e-08
 Identities = 47/243 (19%), Positives = 80/243 (32%), Gaps = 37/243 (15%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAG-IG 572
           +    I  N       L+ L+L+   +  LP  L  L  L+KL +   +    L      
Sbjct: 264 HYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANK-FENLCQISAS 322

Query: 573 KLKKMRSL-LNGGTPLLKYMPIGISKLTSLRTLEKFAMGG---GVDDISTCRLESLKNLQ 628
               +  L + G T  L+     +  L +LR L+   +        D    +L +L +LQ
Sbjct: 323 NFPSLTHLSIKGNTKRLELGTGCLENLENLRELD---LSHDDIETSDCCNLQLRNLSHLQ 379

Query: 629 LLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQ-QLLEALQPPL 687
            L       LS  +     +         L  L L F           + ++ +A  P  
Sbjct: 380 SLN------LSY-NEPLSLKTEAFKECPQLELLDLAF----------TRLKVKDAQSPFQ 422

Query: 688 NVKELGIVSYGGN----IFPKWLTSLTNLRDLRLKSC----VICEHFPPLGKLP-LEKLT 738
           N+  L +++   +       +    L  L+ L L+         +    L  L  LE L 
Sbjct: 423 NLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILV 482

Query: 739 LYG 741
           L  
Sbjct: 483 LSF 485

>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 = 47.7 bits (114), Expect = 1e-05
 Identities = 62/400 (15%), Positives = 111/400 (27%), Gaps = 116/400 (29%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPAG-IG 572
             + EIP  +      + L  S   +  +  T    L NL  LD+  C+ +  +      
Sbjct: 22  LGLNEIPGTL--PNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQ-IYWIHEDTFQ 78

Query: 573 KLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRE 632
              ++ +L+    PL+      +S   +L+ L                + S+  +     
Sbjct: 79  SQHRLDTLVLTANPLIFMAETALSGPKALKHL----------FFIQTGISSIDFIP---- 124

Query: 633 CGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKEL 692
                              LHN K L  L L            N   + +++ P      
Sbjct: 125 -------------------LHNQKTLESLYLGS----------NH--ISSIKLPK----- 148

Query: 693 GIVSYGGNIFPKWLTSLTNLRDLRLKSCVI----CEHFPPLGKLPLEKLTLYGLYGVKRV 748
                              L+ L  ++  I     E    L +     L L         
Sbjct: 149 -------------GFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLN-------- 187

Query: 749 GNEFLGIEGSSEDDPSS-----SSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENIS 803
           GN+  GIE  + D           + + ++ F  LK+  I ++      +          
Sbjct: 188 GNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAV 247

Query: 804 IMP--------------RLSSL---TIWYCPRLRVL----------PDYLFQSTTLQKLS 836
                               ++   T      L+ L          P  L   +TL+KL 
Sbjct: 248 FEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLV 307

Query: 837 ISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLPD 876
           +S      +   L     ++ P L+ L I+   K   L  
Sbjct: 308 LSAN----KFENLCQISASNFPSLTHLSIKGNTKRLELGT 343

>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 = 46.2 bits (110), Expect = 4e-05
 Identities = 69/438 (15%), Positives = 124/438 (28%), Gaps = 112/438 (25%)

Query: 459 PMSIHGLNRLRTLLIYFQSPSNPSLN--SSILSELFSKLACFRALVIGQRNFIFDPYPNL 516
                   +L+ L            N    +  E  S L     L +           N 
Sbjct: 146 LPKGFPTEKLKVLDF--------QNNAIHYLSKEDMSSLQQATNLSLNLNG-------ND 190

Query: 517 IREIPENVRKLIHLKYLNLSELCIERLPK---TLCELYNLQKLDIRWCEDLRELPAGIGK 573
           I  I          + LN        +         + +L        +D    PA    
Sbjct: 191 IAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEG 250

Query: 574 LKKM--RSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLR 631
           L +M   S+                  + L+ L          D++   L  L +     
Sbjct: 251 LCEMSVESINLQKHYFFNISSNTFHCFSGLQEL----------DLTATHLSELPS----- 295

Query: 632 ECGIEGLSNVSHLD-------EDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQ 684
             G+ GLS +  L           ++   N  +L  LS+          + N + LE   
Sbjct: 296 --GLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSI----------KGNTKRLE--- 340

Query: 685 PPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGLYG 744
                           +    L +L NLR+L L           +       L L  L  
Sbjct: 341 ----------------LGTGCLENLENLRELDLSHD-------DIETSDCCNLQLRNLSH 377

Query: 745 VKRV---GNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKEN 801
           ++ +    NE L +             + +    P+L+ L +        +  R+  K+ 
Sbjct: 378 LQSLNLSYNEPLSL------------KTEAFKECPQLELLDLA-------FT-RLKVKDA 417

Query: 802 ISI---MPRLSSLTIWYCPRLRVLPDYLFQSTT-LQKLSISYCPIMEELRILEDHRTTDI 857
            S    +  L  L + +   L +  + LF     LQ L++       +  I + +    +
Sbjct: 418 QSPFQNLHLLKVLNLSHS-LLDISSEQLFDGLPALQHLNLQGNHF-PKGNIQKTNSLQTL 475

Query: 858 PRLSSLEIEYCPKLNVLP 875
            RL  L + +C  L+ + 
Sbjct: 476 GRLEILVLSFC-DLSSID 492

>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 = 55.1 bits (133), Expect = 7e-08
 Identities = 76/441 (17%), Positives = 135/441 (30%), Gaps = 86/441 (19%)

Query: 459 PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR 518
                 L+ L+ L +      N    +  ++ LF  L   + L IG              
Sbjct: 91  SSWFGPLSSLKYLNLMG----N-PYQTLGVTSLFPNLTNLQTLRIGNVE--------TFS 137

Query: 519 EIPENV-RKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGK-LK 575
           EI       L  L  L +  L +      +L  + ++  L +   E    L       L 
Sbjct: 138 EIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSE-SAFLLEIFADILS 196

Query: 576 KMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAM-GGGVDDISTCRLESLKNLQL----- 629
            +R L    T L ++    +        ++K A  G  + D S   L  L    L     
Sbjct: 197 SVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEV 256

Query: 630 -LRECGIEGLSNVSHLDED--ERLGLHNMKNLLRLSLE---FDEEGEEGRRKNQQLLEAL 683
              +C + GL + +  + D    LG      + RL +       +        +++    
Sbjct: 257 EFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKR-- 314

Query: 684 QPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVI----CEHFPPLGKLP-LEKLT 738
              + V+   +     +        L +L  L L   ++     ++    G  P L+ L 
Sbjct: 315 ---ITVENSKVFLVPCSFS----QHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLV 367

Query: 739 LYG--LYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRI 796
           L    L  +++ G   L                        L SL I         N   
Sbjct: 368 LSQNHLRSMQKTGEILLT--------------------LKNLTSLDIS-------RN-TF 399

Query: 797 TR-KENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTT 855
               ++     ++  L +     +RV+   + Q+  L+ L +S   +           + 
Sbjct: 400 HPMPDSCQWPEKMRFLNLSST-GIRVVKTCIPQT--LEVLDVSNNNLDS--------FSL 448

Query: 856 DIPRLSSLEIEYCPKLNVLPD 876
            +PRL  L I    KL  LPD
Sbjct: 449 FLPRLQELYISRN-KLKTLPD 468

>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 = 54.3 bits (131), Expect = 1e-07
 Identities = 54/367 (14%), Positives = 123/367 (33%), Gaps = 67/367 (18%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAG-- 570
           + I  I  +    L  L++L+LS+  +  L       L +L+ L++      + L     
Sbjct: 60  SRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGN-PYQTLGVTSL 118

Query: 571 IGKLKKMRSLLNGGTPLLKYMPIG-ISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQL 629
              L  +++L  G       +     + LTSL  L          +I    L + ++  L
Sbjct: 119 FPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNEL----------EIKALSLRNYQSQSL 168

Query: 630 LRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNV 689
                 + + ++ HL       LH  ++   L +  D             L +++  L +
Sbjct: 169 ------KSIRDIHHLT------LHLSESAFLLEIFADI------------LSSVR-YLEL 203

Query: 690 KELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGLYGVKRVG 749
           ++  +  +  +  P      + ++ L  +  V+ +      +L      +  L  V+   
Sbjct: 204 RDTNLARFQFSPLPV-DEVSSPMKKLAFRGSVLTDE--SFNELLKLLRYILELSEVEFDD 260

Query: 750 NEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENI-SIMPRL 808
               G+   +  +    S     +    ++ LHI          Y       + S++ ++
Sbjct: 261 CTLNGLGDFNPSESDVVSELGK-VETVTIRRLHI-------PQFYLFYDLSTVYSLLEKV 312

Query: 809 SSLTIWYCPRLRVLPDYLFQS-TTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEY 867
             +T+    ++ ++P    Q   +L+ L +S   +             +    +S     
Sbjct: 313 KRITVENS-KVFLVPCSFSQHLKSLEFLDLSENLM------------VEEYLKNSACKGA 359

Query: 868 CPKLNVL 874
            P L  L
Sbjct: 360 WPSLQTL 366

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 47.4 bits (113), Expect = 2e-05
 Identities = 38/255 (14%), Positives = 79/255 (30%), Gaps = 71/255 (27%)

Query: 485 SSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENV-RKLIHLKYLNLSELCIERL 543
              LS ++S L   + + +           + +  +P +  + L  L++L+LSE  +   
Sbjct: 299 FYDLSTVYSLLEKVKRITVEN---------SKVFLVPCSFSQHLKSLEFLDLSENLMVEE 349

Query: 544 PKTLCE----LYNLQKLDIRWCEDLRELPAGIGKLKKMRSLL------NGGTPLLKYMPI 593
                       +LQ L +     LR +      L  +++L       N        MP 
Sbjct: 350 YLKNSACKGAWPSLQTLVLSQNH-LRSMQKTGEILLTLKNLTSLDISRN----TFHPMPD 404

Query: 594 GISKLTSLRTLEKFAMGGGVDDISTCRLESL-----KNLQLL--RECGIEGLSNVSHLDE 646
                  +R L          ++S+  +  +     + L++L      ++  S       
Sbjct: 405 SCQWPEKMRFL----------NLSSTGIRVVKTCIPQTLEVLDVSNNNLDSFSL------ 448

Query: 647 DERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGN----IF 702
                   +  L  L +            N+  L+ L        L ++    N    + 
Sbjct: 449 -------FLPRLQELYISR----------NK--LKTLPDASLFPVLLVMKISRNQLKSVP 489

Query: 703 PKWLTSLTNLRDLRL 717
                 LT+L+ + L
Sbjct: 490 DGIFDRLTSLQKIWL 504

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 54.7 bits (132), Expect = 7e-08
 Identities = 63/346 (18%), Positives = 116/346 (33%), Gaps = 84/346 (24%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGI- 571
           + +R++P  +      ++ LNL++L IE +        + +QKL + +   +R LP  + 
Sbjct: 55  STMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNA-IRYLPPHVF 113

Query: 572 GKLKKMRSL-LNGGTPLLKYMPIGI-SKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQL 629
             +  +  L L      L  +P GI      L TL           +S   LE +++   
Sbjct: 114 QNVPLLTVLVLERN--DLSSLPRGIFHNTPKLTTL----------SMSNNNLERIEDDTF 161

Query: 630 LRECGIEGLSNVSHLDED----ERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQP 685
                 +  +++ +L         + L  + +L   ++ +          N   L  L  
Sbjct: 162 ------QATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSY----------NL--LSTLAI 203

Query: 686 PLNVKEL-----GIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTL 739
           P+ V+EL      I    G +          L  L+L+   +      L   P L ++ L
Sbjct: 204 PIAVEELDASHNSINVVRGPVN-------VELTILKLQHNNL-TDTAWLLNYPGLVEVDL 255

Query: 740 YGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITR- 798
                     NE   I                   F K++ L     E L   N R+   
Sbjct: 256 SY--------NELEKIMYH---------------PFVKMQRL-----ERLYISNNRLVAL 287

Query: 799 KENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIME 844
                 +P L  L + +   L  +     Q   L+ L + +  I+ 
Sbjct: 288 NLYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLYLDHNSIVT 332

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 44.3 bits (105), Expect = 1e-04
 Identities = 10/66 (15%), Positives = 25/66 (37%), Gaps = 3/66 (4%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
           N +  +    + +  LK L+LS   +  + +   +   L+ L +     +  L       
Sbjct: 282 NRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHNS-IVTLKLST--H 338

Query: 575 KKMRSL 580
             +++L
Sbjct: 339 HTLKNL 344

>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 = 51.9 bits (125), Expect = 1e-07
 Identities = 20/142 (14%), Positives = 54/142 (38%), Gaps = 7/142 (4%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
             + ++   +    ++K L ++ +        +  L NL++L I   +   +    +  L
Sbjct: 54  INVTDL-TGIEYAHNIKDLTINNIHATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGL 111

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLL--RE 632
             +  L    +     +   I+ L  + +++  +  G + DI    L++L  L+ L  + 
Sbjct: 112 TSLTLLDISHSAHDDSILTKINTLPKVNSID-LSYNGAITDIMP--LKTLPELKSLNIQF 168

Query: 633 CGIEGLSNVSHLDEDERLGLHN 654
            G+     +    +  +L   +
Sbjct: 169 DGVHDYRGIEDFPKLNQLYAFS 190

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 28/203 (13%), Positives = 60/203 (29%), Gaps = 47/203 (23%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
           +    I E   ++  L Y+ L+ + +  L   +   +N++ L I            I  L
Sbjct: 33  SSTANITEA--QMNSLTYITLANINVTDL-TGIEYAHNIKDLTINNIH-ATNY-NPISGL 87

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECG 634
             +  L   G  +       +S LTSL  L+        DD    ++ +L  +  +    
Sbjct: 88  SNLERLRIMGKDVTSDKIPNLSGLTSLTLLD--ISHSAHDDSILTKINTLPKVNSIDLSY 145

Query: 635 IEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGI 694
              ++++          L  +  L  L+++F          +   +   +          
Sbjct: 146 NGAITDIM--------PLKTLPELKSLNIQF----------DG--VHDYRG--------- 176

Query: 695 VSYGGNIFPKWLTSLTNLRDLRL 717
                      +     L  L  
Sbjct: 177 -----------IEDFPKLNQLYA 188

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 41.1 bits (97), Expect = 6e-04
 Identities = 24/157 (15%), Positives = 47/157 (29%), Gaps = 32/157 (20%)

Query: 592 PIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLL--RECGIEGLSNVSHLDEDER 649
            I  +++ SL  +        V D++   +E   N++ L          + +S       
Sbjct: 37  NITEAQMNSLTYIT--LANINVTDLTG--IEYAHNIKDLTINNIHATNYNPIS------- 85

Query: 650 LGLHNMKNLLRLSLEFDEEGEEGRRKNQ---QLLEALQPPLNVKELGIVSYG-GNIFPKW 705
                + NL RL +                   +  L    ++  L I      +     
Sbjct: 86  ----GLSNLERLRI----------MGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTK 131

Query: 706 LTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYG 741
           + +L  +  + L          PL  LP L+ L +  
Sbjct: 132 INTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQF 168

>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 = 54.1 bits (130), Expect = 2e-07
 Identities = 49/248 (19%), Positives = 78/248 (31%), Gaps = 66/248 (26%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELY--------------NLQKLDIRW 560
           N +  +P     L+ L   +     +  LP  LC+L+               LQ+L +  
Sbjct: 91  NQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPGLQELSVSD 150

Query: 561 CEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCR 620
            + L  LPA   +L K+ +  N     L  +P+  S L  L              +S  +
Sbjct: 151 NQ-LASLPALPSELCKLWAYNN----QLTSLPMLPSGLQEL-------------SVSDNQ 192

Query: 621 LESL----KNLQLLRECGIEGLSN-VSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRK 675
           L SL      L  L        +N ++ L             L  L +            
Sbjct: 193 LASLPTLPSELYKLWA-----YNNRLTSLPA-------LPSGLKELIVSG---------- 230

Query: 676 NQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPP-LGKLP- 733
           N+  L +L  P+   EL  +   GN         + L  L +    +    P  L  L  
Sbjct: 231 NR--LTSL--PVLPSELKELMVSGNRLTSLPMLPSGLLSLSVYRNQL-TRLPESLIHLSS 285

Query: 734 LEKLTLYG 741
              + L G
Sbjct: 286 ETTVNLEG 293

>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 = 52.4 bits (126), Expect = 2e-07
 Identities = 48/248 (19%), Positives = 84/248 (33%), Gaps = 43/248 (17%)

Query: 512 PYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGI 571
             P  I  I      L +   +   +  +     T  +L  +  L       +  +  G+
Sbjct: 4   TQPTAINVI-FPDPALANAIKIAAGKSNVTDTV-TQADLDGITTLSAFGT-GVTTIE-GV 59

Query: 572 GKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLL- 630
             L  +  L      +    P  +  LT +  LE    G  + ++S   +  L++++ L 
Sbjct: 60  QYLNNLIGLELKDNQITDLAP--LKNLTKITELE--LSGNPLKNVSA--IAGLQSIKTLD 113

Query: 631 -RECGIEGLSNVSHLDEDERL-----------GLHNMKNLLRLSLEFDEEGEEGRRKNQQ 678
                I  ++ ++ L   + L            L  + NL  LS+             Q 
Sbjct: 114 LTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSI----------GNAQ- 162

Query: 679 LLEALQPPLNVKELGIVSYGGN----IFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP- 733
            +  L P  N+ +L  +    N    I P  L SL NL ++ LK+  I     PL     
Sbjct: 163 -VSDLTPLANLSKLTTLKADDNKISDISP--LASLPNLIEVHLKNNQI-SDVSPLANTSN 218

Query: 734 LEKLTLYG 741
           L  +TL  
Sbjct: 219 LFIVTLTN 226

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 49.3 bits (118), Expect = 3e-06
 Identities = 43/213 (20%), Positives = 77/213 (36%), Gaps = 39/213 (18%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
             +  I E V+ L +L  L L +  I  L   L  L  + +L++     L+ +   I  L
Sbjct: 51  TGVTTI-EGVQYLNNLIGLELKDNQITDLA-PLKNLTKITELELSGNP-LKNVS-AIAGL 106

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGG-GVDDISTCRLESLKNLQLL--R 631
           + +++L    T +       ++ L  L  L+   +    + +IS   L  L NLQ L   
Sbjct: 107 QSIKTLDLTSTQI-----TDVTPLAGLSNLQVLYLDLNQITNISP--LAGLTNLQYLSIG 159

Query: 632 ECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKE 691
              +  L+            L N+  L  L  +           N+  +  + P  ++  
Sbjct: 160 NAQVSDLT-----------PLANLSKLTTLKAD----------DNK--ISDISPLASLPN 196

Query: 692 LGIVSYGGNIFPKW--LTSLTNLRDLRLKSCVI 722
           L  V    N       L + +NL  + L +  I
Sbjct: 197 LIEVHLKNNQISDVSPLANTSNLFIVTLTNQTI 229

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 53.1 bits (128), Expect = 3e-07
 Identities = 71/433 (16%), Positives = 128/433 (29%), Gaps = 93/433 (21%)

Query: 459 PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR 518
              I  L  L+ L +      N  ++S  L   FS L     + +           N I+
Sbjct: 121 SFPIGQLITLKKLNVAH----N-FIHSCKLPAYFSNLTNLVHVDLSY---------NYIQ 166

Query: 519 EIPENV-----RKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGK 573
            I  N              L++S   I+ +     +   L +L +R   +   +      
Sbjct: 167 TITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIM----- 221

Query: 574 LKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLREC 633
                                +  L  L              +     +  +NL++    
Sbjct: 222 ------------------KTCLQNLAGLHVH----------RLILGEFKDERNLEIFEPS 253

Query: 634 GIEGLSNVSHLD---------EDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQ-QLLEAL 683
            +EGL +V+  +          D+ +  H + N+  +SL               + LE +
Sbjct: 254 IMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAG----------VSIKYLEDV 303

Query: 684 QPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYG- 741
                 + L I+      FP     L  L+ L L              LP L  L L   
Sbjct: 304 PKHFKWQSLSIIRCQLKQFPT--LDLPFLKSLTLTMNKG-SISFKKVALPSLSYLDLSRN 360

Query: 742 -LYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELE-EWNYRITRK 799
            L          LG       D S + +      F  L+ L     + L+ + +  + R 
Sbjct: 361 ALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEEL-----QHLDFQHS-TLKRV 414

Query: 800 ENISI---MPRLSSLTIWYCPRLRVLPDYLFQS-TTLQKLSISYCPIMEELRILEDHRTT 855
              S    + +L  L I Y    ++  D +F   T+L  L ++             +   
Sbjct: 415 TEFSAFLSLEKLLYLDISYT-NTKIDFDGIFLGLTSLNTLKMAGNSF---KDNTLSNVFA 470

Query: 856 DIPRLSSLEIEYC 868
           +   L+ L++  C
Sbjct: 471 NTTNLTFLDLSKC 483

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 51.6 bits (124), Expect = 1e-06
 Identities = 58/364 (15%), Positives = 119/364 (32%), Gaps = 65/364 (17%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAG-I 571
           N ++ +          L++L+LS   IE +  K    L++L  L +     ++    G  
Sbjct: 42  NPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNP-IQSFSPGSF 100

Query: 572 GKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLR 631
             L  + +L+   T L       I +L +L+ L          +++   + S K      
Sbjct: 101 SGLTSLENLVAVETKLASLESFPIGQLITLKKL----------NVAHNFIHSCKLPAYFS 150

Query: 632 ECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKE 691
                 L+N+ H+D      L    N ++          +  R+N Q+  +    L++  
Sbjct: 151 -----NLTNLVHVD------LSY--NYIQ---TITVNDLQFLRENPQVNLS----LDMSL 190

Query: 692 LGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGLYGVKRVGN- 750
             I       F         L +L L+      +        L  L ++ L   +     
Sbjct: 191 NPIDFIQDQAF-----QGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDER 245

Query: 751 --------EFLGIEGSSEDDPSSSSSSSSVI---AFPKLKSLHIGAMEELEEWNYRITRK 799
                      G+   + D+   + ++        F  L ++       +      I   
Sbjct: 246 NLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANV-----SAMSLAGVSIKYL 300

Query: 800 ENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPR 859
           E++    +  SL+I  C +L+  P        L+ L+++        +     +   +P 
Sbjct: 301 EDVPKHFKWQSLSIIRC-QLKQFPTLDLPF--LKSLTLTMN------KGSISFKKVALPS 351

Query: 860 LSSL 863
           LS L
Sbjct: 352 LSYL 355

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 45.4 bits (108), Expect = 7e-05
 Identities = 39/216 (18%), Positives = 61/216 (28%), Gaps = 36/216 (16%)

Query: 515 NLIREIPENV---RKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAG- 570
           N +               L++L+LS      +      L  LQ LD +    L+ +    
Sbjct: 360 NALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHST-LKRVTEFS 418

Query: 571 -IGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQL 629
               L+K+  L    T            LTSL TL K A     D+  +    +  NL  
Sbjct: 419 AFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTL-KMAGNSFKDNTLSNVFANTTNLTF 477

Query: 630 L--RECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPL 687
           L   +C +E +S               +  L  L++            N   L  L    
Sbjct: 478 LDLSKCQLEQISWGV---------FDTLHRLQLLNM----------SHNN--LLFLDSSH 516

Query: 688 --NVKELGIVSYGGN----IFPKWLTSLTNLRDLRL 717
              +  L  +    N              +L    L
Sbjct: 517 YNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNL 552

>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 = 53.1 bits (128), Expect = 4e-07
 Identities = 64/431 (14%), Positives = 126/431 (29%), Gaps = 93/431 (21%)

Query: 459 PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLAC--FRALVIGQRNFIFDPYPNL 516
           P   H + RL  L +     +N  L  S+  +L  +LA    R L +           + 
Sbjct: 188 PGCFHAIGRLFGLFL-----NNVQLGPSLTEKLCLELANTSIRNLSLSN---------SQ 233

Query: 517 IREIPENV---RKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAGIG 572
           +           K  +L  L+LS   +  +   +   L  L+   + +          + 
Sbjct: 234 LSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLH 293

Query: 573 KLKKMRSL-LNGGTPLLKYMPIGISKLTS-----LRTLEKFAMGG----GVDDISTCRLE 622
            L  +R L L             + K+       L+ LE   M      G+       L 
Sbjct: 294 GLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLI 353

Query: 623 SLKNLQL------LRECGIEGLSNVSH------------LDEDERLGLHNMKNLLRLSLE 664
           +LK L L      LR    E   +++H            + + E      + +L  L L 
Sbjct: 354 NLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLG 413

Query: 665 FDEEGEEGRRKNQQLLEALQPPL--NVKELGIVSYGGN----IFPKWLTSLTNLRDLRLK 718
                      N ++ + L       ++ +  +    N    +       + +L+ L L+
Sbjct: 414 L----------N-EIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLR 462

Query: 719 SC---VICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIA 774
                 +     P   L  L  L L          N              ++ +   +  
Sbjct: 463 RVALKNVDSSPSPFQPLRNLTILDLS--------NNNI------------ANINDDMLEG 502

Query: 775 FPKLKSLHIGA--MEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTT- 831
             KL+ L +    +  L +          +  +  L  L +        +P  +F+    
Sbjct: 503 LEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESN-GFDEIPVEVFKDLFE 561

Query: 832 LQKLSISYCPI 842
           L+ + +    +
Sbjct: 562 LKIIDLGLNNL 572

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 51.2 bits (123), Expect = 1e-06
 Identities = 62/370 (16%), Positives = 108/370 (29%), Gaps = 81/370 (21%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAG-I 571
           N +R +P     +   L  L++    I +L P+   +L  L+ L+++  E L +L     
Sbjct: 35  NQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNE-LSQLSDKTF 93

Query: 572 GKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGG----GVDDISTCRLESLKNL 627
                +  L      + K       K  +L TL+   +           +  +LE+L+ L
Sbjct: 94  AFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLD---LSHNGLSSTKLGTQVQLENLQEL 150

Query: 628 QL---------LRECGIEGLSNVSHLD-------EDERLGLHNMKNLLRLSLEFDEEGEE 671
            L           E  I   S++  L+       E      H +  L  L L        
Sbjct: 151 LLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFL-------- 202

Query: 672 GRRKNQ---QLLEALQPPLNVKELGIVSYGGN----IFPKWLTSL--TNLRDLRLKSCVI 722
                Q    L E L   L    +  +S   +            L  TNL  L L    +
Sbjct: 203 --NNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNL 260

Query: 723 CEHFPP--LGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLK 779
                      LP LE   L          N    +   S                  L 
Sbjct: 261 -NVVGNDSFAWLPQLEYFFLE--------YNNIQHLFSHS---------------LHGLF 296

Query: 780 SLHI----GAMEELEEWNYRITRKENISI--MPRLSSLTIWYCPRLRVLPDYLFQS-TTL 832
           ++       +  +       + + ++ S   +  L  L +     +  +   +F     L
Sbjct: 297 NVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDN-DIPGIKSNMFTGLINL 355

Query: 833 QKLSISYCPI 842
           + LS+S    
Sbjct: 356 KYLSLSNSFT 365

>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 = 46.9 bits (112), Expect = 2e-05
 Identities = 73/414 (17%), Positives = 127/414 (30%), Gaps = 84/414 (20%)

Query: 459 PMSIHGLNRLRTLLIYFQSPSNPSLN--SSILSELFSKLACFRALVIGQRNFIFDPYPNL 516
           P     L  L+ L +          N  S +  + F+       L +           N 
Sbjct: 66  PELCQKLPMLKVLNL--------QHNELSQLSDKTFAFCTNLTELHLMS---------NS 108

Query: 517 IREIPENV-RKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKL 574
           I++I  N   K  +L  L+LS   +      T  +L NLQ+L +   + ++ L +    +
Sbjct: 109 IQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNK-IQALKSEELDI 167

Query: 575 KKMRSL--LN-GGTPLLKYMPIGISKLTSLRTLE-KFAMGGGVDDISTCRLESLKNLQLL 630
               SL  L      + ++ P     +  L  L       G       C   +  +++ L
Sbjct: 168 FANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNL 227

Query: 631 RECGIEGLSN--VSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPL- 687
                  LSN  +S       LGL    NL  L L +          N   L  +     
Sbjct: 228 S------LSNSQLSTTSNTTFLGLKWT-NLTMLDLSY----------NN--LNVVGNDSF 268

Query: 688 -NVKELGIVSYGGN----IFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEKLTLYGL 742
             + +L       N    +F   L  L N+R L LK     +         ++  +   L
Sbjct: 269 AWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWL 328

Query: 743 YGVKRV---GNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRK 799
             ++ +    N+  GI             S+       LK L +         N   + +
Sbjct: 329 KCLEHLNMEDNDIPGI------------KSNMFTGLINLKYLSLS--------NSFTSLR 368

Query: 800 ENIS------IMPRLSSLTIWYCPRLRVLPDYLFQS-TTLQKLSISYCPIMEEL 846
              +          L  L +    ++  +    F     L+ L +    I +EL
Sbjct: 369 TLTNETFVSLAHSPLHILNLTKN-KISKIESDAFSWLGHLEVLDLGLNEIGQEL 421

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 45.4 bits (108), Expect = 8e-05
 Identities = 46/226 (20%), Positives = 77/226 (34%), Gaps = 46/226 (20%)

Query: 458 FPMSIHGLNRLRTL-LIYFQSPSNPSLNS--SILSELFSKLACFRALVIGQRNFIFDPYP 514
           F  S+HGL  +R L L    +  + SL S   I    F  L C   L +           
Sbjct: 288 FSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMED--------- 338

Query: 515 NLIREIPENV-RKLIHLKYLNLSE--LCIERLPKTLCE---LYNLQKLDIRWCEDLRELP 568
           N I  I  N+   LI+LKYL+LS     +  L            L  L++   + + ++ 
Sbjct: 339 NDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNK-ISKIE 397

Query: 569 AG-IGKLKKMRSLLNGGTPLLKYMPIG-ISKLTSLRTLEKFAMGGGVDDISTCRLES--- 623
           +     L  +  L  G   + + +       L ++  +           +S  +      
Sbjct: 398 SDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEI----------YLSYNKYLQLTR 447

Query: 624 -----LKNLQLLRECGIEGLSNVSHLDEDERLG-LHNMKNLLRLSL 663
                + +LQ L       L  V+  + D        ++NL  L L
Sbjct: 448 NSFALVPSLQRLM------LRRVALKNVDSSPSPFQPLRNLTILDL 487

>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 = 52.0 bits (125), Expect = 7e-07
 Identities = 62/370 (16%), Positives = 115/370 (31%), Gaps = 76/370 (20%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAG-I 571
           N +R +          L+ L+LS   I+ +       L +L  L +     ++ L  G  
Sbjct: 38  NPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAF 96

Query: 572 GKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLES-------- 623
             L  ++ L+   T L       I  L +L+ L          +++   ++S        
Sbjct: 97  SGLSSLQKLVAVETNLASLENFPIGHLKTLKEL----------NVAHNLIQSFKLPEYFS 146

Query: 624 -LKNLQLLRECGIEGLS--NVSHLDEDERLGLHNMKNL-LRLSLEFDEEGEEGRRKNQQL 679
            L NL+ L       LS   +  +   +   LH M  L L L L            N   
Sbjct: 147 NLTNLEHLD------LSSNKIQSIYCTDLRVLHQMPLLNLSLDLSL----------NP-- 188

Query: 680 LEALQP----PLNVKELGIVSYG--GNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP 733
           +  +QP     + + +L + +     N+    +  L  L   RL                
Sbjct: 189 MNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNL---EK 245

Query: 734 LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWN 793
            +K  L GL  +         ++   +D     +          + S  +         +
Sbjct: 246 FDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNC------LTNVSSFSLV--------S 291

Query: 794 YRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHR 853
             I R ++ S       L +  C +    P    +S  L++L+ +        +      
Sbjct: 292 VTIERVKDFSYNFGWQHLELVNC-KFGQFPTLKLKS--LKRLTFTS------NKGGNAFS 342

Query: 854 TTDIPRLSSL 863
             D+P L  L
Sbjct: 343 EVDLPSLEFL 352

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 45.4 bits (108), Expect = 8e-05
 Identities = 63/430 (14%), Positives = 111/430 (25%), Gaps = 110/430 (25%)

Query: 459 PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYP---- 514
              I  L  L+ L +      N  + S  L E FS L     L +   N I   Y     
Sbjct: 117 NFPIGHLKTLKELNVAH----N-LIQSFKLPEYFSNLTNLEHLDL-SSNKIQSIYCTDLR 170

Query: 515 ----------------NLIREIPENVRKLIHLKYLNLSE--LCIERLPKTLCELYNLQKL 556
                           N +  I     K I L  L L      +  +   +  L  L+  
Sbjct: 171 VLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVH 230

Query: 557 D-----IRWCEDLRELPAGIGKLKKMRSL------LNGGTPLLKYMPIGISKLTSLRTLE 605
                  R   +L +       L+ + +L      L      L  +    + LT++ +  
Sbjct: 231 RLVLGEFRNEGNLEKFD--KSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSF- 287

Query: 606 KFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLD----EDERLGLHNMKNLLRL 661
                     + +  +E +K+                HL+    +  +     +K+L RL
Sbjct: 288 ---------SLVSVTIERVKDFS--------YNFGWQHLELVNCKFGQFPTLKLKSLKRL 330

Query: 662 SLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGN------IFPKWLTSLTNLRDL 715
           +                        +++  L  +    N         +     T+L+ L
Sbjct: 331 TF------------TSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYL 378

Query: 716 RLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIA 774
            L    +         L  LE L            +    +         S   S     
Sbjct: 379 DLSFNGVITMSSNFLGLEQLEHLDFQ--------HSNLKQM------SEFSVFLS----- 419

Query: 775 FPKLKSLHIGAMEELEEWNY-RITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQS-TTL 832
              L  L I          + R+      + +  L  L +            +F     L
Sbjct: 420 LRNLIYLDIS-------HTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNL 472

Query: 833 QKLSISYCPI 842
             L +S C +
Sbjct: 473 TFLDLSQCQL 482

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 29/152 (19%), Positives = 55/152 (36%), Gaps = 13/152 (8%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGI-GK 573
           +      ++      LKYL+LS   +  +      L  L+ LD +     +     +   
Sbjct: 360 SFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLS 419

Query: 574 LKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLL--R 631
           L+ +  L    T          + L+SL  L K A     ++        L+NL  L   
Sbjct: 420 LRNLIYLDISHTHTRVAFNGIFNGLSSLEVL-KMAGNSFQENFLPDIFTELRNLTFLDLS 478

Query: 632 ECGIEGLSNVSHLDEDERLGLHNMKNLLRLSL 663
           +C +E LS  +          +++ +L  L++
Sbjct: 479 QCQLEQLSPTA---------FNSLSSLQVLNM 501

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 51.3 bits (122), Expect = 1e-06
 Identities = 37/243 (15%), Positives = 80/243 (32%), Gaps = 41/243 (16%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
             + +      +L  +  +  +   I+ + + +  L N+ KL +   + L ++   +  L
Sbjct: 31  KSVTDA-VTQNELNSIDQIIANNSDIKSV-QGIQYLPNVTKLFLNGNK-LTDIK-PLTNL 86

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGG-GVDDISTCRLESLKNLQLL--R 631
           K +  L      +       +S L  L+ L+  ++   G+ DI+   L  L  L+ L   
Sbjct: 87  KNLGWLFLDENKIKD-----LSSLKDLKKLKSLSLEHNGISDING--LVHLPQLESLYLG 139

Query: 632 ECGIEGLSNVSHLDEDERL-----------GLHNMKNLLRLSLEFDEEGEEGRRKNQQLL 680
              I  ++ +S L + + L            L  +  L  L L           KN   +
Sbjct: 140 NNKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLS----------KNH--I 187

Query: 681 EALQPPLNVKELGIVSYGGN----IFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLEK 736
             L+    +K L ++               ++L     ++     +            EK
Sbjct: 188 SDLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVTPEIISDDGDYEK 247

Query: 737 LTL 739
             +
Sbjct: 248 PNV 250

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 50.0 bits (120), Expect = 2e-06
 Identities = 40/251 (15%), Positives = 84/251 (33%), Gaps = 48/251 (19%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGIG 572
           + +++   ++ +   ++K L+LS   + ++    L     L+ L++     L E    + 
Sbjct: 20  SSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNV-LYETLD-LE 77

Query: 573 KLKKMRSL-LNGGTPLLKYMPIGISKLTSLRTLEKFAMGG-GVDDISTCRLESLKNLQL- 629
            L  +R+L LN            + +L    ++E        +  +S  R +  KN+ L 
Sbjct: 78  SLSTLRTLDLNN---------NYVQELLVGPSIETLHAANNNISRVSCSRGQGKKNIYLA 128

Query: 630 ------LRECGIEGLSNVSHLD--------EDERLGLHNMKNLLRLSLEFDEEGEEGRRK 675
                 LR+      S V +LD         +      +   L  L+L          + 
Sbjct: 129 NNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNL----------QY 178

Query: 676 NQQLLEALQPPLNVKELGIVSYGGN---IFPKWLTSLTNLRDLRLKSCVICEHFPP-LGK 731
           N   +  ++  +   +L  +    N          S   +  + L++  +       L  
Sbjct: 179 NF--IYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKL-VLIEKALRF 235

Query: 732 LP-LEKLTLYG 741
              LE   L G
Sbjct: 236 SQNLEHFDLRG 246

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 46.9 bits (112), Expect = 1e-05
 Identities = 15/122 (12%), Positives = 38/122 (31%), Gaps = 16/122 (13%)

Query: 459 PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR 518
            +     +R++ L +         +++   +EL +       L +           N I 
Sbjct: 137 DLDEGCRSRVQYLDL-----KLNEIDTVNFAELAASSDTLEHLNLQY---------NFIY 182

Query: 519 EIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMR 578
           ++   V     LK L+LS   +  +         +  + +R    L  +   +   + + 
Sbjct: 183 DVKGQV-VFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNN-KLVLIEKALRFSQNLE 240

Query: 579 SL 580
             
Sbjct: 241 HF 242

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 43.8 bits (104), Expect = 1e-04
 Identities = 12/94 (12%), Positives = 32/94 (34%), Gaps = 1/94 (1%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCE-DLRELPAGIGK 573
           N +  +    +    + +++L    +  + K L    NL+  D+R        L     K
Sbjct: 201 NKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSK 260

Query: 574 LKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKF 607
            ++++++       L         + +L     +
Sbjct: 261 NQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAY 294

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 50.4 bits (120), Expect = 2e-06
 Identities = 28/178 (15%), Positives = 57/178 (32%), Gaps = 12/178 (6%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIR-WCED--LRELPAGI 571
           N +  +PE       L+ L++S   +E LP      ++ ++ +I   C +  +  +P  I
Sbjct: 170 NQLTFLPE---LPESLEALDVSTNLLESLPAVPVRNHHSEETEIFFRCRENRITHIPENI 226

Query: 572 GKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL----EKFAMGGGVDDISTCRLESLKNL 627
             L    +++    PL   +   +S+ T+          F+M  G  +     L      
Sbjct: 227 LSLDPTCTIILEDNPLSSRIRESLSQQTAQPDYHGPRIYFSMSDGQQNTLHRPLADAVTA 286

Query: 628 QLLRECGIEGLSNVSHL-DEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQ 684
                   +          E+         + L  ++         R +    LE L 
Sbjct: 287 WFPENKQSDVSQIWHAFEHEEHANTFSAFLDRLSDTVSA-RNTSGFREQVAAWLEKLS 343

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 50.0 bits (119), Expect = 3e-06
 Identities = 29/162 (17%), Positives = 49/162 (30%), Gaps = 37/162 (22%)

Query: 478 PSNPSLN--SSILSELFSKLACFRALVI--GQRNFIFDPYPNLIREIPENVRKLIHLKYL 533
             N   N  S   ++ FS    +    +    RN         +  + E    +     L
Sbjct: 14  SQNSFYNTISGTYADYFSAWDKWEKQALPGENRN-------EAVSLLKEC--LINQFSEL 64

Query: 534 NLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPI 593
            L+ L +  LP  L     +  L+I     L  LP     L+ + +  N     L  +P 
Sbjct: 65  QLNRLNLSSLPDNLPP--QITVLEIT-QNALISLPELPASLEYLDACDN----RLSTLPE 117

Query: 594 GISKLTSLRTLEKFAMGGGVDDISTCRLESL----KNLQLLR 631
             + L  L             D+   +L  L      L+ + 
Sbjct: 118 LPASLKHL-------------DVDNNQLTMLPELPALLEYIN 146

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 48.8 bits (116), Expect = 7e-06
 Identities = 38/232 (16%), Positives = 69/232 (29%), Gaps = 58/232 (25%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
           N +  +PE       L+YL+  +  +  LP+      +L+ LD+   + L  LP     L
Sbjct: 90  NALISLPEL---PASLEYLDACDNRLSTLPELPA---SLKHLDVDNNQ-LTMLPELPALL 142

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRL----ESLKNLQLL 630
           +     +N     L  +P      TSL  L           +   +L    E  ++L+ L
Sbjct: 143 EY----INADNNQLTMLP---ELPTSLEVL----------SVRNNQLTFLPELPESLEAL 185

Query: 631 --RECGIEGL-----SNVSHLDEDERLGLHN------------MKNLLRLSLEFDEEGEE 671
                 +E L      N    + +                   +     + LE       
Sbjct: 186 DVSTNLLESLPAVPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILE------- 238

Query: 672 GRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVIC 723
               +  L   ++  L+ +      +G  I+        N     L   V  
Sbjct: 239 ----DNPLSSRIRESLSQQTAQPDYHGPRIYFSMSDGQQNTLHRPLADAVTA 286

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 50.1 bits (120), Expect = 2e-06
 Identities = 50/244 (20%), Positives = 86/244 (35%), Gaps = 52/244 (21%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIG 572
           N +  IP      L  LK L L    IE +P      + +L++LD+   + L  +  G  
Sbjct: 122 NRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGA- 180

Query: 573 KLKKMRSL--LNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLES------- 623
             + + +L  LN     L+ +P  ++ L  L  L          D+S   L +       
Sbjct: 181 -FEGLSNLRYLNLAMCNLREIP-NLTPLIKLDEL----------DLSGNHLSAIRPGSFQ 228

Query: 624 -LKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEA 682
            L +LQ L       +   S +   ER    N+++L+ ++L            N   L  
Sbjct: 229 GLMHLQKLW------MIQ-SQIQVIERNAFDNLQSLVEINL----------AHNN--LTL 269

Query: 683 LQPPL--NVKELGIVSYGGNIFP-----KWLTS-LTNLRDLRLKSCVICEHFPPLGKLPL 734
           L   L   +  L  +    N +       WL+  + ++       C  C   P L    +
Sbjct: 270 LPHDLFTPLHHLERIHLHHNPWNCNCDILWLSWWIKDMAPSNTACCARCNTPPNLKGRYI 329

Query: 735 EKLT 738
            +L 
Sbjct: 330 GELD 333

>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 = 50.6 bits (121), Expect = 2e-06
 Identities = 43/245 (17%), Positives = 80/245 (32%), Gaps = 34/245 (13%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGI- 571
             +  +   V   L  LK LNL+   I ++       L NLQ L++ +   L EL +   
Sbjct: 276 GFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYN-LLGELYSSNF 334

Query: 572 GKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLR 631
             L K+  +      +          L  L+TL          D+    L ++  +  + 
Sbjct: 335 YGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTL----------DLRDNALTTIHFIPSIP 384

Query: 632 ECGIEG-----------------LSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRR 674
           +  + G                 LS     + D    L  + +L  L L  +        
Sbjct: 385 DIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGD 444

Query: 675 KNQQLLEALQPPLNVKELGI-VSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP 733
           +      +L+  L + E  + +++   +       L++L+ L L    +    PP     
Sbjct: 445 QTPSENPSLE-QLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYL-NSLPPGVFSH 502

Query: 734 LEKLT 738
           L  L 
Sbjct: 503 LTALR 507

>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 = 50.6 bits (121), Expect = 2e-06
 Identities = 64/407 (15%), Positives = 128/407 (31%), Gaps = 86/407 (21%)

Query: 485 SSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENV-RKLIHLKYLNLSELCIERL 543
            ++ +  F  L   + L +G +             I +   R L +L+ L+L    I  L
Sbjct: 37  RTVTASSFPFLEQLQLLELGSQY--------TPLTIDKEAFRNLPNLRILDLGSSKIYFL 88

Query: 544 P-KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSL--LNGGTPLLKYMPIG--ISKL 598
                  L++L +L + +C  L +     G  + +++L  L+     ++ + +     KL
Sbjct: 89  HPDAFQGLFHLFELRLYFCG-LSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKL 147

Query: 599 TSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNL 658
            SL+++          D S+ ++  +   +L      E L   +         L      
Sbjct: 148 NSLKSI----------DFSSNQIFLVCEHEL------EPLQGKTL----SFFSLAANSLY 187

Query: 659 LRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYG-GNIFPKWLTSLTNLRDLRL 717
            R+S+++ +     R    ++L+       V   G  S          L    ++     
Sbjct: 188 SRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGF 247

Query: 718 KSCVICE----HFPPLGKLPLEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVI 773
               I +     F  L +  +  L L               +                  
Sbjct: 248 GFHNIKDPDQNTFAGLARSSVRHLDLS--------HGFVFSLNSR--------------- 284

Query: 774 AFPKLKSLHIGAMEELE-EWNYRITRKEN--ISIMPRLSSLTIWYCPRLRVLPDYLFQS- 829
            F  LK L     + L   +N +I +  +     +  L  L + Y   L  L    F   
Sbjct: 285 VFETLKDL-----KVLNLAYN-KINKIADEAFYGLDNLQVLNLSYN-LLGELYSSNFYGL 337

Query: 830 TTLQKLSISYCPI----------MEELRIL--EDHRTTDIPRLSSLE 864
             +  + +    I          +E+L+ L   D+  T I  + S+ 
Sbjct: 338 PKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTTIHFIPSIP 384

>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 = 49.7 bits (119), Expect = 3e-06
 Identities = 62/366 (16%), Positives = 111/366 (30%), Gaps = 79/366 (21%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
           + I ++   + KL  L  L  +   I  L   L +  NL  L     + L  L   +  L
Sbjct: 52  SSITDMTG-IEKLTGLTKLICTSNNITTLD--LSQNTNLTYLACDSNK-LTNLD--VTPL 105

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESL--KNLQLLRE 632
            K+  L      L K   + +S+   L  L          + +   L  +   +   L E
Sbjct: 106 TKLTYLNCDTNKLTK---LDVSQNPLLTYL----------NCARNTLTEIDVSHNTQLTE 152

Query: 633 CGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKEL 692
                  +     +  +L +     L  L   F          N+  +  L      K L
Sbjct: 153 ------LDCHLNKKITKLDVTPQTQLTTLDCSF----------NK--ITEL-DVSQNKLL 193

Query: 693 GIVSYGGN-IFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGN 750
             ++   N I    L     L  L   S  + E    +  L  L               N
Sbjct: 194 NRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTEI--DVTPLTQLTYFDCSV--------N 243

Query: 751 EFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAM--EELEEWNYRITRKENISIMPRL 808
               ++ S+                 KL +LH       E++  +             ++
Sbjct: 244 PLTELDVST---------------LSKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKI 288

Query: 809 SSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYC 868
             L + +  +L +L     Q+  + +L +S  P +  L  L +        L+ L++ + 
Sbjct: 289 KELDVTHNTQLYLL--DC-QAAGITELDLSQNPKLVYL-YLNNTE------LTELDVSHN 338

Query: 869 PKLNVL 874
            KL  L
Sbjct: 339 TKLKSL 344

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 42.0 bits (99), Expect = 7e-04
 Identities = 29/157 (18%), Positives = 48/157 (30%), Gaps = 38/157 (24%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
           N + EI   V  L  L Y + S   +  L  +      L  L     + L E+   +   
Sbjct: 222 NKLTEID--VTPLTQLTYFDCSVNPLTELDVSTLS--KLTTLHCIQTD-LLEID--LTHN 274

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESL-----KNLQL 629
            ++      G   +K   + ++  T L  L          D     +  L       L  
Sbjct: 275 TQLIYFQAEGCRKIK--ELDVTHNTQLYLL----------DCQAAGITELDLSQNPKLVY 322

Query: 630 LRECGIEGLSN--VSHLDEDERLGLHNMKNLLRLSLE 664
           L       L+N  ++ LD      + +   L  LS  
Sbjct: 323 LY------LNNTELTELD------VSHNTKLKSLSCV 347

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 49.5 bits (118), Expect = 4e-06
 Identities = 63/346 (18%), Positives = 116/346 (33%), Gaps = 84/346 (24%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGI- 571
           + +R++P  +      ++ LNL++L IE +        + +QKL + +   +R LP  + 
Sbjct: 61  STMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNA-IRYLPPHVF 119

Query: 572 GKLKKMRSL-LNGGTPLLKYMPIGI-SKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQL 629
             +  +  L L      L  +P GI      L TL           +S   LE +++   
Sbjct: 120 QNVPLLTVLVLERN--DLSSLPRGIFHNTPKLTTL----------SMSNNNLERIEDDTF 167

Query: 630 LRECGIEGLSNVSHLDED----ERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQP 685
                 +  +++ +L         + L  + +L   ++ +          N   L  L  
Sbjct: 168 ------QATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSY----------NL--LSTLAI 209

Query: 686 PLNVKEL-----GIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTL 739
           P+ V+EL      I    G +          L  L+L+   +      L   P L ++ L
Sbjct: 210 PIAVEELDASHNSINVVRGPVNV-------ELTILKLQHNNL-TDTAWLLNYPGLVEVDL 261

Query: 740 YGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITR- 798
                     NE   I                   F K++ L     E L   N R+   
Sbjct: 262 SY--------NELEKIMYH---------------PFVKMQRL-----ERLYISNNRLVAL 293

Query: 799 KENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIME 844
                 +P L  L + +   L  +     Q   L+ L + +  I+ 
Sbjct: 294 NLYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLYLDHNSIVT 338

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 42.6 bits (100), Expect = 5e-04
 Identities = 10/66 (15%), Positives = 25/66 (37%), Gaps = 3/66 (4%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
           N +  +    + +  LK L+LS   +  + +   +   L+ L +     +  L       
Sbjct: 288 NRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHNS-IVTLKLST--H 344

Query: 575 KKMRSL 580
             +++L
Sbjct: 345 HTLKNL 350

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 47.7 bits (114), Expect = 7e-06
 Identities = 39/215 (18%), Positives = 73/215 (33%), Gaps = 39/215 (18%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
             + +      +L  +  +  +   I+ + + +  L N+ KL +   + L ++   +  L
Sbjct: 34  KSVTDA-VTQNELNSIDQIIANNSDIKSV-QGIQYLPNVTKLFLNGNK-LTDIK-PLANL 89

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGG-GVDDISTCRLESLKNLQLL--R 631
           K +  L      +       +S L  L+ L+  ++   G+ DI+   L  L  L+ L   
Sbjct: 90  KNLGWLFLDENKVKD-----LSSLKDLKKLKSLSLEHNGISDING--LVHLPQLESLYLG 142

Query: 632 ECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKE 691
              I  ++            L  +  L  LSL            NQ  +  + P   + +
Sbjct: 143 NNKITDITV-----------LSRLTKLDTLSL----------EDNQ--ISDIVPLAGLTK 179

Query: 692 LGIVSYGGNIFPKW--LTSLTNLRDLRLKSCVICE 724
           L  +    N       L  L NL  L L S     
Sbjct: 180 LQNLYLSKNHISDLRALAGLKNLDVLELFSQECLN 214

>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 = 48.3 bits (115), Expect = 7e-06
 Identities = 45/346 (13%), Positives = 108/346 (31%), Gaps = 40/346 (11%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERLPKTLCE-LYNLQKLDIRWCEDLRELPAGIG 572
           N I E+  +    L  L+ L +S   I+ L  ++ +    L+ LD+   + L ++     
Sbjct: 31  NYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNK-LVKIS--CH 87

Query: 573 KLKKMRSLLNGGTPLLKYMPIG--ISKLTSLRTLEKFAMGGGVDDISTCRLES--LKNLQ 628
               ++  L+        +PI      ++ L+ L           +ST  LE   +  + 
Sbjct: 88  PTVNLK-HLDLSFNAFDALPICKEFGNMSQLKFL----------GLSTTHLEKSSVLPIA 136

Query: 629 LLRECGIEGLSNVSHLDEDERLGLHNMKNL-LRLSLEFDEEGEEGRRKNQQLLEALQPPL 687
            L    +  +   ++ ++++  GL +     L +    ++E       + + +  L+   
Sbjct: 137 HLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLE-LS 195

Query: 688 NVKELGIVSYGGNIF--PKWLTSLTNLRDLRLKSCVICEH-----FPPLGKLPLEKLTLY 740
           N+K +   +           L +   L +L L +     +        +    +   ++ 
Sbjct: 196 NIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSIS 255

Query: 741 GLYGVKRVGNEFLGIEGSS------EDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNY 794
            +    ++        G+S          S          +    +++I   +       
Sbjct: 256 NVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNI---KNFTVSGT 312

Query: 795 RITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQS-TTLQKLSISY 839
           R+      S +     L       L           T L+ L +  
Sbjct: 313 RMVHMLCPSKISPFLHLDFSNN-LLTDTVFENCGHLTELETLILQM 357

>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 = 48.3 bits (115), Expect = 9e-06
 Identities = 19/145 (13%), Positives = 48/145 (33%), Gaps = 5/145 (3%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCE-DLRELPAGIGK 573
           N +  +    +    + +++L    +  + K L    NL+  D+R        L     K
Sbjct: 201 NKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSK 260

Query: 574 LKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLREC 633
            ++++++       L         + +L     +      +D+     + L  L+     
Sbjct: 261 NQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYC----CEDLPAPFADRLIALKRKEHA 316

Query: 634 GIEGLSNVSHLDEDERLGLHNMKNL 658
            + G  + +   E ER      + +
Sbjct: 317 LLSGQGSETERLECERENQARQREI 341

>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 = 47.9 bits (114), Expect = 1e-05
 Identities = 40/251 (15%), Positives = 84/251 (33%), Gaps = 48/251 (19%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAGIG 572
           + +++   ++ +   ++K L+LS   + ++    L     L+ L++     L E    + 
Sbjct: 20  SSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNV-LYETLD-LE 77

Query: 573 KLKKMRSL-LNGGTPLLKYMPIGISKLTSLRTLEKFAMGG-GVDDISTCRLESLKNLQL- 629
            L  +R+L LN            + +L    ++E        +  +S  R +  KN+ L 
Sbjct: 78  SLSTLRTLDLNNN---------YVQELLVGPSIETLHAANNNISRVSCSRGQGKKNIYLA 128

Query: 630 ------LRECGIEGLSNVSHLD--------EDERLGLHNMKNLLRLSLEFDEEGEEGRRK 675
                 LR+      S V +LD         +      +   L  L+L          + 
Sbjct: 129 NNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNL----------QY 178

Query: 676 NQQLLEALQPPLNVKELGIVSYGGN---IFPKWLTSLTNLRDLRLKSCVICEHFPP-LGK 731
           N   +  ++  +   +L  +    N          S   +  + L++  +       L  
Sbjct: 179 NF--IYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKL-VLIEKALRF 235

Query: 732 LP-LEKLTLYG 741
              LE   L G
Sbjct: 236 SQNLEHFDLRG 246

>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 = 47.4 bits (113), Expect = 1e-05
 Identities = 44/249 (17%), Positives = 77/249 (30%), Gaps = 46/249 (18%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGI- 571
           N I  I E+    L  L++L+LS   +  L       L +L  L++      + L     
Sbjct: 86  NGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNP-YKTLGETSL 144

Query: 572 -GKLKKMRSLLNGGTPLLKYMPIGI-SKLTSLRTLEKFAMGGGVDDISTCRLES------ 623
              L K++ L  G       +     + LT L  L          +I    L+S      
Sbjct: 145 FSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEEL----------EIDASDLQSYEPKSL 194

Query: 624 --LKNLQLLRECGIEGLSN--VSHLDEDERLGLHNMKNL----LRLSLEFDEEGEEGRRK 675
             ++N+  L       L       L E       +++ L      L      E   G   
Sbjct: 195 KSIQNVSHLI------LHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETN 248

Query: 676 NQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPP--LGKLP 733
           +       +       + I         K L  ++ L +L      + +  P     +L 
Sbjct: 249 SLIKKFTFR------NVKITDESLFQVMKLLNQISGLLELEFSRNQL-KSVPDGIFDRLT 301

Query: 734 -LEKLTLYG 741
            L+K+ L+ 
Sbjct: 302 SLQKIWLHT 310

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 48.0 bits (114), Expect = 1e-05
 Identities = 54/364 (14%), Positives = 93/364 (25%), Gaps = 75/364 (20%)

Query: 524 VRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNG 583
            R    L  + + +  I  L        NL++       +   +P     L   R L   
Sbjct: 216 ARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRL 275

Query: 584 GTPLL--KYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLREC---GIEGL 638
           G   +    MPI       +R L+         +     ++   NL++L      G  GL
Sbjct: 276 GLSYMGPNEMPILFPFAAQIRKLD-LLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGL 334

Query: 639 SNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYG 698
             ++             K L RL +E                        V + G+++  
Sbjct: 335 EVLA----------QYCKQLKRLRIER----------GADEQGMEDEEGLVSQRGLIA-- 372

Query: 699 GNIFPKWLTSLTNLRDLRLKSCV---------ICEHFPPLGKLPLEKLTLYGLYGVKRVG 749
                        L  + +             I  +        L    L  L   +R+ 
Sbjct: 373 ------LAQGCQELEYMAV-YVSDITNESLESIGTYLK-----NLCDFRLVLLDREERIT 420

Query: 750 NEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISI---MP 806
                      D P  +   S +I   KL+                +T      I    P
Sbjct: 421 -----------DLPLDNGVRSLLIGCKKLRRFA------FYLRQGGLTDLGLSYIGQYSP 463

Query: 807 RLSSLTIWYCPRLRVLPDYLFQS-TTLQKLSISYCPIMEE-LRILEDHRTTDIPRLSSLE 864
            +  + + Y            +    LQKL +  C   E  +           P L  L 
Sbjct: 464 NVRWMLLGYVGESDEGLMEFSRGCPNLQKLEMRGCCFSERAIAAAVTKL----PSLRYLW 519

Query: 865 IEYC 868
           ++  
Sbjct: 520 VQGY 523

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 46.9 bits (111), Expect = 2e-05
 Identities = 67/384 (17%), Positives = 129/384 (33%), Gaps = 68/384 (17%)

Query: 515 NLIREIPENVRKL--IHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRE--LPAG 570
             + EI  N+R+L  +H + + +S+L ++RL K   +  +L+ L +  C       L + 
Sbjct: 102 PWVTEISNNLRQLKSVHFRRMIVSDLDLDRLAKARAD--DLETLKLDKCSGFTTDGLLSI 159

Query: 571 IGKLKKMRSL-------LNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLES 623
           +   +K+++L              L  +    + L  L              IS   LE+
Sbjct: 160 VTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLN-----FYMTEFAKISPKDLET 214

Query: 624 L-KNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEA 682
           + +N + L    +     +            N++     SL  D    E           
Sbjct: 215 IARNCRSLVSVKVGDFEILE--LVGFFKAAANLEEFCGGSLNEDIGMPE-------KYMN 265

Query: 683 LQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVI--CEHFPPLGKLP-LEKLTL 739
           L  P  +  LG+   G N  P        +R L L   ++   +H   + K P LE L  
Sbjct: 266 LVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLET 325

Query: 740 YGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRK 799
                   +G+  L +                     +LK L I    + +         
Sbjct: 326 RN-----VIGDRGLEVLAQY---------------CKQLKRLRIERGADEQGMEDEEGLV 365

Query: 800 ENISIMPRLSSLTIWYCPRLRVLPDYLFQS----TTLQKLSISYCPIMEELRIL---EDH 852
               ++  L+      C  L  +   ++ S     +L+ +  +Y   + + R++    + 
Sbjct: 366 SQRGLI-ALAQ----GCQELEYM--AVYVSDITNESLESIG-TYLKNLCDFRLVLLDREE 417

Query: 853 RTTDIPRLSSLE--IEYCPKLNVL 874
           R TD+P  + +   +  C KL   
Sbjct: 418 RITDLPLDNGVRSLLIGCKKLRRF 441

>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 = 47.4 bits (113), Expect = 1e-05
 Identities = 55/290 (18%), Positives = 92/290 (31%), Gaps = 69/290 (23%)

Query: 485 SSILSELFSKLACFRALVIGQRNFI-------FDPYPNL---------IREIPENV-RKL 527
             I ++ F  L     L +  RN I       F+   +L         +  IP      L
Sbjct: 88  QMIQADTFRHLHHLEVLQL-GRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYL 146

Query: 528 IHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGI-GKLKKMRSL-LNGG 584
             L+ L L    IE +P      + +L +LD+   + L  +  G    L  ++ L L   
Sbjct: 147 SKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGM- 205

Query: 585 TPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLES--------LKNLQLLRECGIE 636
              +K MP  ++ L  L  L          ++S              L +L+ L      
Sbjct: 206 -CNIKDMP-NLTPLVGLEEL----------EMSGNHFPEIRPGSFHGLSSLKKL------ 247

Query: 637 GLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPL--NVKELGI 694
            + N S +   ER     + +L+ L+L            N   L +L   L   ++ L  
Sbjct: 248 WVMN-SQVSLIERNAFDGLASLVELNL----------AHNN--LSSLPHDLFTPLRYLVE 294

Query: 695 VSYGGNIFP-----KWLTS-LTNLRDLRLKSCVICEHFPPLGKLPLEKLT 738
           +    N +       WL   L          C  C     +    L ++ 
Sbjct: 295 LHLHHNPWNCDCDILWLAWWLREYIPTNSTCCGRCHAPMHMRGRYLVEVD 344

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 46.7 bits (111), Expect = 2e-05
 Identities = 42/253 (16%), Positives = 83/253 (32%), Gaps = 51/253 (20%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGI-G 572
           + + EIP ++    +   L      +  + K       +L+K++I   + L  + A +  
Sbjct: 19  SKVTEIPSDL--PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFS 76

Query: 573 KLKKMRSLLNGGTPLLKYMPIGI-SKLTSLRTLEKFAMGGGVDDISTCRLESL------- 624
            L K+  +       L Y+       L +L+ L           IS   ++ L       
Sbjct: 77  NLPKLHEIRIEKANNLLYINPEAFQNLPNLQYL----------LISNTGIKHLPDVHKIH 126

Query: 625 -KNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEAL 683
                LL    I+   N+  ++ +  +GL     +L L+            KN   ++ +
Sbjct: 127 SLQKVLLD---IQDNINIHTIERNSFVGLSFESVILWLN------------KNG--IQEI 169

Query: 684 QP----PLNVKELGIVSYGGN----IFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLPLE 735
                    + EL +     N    +        +    L +    I    P  G   L+
Sbjct: 170 HNSAFNGTQLDELNL--SDNNNLEELPNDVFHGASGPVILDISRTRI-HSLPSYGLENLK 226

Query: 736 KLTLYGLYGVKRV 748
           KL     Y +K++
Sbjct: 227 KLRARSTYNLKKL 239

>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 = 46.7 bits (110), Expect = 3e-05
 Identities = 19/91 (20%), Positives = 37/91 (40%), Gaps = 4/91 (4%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
             +  +  ++ +L+ + +L+LS   +  LP  L  L  L+ L       L  +  G+  L
Sbjct: 451 KDLTVL-CHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNA-LENVD-GVANL 507

Query: 575 KKMRSLLNGGTPLLKYMPIG-ISKLTSLRTL 604
            +++ LL     L +   I  +     L  L
Sbjct: 508 PRLQELLLCNNRLQQSAAIQPLVSCPRLVLL 538

>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 = 42.8 bits (100), Expect = 5e-04
 Identities = 41/321 (12%), Positives = 88/321 (27%), Gaps = 47/321 (14%)

Query: 376 VEEDEEIEMTGEEYFNISKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECLWVEINGTKE 435
           +   E  ++    + +  +          ++              +     W   +G   
Sbjct: 236 LGRAEPHDVLCCVHVSREEACLSVCFSRPLTVGSRMGTLLLMVDEAPLSVEWRTPDGRNR 295

Query: 436 SVINSFGDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKL 495
                  D       +     +F +   G +  +  ++    P     +S+   +LF   
Sbjct: 296 PSHVWLCDLPAASLNDQLPQHTFRVIWTGSDSQKECVLLKDRPECWCRDSATDEQLFRCE 355

Query: 496 ACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQK 555
                  + Q     +    L    PEN   L+ +  L  +   +    +TL     L+ 
Sbjct: 356 LSVEKSTVLQS--ELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA 413

Query: 556 LDI---------------------RWCEDLREL---------PAGIGKLKKMRSLLNGGT 585
           +D                          D+R L            + +L  +   L+   
Sbjct: 414 VDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTH-LDLSH 472

Query: 586 PLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSN--VSH 643
             L+ +P  ++ L  L  L            S   LE++  +  L       L N  +  
Sbjct: 473 NRLRALPPALAALRCLEVL----------QASDNALENVDGVANLPRLQELLLCNNRLQQ 522

Query: 644 LDEDERLGLHNMKNLLRLSLE 664
               + L   +   L+ L+L+
Sbjct: 523 SAAIQPLV--SCPRLVLLNLQ 541

>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 = 46.6 bits (111), Expect = 3e-05
 Identities = 46/286 (16%), Positives = 85/286 (29%), Gaps = 88/286 (30%)

Query: 463 HGLNRLRTLLIYFQSPSNPSLN--SSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI 520
            GL+ L  L I        S N    +L  +F  L   ++L +G          N +  I
Sbjct: 101 TGLSNLTKLDI--------SENKIVILLDYMFQDLYNLKSLEVGD---------NDLVYI 143

Query: 521 PENV-RKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGI-GKLKKM 577
                  L  L+ L L +  +  +P   L  L+ L  L +R    +  +      +L ++
Sbjct: 144 SHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLN-INAIRDYSFKRLYRL 202

Query: 578 RSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEG 637
           + L     P L  M        +L +L           I+ C L ++             
Sbjct: 203 KVLEISHWPYLDTMTPNCLYGLNLTSL----------SITHCNLTAV------------- 239

Query: 638 LSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSY 697
                       L + ++  L  L+L            N   +  ++             
Sbjct: 240 ----------PYLAVRHLVYLRFLNL----------SYNP--ISTIEG------------ 265

Query: 698 GGNIFPKWLTSLTNLRDLRLKSCVICE-HFPPLGKLP-LEKLTLYG 741
             ++       L  L++++L    +          L  L  L + G
Sbjct: 266 --SML----HELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSG 305

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 42.0 bits (99), Expect = 8e-04
 Identities = 44/237 (18%), Positives = 86/237 (36%), Gaps = 55/237 (23%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAGI- 571
           N I+ + ++      HL+ L L+E  +  + P     L+NL+ L +R    L+ +P G+ 
Sbjct: 42  NRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNR-LKLIPLGVF 100

Query: 572 GKLKKMRSL-LNGGTPLLKYMPIGI-SKLTSLRTLEKFAMGG-GVDDISTCRLESLKNLQ 628
             L  +  L ++     +  +   +   L +L++LE   +G   +  IS      L +L+
Sbjct: 101 TGLSNLTKLDISEN--KIVILLDYMFQDLYNLKSLE---VGDNDLVYISHRAFSGLNSLE 155

Query: 629 LLRECGIEGLS--NVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPP 686
            L       L   N++ +  +    L ++  L+ L L          R     + A++  
Sbjct: 156 QLT------LEKCNLTSIPTE---ALSHLHGLIVLRL----------RHLN--INAIRD- 193

Query: 687 LNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPP--LGKLPLEKLTLYG 741
                                 L  L+ L +      +   P  L  L L  L++  
Sbjct: 194 -----------------YSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITH 233

>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 = 45.1 bits (107), Expect = 9e-05
 Identities = 29/165 (17%), Positives = 57/165 (34%), Gaps = 36/165 (21%)

Query: 515 NLIREI---PENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGI 571
           N +       ++      LKYL+LS   +  +      L  L+ LD +    L+++    
Sbjct: 357 NGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSN-LKQMSEFS 415

Query: 572 --GKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLES------ 623
               L+ +  L    T          + L+SL  L           ++    +       
Sbjct: 416 VFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVL----------KMAGNSFQENFLPDI 465

Query: 624 ---LKNLQLL--RECGIEGLSNVSHLDEDERLGLHNMKNLLRLSL 663
              L+NL  L   +C +E LS  +          +++ +L  L++
Sbjct: 466 FTELRNLTFLDLSQCQLEQLSPTA---------FNSLSSLQVLNM 501

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 43.5 bits (103), Expect = 3e-04
 Identities = 40/169 (23%), Positives = 63/169 (37%), Gaps = 27/169 (15%)

Query: 444 KVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVI 503
            +++L L+F G  +   +  GL +L  L        + +L       +F  L     L I
Sbjct: 374 SLKYLDLSFNGVITMSSNFLGLEQLEHLDF-----QHSNLKQMSEFSVFLSLRNLIYLDI 428

Query: 504 GQRNFIFDPYPNLIREIPENV-RKLIHLKYLNLSE--LCIERLPKTLCELYNLQKLDIRW 560
                         R     +   L  L+ L ++        LP    EL NL  LD+  
Sbjct: 429 SH---------THTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQ 479

Query: 561 CEDLRELPAGI-GKLKKMRSLL---NGGTPLLKYMPIGI-SKLTSLRTL 604
           C+ L +L       L  ++ L    N     LK +P GI  +LTSL+ +
Sbjct: 480 CQ-LEQLSPTAFNSLSSLQVLNMASN----QLKSVPDGIFDRLTSLQKI 523

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 43.2 bits (102), Expect = 3e-04
 Identities = 62/385 (16%), Positives = 115/385 (29%), Gaps = 80/385 (20%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAG-I 571
             I+ I +   + L HL  L L+   I+ L       L +LQKL       L  L    I
Sbjct: 62  CEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN-LASLENFPI 120

Query: 572 GKLKKMRSL-LNGGTPLLKYMPIG--ISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQ 628
           G LK ++ L +     L++   +    S LT+L  L          D+S+ +++S+    
Sbjct: 121 GHLKTLKELNVAHN--LIQSFKLPEYFSNLTNLEHL----------DLSSNKIQSIY--- 165

Query: 629 LLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLN 688
                 +  L             +  +   L LSL      + G  K  +L +     L 
Sbjct: 166 ---CTDLRVLHQ-----------MPLLNLSLDLSLNPMNFIQPGAFKEIRLHK-----LT 206

Query: 689 VKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEH----------FPPLGKLPLEKLT 738
           ++         N+    +  L  L   RL                     L  L +E+  
Sbjct: 207 LRNNFD---SLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFR 263

Query: 739 LYGLYGVKRVGNEFLGIEGSSEDDPSSS---SSSSSVIAFPKLKSLHIGAME--ELEEWN 793
           L  L        +      +       S               + L +   +  +     
Sbjct: 264 LAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLK 323

Query: 794 YRITRKENISIMPRLSSLTIWYCPRLRVL-------------PDYLFQSTTLQKLSISYC 840
            +  ++   +     ++ +    P L  L                 F +T+L+ L +S+ 
Sbjct: 324 LKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFN 383

Query: 841 PIMEELRILEDHRTTDIPRLSSLEI 865
            +           +++   L  LE 
Sbjct: 384 GV--------ITMSSNFLGLEQLEH 400

>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 = 43.8 bits (102), Expect = 2e-04
 Identities = 39/217 (17%), Positives = 73/217 (33%), Gaps = 27/217 (12%)

Query: 494 KLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIER----------L 543
           KL   + + IG   +  +   ++   I EN  K  H + L   ++  E           L
Sbjct: 105 KLPSLKQITIGXWGYEGEDCSDIADGIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDL 164

Query: 544 PKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRT 603
              L  +  L  L I+   +L         LK +  +++GG P      I  S L +L  
Sbjct: 165 SPVLDAMPLLNNLKIKGTNNLSIGKKPRPNLKSLE-IISGGLPDSVVEDILGSDLPNLEK 223

Query: 604 LE------KFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDER--LGLHNM 655
           L        +   G ++      L S      L+     G+ +    +      L    +
Sbjct: 224 LVLYVGVEDYGFDGDMNVF--RPLFSKDRFPNLKWL---GIVDAEEQNVVVEMFLESDIL 278

Query: 656 KNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKEL 692
             L  + +      +EG    + LL+ +    ++K +
Sbjct: 279 PQLETMDISAGVLTDEG---ARLLLDHVDKIKHLKFI 312

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare} Length = 115

 Score = 40.6 bits (95), Expect = 3e-04
 Identities = 15/78 (19%), Positives = 28/78 (35%), Gaps = 14/78 (17%)

Query: 2   QQDKVVTFWLDQLKDASYDMEDVLDEWVFARLKLQIEGVDDDNAFSLAPHKKNVRSFFRA 61
           Q D     W D++++ SY +EDV+D+++                        N   F   
Sbjct: 52  QLDSQDKLWADEVRELSYVIEDVVDKFLV--------------QVDGIKSDDNNNKFKGL 97

Query: 62  VSNCFGSFKQLSLRQDIA 79
           +       K++  +  IA
Sbjct: 98  MKRTTELLKKVKHKHGIA 115

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 43.4 bits (103), Expect = 3e-04
 Identities = 41/253 (16%), Positives = 75/253 (29%), Gaps = 72/253 (28%)

Query: 519 EIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAG--IGKLKK 576
            +  ++  L  L+ L LS   I           +L  LD+        +     +G    
Sbjct: 68  AVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSG 127

Query: 577 MRSL------LNGGTPLLKYMPIGISKLTSLRTLEKFAMGG----GVDDISTCRLESLKN 626
           ++ L      L+         P  +S    L +LE   +      G + +     +    
Sbjct: 128 LKFLNVSSNTLDF--------PGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGE 179

Query: 627 LQLLR--ECGIEG---LSNVSHLDEDERLGLH------------NMKNLLRLSLEFDEEG 669
           L+ L      I G   +S   +L   E L +             +   L  L +      
Sbjct: 180 LKHLAISGNKISGDVDVSRCVNL---EFLDVSSNNFSTGIPFLGDCSALQHLDISG---- 232

Query: 670 EEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPL 729
                 N+         L+          G+   + +++ T L+ L + S       PP 
Sbjct: 233 ------NK---------LS----------GDF-SRAISTCTELKLLNISSNQFVGPIPP- 265

Query: 730 GKLP-LEKLTLYG 741
             L  L+ L+L  
Sbjct: 266 LPLKSLQYLSLAE 278

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 42.3 bits (100), Expect = 4e-04
 Identities = 35/173 (20%), Positives = 63/173 (36%), Gaps = 33/173 (19%)

Query: 510 FDPYPNL-----------IREIPENV-RKLIHLKYLNLSELCIERLPKTLCELYNLQKLD 557
           FD    L            +            LKYL+LS   +  +      L  L+ LD
Sbjct: 48  FDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLD 107

Query: 558 IRWCEDLRELPAGIGKLKKMRSL--LNGGTPLLKYMPIGI-SKLTSLRTLEKFAMGG--G 612
            +    L+++         +R+L  L+      +    GI + L+SL  L+   M G   
Sbjct: 108 FQHSN-LKQMSEF-SVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLK---MAGNSF 162

Query: 613 VDDISTCRLESLKNLQLL--RECGIEGLSNVSHLDEDERLGLHNMKNLLRLSL 663
            ++        L+NL  L   +C +E LS  +          +++ +L  L++
Sbjct: 163 QENFLPDIFTELRNLTFLDLSQCQLEQLSPTA---------FNSLSSLQVLNM 206

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 41.9 bits (99), Expect = 4e-04
 Identities = 29/152 (19%), Positives = 55/152 (36%), Gaps = 24/152 (15%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL 574
           + I+ +   ++   +LK L+LS   I  L   L +L  L++L +     L+ L       
Sbjct: 51  SNIQSL-AGMQFFTNLKELHLSHNQISDL-SPLKDLTKLEELSVNRNR-LKNLNG--IPS 105

Query: 575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECG 634
             +  L      L       +  L +L  L           I   +L+S+  L  L +  
Sbjct: 106 ACLSRLFLDNNELRD--TDSLIHLKNLEIL----------SIRNNKLKSIVMLGFLSKLE 153

Query: 635 IEGLSN--VSHLDEDERLGLHNMKNLLRLSLE 664
           +  L    +++       GL  +K +  + L 
Sbjct: 154 VLDLHGNEITNTG-----GLTRLKKVNWIDLT 180

>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 = 42.6 bits (100), Expect = 5e-04
 Identities = 58/386 (15%), Positives = 97/386 (25%), Gaps = 51/386 (13%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERLPKTLCE-LYNLQKLDIRWCEDLRELPAGIG 572
           N I E+       L  L+ L LS   I  L   +     +L+ LD+     L+ +     
Sbjct: 62  NSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVS-HNRLQNISCC-- 118

Query: 573 KLKKMRSLLNGGTPLLKYMPIG--ISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLL 630
            +  +R L          +P+      LT L  L     G          L  + +L L 
Sbjct: 119 PMASLRHLDLSFNDF-DVLPVCKEFGNLTKLTFL-----GLSAAKFRQLDLLPVAHLHLS 172

Query: 631 RECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPL-NV 689
                    ++   + +         N   L L F        + N  +       L N+
Sbjct: 173 CILLDLVSYHIKGGETESLQIP----NTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNI 228

Query: 690 KELGIVSYGGNIFPKWLTSLTNLRDLRLKSC-----VICEHFPPLGKLPLEKLTLYGLYG 744
           K           F   LT    L ++ L+          + F      P+E L +Y L  
Sbjct: 229 KLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTI 288

Query: 745 VKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFP-------------------KLKSLHIGA 785
            +R+  E      ++          + V  F                        +H+  
Sbjct: 289 TERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMVC 348

Query: 786 ------MEELEEWNYRITRKENISIMPRLSSLTIWYCPR--LRVLPDYLFQSTTLQKLSI 837
                    L       T          L  L      R  L+        +  +  L  
Sbjct: 349 PPSPSSFTFLNFTQNVFT-DSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLET 407

Query: 838 SYCPIMEELRILEDHRTTDIPRLSSL 863
               +        D        +  L
Sbjct: 408 LDVSLNSLNSHAYDRTCAWAESILVL 433

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 42.6 bits (100), Expect = 5e-04
 Identities = 64/418 (15%), Positives = 128/418 (30%), Gaps = 72/418 (17%)

Query: 481 PSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLK----YLNLS 536
              ++  L+ + +     + L + + + + D   + +   P+    L+ L        +S
Sbjct: 141 EGFSTDGLAAIAATCRNLKELDL-RESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVS 199

Query: 537 ELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGG------TPLLKY 590
              +ERL        NL+ L +     L +L   + +  ++  L  GG        +   
Sbjct: 200 FSALERLVTRCP---NLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSG 256

Query: 591 MPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERL 650
           + + +S    LR L  F     V             L  L       LS  +    D   
Sbjct: 257 LSVALSGCKELRCLSGF--WDAVPAYLPAVYSVCSRLTTLN------LSYATVQSYDLVK 308

Query: 651 GLHNMKNLLRLSL--EFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTS 708
            L     L RL +    ++ G E      + L  L+  +   E  ++     +  + L S
Sbjct: 309 LLCQCPKLQRLWVLDYIEDAGLEVLASTCKDLRELR--VFPSEPFVMEPNVALTEQGLVS 366

Query: 709 L-TNLRDLR--LKSCV---------ICEHFPPLGKLPLEKLTLYGLYGVKRVGNEFLGIE 756
           +      L   L  C          I  + P + +  L  +       +           
Sbjct: 367 VSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYL----------- 415

Query: 757 GSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISI---MPRLSSLTI 813
                +P      + V     L+ L +         +  +T K    I     ++  L++
Sbjct: 416 ---TLEPLDIGFGAIVEHCKDLRRLSL---------SGLLTDKVFEYIGTYAKKMEMLSV 463

Query: 814 WYCPRLRVLPDYLFQS-TTLQKLSISYCPIMEE--LRILEDHRTTDIPRLSSLEIEYC 868
            +     +   ++     +L+KL I  CP  ++  L             + SL +  C
Sbjct: 464 AFAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASKL-----ETMRSLWMSSC 516

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 42.2 bits (99), Expect = 7e-04
 Identities = 74/476 (15%), Positives = 147/476 (30%), Gaps = 83/476 (17%)

Query: 461 SIHGLNRLRTLLIYFQSPSNPSLNSSI--LSEL----FSKLACFRALVIGQRNFIFDPYP 514
            I    R +  +    + S  ++      +  +        A F  +  G   +++    
Sbjct: 39  EIERWCRRKVFIGNCYAVSPATVIRRFPKVRSVELKGKPHFADFNLVPDGWGGYVYP--- 95

Query: 515 NLIREIPENVRKL--IHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRE--LPAG 570
             I  +  +   L  I LK + +++ C+E + K+     N + L +  CE      L A 
Sbjct: 96  -WIEAMSSSYTWLEEIRLKRMVVTDDCLELIAKSFK---NFKVLVLSSCEGFSTDGLAAI 151

Query: 571 IGKLKKMRSLLNGGTPLLKYMPIGISKL----TSLRTLEKFAMGGGVDDIS----TCRLE 622
               + ++ L    + +       +S      TSL +L    +   V   +      R  
Sbjct: 152 AATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCP 211

Query: 623 SLKNLQL------------------LRECGIEGLSNVSHLDEDERLG--LHNMKNLLRLS 662
           +LK+L+L                  L E G  G +     D    L   L   K L  LS
Sbjct: 212 NLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLS 271

Query: 663 LEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCV- 721
             F +           +   L   LN+    + SY        L     L+ L +   + 
Sbjct: 272 G-FWDAVPAYLPAVYSVCSRLT-TLNLSYATVQSYDLVKL---LCQCPKLQRLWVLDYIE 326

Query: 722 ------ICEHFPPLGKLPLEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSS-------- 767
                 +      L +L +     + +     +  +  G+   S   P   S        
Sbjct: 327 DAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQ--GLVSVSMGCPKLESVLYFCRQM 384

Query: 768 SSSSVIAF----PKLKSLHIGAME--ELEEWNYRITRKENISIM---PRLSSLTIWYCPR 818
           +++++I      P +    +  +E    +            +I+     L  L++     
Sbjct: 385 TNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLT 444

Query: 819 LRVLPDYLFQSTTLQKLSISYCPIMEE--LRILEDHRTTDIPRLSSLEIEYCPKLN 872
            +V       +  ++ LS+++    +     +L          L  LEI  CP  +
Sbjct: 445 DKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGC-----DSLRKLEIRDCPFGD 495

>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 = 41.9 bits (99), Expect = 6e-04
 Identities = 33/157 (21%), Positives = 57/157 (36%), Gaps = 22/157 (14%)

Query: 515 NLIREIPENV-RKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGI- 571
           N I  +P    R   +L  L L    + R+       L  L++LD+     LR +     
Sbjct: 42  NRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATF 101

Query: 572 GKLKKMRSL-LNGGTPLLKYMPIGI-SKLTSLRTLEKFAMGG-GVDDISTCRLESLKNLQ 628
             L ++ +L L+     L+ +  G+   L +L+ L    +    +  +       L NL 
Sbjct: 102 HGLGRLHTLHLDRC--GLQELGPGLFRGLAALQYLY---LQDNALQALPDDTFRDLGNLT 156

Query: 629 LLRECGIEGLSN--VSHLDEDERLGLHNMKNLLRLSL 663
            L       L    +S + E        + +L RL L
Sbjct: 157 HLF------LHGNRISSVPER---AFRGLHSLDRLLL 184

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	876
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.97
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.97
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.97
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.97
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.96
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.96
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.96
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.96
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.96
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.96
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.96
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.96
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.95
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.95
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.95
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.95
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.95
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.95
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.94
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.94
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.94
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.94
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.94
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	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
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.93
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.92
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.92
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.92
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.92
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.91
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.91
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.91
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.91
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.9
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.9
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.9
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.9
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.89
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.89
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.89
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.89
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.88
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.87
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.87
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.86
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.86
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.85
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.84
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.82
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.81
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.81
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.81
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.8
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.8
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.79
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.78
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.78
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	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	99.77
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.76
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.76
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.76
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.76
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.75
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.74
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.72
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.72
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.72
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.71
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.69
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.69
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.67
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.67
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.64
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.63
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.63
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.63
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.62
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.62
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.61
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.61
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.6
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.6
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.59
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.57
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.57
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.56
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.56
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.55
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.52
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.52
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.52
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.49
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.49
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.47
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.47
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.45
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.45
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.44
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.44
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.43
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.43
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.42
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.42
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.42
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.41
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.4
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.39
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.38
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.35
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.35
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.32
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.32
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.31
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.31
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.3
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.3
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.29
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.26
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.25
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.25
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.23
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.21
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.2
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.2
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.18
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.17
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.13
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.13
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.12
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.09
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.06
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.99
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.95
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.93
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.93
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.89
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.86
2fna_A	357	Conserved hypothetical protein; structural genomic	98.82
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.81
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.79
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.74
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.72
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.66
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.61
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.6
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.58
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.58
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.56
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.54
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.53
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.46
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.42
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	98.41
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.4
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.38
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.28
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.23
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.12
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.09
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.06
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.06
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.03
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.99
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.91
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.89
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.87
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.83
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.81
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.8
3bos_A	242	Putative DNA replication factor; P-loop containing	97.79
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.78
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.7
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.64
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.62
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.61
3co5_A	143	Putative two-component system transcriptional RES	97.52
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.41
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.35
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.32
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.3
3pvs_A	447	Replication-associated recombination protein A; ma	97.3
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.2
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.19
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.18
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.14
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.05
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.04
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.0
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	96.99
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.97
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	96.96
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.93
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.92
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.91
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.84
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.83
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.76
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	96.63
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.47
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	96.26
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.25
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.18
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.13
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.97
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.92
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.78
2qgz_A	308	Helicase loader, putative primosome component; str	95.71
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.66
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	95.52
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.51
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.36
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.06
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	94.95
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	94.87
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.76
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	94.7
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.64
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	94.51
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	94.51
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	94.48
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	94.4
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	94.33
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	94.3
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	94.24
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	94.24
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	94.21
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	94.2
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	94.16
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	94.14
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	94.03
2r44_A	331	Uncharacterized protein; putative ATPase, structur	93.99
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	93.96
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	93.92
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	93.88
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	93.84
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	93.81
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	93.8
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	93.78
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	93.76
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	93.7
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	93.68
3fwy_A	314	Light-independent protochlorophyllide reductase I	93.67
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	93.65
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	93.6
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	93.58
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	93.58
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	93.58
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	93.57
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	93.57
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	93.56
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	93.52
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	93.51
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	93.49
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	93.48
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	93.46
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	93.42
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	93.41
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	93.37
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	93.37
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	93.37
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	93.37
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	93.36
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	93.28
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	93.25
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	93.23
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	93.23
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	93.22
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	93.21
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	93.18
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	93.17
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	93.15
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	93.15
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	93.1
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	93.08
1via_A	175	Shikimate kinase; structural genomics, transferase	93.04
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	93.03
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	92.98
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	92.98
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	92.96
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	92.93
2cvh_A	220	DNA repair and recombination protein RADB; filamen	92.93
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	92.89
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	92.88
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	92.86
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	92.86
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	92.79
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	92.75
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	92.7
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	92.69
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	92.65
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	92.6
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	92.59
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	92.58
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	92.55
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	92.51
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	92.47
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	92.47
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	92.44
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	92.42
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	92.4
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	92.36
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	92.36
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	92.34
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	92.25
2hf9_A	226	Probable hydrogenase nickel incorporation protein	92.22
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	92.21
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	92.19
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	92.18
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	92.17
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	92.17
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	92.13
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	92.12
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	92.09
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	92.09
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	92.09
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	92.08
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	92.07
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	92.05
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	92.02
4a74_A	231	DNA repair and recombination protein RADA; hydrola	91.98
2vli_A	183	Antibiotic resistance protein; transferase, tunica	91.97
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	91.97
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	91.89
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	91.85
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	91.81
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	91.77
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	91.77
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	91.71
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	91.71
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	91.7
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	91.69
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	91.64
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	91.52
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	91.51
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	91.47
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	91.46
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	91.4
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	91.37
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	91.35
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	91.29
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	91.28
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	91.23
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	91.19
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	91.18
3end_A	307	Light-independent protochlorophyllide reductase ir	91.18
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	91.17
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	91.17
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	91.14
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	91.08
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	91.08
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	91.03
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	91.03
2xxa_A	433	Signal recognition particle protein; protein trans	90.98
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	90.94
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	90.93
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	90.92
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	90.9
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	90.86
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	90.83
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	90.81
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	90.75
2ged_A	193	SR-beta, signal recognition particle receptor beta	90.75
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	90.72
1b0u_A	262	Histidine permease; ABC transporter, transport pro	90.71
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	90.6
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	90.54
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	90.44
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	90.4
2og2_A	359	Putative signal recognition particle receptor; nuc	90.34
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	90.33
2z43_A	324	DNA repair and recombination protein RADA; archaea	90.29
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	90.28
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	90.28
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	90.27
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	90.26
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	90.23
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	90.22
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	90.12
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	90.09
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	90.06
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	90.05
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	90.03
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	90.02
1ji0_A	240	ABC transporter; ATP binding protein, structural g	90.01
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	90.0
1sgw_A	214	Putative ABC transporter; structural genomics, P p	89.97
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	89.95
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	89.95
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	89.93
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	89.91
1g6h_A	257	High-affinity branched-chain amino acid transport	89.91
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	89.85
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	89.73
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	89.71
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	89.7
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	89.69
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	89.69
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	89.63
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	89.63
2wji_A	165	Ferrous iron transport protein B homolog; membrane	89.62
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	89.62
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	89.62
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	89.61
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	89.59
2ghi_A	260	Transport protein; multidrug resistance protein, M	89.55
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	89.5
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	89.46
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	89.46
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	89.46
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	89.4
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	89.37
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	89.28
1tue_A	212	Replication protein E1; helicase, replication, E1E	89.25
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	89.23
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	89.22
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	89.21
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	89.12
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	89.1
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	89.03
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	88.97
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	88.97
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	88.94
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	88.92
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	88.91
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	88.89
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	88.88
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	88.87
2eyu_A	261	Twitching motility protein PILT; pilus retraction	88.78
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	88.77
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	88.75
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	88.71
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	88.67
1u94_A	356	RECA protein, recombinase A; homologous recombinat	88.67
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	88.66
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	88.63
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	88.61
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	88.6
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	88.58
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	88.56
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	88.54
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	88.15
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	88.1
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	88.07
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	88.05
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	88.0
3kta_A	182	Chromosome segregation protein SMC; structural mai	87.97
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	87.95
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	87.91
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	87.87
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	87.86
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	87.57
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	87.56
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	87.51
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	87.45
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	87.35
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	87.26
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	87.23
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	87.13
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	87.1
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	87.1
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	87.1
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	87.09
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	87.08
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	87.05
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	87.01
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	87.01
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	87.0
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	86.94
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	86.93
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	86.88
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	86.85
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	86.78
1nrj_B	218	SR-beta, signal recognition particle receptor beta	86.7
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	86.66
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	86.65
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	86.63
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	86.61
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	86.57
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	86.56
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	86.55
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	86.54
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	86.5
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	86.46
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	86.45
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	86.42
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	86.41
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	86.39
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	86.33
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	86.3
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	86.3
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	86.29
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	86.21
3llu_A	196	RAS-related GTP-binding protein C; structural geno	86.19
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	86.16

>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=9.2e-43  Score=401.12  Aligned_cols=277  Identities=19%  Similarity=0.248  Sum_probs=214.9

Q ss_pred             eeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc--CccccccCCeEEEEEeCCch--hHHHHHHHH
Q 042981          127 CGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN--NDEVKRNFEKVIWVCVSDTF--EEIRVANAI  202 (876)
Q Consensus       127 vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~--~~~~~~~F~~~~wv~vs~~~--~~~~~~~~i  202 (876)
                      |||++++++|.++|....   +...+||+||||||+||||||++||+  +.+++.+|++++||++++.+  +...+++.|
T Consensus       131 ~GR~~~~~~l~~~L~~~~---~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~i  207 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMC---DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDI  207 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHT---TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhccc---CCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHH
Confidence            699999999999997643   23689999999999999999999998  67899999999999999974  666666665


Q ss_pred             HHh--------------------------------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchHHHH
Q 042981          203 IEG--------------------------------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVAR  244 (876)
Q Consensus       203 ~~~--------------------------------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~v~~  244 (876)
                      +.+                                      |||||+.+...|..        .+||+||||||++.|+.
T Consensus       208 l~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~~~~~--------~~gs~ilvTTR~~~v~~  279 (549)
T 2a5y_B          208 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ--------ELRLRCLVTTRDVEISN  279 (549)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH--------HTTCEEEEEESBGGGGG
T ss_pred             HHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhhcccc--------cCCCEEEEEcCCHHHHH
Confidence            542                                      78888753212221        16999999999999999


Q ss_pred             hhC-CcceEeCCCCCcccc--ccCCC-c--CCccchHHHHHHHHHHcCCCchHHHHhhhhhcCCccHHHHHHHhhhhhcc
Q 042981          245 MMG-STNIIFIEQLTEEES--FSGRS-F--EDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEMWK  318 (876)
Q Consensus       245 ~~~-~~~~~~l~~L~~~~~--~f~~~-~--~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L~~~~~~~~w~~~~~~~~~~  318 (876)
                      .++ ...+|+|++|+.+||  +|... .  ...+.+.+++++|+++|+|+||||+++|+.|+.+.  .+|...+.+..+.
T Consensus       280 ~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~--w~~~~~l~~~l~~  357 (549)
T 2a5y_B          280 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT--FEKMAQLNNKLES  357 (549)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS--HHHHHHHHHHHHH
T ss_pred             HcCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhccch--HHHHHHhHHHhhc
Confidence            876 447899999999999  44322 2  22367889999999999999999999999998773  3444444444333


Q ss_pred             ccccCCcchhhHhhcccCCCCchhHHHHHh-----------HhccCCCCceeChHHHHHHHHHc--CccccCC-ChhHHH
Q 042981          319 VEEIGQGLFAPLLLSYNDLPSNSMVKRCFS-----------YCAIFPKEYNIKKKELISLWMVQ--GYLNVEE-DEEIEM  384 (876)
Q Consensus       319 ~~~~~~~~~~~l~~sy~~L~~~~~lk~cfl-----------y~~~fp~~~~i~~~~li~~W~ae--g~i~~~~-~~~~e~  384 (876)
                      .  ....+.+++.+||++||+  ++|.||+           |||+||+++.|+    +++|+|+  ||+...+ +..+++
T Consensus       358 ~--~~~~i~~~l~~Sy~~L~~--~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~~  429 (549)
T 2a5y_B          358 R--GLVGVECITPYSYKSLAM--ALQRCVEVLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDDE  429 (549)
T ss_dssp             H--CSSTTCCCSSSSSSSHHH--HHHHHHHTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCTHH
T ss_pred             c--cHHHHHHHHhcccccccH--HHHHHHhccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCHHH
Confidence            2  245689999999999999  9999999           999999999999    8999999  9998766 577888


Q ss_pred             HHHhhhhh----cccccCCCCCCcceEEcChHHHHHHHHhcccceE
Q 042981          385 TGEEYFNI----SKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKECL  426 (876)
Q Consensus       385 ~~~~~~~~----~~~~~~~~~~~~~~~~mHdlv~dla~~i~~~e~~  426 (876)
                      +++ ||++    ..+.....+... +|+|||+|||+|++++.+++.
T Consensus       430 ~~~-~l~~L~~rsLl~~~~~~~~~-~~~mHdlv~~~a~~~~~~~~~  473 (549)
T 2a5y_B          430 VAD-RLKRLSKRGALLSGKRMPVL-TFKIDHIIHMFLKHVVDAQTI  473 (549)
T ss_dssp             HHH-HHHHTTTBSSCSEEECSSSC-EEECCHHHHHHHHTTSCTHHH
T ss_pred             HHH-HHHHHHHcCCeeEecCCCce-EEEeChHHHHHHHHHHHHHHH
Confidence            888 9987    111111112334 899999999999999988764

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=100.00  E-value=1.1e-34  Score=335.19  Aligned_cols=250  Identities=19%  Similarity=0.229  Sum_probs=192.5

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCe-EEEEEeCCchhHHHHHHHHH
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEK-VIWVCVSDTFEEIRVANAII  203 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~-~~wv~vs~~~~~~~~~~~i~  203 (876)
                      ..|||++++++|.++|....     ..+||+|+||||+||||||+++|++.+++.+|+. ++||++++.++...++..++
T Consensus       129 ~~VGRe~eLeeL~elL~~~d-----~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll  203 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELR-----PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ  203 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCC-----SSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccC-----CCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHH
Confidence            35999999999999998532     4789999999999999999999998889999996 99999998876654433222


Q ss_pred             H---------------------------------------h-----ccccccCCccChhhHHhhhccCCCCCEEEEEcCc
Q 042981          204 E---------------------------------------G-----LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN  239 (876)
Q Consensus       204 ~---------------------------------------~-----lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~  239 (876)
                      +                                       .     |||||+.  +.|+.+    +   .||+||||||+
T Consensus       204 ~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~--eqLe~f----~---pGSRILVTTRd  274 (1221)
T 1vt4_I          204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA--KAWNAF----N---LSCKILLTTRF  274 (1221)
T ss_dssp             HHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCH--HHHHHH----H---SSCCEEEECSC
T ss_pred             HHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChH--HHHHhh----C---CCeEEEEeccC
Confidence            1                                       0     8999983  355543    2   69999999999


Q ss_pred             hHHHHhhCCcceEeCC------CCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHHHHhhhhhcCCc-cHHHHHH
Q 042981          240 ESVARMMGSTNIIFIE------QLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKS-ILKEWQK  310 (876)
Q Consensus       240 ~~v~~~~~~~~~~~l~------~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L~~~~-~~~~w~~  310 (876)
                      +.++..+.....|+++      +|+.+||  +|......  ...++..+|   |+|+||||+++|+.|+.+. ..++|+.
T Consensus       275 ~~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~--~~eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~  349 (1221)
T 1vt4_I          275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC--RPQDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKH  349 (1221)
T ss_dssp             SHHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHHCC--CTTTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHH
T ss_pred             hHHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHcCC--CHHHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhc
Confidence            9999765544567777      8999999  45332211  123334444   9999999999999999873 5788976


Q ss_pred             HhhhhhccccccCCcchhhHhhcccCCCCchhH-HHHHhHhccCCCCceeChHHHHHHHHHcCccccCCChhHHHHHHhh
Q 042981          311 TLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMV-KRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEEY  389 (876)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~l-k~cfly~~~fp~~~~i~~~~li~~W~aeg~i~~~~~~~~e~~~~~~  389 (876)
                      .          ....+..+|.+||+.||+  +. |.||+|||+||+++.|+++.++.+|+++|.          +.++.+
T Consensus       350 ~----------~~~~I~aaLelSYd~Lp~--eelK~cFL~LAIFPed~~I~~elLa~LW~aeGe----------edAe~~  407 (1221)
T 1vt4_I          350 V----------NCDKLTTIIESSLNVLEP--AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK----------SDVMVV  407 (1221)
T ss_dssp             C----------SCHHHHHHHHHHHHHSCT--THHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCS----------HHHHHH
T ss_pred             C----------ChhHHHHHHHHHHHhCCH--HHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCH----------HHHHHH
Confidence            4          124689999999999999  78 999999999999999999999999999881          235566


Q ss_pred             hhh----cccccCCCCCCcceEEcChHHHHHHH
Q 042981          390 FNI----SKFKKDDDDDDIMSCKMHDIVHDFAQ  418 (876)
Q Consensus       390 ~~~----~~~~~~~~~~~~~~~~mHdlv~dla~  418 (876)
                      +++    ..+..  .+... +|+|||++++++.
T Consensus       408 L~eLvdRSLLq~--d~~~~-rYrMHDLllELr~  437 (1221)
T 1vt4_I          408 VNKLHKYSLVEK--QPKES-TISIPSIYLELKV  437 (1221)
T ss_dssp             HHHHHTSSSSSB--CSSSS-EEBCCCHHHHHHH
T ss_pred             HHHHHhhCCEEE--eCCCC-EEEehHHHHHHhc
Confidence            665    22222  23334 8999999999763

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=99.97  E-value=1.5e-32  Score=351.36  Aligned_cols=274  Identities=24%  Similarity=0.309  Sum_probs=206.5

Q ss_pred             cCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc-cccC-CeEEEEEeCCchh--HHH
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV-KRNF-EKVIWVCVSDTFE--EIR  197 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~F-~~~~wv~vs~~~~--~~~  197 (876)
                      ....||||++++++|.++|....    ...++|+|+||||+||||||+++|++.+. ..+| +.++||++++..+  ...
T Consensus       122 ~~~~~vgR~~~~~~l~~~l~~~~----~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~  197 (1249)
T 3sfz_A          122 RPVIFVTRKKLVHAIQQKLWKLN----GEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLM  197 (1249)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHTTT----TSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHH
T ss_pred             CCceeccHHHHHHHHHHHHhhcc----CCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHH
Confidence            34569999999999999997543    36899999999999999999999997544 4555 6788999998533  222


Q ss_pred             HHHHHHHh------------------------------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH
Q 042981          198 VANAIIEG------------------------------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES  241 (876)
Q Consensus       198 ~~~~i~~~------------------------------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~  241 (876)
                      .+..++..                                    |||||+.  ..|+.       ..+||+||||||++.
T Consensus       198 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~--~~~~~-------~~~~~~ilvTtR~~~  268 (1249)
T 3sfz_A          198 KLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP--WVLKA-------FDNQCQILLTTRDKS  268 (1249)
T ss_dssp             HHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCH--HHHTT-------TCSSCEEEEEESSTT
T ss_pred             HHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCH--HHHHh-------hcCCCEEEEEcCCHH
Confidence            22222211                                    8999975  23433       257999999999999


Q ss_pred             HHHh-hCCcceEeCCC-CCcccc--ccCCC-cCCccchHHHHHHHHHHcCCCchHHHHhhhhhcCCccHHHHHHHhhhhh
Q 042981          242 VARM-MGSTNIIFIEQ-LTEEES--FSGRS-FEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSEM  316 (876)
Q Consensus       242 v~~~-~~~~~~~~l~~-L~~~~~--~f~~~-~~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L~~~~~~~~w~~~~~~~~  316 (876)
                      |+.. ++....+++++ |+++|+  +|... ....+.+.+++++|+++|+|+||||+++|++|+.+.  ..|..+++...
T Consensus       269 ~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~l~~l~  346 (1249)
T 3sfz_A          269 VTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRWAYYLRQLQ  346 (1249)
T ss_dssp             TTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSCSTTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHHHHHHH
T ss_pred             HHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCChhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHHHHHHh
Confidence            9954 45678999996 999999  44321 233455677899999999999999999999998875  35776665432


Q ss_pred             ccc----cc----cCCcchhhHhhcccCCCCchhHHHHHhHhccCCCCceeChHHHHHHHHHcCccccCCChhHHHHHHh
Q 042981          317 WKV----EE----IGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGEE  388 (876)
Q Consensus       317 ~~~----~~----~~~~~~~~l~~sy~~L~~~~~lk~cfly~~~fp~~~~i~~~~li~~W~aeg~i~~~~~~~~e~~~~~  388 (876)
                      ...    ..    ..+.+..++.+||+.||+  +.|.||+|||+||+++.|++..++.+|.+++           +.++.
T Consensus       347 ~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~--~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~-----------~~~~~  413 (1249)
T 3sfz_A          347 NKQFKRIRKSSSYDYEALDEAMSISVEMLRE--DIKDYYTDLSILQKDVKVPTKVLCVLWDLET-----------EEVED  413 (1249)
T ss_dssp             SCCCCCSSCTTCTTHHHHHHHHHHHHHTSCT--TTHHHHHHGGGSCTTCCEEHHHHHHHHTCCH-----------HHHHH
T ss_pred             hhhhhhcccccccchHHHHHHHHHHHHhCCH--HHHHHHHHhCccCCCCeeCHHHHHHHhCCCH-----------HHHHH
Confidence            221    11    113588999999999999  8999999999999999999999999997752           33445


Q ss_pred             hhhh----cccccCCCCCCcceEEcChHHHHHHHHhcccc
Q 042981          389 YFNI----SKFKKDDDDDDIMSCKMHDIVHDFAQFVSRKE  424 (876)
Q Consensus       389 ~~~~----~~~~~~~~~~~~~~~~mHdlv~dla~~i~~~e  424 (876)
                      ++++    ..+....++... +|+|||+||++++..+.++
T Consensus       414 ~l~~L~~~sl~~~~~~~~~~-~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          414 ILQEFVNKSLLFCNRNGKSF-CYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             HHHHHHHTTSCEEEESSSSE-EEECCHHHHHHHHHHTGGG
T ss_pred             HHHHHHhccceEEecCCCce-EEEecHHHHHHHHhhhhHH
Confidence            5544    333333345545 7999999999999988776

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.97  E-value=3.3e-30  Score=303.39  Aligned_cols=403  Identities=15%  Similarity=0.111  Sum_probs=232.1

Q ss_pred             CCCceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          441 FGDKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       441 ~~~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      .+..+++|+++.|.+..+ +..|.++++|++|++.+|.      ...+.+..|.++++|++|+|         ++|.+..
T Consensus        30 ~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~------l~~i~~~~~~~l~~L~~L~L---------s~n~l~~   94 (606)
T 3vq2_A           30 IPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCE------IETIEDKAWHGLHHLSNLIL---------TGNPIQS   94 (606)
T ss_dssp             SCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC------CCEECTTTTTTCTTCCEEEC---------TTCCCCC
T ss_pred             CCCCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCc------ccccCHHHhhchhhcCEeEC---------CCCcccc
Confidence            367899999999998877 4488999999999997775      34455666899999999999         7777777


Q ss_pred             c-ccccccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCc-cccccccCcCCCceEecCCCCCCccCCccCC
Q 042981          520 I-PENVRKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLR-ELPAGIGKLKKMRSLLNGGTPLLKYMPIGIS  596 (876)
Q Consensus       520 l-p~~i~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~-~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~  596 (876)
                      + |..|+++++|++|+|++|.++.+| ..++++++|++|++++|.... .+|..++++++|++|++++|.+.+..|..++
T Consensus        95 ~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~l~~~~~~~~~  174 (606)
T 3vq2_A           95 FSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQ  174 (606)
T ss_dssp             CCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSCCCEECTTTTH
T ss_pred             cChhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccCCcceecChhhhh
Confidence            6 778999999999999999998877 679999999999999995443 5789999999999999999987666666565


Q ss_pred             CCCCCCc----cC--------------------ceeecCcc---------------------------------------
Q 042981          597 KLTSLRT----LE--------------------KFAMGGGV---------------------------------------  613 (876)
Q Consensus       597 ~l~~L~~----L~--------------------~~~~~~~~---------------------------------------  613 (876)
                      .+++|+.    |.                    ...+....                                       
T Consensus       175 ~l~~L~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~l~~~~~~~  254 (606)
T 3vq2_A          175 FLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSI  254 (606)
T ss_dssp             HHHHCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESCCSCHHHHHHHHHTTTTCEEEEEEEECCTTSCCCSCCCGGG
T ss_pred             hhhccccccceeeccCCCcceeCcccccCceeeeeeccCCccchhHHHHHhccccccccccccccccccCCcccccChHH
Confidence            5554432    11                    00000000                                       


Q ss_pred             -----------------CCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccch-
Q 042981          614 -----------------DDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRK-  675 (876)
Q Consensus       614 -----------------~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~-  675 (876)
                                       ..+.+ .+..+..+++|+.|++++... ..+    + .+..+++|+.|++++|.+....... 
T Consensus       255 ~~~l~~l~l~~l~l~~~~~~~~-~~~~~~~l~~L~~L~l~~~~~-~~l----~-~l~~~~~L~~L~l~~n~l~~lp~~~l  327 (606)
T 3vq2_A          255 MEGLCDVTIDEFRLTYTNDFSD-DIVKFHCLANVSAMSLAGVSI-KYL----E-DVPKHFKWQSLSIIRCQLKQFPTLDL  327 (606)
T ss_dssp             GTTGGGSEEEEEEECCCTTCCG-GGGSCGGGTTCSEEEEESCCC-CCC----C-CCCTTCCCSEEEEESCCCSSCCCCCC
T ss_pred             hhhhhhccHhheeccccccccc-cccccccCCCCCEEEecCccc-hhh----h-hccccccCCEEEcccccCcccccCCC
Confidence                             00000 000122334444444443211 111    0 2334444444444444331100000 


Q ss_pred             -----------HHHHHhhCCCCCCccEEEEeecCCCCC---CchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeec
Q 042981          676 -----------NQQLLEALQPPLNVKELGIVSYGGNIF---PKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLY  740 (876)
Q Consensus       676 -----------~~~~~~~l~~~~~L~~L~l~~~~~~~l---p~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~  740 (876)
                                 .......+..+++|+.|+++++....+   |..+..+++|++|+|++|.+.+..+.++.++ |+.|+++
T Consensus       328 ~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~  407 (606)
T 3vq2_A          328 PFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQ  407 (606)
T ss_dssp             SSCCEEEEESCSSCEECCCCCCTTCCEEECCSSCEEEEEECCHHHHCCSCCCEEECCSCSEEEECCCCTTCTTCCEEECT
T ss_pred             CccceeeccCCcCccchhhccCCCCCEEECcCCccCCCcchhhhhccCCcccEeECCCCccccchhhccCCCCCCeeECC
Confidence                       000000222344555555554443322   4445555556666666555443223455555 6666665


Q ss_pred             CCCCceEeC-cccccCCCCCCCCCCCCCC----CcccccCcccceeeccccccccccccccccccccCcccccceeeecc
Q 042981          741 GLYGVKRVG-NEFLGIEGSSEDDPSSSSS----SSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWY  815 (876)
Q Consensus       741 ~~~~l~~~~-~~~~~~~~l~~~~~~~~~~----~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~  815 (876)
                      +|......+ ..+.....+..++++.+.+    +..+..+++|++|+++++. +....    .+..+..+++|+.|++++
T Consensus       408 ~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~----~~~~~~~l~~L~~L~Ls~  482 (606)
T 3vq2_A          408 HSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNS-FKDNT----LSNVFANTTNLTFLDLSK  482 (606)
T ss_dssp             TSEEESTTTTTTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCE-EGGGE----ECSCCTTCTTCCEEECTT
T ss_pred             CCccCCccChhhhhccccCCEEECcCCCCCccchhhhcCCCCCCEEECCCCc-CCCcc----hHHhhccCCCCCEEECCC
Confidence            554332222 2333344444444443332    2334556666666665552 22211    134455667777777777


Q ss_pred             CccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCCCCCCC
Q 042981          816 CPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLP  875 (876)
Q Consensus       816 c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~~lP  875 (876)
                      |......|..+..+++|++|++++|+.....+.    .+..+++|++|++++| +++++|
T Consensus       483 n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~----~~~~l~~L~~L~l~~N-~l~~~p  537 (606)
T 3vq2_A          483 CQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSS----HYNQLYSLSTLDCSFN-RIETSK  537 (606)
T ss_dssp             SCCCEECTTTTTTCTTCCEEECCSSCCSCEEGG----GTTTCTTCCEEECTTS-CCCCEE
T ss_pred             CcCCccChhhhcccccCCEEECCCCcCCCcCHH----HccCCCcCCEEECCCC-cCcccC
Confidence            754445556666677777777777754432221    3556666666666666 355555

>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=99.97  E-value=1.4e-30  Score=313.58  Aligned_cols=407  Identities=17%  Similarity=0.095  Sum_probs=265.5

Q ss_pred             CCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccc------------
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFI------------  509 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~------------  509 (876)
                      ..++++|+++.|.+...++.+.++++|++|++.+|.     + ....+..+..+++|++|++++|.+.            
T Consensus       199 l~~L~~L~Ls~n~l~~~~~~l~~l~~L~~L~Ls~n~-----l-~~~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~  272 (768)
T 3rgz_A          199 CVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNK-----L-SGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQ  272 (768)
T ss_dssp             CTTCCEEECCSSCCCSCCCBCTTCCSCCEEECCSSC-----C-CSCHHHHTTTCSSCCEEECCSSCCEESCCCCCCTTCC
T ss_pred             CCcCCEEECcCCcCCCCCcccccCCCCCEEECcCCc-----C-CCcccHHHhcCCCCCEEECCCCcccCccCccccCCCC
Confidence            456778888877776554447778888888886654     2 2223444677777777777666552            


Q ss_pred             -cCCCCCccc-ccccccccC-cccCeeeccCcccc-ccchhhccCCcccEEeecCCCCCcccccc-ccCcCCCceEecCC
Q 042981          510 -FDPYPNLIR-EIPENVRKL-IHLKYLNLSELCIE-RLPKTLCELYNLQKLDIRWCEDLRELPAG-IGKLKKMRSLLNGG  584 (876)
Q Consensus       510 -~~~~~~~i~-~lp~~i~~L-~~Lr~L~Ls~~~i~-~lp~~i~~L~~L~~L~L~~~~~l~~lp~~-i~~L~~L~~L~l~~  584 (876)
                       ++.++|.+. .+|..+..+ ++|++|+|++|.++ .+|..++++++|++|++++|...+.+|.. +.++++|++|++++
T Consensus       273 ~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~ip~~~l~~l~~L~~L~Ls~  352 (768)
T 3rgz_A          273 YLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSF  352 (768)
T ss_dssp             EEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCGGGGGCTTCCEEECCSSEEEEECCHHHHTTCTTCCEEECCS
T ss_pred             EEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccchHHhcCCCccEEECCCCcccCcCCHHHHhcCCCCCEEeCcC
Confidence             223444444 566666553 77777777777766 56667777777777777777544466655 66777777777777


Q ss_pred             CCCCccCCccCCCCC-CCCccCceeecCc----------------cCCCccccc-----cccccCCCCCCeeeeCcCCCC
Q 042981          585 TPLLKYMPIGISKLT-SLRTLEKFAMGGG----------------VDDISTCRL-----ESLKNLQLLRECGIEGLSNVS  642 (876)
Q Consensus       585 ~~~~~~~p~~i~~l~-~L~~L~~~~~~~~----------------~~~ls~~~l-----~~L~~L~~L~~L~l~~~~~~~  642 (876)
                      |.+.+.+|..+++++ +|++|......-.                .-+++.+.+     ..+.++++|+.|+++++    
T Consensus       353 n~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          353 NEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFN----  428 (768)
T ss_dssp             SEEEECCCTTHHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEEECCSSEEEEECCGGGGGCTTCCEEECCSS----
T ss_pred             CccCccccHHHHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEEECCCCccccccCHHHhcCCCCCEEECcCC----
Confidence            766556666665554 5555532111000                001122222     23556667777777662    


Q ss_pred             CcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCC-CCCchhhcccCCcEEEEecCC
Q 042981          643 HLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGN-IFPKWLTSLTNLRDLRLKSCV  721 (876)
Q Consensus       643 ~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~l~~l~~L~~L~L~~~~  721 (876)
                      .+....+..+..+++|+.|+++.|.+.+.       ....+..+++|+.|++.+|... .+|.++..+++|++|+|++|+
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~  501 (768)
T 3rgz_A          429 YLSGTIPSSLGSLSKLRDLKLWLNMLEGE-------IPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNR  501 (768)
T ss_dssp             EEESCCCGGGGGCTTCCEEECCSSCCCSC-------CCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSC
T ss_pred             cccCcccHHHhcCCCCCEEECCCCcccCc-------CCHHHcCCCCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCc
Confidence            33334445567777788888877766422       1223445678888888888766 568888888899999999988


Q ss_pred             CCCCCCC-CCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCC----CC--------------------------
Q 042981          722 ICEHFPP-LGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSS----SS--------------------------  769 (876)
Q Consensus       722 ~~~~lp~-l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~----~~--------------------------  769 (876)
                      +.+.+|. ++.++ |+.|+|++|.....++..+.....+..++++.+.    +|                          
T Consensus       502 l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~  581 (768)
T 3rgz_A          502 LTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKND  581 (768)
T ss_dssp             CCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECC
T ss_pred             cCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCChHHhcccchhhhhccccccccccccc
Confidence            8876664 77888 9999998888776777666666665555554321    11                          


Q ss_pred             --------------------------------------------cccccCcccceeeccccccccccccccccccccCcc
Q 042981          770 --------------------------------------------SSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIM  805 (876)
Q Consensus       770 --------------------------------------------~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l  805 (876)
                                                                  ..+..+++|+.|+++++      .+.+..|..++.+
T Consensus       582 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N------~l~g~ip~~l~~l  655 (768)
T 3rgz_A          582 GMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYN------MLSGYIPKEIGSM  655 (768)
T ss_dssp             SCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSS------CCBSCCCGGGGGC
T ss_pred             cccccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEEECcCC------cccccCCHHHhcc
Confidence                                                        12333456666655554      3344456677888


Q ss_pred             cccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCCCCCCC
Q 042981          806 PRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLP  875 (876)
Q Consensus       806 ~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~~lP  875 (876)
                      ++|+.|+|++|.....+|..+.++++|+.|+|++|+..+.+|.    .+..+++|++|++++|+--..+|
T Consensus       656 ~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~----~l~~l~~L~~L~ls~N~l~g~iP  721 (768)
T 3rgz_A          656 PYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQ----AMSALTMLTEIDLSNNNLSGPIP  721 (768)
T ss_dssp             TTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEECCCG----GGGGCCCCSEEECCSSEEEEECC
T ss_pred             ccCCEEeCcCCccCCCCChHHhCCCCCCEEECCCCcccCcCCh----HHhCCCCCCEEECcCCcccccCC
Confidence            8888888888877778888888888888888888887766654    46778899999999885444555

>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=99.97  E-value=6.3e-31  Score=316.66  Aligned_cols=384  Identities=19%  Similarity=0.180  Sum_probs=271.0

Q ss_pred             CCceEEEEeeecCCC-CCcccccCC-CcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccc-
Q 042981          442 GDKVRHLGLNFEGGA-SFPMSIHGL-NRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR-  518 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~-~~~~~~~~~-~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~-  518 (876)
                      ..++++|+++.|.+. .+|..+... ++|++|++.+|.      .....+..+..+++|++|++         ++|.+. 
T Consensus       268 l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~------l~~~~p~~~~~l~~L~~L~L---------~~n~l~~  332 (768)
T 3rgz_A          268 LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNH------FYGAVPPFFGSCSLLESLAL---------SSNNFSG  332 (768)
T ss_dssp             CTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSE------EEECCCGGGGGCTTCCEEEC---------CSSEEEE
T ss_pred             cCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCc------CCCccchHHhcCCCccEEEC---------CCCcccC
Confidence            456777777777665 446555553 778888886654      22233444777888888888         666555 


Q ss_pred             ccccc-cccCcccCeeeccCcccc-ccchhhccCC-cccEEeecCCCCCccccccccC--cCCCceEecCCCCCCccCCc
Q 042981          519 EIPEN-VRKLIHLKYLNLSELCIE-RLPKTLCELY-NLQKLDIRWCEDLRELPAGIGK--LKKMRSLLNGGTPLLKYMPI  593 (876)
Q Consensus       519 ~lp~~-i~~L~~Lr~L~Ls~~~i~-~lp~~i~~L~-~L~~L~L~~~~~l~~lp~~i~~--L~~L~~L~l~~~~~~~~~p~  593 (876)
                      .+|.. ++++++|++|+|++|.++ .+|..+.++. +|++|++++|.....+|..+..  +++|++|++++|.+.+.+|.
T Consensus       333 ~ip~~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~p~  412 (768)
T 3rgz_A          333 ELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPP  412 (768)
T ss_dssp             ECCHHHHTTCTTCCEEECCSSEEEECCCTTHHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEEECCSSEEEEECCG
T ss_pred             cCCHHHHhcCCCCCEEeCcCCccCccccHHHHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEEECCCCccccccCH
Confidence            67755 778888888888888877 7787787776 7888888888665667776666  77888888888877777888


Q ss_pred             cCCCCCCCCccCceeecCccCCCccccc-----cccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccC
Q 042981          594 GISKLTSLRTLEKFAMGGGVDDISTCRL-----ESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEE  668 (876)
Q Consensus       594 ~i~~l~~L~~L~~~~~~~~~~~ls~~~l-----~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~  668 (876)
                      .++++++|+.|          +++.+.+     ..+..+++|+.|+++++    .+....+..+..+++|+.|++++|.+
T Consensus       413 ~l~~l~~L~~L----------~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n----~l~~~~p~~~~~l~~L~~L~L~~N~l  478 (768)
T 3rgz_A          413 TLSNCSELVSL----------HLSFNYLSGTIPSSLGSLSKLRDLKLWLN----MLEGEIPQELMYVKTLETLILDFNDL  478 (768)
T ss_dssp             GGGGCTTCCEE----------ECCSSEEESCCCGGGGGCTTCCEEECCSS----CCCSCCCGGGGGCTTCCEEECCSSCC
T ss_pred             HHhcCCCCCEE----------ECcCCcccCcccHHHhcCCCCCEEECCCC----cccCcCCHHHcCCCCceEEEecCCcc
Confidence            88888888877          3333333     34667788888888774    33334445577788888888888876


Q ss_pred             CccccchHHHHHhhCCCCCCccEEEEeecCCC-CCCchhhcccCCcEEEEecCCCCCCCCC-CCccc-CceEeecCCCCc
Q 042981          669 GEEGRRKNQQLLEALQPPLNVKELGIVSYGGN-IFPKWLTSLTNLRDLRLKSCVICEHFPP-LGKLP-LEKLTLYGLYGV  745 (876)
Q Consensus       669 ~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~l~~l~~L~~L~L~~~~~~~~lp~-l~~Lp-L~~L~L~~~~~l  745 (876)
                      .+..       ...+..+++|+.|++.+|... .+|.+++.+++|++|+|++|.+.+.+|. ++.++ |+.|++++|...
T Consensus       479 ~~~~-------p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~  551 (768)
T 3rgz_A          479 TGEI-------PSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFN  551 (768)
T ss_dssp             CSCC-------CGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEE
T ss_pred             cCcC-------CHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccC
Confidence            4221       223445678888888888766 5688888888888888888888766653 67788 888888877543


Q ss_pred             eEeCccc----------------------------------------------------------------------ccC
Q 042981          746 KRVGNEF----------------------------------------------------------------------LGI  755 (876)
Q Consensus       746 ~~~~~~~----------------------------------------------------------------------~~~  755 (876)
                      ..++..+                                                                      ...
T Consensus       552 g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l  631 (768)
T 3rgz_A          552 GTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNN  631 (768)
T ss_dssp             SBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSS
T ss_pred             CcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhcc
Confidence            2222211                                                                      112


Q ss_pred             CCCCCCCCCCC----CCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCC
Q 042981          756 EGSSEDDPSSS----SSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTT  831 (876)
Q Consensus       756 ~~l~~~~~~~~----~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~  831 (876)
                      ..+..++++.+    .+|..+..+++|+.|+++++      .+.+..|..++.+++|+.|+|++|.....+|..+.++++
T Consensus       632 ~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N------~l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~  705 (768)
T 3rgz_A          632 GSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHN------DISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTM  705 (768)
T ss_dssp             BCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSS------CCCSCCCGGGGGCTTCCEEECCSSCCEECCCGGGGGCCC
T ss_pred             ccccEEECcCCcccccCCHHHhccccCCEEeCcCC------ccCCCCChHHhCCCCCCEEECCCCcccCcCChHHhCCCC
Confidence            33444555543    45778889999999987765      445555788999999999999999877799999999999


Q ss_pred             ccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCCCC
Q 042981          832 LQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLN  872 (876)
Q Consensus       832 L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~  872 (876)
                      |+.|++++|+..+.+|..     +.+.++..+.+.+||.|.
T Consensus       706 L~~L~ls~N~l~g~iP~~-----~~~~~~~~~~~~gN~~Lc  741 (768)
T 3rgz_A          706 LTEIDLSNNNLSGPIPEM-----GQFETFPPAKFLNNPGLC  741 (768)
T ss_dssp             CSEEECCSSEEEEECCSS-----SSGGGSCGGGGCSCTEEE
T ss_pred             CCEEECcCCcccccCCCc-----hhhccCCHHHhcCCchhc
Confidence            999999999887777643     233344444566666554

>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=99.96  E-value=3e-29  Score=295.30  Aligned_cols=147  Identities=14%  Similarity=0.015  Sum_probs=115.6

Q ss_pred             CCCceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          441 FGDKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       441 ~~~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      .+..+++|++++|.+..+ +..|.++++|++|++.+|.      ...+.+..|.++++|++|+|         ++|.+..
T Consensus        31 l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~------i~~~~~~~~~~l~~L~~L~L---------s~n~l~~   95 (606)
T 3t6q_A           31 LPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQ------IYWIHEDTFQSQHRLDTLVL---------TANPLIF   95 (606)
T ss_dssp             SCTTCCEEECTTCCCSEECTTTSTTCTTCSEEECTTCC------CCEECTTTTTTCTTCCEEEC---------TTCCCSE
T ss_pred             CCCcCcEEEccCCccCcCChhHhccCccceEEECCCCc------cceeChhhccCccccCeeeC---------CCCcccc
Confidence            467899999999999877 6789999999999997775      33455666899999999999         6666665


Q ss_pred             c-ccccccCcccCeeeccCcccccc-chhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCC
Q 042981          520 I-PENVRKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISK  597 (876)
Q Consensus       520 l-p~~i~~L~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~  597 (876)
                      + |..++++++|++|+|++|.++.+ |..++++++|++|++++|.....-+..+..+++|++|++++|.+.+..|..++.
T Consensus        96 ~~~~~~~~l~~L~~L~L~~n~i~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~  175 (606)
T 3t6q_A           96 MAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSS  175 (606)
T ss_dssp             ECTTTTSSCTTCCEEECTTSCCSCGGGSCCTTCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSCCCEECHHHHHT
T ss_pred             cChhhhcccccccEeeccccCcccCCcchhccCCcccEEECCCCcccccCcccccCCcccCEEEcccCcccccChhhhhh
Confidence            4 66788899999999999998877 567888999999999988544322233455888999999888776666666777


Q ss_pred             CCCCC
Q 042981          598 LTSLR  602 (876)
Q Consensus       598 l~~L~  602 (876)
                      +++|+
T Consensus       176 l~~L~  180 (606)
T 3t6q_A          176 LQQAT  180 (606)
T ss_dssp             TTTCC
T ss_pred             hcccc
Confidence            77777

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.96  E-value=1.3e-29  Score=297.98  Aligned_cols=199  Identities=18%  Similarity=0.219  Sum_probs=138.6

Q ss_pred             CceEEEEeeecCCC-CCcccccCCCcceEEeeecCCC------C------------------------------------
Q 042981          443 DKVRHLGLNFEGGA-SFPMSIHGLNRLRTLLIYFQSP------S------------------------------------  479 (876)
Q Consensus       443 ~~lr~L~l~~~~~~-~~~~~~~~~~~Lr~L~l~~~~~------~------------------------------------  479 (876)
                      .+|+.|+++.+.+. .+|..+.++++|++|++++|..      .                                    
T Consensus        81 ~~V~~L~L~~~~l~g~lp~~l~~L~~L~~L~Ls~N~~~~~~~~~~~~~~~~~~~~~~~~~l~l~l~~~~l~~~~~~~~~~  160 (636)
T 4eco_A           81 GRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSD  160 (636)
T ss_dssp             CCEEEEECTTSCCEEEECGGGGGCTTCCEEESCCGGGGGTCCSBSTTSBCTTCCHHHHHHHHTHHHHHHTCCCGGGGSCH
T ss_pred             CCEEEEEecCcccCCcCChHHhcCccceEEECcCCccccCCccccccccccCchHHHHHHHHhhHHHhhhccCchhhHHH
Confidence            57889999888875 4588899999999999987731      0                                    


Q ss_pred             -------------------------------CCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc---------
Q 042981          480 -------------------------------NPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE---------  519 (876)
Q Consensus       480 -------------------------------~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~---------  519 (876)
                                                     .+.+.+ + +..+.++++|++|+|+         +|.+..         
T Consensus       161 ~~~~l~~~~l~~~~~~~~~~~~l~~l~l~~~~n~l~~-i-p~~l~~l~~L~~L~Ls---------~n~l~~~~~~~~~~~  229 (636)
T 4eco_A          161 LIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITF-V-SKAVMRLTKLRQFYMG---------NSPFVAENICEAWEN  229 (636)
T ss_dssp             HHHHHHHHCTTSCCCCCCCCCCCCTTTTTCCSCEEEE-E-CGGGGGCTTCCEEEEE---------SCCCCGGGBSSSCSC
T ss_pred             HHHHHhhcCccccccccccccchhhhhhccccCCCcc-C-CHHHhcccCCCEEECc---------CCccccccccccccc
Confidence                                           011222 3 3347888888888884         444444         


Q ss_pred             ---------cccccc--cCcccCeeeccCcccc-ccchhhccCCcccEEeecCCC-CCc-cccccccCc------CCCce
Q 042981          520 ---------IPENVR--KLIHLKYLNLSELCIE-RLPKTLCELYNLQKLDIRWCE-DLR-ELPAGIGKL------KKMRS  579 (876)
Q Consensus       520 ---------lp~~i~--~L~~Lr~L~Ls~~~i~-~lp~~i~~L~~L~~L~L~~~~-~l~-~lp~~i~~L------~~L~~  579 (876)
                               +|+.++  ++++|++|+|++|.+. .+|..++++++|++|++++|. ... .+|..++++      ++|++
T Consensus       230 ~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~  309 (636)
T 4eco_A          230 ENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQI  309 (636)
T ss_dssp             TTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCE
T ss_pred             cccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCE
Confidence                     888888  8888888888888755 788888888888888888886 444 688888776      88888


Q ss_pred             EecCCCCCCccCCc--cCCCCCCCCccCceeecCccCCCcccccc----ccccCCCCCCeeeeCcCCCCCcchhhhccCc
Q 042981          580 LLNGGTPLLKYMPI--GISKLTSLRTLEKFAMGGGVDDISTCRLE----SLKNLQLLRECGIEGLSNVSHLDEDERLGLH  653 (876)
Q Consensus       580 L~l~~~~~~~~~p~--~i~~l~~L~~L~~~~~~~~~~~ls~~~l~----~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~  653 (876)
                      |++++|.+. .+|.  .++++++|++|.          ++.+.+.    .+..+++|+.|+++++    .+. ..+..+.
T Consensus       310 L~L~~n~l~-~ip~~~~l~~l~~L~~L~----------L~~N~l~g~ip~~~~l~~L~~L~L~~N----~l~-~lp~~l~  373 (636)
T 4eco_A          310 IYIGYNNLK-TFPVETSLQKMKKLGMLE----------CLYNQLEGKLPAFGSEIKLASLNLAYN----QIT-EIPANFC  373 (636)
T ss_dssp             EECCSSCCS-SCCCHHHHTTCTTCCEEE----------CCSCCCEEECCCCEEEEEESEEECCSS----EEE-ECCTTSE
T ss_pred             EECCCCcCC-ccCchhhhccCCCCCEEe----------CcCCcCccchhhhCCCCCCCEEECCCC----ccc-cccHhhh
Confidence            888888775 7887  788888888873          3333332    4455566666666652    222 3334456


Q ss_pred             cccc-CCceEEEeccC
Q 042981          654 NMKN-LLRLSLEFDEE  668 (876)
Q Consensus       654 ~l~~-L~~L~L~~~~~  668 (876)
                      .+++ |+.|++++|.+
T Consensus       374 ~l~~~L~~L~Ls~N~l  389 (636)
T 4eco_A          374 GFTEQVENLSFAHNKL  389 (636)
T ss_dssp             EECTTCCEEECCSSCC
T ss_pred             hhcccCcEEEccCCcC
Confidence            6666 66666666655

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.96  E-value=2.2e-29  Score=294.68  Aligned_cols=269  Identities=23%  Similarity=0.281  Sum_probs=194.7

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc-cccC-CeEEEEEeCCchhHHHHHH
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV-KRNF-EKVIWVCVSDTFEEIRVAN  200 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~F-~~~~wv~vs~~~~~~~~~~  200 (876)
                      ...+|||+.++++|.++|....    ...++|+|+||||+||||||+++|++.++ +.+| +.++|++++.... ..+..
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~-~~~~~  197 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLK----GEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDK-SGLLM  197 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTST----TSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCH-HHHHH
T ss_pred             CCeecccHHHHHHHHHHHhccc----CCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCch-HHHHH
Confidence            4569999999999999997542    35789999999999999999999997666 7889 5899999987521 11111


Q ss_pred             HH-------------------------------HH---h-----ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH
Q 042981          201 AI-------------------------------IE---G-----LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES  241 (876)
Q Consensus       201 ~i-------------------------------~~---~-----lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~  241 (876)
                      .+                               +.   .     |||||+..     .+ ..+   ..|++||||||+..
T Consensus       198 ~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~-----~l-~~l---~~~~~ilvTsR~~~  268 (591)
T 1z6t_A          198 KLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSW-----VL-KAF---DSQCQILLTTRDKS  268 (591)
T ss_dssp             HHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHH-----HH-HTT---CSSCEEEEEESCGG
T ss_pred             HHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHH-----HH-HHh---cCCCeEEEECCCcH
Confidence            11                               10   1     89998632     22 222   56899999999999


Q ss_pred             HHHhhCCcceEeC---CCCCcccc--ccCCCc-CCccchHHHHHHHHHHcCCCchHHHHhhhhhcCCccHHHHHHHhhhh
Q 042981          242 VARMMGSTNIIFI---EQLTEEES--FSGRSF-EDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLDSE  315 (876)
Q Consensus       242 v~~~~~~~~~~~l---~~L~~~~~--~f~~~~-~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L~~~~~~~~w~~~~~~~  315 (876)
                      ++..++ ...+++   ++|+.+|+  +|.... ...+...+.+.+|+++|+|+||||+.+|+.|+.+.  ..|..+++..
T Consensus       269 ~~~~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~--~~w~~~l~~l  345 (591)
T 1z6t_A          269 VTDSVM-GPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFP--NRWEYYLKQL  345 (591)
T ss_dssp             GGTTCC-SCEEEEECCSSCCHHHHHHHHHHHHTSCGGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST--TCHHHHHHHH
T ss_pred             HHHhcC-CCceEeecCCCCCHHHHHHHHHHHhCCCcccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc--hhHHHHHHHH
Confidence            887654 334444   58999998  443221 12233456789999999999999999999998774  3687776643


Q ss_pred             hcccc--------ccCCcchhhHhhcccCCCCchhHHHHHhHhccCCCCceeChHHHHHHHHHcCccccCCChhHHHHHH
Q 042981          316 MWKVE--------EIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFPKEYNIKKKELISLWMVQGYLNVEEDEEIEMTGE  387 (876)
Q Consensus       316 ~~~~~--------~~~~~~~~~l~~sy~~L~~~~~lk~cfly~~~fp~~~~i~~~~li~~W~aeg~i~~~~~~~~e~~~~  387 (876)
                      .....        .....+..++..||+.||+  +.|.||++||+||+++.|+...++..|.+++           +.+.
T Consensus       346 ~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~--~~~~~l~~la~f~~~~~i~~~~l~~l~~~~~-----------~~~~  412 (591)
T 1z6t_A          346 QNKQFKRIRKSSSYDYEALDEAMSISVEMLRE--DIKDYYTDLSILQKDVKVPTKVLCILWDMET-----------EEVE  412 (591)
T ss_dssp             HSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCT--TTHHHHHHGGGCCTTCCEEHHHHHHHHTCCH-----------HHHH
T ss_pred             HHhHHHHhhhccccchHHHHHHHHHHHHhCCH--HHHHHHHHccccCCCCccCHHHHHHHhccCH-----------HHHH
Confidence            32211        1123578899999999999  8999999999999999999999999997642           1233


Q ss_pred             hhhhh----cccccCCCCCCcceEEcChHHHHHHHHhcc
Q 042981          388 EYFNI----SKFKKDDDDDDIMSCKMHDIVHDFAQFVSR  422 (876)
Q Consensus       388 ~~~~~----~~~~~~~~~~~~~~~~mHdlv~dla~~i~~  422 (876)
                      .++++    ..+....++... .|+||+++++++.....
T Consensus       413 ~~l~~L~~~~Ll~~~~~~~~~-~~~~H~lv~~~~~~~~~  450 (591)
T 1z6t_A          413 DILQEFVNKSLLFCDRNGKSF-RYYLHDLQVDFLTEKNC  450 (591)
T ss_dssp             HHHHHHHHTTSSEEEEETTEE-EEECCHHHHHHHHHHTG
T ss_pred             HHHHHHHhCcCeEEecCCCcc-EEEEcHHHHHHHHhhhh
Confidence            44443    222222234444 79999999999987743

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.96  E-value=1.5e-29  Score=301.94  Aligned_cols=377  Identities=17%  Similarity=0.162  Sum_probs=229.0

Q ss_pred             CCceEEEEeeecCCC-CCcccccCCCcceEEee-ecCCCCCC--------------------------------------
Q 042981          442 GDKVRHLGLNFEGGA-SFPMSIHGLNRLRTLLI-YFQSPSNP--------------------------------------  481 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~-~~~~~~~~~~~Lr~L~l-~~~~~~~~--------------------------------------  481 (876)
                      ..+|..|+|+.+++. .+|+.+.++++|++|++ .+|..+..                                      
T Consensus       322 ~~~V~~L~Ls~~~L~G~ip~~l~~L~~L~~LdLss~N~lsG~~~~~~~~~~~~l~~~~l~~lr~~~~~~~l~~~~~~~~s  401 (876)
T 4ecn_A          322 NGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLS  401 (876)
T ss_dssp             TSCEEEEECTTTCCEEEECGGGGGCTTCCEEESCCTTHHHHTTCBTTBCCCSSCCHHHHHHHHTHHHHHHTCCCGGGGSC
T ss_pred             CCCEEEEECccCCCCCcCchHHhccccceEeeecccccccccccccccccccccchhHHHHHHHhhhhhhhccCcchhhh
Confidence            467999999999886 45899999999999999 55421000                                      


Q ss_pred             ----------------------------------CCchhhhHHHhccCCcceEEecCccccccCCCCCcccc--------
Q 042981          482 ----------------------------------SLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE--------  519 (876)
Q Consensus       482 ----------------------------------~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~--------  519 (876)
                                                        .+.. + +..+.++++|++|+|++|         .+..        
T Consensus       402 ~l~~~~l~~~~~~~~i~~~~~l~l~~l~l~~~~N~L~~-I-P~~l~~L~~L~~L~Ls~N---------~Lsg~~i~~~~~  470 (876)
T 4ecn_A          402 DLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITF-I-SKAIQRLTKLQIIYFANS---------PFTYDNIAVDWE  470 (876)
T ss_dssp             HHHHHHHHTCTTSCCCCCCCCCCCCTTTTTCCSCEEEE-E-CGGGGGCTTCCEEEEESC---------CCCGGGBSSSCS
T ss_pred             HHHHHHhhhCccccccccccccchhhceeccccCcccc-h-hHHHhcCCCCCEEECcCC---------cCCCCccccccc
Confidence                                              0001 2 233677777777777433         3333        


Q ss_pred             ----------cccccc--cCcccCeeeccCccc-cccchhhccCCcccEEeecCCC-CCc-cccccccCcC-------CC
Q 042981          520 ----------IPENVR--KLIHLKYLNLSELCI-ERLPKTLCELYNLQKLDIRWCE-DLR-ELPAGIGKLK-------KM  577 (876)
Q Consensus       520 ----------lp~~i~--~L~~Lr~L~Ls~~~i-~~lp~~i~~L~~L~~L~L~~~~-~l~-~lp~~i~~L~-------~L  577 (876)
                                +|+.++  +|++|++|+|++|.+ ..+|..++++++|++|+|++|. ... .+|..+++++       +|
T Consensus       471 ~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L  550 (876)
T 4ecn_A          471 DANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKI  550 (876)
T ss_dssp             CTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTC
T ss_pred             ccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCc
Confidence                      777766  777777777777764 3677777777777777777775 333 5777666655       77


Q ss_pred             ceEecCCCCCCccCCc--cCCCCCCCCccCceeecCccCCCccccc---cccccCCCCCCeeeeCcCCCCCcchhhhccC
Q 042981          578 RSLLNGGTPLLKYMPI--GISKLTSLRTLEKFAMGGGVDDISTCRL---ESLKNLQLLRECGIEGLSNVSHLDEDERLGL  652 (876)
Q Consensus       578 ~~L~l~~~~~~~~~p~--~i~~l~~L~~L~~~~~~~~~~~ls~~~l---~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l  652 (876)
                      ++|++++|.+. .+|.  .++++++|+.|          +++.+.+   ..+..+++|+.|+++++.    +. ..+..+
T Consensus       551 ~~L~Ls~N~L~-~ip~~~~l~~L~~L~~L----------~Ls~N~l~~lp~~~~L~~L~~L~Ls~N~----l~-~lp~~l  614 (876)
T 4ecn_A          551 QIFYMGYNNLE-EFPASASLQKMVKLGLL----------DCVHNKVRHLEAFGTNVKLTDLKLDYNQ----IE-EIPEDF  614 (876)
T ss_dssp             CEEECCSSCCC-BCCCHHHHTTCTTCCEE----------ECTTSCCCBCCCCCTTSEESEEECCSSC----CS-CCCTTS
T ss_pred             cEEEeeCCcCC-ccCChhhhhcCCCCCEE----------ECCCCCcccchhhcCCCcceEEECcCCc----cc-cchHHH
Confidence            77777777664 6776  67777777777          2333322   245566667777776632    22 334456


Q ss_pred             ccccc-CCceEEEeccCCccccchHHHHHhhCCCC--CCccEEEEeecCCCCC----Cchhh--cccCCcEEEEecCCCC
Q 042981          653 HNMKN-LLRLSLEFDEEGEEGRRKNQQLLEALQPP--LNVKELGIVSYGGNIF----PKWLT--SLTNLRDLRLKSCVIC  723 (876)
Q Consensus       653 ~~l~~-L~~L~L~~~~~~~~~~~~~~~~~~~l~~~--~~L~~L~l~~~~~~~l----p~~l~--~l~~L~~L~L~~~~~~  723 (876)
                      .++++ |+.|+|++|.+..        +...+...  ++|+.|++++|.....    |..+.  .+++|+.|+|++|.+.
T Consensus       615 ~~l~~~L~~L~Ls~N~L~~--------lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~  686 (876)
T 4ecn_A          615 CAFTDQVEGLGFSHNKLKY--------IPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQ  686 (876)
T ss_dssp             CEECTTCCEEECCSSCCCS--------CCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCC
T ss_pred             hhccccCCEEECcCCCCCc--------CchhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCC
Confidence            67777 7777777776531        11122222  3477777777765332    22222  3347777888777775


Q ss_pred             CCCCC--CCccc-CceEeecCCCCceEeCccccc-CC-------CCCCCCCCCCC---CCcccc--cCcccceeeccccc
Q 042981          724 EHFPP--LGKLP-LEKLTLYGLYGVKRVGNEFLG-IE-------GSSEDDPSSSS---SSSSVI--AFPKLKSLHIGAME  787 (876)
Q Consensus       724 ~~lp~--l~~Lp-L~~L~L~~~~~l~~~~~~~~~-~~-------~l~~~~~~~~~---~~~~~~--~~~~L~~L~l~~~~  787 (876)
                       .+|.  +..++ |+.|+|++|... .++..+.. ..       .+..++++.+.   +|..+.  .+++|+.|+|+++ 
T Consensus       687 -~lp~~~~~~l~~L~~L~Ls~N~L~-~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~~lp~~l~~~~l~~L~~L~Ls~N-  763 (876)
T 4ecn_A          687 -KFPTELFATGSPISTIILSNNLMT-SIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYN-  763 (876)
T ss_dssp             -SCCHHHHHTTCCCSEEECCSCCCS-CCCTTSSSCTTSCCTTGGGCCEEECCSSCCCCCCGGGSTTTCTTCCEEECCSS-
T ss_pred             -ccCHHHHccCCCCCEEECCCCcCC-ccChHHhccccccccccCCccEEECCCCCCccchHHhhhccCCCcCEEEeCCC-
Confidence             3443  23567 888888877544 33322221 11       34444444332   344443  5667777766665 


Q ss_pred             cccccccccccccccCcccccceeeecc------CccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcC
Q 042981          788 ELEEWNYRITRKENISIMPRLSSLTIWY------CPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLS  861 (876)
Q Consensus       788 ~L~~~~~~~~~~~~~~~l~~L~~L~l~~------c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~  861 (876)
                      .+..+      |..+..+++|+.|+|++      |.....+|..+.++++|+.|+|++|+. +.+|.      .-.++|+
T Consensus       764 ~L~~l------p~~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~N~L-~~Ip~------~l~~~L~  830 (876)
T 4ecn_A          764 CFSSF------PTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDI-RKVDE------KLTPQLY  830 (876)
T ss_dssp             CCSSC------CCGGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSCC-CBCCS------CCCSSSC
T ss_pred             CCCcc------chhhhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEECCCCCC-CccCH------hhcCCCC
Confidence            33321      44555677777777765      444556677777777777777777765 44432      1225777


Q ss_pred             EEEEccCC
Q 042981          862 SLEIEYCP  869 (876)
Q Consensus       862 ~L~i~~c~  869 (876)
                      .|++++|+
T Consensus       831 ~LdLs~N~  838 (876)
T 4ecn_A          831 ILDIADNP  838 (876)
T ss_dssp             EEECCSCT
T ss_pred             EEECCCCC
Confidence            77777775

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.96  E-value=3.5e-29  Score=294.34  Aligned_cols=367  Identities=14%  Similarity=0.151  Sum_probs=280.5

Q ss_pred             CCceEEEEeeecCCCC------------------Cccccc--CCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEE
Q 042981          442 GDKVRHLGLNFEGGAS------------------FPMSIH--GLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRAL  501 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~------------------~~~~~~--~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L  501 (876)
                      -.+++.|+++.|.+..                  +|..+.  ++++|++|++.+|.     +.+.++ ..+.++++|++|
T Consensus       205 l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~-----l~~~~p-~~l~~l~~L~~L  278 (636)
T 4eco_A          205 LTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCP-----NLTKLP-TFLKALPEMQLI  278 (636)
T ss_dssp             CTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCT-----TCSSCC-TTTTTCSSCCEE
T ss_pred             ccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCc-----CCccCh-HHHhcCCCCCEE
Confidence            5689999999999988                  899988  99999999998775     233333 458899999999


Q ss_pred             ecCccccccCCCCCc-cc--ccccccccC------cccCeeeccCccccccch--hhccCCcccEEeecCCCCCcccccc
Q 042981          502 VIGQRNFIFDPYPNL-IR--EIPENVRKL------IHLKYLNLSELCIERLPK--TLCELYNLQKLDIRWCEDLRELPAG  570 (876)
Q Consensus       502 ~L~~~~~~~~~~~~~-i~--~lp~~i~~L------~~Lr~L~Ls~~~i~~lp~--~i~~L~~L~~L~L~~~~~l~~lp~~  570 (876)
                      ++         ++|. +.  .+|..++.+      ++|++|+|++|.++.+|.  .++++++|++|++++|...+.+| .
T Consensus       279 ~L---------s~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~  348 (636)
T 4eco_A          279 NV---------ACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLP-A  348 (636)
T ss_dssp             EC---------TTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCHHHHTTCTTCCEEECCSCCCEEECC-C
T ss_pred             EC---------cCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCCccCchhhhccCCCCCEEeCcCCcCccchh-h
Confidence            99         6665 55  488888877      999999999999999999  99999999999999996555899 8


Q ss_pred             ccCcCCCceEecCCCCCCccCCccCCCCCC-CCccCceeecCccCCCccccccccc----c--CCCCCCeeeeCcCCCCC
Q 042981          571 IGKLKKMRSLLNGGTPLLKYMPIGISKLTS-LRTLEKFAMGGGVDDISTCRLESLK----N--LQLLRECGIEGLSNVSH  643 (876)
Q Consensus       571 i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~-L~~L~~~~~~~~~~~ls~~~l~~L~----~--L~~L~~L~l~~~~~~~~  643 (876)
                      +..+++|++|++++|.+. .+|..++.+++ |++|          +++.+.+..++    .  +++|+.|+++++    .
T Consensus       349 ~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~~L~~L----------~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N----~  413 (636)
T 4eco_A          349 FGSEIKLASLNLAYNQIT-EIPANFCGFTEQVENL----------SFAHNKLKYIPNIFDAKSVSVMSAIDFSYN----E  413 (636)
T ss_dssp             CEEEEEESEEECCSSEEE-ECCTTSEEECTTCCEE----------ECCSSCCSSCCSCCCTTCSSCEEEEECCSS----C
T ss_pred             hCCCCCCCEEECCCCccc-cccHhhhhhcccCcEE----------EccCCcCcccchhhhhcccCccCEEECcCC----c
Confidence            999999999999999774 89999999999 9999          44455554433    2  336778888873    3


Q ss_pred             cchhhhccCc-------ccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhc--------
Q 042981          644 LDEDERLGLH-------NMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTS--------  708 (876)
Q Consensus       644 ~~~~~~~~l~-------~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~--------  708 (876)
                      +....+..+.       .+.+|+.|++++|.+.....    .   .+..+++|+.|++++|....+|..+..        
T Consensus       414 l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp~----~---~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~  486 (636)
T 4eco_A          414 IGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPK----E---LFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKN  486 (636)
T ss_dssp             TTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCCSCCT----H---HHHTTCCCSEEECCSSCCSBCCSSSSEETTEECTT
T ss_pred             CCCcchhhhcccccccccCCCCCEEECcCCccCcCCH----H---HHccCCCCCEEECCCCCCCCcCHHHhccccccccc
Confidence            3344444455       67789999999988752111    1   122357899999999988888876553        


Q ss_pred             ccCCcEEEEecCCCCCCCCC-CC--ccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeecc
Q 042981          709 LTNLRDLRLKSCVICEHFPP-LG--KLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIG  784 (876)
Q Consensus       709 l~~L~~L~L~~~~~~~~lp~-l~--~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~  784 (876)
                      +++|+.|+|++|.+. .+|. +.  .++ |+.|+|++|.... +                    |..+..+++|+.|+++
T Consensus       487 l~~L~~L~Ls~N~l~-~lp~~~~~~~l~~L~~L~Ls~N~l~~-i--------------------p~~~~~l~~L~~L~Ls  544 (636)
T 4eco_A          487 TYLLTSIDLRFNKLT-KLSDDFRATTLPYLVGIDLSYNSFSK-F--------------------PTQPLNSSTLKGFGIR  544 (636)
T ss_dssp             GGGCCEEECCSSCCC-BCCGGGSTTTCTTCCEEECCSSCCSS-C--------------------CCGGGGCSSCCEEECC
T ss_pred             cCCccEEECcCCcCC-ccChhhhhccCCCcCEEECCCCCCCC-c--------------------ChhhhcCCCCCEEECC
Confidence            238999999999987 4553 54  788 9999999886432 2                    2345579999999998


Q ss_pred             ccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhcccc-----ccCCCCCCC
Q 042981          785 AMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILE-----DHRTTDIPR  859 (876)
Q Consensus       785 ~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~-----~~~~~~lp~  859 (876)
                      ++..+..+.+.+..|..+..+++|++|+|++|.. +.+|..+.  ++|+.|++++|+... +....     ......+..
T Consensus       545 ~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l-~~ip~~~~--~~L~~L~Ls~N~l~~-~~~~~~~~~~~~~~~~l~~  620 (636)
T 4eco_A          545 NQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDI-RKVNEKIT--PNISVLDIKDNPNIS-IDLSYVCPYIEAGMYMLFY  620 (636)
T ss_dssp             SCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSCC-CBCCSCCC--TTCCEEECCSCTTCE-EECTTTHHHHHTTCCEEEC
T ss_pred             CCcccccCcccccChHHHhcCCCCCEEECCCCcC-CccCHhHh--CcCCEEECcCCCCcc-ccHHhcchhhhcccceeec
Confidence            8776666766666677888999999999999955 88998865  899999999998653 21100     011122334


Q ss_pred             cCEEEEccCCCCC
Q 042981          860 LSSLEIEYCPKLN  872 (876)
Q Consensus       860 L~~L~i~~c~~L~  872 (876)
                      .+..+|.+|+.|.
T Consensus       621 ~~~~~i~~C~~L~  633 (636)
T 4eco_A          621 DKTQDIRGCDALD  633 (636)
T ss_dssp             CTTSEEESCGGGC
T ss_pred             CCccccCCCcccc
Confidence            4666899999875

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.96  E-value=2.3e-28  Score=285.70  Aligned_cols=389  Identities=18%  Similarity=0.178  Sum_probs=243.8

Q ss_pred             CCCceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          441 FGDKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       441 ~~~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      .+..+++|+++.|.+..+ +..|.++++|++|++.+|.      ...+++..|.++++|++|+|         ++|.+..
T Consensus        26 l~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~------i~~i~~~~~~~l~~L~~L~L---------~~n~l~~   90 (570)
T 2z63_A           26 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE------IQTIEDGAYQSLSHLSTLIL---------TGNPIQS   90 (570)
T ss_dssp             SCSSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCC------CCEECTTTTTTCTTCCEEEC---------TTCCCCE
T ss_pred             ccccccEEEccCCccCccChhHhhCCCCceEEECCCCc------CCccCcccccCchhCCEEeC---------cCCcCCc
Confidence            467899999999998876 5578999999999998775      34455666889999999999         7777777


Q ss_pred             cc-cccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCc-cccccccCcCCCceEecCCCCCCccCCccCC
Q 042981          520 IP-ENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLR-ELPAGIGKLKKMRSLLNGGTPLLKYMPIGIS  596 (876)
Q Consensus       520 lp-~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~-~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~  596 (876)
                      +| ..|+++.+|++|++++|.++.+|. .++++++|++|++++|.... .+|..++++++|++|++++|.+....|..++
T Consensus        91 ~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~~~~~~~~  170 (570)
T 2z63_A           91 LALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLR  170 (570)
T ss_dssp             ECTTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSCCCEECGGGGH
T ss_pred             cCHhhhcCccccccccccccccccCCCccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCCccceecHHHcc
Confidence            65 678999999999999999998876 68999999999999985444 4788999999999999999987666666777


Q ss_pred             CCCCCCccC-ceeecCccCCCccccccc-----cccCCCCCCeeeeCcCC---------------------------C--
Q 042981          597 KLTSLRTLE-KFAMGGGVDDISTCRLES-----LKNLQLLRECGIEGLSN---------------------------V--  641 (876)
Q Consensus       597 ~l~~L~~L~-~~~~~~~~~~ls~~~l~~-----L~~L~~L~~L~l~~~~~---------------------------~--  641 (876)
                      .+++|..+. ..       +++.+.+..     +..+ +|+.|++++...                           .  
T Consensus       171 ~l~~L~~~~~~L-------~l~~n~l~~~~~~~~~~~-~L~~L~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~  242 (570)
T 2z63_A          171 VLHQMPLLNLSL-------DLSLNPMNFIQPGAFKEI-RLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGN  242 (570)
T ss_dssp             HHHTCTTCCCEE-------ECTTCCCCEECTTTTTTC-EEEEEEEESCCSCTTHHHHHHHTTTTCEEEEEEEEECCCCSS
T ss_pred             chhccchhhhhc-------ccCCCCceecCHHHhccC-cceeEecccccccccchhhhhcCccccceeeeccccccCchh
Confidence            777772211 11       111111111     1111 222232222100                           0  


Q ss_pred             -------------------------CCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEee
Q 042981          642 -------------------------SHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVS  696 (876)
Q Consensus       642 -------------------------~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~  696 (876)
                                               .......+..+..+++|+.|++++|.+..        +...+... +|+.|++.+
T Consensus       243 l~~~~~~~~~~l~~l~l~~l~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~l~~--------l~~~~~~~-~L~~L~l~~  313 (570)
T 2z63_A          243 LEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIER--------VKDFSYNF-GWQHLELVN  313 (570)
T ss_dssp             CEECCTTTTGGGGGSEEEEEEEEETTEEESCSTTTTGGGTTCSEEEEESCEECS--------CCBCCSCC-CCSEEEEES
T ss_pred             hhhcchhhhccccccchhhhhhhcchhhhhhchhhhcCcCcccEEEecCccchh--------hhhhhccC-CccEEeecc
Confidence                                     01112223445566777777777765431        11223333 677777776


Q ss_pred             cCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEe--Ccc----------------------
Q 042981          697 YGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRV--GNE----------------------  751 (876)
Q Consensus       697 ~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~--~~~----------------------  751 (876)
                      +....+|.  ..+++|+.|++++|......+. ..+| |+.|++++|......  +..                      
T Consensus       314 n~~~~l~~--~~l~~L~~L~l~~n~~~~~~~~-~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~  390 (570)
T 2z63_A          314 CKFGQFPT--LKLKSLKRLTFTSNKGGNAFSE-VDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSS  390 (570)
T ss_dssp             CBCSSCCB--CBCSSCCEEEEESCBSCCBCCC-CBCTTCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEEEEE
T ss_pred             CcccccCc--ccccccCEEeCcCCcccccccc-ccCCCCCEEeCcCCccCccccccccccccCccCEEECCCCccccccc
Confidence            66666665  2455666666666655443333 4455 555555554432221  122                      


Q ss_pred             -cccCCCCCCCCCCCCCC----C-cccccCcccceeeccccccccccccccccccccCcccccceeeeccCccC-CCCCC
Q 042981          752 -FLGIEGSSEDDPSSSSS----S-SSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRL-RVLPD  824 (876)
Q Consensus       752 -~~~~~~l~~~~~~~~~~----~-~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l-~~lp~  824 (876)
                       +.....+..++++.+.+    + ..+..+++|+.|+++++. +.     ...+..+..+++|+.|++++|... ..+|.
T Consensus       391 ~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~-l~-----~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~  464 (570)
T 2z63_A          391 NFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH-TR-----VAFNGIFNGLSSLEVLKMAGNSFQENFLPD  464 (570)
T ss_dssp             EEETCTTCCEEECTTSEEESCTTSCTTTTCTTCCEEECTTSC-CE-----ECCTTTTTTCTTCCEEECTTCEEGGGEECS
T ss_pred             cccccCCCCEEEccCCccccccchhhhhcCCCCCEEeCcCCc-cc-----ccchhhhhcCCcCcEEECcCCcCccccchh
Confidence             33333344444433221    1 234455566666555542 21     122345667788888888888554 36777


Q ss_pred             CCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCCCCCCC
Q 042981          825 YLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLP  875 (876)
Q Consensus       825 ~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~~lP  875 (876)
                      .+..+++|+.|++++|......+    ..+..+|+|+.|++++| +++.+|
T Consensus       465 ~~~~l~~L~~L~l~~n~l~~~~~----~~~~~l~~L~~L~l~~n-~l~~~~  510 (570)
T 2z63_A          465 IFTELRNLTFLDLSQCQLEQLSP----TAFNSLSSLQVLNMASN-QLKSVP  510 (570)
T ss_dssp             CCTTCTTCCEEECTTSCCCEECT----TTTTTCTTCCEEECCSS-CCSCCC
T ss_pred             hhhcccCCCEEECCCCccccCCh----hhhhcccCCCEEeCCCC-cCCCCC
Confidence            78888888888888886543322    25678899999999998 677665

>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=99.96  E-value=5.3e-28  Score=284.60  Aligned_cols=404  Identities=14%  Similarity=0.089  Sum_probs=207.9

Q ss_pred             CCceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc
Q 042981          442 GDKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI  520 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l  520 (876)
                      -.++++|+++.|.+..+ +..|.++++|++|++.+|.      .....+..|..+++|++|++         ++|.+..+
T Consensus        56 l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~------l~~~~~~~~~~l~~L~~L~L---------~~n~i~~l  120 (606)
T 3t6q_A           56 LINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANP------LIFMAETALSGPKALKHLFF---------IQTGISSI  120 (606)
T ss_dssp             CTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCC------CSEECTTTTSSCTTCCEEEC---------TTSCCSCG
T ss_pred             CccceEEECCCCccceeChhhccCccccCeeeCCCCc------ccccChhhhcccccccEeec---------cccCcccC
Confidence            45688888888887665 6678888888888887665      23344455788888888888         55556655


Q ss_pred             -ccccccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCccccccccCcCCCc--eEecCCCCCCccCCccCC
Q 042981          521 -PENVRKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMR--SLLNGGTPLLKYMPIGIS  596 (876)
Q Consensus       521 -p~~i~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~--~L~l~~~~~~~~~p~~i~  596 (876)
                       |..++++++|++|+|++|.++.++ +.+..+++|++|++++|......|..+..+++|+  .|++++|.+.+..|..+.
T Consensus       121 ~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~l~L~l~~n~l~~~~~~~~~  200 (606)
T 3t6q_A          121 DFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFD  200 (606)
T ss_dssp             GGSCCTTCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSCCCEECHHHHHTTTTCCSEEEECTTCCCCEECTTTTT
T ss_pred             CcchhccCCcccEEECCCCcccccCcccccCCcccCEEEcccCcccccChhhhhhhcccceeEEecCCCccCccChhHhh
Confidence             455677777777777777777652 3344477777777777754444466677777777  677777766544443322


Q ss_pred             CCCCCCccCceeec------------------------------------------CccCCCcccccc-----ccccCCC
Q 042981          597 KLTSLRTLEKFAMG------------------------------------------GGVDDISTCRLE-----SLKNLQL  629 (876)
Q Consensus       597 ~l~~L~~L~~~~~~------------------------------------------~~~~~ls~~~l~-----~L~~L~~  629 (876)
                      . .+|+.|......                                          -..-+++.+.+.     .+..+++
T Consensus       201 ~-~~L~~L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~~L~~L~l~~n~l~~~~~~~~~~l~~  279 (606)
T 3t6q_A          201 S-AVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSG  279 (606)
T ss_dssp             T-CEEEEEECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGGGGGGSEEEEEECTTCCCSSCCTTTTTTCTT
T ss_pred             h-ccccccccCCchhHHHHhhhccccchhheechhhccccccccChhHhchhhcCceeEEEeecCccCccCHHHhccccC
Confidence            1 222221100000                                          000001111111     1334455


Q ss_pred             CCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHH-----------------H-HHhhCCCCCCccE
Q 042981          630 LRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQ-----------------Q-LLEALQPPLNVKE  691 (876)
Q Consensus       630 L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~-----------------~-~~~~l~~~~~L~~  691 (876)
                      |+.|++++..    +. ..+..+.++++|+.|++++|.+....+....                 . ....+..+++|+.
T Consensus       280 L~~L~l~~n~----l~-~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~  354 (606)
T 3t6q_A          280 LQELDLTATH----LS-ELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRE  354 (606)
T ss_dssp             CSEEECTTSC----CS-CCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCE
T ss_pred             CCEEeccCCc----cC-CCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCE
Confidence            5555555421    11 1222344455555555555444211000000                 0 0011223344444


Q ss_pred             EEEeecCCCCC---CchhhcccCCcEEEEecCCCCCCCC-CCCccc-CceEeecCCCCceEeCcc-cccCCCCCCCCCCC
Q 042981          692 LGIVSYGGNIF---PKWLTSLTNLRDLRLKSCVICEHFP-PLGKLP-LEKLTLYGLYGVKRVGNE-FLGIEGSSEDDPSS  765 (876)
Q Consensus       692 L~l~~~~~~~l---p~~l~~l~~L~~L~L~~~~~~~~lp-~l~~Lp-L~~L~L~~~~~l~~~~~~-~~~~~~l~~~~~~~  765 (876)
                      |+++++....+   |..+..+++|++|++++|.+.+..| .++.++ |+.|++++|......+.. +.....+..++++.
T Consensus       355 L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~  434 (606)
T 3t6q_A          355 LDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSH  434 (606)
T ss_dssp             EECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTT
T ss_pred             EECCCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCC
Confidence            44444443332   2334444444444444444433222 234444 555555444322221111 22333344444443


Q ss_pred             CCC----CcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCC
Q 042981          766 SSS----SSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCP  841 (876)
Q Consensus       766 ~~~----~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~  841 (876)
                      +.+    +..+..+++|++|+++++. +....+  ..+..+..+++|+.|++++|......|..+..+++|+.|++++|+
T Consensus       435 n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~--~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~  511 (606)
T 3t6q_A          435 SLLDISSEQLFDGLPALQHLNLQGNH-FPKGNI--QKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNR  511 (606)
T ss_dssp             CCCBTTCTTTTTTCTTCCEEECTTCB-CGGGEE--CSSCGGGGCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             CccCCcCHHHHhCCCCCCEEECCCCC-CCcccc--ccchhhccCCCccEEECCCCccCccChhhhccccCCCEEECCCCc
Confidence            322    2334456666666666552 222111  011345677888888888885555556777778888888888886


Q ss_pred             CchhhccccccCCCCCCCcCEEEEccCCCCCCCC
Q 042981          842 IMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLP  875 (876)
Q Consensus       842 ~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~~lP  875 (876)
                      .....+.    .+..+++| .|++++| +++.+|
T Consensus       512 l~~~~~~----~l~~l~~L-~L~L~~N-~l~~~~  539 (606)
T 3t6q_A          512 LTSSSIE----ALSHLKGI-YLNLASN-HISIIL  539 (606)
T ss_dssp             CCGGGGG----GGTTCCSC-EEECCSS-CCCCCC
T ss_pred             cCcCChh----HhCccccc-EEECcCC-cccccC
Confidence            5443322    34566666 6666666 444443

>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=99.96  E-value=8.5e-28  Score=282.87  Aligned_cols=143  Identities=20%  Similarity=0.148  Sum_probs=119.5

Q ss_pred             EEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc-ccccc
Q 042981          447 HLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI-PENVR  525 (876)
Q Consensus       447 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l-p~~i~  525 (876)
                      .++.+.++++.+|..+.  ++|++|++.++.      ...+++..|.++++|++|+|         ++|.+..+ |..|+
T Consensus        15 ~~~c~~~~l~~ip~~~~--~~l~~L~Ls~n~------l~~~~~~~~~~l~~L~~L~L---------s~n~l~~i~~~~~~   77 (606)
T 3vq2_A           15 TYQCMDQKLSKVPDDIP--SSTKNIDLSFNP------LKILKSYSFSNFSELQWLDL---------SRCEIETIEDKAWH   77 (606)
T ss_dssp             EEECTTSCCSSCCTTSC--TTCCEEECTTSC------CCEECTTTTTTCTTCCEEEC---------TTCCCCEECTTTTT
T ss_pred             ceEccCCCcccCCCCCC--CCcCEEECCCCC------cCEeChhhccCCccCcEEeC---------CCCcccccCHHHhh
Confidence            46666777888777664  899999998776      34455556899999999999         77777776 56789


Q ss_pred             cCcccCeeeccCcccccc-chhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCc-cCCccCCCCCCCCc
Q 042981          526 KLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLK-YMPIGISKLTSLRT  603 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~-~~p~~i~~l~~L~~  603 (876)
                      ++++|++|+|++|.++.+ |..|+++++|++|++++|......|..++++++|++|++++|.+.+ .+|..++++++|++
T Consensus        78 ~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~  157 (606)
T 3vq2_A           78 GLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVH  157 (606)
T ss_dssp             TCTTCCEEECTTCCCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCE
T ss_pred             chhhcCEeECCCCcccccChhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCE
Confidence            999999999999999987 7889999999999999995444444789999999999999998765 57999999999999


Q ss_pred             cCc
Q 042981          604 LEK  606 (876)
Q Consensus       604 L~~  606 (876)
                      |..
T Consensus       158 L~L  160 (606)
T 3vq2_A          158 VDL  160 (606)
T ss_dssp             EEC
T ss_pred             EEc
Confidence            843

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.95  E-value=1.2e-28  Score=294.19  Aligned_cols=378  Identities=17%  Similarity=0.178  Sum_probs=280.1

Q ss_pred             CcccccCCCcceEEeeecCCCCCCCC------------chhhhHHH-hccCCcceEEecCccccccCCCCCc-ccccccc
Q 042981          458 FPMSIHGLNRLRTLLIYFQSPSNPSL------------NSSILSEL-FSKLACFRALVIGQRNFIFDPYPNL-IREIPEN  523 (876)
Q Consensus       458 ~~~~~~~~~~Lr~L~l~~~~~~~~~~------------~~~~~~~~-~~~l~~Lr~L~L~~~~~~~~~~~~~-i~~lp~~  523 (876)
                      +|..+.++++|++|++.+|......+            .+.++..+ |.++++|++|+|         ++|. ...+|..
T Consensus       440 IP~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~L---------s~N~l~~~iP~~  510 (876)
T 4ecn_A          440 ISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVEL---------YNCPNMTQLPDF  510 (876)
T ss_dssp             ECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEE---------ESCTTCCSCCGG
T ss_pred             hhHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEEC---------cCCCCCccChHH
Confidence            57788999999999998876322000            00244442 349999999999         4443 4578999


Q ss_pred             cccCcccCeeeccCcc-cc--ccchhhccCC-------cccEEeecCCCCCccccc--cccCcCCCceEecCCCCCCccC
Q 042981          524 VRKLIHLKYLNLSELC-IE--RLPKTLCELY-------NLQKLDIRWCEDLRELPA--GIGKLKKMRSLLNGGTPLLKYM  591 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~-i~--~lp~~i~~L~-------~L~~L~L~~~~~l~~lp~--~i~~L~~L~~L~l~~~~~~~~~  591 (876)
                      +++|++|++|+|++|. ++  .+|..++++.       +|++|+|++|. +..+|.  .++++++|++|++++|.+. .+
T Consensus       511 l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~-L~~ip~~~~l~~L~~L~~L~Ls~N~l~-~l  588 (876)
T 4ecn_A          511 LYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNN-LEEFPASASLQKMVKLGLLDCVHNKVR-HL  588 (876)
T ss_dssp             GGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSC-CCBCCCHHHHTTCTTCCEEECTTSCCC-BC
T ss_pred             HhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCc-CCccCChhhhhcCCCCCEEECCCCCcc-cc
Confidence            9999999999999998 88  4998888776       99999999995 559999  8999999999999999875 88


Q ss_pred             CccCCCCCCCCccCceeecCccCCCcccccc----ccccCCC-CCCeeeeCcCCCCCcchhhhccCcccc--cCCceEEE
Q 042981          592 PIGISKLTSLRTLEKFAMGGGVDDISTCRLE----SLKNLQL-LRECGIEGLSNVSHLDEDERLGLHNMK--NLLRLSLE  664 (876)
Q Consensus       592 p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~----~L~~L~~-L~~L~l~~~~~~~~~~~~~~~~l~~l~--~L~~L~L~  664 (876)
                      | .++.+++|+.|          +++.+.+.    .+..+++ |+.|+++++.    +. ..+..+..+.  +|+.|+++
T Consensus       589 p-~~~~L~~L~~L----------~Ls~N~l~~lp~~l~~l~~~L~~L~Ls~N~----L~-~lp~~~~~~~~~~L~~L~Ls  652 (876)
T 4ecn_A          589 E-AFGTNVKLTDL----------KLDYNQIEEIPEDFCAFTDQVEGLGFSHNK----LK-YIPNIFNAKSVYVMGSVDFS  652 (876)
T ss_dssp             C-CCCTTSEESEE----------ECCSSCCSCCCTTSCEECTTCCEEECCSSC----CC-SCCSCCCTTCSSCEEEEECC
T ss_pred             h-hhcCCCcceEE----------ECcCCccccchHHHhhccccCCEEECcCCC----CC-cCchhhhccccCCCCEEECc
Confidence            8 88899999988          33344433    4567777 9999998853    22 2334455554  49999999


Q ss_pred             eccCCccccchHHHHHhhCC--CCCCccEEEEeecCCCCCCchhh-cccCCcEEEEecCCCCCCCCC---------CCcc
Q 042981          665 FDEEGEEGRRKNQQLLEALQ--PPLNVKELGIVSYGGNIFPKWLT-SLTNLRDLRLKSCVICEHFPP---------LGKL  732 (876)
Q Consensus       665 ~~~~~~~~~~~~~~~~~~l~--~~~~L~~L~l~~~~~~~lp~~l~-~l~~L~~L~L~~~~~~~~lp~---------l~~L  732 (876)
                      +|.+.+..+.    +...+.  ..++|+.|++++|....+|.++. .+++|+.|+|++|.+. .+|.         ++.+
T Consensus       653 ~N~l~g~ip~----l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~L~-~ip~~~~~~~~~~l~nl  727 (876)
T 4ecn_A          653 YNKIGSEGRN----ISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMT-SIPENSLKPKDGNYKNT  727 (876)
T ss_dssp             SSCTTTTSSS----CSSCTTTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSCCCS-CCCTTSSSCTTSCCTTG
T ss_pred             CCcCCCcccc----chhhhccccCCCcCEEEccCCcCCccCHHHHccCCCCCEEECCCCcCC-ccChHHhcccccccccc
Confidence            9987432110    000111  34589999999999999998876 8999999999999886 4443         3356


Q ss_pred             c-CceEeecCCCCceEeCcccc--cCCCCCCCCCCCCC---CCcccccCcccceeeccccccccccccccccccccCccc
Q 042981          733 P-LEKLTLYGLYGVKRVGNEFL--GIEGSSEDDPSSSS---SSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMP  806 (876)
Q Consensus       733 p-L~~L~L~~~~~l~~~~~~~~--~~~~l~~~~~~~~~---~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~  806 (876)
                      + |+.|+|++|... .++..+.  ....+..++++.+.   +|..+..+++|+.|+++++..+..+.+.+..|..+..++
T Consensus       728 ~~L~~L~Ls~N~L~-~lp~~l~~~~l~~L~~L~Ls~N~L~~lp~~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~  806 (876)
T 4ecn_A          728 YLLTTIDLRFNKLT-SLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCP  806 (876)
T ss_dssp             GGCCEEECCSSCCC-CCCGGGSTTTCTTCCEEECCSSCCSSCCCGGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCS
T ss_pred             CCccEEECCCCCCc-cchHHhhhccCCCcCEEEeCCCCCCccchhhhcCCCCCEEECCCCCCcccccccccChHHHhcCC
Confidence            7 999999999654 5666665  66777777777543   566778899999999999877777777666777888999


Q ss_pred             ccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhcccc-----ccCCCCCCCcCEEEEccCCCCC
Q 042981          807 RLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILE-----DHRTTDIPRLSSLEIEYCPKLN  872 (876)
Q Consensus       807 ~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~-----~~~~~~lp~L~~L~i~~c~~L~  872 (876)
                      +|+.|+|++|.. +.+|..+.  ++|+.|+|++|+.... ....     ......+..-+..+|.+|+.|.
T Consensus       807 ~L~~L~Ls~N~L-~~Ip~~l~--~~L~~LdLs~N~l~~i-~~~~~~~~~~~~~~~L~~n~~~~I~gC~~L~  873 (876)
T 4ecn_A          807 SLIQLQIGSNDI-RKVDEKLT--PQLYILDIADNPNISI-DVTSVCPYIEAGMYVLLYDKTQDIRGCDALG  873 (876)
T ss_dssp             SCCEEECCSSCC-CBCCSCCC--SSSCEEECCSCTTCEE-ECGGGHHHHHTTCCEEECCTTSEEESCGGGC
T ss_pred             CCCEEECCCCCC-CccCHhhc--CCCCEEECCCCCCCcc-ChHHccccccchheeecCCCccccCCCCCcc
Confidence            999999999955 89998865  7999999999986432 1110     0011122222344788998875

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.95  E-value=3.6e-28  Score=282.48  Aligned_cols=397  Identities=18%  Similarity=0.170  Sum_probs=262.9

Q ss_pred             CCceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc
Q 042981          442 GDKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI  520 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l  520 (876)
                      +..+++|+++.|.+..+ +..|.++++|++|++.+|.      ...+++..|..+++|++|+|         ++|.+..+
T Consensus        25 ~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~------i~~~~~~~~~~l~~L~~L~L---------s~n~l~~~   89 (549)
T 2z81_A           25 TAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSR------INTIEGDAFYSLGSLEHLDL---------SDNHLSSL   89 (549)
T ss_dssp             CTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSC------CCEECTTTTTTCTTCCEEEC---------TTSCCCSC
T ss_pred             CCCccEEECcCCccCccChhhhhcCCcccEEECCCCC------cCccChhhccccccCCEEEC---------CCCccCcc
Confidence            56899999999998876 6789999999999998776      33455566899999999999         77777777


Q ss_pred             ccc-cccCcccCeeeccCccccc--cchhhccCCcccEEeecCCCCCcccc-ccccCcCCCceEecCCCCCCccCCccCC
Q 042981          521 PEN-VRKLIHLKYLNLSELCIER--LPKTLCELYNLQKLDIRWCEDLRELP-AGIGKLKKMRSLLNGGTPLLKYMPIGIS  596 (876)
Q Consensus       521 p~~-i~~L~~Lr~L~Ls~~~i~~--lp~~i~~L~~L~~L~L~~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~~p~~i~  596 (876)
                      |.. ++++++|++|+|++|.++.  .|..++++++|++|++++|.....+| ..+.++++|++|++++|.+.+..|..++
T Consensus        90 ~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~  169 (549)
T 2z81_A           90 SSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLK  169 (549)
T ss_dssp             CHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTT
T ss_pred             CHHHhccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhh
Confidence            755 8999999999999999984  46789999999999999997677776 5799999999999999999888899999


Q ss_pred             CCCCCCccCceeecCccCCCccccccc-----cccCCCCCCeeeeCcCCCCC-----------------------cc---
Q 042981          597 KLTSLRTLEKFAMGGGVDDISTCRLES-----LKNLQLLRECGIEGLSNVSH-----------------------LD---  645 (876)
Q Consensus       597 ~l~~L~~L~~~~~~~~~~~ls~~~l~~-----L~~L~~L~~L~l~~~~~~~~-----------------------~~---  645 (876)
                      .+++|++|...          .+.+..     +..+++|+.|++++......                       +.   
T Consensus       170 ~l~~L~~L~l~----------~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~  239 (549)
T 2z81_A          170 SIRDIHHLTLH----------LSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDES  239 (549)
T ss_dssp             TCSEEEEEEEE----------CSBSTTHHHHHHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEHHH
T ss_pred             ccccCceEecc----------cCcccccchhhHhhcccccEEEccCCccccccccccchhhhhhcccceeccccccchhH
Confidence            98888888432          222211     13456667777766322110                       00   


Q ss_pred             -hhhhccCcccccCCceEEEeccCCccccch--HHHHHhh--------------------------CCCCCCccEEEEee
Q 042981          646 -EDERLGLHNMKNLLRLSLEFDEEGEEGRRK--NQQLLEA--------------------------LQPPLNVKELGIVS  696 (876)
Q Consensus       646 -~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~--~~~~~~~--------------------------l~~~~~L~~L~l~~  696 (876)
                       ......+..+++|+.|+++.|.+.+.....  ....+..                          .....+|+.|++.+
T Consensus       240 ~~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~i~~~~~~~~l~~~~~~~~~L~~L~l~~  319 (549)
T 2z81_A          240 FNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVEN  319 (549)
T ss_dssp             HHHHHGGGGGCTTCCEEEEESCEEECCSCCCCCTTTCCCCCTTCCEEEEESCBCSCGGGSCCCCHHHHHSTTCCEEEEES
T ss_pred             HHHHHHHhhhhccccccccccccccccccccccchhhhhhhcccccccccccccchhhhcccchhhhhhcccceEEEecc
Confidence             011112233344444444443321100000  0000000                          00124688888888


Q ss_pred             cCCCCCCchhh-cccCCcEEEEecCCCCCCCC----CCCccc-CceEeecCCCCceEe--CcccccCCCCCCCCCCCCC-
Q 042981          697 YGGNIFPKWLT-SLTNLRDLRLKSCVICEHFP----PLGKLP-LEKLTLYGLYGVKRV--GNEFLGIEGSSEDDPSSSS-  767 (876)
Q Consensus       697 ~~~~~lp~~l~-~l~~L~~L~L~~~~~~~~lp----~l~~Lp-L~~L~L~~~~~l~~~--~~~~~~~~~l~~~~~~~~~-  767 (876)
                      +....+|.++. .+++|++|+|++|.+.+.+|    .++.+| |+.|++++|......  +..+.....+..++++.+. 
T Consensus       320 n~l~~ip~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~l~~L~~L~Ls~N~l  399 (549)
T 2z81_A          320 SKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTF  399 (549)
T ss_dssp             SCCCCCCHHHHHHCTTCCEEECCSSCCCHHHHHHHTCTTSSTTCCEEECTTSCCCCHHHHHHHGGGCTTCCEEECTTCCC
T ss_pred             CccccCCHHHHhcCccccEEEccCCccccccccchhhhhccccCcEEEccCCcccccccchhhhhcCCCCCEEECCCCCC
Confidence            88888888874 79999999999999876432    367788 999999988653322  1335555666666666443 


Q ss_pred             --CCcccccCcccceeeccccccccccc-----------ccccc-ccccCcccccceeeeccCccCCCCCCCCCCCCCcc
Q 042981          768 --SSSSVIAFPKLKSLHIGAMEELEEWN-----------YRITR-KENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQ  833 (876)
Q Consensus       768 --~~~~~~~~~~L~~L~l~~~~~L~~~~-----------~~~~~-~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~  833 (876)
                        +|..+..+++|++|+++++. +....           +.... ......+++|++|++++| .++.+|. ...+++|+
T Consensus       400 ~~lp~~~~~~~~L~~L~Ls~N~-l~~l~~~~~~~L~~L~Ls~N~l~~~~~~l~~L~~L~Ls~N-~l~~ip~-~~~l~~L~  476 (549)
T 2z81_A          400 HPMPDSCQWPEKMRFLNLSSTG-IRVVKTCIPQTLEVLDVSNNNLDSFSLFLPRLQELYISRN-KLKTLPD-ASLFPVLL  476 (549)
T ss_dssp             CCCCSCCCCCTTCCEEECTTSC-CSCCCTTSCTTCSEEECCSSCCSCCCCCCTTCCEEECCSS-CCSSCCC-GGGCTTCC
T ss_pred             ccCChhhcccccccEEECCCCC-cccccchhcCCceEEECCCCChhhhcccCChhcEEECCCC-ccCcCCC-cccCccCC
Confidence              34555667788888877763 32211           10000 011235677777777777 4556775 34577777


Q ss_pred             EEEEecCCCchhhccccccCCCCCCCcCEEEEccCCC
Q 042981          834 KLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPK  870 (876)
Q Consensus       834 ~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~  870 (876)
                      .|++++|+.....+    ..+..+++|+.|++++||-
T Consensus       477 ~L~Ls~N~l~~~~~----~~~~~l~~L~~L~l~~N~~  509 (549)
T 2z81_A          477 VMKISRNQLKSVPD----GIFDRLTSLQKIWLHTNPW  509 (549)
T ss_dssp             EEECCSSCCCCCCT----TGGGGCTTCCEEECCSSCB
T ss_pred             EEecCCCccCCcCH----HHHhcCcccCEEEecCCCc
Confidence            77777775443221    1356677888888877763

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.95  E-value=1.5e-27  Score=290.34  Aligned_cols=402  Identities=17%  Similarity=0.103  Sum_probs=246.0

Q ss_pred             CCCceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          441 FGDKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       441 ~~~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      .++++++|+++.|.+..+ +..|.++++|++|++.+|.     ....+.+..|.++++|++|+|         ++|.+..
T Consensus        22 lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~-----~~~~i~~~~f~~L~~L~~L~L---------s~N~l~~   87 (844)
T 3j0a_A           22 VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQY-----TPLTIDKEAFRNLPNLRILDL---------GSSKIYF   87 (844)
T ss_dssp             SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTC-----CCCEECTTTTSSCTTCCEEEC---------TTCCCCE
T ss_pred             CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCC-----CccccCHHHhcCCCCCCEEEC---------CCCcCcc
Confidence            578999999999999876 7789999999999997763     244555666899999999999         6666666


Q ss_pred             c-ccccccCcccCeeeccCccccc-cchh--hccCCcccEEeecCCCCCccc-cccccCcCCCceEecCCCCCCccCCcc
Q 042981          520 I-PENVRKLIHLKYLNLSELCIER-LPKT--LCELYNLQKLDIRWCEDLREL-PAGIGKLKKMRSLLNGGTPLLKYMPIG  594 (876)
Q Consensus       520 l-p~~i~~L~~Lr~L~Ls~~~i~~-lp~~--i~~L~~L~~L~L~~~~~l~~l-p~~i~~L~~L~~L~l~~~~~~~~~p~~  594 (876)
                      + |..|+++++|++|+|++|.++. +|..  ++++++|++|+|++|...... +..|+++++|++|++++|.+.+..|..
T Consensus        88 ~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~  167 (844)
T 3j0a_A           88 LHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHE  167 (844)
T ss_dssp             ECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGG
T ss_pred             cCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHH
Confidence            5 6788889999999999988874 5554  888899999999988544433 356888899999998888776666666


Q ss_pred             CCCC--CCCCccCceeecCcc--------------------CCCcccccc-----cc-----------------------
Q 042981          595 ISKL--TSLRTLEKFAMGGGV--------------------DDISTCRLE-----SL-----------------------  624 (876)
Q Consensus       595 i~~l--~~L~~L~~~~~~~~~--------------------~~ls~~~l~-----~L-----------------------  624 (876)
                      ++.+  ++|+.|......-..                    -+++.+.+.     .+                       
T Consensus       168 l~~l~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~  247 (844)
T 3j0a_A          168 LEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGF  247 (844)
T ss_dssp             GHHHHHCSSCCCEECCSBSCCCCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBCSS
T ss_pred             cccccCCccceEECCCCccccccccchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccccccc
Confidence            6555  555555321110000                    011111100     00                       


Q ss_pred             -------------cc--CCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCc
Q 042981          625 -------------KN--LQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNV  689 (876)
Q Consensus       625 -------------~~--L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L  689 (876)
                                   ..  .++|+.|++++    +.+....+..+..+++|+.|+|++|.+....       ...+..+++|
T Consensus       248 ~~~~l~~~~~~~f~~l~~~~L~~L~Ls~----n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~-------~~~~~~l~~L  316 (844)
T 3j0a_A          248 GFHNIKDPDQNTFAGLARSSVRHLDLSH----GFVFSLNSRVFETLKDLKVLNLAYNKINKIA-------DEAFYGLDNL  316 (844)
T ss_dssp             SCSSSTTGGGTTTTTTTTSCCCEEECTT----CCCCEECSCCSSSCCCCCEEEEESCCCCEEC-------TTTTTTCSSC
T ss_pred             cccccCCCChhhhhccccCCccEEECCC----CcccccChhhhhcCCCCCEEECCCCcCCCCC-------hHHhcCCCCC
Confidence                         00  13344455544    2222333455677888888888888764221       1345567788


Q ss_pred             cEEEEeecCCCCC-CchhhcccCCcEEEEecCCCCCCCC-CCCccc-CceEeecCCCCceE-----------eCcccccC
Q 042981          690 KELGIVSYGGNIF-PKWLTSLTNLRDLRLKSCVICEHFP-PLGKLP-LEKLTLYGLYGVKR-----------VGNEFLGI  755 (876)
Q Consensus       690 ~~L~l~~~~~~~l-p~~l~~l~~L~~L~L~~~~~~~~lp-~l~~Lp-L~~L~L~~~~~l~~-----------~~~~~~~~  755 (876)
                      +.|++++|....+ |.++..+++|+.|+|++|.+....+ .++.++ |+.|+|++|.....           .++.+...
T Consensus       317 ~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~L~~L~l~~N~l~~l  396 (844)
T 3j0a_A          317 QVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTL  396 (844)
T ss_dssp             CEEEEESCCCSCCCSCSCSSCTTCCEEECCSCCCCCCCSSCSCSCCCCCEEEEETCCSCCCSSCCSCSEEEEESCCCCCC
T ss_pred             CEEECCCCCCCccCHHHhcCCCCCCEEECCCCCCCccChhhhcCCCCCCEEECCCCCCCcccCCCCcchhccCCCCcccc
Confidence            8888888877655 6677788888888888888755333 367788 88888887763221           11111111


Q ss_pred             C----CCCCCCCCCCCCCc-----ccccCcccceeecccccccccc--------------------cc-----ccccccc
Q 042981          756 E----GSSEDDPSSSSSSS-----SVIAFPKLKSLHIGAMEELEEW--------------------NY-----RITRKEN  801 (876)
Q Consensus       756 ~----~l~~~~~~~~~~~~-----~~~~~~~L~~L~l~~~~~L~~~--------------------~~-----~~~~~~~  801 (876)
                      .    .+..++++.+.+..     .+..+++|+.|+++++. +...                    .+     .+..+..
T Consensus       397 ~~~~~~l~~L~ls~N~l~~l~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~~~  475 (844)
T 3j0a_A          397 PKINLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNR-FSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDV  475 (844)
T ss_dssp             CCCCTTCCEEECCSCCCCSSTTHHHHTTCTTCCEEEEESCC-CCCCCSSSSSCSCTTCCBCEEESCCCSSSCCSCCCSSC
T ss_pred             cccccccceeecccCccccCchhhhhhcCCccceeeCCCCc-ccccccccccccCCccccccCCCCccccccccccchhh
Confidence            0    01111122111111     12245566666555541 2111                    00     0111233


Q ss_pred             cCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCCCCCCC
Q 042981          802 ISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLP  875 (876)
Q Consensus       802 ~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~~lP  875 (876)
                      +..+++|+.|+|++|......|..+..+++|+.|+|++|... .++..   .+.  ++|+.|++++| +|+.++
T Consensus       476 ~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~-~l~~~---~~~--~~L~~L~Ls~N-~l~~~~  542 (844)
T 3j0a_A          476 FEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLT-VLSHN---DLP--ANLEILDISRN-QLLAPN  542 (844)
T ss_dssp             SSCBCCEECCCCCHHHHTTCCTTSSSSCCSCSEEEEESCCCS-SCCCC---CCC--SCCCEEEEEEE-CCCCCC
T ss_pred             hcCcccccEEECCCCcccccChhHccchhhhheeECCCCCCC-ccChh---hhh--ccccEEECCCC-cCCCCC
Confidence            556677777777777444444445667777777777777533 22211   111  67777777777 454443

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.95  E-value=1.5e-27  Score=275.11  Aligned_cols=385  Identities=15%  Similarity=0.095  Sum_probs=216.2

Q ss_pred             CCceEEEEeeecCCCCCc-ccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc
Q 042981          442 GDKVRHLGLNFEGGASFP-MSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI  520 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~-~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l  520 (876)
                      +.++++|+++.|.+..++ ..|.++++|++|++.+|.      ...+.+..|..+++|++|+|         ++|.+..+
T Consensus        20 ~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~------l~~~~~~~~~~l~~L~~L~L---------s~N~l~~l   84 (520)
T 2z7x_B           20 SQKTTILNISQNYISELWTSDILSLSKLRILIISHNR------IQYLDISVFKFNQELEYLDL---------SHNKLVKI   84 (520)
T ss_dssp             CTTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSC------CCEEEGGGGTTCTTCCEEEC---------CSSCCCEE
T ss_pred             cccccEEECCCCcccccChhhccccccccEEecCCCc------cCCcChHHhhcccCCCEEec---------CCCceeec
Confidence            467788888887777663 567778888888886665      23444555777888888888         66666677


Q ss_pred             ccccccCcccCeeeccCccccc--cchhhccCCcccEEeecCCCCCccccccccCcCCC--ceEecCCCCC--CccCCcc
Q 042981          521 PENVRKLIHLKYLNLSELCIER--LPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKM--RSLLNGGTPL--LKYMPIG  594 (876)
Q Consensus       521 p~~i~~L~~Lr~L~Ls~~~i~~--lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L--~~L~l~~~~~--~~~~p~~  594 (876)
                      |..  .+++|++|+|++|.++.  +|..++++++|++|++++|.. ..  ..+..+++|  ++|++++|.+  .+..|..
T Consensus        85 p~~--~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l-~~--~~~~~l~~L~L~~L~l~~n~l~~~~~~~~~  159 (520)
T 2z7x_B           85 SCH--PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHL-EK--SSVLPIAHLNISKVLLVLGETYGEKEDPEG  159 (520)
T ss_dssp             ECC--CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEESSC-CG--GGGGGGTTSCEEEEEEEECTTTTSSCCTTT
T ss_pred             Ccc--ccCCccEEeccCCccccccchhhhccCCcceEEEecCccc-ch--hhccccccceeeEEEeeccccccccccccc
Confidence            765  67788888888888774  567788888888888887743 32  346667777  8888887766  5555655


Q ss_pred             CCCCC--------------------------CCCccCceeecCcc--CCCccccccccccCCCCCCeeeeCcCCCCCcch
Q 042981          595 ISKLT--------------------------SLRTLEKFAMGGGV--DDISTCRLESLKNLQLLRECGIEGLSNVSHLDE  646 (876)
Q Consensus       595 i~~l~--------------------------~L~~L~~~~~~~~~--~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~  646 (876)
                      +..+.                          +|+.|.........  ..+ ...+..+..+++|+.|.+.++........
T Consensus       160 l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~-~~~~~~l~~l~~L~~L~l~~~~l~~~~~~  238 (520)
T 2z7x_B          160 LQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYF-LSILAKLQTNPKLSNLTLNNIETTWNSFI  238 (520)
T ss_dssp             TTTCCEEEEEEECCSSSCCCCCCCCCCTTCSEEEECCEEECCSTTTTHHH-HHHHHGGGGCTTCCEEEEEEEEEEHHHHH
T ss_pred             ccccccceEEEEeccCcchhhhhhhhhhcccceeecccccccccccccee-ecchhhhccccchhhccccccccCHHHHH
Confidence            55433                          22222111000000  000 00112233444444444433210000000


Q ss_pred             hhhccCcccccCCceEEEeccCCccccchHHHHHhhC-----CCCCCccEEEEeecCCCCCC-chh--------------
Q 042981          647 DERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEAL-----QPPLNVKELGIVSYGGNIFP-KWL--------------  706 (876)
Q Consensus       647 ~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l-----~~~~~L~~L~l~~~~~~~lp-~~l--------------  706 (876)
                      ..... ..+++|+.|++++|.+.+..+       ..+     ..+.+|+.+++.++.. .+| .++              
T Consensus       239 ~~~~~-~~~~~L~~L~l~~n~l~~~~p-------~~~~~~~~~~l~~L~~l~l~~n~~-~~p~~~~~~~~~~~~L~~L~l  309 (520)
T 2z7x_B          239 RILQL-VWHTTVWYFSISNVKLQGQLD-------FRDFDYSGTSLKALSIHQVVSDVF-GFPQSYIYEIFSNMNIKNFTV  309 (520)
T ss_dssp             HHHHH-HHTSSCSEEEEEEEEEESCCC-------CCCCCCCSCCCCEEEEEEEEECCC-CSCTHHHHHHHHTCCCSEEEE
T ss_pred             HHHHH-hhhCcccEEEeecccccCccc-------cchhhcccccCceeEeccccccce-ecchhhhhcccccCceeEEEc
Confidence            00000 012356666666654421100       111     2222333333333332 222 111              


Q ss_pred             -----------hcccCCcEEEEecCCCCCCC-CCCCccc-CceEeecCCCCce--EeCcccccCCCCCCCCCCCCCCCc-
Q 042981          707 -----------TSLTNLRDLRLKSCVICEHF-PPLGKLP-LEKLTLYGLYGVK--RVGNEFLGIEGSSEDDPSSSSSSS-  770 (876)
Q Consensus       707 -----------~~l~~L~~L~L~~~~~~~~l-p~l~~Lp-L~~L~L~~~~~l~--~~~~~~~~~~~l~~~~~~~~~~~~-  770 (876)
                                 ..+++|++|++++|.+.+.+ +.++.++ |+.|++++|....  ..+..+.....+..++++.+.+.. 
T Consensus       310 ~~n~l~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~  389 (520)
T 2z7x_B          310 SGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYD  389 (520)
T ss_dssp             ESSCCCCCCCCSSCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCC
T ss_pred             CCCccccccchhhCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcc
Confidence                       45667777777777776633 3466677 7777777766443  122334455556666666554432 


Q ss_pred             ----ccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhh
Q 042981          771 ----SVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEEL  846 (876)
Q Consensus       771 ----~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l  846 (876)
                          .+..+++|+.|+++++. +...     .+..+  .++|+.|++++| .++.+|..+..+++|++|++++|+.. .+
T Consensus       390 l~~~~~~~l~~L~~L~Ls~N~-l~~~-----~~~~l--~~~L~~L~Ls~N-~l~~ip~~~~~l~~L~~L~L~~N~l~-~l  459 (520)
T 2z7x_B          390 EKKGDCSWTKSLLSLNMSSNI-LTDT-----IFRCL--PPRIKVLDLHSN-KIKSIPKQVVKLEALQELNVASNQLK-SV  459 (520)
T ss_dssp             GGGCSCCCCTTCCEEECCSSC-CCGG-----GGGSC--CTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSSCCC-CC
T ss_pred             cccchhccCccCCEEECcCCC-CCcc-----hhhhh--cccCCEEECCCC-cccccchhhhcCCCCCEEECCCCcCC-cc
Confidence                24456777777776652 2211     12222  168888888888 55688887778888999999888644 44


Q ss_pred             ccccccCCCCCCCcCEEEEccCC
Q 042981          847 RILEDHRTTDIPRLSSLEIEYCP  869 (876)
Q Consensus       847 ~~~~~~~~~~lp~L~~L~i~~c~  869 (876)
                      +.   ..+..+++|+.|++++||
T Consensus       460 ~~---~~~~~l~~L~~L~l~~N~  479 (520)
T 2z7x_B          460 PD---GIFDRLTSLQKIWLHTNP  479 (520)
T ss_dssp             CT---TTTTTCTTCCEEECCSSC
T ss_pred             CH---HHhccCCcccEEECcCCC
Confidence            32   246778889999998885

>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=99.95  E-value=1.8e-27  Score=284.08  Aligned_cols=403  Identities=18%  Similarity=0.189  Sum_probs=240.3

Q ss_pred             CCCceEEEEeeecCCCCCc-ccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          441 FGDKVRHLGLNFEGGASFP-MSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       441 ~~~~lr~L~l~~~~~~~~~-~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      .+.++++|+++.|.+..++ ..|.++++|++|++.++.      ...+.+..|.++++|++|+|         ++|.+..
T Consensus        23 ~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~------l~~~~~~~~~~l~~L~~L~L---------~~n~l~~   87 (680)
T 1ziw_A           23 LPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNT------ISKLEPELCQKLPMLKVLNL---------QHNELSQ   87 (680)
T ss_dssp             SCTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSC------CCCCCTTHHHHCTTCCEEEC---------CSSCCCC
T ss_pred             cCCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCc------cCccCHHHHhcccCcCEEEC---------CCCccCc
Confidence            3678999999999988874 468899999999998775      23445566889999999999         7777778


Q ss_pred             ccc-ccccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCC-
Q 042981          520 IPE-NVRKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGIS-  596 (876)
Q Consensus       520 lp~-~i~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~-  596 (876)
                      +|. .|+++++|++|+|++|.++.+| ..++++++|++|++++|......|..+.++++|++|++++|.+.+..|..++ 
T Consensus        88 l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~  167 (680)
T 1ziw_A           88 LSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDI  167 (680)
T ss_dssp             CCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHHHHGG
T ss_pred             cChhhhccCCCCCEEECCCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccccCHHHhhc
Confidence            886 5889999999999999998877 5688999999999999866666677788899999999998876554443332 


Q ss_pred             -CCCCCCccCceeecCccC-----------------------------------------CCccccc-----cccccCC-
Q 042981          597 -KLTSLRTLEKFAMGGGVD-----------------------------------------DISTCRL-----ESLKNLQ-  628 (876)
Q Consensus       597 -~l~~L~~L~~~~~~~~~~-----------------------------------------~ls~~~l-----~~L~~L~-  628 (876)
                       .+++|+.|......-...                                         +++.+.+     ..+..++ 
T Consensus       168 ~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l~~~~~~~~~~l~~  247 (680)
T 1ziw_A          168 FANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKW  247 (680)
T ss_dssp             GTTCEESEEECTTCCCCCBCTTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTSCCCEECTTTTGGGGG
T ss_pred             cccccccEEECCCCcccccChhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCCcccccChhHhhccCc
Confidence             345666653211100000                                         0000000     0111221 


Q ss_pred             -CCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCC------C
Q 042981          629 -LLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGN------I  701 (876)
Q Consensus       629 -~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~------~  701 (876)
                       +|+.|+++++    .+....+..+..+++|+.|++++|.+...       ....+..+++|+.|++.++...      .
T Consensus       248 ~~L~~L~Ls~n----~l~~~~~~~~~~l~~L~~L~L~~n~l~~~-------~~~~~~~l~~L~~L~L~~~~~~~~~~~~~  316 (680)
T 1ziw_A          248 TNLTMLDLSYN----NLNVVGNDSFAWLPQLEYFFLEYNNIQHL-------FSHSLHGLFNVRYLNLKRSFTKQSISLAS  316 (680)
T ss_dssp             SCCCEEECTTS----CCCEECTTTTTTCTTCCEEECCSCCBSEE-------CTTTTTTCTTCCEEECTTCBCCC------
T ss_pred             CCCCEEECCCC----CcCccCcccccCcccccEeeCCCCccCcc-------ChhhhcCCCCccEEeccchhhhccccccc
Confidence             1444444442    22222233455566666666666654311       1123445566777776654322      3


Q ss_pred             CCc----hhhcccCCcEEEEecCCCCCCCC-CCCccc-CceEeecCCCC-ceEe-CcccccC--CCCCCCCCCCCCC---
Q 042981          702 FPK----WLTSLTNLRDLRLKSCVICEHFP-PLGKLP-LEKLTLYGLYG-VKRV-GNEFLGI--EGSSEDDPSSSSS---  768 (876)
Q Consensus       702 lp~----~l~~l~~L~~L~L~~~~~~~~lp-~l~~Lp-L~~L~L~~~~~-l~~~-~~~~~~~--~~l~~~~~~~~~~---  768 (876)
                      +|.    .+..+++|++|++++|.+.+..+ .++.++ |+.|++++|.. +..+ ...|...  ..+..++++.+.+   
T Consensus       317 lp~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~~~~~~l~~~~f~~~~~~~L~~L~L~~n~l~~~  396 (680)
T 1ziw_A          317 LPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKI  396 (680)
T ss_dssp             CCEECTTTTTTCTTCCEEECCSCCBCCCCTTTTTTCTTCCEEECTTCBSCCCEECTTTTGGGTTSCCCEEECTTSCCCEE
T ss_pred             ccccChhhcccCCCCCEEECCCCccCCCChhHhccccCCcEEECCCCchhhhhcchhhhcccccCcCceEECCCCCCCeE
Confidence            343    55677888888888888766443 266777 88888776641 1111 1111111  1222233332221   


Q ss_pred             -CcccccCcccceeecccccccccc-------------------ccccccccccCcccccceeeeccCccC--CCCCCCC
Q 042981          769 -SSSVIAFPKLKSLHIGAMEELEEW-------------------NYRITRKENISIMPRLSSLTIWYCPRL--RVLPDYL  826 (876)
Q Consensus       769 -~~~~~~~~~L~~L~l~~~~~L~~~-------------------~~~~~~~~~~~~l~~L~~L~l~~c~~l--~~lp~~l  826 (876)
                       +..+..+++|+.|+++++.--...                   .+....+..+..+|+|+.|++++|...  ..+|..+
T Consensus       397 ~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~p~~~  476 (680)
T 1ziw_A          397 ESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPF  476 (680)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECCTTTTTTCTTCCEEECTTSCCBCTTCSSCTT
T ss_pred             ChhhhhCCCCCCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeChhhhhcCcccccchhccccccccccCCccc
Confidence             223444555555555443210000                   011111234445666666666666432  3567777


Q ss_pred             CCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCCCCCC
Q 042981          827 FQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVL  874 (876)
Q Consensus       827 ~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~~l  874 (876)
                      .++++|+.|++++|... .+   ....+..+++|+.|++++| +++.+
T Consensus       477 ~~l~~L~~L~Ls~N~l~-~i---~~~~~~~l~~L~~L~Ls~N-~l~~~  519 (680)
T 1ziw_A          477 QPLRNLTILDLSNNNIA-NI---NDDMLEGLEKLEILDLQHN-NLARL  519 (680)
T ss_dssp             TTCTTCCEEECCSSCCC-CC---CTTTTTTCTTCCEEECCSS-CCGGG
T ss_pred             ccCCCCCEEECCCCCCC-cC---ChhhhccccccCEEeCCCC-Ccccc
Confidence            77888888888887643 22   2234677888999999888 45543

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.95  E-value=2.2e-27  Score=277.36  Aligned_cols=402  Identities=16%  Similarity=0.083  Sum_probs=265.8

Q ss_pred             CCceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc
Q 042981          442 GDKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI  520 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l  520 (876)
                      -+++++|+++.|.+..+ +..|.++++|++|++.+|.      ...+++..|..+++|++|++         ++|.+..+
T Consensus        51 l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~------l~~~~~~~~~~l~~L~~L~L---------~~n~l~~l  115 (570)
T 2z63_A           51 FPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP------IQSLALGAFSGLSSLQKLVA---------VETNLASL  115 (570)
T ss_dssp             CSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCC------CCEECTTTTTTCTTCCEEEC---------TTSCCCCS
T ss_pred             CCCceEEECCCCcCCccCcccccCchhCCEEeCcCCc------CCccCHhhhcCccccccccc---------cccccccC
Confidence            46799999999998877 5678999999999998775      34455566899999999999         77777777


Q ss_pred             cc-ccccCcccCeeeccCccccc--cchhhccCCcccEEeecCCCCCccccccccCcCCC----ceEecCCCCCCccCCc
Q 042981          521 PE-NVRKLIHLKYLNLSELCIER--LPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKM----RSLLNGGTPLLKYMPI  593 (876)
Q Consensus       521 p~-~i~~L~~Lr~L~Ls~~~i~~--lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L----~~L~l~~~~~~~~~p~  593 (876)
                      |. .++++++|++|++++|.++.  +|..++++++|++|++++|......|..++.+++|    ++|++++|.+....|.
T Consensus       116 ~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~~~~~L~l~~n~l~~~~~~  195 (570)
T 2z63_A          116 ENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPG  195 (570)
T ss_dssp             TTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSCCCEECGGGGHHHHTCTTCCCEEECTTCCCCEECTT
T ss_pred             CCccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCCccceecHHHccchhccchhhhhcccCCCCceecCHH
Confidence            75 58999999999999999985  79999999999999999996555567778888888    8999999977655554


Q ss_pred             cCCCCCCCCccCceeecCcc-----------------------------C------------------------CCcccc
Q 042981          594 GISKLTSLRTLEKFAMGGGV-----------------------------D------------------------DISTCR  620 (876)
Q Consensus       594 ~i~~l~~L~~L~~~~~~~~~-----------------------------~------------------------~ls~~~  620 (876)
                      .+..+ +|+.|.........                             .                        .+....
T Consensus       196 ~~~~~-~L~~L~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~l~~l~l~~l~l~~~~~~~~~~  274 (570)
T 2z63_A          196 AFKEI-RLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDI  274 (570)
T ss_dssp             TTTTC-EEEEEEEESCCSCTTHHHHHHHTTTTCEEEEEEEEECCCCSSCEECCTTTTGGGGGSEEEEEEEEETTEEESCS
T ss_pred             HhccC-cceeEecccccccccchhhhhcCccccceeeeccccccCchhhhhcchhhhccccccchhhhhhhcchhhhhhc
Confidence            44432 44444211100000                             0                        000111


Q ss_pred             ccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchH------------HHHHhhCCCCCC
Q 042981          621 LESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKN------------QQLLEALQPPLN  688 (876)
Q Consensus       621 l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~------------~~~~~~l~~~~~  688 (876)
                      ...+..+++|+.|+++++...     ..+..+..+ +|+.|+++.|.+........            .........+++
T Consensus       275 ~~~~~~l~~L~~L~l~~~~l~-----~l~~~~~~~-~L~~L~l~~n~~~~l~~~~l~~L~~L~l~~n~~~~~~~~~~~~~  348 (570)
T 2z63_A          275 IDLFNCLTNVSSFSLVSVTIE-----RVKDFSYNF-GWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPS  348 (570)
T ss_dssp             TTTTGGGTTCSEEEEESCEEC-----SCCBCCSCC-CCSEEEEESCBCSSCCBCBCSSCCEEEEESCBSCCBCCCCBCTT
T ss_pred             hhhhcCcCcccEEEecCccch-----hhhhhhccC-CccEEeeccCcccccCcccccccCEEeCcCCccccccccccCCC
Confidence            123455667777777653211     122233334 45555555444321000000            000000023456


Q ss_pred             ccEEEEeecCCCCC---CchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeC-cccccCCCCCCCCC
Q 042981          689 VKELGIVSYGGNIF---PKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVG-NEFLGIEGSSEDDP  763 (876)
Q Consensus       689 L~~L~l~~~~~~~l---p~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~-~~~~~~~~l~~~~~  763 (876)
                      |+.|+++++.....   |..+..+++|++|++++|.+.+..+.++.++ |+.|++++|......+ ..+.....+..+++
T Consensus       349 L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l  428 (570)
T 2z63_A          349 LEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDI  428 (570)
T ss_dssp             CCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESCTTSCTTTTCTTCCEEEC
T ss_pred             CCEEeCcCCccCccccccccccccCccCEEECCCCccccccccccccCCCCEEEccCCccccccchhhhhcCCCCCEEeC
Confidence            66676666655443   4556677777777777777655444466677 7777777765333222 23444555566666


Q ss_pred             CCCC----CCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEec
Q 042981          764 SSSS----SSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISY  839 (876)
Q Consensus       764 ~~~~----~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~  839 (876)
                      +.+.    .+..+..+++|+.|+++++. +....+    +..+..+++|+.|++++|......|..+..+++|++|++++
T Consensus       429 ~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~----p~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  503 (570)
T 2z63_A          429 SHTHTRVAFNGIFNGLSSLEVLKMAGNS-FQENFL----PDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS  503 (570)
T ss_dssp             TTSCCEECCTTTTTTCTTCCEEECTTCE-EGGGEE----CSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             cCCcccccchhhhhcCCcCcEEECcCCc-Cccccc----hhhhhcccCCCEEECCCCccccCChhhhhcccCCCEEeCCC
Confidence            5443    23456789999999998884 332222    56778999999999999966666688999999999999999


Q ss_pred             CCCchhhccccccCCCCCCCcCEEEEccCCCCCCC
Q 042981          840 CPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVL  874 (876)
Q Consensus       840 ~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~~l  874 (876)
                      |+.....    ...+..+++|+.|++++||--...
T Consensus       504 n~l~~~~----~~~~~~l~~L~~L~l~~N~~~~~~  534 (570)
T 2z63_A          504 NQLKSVP----DGIFDRLTSLQKIWLHTNPWDCSC  534 (570)
T ss_dssp             SCCSCCC----TTTTTTCTTCCEEECCSSCBCCCT
T ss_pred             CcCCCCC----HHHhhcccCCcEEEecCCcccCCC
Confidence            9654322    225788999999999998644333

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.94  E-value=3.3e-26  Score=259.53  Aligned_cols=342  Identities=21%  Similarity=0.242  Sum_probs=251.3

Q ss_pred             CceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccc
Q 042981          443 DKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPE  522 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~  522 (876)
                      ..++.+.+..+.+..++ .+..+++|++|++.+|.      ...+++  +..+++|++|++         ++|.+..++.
T Consensus        46 ~~l~~L~l~~~~i~~l~-~~~~l~~L~~L~Ls~n~------l~~~~~--~~~l~~L~~L~l---------~~n~l~~~~~  107 (466)
T 1o6v_A           46 DQVTTLQADRLGIKSID-GVEYLNNLTQINFSNNQ------LTDITP--LKNLTKLVDILM---------NNNQIADITP  107 (466)
T ss_dssp             HTCCEEECCSSCCCCCT-TGGGCTTCCEEECCSSC------CCCCGG--GTTCTTCCEEEC---------CSSCCCCCGG
T ss_pred             ccccEEecCCCCCccCc-chhhhcCCCEEECCCCc------cCCchh--hhccccCCEEEC---------CCCccccChh
Confidence            56888999888887765 47788999999997765      222333  788999999999         7777777776


Q ss_pred             ccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCC
Q 042981          523 NVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLR  602 (876)
Q Consensus       523 ~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~  602 (876)
                       ++++++|++|++++|.++.+|. +.++++|++|++++| .+..+|. +..+++|++|+++++ .. .++ .++++++|+
T Consensus       108 -~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~l~~n-~l~~~~~-~~~l~~L~~L~l~~~-~~-~~~-~~~~l~~L~  180 (466)
T 1o6v_A          108 -LANLTNLTGLTLFNNQITDIDP-LKNLTNLNRLELSSN-TISDISA-LSGLTSLQQLSFGNQ-VT-DLK-PLANLTTLE  180 (466)
T ss_dssp             -GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEEEEEE-EECCCGG-GTTCTTCSEEEEEES-CC-CCG-GGTTCTTCC
T ss_pred             -hcCCCCCCEEECCCCCCCCChH-HcCCCCCCEEECCCC-ccCCChh-hccCCcccEeecCCc-cc-Cch-hhccCCCCC
Confidence             8899999999999999998876 889999999999988 4666664 889999999998643 32 333 377888888


Q ss_pred             ccCceeecCccCCCccccc---cccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHH
Q 042981          603 TLEKFAMGGGVDDISTCRL---ESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQL  679 (876)
Q Consensus       603 ~L~~~~~~~~~~~ls~~~l---~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~  679 (876)
                      .|.          ++.+.+   ..+..+++|+.|+++++..    ....+  +..+++|+.|++++|.+...        
T Consensus       181 ~L~----------l~~n~l~~~~~l~~l~~L~~L~l~~n~l----~~~~~--~~~l~~L~~L~l~~n~l~~~--------  236 (466)
T 1o6v_A          181 RLD----------ISSNKVSDISVLAKLTNLESLIATNNQI----SDITP--LGILTNLDELSLNGNQLKDI--------  236 (466)
T ss_dssp             EEE----------CCSSCCCCCGGGGGCTTCSEEECCSSCC----CCCGG--GGGCTTCCEEECCSSCCCCC--------
T ss_pred             EEE----------CcCCcCCCChhhccCCCCCEEEecCCcc----ccccc--ccccCCCCEEECCCCCcccc--------
Confidence            883          333333   3466778888888887432    22111  56788899999998876422        


Q ss_pred             HhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCCCC
Q 042981          680 LEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGS  758 (876)
Q Consensus       680 ~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l  758 (876)
                       ..+..+++|+.|++.++....++. +..+++|+.|++++|.+.+. +.++.++ |+.|++++|......          
T Consensus       237 -~~l~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~L~~n~l~~~~----------  303 (466)
T 1o6v_A          237 -GTLASLTNLTDLDLANNQISNLAP-LSGLTKLTELKLGANQISNI-SPLAGLTALTNLELNENQLEDIS----------  303 (466)
T ss_dssp             -GGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCSSCCCCC-GGGTTCTTCSEEECCSSCCSCCG----------
T ss_pred             -hhhhcCCCCCEEECCCCccccchh-hhcCCCCCEEECCCCccCcc-ccccCCCccCeEEcCCCcccCch----------
Confidence             234567889999999888777665 77889999999999988654 4478888 999999887633211          


Q ss_pred             CCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEe
Q 042981          759 SEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSIS  838 (876)
Q Consensus       759 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~  838 (876)
                                  .+..+++|+.|+++++ .+....       .+..+++|+.|++++| .+..++ .+..+++|+.|+++
T Consensus       304 ------------~~~~l~~L~~L~L~~n-~l~~~~-------~~~~l~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~l~  361 (466)
T 1o6v_A          304 ------------PISNLKNLTYLTLYFN-NISDIS-------PVSSLTKLQRLFFYNN-KVSDVS-SLANLTNINWLSAG  361 (466)
T ss_dssp             ------------GGGGCTTCSEEECCSS-CCSCCG-------GGGGCTTCCEEECCSS-CCCCCG-GGTTCTTCCEEECC
T ss_pred             ------------hhcCCCCCCEEECcCC-cCCCch-------hhccCccCCEeECCCC-ccCCch-hhccCCCCCEEeCC
Confidence                        1346888999988877 344321       2567899999999988 455554 57788999999999


Q ss_pred             cCCCchhhccccccCCCCCCCcCEEEEccCCCCCCCC
Q 042981          839 YCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLP  875 (876)
Q Consensus       839 ~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~~lP  875 (876)
                      +|+.....+      +..+|+|+.|++++| .++.+|
T Consensus       362 ~n~l~~~~~------~~~l~~L~~L~l~~n-~~~~~p  391 (466)
T 1o6v_A          362 HNQISDLTP------LANLTRITQLGLNDQ-AWTNAP  391 (466)
T ss_dssp             SSCCCBCGG------GTTCTTCCEEECCCE-EEECCC
T ss_pred             CCccCccch------hhcCCCCCEEeccCC-cccCCc
Confidence            887654432      577889999998888 344444

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.94  E-value=4.4e-26  Score=265.11  Aligned_cols=149  Identities=15%  Similarity=0.092  Sum_probs=102.1

Q ss_pred             hcccCCcEEEEecCCCCCCCC-CCCccc-CceEeecCCCCceE--eCcccccCCCCCCCCCCCCCCCc-----ccccCcc
Q 042981          707 TSLTNLRDLRLKSCVICEHFP-PLGKLP-LEKLTLYGLYGVKR--VGNEFLGIEGSSEDDPSSSSSSS-----SVIAFPK  777 (876)
Q Consensus       707 ~~l~~L~~L~L~~~~~~~~lp-~l~~Lp-L~~L~L~~~~~l~~--~~~~~~~~~~l~~~~~~~~~~~~-----~~~~~~~  777 (876)
                      ..+++|++|++++|.+.+..| .++.++ |+.|++++|.....  .+..+.....+..++++.+.+..     .+..+++
T Consensus       350 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~  429 (562)
T 3a79_B          350 PSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAES  429 (562)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTT
T ss_pred             cCCCCceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCccc
Confidence            466777888888887766433 467777 88888877654321  11234455556666666544322     3556788


Q ss_pred             cceeeccccccccccccccccccccCcc-cccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCC
Q 042981          778 LKSLHIGAMEELEEWNYRITRKENISIM-PRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTD  856 (876)
Q Consensus       778 L~~L~l~~~~~L~~~~~~~~~~~~~~~l-~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~  856 (876)
                      |+.|+++++. +...     .+.   .+ ++|+.|++++| .++.+|..+..+++|+.|++++|... .++.   ..+..
T Consensus       430 L~~L~l~~n~-l~~~-----~~~---~l~~~L~~L~L~~N-~l~~ip~~~~~l~~L~~L~L~~N~l~-~l~~---~~~~~  495 (562)
T 3a79_B          430 ILVLNLSSNM-LTGS-----VFR---CLPPKVKVLDLHNN-RIMSIPKDVTHLQALQELNVASNQLK-SVPD---GVFDR  495 (562)
T ss_dssp             CCEEECCSSC-CCGG-----GGS---SCCTTCSEEECCSS-CCCCCCTTTTSSCCCSEEECCSSCCC-CCCT---TSTTT
T ss_pred             CCEEECCCCC-CCcc-----hhh---hhcCcCCEEECCCC-cCcccChhhcCCCCCCEEECCCCCCC-CCCH---HHHhc
Confidence            8888887763 3321     122   33 69999999999 67789988889999999999999754 4433   24778


Q ss_pred             CCCcCEEEEccCC
Q 042981          857 IPRLSSLEIEYCP  869 (876)
Q Consensus       857 lp~L~~L~i~~c~  869 (876)
                      +++|+.|++++||
T Consensus       496 l~~L~~L~l~~N~  508 (562)
T 3a79_B          496 LTSLQYIWLHDNP  508 (562)
T ss_dssp             CTTCCCEECCSCC
T ss_pred             CCCCCEEEecCCC
Confidence            8999999999986

>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=99.94  E-value=8.2e-26  Score=269.62  Aligned_cols=191  Identities=18%  Similarity=0.127  Sum_probs=144.6

Q ss_pred             EEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc-ccccc
Q 042981          447 HLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI-PENVR  525 (876)
Q Consensus       447 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l-p~~i~  525 (876)
                      .++.+.+++..+|..+.  ++|++|++.++.      ...+++..|.++++|++|+|         ++|.+..+ |..++
T Consensus         8 ~~~cs~~~L~~ip~~~~--~~l~~L~Ls~n~------l~~~~~~~~~~l~~L~~L~L---------s~n~l~~~~~~~~~   70 (680)
T 1ziw_A            8 VADCSHLKLTQVPDDLP--TNITVLNLTHNQ------LRRLPAANFTRYSQLTSLDV---------GFNTISKLEPELCQ   70 (680)
T ss_dssp             EEECCSSCCSSCCSCSC--TTCSEEECCSSC------CCCCCGGGGGGGTTCSEEEC---------CSSCCCCCCTTHHH
T ss_pred             eeECCCCCccccccccC--CCCcEEECCCCC------CCCcCHHHHhCCCcCcEEEC---------CCCccCccCHHHHh
Confidence            46667777777777664  799999998776      34455666899999999999         66666665 56789


Q ss_pred             cCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          526 KLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      ++++|++|+|++|.++.+|. .++++++|++|++++|......|..|+++++|++|++++|.+.+..|..++++++|++|
T Consensus        71 ~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L  150 (680)
T 1ziw_A           71 KLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQEL  150 (680)
T ss_dssp             HCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEE
T ss_pred             cccCcCEEECCCCccCccChhhhccCCCCCEEECCCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEE
Confidence            99999999999999999997 59999999999999995544445779999999999999998877778888999999998


Q ss_pred             CceeecCccCCCcccccccc-------ccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccC
Q 042981          605 EKFAMGGGVDDISTCRLESL-------KNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEE  668 (876)
Q Consensus       605 ~~~~~~~~~~~ls~~~l~~L-------~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~  668 (876)
                                +++.+.+..+       ..+++|+.|+++++    .+....+..+..+.+|+.|++..+.+
T Consensus       151 ----------~L~~n~l~~~~~~~~~~~~~~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~l~~~~l  207 (680)
T 1ziw_A          151 ----------LLSNNKIQALKSEELDIFANSSLKKLELSSN----QIKEFSPGCFHAIGRLFGLFLNNVQL  207 (680)
T ss_dssp             ----------ECCSSCCCCBCHHHHGGGTTCEESEEECTTC----CCCCBCTTGGGGSSEECEEECTTCCC
T ss_pred             ----------EccCCcccccCHHHhhccccccccEEECCCC----cccccChhhhhhhhhhhhhhcccccc
Confidence                      3334444322       23577888888874    22233334455666666666655443

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.94  E-value=9.6e-26  Score=255.51  Aligned_cols=356  Identities=15%  Similarity=0.115  Sum_probs=207.0

Q ss_pred             CCCceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          441 FGDKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       441 ~~~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      .++++++|+++.|.+..+ +..+.++++|++|++.++.     +...+++..|..+++|++|+|         ++|.+..
T Consensus        28 l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~-----~~~~i~~~~~~~l~~L~~L~L---------s~n~l~~   93 (455)
T 3v47_A           28 LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQT-----PGLVIRNNTFRGLSSLIILKL---------DYNQFLQ   93 (455)
T ss_dssp             CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCS-----TTCEECTTTTTTCTTCCEEEC---------TTCTTCE
T ss_pred             CCCccCEEEecCCccCcCChhHhccCccccEEECcCCc-----ccceECcccccccccCCEEeC---------CCCccCc
Confidence            467788899988888776 6778888899999887664     223444556788888999999         6666665


Q ss_pred             c-ccccccCcccCeeeccCccccc-cchh--hccCCcccEEeecCCCCCcccccc-ccCcCCCceEecCCCCCCccCCcc
Q 042981          520 I-PENVRKLIHLKYLNLSELCIER-LPKT--LCELYNLQKLDIRWCEDLRELPAG-IGKLKKMRSLLNGGTPLLKYMPIG  594 (876)
Q Consensus       520 l-p~~i~~L~~Lr~L~Ls~~~i~~-lp~~--i~~L~~L~~L~L~~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~~p~~  594 (876)
                      + |..++++++|++|+|++|.++. +|..  ++++++|++|+|++|......|.. +.++++|++|++++|.+.+..|..
T Consensus        94 ~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~  173 (455)
T 3v47_A           94 LETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEED  173 (455)
T ss_dssp             ECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTTT
T ss_pred             cChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCcccccChhh
Confidence            4 6778888899999999888874 4444  888889999999888655555665 788889999999888776666666


Q ss_pred             CCCC--CCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccc
Q 042981          595 ISKL--TSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEG  672 (876)
Q Consensus       595 i~~l--~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~  672 (876)
                      +..+  .+|+.|          +++.+.+..+...               .........+..+++|+.|++++|.+.+..
T Consensus       174 l~~l~~~~L~~L----------~l~~n~l~~~~~~---------------~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~  228 (455)
T 3v47_A          174 LLNFQGKHFTLL----------RLSSITLQDMNEY---------------WLGWEKCGNPFKNTSITTLDLSGNGFKESM  228 (455)
T ss_dssp             SGGGTTCEEEEE----------ECTTCBCTTCSTT---------------CTTHHHHCCTTTTCEEEEEECTTSCCCHHH
T ss_pred             hhcccccccccc----------ccccCcccccchh---------------hccccccccccccceeeeEecCCCcccccc
Confidence            6554  334444          2222222221110               000111112334455566666555543111


Q ss_pred             cchHHHHHhhCCCCCCccEEEEeecCCCC-------C----Cchhh--cccCCcEEEEecCCCCCCCC-CCCccc-CceE
Q 042981          673 RRKNQQLLEALQPPLNVKELGIVSYGGNI-------F----PKWLT--SLTNLRDLRLKSCVICEHFP-PLGKLP-LEKL  737 (876)
Q Consensus       673 ~~~~~~~~~~l~~~~~L~~L~l~~~~~~~-------l----p~~l~--~l~~L~~L~L~~~~~~~~lp-~l~~Lp-L~~L  737 (876)
                          ...+.......+|+.|.+.++....       +    +..+.  ..++|+.|++++|.+.+..| .++.++ |+.|
T Consensus       229 ----~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  304 (455)
T 3v47_A          229 ----AKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQL  304 (455)
T ss_dssp             ----HHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCEECTTTTTTCTTCCEE
T ss_pred             ----hhhhhccccccceeeEeeccccccccccchhhhccCcccccccccccCceEEEecCccccccchhhcccCCCCCEE
Confidence                1111111223455555555442111       0    11111  23566777777776655433 256666 7777


Q ss_pred             eecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCc
Q 042981          738 TLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCP  817 (876)
Q Consensus       738 ~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~  817 (876)
                      ++++|......+..                    +..+++|+.|+++++ .+...     .+..+..+++|++|++++|.
T Consensus       305 ~Ls~n~l~~~~~~~--------------------~~~l~~L~~L~Ls~N-~l~~~-----~~~~~~~l~~L~~L~Ls~N~  358 (455)
T 3v47_A          305 TLAQNEINKIDDNA--------------------FWGLTHLLKLNLSQN-FLGSI-----DSRMFENLDKLEVLDLSYNH  358 (455)
T ss_dssp             ECTTSCCCEECTTT--------------------TTTCTTCCEEECCSS-CCCEE-----CGGGGTTCTTCCEEECCSSC
T ss_pred             ECCCCcccccChhH--------------------hcCcccCCEEECCCC-ccCCc-----ChhHhcCcccCCEEECCCCc
Confidence            77666543322221                    234566666666555 23222     12345566666666666664


Q ss_pred             cCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCC
Q 042981          818 RLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCP  869 (876)
Q Consensus       818 ~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~  869 (876)
                      .....|..+..+++|++|++++|+.. .++   ...+..+++|+.|++++|+
T Consensus       359 l~~~~~~~~~~l~~L~~L~L~~N~l~-~~~---~~~~~~l~~L~~L~l~~N~  406 (455)
T 3v47_A          359 IRALGDQSFLGLPNLKELALDTNQLK-SVP---DGIFDRLTSLQKIWLHTNP  406 (455)
T ss_dssp             CCEECTTTTTTCTTCCEEECCSSCCS-CCC---TTTTTTCTTCCEEECCSSC
T ss_pred             ccccChhhccccccccEEECCCCccc-cCC---HhHhccCCcccEEEccCCC
Confidence            44444556666666666666666433 221   1234566666666666654

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.94  E-value=1.1e-25  Score=273.88  Aligned_cols=389  Identities=18%  Similarity=0.137  Sum_probs=263.4

Q ss_pred             CCceEEEEeeecCC-CCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          442 GDKVRHLGLNFEGG-ASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       442 ~~~lr~L~l~~~~~-~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      -.+++.|+++.|.. ..+ +..|.++++|++|++.+|.      ...+.+..|.++++|++|+|         ++|.+..
T Consensus        47 l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~------l~~~~p~~~~~l~~L~~L~L---------s~n~l~~  111 (844)
T 3j0a_A           47 LEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSK------IYFLHPDAFQGLFHLFELRL---------YFCGLSD  111 (844)
T ss_dssp             CCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCC------CCEECTTSSCSCSSCCCEEC---------TTCCCSS
T ss_pred             cccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCc------CcccCHhHccCCcccCEeeC---------cCCCCCc
Confidence            46789999998843 344 6778999999999997765      33445566889999999999         5555554


Q ss_pred             -cccc--cccCcccCeeeccCccccccc--hhhccCCcccEEeecCCCCCccccccccCc--CCCceEecCCCCCCccCC
Q 042981          520 -IPEN--VRKLIHLKYLNLSELCIERLP--KTLCELYNLQKLDIRWCEDLRELPAGIGKL--KKMRSLLNGGTPLLKYMP  592 (876)
Q Consensus       520 -lp~~--i~~L~~Lr~L~Ls~~~i~~lp--~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L--~~L~~L~l~~~~~~~~~p  592 (876)
                       +|..  ++++++|++|+|++|.++.++  ..++++++|++|+|++|......|..+..+  ++|+.|++++|.+.+..|
T Consensus       112 ~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l~~~~L~~L~L~~n~l~~~~~  191 (844)
T 3j0a_A          112 AVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRVS  191 (844)
T ss_dssp             CCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGGGHHHHHCSSCCCEECCSBSCCCCC
T ss_pred             ccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHHcccccCCccceEECCCCccccccc
Confidence             4544  788999999999999988653  568999999999999986666667777766  677777777776666666


Q ss_pred             ccCCCCCC------CCccCceeecC----------------------------------------------------ccC
Q 042981          593 IGISKLTS------LRTLEKFAMGG----------------------------------------------------GVD  614 (876)
Q Consensus       593 ~~i~~l~~------L~~L~~~~~~~----------------------------------------------------~~~  614 (876)
                      ..++.+.+      |+.|......-                                                    ..-
T Consensus       192 ~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~~~~~~~f~~l~~~~L~~L  271 (844)
T 3j0a_A          192 VDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHL  271 (844)
T ss_dssp             CCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBCSSSCSSSTTGGGTTTTTTTTSCCCEE
T ss_pred             cchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccccccccccccCCCChhhhhccccCCccEE
Confidence            55544443      44433221100                                                    000


Q ss_pred             CCccccc-----cccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCc
Q 042981          615 DISTCRL-----ESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNV  689 (876)
Q Consensus       615 ~ls~~~l-----~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L  689 (876)
                      +++.+.+     ..+..+++|+.|++++    +.+....+..+.++++|+.|++++|.+....       ...+..+++|
T Consensus       272 ~Ls~n~l~~~~~~~~~~l~~L~~L~L~~----n~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~-------~~~~~~l~~L  340 (844)
T 3j0a_A          272 DLSHGFVFSLNSRVFETLKDLKVLNLAY----NKINKIADEAFYGLDNLQVLNLSYNLLGELY-------SSNFYGLPKV  340 (844)
T ss_dssp             ECTTCCCCEECSCCSSSCCCCCEEEEES----CCCCEECTTTTTTCSSCCEEEEESCCCSCCC-------SCSCSSCTTC
T ss_pred             ECCCCcccccChhhhhcCCCCCEEECCC----CcCCCCChHHhcCCCCCCEEECCCCCCCccC-------HHHhcCCCCC
Confidence            1222322     2356788999999988    3444455567889999999999999874221       2356677899


Q ss_pred             cEEEEeecCCCCCCc-hhhcccCCcEEEEecCCCCCC--CCC--------------------------------------
Q 042981          690 KELGIVSYGGNIFPK-WLTSLTNLRDLRLKSCVICEH--FPP--------------------------------------  728 (876)
Q Consensus       690 ~~L~l~~~~~~~lp~-~l~~l~~L~~L~L~~~~~~~~--lp~--------------------------------------  728 (876)
                      +.|++++|....++. .+..+++|+.|+|++|.+.+.  +|.                                      
T Consensus       341 ~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~L~~L~l~~N~l~~l~~~~~~l~~L~ls~N~l~~l~~~~  420 (844)
T 3j0a_A          341 AYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILY  420 (844)
T ss_dssp             CEEECCSCCCCCCCSSCSCSCCCCCEEEEETCCSCCCSSCCSCSEEEEESCCCCCCCCCCTTCCEEECCSCCCCSSTTHH
T ss_pred             CEEECCCCCCCccChhhhcCCCCCCEEECCCCCCCcccCCCCcchhccCCCCcccccccccccceeecccCccccCchhh
Confidence            999999998877754 577899999999999987531  010                                      


Q ss_pred             -CCccc-CceEeecCCCCceEeCc-ccccCCCCCCCCCCCCCC---------CcccccCcccceeecccccccccccccc
Q 042981          729 -LGKLP-LEKLTLYGLYGVKRVGN-EFLGIEGSSEDDPSSSSS---------SSSVIAFPKLKSLHIGAMEELEEWNYRI  796 (876)
Q Consensus       729 -l~~Lp-L~~L~L~~~~~l~~~~~-~~~~~~~l~~~~~~~~~~---------~~~~~~~~~L~~L~l~~~~~L~~~~~~~  796 (876)
                       ++.+| |+.|+|++|........ .+.....+..++++.+.+         +..+..+++|+.|+++++ .+.     +
T Consensus       421 ~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~-----~  494 (844)
T 3j0a_A          421 FLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHN-YLN-----S  494 (844)
T ss_dssp             HHTTCTTCCEEEEESCCCCCCCSSSSSCSCTTCCBCEEESCCCSSSCCSCCCSSCSSCBCCEECCCCCHH-HHT-----T
T ss_pred             hhhcCCccceeeCCCCcccccccccccccCCccccccCCCCccccccccccchhhhcCcccccEEECCCC-ccc-----c
Confidence             11345 55566655543322111 122233444444443332         234566788888877665 343     3


Q ss_pred             ccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCCC
Q 042981          797 TRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKL  871 (876)
Q Consensus       797 ~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L  871 (876)
                      ..+..+..+++|+.|+|++| .++.+|..... ++|+.|++++|......       ...+++|+.|+++++|-.
T Consensus       495 ~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~~~-~~L~~L~Ls~N~l~~~~-------~~~~~~L~~l~l~~Np~~  560 (844)
T 3j0a_A          495 LPPGVFSHLTALRGLSLNSN-RLTVLSHNDLP-ANLEILDISRNQLLAPN-------PDVFVSLSVLDITHNKFI  560 (844)
T ss_dssp             CCTTSSSSCCSCSEEEEESC-CCSSCCCCCCC-SCCCEEEEEEECCCCCC-------SCCCSSCCEEEEEEECCC
T ss_pred             cChhHccchhhhheeECCCC-CCCccChhhhh-ccccEEECCCCcCCCCC-------hhHhCCcCEEEecCCCcc
Confidence            33456789999999999999 56667665444 89999999999765433       244679999999987643

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.93  E-value=1.1e-25  Score=259.53  Aligned_cols=365  Identities=15%  Similarity=0.082  Sum_probs=249.3

Q ss_pred             CCceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc-
Q 042981          442 GDKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE-  519 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~-  519 (876)
                      ..++++|+++.|.+..+ +..|.++++|++|++.+|.      ...++..   .+++|++|+|         ++|.+.. 
T Consensus        44 l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~------l~~lp~~---~l~~L~~L~L---------~~N~l~~~  105 (520)
T 2z7x_B           44 LSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNK------LVKISCH---PTVNLKHLDL---------SFNAFDAL  105 (520)
T ss_dssp             CTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSC------CCEEECC---CCCCCSEEEC---------CSSCCSSC
T ss_pred             cccccEEecCCCccCCcChHHhhcccCCCEEecCCCc------eeecCcc---ccCCccEEec---------cCCccccc
Confidence            46899999999999887 7789999999999998776      2233332   7999999999         6777665 


Q ss_pred             -cccccccCcccCeeeccCccccccchhhccCCcc--cEEeecCCCC--CccccccccC---------------------
Q 042981          520 -IPENVRKLIHLKYLNLSELCIERLPKTLCELYNL--QKLDIRWCED--LRELPAGIGK---------------------  573 (876)
Q Consensus       520 -lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L--~~L~L~~~~~--l~~lp~~i~~---------------------  573 (876)
                       +|..++++++|++|++++|.++.  ..+..+++|  ++|++++|..  ....|..+..                     
T Consensus       106 ~~p~~~~~l~~L~~L~L~~n~l~~--~~~~~l~~L~L~~L~l~~n~l~~~~~~~~~l~~l~~~~l~l~l~~n~~~~~~~~  183 (520)
T 2z7x_B          106 PICKEFGNMSQLKFLGLSTTHLEK--SSVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILD  183 (520)
T ss_dssp             CCCGGGGGCTTCCEEEEEESSCCG--GGGGGGTTSCEEEEEEEECTTTTSSCCTTTTTTCCEEEEEEECCSSSCCCCCCC
T ss_pred             cchhhhccCCcceEEEecCcccch--hhccccccceeeEEEeecccccccccccccccccccceEEEEeccCcchhhhhh
Confidence             57899999999999999999886  457788888  9999999966  4555655554                     


Q ss_pred             -----cCCCceEecCCCC-------CCccCCccCCCCCCCCccCceeecCccCCCcccccccc---ccCCCCCCeeeeCc
Q 042981          574 -----LKKMRSLLNGGTP-------LLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESL---KNLQLLRECGIEGL  638 (876)
Q Consensus       574 -----L~~L~~L~l~~~~-------~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L---~~L~~L~~L~l~~~  638 (876)
                           +++|+.|++++|.       +.+.+| .++.+++|+.|......-.     ++.+..+   ..+++|+.|+++++
T Consensus       184 ~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~-~l~~l~~L~~L~l~~~~l~-----~~~~~~~~~~~~~~~L~~L~l~~n  257 (520)
T 2z7x_B          184 VSVKTVANLELSNIKCVLEDNKCSYFLSILA-KLQTNPKLSNLTLNNIETT-----WNSFIRILQLVWHTTVWYFSISNV  257 (520)
T ss_dssp             CCCTTCSEEEECCEEECCSTTTTHHHHHHHH-GGGGCTTCCEEEEEEEEEE-----HHHHHHHHHHHHTSSCSEEEEEEE
T ss_pred             hhhhcccceeeccccccccccccceeecchh-hhccccchhhccccccccC-----HHHHHHHHHHhhhCcccEEEeecc
Confidence                 6778888887775       334444 5777888887743322110     1111111   11335556665553


Q ss_pred             CCCCCcchhhhccC-----cccccCCceEEEeccCCccccchHHHHH------------------hhCCCCCCccEEEEe
Q 042981          639 SNVSHLDEDERLGL-----HNMKNLLRLSLEFDEEGEEGRRKNQQLL------------------EALQPPLNVKELGIV  695 (876)
Q Consensus       639 ~~~~~~~~~~~~~l-----~~l~~L~~L~L~~~~~~~~~~~~~~~~~------------------~~l~~~~~L~~L~l~  695 (876)
                      .    +.+..+..+     .++++|+.++++.|.+. .........+                  .....+++|+.|+++
T Consensus       258 ~----l~~~~p~~~~~~~~~~l~~L~~l~l~~n~~~-~p~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls  332 (520)
T 2z7x_B          258 K----LQGQLDFRDFDYSGTSLKALSIHQVVSDVFG-FPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFS  332 (520)
T ss_dssp             E----EESCCCCCCCCCCSCCCCEEEEEEEEECCCC-SCTHHHHHHHHTCCCSEEEEESSCCCCCCCCSSCCCCCEEECC
T ss_pred             c----ccCccccchhhcccccCceeEecccccccee-cchhhhhcccccCceeEEEcCCCccccccchhhCCcccEEEeE
Confidence            2    111122222     44445555555544431 0000000000                  001456789999999


Q ss_pred             ecCCCC-CCchhhcccCCcEEEEecCCCCC--CCC-CCCccc-CceEeecCCCCceEeCc-ccccCCCCCCCCCCCCCCC
Q 042981          696 SYGGNI-FPKWLTSLTNLRDLRLKSCVICE--HFP-PLGKLP-LEKLTLYGLYGVKRVGN-EFLGIEGSSEDDPSSSSSS  769 (876)
Q Consensus       696 ~~~~~~-lp~~l~~l~~L~~L~L~~~~~~~--~lp-~l~~Lp-L~~L~L~~~~~l~~~~~-~~~~~~~l~~~~~~~~~~~  769 (876)
                      ++.... +|.++..+++|++|+|++|.+.+  .+| .++.++ |+.|++++|.....++. .+.....+..++++.+.+.
T Consensus       333 ~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~L~Ls~N~l~  412 (520)
T 2z7x_B          333 NNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILT  412 (520)
T ss_dssp             SSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCEEECCSSCCC
T ss_pred             CCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCccCCEEECcCCCCC
Confidence            888765 68888899999999999998865  333 367888 99999998876552333 3555667777777776654


Q ss_pred             cc-cccC-cccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCC-CCCCCCccEEEEecCCCchh
Q 042981          770 SS-VIAF-PKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDY-LFQSTTLQKLSISYCPIMEE  845 (876)
Q Consensus       770 ~~-~~~~-~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-l~~l~~L~~L~l~~~~~l~~  845 (876)
                      .. ...+ ++|+.|+++++ .+..+      +..+..+++|+.|++++| .++.+|.. +..+++|++|++++|+....
T Consensus       413 ~~~~~~l~~~L~~L~Ls~N-~l~~i------p~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~l~~N~~~c~  483 (520)
T 2z7x_B          413 DTIFRCLPPRIKVLDLHSN-KIKSI------PKQVVKLEALQELNVASN-QLKSVPDGIFDRLTSLQKIWLHTNPWDCS  483 (520)
T ss_dssp             GGGGGSCCTTCCEEECCSS-CCCCC------CGGGGGCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCBCCC
T ss_pred             cchhhhhcccCCEEECCCC-ccccc------chhhhcCCCCCEEECCCC-cCCccCHHHhccCCcccEEECcCCCCccc
Confidence            32 2234 69999999988 45533      445668999999999999 56688886 88899999999999987543

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.93  E-value=8.6e-26  Score=250.08  Aligned_cols=303  Identities=19%  Similarity=0.146  Sum_probs=214.2

Q ss_pred             CCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-cccccCcccCeeeccCccccc
Q 042981          464 GLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVRKLIHLKYLNLSELCIER  542 (876)
Q Consensus       464 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~~L~~Lr~L~Ls~~~i~~  542 (876)
                      .+++++.|.+.++.      ...++..+|..+++|++|++         ++|.+..+| ..+..+++|++|+|++|.++.
T Consensus        43 ~l~~l~~l~l~~~~------l~~l~~~~~~~l~~L~~L~L---------~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~  107 (390)
T 3o6n_A           43 TLNNQKIVTFKNST------MRKLPAALLDSFRQVELLNL---------NDLQIEEIDTYAFAYAHTIQKLYMGFNAIRY  107 (390)
T ss_dssp             GGCCCSEEEEESCE------ESEECTHHHHHCCCCSEEEC---------TTSCCCEECTTTTTTCTTCCEEECCSSCCCC
T ss_pred             ccCCceEEEecCCc------hhhCChhHhcccccCcEEEC---------CCCcccccChhhccCCCCcCEEECCCCCCCc
Confidence            45788888887664      45566667788888888888         666677665 467888888888888888887


Q ss_pred             cch-hhccCCcccEEeecCCCCCcccccc-ccCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCcccc
Q 042981          543 LPK-TLCELYNLQKLDIRWCEDLRELPAG-IGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCR  620 (876)
Q Consensus       543 lp~-~i~~L~~L~~L~L~~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~  620 (876)
                      +|+ .++++++|++|++++| .+..+|.. +.++++|++|++++|.+....|..++.+++|++|          +++.+.
T Consensus       108 ~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L----------~l~~n~  176 (390)
T 3o6n_A          108 LPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNL----------QLSSNR  176 (390)
T ss_dssp             CCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEE----------ECCSSC
T ss_pred             CCHHHhcCCCCCCEEECCCC-ccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEE----------ECCCCc
Confidence            754 5788888888888888 45667665 4788888888888887766666667888888888          333444


Q ss_pred             ccc--cccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecC
Q 042981          621 LES--LKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYG  698 (876)
Q Consensus       621 l~~--L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  698 (876)
                      +..  +..+++|+.|++++.    .+.     .+....+|+.|++++|.+....          ...+++|+.|++.++.
T Consensus       177 l~~~~~~~l~~L~~L~l~~n----~l~-----~~~~~~~L~~L~l~~n~l~~~~----------~~~~~~L~~L~l~~n~  237 (390)
T 3o6n_A          177 LTHVDLSLIPSLFHANVSYN----LLS-----TLAIPIAVEELDASHNSINVVR----------GPVNVELTILKLQHNN  237 (390)
T ss_dssp             CSBCCGGGCTTCSEEECCSS----CCS-----EEECCSSCSEEECCSSCCCEEE----------CCCCSSCCEEECCSSC
T ss_pred             CCccccccccccceeecccc----ccc-----ccCCCCcceEEECCCCeeeecc----------ccccccccEEECCCCC
Confidence            432  455677777777662    111     1234457888888887664221          1224678888888887


Q ss_pred             CCCCCchhhcccCCcEEEEecCCCCCCCC-CCCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCc
Q 042981          699 GNIFPKWLTSLTNLRDLRLKSCVICEHFP-PLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFP  776 (876)
Q Consensus       699 ~~~lp~~l~~l~~L~~L~L~~~~~~~~lp-~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  776 (876)
                      .... .++..+++|++|+|++|.+.+..| .++.++ |+.|++++|...... .                    ....++
T Consensus       238 l~~~-~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~-~--------------------~~~~l~  295 (390)
T 3o6n_A          238 LTDT-AWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALN-L--------------------YGQPIP  295 (390)
T ss_dssp             CCCC-GGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSSCCCEEE-C--------------------SSSCCT
T ss_pred             Cccc-HHHcCCCCccEEECCCCcCCCcChhHccccccCCEEECCCCcCcccC-c--------------------ccCCCC
Confidence            7764 577888888888888888776433 467788 888888887643321 1                    123578


Q ss_pred             ccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCc
Q 042981          777 KLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIM  843 (876)
Q Consensus       777 ~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l  843 (876)
                      +|+.|+++++ .+...      +..+..+++|+.|++++|+ +..+|  +..+++|+.|++++|+.-
T Consensus       296 ~L~~L~L~~n-~l~~~------~~~~~~l~~L~~L~L~~N~-i~~~~--~~~~~~L~~L~l~~N~~~  352 (390)
T 3o6n_A          296 TLKVLDLSHN-HLLHV------ERNQPQFDRLENLYLDHNS-IVTLK--LSTHHTLKNLTLSHNDWD  352 (390)
T ss_dssp             TCCEEECCSS-CCCCC------GGGHHHHTTCSEEECCSSC-CCCCC--CCTTCCCSEEECCSSCEE
T ss_pred             CCCEEECCCC-cceec------CccccccCcCCEEECCCCc-cceeC--chhhccCCEEEcCCCCcc
Confidence            8888888877 45433      3345678888889988884 55555  566888888888888753

>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=2.3e-25  Score=260.40  Aligned_cols=303  Identities=19%  Similarity=0.152  Sum_probs=225.1

Q ss_pred             CCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-cccccCcccCeeeccCccccc
Q 042981          464 GLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVRKLIHLKYLNLSELCIER  542 (876)
Q Consensus       464 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~~L~~Lr~L~Ls~~~i~~  542 (876)
                      .+++++.|.+.++.      ...+++.+|..+++|++|+|         ++|.+..+| ..|+.+++|++|+|++|.++.
T Consensus        49 ~l~~l~~l~l~~~~------l~~lp~~~~~~l~~L~~L~L---------~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~  113 (597)
T 3oja_B           49 TLNNQKIVTFKNST------MRKLPAALLDSFRQVELLNL---------NDLQIEEIDTYAFAYAHTIQKLYMGFNAIRY  113 (597)
T ss_dssp             GGCCCSEEEESSCE------ESEECTHHHHHCCCCSEEEC---------TTSCCCEECTTTTTTCTTCCEEECCSSCCCC
T ss_pred             cCCCceEEEeeCCC------CCCcCHHHHccCCCCcEEEC---------CCCCCCCCChHHhcCCCCCCEEECCCCcCCC
Confidence            45788888886654      45567777888999999999         667777765 478889999999999999887


Q ss_pred             cch-hhccCCcccEEeecCCCCCcccccc-ccCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCcccc
Q 042981          543 LPK-TLCELYNLQKLDIRWCEDLRELPAG-IGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCR  620 (876)
Q Consensus       543 lp~-~i~~L~~L~~L~L~~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~  620 (876)
                      +|+ .++++++|++|+|++| .+..+|.. |+++++|++|++++|.+.+..|..++++++|++|          +++++.
T Consensus       114 ~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L----------~L~~N~  182 (597)
T 3oja_B          114 LPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNL----------QLSSNR  182 (597)
T ss_dssp             CCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEE----------ECTTSC
T ss_pred             CCHHHHcCCCCCCEEEeeCC-CCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEE----------ECcCCC
Confidence            775 4688999999999988 45566665 5889999999999998877677778888888888          444444


Q ss_pred             ccc--cccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecC
Q 042981          621 LES--LKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYG  698 (876)
Q Consensus       621 l~~--L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  698 (876)
                      +..  +..+++|+.|++++.    .+.     .+....+|+.|++++|.+.....          ..+++|+.|++.++.
T Consensus       183 l~~~~~~~l~~L~~L~l~~n----~l~-----~l~~~~~L~~L~ls~n~l~~~~~----------~~~~~L~~L~L~~n~  243 (597)
T 3oja_B          183 LTHVDLSLIPSLFHANVSYN----LLS-----TLAIPIAVEELDASHNSINVVRG----------PVNVELTILKLQHNN  243 (597)
T ss_dssp             CSBCCGGGCTTCSEEECCSS----CCS-----EEECCTTCSEEECCSSCCCEEEC----------SCCSCCCEEECCSSC
T ss_pred             CCCcChhhhhhhhhhhcccC----ccc-----cccCCchhheeeccCCccccccc----------ccCCCCCEEECCCCC
Confidence            443  456777777877763    221     13445678889988887642211          123689999999888


Q ss_pred             CCCCCchhhcccCCcEEEEecCCCCCCCC-CCCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCc
Q 042981          699 GNIFPKWLTSLTNLRDLRLKSCVICEHFP-PLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFP  776 (876)
Q Consensus       699 ~~~lp~~l~~l~~L~~L~L~~~~~~~~lp-~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  776 (876)
                      ... +.++..+++|+.|+|++|.+.+..| .++.++ |+.|+|++|...... .                    ....+|
T Consensus       244 l~~-~~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~l~-~--------------------~~~~l~  301 (597)
T 3oja_B          244 LTD-TAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALN-L--------------------YGQPIP  301 (597)
T ss_dssp             CCC-CGGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECTTSCCCEEE-C--------------------SSSCCT
T ss_pred             CCC-ChhhccCCCCCEEECCCCccCCCCHHHhcCccCCCEEECCCCCCCCCC-c--------------------ccccCC
Confidence            776 6788899999999999998877544 578888 999999988654321 1                    123588


Q ss_pred             ccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCc
Q 042981          777 KLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIM  843 (876)
Q Consensus       777 ~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l  843 (876)
                      +|+.|+++++ .+..+      +..+..+++|+.|+|++|. +..+|  +..+++|+.|++++|+.-
T Consensus       302 ~L~~L~Ls~N-~l~~i------~~~~~~l~~L~~L~L~~N~-l~~~~--~~~~~~L~~L~l~~N~~~  358 (597)
T 3oja_B          302 TLKVLDLSHN-HLLHV------ERNQPQFDRLENLYLDHNS-IVTLK--LSTHHTLKNLTLSHNDWD  358 (597)
T ss_dssp             TCCEEECCSS-CCCCC------GGGHHHHTTCSEEECCSSC-CCCCC--CCTTCCCSEEECCSSCEE
T ss_pred             CCcEEECCCC-CCCcc------CcccccCCCCCEEECCCCC-CCCcC--hhhcCCCCEEEeeCCCCC
Confidence            9999998887 34432      4456688999999999984 55555  566889999999999854

>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=99.93  E-value=1.4e-25  Score=260.60  Aligned_cols=370  Identities=17%  Similarity=0.109  Sum_probs=238.5

Q ss_pred             CCceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc-
Q 042981          442 GDKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE-  519 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~-  519 (876)
                      ..++++|+++.|.+..+ +..|.++++|++|++.+|.      ....++..|..+++|++|++         ++|.+.. 
T Consensus        49 l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~------l~~~~~~~~~~l~~L~~L~L---------s~n~l~~~  113 (549)
T 2z81_A           49 CANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNH------LSSLSSSWFGPLSSLKYLNL---------MGNPYQTL  113 (549)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSC------CCSCCHHHHTTCTTCCEEEC---------TTCCCSSS
T ss_pred             CCcccEEECCCCCcCccChhhccccccCCEEECCCCc------cCccCHHHhccCCCCcEEEC---------CCCccccc
Confidence            46789999999988776 4678899999999997775      34456666889999999999         5555553 


Q ss_pred             -cccccccCcccCeeeccCcc-ccccc-hhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccC-
Q 042981          520 -IPENVRKLIHLKYLNLSELC-IERLP-KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGI-  595 (876)
Q Consensus       520 -lp~~i~~L~~Lr~L~Ls~~~-i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i-  595 (876)
                       +|..++++++|++|++++|. +..+| ..++++++|++|++++|......|..+.++++|++|++++|.. ..+|..+ 
T Consensus       114 ~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l~~n~~-~~~~~~~~  192 (549)
T 2z81_A          114 GVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSES-AFLLEIFA  192 (549)
T ss_dssp             CSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSBS-TTHHHHHH
T ss_pred             chhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCceEecccCcc-cccchhhH
Confidence             35667788888888888887 56666 4677888888888888765555666666655555555554432 1222111 


Q ss_pred             CCCCCCCccCceeecCccC---------------------------------------------CCccccc---------
Q 042981          596 SKLTSLRTLEKFAMGGGVD---------------------------------------------DISTCRL---------  621 (876)
Q Consensus       596 ~~l~~L~~L~~~~~~~~~~---------------------------------------------~ls~~~l---------  621 (876)
                      +.+++|+.|......-...                                             +++.+.+         
T Consensus       193 ~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~  272 (549)
T 2z81_A          193 DILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPS  272 (549)
T ss_dssp             HSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEHHHHHHHHGGGGGCTTCCEEEEESCEEECCSCCCCC
T ss_pred             hhcccccEEEccCCccccccccccchhhhhhcccceeccccccchhHHHHHHHHhhhhcccccccccccccccccccccc
Confidence            1233333331111000000                                             0000000         


Q ss_pred             --cccccCC-----------------------------CCCCeeeeCcCCCCCcchhhhccC-cccccCCceEEEeccCC
Q 042981          622 --ESLKNLQ-----------------------------LLRECGIEGLSNVSHLDEDERLGL-HNMKNLLRLSLEFDEEG  669 (876)
Q Consensus       622 --~~L~~L~-----------------------------~L~~L~l~~~~~~~~~~~~~~~~l-~~l~~L~~L~L~~~~~~  669 (876)
                        ..+..+.                             +|+.|.+++.. +..    .+..+ ..+++|+.|++++|.+.
T Consensus       273 ~~~~~~~l~~L~~L~l~~~~i~~~~~~~~l~~~~~~~~~L~~L~l~~n~-l~~----ip~~~~~~l~~L~~L~Ls~N~l~  347 (549)
T 2z81_A          273 ESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSK-VFL----VPCSFSQHLKSLEFLDLSENLMV  347 (549)
T ss_dssp             TTTCCCCCTTCCEEEEESCBCSCGGGSCCCCHHHHHSTTCCEEEEESSC-CCC----CCHHHHHHCTTCCEEECCSSCCC
T ss_pred             chhhhhhhcccccccccccccchhhhcccchhhhhhcccceEEEeccCc-ccc----CCHHHHhcCccccEEEccCCccc
Confidence              0011122                             23333333311 111    11112 45788888888888763


Q ss_pred             ccccchHHHHHhhCCCCCCccEEEEeecCCCCCC---chhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCc
Q 042981          670 EEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFP---KWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGV  745 (876)
Q Consensus       670 ~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp---~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l  745 (876)
                      +.    .......+...++|+.|++++|....+|   ..+..+++|++|+|++|++....+.++.++ |+.|++++|...
T Consensus       348 ~~----~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~~~~L~~L~Ls~N~l~  423 (549)
T 2z81_A          348 EE----YLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSSTGIR  423 (549)
T ss_dssp             HH----HHHHHTCTTSSTTCCEEECTTSCCCCHHHHHHHGGGCTTCCEEECTTCCCCCCCSCCCCCTTCCEEECTTSCCS
T ss_pred             cc----cccchhhhhccccCcEEEccCCcccccccchhhhhcCCCCCEEECCCCCCccCChhhcccccccEEECCCCCcc
Confidence            11    0011233566789999999999887765   347789999999999998874334477788 999999998743


Q ss_pred             eEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCC
Q 042981          746 KRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDY  825 (876)
Q Consensus       746 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~  825 (876)
                      . ++..+  ...+..++++.+.+......+++|++|+++++ .++.+      +. ...+++|+.|++++|......|..
T Consensus       424 ~-l~~~~--~~~L~~L~Ls~N~l~~~~~~l~~L~~L~Ls~N-~l~~i------p~-~~~l~~L~~L~Ls~N~l~~~~~~~  492 (549)
T 2z81_A          424 V-VKTCI--PQTLEVLDVSNNNLDSFSLFLPRLQELYISRN-KLKTL------PD-ASLFPVLLVMKISRNQLKSVPDGI  492 (549)
T ss_dssp             C-CCTTS--CTTCSEEECCSSCCSCCCCCCTTCCEEECCSS-CCSSC------CC-GGGCTTCCEEECCSSCCCCCCTTG
T ss_pred             c-ccchh--cCCceEEECCCCChhhhcccCChhcEEECCCC-ccCcC------CC-cccCccCCEEecCCCccCCcCHHH
Confidence            2 22222  13566777777777666678999999999988 45533      32 457999999999999655555566


Q ss_pred             CCCCCCccEEEEecCCCchhhc
Q 042981          826 LFQSTTLQKLSISYCPIMEELR  847 (876)
Q Consensus       826 l~~l~~L~~L~l~~~~~l~~l~  847 (876)
                      +..+++|+.|++++|+.....+
T Consensus       493 ~~~l~~L~~L~l~~N~~~~~~~  514 (549)
T 2z81_A          493 FDRLTSLQKIWLHTNPWDCSCP  514 (549)
T ss_dssp             GGGCTTCCEEECCSSCBCCCHH
T ss_pred             HhcCcccCEEEecCCCccCCCc
Confidence            8899999999999999765543

>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=1.1e-24  Score=237.19  Aligned_cols=300  Identities=19%  Similarity=0.201  Sum_probs=151.3

Q ss_pred             CceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccc
Q 042981          443 DKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPE  522 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~  522 (876)
                      ++++++.++++.+..++ .+..+++|++|++.++.      ...++.  +..+++|++|++         ++|.+..+| 
T Consensus        44 ~~L~~L~l~~~~i~~~~-~~~~~~~L~~L~l~~n~------i~~~~~--~~~l~~L~~L~L---------~~n~i~~~~-  104 (347)
T 4fmz_A           44 ESITKLVVAGEKVASIQ-GIEYLTNLEYLNLNGNQ------ITDISP--LSNLVKLTNLYI---------GTNKITDIS-  104 (347)
T ss_dssp             TTCSEEECCSSCCCCCT-TGGGCTTCCEEECCSSC------CCCCGG--GTTCTTCCEEEC---------CSSCCCCCG-
T ss_pred             ccccEEEEeCCccccch-hhhhcCCccEEEccCCc------cccchh--hhcCCcCCEEEc---------cCCcccCch-
Confidence            34555555555554432 24455555555554443      111111  445555555555         334344433 


Q ss_pred             ccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCC
Q 042981          523 NVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLR  602 (876)
Q Consensus       523 ~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~  602 (876)
                      .+.++++|++|++++|.++.+|. +..+++|++|++++|.....++. +..+++|++|++++|.+.. ++. ++      
T Consensus       105 ~~~~l~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~~-~~~l~~L~~L~l~~~~~~~-~~~-~~------  174 (347)
T 4fmz_A          105 ALQNLTNLRELYLNEDNISDISP-LANLTKMYSLNLGANHNLSDLSP-LSNMTGLNYLTVTESKVKD-VTP-IA------  174 (347)
T ss_dssp             GGTTCTTCSEEECTTSCCCCCGG-GTTCTTCCEEECTTCTTCCCCGG-GTTCTTCCEEECCSSCCCC-CGG-GG------
T ss_pred             HHcCCCcCCEEECcCCcccCchh-hccCCceeEEECCCCCCcccccc-hhhCCCCcEEEecCCCcCC-chh-hc------
Confidence            34555555555555555555544 55555555555555543333332 5555555555555553321 111 23      


Q ss_pred             ccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhh
Q 042981          603 TLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEA  682 (876)
Q Consensus       603 ~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~  682 (876)
                                             .+++|+.|+++++.. ....     .+..+++|+.|++++|.+              
T Consensus       175 -----------------------~l~~L~~L~l~~n~l-~~~~-----~~~~l~~L~~L~l~~n~l--------------  211 (347)
T 4fmz_A          175 -----------------------NLTDLYSLSLNYNQI-EDIS-----PLASLTSLHYFTAYVNQI--------------  211 (347)
T ss_dssp             -----------------------GCTTCSEEECTTSCC-CCCG-----GGGGCTTCCEEECCSSCC--------------
T ss_pred             -----------------------cCCCCCEEEccCCcc-cccc-----cccCCCccceeecccCCC--------------
Confidence                                   333344444443211 1110     034455555555555543              


Q ss_pred             CCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCC
Q 042981          683 LQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSED  761 (876)
Q Consensus       683 l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~  761 (876)
                                       ..++. +..+++|++|++++|.+.+. +.++.++ |+.|++++|.....              
T Consensus       212 -----------------~~~~~-~~~~~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~l~~n~l~~~--------------  258 (347)
T 4fmz_A          212 -----------------TDITP-VANMTRLNSLKIGNNKITDL-SPLANLSQLTWLEIGTNQISDI--------------  258 (347)
T ss_dssp             -----------------CCCGG-GGGCTTCCEEECCSSCCCCC-GGGTTCTTCCEEECCSSCCCCC--------------
T ss_pred             -----------------CCCch-hhcCCcCCEEEccCCccCCC-cchhcCCCCCEEECCCCccCCC--------------
Confidence                             22222 44556666666666655432 2255556 66666665532211              


Q ss_pred             CCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCC
Q 042981          762 DPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCP  841 (876)
Q Consensus       762 ~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~  841 (876)
                              ..+..+++|+.|+++++ .+..+       +.+..+++|+.|++++|+.....|..+..+++|+.|++++|+
T Consensus       259 --------~~~~~l~~L~~L~l~~n-~l~~~-------~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n~  322 (347)
T 4fmz_A          259 --------NAVKDLTKLKMLNVGSN-QISDI-------SVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNH  322 (347)
T ss_dssp             --------GGGTTCTTCCEEECCSS-CCCCC-------GGGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSSS
T ss_pred             --------hhHhcCCCcCEEEccCC-ccCCC-------hhhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCCc
Confidence                    01234666777766665 33332       134567777777777775544555556667777777777776


Q ss_pred             CchhhccccccCCCCCCCcCEEEEccCC
Q 042981          842 IMEELRILEDHRTTDIPRLSSLEIEYCP  869 (876)
Q Consensus       842 ~l~~l~~~~~~~~~~lp~L~~L~i~~c~  869 (876)
                      .....+      +..+|+|+.|++++|+
T Consensus       323 l~~~~~------~~~l~~L~~L~l~~N~  344 (347)
T 4fmz_A          323 ITDIRP------LASLSKMDSADFANQV  344 (347)
T ss_dssp             CCCCGG------GGGCTTCSEESSSCC-
T ss_pred             cccccC------hhhhhccceeehhhhc
Confidence            443221      3566777777777773

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.92  E-value=1.5e-24  Score=257.05  Aligned_cols=145  Identities=17%  Similarity=0.180  Sum_probs=122.1

Q ss_pred             CCCceEEEEeeecCCCCCc-ccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          441 FGDKVRHLGLNFEGGASFP-MSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       441 ~~~~lr~L~l~~~~~~~~~-~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      .|..+++|++++|.++.++ ..|.++++|++|++.+|.      +..+++.+|.++++|++|+|         ++|.+..
T Consensus        50 lp~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~------i~~i~~~~f~~L~~L~~L~L---------s~N~l~~  114 (635)
T 4g8a_A           50 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE------IQTIEDGAYQSLSHLSTLIL---------TGNPIQS  114 (635)
T ss_dssp             SCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC------CCEECTTTTTTCTTCCEEEC---------TTCCCCE
T ss_pred             CCcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCc------CCCcChhHhcCCCCCCEEEc---------cCCcCCC
Confidence            3678999999999999884 679999999999998776      45566777999999999999         7888888


Q ss_pred             ccc-ccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCc-cccccccCcCCCceEecCCCCCCccCCccCC
Q 042981          520 IPE-NVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLR-ELPAGIGKLKKMRSLLNGGTPLLKYMPIGIS  596 (876)
Q Consensus       520 lp~-~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~-~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~  596 (876)
                      +|. .|.+|.+|++|+|++|.++.+|. .|+++++|++|++++|.... .+|..+..+++|++|++++|.+.+..|..+.
T Consensus       115 l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~  194 (635)
T 4g8a_A          115 LALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLR  194 (635)
T ss_dssp             ECGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGH
T ss_pred             CCHHHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCcccccccccccc
Confidence            885 57999999999999999999986 58999999999999995433 4688899999999999999987665555554


Q ss_pred             CCCC
Q 042981          597 KLTS  600 (876)
Q Consensus       597 ~l~~  600 (876)
                      .+.+
T Consensus       195 ~L~~  198 (635)
T 4g8a_A          195 VLHQ  198 (635)
T ss_dssp             HHHT
T ss_pred             chhh
Confidence            4433

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.92  E-value=2.7e-24  Score=244.93  Aligned_cols=259  Identities=21%  Similarity=0.204  Sum_probs=169.2

Q ss_pred             EEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc-ccccc
Q 042981          447 HLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI-PENVR  525 (876)
Q Consensus       447 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l-p~~i~  525 (876)
                      .+..+.+.+..+|..+.  ++++.|++.+|.      ...+.+..|..+++|++|+|         ++|.+..+ |..++
T Consensus        15 ~v~c~~~~l~~ip~~~~--~~l~~L~L~~n~------l~~~~~~~~~~l~~L~~L~L---------~~n~i~~~~~~~~~   77 (477)
T 2id5_A           15 AVLCHRKRFVAVPEGIP--TETRLLDLGKNR------IKTLNQDEFASFPHLEELEL---------NENIVSAVEPGAFN   77 (477)
T ss_dssp             EEECCSCCCSSCCSCCC--TTCSEEECCSSC------CCEECTTTTTTCTTCCEEEC---------TTSCCCEECTTTTT
T ss_pred             EEEeCCCCcCcCCCCCC--CCCcEEECCCCc------cceECHhHccCCCCCCEEEC---------CCCccCEeChhhhh
Confidence            45555566666666553  588888887765      33444555888899999999         66666665 67788


Q ss_pred             cCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          526 KLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      ++++|++|+|++|.++.+|.. +.++++|++|+|++|......|..+.++++|++|++++|.+....|..++++++|++|
T Consensus        78 ~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  157 (477)
T 2id5_A           78 NLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQL  157 (477)
T ss_dssp             TCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEE
T ss_pred             CCccCCEEECCCCcCCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEE
Confidence            899999999999998888864 6888999999999886666667788889999999999988776667778888888887


Q ss_pred             CceeecCccCCCcccccc-----ccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHH
Q 042981          605 EKFAMGGGVDDISTCRLE-----SLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQL  679 (876)
Q Consensus       605 ~~~~~~~~~~~ls~~~l~-----~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~  679 (876)
                      .          ++.+.+.     .+..+++|+.|++++.    .+.......+..+++|+.|++++|......+      
T Consensus       158 ~----------l~~n~l~~~~~~~l~~l~~L~~L~l~~n----~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~------  217 (477)
T 2id5_A          158 T----------LEKCNLTSIPTEALSHLHGLIVLRLRHL----NINAIRDYSFKRLYRLKVLEISHWPYLDTMT------  217 (477)
T ss_dssp             E----------EESCCCSSCCHHHHTTCTTCCEEEEESC----CCCEECTTCSCSCTTCCEEEEECCTTCCEEC------
T ss_pred             E----------CCCCcCcccChhHhcccCCCcEEeCCCC----cCcEeChhhcccCcccceeeCCCCccccccC------
Confidence            3          2233332     2456667777777663    2233333456677777777777664421110      


Q ss_pred             HhhCCCCCCccEEEEeecCCCCCCc-hhhcccCCcEEEEecCCCCCCCC-CCCccc-CceEeecCCC
Q 042981          680 LEALQPPLNVKELGIVSYGGNIFPK-WLTSLTNLRDLRLKSCVICEHFP-PLGKLP-LEKLTLYGLY  743 (876)
Q Consensus       680 ~~~l~~~~~L~~L~l~~~~~~~lp~-~l~~l~~L~~L~L~~~~~~~~lp-~l~~Lp-L~~L~L~~~~  743 (876)
                       .......+|+.|++.++....+|. .+..+++|+.|+|++|.+.+..+ .+..++ |+.|+|++|.
T Consensus       218 -~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~  283 (477)
T 2id5_A          218 -PNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQ  283 (477)
T ss_dssp             -TTTTTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECCSSCCCEECTTSCTTCTTCCEEECCSSC
T ss_pred             -cccccCccccEEECcCCcccccCHHHhcCccccCeeECCCCcCCccChhhccccccCCEEECCCCc
Confidence             111122356666666665555553 34456666666666665543222 244555 5555555554

>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=99.92  E-value=1.9e-24  Score=251.31  Aligned_cols=359  Identities=15%  Similarity=0.044  Sum_probs=224.1

Q ss_pred             CCceEEEEeeecCCCCCc-ccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc
Q 042981          442 GDKVRHLGLNFEGGASFP-MSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI  520 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~-~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l  520 (876)
                      ++.+++|+++.|.+..++ ..|.++++|++|++.+|.      ...+.+..|..+++|++|+|         ++|.+..+
T Consensus        51 ~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~------l~~~~~~~~~~l~~L~~L~L---------s~N~l~~l  115 (562)
T 3a79_B           51 PPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNR------IRSLDFHVFLFNQDLEYLDV---------SHNRLQNI  115 (562)
T ss_dssp             CTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCC------CCEECTTTTTTCTTCCEEEC---------TTSCCCEE
T ss_pred             CCCcCEEECCCCCccccChhhhccCCCccEEECCCCC------CCcCCHHHhCCCCCCCEEEC---------CCCcCCcc
Confidence            467778888887777663 567777888888886665      23444555777788888888         66666677


Q ss_pred             ccccccCcccCeeeccCccccccc--hhhccCCcccEEeecCCCCCccccccccCcCCC--ceEecCCCCC--CccCCcc
Q 042981          521 PENVRKLIHLKYLNLSELCIERLP--KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKM--RSLLNGGTPL--LKYMPIG  594 (876)
Q Consensus       521 p~~i~~L~~Lr~L~Ls~~~i~~lp--~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L--~~L~l~~~~~--~~~~p~~  594 (876)
                      |..  .+++|++|+|++|.++.+|  ..++++++|++|++++|....   ..+..+++|  ++|++++|.+  .+..|..
T Consensus       116 p~~--~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~~---~~~~~l~~L~L~~L~L~~n~l~~~~~~~~~  190 (562)
T 3a79_B          116 SCC--PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQ---LDLLPVAHLHLSCILLDLVSYHIKGGETES  190 (562)
T ss_dssp             CSC--CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECSBCCT---TTTGGGTTSCEEEEEEEESSCCCCSSSCCE
T ss_pred             Ccc--ccccCCEEECCCCCccccCchHhhcccCcccEEecCCCcccc---CchhhhhhceeeEEEeecccccccccCccc
Confidence            765  6778888888888777654  677788888888888774332   234555555  7777777766  4445544


Q ss_pred             CCCCC--------------------------CCCccCceeecCcc--------------------------CCCcccccc
Q 042981          595 ISKLT--------------------------SLRTLEKFAMGGGV--------------------------DDISTCRLE  622 (876)
Q Consensus       595 i~~l~--------------------------~L~~L~~~~~~~~~--------------------------~~ls~~~l~  622 (876)
                      +..+.                          +|+.|   .+....                          .+++.+.+.
T Consensus       191 l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L---~l~~n~~~~~~l~~~~~~l~~l~~L~~L~L~~~~l~~~~~~  267 (562)
T 3a79_B          191 LQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLS---NIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSV  267 (562)
T ss_dssp             EEECCEEEEEEEECSSSCCCCCCEEEESSEEEEEEE---EEECCSTTHHHHHHHHHHHHSCSSCEEEEEEEEEECHHHHH
T ss_pred             ccccCcceEEEEecCccchhhhhhhcccccceEEEe---cccccccccchHHHHHHHHhccCcceEEEecCCcCcHHHHH
Confidence            43332                          22222   111000                          000000000


Q ss_pred             c---cccCCCCCCeeeeCcCCCCCcchhhhccC-----ccccc--------------------------CCceEEEeccC
Q 042981          623 S---LKNLQLLRECGIEGLSNVSHLDEDERLGL-----HNMKN--------------------------LLRLSLEFDEE  668 (876)
Q Consensus       623 ~---L~~L~~L~~L~l~~~~~~~~~~~~~~~~l-----~~l~~--------------------------L~~L~L~~~~~  668 (876)
                      .   .....+|+.|+++++.....    .+..+     .+++.                          |+.|+++.|.+
T Consensus       268 ~~~~~~~~~~L~~L~l~~n~l~~~----ip~~~~~~~~~~L~~L~~~~~~~~~~~~p~~~~~~~~~~~~L~~L~l~~n~~  343 (562)
T 3a79_B          268 KLFQFFWPRPVEYLNIYNLTITER----IDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPF  343 (562)
T ss_dssp             HHHHHHTTSSEEEEEEEEEEECSC----CCCCCCCCCSCSCCEEEEEEEEECCCSSCHHHHHHHHHTCCCSEEEEESSCC
T ss_pred             HHHHhhhcccccEEEEeccEeecc----ccchhhhcccccchheehhhcccceeecChhhhhhhhccCcceEEEccCCCc
Confidence            0   00112455566655321111    11111     23333                          44444444433


Q ss_pred             CccccchHHHHHhhCCCCCCccEEEEeecCCCC-CCchhhcccCCcEEEEecCCCCC--CCC-CCCccc-CceEeecCCC
Q 042981          669 GEEGRRKNQQLLEALQPPLNVKELGIVSYGGNI-FPKWLTSLTNLRDLRLKSCVICE--HFP-PLGKLP-LEKLTLYGLY  743 (876)
Q Consensus       669 ~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~-lp~~l~~l~~L~~L~L~~~~~~~--~lp-~l~~Lp-L~~L~L~~~~  743 (876)
                      ...         .....+++|+.|++.++.... +|.++..+++|++|+|++|.+.+  .+| .++.++ |+.|++++|.
T Consensus       344 ~~~---------~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~  414 (562)
T 3a79_B          344 IHM---------VCPPSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNS  414 (562)
T ss_dssp             CCC---------CCCSSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSC
T ss_pred             ccc---------cCccCCCCceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCc
Confidence            110         001456788888888887665 57788888899999999988764  222 367888 9999998887


Q ss_pred             CceEeC-cccccCCCCCCCCCCCCCCCcc-cccC-cccceeeccccccccccccccccccccCcccccceeeeccCccCC
Q 042981          744 GVKRVG-NEFLGIEGSSEDDPSSSSSSSS-VIAF-PKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLR  820 (876)
Q Consensus       744 ~l~~~~-~~~~~~~~l~~~~~~~~~~~~~-~~~~-~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~  820 (876)
                      ....++ ..+.....+..++++.+.+... ...+ ++|+.|+++++ .++.+      +..+..+++|+.|++++| .++
T Consensus       415 l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~~L~~L~L~~N-~l~~i------p~~~~~l~~L~~L~L~~N-~l~  486 (562)
T 3a79_B          415 LNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNN-RIMSI------PKDVTHLQALQELNVASN-QLK  486 (562)
T ss_dssp             CBSCCSSCCCCCCTTCCEEECCSSCCCGGGGSSCCTTCSEEECCSS-CCCCC------CTTTTSSCCCSEEECCSS-CCC
T ss_pred             CCCccChhhhcCcccCCEEECCCCCCCcchhhhhcCcCCEEECCCC-cCccc------ChhhcCCCCCCEEECCCC-CCC
Confidence            655233 3355566677777776665432 3344 69999999888 56543      445568999999999999 566


Q ss_pred             CCCCC-CCCCCCccEEEEecCCCch
Q 042981          821 VLPDY-LFQSTTLQKLSISYCPIME  844 (876)
Q Consensus       821 ~lp~~-l~~l~~L~~L~l~~~~~l~  844 (876)
                      .+|.. +..+++|+.|++++|+...
T Consensus       487 ~l~~~~~~~l~~L~~L~l~~N~~~c  511 (562)
T 3a79_B          487 SVPDGVFDRLTSLQYIWLHDNPWDC  511 (562)
T ss_dssp             CCCTTSTTTCTTCCCEECCSCCBCC
T ss_pred             CCCHHHHhcCCCCCEEEecCCCcCC
Confidence            88887 8899999999999998754

>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=99.91  E-value=4.5e-24  Score=241.71  Aligned_cols=347  Identities=16%  Similarity=0.128  Sum_probs=235.5

Q ss_pred             EEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccc-cc-ccccc
Q 042981          448 LGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR-EI-PENVR  525 (876)
Q Consensus       448 L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~-~l-p~~i~  525 (876)
                      +....+++..+|. +  .++|++|++.+|.      ...+.+..|.++++|++|++         ++|.+. .+ |..+.
T Consensus        15 ~~c~~~~l~~lp~-l--~~~l~~L~Ls~n~------i~~~~~~~~~~l~~L~~L~L---------~~n~~~~~i~~~~~~   76 (455)
T 3v47_A           15 AICINRGLHQVPE-L--PAHVNYVDLSLNS------IAELNETSFSRLQDLQFLKV---------EQQTPGLVIRNNTFR   76 (455)
T ss_dssp             EECCSSCCSSCCC-C--CTTCCEEECCSSC------CCEECTTTTSSCTTCCEEEC---------CCCSTTCEECTTTTT
T ss_pred             cCcCCCCcccCCC-C--CCccCEEEecCCc------cCcCChhHhccCccccEEEC---------cCCcccceECccccc
Confidence            4445556666665 3  3789999997765      23444555888999999999         555554 44 45678


Q ss_pred             cCcccCeeeccCcccccc-chhhccCCcccEEeecCCCCCcccccc--ccCcCCCceEecCCCCCCccCCcc-CCCCCCC
Q 042981          526 KLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAG--IGKLKKMRSLLNGGTPLLKYMPIG-ISKLTSL  601 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~~--i~~L~~L~~L~l~~~~~~~~~p~~-i~~l~~L  601 (876)
                      ++++|++|+|++|.++.+ |..++++++|++|++++|......|..  +.++++|++|++++|.+.+..|.. ++++++|
T Consensus        77 ~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L  156 (455)
T 3v47_A           77 GLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRF  156 (455)
T ss_dssp             TCTTCCEEECTTCTTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTC
T ss_pred             ccccCCEEeCCCCccCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcc
Confidence            889999999999988866 678889999999999988554445555  888899999999998776655654 6677777


Q ss_pred             CccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCccc--ccCCceEEEeccCCccccc-hHHH
Q 042981          602 RTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNM--KNLLRLSLEFDEEGEEGRR-KNQQ  678 (876)
Q Consensus       602 ~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l--~~L~~L~L~~~~~~~~~~~-~~~~  678 (876)
                      ++|          +++.+.+...                       .+..+..+  .+|+.|+++.|.+...... ....
T Consensus       157 ~~L----------~L~~n~l~~~-----------------------~~~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~  203 (455)
T 3v47_A          157 HVL----------DLTFNKVKSI-----------------------CEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWE  203 (455)
T ss_dssp             CEE----------ECTTCCBSCC-----------------------CTTTSGGGTTCEEEEEECTTCBCTTCSTTCTTHH
T ss_pred             cEE----------eCCCCccccc-----------------------ChhhhhccccccccccccccCcccccchhhcccc
Confidence            777          3333333221                       11112222  4566667666655321111 0112


Q ss_pred             HHhhCCCCCCccEEEEeecCCCC-CCchhhc---ccCCcEEEEecCCCCCCCCC-----------CCc--cc-CceEeec
Q 042981          679 LLEALQPPLNVKELGIVSYGGNI-FPKWLTS---LTNLRDLRLKSCVICEHFPP-----------LGK--LP-LEKLTLY  740 (876)
Q Consensus       679 ~~~~l~~~~~L~~L~l~~~~~~~-lp~~l~~---l~~L~~L~L~~~~~~~~lp~-----------l~~--Lp-L~~L~L~  740 (876)
                      ....+...++|+.|+++++.... .|.++..   .++|+.|++++|...+....           +..  .+ |+.|+++
T Consensus       204 ~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~  283 (455)
T 3v47_A          204 KCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLS  283 (455)
T ss_dssp             HHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECC
T ss_pred             ccccccccceeeeEecCCCcccccchhhhhccccccceeeEeeccccccccccchhhhccCcccccccccccCceEEEec
Confidence            22334455789999998887543 3555553   38999999999865442111           122  25 8888888


Q ss_pred             CCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCC
Q 042981          741 GLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLR  820 (876)
Q Consensus       741 ~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~  820 (876)
                      +|......+.                    .+..+++|+.|+++++ .+..     ..+..+..+++|+.|++++|....
T Consensus       284 ~n~l~~~~~~--------------------~~~~l~~L~~L~Ls~n-~l~~-----~~~~~~~~l~~L~~L~Ls~N~l~~  337 (455)
T 3v47_A          284 KSKIFALLKS--------------------VFSHFTDLEQLTLAQN-EINK-----IDDNAFWGLTHLLKLNLSQNFLGS  337 (455)
T ss_dssp             SSCCCEECTT--------------------TTTTCTTCCEEECTTS-CCCE-----ECTTTTTTCTTCCEEECCSSCCCE
T ss_pred             Cccccccchh--------------------hcccCCCCCEEECCCC-cccc-----cChhHhcCcccCCEEECCCCccCC
Confidence            8775544332                    2446899999998877 3433     224567789999999999996555


Q ss_pred             CCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCCCCCCCC
Q 042981          821 VLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLPD  876 (876)
Q Consensus       821 ~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~~lP~  876 (876)
                      ..|..+..+++|++|++++|......+    ..+..+|+|++|++++| +++.+|+
T Consensus       338 ~~~~~~~~l~~L~~L~Ls~N~l~~~~~----~~~~~l~~L~~L~L~~N-~l~~~~~  388 (455)
T 3v47_A          338 IDSRMFENLDKLEVLDLSYNHIRALGD----QSFLGLPNLKELALDTN-QLKSVPD  388 (455)
T ss_dssp             ECGGGGTTCTTCCEEECCSSCCCEECT----TTTTTCTTCCEEECCSS-CCSCCCT
T ss_pred             cChhHhcCcccCCEEECCCCcccccCh----hhccccccccEEECCCC-ccccCCH
Confidence            557788999999999999997543322    35788999999999998 6887774

>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=9.9e-24  Score=239.12  Aligned_cols=319  Identities=20%  Similarity=0.248  Sum_probs=251.4

Q ss_pred             CCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP  521 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp  521 (876)
                      ..++++|+++.|.+..++. +..+++|++|++.++..      ...++  +..+++|++|++         ++|.+..+|
T Consensus        67 l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~l~~n~l------~~~~~--~~~l~~L~~L~L---------~~n~l~~~~  128 (466)
T 1o6v_A           67 LNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQI------ADITP--LANLTNLTGLTL---------FNNQITDID  128 (466)
T ss_dssp             CTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCC------CCCGG--GTTCTTCCEEEC---------CSSCCCCCG
T ss_pred             hcCCCEEECCCCccCCchh-hhccccCCEEECCCCcc------ccChh--hcCCCCCCEEEC---------CCCCCCCCh
Confidence            5789999999999988766 89999999999987752      22233  889999999999         777777776


Q ss_pred             cccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCC
Q 042981          522 ENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSL  601 (876)
Q Consensus       522 ~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L  601 (876)
                      . +.++++|++|++++|.+..+|. ++++++|++|+++++  ...++. +.++++|++|++++|.+. .++ .+..+++|
T Consensus       129 ~-~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~~--~~~~~~-~~~l~~L~~L~l~~n~l~-~~~-~l~~l~~L  201 (466)
T 1o6v_A          129 P-LKNLTNLNRLELSSNTISDISA-LSGLTSLQQLSFGNQ--VTDLKP-LANLTTLERLDISSNKVS-DIS-VLAKLTNL  201 (466)
T ss_dssp             G-GTTCTTCSEEEEEEEEECCCGG-GTTCTTCSEEEEEES--CCCCGG-GTTCTTCCEEECCSSCCC-CCG-GGGGCTTC
T ss_pred             H-HcCCCCCCEEECCCCccCCChh-hccCCcccEeecCCc--ccCchh-hccCCCCCEEECcCCcCC-CCh-hhccCCCC
Confidence            5 8999999999999999999875 999999999999743  444544 899999999999999763 343 47788888


Q ss_pred             CccCceeecCccCCCcccccc---ccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHH
Q 042981          602 RTLEKFAMGGGVDDISTCRLE---SLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQ  678 (876)
Q Consensus       602 ~~L~~~~~~~~~~~ls~~~l~---~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~  678 (876)
                      +.|.          ++.+.+.   .+..+++|+.|+++++.. ...     ..+..+++|+.|++++|.+....      
T Consensus       202 ~~L~----------l~~n~l~~~~~~~~l~~L~~L~l~~n~l-~~~-----~~l~~l~~L~~L~l~~n~l~~~~------  259 (466)
T 1o6v_A          202 ESLI----------ATNNQISDITPLGILTNLDELSLNGNQL-KDI-----GTLASLTNLTDLDLANNQISNLA------  259 (466)
T ss_dssp             SEEE----------CCSSCCCCCGGGGGCTTCCEEECCSSCC-CCC-----GGGGGCTTCSEEECCSSCCCCCG------
T ss_pred             CEEE----------ecCCcccccccccccCCCCEEECCCCCc-ccc-----hhhhcCCCCCEEECCCCccccch------
Confidence            8883          3333332   356788999999988532 222     24778899999999999875321      


Q ss_pred             HHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCCC
Q 042981          679 LLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEG  757 (876)
Q Consensus       679 ~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~  757 (876)
                         .+..+++|+.|++.++....+|. +..+++|+.|+|++|.+.+ +++++.++ |+.|++++|......         
T Consensus       260 ---~~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~L~~n~l~~-~~~~~~l~~L~~L~L~~n~l~~~~---------  325 (466)
T 1o6v_A          260 ---PLSGLTKLTELKLGANQISNISP-LAGLTALTNLELNENQLED-ISPISNLKNLTYLTLYFNNISDIS---------  325 (466)
T ss_dssp             ---GGTTCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCSSCCSC-CGGGGGCTTCSEEECCSSCCSCCG---------
T ss_pred             ---hhhcCCCCCEEECCCCccCcccc-ccCCCccCeEEcCCCcccC-chhhcCCCCCCEEECcCCcCCCch---------
Confidence               15567899999999999888776 7899999999999999865 44588999 999999998643221         


Q ss_pred             CCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEE
Q 042981          758 SSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSI  837 (876)
Q Consensus       758 l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l  837 (876)
                                   .+..+++|+.|+++++ .+...       ..+..+++|+.|++++|+.....|  +..+++|+.|++
T Consensus       326 -------------~~~~l~~L~~L~l~~n-~l~~~-------~~l~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l  382 (466)
T 1o6v_A          326 -------------PVSSLTKLQRLFFYNN-KVSDV-------SSLANLTNINWLSAGHNQISDLTP--LANLTRITQLGL  382 (466)
T ss_dssp             -------------GGGGCTTCCEEECCSS-CCCCC-------GGGTTCTTCCEEECCSSCCCBCGG--GTTCTTCCEEEC
T ss_pred             -------------hhccCccCCEeECCCC-ccCCc-------hhhccCCCCCEEeCCCCccCccch--hhcCCCCCEEec
Confidence                         1347899999999887 45443       356789999999999996555444  788999999999


Q ss_pred             ecCCCch
Q 042981          838 SYCPIME  844 (876)
Q Consensus       838 ~~~~~l~  844 (876)
                      ++|+...
T Consensus       383 ~~n~~~~  389 (466)
T 1o6v_A          383 NDQAWTN  389 (466)
T ss_dssp             CCEEEEC
T ss_pred             cCCcccC
Confidence            9997543

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.91  E-value=1.3e-23  Score=235.95  Aligned_cols=284  Identities=19%  Similarity=0.156  Sum_probs=160.7

Q ss_pred             hccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccc
Q 042981          492 FSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGI  571 (876)
Q Consensus       492 ~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i  571 (876)
                      +..+++|++|++         ++|.+..+|  ++.+++|++|++++|.++.+|  ++++++|++|++++| .+..+|  +
T Consensus        60 l~~l~~L~~L~L---------s~n~l~~~~--~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L~~L~L~~N-~l~~l~--~  123 (457)
T 3bz5_A           60 IEKLTGLTKLIC---------TSNNITTLD--LSQNTNLTYLACDSNKLTNLD--VTPLTKLTYLNCDTN-KLTKLD--V  123 (457)
T ss_dssp             GGGCTTCSEEEC---------CSSCCSCCC--CTTCTTCSEEECCSSCCSCCC--CTTCTTCCEEECCSS-CCSCCC--C
T ss_pred             hcccCCCCEEEc---------cCCcCCeEc--cccCCCCCEEECcCCCCceee--cCCCCcCCEEECCCC-cCCeec--C
Confidence            444555555555         333334443  445555555555555555443  455555555555555 233333  4


Q ss_pred             cCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccc-ccc--ccccCCCCCCeeeeCcCCCCCcchhh
Q 042981          572 GKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTC-RLE--SLKNLQLLRECGIEGLSNVSHLDEDE  648 (876)
Q Consensus       572 ~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~-~l~--~L~~L~~L~~L~l~~~~~~~~~~~~~  648 (876)
                      +.+++|++|++++|.+.+ +|  ++.+++|+.|..          +.+ .+.  .+..+++|+.|+++++.    +... 
T Consensus       124 ~~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          124 SQNPLLTYLNCARNTLTE-ID--VSHNTQLTELDC----------HLNKKITKLDVTPQTQLTTLDCSFNK----ITEL-  185 (457)
T ss_dssp             TTCTTCCEEECTTSCCSC-CC--CTTCTTCCEEEC----------TTCSCCCCCCCTTCTTCCEEECCSSC----CCCC-
T ss_pred             CCCCcCCEEECCCCccce-ec--cccCCcCCEEEC----------CCCCcccccccccCCcCCEEECCCCc----ccee-
Confidence            555555555555554432 22  444444444421          111 011  23444555555555421    1111 


Q ss_pred             hccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCC
Q 042981          649 RLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPP  728 (876)
Q Consensus       649 ~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~  728 (876)
                        .+..+++|+.|++++|.+...          .+..+++|+.|+++++....+|  +..+++|+.|++++|.+.+. | 
T Consensus       186 --~l~~l~~L~~L~l~~N~l~~~----------~l~~l~~L~~L~Ls~N~l~~ip--~~~l~~L~~L~l~~N~l~~~-~-  249 (457)
T 3bz5_A          186 --DVSQNKLLNRLNCDTNNITKL----------DLNQNIQLTFLDCSSNKLTEID--VTPLTQLTYFDCSVNPLTEL-D-  249 (457)
T ss_dssp             --CCTTCTTCCEEECCSSCCSCC----------CCTTCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSCC-C-
T ss_pred             --ccccCCCCCEEECcCCcCCee----------ccccCCCCCEEECcCCcccccC--ccccCCCCEEEeeCCcCCCc-C-
Confidence              155667777888877766421          2455678888888888777777  77888899999999887653 3 


Q ss_pred             CCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCc--ccccCcccceeeccccccccccccccc--cccccC
Q 042981          729 LGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSS--SVIAFPKLKSLHIGAMEELEEWNYRIT--RKENIS  803 (876)
Q Consensus       729 l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~--~~~~~~~L~~L~l~~~~~L~~~~~~~~--~~~~~~  803 (876)
                      ++.++ |+.|.++.+..              ..++++.+....  ....+++|+.|++++|..+........  ..-.+.
T Consensus       250 ~~~l~~L~~L~l~~n~L--------------~~L~l~~n~~~~~~~~~~l~~L~~L~Ls~n~~l~~l~~~~~~L~~L~l~  315 (457)
T 3bz5_A          250 VSTLSKLTTLHCIQTDL--------------LEIDLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGITELDLS  315 (457)
T ss_dssp             CTTCTTCCEEECTTCCC--------------SCCCCTTCTTCCEEECTTCTTCCCCCCTTCTTCCEEECTTCCCSCCCCT
T ss_pred             HHHCCCCCEEeccCCCC--------------CEEECCCCccCCcccccccccCCEEECCCCcccceeccCCCcceEechh
Confidence            46677 77777665431              112222111111  134678999999998876554432110  011355


Q ss_pred             cccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCC
Q 042981          804 IMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPI  842 (876)
Q Consensus       804 ~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~  842 (876)
                      .+++|+.|++++| .++.+|  +.++++|+.|++++|+.
T Consensus       316 ~~~~L~~L~L~~N-~l~~l~--l~~l~~L~~L~l~~N~l  351 (457)
T 3bz5_A          316 QNPKLVYLYLNNT-ELTELD--VSHNTKLKSLSCVNAHI  351 (457)
T ss_dssp             TCTTCCEEECTTC-CCSCCC--CTTCTTCSEEECCSSCC
T ss_pred             hcccCCEEECCCC-cccccc--cccCCcCcEEECCCCCC
Confidence            7789999999998 455565  78899999999999864

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.91  E-value=6e-24  Score=235.24  Aligned_cols=304  Identities=15%  Similarity=0.085  Sum_probs=239.7

Q ss_pred             CCceEEEEeeecCCCCCccc-ccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc
Q 042981          442 GDKVRHLGLNFEGGASFPMS-IHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI  520 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~-~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l  520 (876)
                      ..+++++++..+.+..+|.. +..+++|++|++.++.      ...+++..|..+++|++|+|         ++|.+..+
T Consensus        44 l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~------i~~~~~~~~~~l~~L~~L~L---------~~n~l~~~  108 (390)
T 3o6n_A           44 LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ------IEEIDTYAFAYAHTIQKLYM---------GFNAIRYL  108 (390)
T ss_dssp             GCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSC------CCEECTTTTTTCTTCCEEEC---------CSSCCCCC
T ss_pred             cCCceEEEecCCchhhCChhHhcccccCcEEECCCCc------ccccChhhccCCCCcCEEEC---------CCCCCCcC
Confidence            46789999999988887655 6789999999998775      34455556899999999999         77777777


Q ss_pred             c-cccccCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCC
Q 042981          521 P-ENVRKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKL  598 (876)
Q Consensus       521 p-~~i~~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l  598 (876)
                      | ..++++++|++|+|++|.++.+|.. ++++++|++|++++|......|..+.++++|++|++++|.+.. ++  ++.+
T Consensus       109 ~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~-~~--~~~l  185 (390)
T 3o6n_A          109 PPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTH-VD--LSLI  185 (390)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSB-CC--GGGC
T ss_pred             CHHHhcCCCCCCEEECCCCccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCCc-cc--cccc
Confidence            5 5579999999999999999999987 5899999999999996555556679999999999999997644 33  5667


Q ss_pred             CCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHH
Q 042981          599 TSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQ  678 (876)
Q Consensus       599 ~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~  678 (876)
                      ++|+.|          +++.+.+..+.....|+.|++++..    +... +  ....++|+.|++++|.+.+.       
T Consensus       186 ~~L~~L----------~l~~n~l~~~~~~~~L~~L~l~~n~----l~~~-~--~~~~~~L~~L~l~~n~l~~~-------  241 (390)
T 3o6n_A          186 PSLFHA----------NVSYNLLSTLAIPIAVEELDASHNS----INVV-R--GPVNVELTILKLQHNNLTDT-------  241 (390)
T ss_dssp             TTCSEE----------ECCSSCCSEEECCSSCSEEECCSSC----CCEE-E--CCCCSSCCEEECCSSCCCCC-------
T ss_pred             ccccee----------ecccccccccCCCCcceEEECCCCe----eeec-c--ccccccccEEECCCCCCccc-------
Confidence            888888          5567778888888889999998742    2211 1  12347899999999987532       


Q ss_pred             HHhhCCCCCCccEEEEeecCCCCC-CchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCC
Q 042981          679 LLEALQPPLNVKELGIVSYGGNIF-PKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIE  756 (876)
Q Consensus       679 ~~~~l~~~~~L~~L~l~~~~~~~l-p~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~  756 (876)
                        ..+..+++|+.|+++++....+ |..+..+++|++|+|++|.+.+..+..+.+| |+.|++++|... .++       
T Consensus       242 --~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~L~~n~l~-~~~-------  311 (390)
T 3o6n_A          242 --AWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLL-HVE-------  311 (390)
T ss_dssp             --GGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSSCCCEEECSSSCCTTCCEEECCSSCCC-CCG-------
T ss_pred             --HHHcCCCCccEEECCCCcCCCcChhHccccccCCEEECCCCcCcccCcccCCCCCCCEEECCCCcce-ecC-------
Confidence              3455678999999999987765 7788899999999999999876544567789 999999998643 221       


Q ss_pred             CCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccC
Q 042981          757 GSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRL  819 (876)
Q Consensus       757 ~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l  819 (876)
                                   ..+..+++|+.|+++++. +...        .+..+++|+.|++++|+..
T Consensus       312 -------------~~~~~l~~L~~L~L~~N~-i~~~--------~~~~~~~L~~L~l~~N~~~  352 (390)
T 3o6n_A          312 -------------RNQPQFDRLENLYLDHNS-IVTL--------KLSTHHTLKNLTLSHNDWD  352 (390)
T ss_dssp             -------------GGHHHHTTCSEEECCSSC-CCCC--------CCCTTCCCSEEECCSSCEE
T ss_pred             -------------ccccccCcCCEEECCCCc-ccee--------CchhhccCCEEEcCCCCcc
Confidence                         224468999999998873 4443        2558899999999999653

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.90  E-value=2.7e-23  Score=236.71  Aligned_cols=295  Identities=18%  Similarity=0.193  Sum_probs=210.2

Q ss_pred             CCcceEEecCccccccCCCCCcccccc-cccccCcccCeeeccCcccccc-chhhccCCcccEEeecCCCCCccccc-cc
Q 042981          495 LACFRALVIGQRNFIFDPYPNLIREIP-ENVRKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPA-GI  571 (876)
Q Consensus       495 l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~~L~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~-~i  571 (876)
                      .+.+++|+|         ++|.+..++ ..|.++++|++|+|++|.++.+ |..++++++|++|+|++| .+..+|. .|
T Consensus        31 ~~~l~~L~L---------~~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~  100 (477)
T 2id5_A           31 PTETRLLDL---------GKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSN-RLKLIPLGVF  100 (477)
T ss_dssp             CTTCSEEEC---------CSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCSCCTTSS
T ss_pred             CCCCcEEEC---------CCCccceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCC-cCCccCcccc
Confidence            358999999         777777764 6789999999999999999977 678999999999999999 4666665 47


Q ss_pred             cCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhcc
Q 042981          572 GKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLG  651 (876)
Q Consensus       572 ~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~  651 (876)
                      .++++|++|++++|.+....|..+.++++|++|.....     .+.......+..+++|+.|+++++    .+.......
T Consensus       101 ~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n-----~l~~~~~~~~~~l~~L~~L~l~~n----~l~~~~~~~  171 (477)
T 2id5_A          101 TGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDN-----DLVYISHRAFSGLNSLEQLTLEKC----NLTSIPTEA  171 (477)
T ss_dssp             TTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCT-----TCCEECTTSSTTCTTCCEEEEESC----CCSSCCHHH
T ss_pred             cCCCCCCEEECCCCccccCChhHccccccCCEEECCCC-----ccceeChhhccCCCCCCEEECCCC----cCcccChhH
Confidence            89999999999999887777888899999998833211     111112234667788888888874    222333344


Q ss_pred             CcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecC-CCCCCchhhcccCCcEEEEecCCCCCCCC--C
Q 042981          652 LHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYG-GNIFPKWLTSLTNLRDLRLKSCVICEHFP--P  728 (876)
Q Consensus       652 l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~-~~~lp~~l~~l~~L~~L~L~~~~~~~~lp--~  728 (876)
                      +.++++|+.|++++|.+....       ...+..+++|+.|++.++. ...+|.......+|++|+|++|.+.+ +|  .
T Consensus       172 l~~l~~L~~L~l~~n~i~~~~-------~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~-~~~~~  243 (477)
T 2id5_A          172 LSHLHGLIVLRLRHLNINAIR-------DYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTA-VPYLA  243 (477)
T ss_dssp             HTTCTTCCEEEEESCCCCEEC-------TTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCS-CCHHH
T ss_pred             hcccCCCcEEeCCCCcCcEeC-------hhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCcccc-cCHHH
Confidence            677888888888888764221       1245566788888888764 33446656566688888888887753 44  3


Q ss_pred             CCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccc
Q 042981          729 LGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPR  807 (876)
Q Consensus       729 l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~  807 (876)
                      ++.++ |+.|+|++|........                    .+..+++|+.|+++++ .+...     .+..+..+++
T Consensus       244 ~~~l~~L~~L~Ls~n~l~~~~~~--------------------~~~~l~~L~~L~L~~n-~l~~~-----~~~~~~~l~~  297 (477)
T 2id5_A          244 VRHLVYLRFLNLSYNPISTIEGS--------------------MLHELLRLQEIQLVGG-QLAVV-----EPYAFRGLNY  297 (477)
T ss_dssp             HTTCTTCCEEECCSSCCCEECTT--------------------SCTTCTTCCEEECCSS-CCSEE-----CTTTBTTCTT
T ss_pred             hcCccccCeeECCCCcCCccChh--------------------hccccccCCEEECCCC-ccceE-----CHHHhcCccc
Confidence            67778 88888888764433222                    1335788888877766 33332     2456677888


Q ss_pred             cceeeeccCccCCCCCC-CCCCCCCccEEEEecCCCc
Q 042981          808 LSSLTIWYCPRLRVLPD-YLFQSTTLQKLSISYCPIM  843 (876)
Q Consensus       808 L~~L~l~~c~~l~~lp~-~l~~l~~L~~L~l~~~~~l  843 (876)
                      |+.|+|++| .++.+|. .+..+++|+.|++++|+..
T Consensus       298 L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~l~  333 (477)
T 2id5_A          298 LRVLNVSGN-QLTTLEESVFHSVGNLETLILDSNPLA  333 (477)
T ss_dssp             CCEEECCSS-CCSCCCGGGBSCGGGCCEEECCSSCEE
T ss_pred             CCEEECCCC-cCceeCHhHcCCCcccCEEEccCCCcc
Confidence            888888888 4454553 4677888888888888754

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.90  E-value=1.6e-23  Score=244.82  Aligned_cols=304  Identities=15%  Similarity=0.080  Sum_probs=239.8

Q ss_pred             CCceEEEEeeecCCCCCccc-ccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc
Q 042981          442 GDKVRHLGLNFEGGASFPMS-IHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI  520 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~-~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l  520 (876)
                      ...++.+++..+.+..+|.. +..+++|++|++.+|.      ...+++..|..+++|++|+|         ++|.+..+
T Consensus        50 l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~------l~~~~~~~~~~l~~L~~L~L---------~~n~l~~~  114 (597)
T 3oja_B           50 LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ------IEEIDTYAFAYAHTIQKLYM---------GFNAIRYL  114 (597)
T ss_dssp             GCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTSC------CCEECTTTTTTCTTCCEEEC---------CSSCCCCC
T ss_pred             CCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCCC------CCCCChHHhcCCCCCCEEEC---------CCCcCCCC
Confidence            35678899999888877554 6789999999998775      34455556899999999999         77777777


Q ss_pred             cc-ccccCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCC
Q 042981          521 PE-NVRKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKL  598 (876)
Q Consensus       521 p~-~i~~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l  598 (876)
                      |. .++++++|++|+|++|.++.+|.. ++++++|++|+|++|......|..|..+++|++|++++|.+.+ ++  ++.+
T Consensus       115 ~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~-~~--~~~l  191 (597)
T 3oja_B          115 PPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTH-VD--LSLI  191 (597)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSB-CC--GGGC
T ss_pred             CHHHHcCCCCCCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCC-cC--hhhh
Confidence            64 469999999999999999999987 5899999999999996666667789999999999999997744 33  5567


Q ss_pred             CCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHH
Q 042981          599 TSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQ  678 (876)
Q Consensus       599 ~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~  678 (876)
                      ++|+.|          +++.+.+..+.....|+.|+++++.. ..+..    .  ..++|+.|++++|.+.+.       
T Consensus       192 ~~L~~L----------~l~~n~l~~l~~~~~L~~L~ls~n~l-~~~~~----~--~~~~L~~L~L~~n~l~~~-------  247 (597)
T 3oja_B          192 PSLFHA----------NVSYNLLSTLAIPIAVEELDASHNSI-NVVRG----P--VNVELTILKLQHNNLTDT-------  247 (597)
T ss_dssp             TTCSEE----------ECCSSCCSEEECCTTCSEEECCSSCC-CEEEC----S--CCSCCCEEECCSSCCCCC-------
T ss_pred             hhhhhh----------hcccCccccccCCchhheeeccCCcc-ccccc----c--cCCCCCEEECCCCCCCCC-------
Confidence            888888          56677888888888999999987432 11111    1  236899999999987531       


Q ss_pred             HHhhCCCCCCccEEEEeecCCCCC-CchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCC
Q 042981          679 LLEALQPPLNVKELGIVSYGGNIF-PKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIE  756 (876)
Q Consensus       679 ~~~~l~~~~~L~~L~l~~~~~~~l-p~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~  756 (876)
                        ..+..+++|+.|++++|....+ |..++.+++|+.|+|++|.+.+..+.++.+| |+.|+|++|.... +        
T Consensus       248 --~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~Ls~N~l~~-i--------  316 (597)
T 3oja_B          248 --AWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLH-V--------  316 (597)
T ss_dssp             --GGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECTTSCCCEEECSSSCCTTCCEEECCSSCCCC-C--------
T ss_pred             --hhhccCCCCCEEECCCCccCCCCHHHhcCccCCCEEECCCCCCCCCCcccccCCCCcEEECCCCCCCc-c--------
Confidence              3455678999999999987765 7789999999999999999877555567799 9999999986432 2        


Q ss_pred             CCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccC
Q 042981          757 GSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRL  819 (876)
Q Consensus       757 ~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l  819 (876)
                                  +..+..+++|+.|+++++. +...        .+..+++|+.|+|++|+..
T Consensus       317 ------------~~~~~~l~~L~~L~L~~N~-l~~~--------~~~~~~~L~~L~l~~N~~~  358 (597)
T 3oja_B          317 ------------ERNQPQFDRLENLYLDHNS-IVTL--------KLSTHHTLKNLTLSHNDWD  358 (597)
T ss_dssp             ------------GGGHHHHTTCSEEECCSSC-CCCC--------CCCTTCCCSEEECCSSCEE
T ss_pred             ------------CcccccCCCCCEEECCCCC-CCCc--------ChhhcCCCCEEEeeCCCCC
Confidence                        2234578999999998873 4433        2568899999999999753

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.90  E-value=3.5e-23  Score=232.41  Aligned_cols=350  Identities=18%  Similarity=0.205  Sum_probs=171.9

Q ss_pred             CCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcc-------------eEEecCcccc
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACF-------------RALVIGQRNF  508 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~L-------------r~L~L~~~~~  508 (876)
                      ...++.+.++.+.+..+|.++.++++|++|++.++.     +.+. .+..+..+++|             +.|++     
T Consensus        10 ~~~L~~L~l~~n~l~~iP~~i~~L~~L~~L~l~~n~-----~~~~-~p~~~~~l~~L~~l~l~~c~~~~l~~L~l-----   78 (454)
T 1jl5_A           10 NTFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSE-----WERN-APPGNGEQREMAVSRLRDCLDRQAHELEL-----   78 (454)
T ss_dssp             ------------------------CCHHHHHHHHHH-----HHHT-SCTTSCCCHHHHHHHHHHHHHHTCSEEEC-----
T ss_pred             cccchhhhcccCchhhCChhHhcccchhhhhccCCc-----cccc-CCcccccchhcchhhhhhhhccCCCEEEe-----
Confidence            457899999999998889999999999999997764     1122 22224555544             78888     


Q ss_pred             ccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCC
Q 042981          509 IFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLL  588 (876)
Q Consensus       509 ~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~  588 (876)
                          +++.+..+|..   .++|++|++++|.++.+|..   +.+|++|++++| .+..+|..   .++|++|++++|.+.
T Consensus        79 ----~~~~l~~lp~~---~~~L~~L~l~~n~l~~lp~~---~~~L~~L~l~~n-~l~~l~~~---~~~L~~L~L~~n~l~  144 (454)
T 1jl5_A           79 ----NNLGLSSLPEL---PPHLESLVASCNSLTELPEL---PQSLKSLLVDNN-NLKALSDL---PPLLEYLGVSNNQLE  144 (454)
T ss_dssp             ----TTSCCSCCCSC---CTTCSEEECCSSCCSSCCCC---CTTCCEEECCSS-CCSCCCSC---CTTCCEEECCSSCCS
T ss_pred             ----cCCccccCCCC---cCCCCEEEccCCcCCccccc---cCCCcEEECCCC-ccCcccCC---CCCCCEEECcCCCCC
Confidence                66666666652   35777888888877777753   367777777776 34444431   156777777777654


Q ss_pred             ccCCccCCCCCCCCccCceeecCccCCCcccccccccc-CCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEecc
Q 042981          589 KYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKN-LQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDE  667 (876)
Q Consensus       589 ~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~-L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~  667 (876)
                       .+| .++++++|++|          +++.+.+..++. ..+|+.|+++++.    +.. .+ .+.++++|+.|++++|.
T Consensus       145 -~lp-~~~~l~~L~~L----------~l~~N~l~~lp~~~~~L~~L~L~~n~----l~~-l~-~~~~l~~L~~L~l~~N~  206 (454)
T 1jl5_A          145 -KLP-ELQNSSFLKII----------DVDNNSLKKLPDLPPSLEFIAAGNNQ----LEE-LP-ELQNLPFLTAIYADNNS  206 (454)
T ss_dssp             -SCC-CCTTCTTCCEE----------ECCSSCCSCCCCCCTTCCEEECCSSC----CSS-CC-CCTTCTTCCEEECCSSC
T ss_pred             -CCc-ccCCCCCCCEE----------ECCCCcCcccCCCcccccEEECcCCc----CCc-Cc-cccCCCCCCEEECCCCc
Confidence             366 46777777776          334444444332 2466666666532    111 11 35666777777777665


Q ss_pred             CCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCce
Q 042981          668 EGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVK  746 (876)
Q Consensus       668 ~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~  746 (876)
                      +.+..           ..+.+|+.|++.++....+|. ++.+++|++|++++|.+.+ +|.  .++ |+.|++++|....
T Consensus       207 l~~l~-----------~~~~~L~~L~l~~n~l~~lp~-~~~l~~L~~L~l~~N~l~~-l~~--~~~~L~~L~l~~N~l~~  271 (454)
T 1jl5_A          207 LKKLP-----------DLPLSLESIVAGNNILEELPE-LQNLPFLTTIYADNNLLKT-LPD--LPPSLEALNVRDNYLTD  271 (454)
T ss_dssp             CSSCC-----------CCCTTCCEEECCSSCCSSCCC-CTTCTTCCEEECCSSCCSS-CCS--CCTTCCEEECCSSCCSC
T ss_pred             CCcCC-----------CCcCcccEEECcCCcCCcccc-cCCCCCCCEEECCCCcCCc-ccc--cccccCEEECCCCcccc
Confidence            53110           012366666666666666663 5566666666666666543 222  123 5555555443221


Q ss_pred             EeCccc-------------cc----CCCCCCCCCCCCCCCcccccC-cccceeeccccccccccccccccccccCccccc
Q 042981          747 RVGNEF-------------LG----IEGSSEDDPSSSSSSSSVIAF-PKLKSLHIGAMEELEEWNYRITRKENISIMPRL  808 (876)
Q Consensus       747 ~~~~~~-------------~~----~~~l~~~~~~~~~~~~~~~~~-~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L  808 (876)
                       ++...             .+    ...+..++++.+.+.. +..+ ++|+.|+++++ .+..+      +   ..+++|
T Consensus       272 -l~~~~~~L~~L~ls~N~l~~l~~~~~~L~~L~l~~N~l~~-i~~~~~~L~~L~Ls~N-~l~~l------p---~~~~~L  339 (454)
T 1jl5_A          272 -LPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRS-LCDLPPSLEELNVSNN-KLIEL------P---ALPPRL  339 (454)
T ss_dssp             -CCCCCTTCCEEECCSSCCSEESCCCTTCCEEECCSSCCSE-ECCCCTTCCEEECCSS-CCSCC------C---CCCTTC
T ss_pred             -cCcccCcCCEEECcCCccCcccCcCCcCCEEECcCCcCCc-ccCCcCcCCEEECCCC-ccccc------c---ccCCcC
Confidence             11100             00    0122223333332222 1122 36666666554 23321      1   136788


Q ss_pred             ceeeeccCccCCCCCCCCCCCCCccEEEEecCCCch--hhccccccCCCCC-------------CCcCEEEEccCC
Q 042981          809 SSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIME--ELRILEDHRTTDI-------------PRLSSLEIEYCP  869 (876)
Q Consensus       809 ~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~--~l~~~~~~~~~~l-------------p~L~~L~i~~c~  869 (876)
                      +.|++++| .++.+|.   .+++|+.|++++|+...  .+|.    .+..+             ++|+.|++++|+
T Consensus       340 ~~L~L~~N-~l~~lp~---~l~~L~~L~L~~N~l~~l~~ip~----~l~~L~~n~~~~~i~~~~~~L~~L~ls~N~  407 (454)
T 1jl5_A          340 ERLIASFN-HLAEVPE---LPQNLKQLHVEYNPLREFPDIPE----SVEDLRMNSHLAEVPELPQNLKQLHVETNP  407 (454)
T ss_dssp             CEEECCSS-CCSCCCC---CCTTCCEEECCSSCCSSCCCCCT----TCCEEECCC---------------------
T ss_pred             CEEECCCC-ccccccc---hhhhccEEECCCCCCCcCCCChH----HHHhhhhcccccccccccCcCCEEECCCCc
Confidence            88888888 5567776   36888888888887654  2221    12222             678888888874

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.90  E-value=1.2e-22  Score=228.32  Aligned_cols=302  Identities=20%  Similarity=0.148  Sum_probs=226.4

Q ss_pred             hccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccc
Q 042981          492 FSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGI  571 (876)
Q Consensus       492 ~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i  571 (876)
                      +..+++|++|++         ++|.+..+| .++.+++|++|+|++|.++.+|  ++.+++|++|++++|. +..+|  +
T Consensus        38 ~~~l~~L~~L~L---------s~n~l~~~~-~l~~l~~L~~L~Ls~n~l~~~~--~~~l~~L~~L~Ls~N~-l~~~~--~  102 (457)
T 3bz5_A           38 EEQLATLTSLDC---------HNSSITDMT-GIEKLTGLTKLICTSNNITTLD--LSQNTNLTYLACDSNK-LTNLD--V  102 (457)
T ss_dssp             HHHHTTCCEEEC---------CSSCCCCCT-TGGGCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSSC-CSCCC--C
T ss_pred             hhHcCCCCEEEc---------cCCCcccCh-hhcccCCCCEEEccCCcCCeEc--cccCCCCCEEECcCCC-Cceee--c
Confidence            567899999999         777777777 6899999999999999999987  8999999999999994 66665  8


Q ss_pred             cCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccccccc--cccCCCCCCeeeeCcCCCCCcchhhh
Q 042981          572 GKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLES--LKNLQLLRECGIEGLSNVSHLDEDER  649 (876)
Q Consensus       572 ~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~--L~~L~~L~~L~l~~~~~~~~~~~~~~  649 (876)
                      +++++|++|++++|.+.+ +|  ++.+++|++|          +++.+.+..  +..+++|+.|+++++..+...     
T Consensus       103 ~~l~~L~~L~L~~N~l~~-l~--~~~l~~L~~L----------~l~~N~l~~l~l~~l~~L~~L~l~~n~~~~~~-----  164 (457)
T 3bz5_A          103 TPLTKLTYLNCDTNKLTK-LD--VSQNPLLTYL----------NCARNTLTEIDVSHNTQLTELDCHLNKKITKL-----  164 (457)
T ss_dssp             TTCTTCCEEECCSSCCSC-CC--CTTCTTCCEE----------ECTTSCCSCCCCTTCTTCCEEECTTCSCCCCC-----
T ss_pred             CCCCcCCEEECCCCcCCe-ec--CCCCCcCCEE----------ECCCCccceeccccCCcCCEEECCCCCccccc-----
Confidence            999999999999997754 55  7888899888          333444433  567888999999886443332     


Q ss_pred             ccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCC
Q 042981          650 LGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPL  729 (876)
Q Consensus       650 ~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l  729 (876)
                       .+..+++|+.|++++|.+...          .+..+++|+.|++.++....++  ++.+++|++|++++|++.+ +| +
T Consensus       165 -~~~~l~~L~~L~ls~n~l~~l----------~l~~l~~L~~L~l~~N~l~~~~--l~~l~~L~~L~Ls~N~l~~-ip-~  229 (457)
T 3bz5_A          165 -DVTPQTQLTTLDCSFNKITEL----------DVSQNKLLNRLNCDTNNITKLD--LNQNIQLTFLDCSSNKLTE-ID-V  229 (457)
T ss_dssp             -CCTTCTTCCEEECCSSCCCCC----------CCTTCTTCCEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSC-CC-C
T ss_pred             -ccccCCcCCEEECCCCcccee----------ccccCCCCCEEECcCCcCCeec--cccCCCCCEEECcCCcccc-cC-c
Confidence             377889999999999987531          1556789999999999888764  7789999999999999977 66 8


Q ss_pred             Cccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeecccccccccccc-----ccccccccC
Q 042981          730 GKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNY-----RITRKENIS  803 (876)
Q Consensus       730 ~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~-----~~~~~~~~~  803 (876)
                      +.++ |+.|++++|......                       ...|++|+.|++++. +++...+     .+..+  .+
T Consensus       230 ~~l~~L~~L~l~~N~l~~~~-----------------------~~~l~~L~~L~l~~n-~L~~L~l~~n~~~~~~~--~~  283 (457)
T 3bz5_A          230 TPLTQLTYFDCSVNPLTELD-----------------------VSTLSKLTTLHCIQT-DLLEIDLTHNTQLIYFQ--AE  283 (457)
T ss_dssp             TTCTTCSEEECCSSCCSCCC-----------------------CTTCTTCCEEECTTC-CCSCCCCTTCTTCCEEE--CT
T ss_pred             cccCCCCEEEeeCCcCCCcC-----------------------HHHCCCCCEEeccCC-CCCEEECCCCccCCccc--cc
Confidence            8999 999999998643221                       123555555444332 2222221     11112  35


Q ss_pred             cccccceeeeccCccCCCCCCC--------CCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCCCCCCC
Q 042981          804 IMPRLSSLTIWYCPRLRVLPDY--------LFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLP  875 (876)
Q Consensus       804 ~l~~L~~L~l~~c~~l~~lp~~--------l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~~lP  875 (876)
                      .+++|+.|++++|+.++.+|..        +.++++|+.|++++|..-. +      .+..+++|+.|+++++ +++.+|
T Consensus       284 ~l~~L~~L~Ls~n~~l~~l~~~~~~L~~L~l~~~~~L~~L~L~~N~l~~-l------~l~~l~~L~~L~l~~N-~l~~l~  355 (457)
T 3bz5_A          284 GCRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLVYLYLNNTELTE-L------DVSHNTKLKSLSCVNA-HIQDFS  355 (457)
T ss_dssp             TCTTCCCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTCCCSC-C------CCTTCTTCSEEECCSS-CCCBCT
T ss_pred             ccccCCEEECCCCcccceeccCCCcceEechhhcccCCEEECCCCcccc-c------ccccCCcCcEEECCCC-CCCCcc
Confidence            7899999999999877776642        3455677777777775332 2      3678999999999887 455544

>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=5.6e-23  Score=220.83  Aligned_cols=232  Identities=23%  Similarity=0.316  Sum_probs=176.4

Q ss_pred             cCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccC
Q 042981          494 KLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGK  573 (876)
Q Consensus       494 ~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~  573 (876)
                      ....++.|+|         +++.+..+|..++++++|++|+|++|.++.+|..++++++|++|+|++| .+..+|..+.+
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~~  148 (328)
T 4fcg_A           79 TQPGRVALEL---------RSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARN-PLRALPASIAS  148 (328)
T ss_dssp             TSTTCCEEEE---------ESSCCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESC-CCCCCCGGGGG
T ss_pred             cccceeEEEc---------cCCCchhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCC-ccccCcHHHhc
Confidence            4678999999         7778889999999999999999999999999999999999999999999 45689999999


Q ss_pred             cCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCc
Q 042981          574 LKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLH  653 (876)
Q Consensus       574 L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~  653 (876)
                      +++|++|++++|...+.+|..++...                                   +             ...+.
T Consensus       149 l~~L~~L~L~~n~~~~~~p~~~~~~~-----------------------------------~-------------~~~~~  180 (328)
T 4fcg_A          149 LNRLRELSIRACPELTELPEPLASTD-----------------------------------A-------------SGEHQ  180 (328)
T ss_dssp             CTTCCEEEEEEETTCCCCCSCSEEEC-------------------------------------------------CCCEE
T ss_pred             CcCCCEEECCCCCCccccChhHhhcc-----------------------------------c-------------hhhhc
Confidence            99999999999877777776442200                                   0             00134


Q ss_pred             ccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc
Q 042981          654 NMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP  733 (876)
Q Consensus       654 ~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp  733 (876)
                      ++++|+.|++++|.+                               ..+|.+++.+++|++|+|++|.+.+..+.++.++
T Consensus       181 ~l~~L~~L~L~~n~l-------------------------------~~lp~~l~~l~~L~~L~L~~N~l~~l~~~l~~l~  229 (328)
T 4fcg_A          181 GLVNLQSLRLEWTGI-------------------------------RSLPASIANLQNLKSLKIRNSPLSALGPAIHHLP  229 (328)
T ss_dssp             ESTTCCEEEEEEECC-------------------------------CCCCGGGGGCTTCCEEEEESSCCCCCCGGGGGCT
T ss_pred             cCCCCCEEECcCCCc-------------------------------CcchHhhcCCCCCCEEEccCCCCCcCchhhccCC
Confidence            455666666666543                               3457777777777777777777765445566777


Q ss_pred             -CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceee
Q 042981          734 -LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLT  812 (876)
Q Consensus       734 -L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~  812 (876)
                       |+.|++++|.....++.                    .+..+++|+.|++++|..+..+      +..+..+++|+.|+
T Consensus       230 ~L~~L~Ls~n~~~~~~p~--------------------~~~~l~~L~~L~L~~n~~~~~~------p~~~~~l~~L~~L~  283 (328)
T 4fcg_A          230 KLEELDLRGCTALRNYPP--------------------IFGGRAPLKRLILKDCSNLLTL------PLDIHRLTQLEKLD  283 (328)
T ss_dssp             TCCEEECTTCTTCCBCCC--------------------CTTCCCCCCEEECTTCTTCCBC------CTTGGGCTTCCEEE
T ss_pred             CCCEEECcCCcchhhhHH--------------------HhcCCCCCCEEECCCCCchhhc------chhhhcCCCCCEEe
Confidence             77777777665443322                    2345778888887776544433      44677889999999


Q ss_pred             eccCccCCCCCCCCCCCCCccEEEEecC
Q 042981          813 IWYCPRLRVLPDYLFQSTTLQKLSISYC  840 (876)
Q Consensus       813 l~~c~~l~~lp~~l~~l~~L~~L~l~~~  840 (876)
                      |++|+.++.+|..+.++++|+.+++..+
T Consensus       284 L~~n~~~~~iP~~l~~L~~L~~l~l~~~  311 (328)
T 4fcg_A          284 LRGCVNLSRLPSLIAQLPANCIILVPPH  311 (328)
T ss_dssp             CTTCTTCCCCCGGGGGSCTTCEEECCGG
T ss_pred             CCCCCchhhccHHHhhccCceEEeCCHH
Confidence            9999888899999999999999988866

>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=99.89  E-value=4e-22  Score=223.72  Aligned_cols=278  Identities=19%  Similarity=0.198  Sum_probs=118.7

Q ss_pred             ccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCccCcee
Q 042981          529 HLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFA  608 (876)
Q Consensus       529 ~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~  608 (876)
                      +|++|++++|.++.+| +++++++|++|++++| .+..+|..+   .+|++|++++|.+.+ +| .++++++|+.|    
T Consensus       132 ~L~~L~L~~n~l~~lp-~~~~l~~L~~L~l~~N-~l~~lp~~~---~~L~~L~L~~n~l~~-l~-~~~~l~~L~~L----  200 (454)
T 1jl5_A          132 LLEYLGVSNNQLEKLP-ELQNSSFLKIIDVDNN-SLKKLPDLP---PSLEFIAAGNNQLEE-LP-ELQNLPFLTAI----  200 (454)
T ss_dssp             TCCEEECCSSCCSSCC-CCTTCTTCCEEECCSS-CCSCCCCCC---TTCCEEECCSSCCSS-CC-CCTTCTTCCEE----
T ss_pred             CCCEEECcCCCCCCCc-ccCCCCCCCEEECCCC-cCcccCCCc---ccccEEECcCCcCCc-Cc-cccCCCCCCEE----
Confidence            4555555555555544 3455555555555554 233344322   245555555554322 33 34444444444    


Q ss_pred             ecCccCCCcccccccccc-CCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCC
Q 042981          609 MGGGVDDISTCRLESLKN-LQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPL  687 (876)
Q Consensus       609 ~~~~~~~ls~~~l~~L~~-L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~  687 (876)
                            +++.+.+..++. ..+|+.|+++++.. ..    .+ .+..+++|+.|++++|.+....           ..++
T Consensus       201 ------~l~~N~l~~l~~~~~~L~~L~l~~n~l-~~----lp-~~~~l~~L~~L~l~~N~l~~l~-----------~~~~  257 (454)
T 1jl5_A          201 ------YADNNSLKKLPDLPLSLESIVAGNNIL-EE----LP-ELQNLPFLTTIYADNNLLKTLP-----------DLPP  257 (454)
T ss_dssp             ------ECCSSCCSSCCCCCTTCCEEECCSSCC-SS----CC-CCTTCTTCCEEECCSSCCSSCC-----------SCCT
T ss_pred             ------ECCCCcCCcCCCCcCcccEEECcCCcC-Cc----cc-ccCCCCCCCEEECCCCcCCccc-----------cccc
Confidence                  222333332221 12444455544211 11    11 1445555555555555442110           0124


Q ss_pred             CccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCC
Q 042981          688 NVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSS  766 (876)
Q Consensus       688 ~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~  766 (876)
                      +|+.|++.++....+|.+   +++|++|++++|.+.+ +|.+  .+ |+.|++++|.... ++..   ...+..++++.+
T Consensus       258 ~L~~L~l~~N~l~~l~~~---~~~L~~L~ls~N~l~~-l~~~--~~~L~~L~l~~N~l~~-i~~~---~~~L~~L~Ls~N  327 (454)
T 1jl5_A          258 SLEALNVRDNYLTDLPEL---PQSLTFLDVSENIFSG-LSEL--PPNLYYLNASSNEIRS-LCDL---PPSLEELNVSNN  327 (454)
T ss_dssp             TCCEEECCSSCCSCCCCC---CTTCCEEECCSSCCSE-ESCC--CTTCCEEECCSSCCSE-ECCC---CTTCCEEECCSS
T ss_pred             ccCEEECCCCcccccCcc---cCcCCEEECcCCccCc-ccCc--CCcCCEEECcCCcCCc-ccCC---cCcCCEEECCCC
Confidence            555555555555554443   2455555555555433 1111  13 5555555554322 1110   012333333333


Q ss_pred             CCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCC--CCCCCCCCC-------------CC
Q 042981          767 SSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLR--VLPDYLFQS-------------TT  831 (876)
Q Consensus       767 ~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~--~lp~~l~~l-------------~~  831 (876)
                      .+......+++|+.|+++++ .+..+      +.   .+++|+.|++++|+...  .+|..+.++             ++
T Consensus       328 ~l~~lp~~~~~L~~L~L~~N-~l~~l------p~---~l~~L~~L~L~~N~l~~l~~ip~~l~~L~~n~~~~~i~~~~~~  397 (454)
T 1jl5_A          328 KLIELPALPPRLERLIASFN-HLAEV------PE---LPQNLKQLHVEYNPLREFPDIPESVEDLRMNSHLAEVPELPQN  397 (454)
T ss_dssp             CCSCCCCCCTTCCEEECCSS-CCSCC------CC---CCTTCCEEECCSSCCSSCCCCCTTCCEEECCC-----------
T ss_pred             ccccccccCCcCCEEECCCC-ccccc------cc---hhhhccEEECCCCCCCcCCCChHHHHhhhhcccccccccccCc
Confidence            33222224789999999887 45432      32   57999999999997666  688888777             88


Q ss_pred             ccEEEEecCCCchhhccccccCCCCCC-CcCEEEEccCC
Q 042981          832 LQKLSISYCPIMEELRILEDHRTTDIP-RLSSLEIEYCP  869 (876)
Q Consensus       832 L~~L~l~~~~~l~~l~~~~~~~~~~lp-~L~~L~i~~c~  869 (876)
                      |+.|++++|+..+ +        +.+| +|+.|.+.+|.
T Consensus       398 L~~L~ls~N~l~~-~--------~~iP~sl~~L~~~~~~  427 (454)
T 1jl5_A          398 LKQLHVETNPLRE-F--------PDIPESVEDLRMNSER  427 (454)
T ss_dssp             ---------------------------------------
T ss_pred             CCEEECCCCcCCc-c--------ccchhhHhheeCcCcc
Confidence            9999999997543 1        2333 67778887764

>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=99.89  E-value=1.8e-22  Score=238.96  Aligned_cols=134  Identities=25%  Similarity=0.237  Sum_probs=111.7

Q ss_pred             CCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccc-ccccCcccCe
Q 042981          454 GGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPE-NVRKLIHLKY  532 (876)
Q Consensus       454 ~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~-~i~~L~~Lr~  532 (876)
                      +++.+|..+.  ++++.|++++|.      +..+++..|.++++|++|+|         ++|.+..+|+ .|.+|++|++
T Consensus        42 ~l~~vP~~lp--~~~~~LdLs~N~------i~~l~~~~f~~l~~L~~L~L---------s~N~i~~i~~~~f~~L~~L~~  104 (635)
T 4g8a_A           42 NFYKIPDNLP--FSTKNLDLSFNP------LRHLGSYSFFSFPELQVLDL---------SRCEIQTIEDGAYQSLSHLST  104 (635)
T ss_dssp             CCSSCCSSSC--TTCCEEECTTSC------CCEECTTTTTTCTTCCEEEC---------TTCCCCEECTTTTTTCTTCCE
T ss_pred             CcCccCCCCC--cCCCEEEeeCCC------CCCCCHHHHhCCCCCCEEEC---------CCCcCCCcChhHhcCCCCCCE
Confidence            4566676553  589999998776      45566667999999999999         7888888875 5899999999


Q ss_pred             eeccCccccccch-hhccCCcccEEeecCCCCCccccc-cccCcCCCceEecCCCCCCc-cCCccCCCCCCCCccC
Q 042981          533 LNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPA-GIGKLKKMRSLLNGGTPLLK-YMPIGISKLTSLRTLE  605 (876)
Q Consensus       533 L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~-~~p~~i~~l~~L~~L~  605 (876)
                      |+|++|.|+.+|. .|.+|++|++|+|++|. +..+|. .|+++++|++|++++|.+.. ..|..++.+++|++|.
T Consensus       105 L~Ls~N~l~~l~~~~f~~L~~L~~L~Ls~N~-l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~  179 (635)
T 4g8a_A          105 LILTGNPIQSLALGAFSGLSSLQKLVAVETN-LASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLD  179 (635)
T ss_dssp             EECTTCCCCEECGGGGTTCTTCCEEECTTSC-CCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEE
T ss_pred             EEccCCcCCCCCHHHhcCCCCCCEEECCCCc-CCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhc
Confidence            9999999999986 58999999999999994 555654 58999999999999997754 4677888999999984

>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=99.89  E-value=2.1e-22  Score=219.24  Aligned_cols=286  Identities=19%  Similarity=0.235  Sum_probs=178.8

Q ss_pred             cCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccc
Q 042981          463 HGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIER  542 (876)
Q Consensus       463 ~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~  542 (876)
                      ..+++|++|.+.++..      ..+ +. +..+++|++|++         ++|.+..+|. +..+++|++|++++|.++.
T Consensus        41 ~~l~~L~~L~l~~~~i------~~~-~~-~~~~~~L~~L~l---------~~n~i~~~~~-~~~l~~L~~L~L~~n~i~~  102 (347)
T 4fmz_A           41 EELESITKLVVAGEKV------ASI-QG-IEYLTNLEYLNL---------NGNQITDISP-LSNLVKLTNLYIGTNKITD  102 (347)
T ss_dssp             HHHTTCSEEECCSSCC------CCC-TT-GGGCTTCCEEEC---------CSSCCCCCGG-GTTCTTCCEEECCSSCCCC
T ss_pred             hhcccccEEEEeCCcc------ccc-hh-hhhcCCccEEEc---------cCCccccchh-hhcCCcCCEEEccCCcccC
Confidence            4456666666655441      111 11 455666666666         4455555544 5566666666666666665


Q ss_pred             cchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCcccccc
Q 042981          543 LPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLE  622 (876)
Q Consensus       543 lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~  622 (876)
                      +| .+.++++|++|++++| .+..+|. +..+++|++|++++|.....++ .+..+++|++|                  
T Consensus       103 ~~-~~~~l~~L~~L~l~~n-~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~-~~~~l~~L~~L------------------  160 (347)
T 4fmz_A          103 IS-ALQNLTNLRELYLNED-NISDISP-LANLTKMYSLNLGANHNLSDLS-PLSNMTGLNYL------------------  160 (347)
T ss_dssp             CG-GGTTCTTCSEEECTTS-CCCCCGG-GTTCTTCCEEECTTCTTCCCCG-GGTTCTTCCEE------------------
T ss_pred             ch-HHcCCCcCCEEECcCC-cccCchh-hccCCceeEEECCCCCCccccc-chhhCCCCcEE------------------
Confidence            54 3566666666666665 3444444 5666666666666664333222 13333333333                  


Q ss_pred             ccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCC
Q 042981          623 SLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIF  702 (876)
Q Consensus       623 ~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l  702 (876)
                                 +++++.. ....     .+..+++|+.|++++                               +....+
T Consensus       161 -----------~l~~~~~-~~~~-----~~~~l~~L~~L~l~~-------------------------------n~l~~~  192 (347)
T 4fmz_A          161 -----------TVTESKV-KDVT-----PIANLTDLYSLSLNY-------------------------------NQIEDI  192 (347)
T ss_dssp             -----------ECCSSCC-CCCG-----GGGGCTTCSEEECTT-------------------------------SCCCCC
T ss_pred             -----------EecCCCc-CCch-----hhccCCCCCEEEccC-------------------------------Cccccc
Confidence                       3333111 0000     033445555555544                               444454


Q ss_pred             CchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCccccee
Q 042981          703 PKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSL  781 (876)
Q Consensus       703 p~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L  781 (876)
                      +. +..+++|+.|++++|.+.+..+ ++.++ |+.|++++|......                      .+..+++|+.|
T Consensus       193 ~~-~~~l~~L~~L~l~~n~l~~~~~-~~~~~~L~~L~l~~n~l~~~~----------------------~~~~l~~L~~L  248 (347)
T 4fmz_A          193 SP-LASLTSLHYFTAYVNQITDITP-VANMTRLNSLKIGNNKITDLS----------------------PLANLSQLTWL  248 (347)
T ss_dssp             GG-GGGCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCG----------------------GGTTCTTCCEE
T ss_pred             cc-ccCCCccceeecccCCCCCCch-hhcCCcCCEEEccCCccCCCc----------------------chhcCCCCCEE
Confidence            54 7789999999999998865433 78889 999999998643211                      13478999999


Q ss_pred             eccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcC
Q 042981          782 HIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLS  861 (876)
Q Consensus       782 ~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~  861 (876)
                      +++++ .+...       +.+..+++|+.|++++| .+..+| .+..+++|+.|++++|+.....+.    .+..+|+|+
T Consensus       249 ~l~~n-~l~~~-------~~~~~l~~L~~L~l~~n-~l~~~~-~~~~l~~L~~L~L~~n~l~~~~~~----~l~~l~~L~  314 (347)
T 4fmz_A          249 EIGTN-QISDI-------NAVKDLTKLKMLNVGSN-QISDIS-VLNNLSQLNSLFLNNNQLGNEDME----VIGGLTNLT  314 (347)
T ss_dssp             ECCSS-CCCCC-------GGGTTCTTCCEEECCSS-CCCCCG-GGGGCTTCSEEECCSSCCCGGGHH----HHHTCTTCS
T ss_pred             ECCCC-ccCCC-------hhHhcCCCcCEEEccCC-ccCCCh-hhcCCCCCCEEECcCCcCCCcChh----HhhccccCC
Confidence            99887 44443       34678999999999999 556665 478899999999999976543322    356789999


Q ss_pred             EEEEccCCCCCCCC
Q 042981          862 SLEIEYCPKLNVLP  875 (876)
Q Consensus       862 ~L~i~~c~~L~~lP  875 (876)
                      .|++++|+ ++.+|
T Consensus       315 ~L~L~~n~-l~~~~  327 (347)
T 4fmz_A          315 TLFLSQNH-ITDIR  327 (347)
T ss_dssp             EEECCSSS-CCCCG
T ss_pred             EEEccCCc-ccccc
Confidence            99999995 66654

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.88  E-value=1.9e-21  Score=210.04  Aligned_cols=140  Identities=25%  Similarity=0.299  Sum_probs=101.7

Q ss_pred             ceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc-cc
Q 042981          444 KVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI-PE  522 (876)
Q Consensus       444 ~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l-p~  522 (876)
                      .++.+.++.+.+..+|..+  .++|++|++.++.      ...+++..|..+++|++|++         ++|.+..+ |.
T Consensus        34 ~l~~l~~~~~~l~~ip~~~--~~~l~~L~l~~n~------i~~~~~~~~~~l~~L~~L~L---------~~n~l~~~~~~   96 (332)
T 2ft3_A           34 HLRVVQCSDLGLKAVPKEI--SPDTTLLDLQNND------ISELRKDDFKGLQHLYALVL---------VNNKISKIHEK   96 (332)
T ss_dssp             ETTEEECCSSCCSSCCSCC--CTTCCEEECCSSC------CCEECTTTTTTCTTCCEEEC---------CSSCCCEECGG
T ss_pred             cCCEEECCCCCccccCCCC--CCCCeEEECCCCc------CCccCHhHhhCCCCCcEEEC---------CCCccCccCHh
Confidence            3567777777777777655  3688888887665      23444455788888888888         66666665 56


Q ss_pred             ccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccc-ccccCcCCCceEecCCCCCC--ccCCccCCCCC
Q 042981          523 NVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELP-AGIGKLKKMRSLLNGGTPLL--KYMPIGISKLT  599 (876)
Q Consensus       523 ~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~--~~~p~~i~~l~  599 (876)
                      .++++++|++|+|++|.++.+|..+.  ++|++|++++|. +..+| ..+.++++|++|++++|.+.  +..|..++.+ 
T Consensus        97 ~~~~l~~L~~L~L~~n~l~~l~~~~~--~~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-  172 (332)
T 2ft3_A           97 AFSPLRKLQKLYISKNHLVEIPPNLP--SSLVELRIHDNR-IRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-  172 (332)
T ss_dssp             GSTTCTTCCEEECCSSCCCSCCSSCC--TTCCEEECCSSC-CCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-
T ss_pred             HhhCcCCCCEEECCCCcCCccCcccc--ccCCEEECCCCc-cCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-
Confidence            78888888888888888888887765  788888888884 44454 45788888888888888663  2455556666 


Q ss_pred             CCCcc
Q 042981          600 SLRTL  604 (876)
Q Consensus       600 ~L~~L  604 (876)
                      +|+.|
T Consensus       173 ~L~~L  177 (332)
T 2ft3_A          173 KLNYL  177 (332)
T ss_dssp             CCSCC
T ss_pred             ccCEE
Confidence            66666

>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=99.87  E-value=1.9e-21  Score=209.88  Aligned_cols=141  Identities=21%  Similarity=0.215  Sum_probs=81.7

Q ss_pred             eEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc-ccc
Q 042981          445 VRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI-PEN  523 (876)
Q Consensus       445 lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l-p~~  523 (876)
                      ++.++++.+.+..+|..+.  ++|+.|++.++.      ...++...|..+++|++|+|         ++|.+..+ |..
T Consensus        33 l~~l~~~~~~l~~lp~~~~--~~l~~L~L~~n~------i~~~~~~~~~~l~~L~~L~L---------~~n~l~~~~~~~   95 (330)
T 1xku_A           33 LRVVQCSDLGLEKVPKDLP--PDTALLDLQNNK------ITEIKDGDFKNLKNLHTLIL---------INNKISKISPGA   95 (330)
T ss_dssp             TTEEECTTSCCCSCCCSCC--TTCCEEECCSSC------CCCBCTTTTTTCTTCCEEEC---------CSSCCCCBCTTT
T ss_pred             CeEEEecCCCccccCccCC--CCCeEEECCCCc------CCEeChhhhccCCCCCEEEC---------CCCcCCeeCHHH
Confidence            4455555555555554442  566677765554      22333334666677777777         55555554 556


Q ss_pred             cccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCc--cCCccCCCCCCC
Q 042981          524 VRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLK--YMPIGISKLTSL  601 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~--~~p~~i~~l~~L  601 (876)
                      ++++++|++|+|++|.++.+|..+.  ++|++|++++|......+..+.++++|++|++++|.+..  ..|..++++++|
T Consensus        96 ~~~l~~L~~L~Ls~n~l~~l~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L  173 (330)
T 1xku_A           96 FAPLVKLERLYLSKNQLKELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKL  173 (330)
T ss_dssp             TTTCTTCCEEECCSSCCSBCCSSCC--TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTC
T ss_pred             hcCCCCCCEEECCCCcCCccChhhc--ccccEEECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCc
Confidence            6667777777777777776666554  567777777664333334446667777777777665532  334444445555


Q ss_pred             Ccc
Q 042981          602 RTL  604 (876)
Q Consensus       602 ~~L  604 (876)
                      +.|
T Consensus       174 ~~L  176 (330)
T 1xku_A          174 SYI  176 (330)
T ss_dssp             CEE
T ss_pred             CEE
Confidence            554

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.87  E-value=1.6e-22  Score=215.96  Aligned_cols=246  Identities=21%  Similarity=0.234  Sum_probs=186.4

Q ss_pred             CceEEEEeeecCCCC---CcccccCCCcceEEeeec-CCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccc
Q 042981          443 DKVRHLGLNFEGGAS---FPMSIHGLNRLRTLLIYF-QSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR  518 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~---~~~~~~~~~~Lr~L~l~~-~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~  518 (876)
                      .++++|+++.+.+..   +|..+.++++|++|++.+ +.     +... .+..+.++++|++|+|         ++|.+.
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~-----l~~~-~p~~l~~l~~L~~L~L---------s~n~l~  114 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINN-----LVGP-IPPAIAKLTQLHYLYI---------THTNVS  114 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETT-----EESC-CCGGGGGCTTCSEEEE---------EEECCE
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCc-----cccc-CChhHhcCCCCCEEEC---------cCCeeC
Confidence            578999999988874   688888899999999974 43     2223 3334788889999999         555555


Q ss_pred             -ccccccccCcccCeeeccCcccc-ccchhhccCCcccEEeecCCCCCccccccccCcC-CCceEecCCCCCCccCCccC
Q 042981          519 -EIPENVRKLIHLKYLNLSELCIE-RLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLK-KMRSLLNGGTPLLKYMPIGI  595 (876)
Q Consensus       519 -~lp~~i~~L~~Lr~L~Ls~~~i~-~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~-~L~~L~l~~~~~~~~~p~~i  595 (876)
                       .+|..++++++|++|+|++|.++ .+|..++++++|++|++++|.....+|..+..++ +|++|++++|.+.+.+|..+
T Consensus       115 ~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~  194 (313)
T 1ogq_A          115 GAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTF  194 (313)
T ss_dssp             EECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGG
T ss_pred             CcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHH
Confidence             67888888899999999999888 7888888899999999988865558888888887 88999998887777777777


Q ss_pred             CCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccch
Q 042981          596 SKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRK  675 (876)
Q Consensus       596 ~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~  675 (876)
                      +.++ |+.|          +++.+.+.                       ...+..+..+++|+.|++++|.+...    
T Consensus       195 ~~l~-L~~L----------~Ls~N~l~-----------------------~~~~~~~~~l~~L~~L~L~~N~l~~~----  236 (313)
T 1ogq_A          195 ANLN-LAFV----------DLSRNMLE-----------------------GDASVLFGSDKNTQKIHLAKNSLAFD----  236 (313)
T ss_dssp             GGCC-CSEE----------ECCSSEEE-----------------------ECCGGGCCTTSCCSEEECCSSEECCB----
T ss_pred             hCCc-ccEE----------ECcCCccc-----------------------CcCCHHHhcCCCCCEEECCCCceeee----
Confidence            6665 6655          22233221                       12233456667777777777765321    


Q ss_pred             HHHHHhhCCCCCCccEEEEeecCCC-CCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCc
Q 042981          676 NQQLLEALQPPLNVKELGIVSYGGN-IFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGV  745 (876)
Q Consensus       676 ~~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l  745 (876)
                          ...+..+++|+.|++++|... .+|.++..+++|++|+|++|.+.+.+|..+.++ |+.|++.+|+.+
T Consensus       237 ----~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~~~l~~L~~l~l~~N~~l  304 (313)
T 1ogq_A          237 ----LGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCL  304 (313)
T ss_dssp             ----GGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCCSTTGGGSCGGGTCSSSEE
T ss_pred             ----cCcccccCCCCEEECcCCcccCcCChHHhcCcCCCEEECcCCcccccCCCCccccccChHHhcCCCCc
Confidence                122455678888888887766 679999999999999999999998999999999 999999998744

>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=8.8e-21  Score=204.63  Aligned_cols=147  Identities=14%  Similarity=0.110  Sum_probs=83.5

Q ss_pred             cEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCC-CCCCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCC
Q 042981          690 KELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHF-PPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSS  767 (876)
Q Consensus       690 ~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~l-p~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~  767 (876)
                      +.|++.++....+|..+.  ++|++|++++|.+.+.. ..++.++ |+.|++++|........                 
T Consensus       174 ~~L~l~~n~l~~l~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~-----------------  234 (330)
T 1xku_A          174 SYIRIADTNITTIPQGLP--PSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNG-----------------  234 (330)
T ss_dssp             CEEECCSSCCCSCCSSCC--TTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTT-----------------
T ss_pred             CEEECCCCccccCCcccc--ccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeChh-----------------
Confidence            333333333344444432  56777777777665432 2356666 77777766653332221                 


Q ss_pred             CCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCC-CC------CCCCccEEEEecC
Q 042981          768 SSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDY-LF------QSTTLQKLSISYC  840 (876)
Q Consensus       768 ~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-l~------~l~~L~~L~l~~~  840 (876)
                         .+..+++|+.|+++++ .+..+      +..+..+++|++|++++|+ ++.+|.. +.      ..++|+.|++++|
T Consensus       235 ---~~~~l~~L~~L~L~~N-~l~~l------p~~l~~l~~L~~L~l~~N~-i~~~~~~~f~~~~~~~~~~~l~~l~l~~N  303 (330)
T 1xku_A          235 ---SLANTPHLRELHLNNN-KLVKV------PGGLADHKYIQVVYLHNNN-ISAIGSNDFCPPGYNTKKASYSGVSLFSN  303 (330)
T ss_dssp             ---TGGGSTTCCEEECCSS-CCSSC------CTTTTTCSSCCEEECCSSC-CCCCCTTSSSCSSCCTTSCCCSEEECCSS
T ss_pred             ---hccCCCCCCEEECCCC-cCccC------ChhhccCCCcCEEECCCCc-CCccChhhcCCcccccccccccceEeecC
Confidence               1335777888877776 34422      4456678888888888884 4545432 22      2467888888888


Q ss_pred             CCchhhccccccCCCCCCCcCEEEEccC
Q 042981          841 PIMEELRILEDHRTTDIPRLSSLEIEYC  868 (876)
Q Consensus       841 ~~l~~l~~~~~~~~~~lp~L~~L~i~~c  868 (876)
                      +....  .+....+..+++|+.|+++++
T Consensus       304 ~~~~~--~i~~~~f~~~~~l~~l~L~~N  329 (330)
T 1xku_A          304 PVQYW--EIQPSTFRCVYVRAAVQLGNY  329 (330)
T ss_dssp             SSCGG--GSCGGGGTTCCCGGGEEC---
T ss_pred             ccccc--ccCccccccccceeEEEeccc
Confidence            75421  111124667788888888776

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.86  E-value=2.3e-21  Score=209.29  Aligned_cols=288  Identities=15%  Similarity=0.113  Sum_probs=190.4

Q ss_pred             cceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCccccccccCcC
Q 042981          497 CFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGIGKLK  575 (876)
Q Consensus       497 ~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~  575 (876)
                      +|+++++         +++.+..+|..+.  ++|++|+|++|.++.+| ..+.++++|++|++++|......|..+.+++
T Consensus        34 ~l~~l~~---------~~~~l~~ip~~~~--~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~  102 (332)
T 2ft3_A           34 HLRVVQC---------SDLGLKAVPKEIS--PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLR  102 (332)
T ss_dssp             ETTEEEC---------CSSCCSSCCSCCC--TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCT
T ss_pred             cCCEEEC---------CCCCccccCCCCC--CCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcC
Confidence            6888998         7777888887764  68999999999998775 4789999999999999865555588899999


Q ss_pred             CCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCccc
Q 042981          576 KMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNM  655 (876)
Q Consensus       576 ~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l  655 (876)
                      +|++|++++|.+ ..+|..+.  ++|++|          +++.+.+..+                       ....+.++
T Consensus       103 ~L~~L~L~~n~l-~~l~~~~~--~~L~~L----------~l~~n~i~~~-----------------------~~~~~~~l  146 (332)
T 2ft3_A          103 KLQKLYISKNHL-VEIPPNLP--SSLVEL----------RIHDNRIRKV-----------------------PKGVFSGL  146 (332)
T ss_dssp             TCCEEECCSSCC-CSCCSSCC--TTCCEE----------ECCSSCCCCC-----------------------CSGGGSSC
T ss_pred             CCCEEECCCCcC-CccCcccc--ccCCEE----------ECCCCccCcc-----------------------CHhHhCCC
Confidence            999999999866 46676554  566666          2223322211                       11123445


Q ss_pred             ccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCC-CCCCccc-
Q 042981          656 KNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHF-PPLGKLP-  733 (876)
Q Consensus       656 ~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~l-p~l~~Lp-  733 (876)
                      ++|+.|++++|.+....     .....+... +|+.|++.++....+|..+.  ++|++|+|++|.+.+.. ..++.++ 
T Consensus       147 ~~L~~L~l~~n~l~~~~-----~~~~~~~~l-~L~~L~l~~n~l~~l~~~~~--~~L~~L~l~~n~i~~~~~~~l~~l~~  218 (332)
T 2ft3_A          147 RNMNCIEMGGNPLENSG-----FEPGAFDGL-KLNYLRISEAKLTGIPKDLP--ETLNELHLDHNKIQAIELEDLLRYSK  218 (332)
T ss_dssp             SSCCEEECCSCCCBGGG-----SCTTSSCSC-CCSCCBCCSSBCSSCCSSSC--SSCSCCBCCSSCCCCCCTTSSTTCTT
T ss_pred             ccCCEEECCCCccccCC-----CCcccccCC-ccCEEECcCCCCCccCcccc--CCCCEEECCCCcCCccCHHHhcCCCC
Confidence            55555555555442100     001122222 56666666666666676554  78888999988887644 3577888 


Q ss_pred             CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeee
Q 042981          734 LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTI  813 (876)
Q Consensus       734 L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l  813 (876)
                      |+.|++++|.......                    ..+..+++|+.|+++++ .+..+      +..+..+++|+.|++
T Consensus       219 L~~L~L~~N~l~~~~~--------------------~~~~~l~~L~~L~L~~N-~l~~l------p~~l~~l~~L~~L~l  271 (332)
T 2ft3_A          219 LYRLGLGHNQIRMIEN--------------------GSLSFLPTLRELHLDNN-KLSRV------PAGLPDLKLLQVVYL  271 (332)
T ss_dssp             CSCCBCCSSCCCCCCT--------------------TGGGGCTTCCEEECCSS-CCCBC------CTTGGGCTTCCEEEC
T ss_pred             CCEEECCCCcCCcCCh--------------------hHhhCCCCCCEEECCCC-cCeec------ChhhhcCccCCEEEC
Confidence            8888888875433221                    12446889999988887 45533      445778999999999


Q ss_pred             ccCccCCCCCC-CCCC------CCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCC
Q 042981          814 WYCPRLRVLPD-YLFQ------STTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCP  869 (876)
Q Consensus       814 ~~c~~l~~lp~-~l~~------l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~  869 (876)
                      ++|+ ++.+|. .+..      .++|+.|++++|+....  .+....+..+++|+.|++++|.
T Consensus       272 ~~N~-l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~--~~~~~~~~~l~~L~~l~l~~n~  331 (332)
T 2ft3_A          272 HTNN-ITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYW--EVQPATFRCVTDRLAIQFGNYK  331 (332)
T ss_dssp             CSSC-CCBCCTTSSSCSSCCSSSCCBSEEECCSSSSCGG--GSCGGGGTTBCCSTTEEC----
T ss_pred             CCCC-CCccChhHccccccccccccccceEeecCccccc--ccCcccccccchhhhhhccccc
Confidence            9995 555543 3332      46789999999986421  1112356788999999999885

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.85  E-value=1.5e-21  Score=208.43  Aligned_cols=200  Identities=21%  Similarity=0.252  Sum_probs=134.9

Q ss_pred             CcceEEeeecCCCCCCCCch--hhhHHHhccCCcceEEecCccccccCCCCCccc-ccccccccCcccCeeeccCcccc-
Q 042981          466 NRLRTLLIYFQSPSNPSLNS--SILSELFSKLACFRALVIGQRNFIFDPYPNLIR-EIPENVRKLIHLKYLNLSELCIE-  541 (876)
Q Consensus       466 ~~Lr~L~l~~~~~~~~~~~~--~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~-~lp~~i~~L~~Lr~L~Ls~~~i~-  541 (876)
                      .+++.|++.++.     +.+  .+ +..+.++++|++|++++        .|.+. .+|..++++++|++|+|++|.++ 
T Consensus        50 ~~l~~L~L~~~~-----l~~~~~~-~~~l~~l~~L~~L~L~~--------~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~  115 (313)
T 1ogq_A           50 YRVNNLDLSGLN-----LPKPYPI-PSSLANLPYLNFLYIGG--------INNLVGPIPPAIAKLTQLHYLYITHTNVSG  115 (313)
T ss_dssp             CCEEEEEEECCC-----CSSCEEC-CGGGGGCTTCSEEEEEE--------ETTEESCCCGGGGGCTTCSEEEEEEECCEE
T ss_pred             ceEEEEECCCCC-----ccCCccc-ChhHhCCCCCCeeeCCC--------CCcccccCChhHhcCCCCCEEECcCCeeCC
Confidence            578888887765     222  22 33477888888888831        13333 57888888888888888888887 


Q ss_pred             ccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCC-CCCccCceeecCccCCCcccc
Q 042981          542 RLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLT-SLRTLEKFAMGGGVDDISTCR  620 (876)
Q Consensus       542 ~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~-~L~~L~~~~~~~~~~~ls~~~  620 (876)
                      .+|..++++++|++|++++|.....+|..+..+++|++|++++|.+.+.+|..++.++ +|+.|          +++.+.
T Consensus       116 ~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L----------~L~~N~  185 (313)
T 1ogq_A          116 AIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSM----------TISRNR  185 (313)
T ss_dssp             ECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEE----------ECCSSE
T ss_pred             cCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEE----------ECcCCe
Confidence            7888888888888888888865557888888888888888888877667777776666 66666          222222


Q ss_pred             ccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCC
Q 042981          621 LESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGN  700 (876)
Q Consensus       621 l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~  700 (876)
                      +.                       ...+..+..++ |+.|++++|.+.                              .
T Consensus       186 l~-----------------------~~~~~~~~~l~-L~~L~Ls~N~l~------------------------------~  211 (313)
T 1ogq_A          186 LT-----------------------GKIPPTFANLN-LAFVDLSRNMLE------------------------------G  211 (313)
T ss_dssp             EE-----------------------EECCGGGGGCC-CSEEECCSSEEE------------------------------E
T ss_pred             ee-----------------------ccCChHHhCCc-ccEEECcCCccc------------------------------C
Confidence            21                       11122233443 666666665431                              1


Q ss_pred             CCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCC
Q 042981          701 IFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLY  743 (876)
Q Consensus       701 ~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~  743 (876)
                      ..|..+..+++|+.|+|++|.+.+.+|.++.++ |+.|++++|.
T Consensus       212 ~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~L~Ls~N~  255 (313)
T 1ogq_A          212 DASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNR  255 (313)
T ss_dssp             CCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSC
T ss_pred             cCCHHHhcCCCCCEEECCCCceeeecCcccccCCCCEEECcCCc
Confidence            235666677888888888887766666566566 6666666554

>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=99.84  E-value=3e-23  Score=235.40  Aligned_cols=383  Identities=17%  Similarity=0.090  Sum_probs=253.4

Q ss_pred             CCceEEEEeeecCCCCC--cccccCCCcceEEeeecCCCCCCCCchh---hhHHHhccCCcceEEecCccccccCCCCCc
Q 042981          442 GDKVRHLGLNFEGGASF--PMSIHGLNRLRTLLIYFQSPSNPSLNSS---ILSELFSKLACFRALVIGQRNFIFDPYPNL  516 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~--~~~~~~~~~Lr~L~l~~~~~~~~~~~~~---~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~  516 (876)
                      ++++++|+++.+.+...  ...+..+++|++|++.+|.     +...   .+...+..+++|++|+|         ++|.
T Consensus         2 ~~~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~-----l~~~~~~~l~~~l~~~~~L~~L~L---------s~n~   67 (461)
T 1z7x_W            2 SLDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCG-----LTEARCKDISSALRVNPALAELNL---------RSNE   67 (461)
T ss_dssp             CEEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSC-----CCHHHHHHHHHHHHTCTTCCEEEC---------TTCC
T ss_pred             CccceehhhhhcccCchhHHHHHhhcCCccEEEccCCC-----CCHHHHHHHHHHHHhCCCcCEEeC---------CCCc
Confidence            56789999999887654  2336788999999998776     2221   34556788999999999         5555


Q ss_pred             ccc-ccccc-ccCc----ccCeeeccCcccc-----ccchhhccCCcccEEeecCCCCCcccccccc-----CcCCCceE
Q 042981          517 IRE-IPENV-RKLI----HLKYLNLSELCIE-----RLPKTLCELYNLQKLDIRWCEDLRELPAGIG-----KLKKMRSL  580 (876)
Q Consensus       517 i~~-lp~~i-~~L~----~Lr~L~Ls~~~i~-----~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~-----~L~~L~~L  580 (876)
                      +.. .+..+ ..+.    +|++|+|++|.++     .+|..+.++++|++|++++|......+..+.     ..++|++|
T Consensus        68 l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L  147 (461)
T 1z7x_W           68 LGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKL  147 (461)
T ss_dssp             CHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEE
T ss_pred             CChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEE
Confidence            543 22233 3344    6999999999988     5688899999999999999964333333332     35689999


Q ss_pred             ecCCCCCCcc----CCccCCCCCCCCccCceeecCccCCCccccccc-----cc-----cCCCCCCeeeeCcCCCCCcch
Q 042981          581 LNGGTPLLKY----MPIGISKLTSLRTLEKFAMGGGVDDISTCRLES-----LK-----NLQLLRECGIEGLSNVSHLDE  646 (876)
Q Consensus       581 ~l~~~~~~~~----~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~-----L~-----~L~~L~~L~l~~~~~~~~~~~  646 (876)
                      ++++|.+...    ++..+..+++|++|          +++.+.+..     +.     .+++|+.|+++++.-......
T Consensus       148 ~L~~n~l~~~~~~~l~~~l~~~~~L~~L----------~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~  217 (461)
T 1z7x_W          148 QLEYCSLSAASCEPLASVLRAKPDFKEL----------TVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCR  217 (461)
T ss_dssp             ECTTSCCBGGGHHHHHHHHHHCTTCCEE----------ECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHH
T ss_pred             ECCCCCCCHHHHHHHHHHHhhCCCCCEE----------ECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHH
Confidence            9999977553    35556677888888          444444432     22     256899999988533222222


Q ss_pred             hhhccCcccccCCceEEEeccCCccccchHHHHHh-hCCCCCCccEEEEeecCCCC-----CCchhhcccCCcEEEEecC
Q 042981          647 DERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLE-ALQPPLNVKELGIVSYGGNI-----FPKWLTSLTNLRDLRLKSC  720 (876)
Q Consensus       647 ~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~-~l~~~~~L~~L~l~~~~~~~-----lp~~l~~l~~L~~L~L~~~  720 (876)
                      ..+..+..+++|+.|++++|.+...   ....+.. .....++|+.|+++++....     +|..+..+++|++|+|++|
T Consensus       218 ~l~~~l~~~~~L~~L~Ls~n~l~~~---~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n  294 (461)
T 1z7x_W          218 DLCGIVASKASLRELALGSNKLGDV---GMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGN  294 (461)
T ss_dssp             HHHHHHHHCTTCCEEECCSSBCHHH---HHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTC
T ss_pred             HHHHHHHhCCCccEEeccCCcCChH---HHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCC
Confidence            3455677889999999999976311   1111222 23357899999999998765     5777778999999999999


Q ss_pred             CCCCCCC-CC-----Cccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccc
Q 042981          721 VICEHFP-PL-----GKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWN  793 (876)
Q Consensus       721 ~~~~~lp-~l-----~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~  793 (876)
                      .+.+..+ .+     ...+ |+.|++++|.........+                +..+..+++|++|+++++ .+.+..
T Consensus       295 ~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l----------------~~~l~~~~~L~~L~Ls~n-~i~~~~  357 (461)
T 1z7x_W          295 ELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHF----------------SSVLAQNRFLLELQISNN-RLEDAG  357 (461)
T ss_dssp             CCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHH----------------HHHHHHCSSCCEEECCSS-BCHHHH
T ss_pred             CCchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHH----------------HHHHhhCCCccEEEccCC-cccccc
Confidence            8743211 11     1236 9999999986321110001                112345799999999887 454432


Q ss_pred             cccccccccC-cccccceeeeccCccCC----CCCCCCCCCCCccEEEEecCCCchh-hccccccCCCCCCCcCEEEEcc
Q 042981          794 YRITRKENIS-IMPRLSSLTIWYCPRLR----VLPDYLFQSTTLQKLSISYCPIMEE-LRILEDHRTTDIPRLSSLEIEY  867 (876)
Q Consensus       794 ~~~~~~~~~~-~l~~L~~L~l~~c~~l~----~lp~~l~~l~~L~~L~l~~~~~l~~-l~~~~~~~~~~lp~L~~L~i~~  867 (876)
                      .... ...+. ..++|++|++++|....    .+|..+..+++|++|++++|+.-.. +..+........++|+.|.+.+
T Consensus       358 ~~~l-~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~N~i~~~~~~~l~~~l~~~~~~L~~L~~~~  436 (461)
T 1z7x_W          358 VREL-CQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESVRQPGCLLEQLVLYD  436 (461)
T ss_dssp             HHHH-HHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSCCHHHHHHHHHHHTSTTCCCCEEECTT
T ss_pred             HHHH-HHHHcCCCCceEEEECCCCCCChhhHHHHHHHHHhCCCccEEECCCCCCCHHHHHHHHHHhccCCcchhheeecc
Confidence            1000 01111 26899999999995443    6787788899999999999975432 1111111123345788888877


Q ss_pred             CC
Q 042981          868 CP  869 (876)
Q Consensus       868 c~  869 (876)
                      +.
T Consensus       437 ~~  438 (461)
T 1z7x_W          437 IY  438 (461)
T ss_dssp             CC
T ss_pred             cc
Confidence            63

>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=99.82  E-value=1.7e-20  Score=201.48  Aligned_cols=220  Identities=25%  Similarity=0.336  Sum_probs=135.7

Q ss_pred             CCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP  521 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp  521 (876)
                      ...++.|+++.+.+..+|..+..+++|++|++.+|..      ..++ ..+..+++|++|+|         ++|.+..+|
T Consensus        80 ~~~l~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~l------~~lp-~~~~~l~~L~~L~L---------s~n~l~~lp  143 (328)
T 4fcg_A           80 QPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGL------MELP-DTMQQFAGLETLTL---------ARNPLRALP  143 (328)
T ss_dssp             STTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSCC------CCCC-SCGGGGTTCSEEEE---------ESCCCCCCC
T ss_pred             ccceeEEEccCCCchhcChhhhhCCCCCEEECCCCCc------cchh-HHHhccCCCCEEEC---------CCCccccCc
Confidence            4567788888887777777676677777777765541      1222 23556666666666         555555666


Q ss_pred             cccccCcccCeeeccCcc-ccccchhhcc---------CCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccC
Q 042981          522 ENVRKLIHLKYLNLSELC-IERLPKTLCE---------LYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYM  591 (876)
Q Consensus       522 ~~i~~L~~Lr~L~Ls~~~-i~~lp~~i~~---------L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~  591 (876)
                      ..++++++|++|+|++|. +..+|..++.         +++|++|++++| .+..+|..+.++++|++|++++|.+. .+
T Consensus       144 ~~l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n-~l~~lp~~l~~l~~L~~L~L~~N~l~-~l  221 (328)
T 4fcg_A          144 ASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPASIANLQNLKSLKIRNSPLS-AL  221 (328)
T ss_dssp             GGGGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEE-CCCCCCGGGGGCTTCCEEEEESSCCC-CC
T ss_pred             HHHhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCC-CcCcchHhhcCCCCCCEEEccCCCCC-cC
Confidence            666666666777666654 3456655543         666666666666 34466666666666666666666543 34


Q ss_pred             CccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCcc
Q 042981          592 PIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEE  671 (876)
Q Consensus       592 p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~  671 (876)
                      |..++.+++|++|                             +++++.    .....+..+.++++|+.|++++|..   
T Consensus       222 ~~~l~~l~~L~~L-----------------------------~Ls~n~----~~~~~p~~~~~l~~L~~L~L~~n~~---  265 (328)
T 4fcg_A          222 GPAIHHLPKLEEL-----------------------------DLRGCT----ALRNYPPIFGGRAPLKRLILKDCSN---  265 (328)
T ss_dssp             CGGGGGCTTCCEE-----------------------------ECTTCT----TCCBCCCCTTCCCCCCEEECTTCTT---
T ss_pred             chhhccCCCCCEE-----------------------------ECcCCc----chhhhHHHhcCCCCCCEEECCCCCc---
Confidence            4444444444444                             333311    1112223355556666666655432   


Q ss_pred             ccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCC-CCccc-CceEeecCC
Q 042981          672 GRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPP-LGKLP-LEKLTLYGL  742 (876)
Q Consensus       672 ~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~-l~~Lp-L~~L~L~~~  742 (876)
                                                 ...+|.++..+++|++|+|++|.+.+.+|. ++.++ |+.+.+..+
T Consensus       266 ---------------------------~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~l~l~~~  311 (328)
T 4fcg_A          266 ---------------------------LLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPH  311 (328)
T ss_dssp             ---------------------------CCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCEEECCGG
T ss_pred             ---------------------------hhhcchhhhcCCCCCEEeCCCCCchhhccHHHhhccCceEEeCCHH
Confidence                                       245577888888999999999888887765 77788 888877653

>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=3.1e-20  Score=202.31  Aligned_cols=260  Identities=17%  Similarity=0.183  Sum_probs=146.1

Q ss_pred             CcceEEecCccccccCCCCCccccccc-ccccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCcccccc-cc
Q 042981          496 ACFRALVIGQRNFIFDPYPNLIREIPE-NVRKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAG-IG  572 (876)
Q Consensus       496 ~~Lr~L~L~~~~~~~~~~~~~i~~lp~-~i~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~-i~  572 (876)
                      ++|++|++         ++|.+..+|. .+.++++|++|+|++|.++.++ ..++++++|++|++++| .+..+|.. +.
T Consensus        52 ~~L~~L~l---------~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~  121 (353)
T 2z80_A           52 EAVKSLDL---------SNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYN-YLSNLSSSWFK  121 (353)
T ss_dssp             TTCCEEEC---------TTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCSSCCHHHHT
T ss_pred             ccCcEEEC---------CCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCC-cCCcCCHhHhC
Confidence            46777777         5555566554 5667777777777777776554 35667777777777776 34445544 66


Q ss_pred             CcCCCceEecCCCCCCccCCc--cCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhc
Q 042981          573 KLKKMRSLLNGGTPLLKYMPI--GISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERL  650 (876)
Q Consensus       573 ~L~~L~~L~l~~~~~~~~~p~--~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~  650 (876)
                      ++++|++|++++|.+. .+|.  .++++++|++|                             +++++..   .....+.
T Consensus       122 ~l~~L~~L~L~~n~l~-~l~~~~~~~~l~~L~~L-----------------------------~l~~n~~---~~~~~~~  168 (353)
T 2z80_A          122 PLSSLTFLNLLGNPYK-TLGETSLFSHLTKLQIL-----------------------------RVGNMDT---FTKIQRK  168 (353)
T ss_dssp             TCTTCSEEECTTCCCS-SSCSSCSCTTCTTCCEE-----------------------------EEEESSS---CCEECTT
T ss_pred             CCccCCEEECCCCCCc-ccCchhhhccCCCCcEE-----------------------------ECCCCcc---ccccCHH
Confidence            6777777777776543 3443  34444444444                             3333211   1111123


Q ss_pred             cCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhh-cccCCcEEEEecCCCCCCCCCC
Q 042981          651 GLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLT-SLTNLRDLRLKSCVICEHFPPL  729 (876)
Q Consensus       651 ~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~-~l~~L~~L~L~~~~~~~~lp~l  729 (876)
                      .+.++++|+.|++++|.+...       ....+...++|+.|++.++....+|..+. .+++|+.|+|++|.+.+..+  
T Consensus       169 ~~~~l~~L~~L~l~~n~l~~~-------~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~--  239 (353)
T 2z80_A          169 DFAGLTFLEELEIDASDLQSY-------EPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHF--  239 (353)
T ss_dssp             TTTTCCEEEEEEEEETTCCEE-------CTTTTTTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESCBCTTCCC--
T ss_pred             HccCCCCCCEEECCCCCcCcc-------CHHHHhccccCCeecCCCCccccchhhhhhhcccccEEECCCCccccccc--
Confidence            355666777777777655311       11223334455555555554444444332 35566666666655432110  


Q ss_pred             CcccCceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccc
Q 042981          730 GKLPLEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLS  809 (876)
Q Consensus       730 ~~LpL~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~  809 (876)
                                          ..+.                 .....+.++.+++.++ .+....+. ..+..+..+++|+
T Consensus       240 --------------------~~l~-----------------~~~~~~~l~~l~L~~~-~l~~~~l~-~l~~~l~~l~~L~  280 (353)
T 2z80_A          240 --------------------SELS-----------------TGETNSLIKKFTFRNV-KITDESLF-QVMKLLNQISGLL  280 (353)
T ss_dssp             --------------------C-----------------------CCCCCCEEEEESC-BCCHHHHH-HHHHHHHTCTTCC
T ss_pred             --------------------cccc-----------------cccccchhhccccccc-cccCcchh-hhHHHHhcccCCC
Confidence                                0000                 0112445555655554 23332221 1134566899999


Q ss_pred             eeeeccCccCCCCCCCC-CCCCCccEEEEecCCCchhhc
Q 042981          810 SLTIWYCPRLRVLPDYL-FQSTTLQKLSISYCPIMEELR  847 (876)
Q Consensus       810 ~L~l~~c~~l~~lp~~l-~~l~~L~~L~l~~~~~l~~l~  847 (876)
                      .|++++| .++.+|..+ ..+++|++|++++|+.....+
T Consensus       281 ~L~Ls~N-~l~~i~~~~~~~l~~L~~L~L~~N~~~~~~~  318 (353)
T 2z80_A          281 ELEFSRN-QLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  318 (353)
T ss_dssp             EEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCBCCCHH
T ss_pred             EEECCCC-CCCccCHHHHhcCCCCCEEEeeCCCccCcCC
Confidence            9999999 566888874 789999999999998765543

>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=99.81  E-value=4e-21  Score=225.36  Aligned_cols=383  Identities=15%  Similarity=0.082  Sum_probs=235.1

Q ss_pred             CCceEEEEeeecCCCCC-cccccC-CCc-ceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccc
Q 042981          442 GDKVRHLGLNFEGGASF-PMSIHG-LNR-LRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR  518 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~-~~~~~~-~~~-Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~  518 (876)
                      .+.+++|+++.+.+... +..+.. +++ |++|++.++.    .+.......+...+++|++|+|++|.+.    +....
T Consensus       111 ~~~L~~L~L~~~~i~~~~~~~l~~~~~~~L~~L~L~~~~----~~~~~~l~~~~~~~~~L~~L~L~~~~~~----~~~~~  182 (592)
T 3ogk_B          111 LRQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCS----GFTTDGLLSIVTHCRKIKTLLMEESSFS----EKDGK  182 (592)
T ss_dssp             CTTCCEEEEESCBCCHHHHHHHHHHHGGGCCEEEEESCE----EEEHHHHHHHHHHCTTCSEEECTTCEEE----CCCSH
T ss_pred             CCCCCeEEeeccEecHHHHHHHHHhccccCcEEECcCCC----CcCHHHHHHHHhhCCCCCEEECcccccc----Ccchh
Confidence            45688889988765432 333333 334 9999997664    1233334555678999999999544431    10111


Q ss_pred             ccccccccCcccCeeeccCcccc-----ccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCC---cc
Q 042981          519 EIPENVRKLIHLKYLNLSELCIE-----RLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLL---KY  590 (876)
Q Consensus       519 ~lp~~i~~L~~Lr~L~Ls~~~i~-----~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~---~~  590 (876)
                      .++..+..+++|++|+|++|.++     .++..+.++++|++|++++| ....+|..+.++++|++|+++++...   ..
T Consensus       183 ~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~-~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~  261 (592)
T 3ogk_B          183 WLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDF-EILELVGFFKAAANLEEFCGGSLNEDIGMPE  261 (592)
T ss_dssp             HHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSC-BGGGGHHHHHHCTTCCEEEECBCCCCTTCTT
T ss_pred             HHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCc-cHHHHHHHHhhhhHHHhhcccccccccchHH
Confidence            13334467889999999999886     55666778999999999998 56668888899999999999754322   22


Q ss_pred             CCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCc
Q 042981          591 MPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGE  670 (876)
Q Consensus       591 ~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~  670 (876)
                      .+..++.+++|+.|....+..      ......+..+++|+.|+++++. +.  .......+..+++|+.|+++ +... 
T Consensus       262 ~~~~l~~~~~L~~L~l~~~~~------~~l~~~~~~~~~L~~L~Ls~~~-l~--~~~~~~~~~~~~~L~~L~L~-~~~~-  330 (592)
T 3ogk_B          262 KYMNLVFPRKLCRLGLSYMGP------NEMPILFPFAAQIRKLDLLYAL-LE--TEDHCTLIQKCPNLEVLETR-NVIG-  330 (592)
T ss_dssp             SSSCCCCCTTCCEEEETTCCT------TTGGGGGGGGGGCCEEEETTCC-CC--HHHHHHHHTTCTTCCEEEEE-GGGH-
T ss_pred             HHHHhhccccccccCccccch------hHHHHHHhhcCCCcEEecCCCc-CC--HHHHHHHHHhCcCCCEEecc-CccC-
Confidence            334566667777663222110      1122234567889999998854 21  12222346788999999998 3321 


Q ss_pred             cccchHHHHHhhCCCCCCccEEEEee----------cCCCC---CCchhhcccCCcEEEEecCCCCCC-CCCCCc-cc-C
Q 042981          671 EGRRKNQQLLEALQPPLNVKELGIVS----------YGGNI---FPKWLTSLTNLRDLRLKSCVICEH-FPPLGK-LP-L  734 (876)
Q Consensus       671 ~~~~~~~~~~~~l~~~~~L~~L~l~~----------~~~~~---lp~~l~~l~~L~~L~L~~~~~~~~-lp~l~~-Lp-L  734 (876)
                           ..........+++|++|++.+          +....   ++.....+++|++|+++.+.+.+. +..++. +| |
T Consensus       331 -----~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~~L  405 (592)
T 3ogk_B          331 -----DRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKNL  405 (592)
T ss_dssp             -----HHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEESCCCHHHHHHHHHHCCSC
T ss_pred             -----HHHHHHHHHhCCCCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeecCCccHHHHHHHHhhCCCC
Confidence                 122222223457899999984          22111   122234689999999987777542 233444 77 9


Q ss_pred             ceEeecCCC---CceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeecccccc-ccccccccccccccCcccccce
Q 042981          735 EKLTLYGLY---GVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEE-LEEWNYRITRKENISIMPRLSS  810 (876)
Q Consensus       735 ~~L~L~~~~---~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~-L~~~~~~~~~~~~~~~l~~L~~  810 (876)
                      +.|++..+.   .+...+..              ..++..+..+++|+.|+++.|.+ +.+..+    ......+++|+.
T Consensus       406 ~~L~l~~~~~~n~l~~~p~~--------------~~~~~~~~~~~~L~~L~L~~~~~~l~~~~~----~~~~~~~~~L~~  467 (592)
T 3ogk_B          406 CDFRLVLLDREERITDLPLD--------------NGVRSLLIGCKKLRRFAFYLRQGGLTDLGL----SYIGQYSPNVRW  467 (592)
T ss_dssp             CEEEEEECSCCSCCSSCCCH--------------HHHHHHHHHCTTCCEEEEECCGGGCCHHHH----HHHHHSCTTCCE
T ss_pred             cEEEEeecCCCccccCchHH--------------HHHHHHHHhCCCCCEEEEecCCCCccHHHH----HHHHHhCccceE
Confidence            999997543   22111000              00011134588999999876543 232222    111234788999


Q ss_pred             eeeccCccCC-CCCCCCCCCCCccEEEEecCCCchh-hccccccCCCCCCCcCEEEEccCCCCC
Q 042981          811 LTIWYCPRLR-VLPDYLFQSTTLQKLSISYCPIMEE-LRILEDHRTTDIPRLSSLEIEYCPKLN  872 (876)
Q Consensus       811 L~l~~c~~l~-~lp~~l~~l~~L~~L~l~~~~~l~~-l~~~~~~~~~~lp~L~~L~i~~c~~L~  872 (876)
                      |+|++|.... .++..+..+++|++|+|++|+.... ++.    ....+|+|+.|++++|+ ++
T Consensus       468 L~L~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~----~~~~l~~L~~L~ls~n~-it  526 (592)
T 3ogk_B          468 MLLGYVGESDEGLMEFSRGCPNLQKLEMRGCCFSERAIAA----AVTKLPSLRYLWVQGYR-AS  526 (592)
T ss_dssp             EEECSCCSSHHHHHHHHTCCTTCCEEEEESCCCBHHHHHH----HHHHCSSCCEEEEESCB-CC
T ss_pred             eeccCCCCCHHHHHHHHhcCcccCeeeccCCCCcHHHHHH----HHHhcCccCeeECcCCc-CC
Confidence            9999885433 3455556788999999999983211 211    23467899999999986 54

>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=99.81  E-value=2.7e-22  Score=227.51  Aligned_cols=353  Identities=18%  Similarity=0.111  Sum_probs=225.9

Q ss_pred             CCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccc-----ccccccccCcccCeeeccCcc
Q 042981          465 LNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR-----EIPENVRKLIHLKYLNLSELC  539 (876)
Q Consensus       465 ~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~-----~lp~~i~~L~~Lr~L~Ls~~~  539 (876)
                      .++|++|++.++.     +.......++..+++|++|+|         ++|.+.     .++..+..+++|++|+|++|.
T Consensus         2 ~~~l~~L~Ls~~~-----l~~~~~~~~~~~~~~L~~L~L---------~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~   67 (461)
T 1z7x_W            2 SLDIQSLDIQCEE-----LSDARWAELLPLLQQCQVVRL---------DDCGLTEARCKDISSALRVNPALAELNLRSNE   67 (461)
T ss_dssp             CEEEEEEEEESCC-----CCHHHHHHHHHHHTTCSEEEE---------ESSCCCHHHHHHHHHHHHTCTTCCEEECTTCC
T ss_pred             Cccceehhhhhcc-----cCchhHHHHHhhcCCccEEEc---------cCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCc
Confidence            3678999997665     334445566889999999999         555444     567788889999999999999


Q ss_pred             ccc-cchhh-ccCC----cccEEeecCCCCCc----cccccccCcCCCceEecCCCCCCccCCccC-----CCCCCCCcc
Q 042981          540 IER-LPKTL-CELY----NLQKLDIRWCEDLR----ELPAGIGKLKKMRSLLNGGTPLLKYMPIGI-----SKLTSLRTL  604 (876)
Q Consensus       540 i~~-lp~~i-~~L~----~L~~L~L~~~~~l~----~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i-----~~l~~L~~L  604 (876)
                      +.. .+..+ ..+.    +|++|++++|....    .+|..+.++++|++|++++|.+....+..+     ...++|++|
T Consensus        68 l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L  147 (461)
T 1z7x_W           68 LGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKL  147 (461)
T ss_dssp             CHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEE
T ss_pred             CChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEE
Confidence            874 23333 3455    79999999995442    568889999999999999997644333222     235567777


Q ss_pred             CceeecCccCCCcccccc---------ccccCCCCCCeeeeCcCCCCCcchhhhccCc-----ccccCCceEEEeccCCc
Q 042981          605 EKFAMGGGVDDISTCRLE---------SLKNLQLLRECGIEGLSNVSHLDEDERLGLH-----NMKNLLRLSLEFDEEGE  670 (876)
Q Consensus       605 ~~~~~~~~~~~ls~~~l~---------~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~-----~l~~L~~L~L~~~~~~~  670 (876)
                                +++.+.+.         .+..+++|+.|+++++.    +.......+.     ..++|+.|++++|.+..
T Consensus       148 ----------~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~----i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~  213 (461)
T 1z7x_W          148 ----------QLEYCSLSAASCEPLASVLRAKPDFKELTVSNND----INEAGVRVLCQGLKDSPCQLEALKLESCGVTS  213 (461)
T ss_dssp             ----------ECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSB----CHHHHHHHHHHHHHHSCCCCCEEECTTSCCBT
T ss_pred             ----------ECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCC----cchHHHHHHHHHHhcCCCCceEEEccCCCCcH
Confidence                      33333333         24556888888888742    2222222221     24588888888887642


Q ss_pred             cccchHHHHHhhCCCCCCccEEEEeecCCCCC------CchhhcccCCcEEEEecCCCCCC----CC-CCCccc-CceEe
Q 042981          671 EGRRKNQQLLEALQPPLNVKELGIVSYGGNIF------PKWLTSLTNLRDLRLKSCVICEH----FP-PLGKLP-LEKLT  738 (876)
Q Consensus       671 ~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l------p~~l~~l~~L~~L~L~~~~~~~~----lp-~l~~Lp-L~~L~  738 (876)
                      ..   ...+...+..+++|+.|+++++.....      +.....+++|++|+|++|.+...    ++ .+..++ |+.|+
T Consensus       214 ~~---~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~  290 (461)
T 1z7x_W          214 DN---CRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELS  290 (461)
T ss_dssp             TH---HHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEE
T ss_pred             HH---HHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEE
Confidence            21   122334444567888888888764331      12222578899999998877542    22 245577 88888


Q ss_pred             ecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCcc
Q 042981          739 LYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPR  818 (876)
Q Consensus       739 L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~  818 (876)
                      +++|..-......+...               .....++|+.|++++|. +...... ..+..+..+++|++|++++|..
T Consensus       291 Ls~n~i~~~~~~~l~~~---------------l~~~~~~L~~L~L~~n~-l~~~~~~-~l~~~l~~~~~L~~L~Ls~n~i  353 (461)
T 1z7x_W          291 LAGNELGDEGARLLCET---------------LLEPGCQLESLWVKSCS-FTAACCS-HFSSVLAQNRFLLELQISNNRL  353 (461)
T ss_dssp             CTTCCCHHHHHHHHHHH---------------HTSTTCCCCEEECTTSC-CBGGGHH-HHHHHHHHCSSCCEEECCSSBC
T ss_pred             CCCCCCchHHHHHHHHH---------------hccCCccceeeEcCCCC-CchHHHH-HHHHHHhhCCCccEEEccCCcc
Confidence            88875322111111110               00124699999998883 4432110 0123445679999999999954


Q ss_pred             CCCCC----CCCCC-CCCccEEEEecCCCch----hhccccccCCCCCCCcCEEEEccCC
Q 042981          819 LRVLP----DYLFQ-STTLQKLSISYCPIME----ELRILEDHRTTDIPRLSSLEIEYCP  869 (876)
Q Consensus       819 l~~lp----~~l~~-l~~L~~L~l~~~~~l~----~l~~~~~~~~~~lp~L~~L~i~~c~  869 (876)
                      ....+    ..+.. .++|++|++++|..-.    .++.    .+..+|+|++|++++|+
T Consensus       354 ~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~----~l~~~~~L~~L~l~~N~  409 (461)
T 1z7x_W          354 EDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAA----TLLANHSLRELDLSNNC  409 (461)
T ss_dssp             HHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHH----HHHHCCCCCEEECCSSS
T ss_pred             ccccHHHHHHHHcCCCCceEEEECCCCCCChhhHHHHHH----HHHhCCCccEEECCCCC
Confidence            33222    22222 6799999999997543    3322    34568999999999984

>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=99.80  E-value=8.8e-20  Score=198.70  Aligned_cols=248  Identities=16%  Similarity=0.141  Sum_probs=114.6

Q ss_pred             ceEEEEeeecCCCCCcc-cccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccc
Q 042981          444 KVRHLGLNFEGGASFPM-SIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPE  522 (876)
Q Consensus       444 ~lr~L~l~~~~~~~~~~-~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~  522 (876)
                      .+++|+++.|.+..++. .+.++++|++|++.+|.      ...+.+..|..+++|++|++         ++|.+..+|.
T Consensus        53 ~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~------l~~~~~~~~~~l~~L~~L~L---------s~n~l~~~~~  117 (353)
T 2z80_A           53 AVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNG------INTIEEDSFSSLGSLEHLDL---------SYNYLSNLSS  117 (353)
T ss_dssp             TCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSC------CCEECTTTTTTCTTCCEEEC---------CSSCCSSCCH
T ss_pred             cCcEEECCCCcCcccCHHHhccCCCCCEEECCCCc------cCccCHhhcCCCCCCCEEEC---------CCCcCCcCCH
Confidence            44444444444444322 34444444544444332      11222223444444444444         3334444443


Q ss_pred             c-cccCcccCeeeccCccccccch--hhccCCcccEEeecCCCCCccc-cccccCcCCCceEecCCCCCCccCCccCCCC
Q 042981          523 N-VRKLIHLKYLNLSELCIERLPK--TLCELYNLQKLDIRWCEDLREL-PAGIGKLKKMRSLLNGGTPLLKYMPIGISKL  598 (876)
Q Consensus       523 ~-i~~L~~Lr~L~Ls~~~i~~lp~--~i~~L~~L~~L~L~~~~~l~~l-p~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l  598 (876)
                      . ++++++|++|+|++|.++.+|.  .+.++++|++|++++|..+..+ |..+.++++|++|++++|.+.+..|..++. 
T Consensus       118 ~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~-  196 (353)
T 2z80_A          118 SWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKS-  196 (353)
T ss_dssp             HHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTT-
T ss_pred             hHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHHhc-
Confidence            3 3444445555554444444443  3444444555554444222222 233444444444444444443333444444 


Q ss_pred             CCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHH
Q 042981          599 TSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQ  678 (876)
Q Consensus       599 ~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~  678 (876)
                                                  +++|+.|++++..    +.......+..+++|+.|++++|.+.......   
T Consensus       197 ----------------------------l~~L~~L~l~~n~----l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~---  241 (353)
T 2z80_A          197 ----------------------------IQNVSHLILHMKQ----HILLLEIFVDVTSSVECLELRDTDLDTFHFSE---  241 (353)
T ss_dssp             ----------------------------CSEEEEEEEECSC----STTHHHHHHHHTTTEEEEEEESCBCTTCCCC----
T ss_pred             ----------------------------cccCCeecCCCCc----cccchhhhhhhcccccEEECCCCccccccccc---
Confidence                                        4444455554421    11111112334556666666666553211110   


Q ss_pred             HHhhCCCCCCccEEEEeecCCC-----CCCchhhcccCCcEEEEecCCCCCCCCC--CCccc-CceEeecCCCC
Q 042981          679 LLEALQPPLNVKELGIVSYGGN-----IFPKWLTSLTNLRDLRLKSCVICEHFPP--LGKLP-LEKLTLYGLYG  744 (876)
Q Consensus       679 ~~~~l~~~~~L~~L~l~~~~~~-----~lp~~l~~l~~L~~L~L~~~~~~~~lp~--l~~Lp-L~~L~L~~~~~  744 (876)
                       +........++.+++.++...     .+|.++..+++|+.|+|++|.+.. +|.  ++.++ |+.|++++|+.
T Consensus       242 -l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N~l~~-i~~~~~~~l~~L~~L~L~~N~~  313 (353)
T 2z80_A          242 -LSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQLKS-VPDGIFDRLTSLQKIWLHTNPW  313 (353)
T ss_dssp             ------CCCCCCEEEEESCBCCHHHHHHHHHHHHTCTTCCEEECCSSCCCC-CCTTTTTTCTTCCEEECCSSCB
T ss_pred             -cccccccchhhccccccccccCcchhhhHHHHhcccCCCEEECCCCCCCc-cCHHHHhcCCCCCEEEeeCCCc
Confidence             111122344555555554432     246666677777777777777653 333  46677 77777777653

>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=2e-18  Score=199.57  Aligned_cols=258  Identities=19%  Similarity=0.186  Sum_probs=153.8

Q ss_pred             cceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCC
Q 042981          497 CFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKK  576 (876)
Q Consensus       497 ~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~  576 (876)
                      .+++|++         +++.+..+|..+.  ++|++|+|++|.|+.+|.   .+++|++|+|++| .+..+|.   .+++
T Consensus        41 ~l~~L~l---------s~n~L~~lp~~l~--~~L~~L~L~~N~l~~lp~---~l~~L~~L~Ls~N-~l~~lp~---~l~~  102 (622)
T 3g06_A           41 GNAVLNV---------GESGLTTLPDCLP--AHITTLVIPDNNLTSLPA---LPPELRTLEVSGN-QLTSLPV---LPPG  102 (622)
T ss_dssp             CCCEEEC---------CSSCCSCCCSCCC--TTCSEEEECSCCCSCCCC---CCTTCCEEEECSC-CCSCCCC---CCTT
T ss_pred             CCcEEEe---------cCCCcCccChhhC--CCCcEEEecCCCCCCCCC---cCCCCCEEEcCCC-cCCcCCC---CCCC
Confidence            3566666         5555555665544  566666666666666665   4566666666666 3445554   4566


Q ss_pred             CceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCcccccccccc-CCCCCCeeeeCcCCCCCcchhhhccCccc
Q 042981          577 MRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKN-LQLLRECGIEGLSNVSHLDEDERLGLHNM  655 (876)
Q Consensus       577 L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~-L~~L~~L~l~~~~~~~~~~~~~~~~l~~l  655 (876)
                      |++|++++|.+ ..+|.   .+++|+.|          +++.|.+..++. +++|+.|+++++.. ..++       ...
T Consensus       103 L~~L~Ls~N~l-~~l~~---~l~~L~~L----------~L~~N~l~~lp~~l~~L~~L~Ls~N~l-~~l~-------~~~  160 (622)
T 3g06_A          103 LLELSIFSNPL-THLPA---LPSGLCKL----------WIFGNQLTSLPVLPPGLQELSVSDNQL-ASLP-------ALP  160 (622)
T ss_dssp             CCEEEECSCCC-CCCCC---CCTTCCEE----------ECCSSCCSCCCCCCTTCCEEECCSSCC-SCCC-------CCC
T ss_pred             CCEEECcCCcC-CCCCC---CCCCcCEE----------ECCCCCCCcCCCCCCCCCEEECcCCcC-CCcC-------Ccc
Confidence            66666666644 33443   34445555          222333333321 24555555555311 1111       123


Q ss_pred             ccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-C
Q 042981          656 KNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-L  734 (876)
Q Consensus       656 ~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L  734 (876)
                      .+|+.|++++|.+....           ..+++|+.|++++|....+|..   +++|+.|++++|.+. .+|.  .++ |
T Consensus       161 ~~L~~L~L~~N~l~~l~-----------~~~~~L~~L~Ls~N~l~~l~~~---~~~L~~L~L~~N~l~-~l~~--~~~~L  223 (622)
T 3g06_A          161 SELCKLWAYNNQLTSLP-----------MLPSGLQELSVSDNQLASLPTL---PSELYKLWAYNNRLT-SLPA--LPSGL  223 (622)
T ss_dssp             TTCCEEECCSSCCSCCC-----------CCCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCCS-SCCC--CCTTC
T ss_pred             CCCCEEECCCCCCCCCc-----------ccCCCCcEEECCCCCCCCCCCc---cchhhEEECcCCccc-ccCC--CCCCC
Confidence            56777777777653211           2346788888887777776653   467888888888765 3442  246 8


Q ss_pred             ceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeec
Q 042981          735 EKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIW  814 (876)
Q Consensus       735 ~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~  814 (876)
                      +.|++++|.... ++                       ..+++|+.|+++++ .+..+      +.   .+++|+.|+++
T Consensus       224 ~~L~Ls~N~L~~-lp-----------------------~~l~~L~~L~Ls~N-~L~~l------p~---~~~~L~~L~Ls  269 (622)
T 3g06_A          224 KELIVSGNRLTS-LP-----------------------VLPSELKELMVSGN-RLTSL------PM---LPSGLLSLSVY  269 (622)
T ss_dssp             CEEECCSSCCSC-CC-----------------------CCCTTCCEEECCSS-CCSCC------CC---CCTTCCEEECC
T ss_pred             CEEEccCCccCc-CC-----------------------CCCCcCcEEECCCC-CCCcC------Cc---ccccCcEEeCC
Confidence            888887764321 11                       24678888888776 44432      22   56888888888


Q ss_pred             cCccCCCCCCCCCCCCCccEEEEecCCCchhh
Q 042981          815 YCPRLRVLPDYLFQSTTLQKLSISYCPIMEEL  846 (876)
Q Consensus       815 ~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l  846 (876)
                      +| .++.+|..+.++++|+.|+|++|+.....
T Consensus       270 ~N-~L~~lp~~l~~l~~L~~L~L~~N~l~~~~  300 (622)
T 3g06_A          270 RN-QLTRLPESLIHLSSETTVNLEGNPLSERT  300 (622)
T ss_dssp             SS-CCCSCCGGGGGSCTTCEEECCSCCCCHHH
T ss_pred             CC-CCCcCCHHHhhccccCEEEecCCCCCCcC
Confidence            88 55678888888888888888888865443

>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=99.79  E-value=3.9e-19  Score=189.46  Aligned_cols=239  Identities=19%  Similarity=0.128  Sum_probs=120.0

Q ss_pred             EEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc---cccc
Q 042981          448 LGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI---PENV  524 (876)
Q Consensus       448 L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l---p~~i  524 (876)
                      +....+.+..+|..+.  ++|++|++.++.      ...++..+|.++++|++|+|         ++|.+..+   |..+
T Consensus        12 l~c~~~~l~~ip~~~~--~~l~~L~L~~n~------l~~i~~~~~~~l~~L~~L~L---------~~n~l~~~~~~~~~~   74 (306)
T 2z66_A           12 IRCNSKGLTSVPTGIP--SSATRLELESNK------LQSLPHGVFDKLTQLTKLSL---------SSNGLSFKGCCSQSD   74 (306)
T ss_dssp             EECCSSCCSSCCSCCC--TTCCEEECCSSC------CCCCCTTTTTTCTTCSEEEC---------CSSCCCEEEEEEHHH
T ss_pred             EEcCCCCcccCCCCCC--CCCCEEECCCCc------cCccCHhHhhccccCCEEEC---------CCCccCcccCccccc
Confidence            3344444444444332  455566655443      12333344555566666666         33333322   3444


Q ss_pred             ccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccc--ccccCcCCCceEecCCCCCCccCCccCCCCCCCC
Q 042981          525 RKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELP--AGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLR  602 (876)
Q Consensus       525 ~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp--~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~  602 (876)
                      ..+++|++|+|++|.++.+|..+.++++|++|++++| .+..+|  ..+..+++|++|++++|.+....|..++.+++|+
T Consensus        75 ~~~~~L~~L~Ls~n~i~~l~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~  153 (306)
T 2z66_A           75 FGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLE  153 (306)
T ss_dssp             HSCSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTS-EEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCC
T ss_pred             ccccccCEEECCCCccccChhhcCCCCCCCEEECCCC-cccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCC
Confidence            4555666666666666655555556666666666655 233333  2455566666666666555444444455555555


Q ss_pred             ccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhh
Q 042981          603 TLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEA  682 (876)
Q Consensus       603 ~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~  682 (876)
                      +|          +++++.+..                      ...+..+..+++|+.|++++|.+....       ...
T Consensus       154 ~L----------~l~~n~l~~----------------------~~~~~~~~~l~~L~~L~Ls~n~l~~~~-------~~~  194 (306)
T 2z66_A          154 VL----------KMAGNSFQE----------------------NFLPDIFTELRNLTFLDLSQCQLEQLS-------PTA  194 (306)
T ss_dssp             EE----------ECTTCEEGG----------------------GEECSCCTTCTTCCEEECTTSCCCEEC-------TTT
T ss_pred             EE----------ECCCCcccc----------------------ccchhHHhhCcCCCEEECCCCCcCCcC-------HHH
Confidence            55          222222111                      001111223333333333333321100       012


Q ss_pred             CCCCCCccEEEEeecCCCCCCc-hhhcccCCcEEEEecCCCCCCCC-CCCccc--CceEeecCCC
Q 042981          683 LQPPLNVKELGIVSYGGNIFPK-WLTSLTNLRDLRLKSCVICEHFP-PLGKLP--LEKLTLYGLY  743 (876)
Q Consensus       683 l~~~~~L~~L~l~~~~~~~lp~-~l~~l~~L~~L~L~~~~~~~~lp-~l~~Lp--L~~L~L~~~~  743 (876)
                      +...++|+.|+++++....++. .+..+++|++|+|++|.+.+..| .+..+|  |+.|+|++|+
T Consensus       195 ~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          195 FNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             TTTCTTCCEEECTTSCCSBCCSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEECTTCC
T ss_pred             hcCCCCCCEEECCCCccCccChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEEccCCC
Confidence            2233444444444444444443 56678899999999998877544 466674  8899988875

>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=99.78  E-value=3.4e-18  Score=197.61  Aligned_cols=262  Identities=18%  Similarity=0.109  Sum_probs=188.7

Q ss_pred             ceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccc
Q 042981          444 KVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPEN  523 (876)
Q Consensus       444 ~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~  523 (876)
                      .++.++++.+.+..+|..+.  ++|++|++.+|..      ..++.    .+++|++|+|         ++|.+..+|. 
T Consensus        41 ~l~~L~ls~n~L~~lp~~l~--~~L~~L~L~~N~l------~~lp~----~l~~L~~L~L---------s~N~l~~lp~-   98 (622)
T 3g06_A           41 GNAVLNVGESGLTTLPDCLP--AHITTLVIPDNNL------TSLPA----LPPELRTLEV---------SGNQLTSLPV-   98 (622)
T ss_dssp             CCCEEECCSSCCSCCCSCCC--TTCSEEEECSCCC------SCCCC----CCTTCCEEEE---------CSCCCSCCCC-
T ss_pred             CCcEEEecCCCcCccChhhC--CCCcEEEecCCCC------CCCCC----cCCCCCEEEc---------CCCcCCcCCC-
Confidence            47889999999988887665  8999999987752      22222    5789999999         7777778887 


Q ss_pred             cccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCc
Q 042981          524 VRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRT  603 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~  603 (876)
                        .+++|++|+|++|.++.+|.   .+.+|++|++++| .+..+|..   +++|++|++++|.+ ..+|..   +.+|+.
T Consensus        99 --~l~~L~~L~Ls~N~l~~l~~---~l~~L~~L~L~~N-~l~~lp~~---l~~L~~L~Ls~N~l-~~l~~~---~~~L~~  165 (622)
T 3g06_A           99 --LPPGLLELSIFSNPLTHLPA---LPSGLCKLWIFGN-QLTSLPVL---PPGLQELSVSDNQL-ASLPAL---PSELCK  165 (622)
T ss_dssp             --CCTTCCEEEECSCCCCCCCC---CCTTCCEEECCSS-CCSCCCCC---CTTCCEEECCSSCC-SCCCCC---CTTCCE
T ss_pred             --CCCCCCEEECcCCcCCCCCC---CCCCcCEEECCCC-CCCcCCCC---CCCCCEEECcCCcC-CCcCCc---cCCCCE
Confidence              67899999999999999987   6789999999998 57778874   48899999999966 445543   344555


Q ss_pred             cCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhC
Q 042981          604 LEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEAL  683 (876)
Q Consensus       604 L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l  683 (876)
                      |          +++.+.+..++                           ..+++|+.|++++|.+....           
T Consensus       166 L----------~L~~N~l~~l~---------------------------~~~~~L~~L~Ls~N~l~~l~-----------  197 (622)
T 3g06_A          166 L----------WAYNNQLTSLP---------------------------MLPSGLQELSVSDNQLASLP-----------  197 (622)
T ss_dssp             E----------ECCSSCCSCCC---------------------------CCCTTCCEEECCSSCCSCCC-----------
T ss_pred             E----------ECCCCCCCCCc---------------------------ccCCCCcEEECCCCCCCCCC-----------
Confidence            5          22233322221                           12356677777776653211           


Q ss_pred             CCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCC
Q 042981          684 QPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDD  762 (876)
Q Consensus       684 ~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~  762 (876)
                      ..+++|+.|.+.+|....+|..   +++|+.|+|++|.+.+ +|  ..++ |+.|+|++|... .++             
T Consensus       198 ~~~~~L~~L~L~~N~l~~l~~~---~~~L~~L~Ls~N~L~~-lp--~~l~~L~~L~Ls~N~L~-~lp-------------  257 (622)
T 3g06_A          198 TLPSELYKLWAYNNRLTSLPAL---PSGLKELIVSGNRLTS-LP--VLPSELKELMVSGNRLT-SLP-------------  257 (622)
T ss_dssp             CCCTTCCEEECCSSCCSSCCCC---CTTCCEEECCSSCCSC-CC--CCCTTCCEEECCSSCCS-CCC-------------
T ss_pred             CccchhhEEECcCCcccccCCC---CCCCCEEEccCCccCc-CC--CCCCcCcEEECCCCCCC-cCC-------------
Confidence            1235788888888887777763   5889999999998865 55  4567 999999987532 111             


Q ss_pred             CCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCC
Q 042981          763 PSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDY  825 (876)
Q Consensus       763 ~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~  825 (876)
                             .   .+++|+.|++++| .+..+      |..+..+++|+.|+|++|+.....|..
T Consensus       258 -------~---~~~~L~~L~Ls~N-~L~~l------p~~l~~l~~L~~L~L~~N~l~~~~~~~  303 (622)
T 3g06_A          258 -------M---LPSGLLSLSVYRN-QLTRL------PESLIHLSSETTVNLEGNPLSERTLQA  303 (622)
T ss_dssp             -------C---CCTTCCEEECCSS-CCCSC------CGGGGGSCTTCEEECCSCCCCHHHHHH
T ss_pred             -------c---ccccCcEEeCCCC-CCCcC------CHHHhhccccCEEEecCCCCCCcCHHH
Confidence                   1   4789999999887 45533      556789999999999999766555543

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.78  E-value=3.2e-18  Score=192.23  Aligned_cols=237  Identities=20%  Similarity=0.230  Sum_probs=135.6

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYM  591 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~  591 (876)
                      .+..+..+|..+.  .+|++|+|++|.|+.++ ..+.++++|++|+|++|......|..|.++++|++|++++|.+....
T Consensus        51 ~~~~l~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~  128 (440)
T 3zyj_A           51 VRKNLREVPDGIS--TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIP  128 (440)
T ss_dssp             CSCCCSSCCSCCC--TTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSCC
T ss_pred             CCCCcCcCCCCCC--CCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCeeC
Confidence            4555566665554  46666677666666554 45666666777777666433333455666666777776666553332


Q ss_pred             CccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCcc
Q 042981          592 PIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEE  671 (876)
Q Consensus       592 p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~  671 (876)
                      +..+..+++|++|          +++.+.+..+.                       ...+.++++|+.|+++.|..   
T Consensus       129 ~~~~~~l~~L~~L----------~L~~N~i~~~~-----------------------~~~~~~l~~L~~L~l~~~~~---  172 (440)
T 3zyj_A          129 NGAFVYLSKLKEL----------WLRNNPIESIP-----------------------SYAFNRIPSLRRLDLGELKR---  172 (440)
T ss_dssp             TTTSCSCSSCCEE----------ECCSCCCCEEC-----------------------TTTTTTCTTCCEEECCCCTT---
T ss_pred             HhHhhccccCcee----------eCCCCcccccC-----------------------HHHhhhCcccCEeCCCCCCC---
Confidence            3345555555555          22232222111                       11233445555555544311   


Q ss_pred             ccchHHHHHhhCCCCCCccEEEEeecCCCCC-CchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeC
Q 042981          672 GRRKNQQLLEALQPPLNVKELGIVSYGGNIF-PKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVG  749 (876)
Q Consensus       672 ~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l-p~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~  749 (876)
                                                 ...+ +..+..+++|++|+|++|.+. .+|.+..++ |+.|+|++|......+
T Consensus       173 ---------------------------l~~i~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~l~~L~~L~Ls~N~l~~~~~  224 (440)
T 3zyj_A          173 ---------------------------LSYISEGAFEGLSNLRYLNLAMCNLR-EIPNLTPLIKLDELDLSGNHLSAIRP  224 (440)
T ss_dssp             ---------------------------CCEECTTTTTTCSSCCEEECTTSCCS-SCCCCTTCSSCCEEECTTSCCCEECT
T ss_pred             ---------------------------cceeCcchhhcccccCeecCCCCcCc-cccccCCCcccCEEECCCCccCccCh
Confidence                                       0111 224556667777777777653 456666677 7777777765433322


Q ss_pred             cccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCC-CCCCC
Q 042981          750 NEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLP-DYLFQ  828 (876)
Q Consensus       750 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp-~~l~~  828 (876)
                      .                    .+..+++|+.|+++++ .+...     .+..+..+++|+.|+|++|. ++.+| ..+..
T Consensus       225 ~--------------------~~~~l~~L~~L~L~~n-~l~~~-----~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~  277 (440)
T 3zyj_A          225 G--------------------SFQGLMHLQKLWMIQS-QIQVI-----ERNAFDNLQSLVEINLAHNN-LTLLPHDLFTP  277 (440)
T ss_dssp             T--------------------TTTTCTTCCEEECTTC-CCCEE-----CTTSSTTCTTCCEEECTTSC-CCCCCTTTTSS
T ss_pred             h--------------------hhccCccCCEEECCCC-ceeEE-----ChhhhcCCCCCCEEECCCCC-CCccChhHhcc
Confidence            2                    2335777888877665 33332     23456678888888888884 44444 45677


Q ss_pred             CCCccEEEEecCCC
Q 042981          829 STTLQKLSISYCPI  842 (876)
Q Consensus       829 l~~L~~L~l~~~~~  842 (876)
                      +++|+.|+|++|+.
T Consensus       278 l~~L~~L~L~~Np~  291 (440)
T 3zyj_A          278 LHHLERIHLHHNPW  291 (440)
T ss_dssp             CTTCCEEECCSSCE
T ss_pred             ccCCCEEEcCCCCc
Confidence            88888888888874

>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=99.78  E-value=7.7e-19  Score=187.19  Aligned_cols=64  Identities=11%  Similarity=0.062  Sum_probs=41.3

Q ss_pred             cCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCC-CccEEEEecCCCc
Q 042981          774 AFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQST-TLQKLSISYCPIM  843 (876)
Q Consensus       774 ~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~-~L~~L~l~~~~~l  843 (876)
                      .+++|+.|+++++ .+....     +..+..+++|+.|++++|+.....|..+..++ +|+.|++++|+..
T Consensus       197 ~l~~L~~L~L~~N-~l~~~~-----~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L~~N~~~  261 (306)
T 2z66_A          197 SLSSLQVLNMSHN-NFFSLD-----TFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFA  261 (306)
T ss_dssp             TCTTCCEEECTTS-CCSBCC-----SGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEECTTCCEE
T ss_pred             CCCCCCEEECCCC-ccCccC-----hhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEEccCCCee
Confidence            4556666655554 222221     22455678888888888866666777777774 8888888888753

>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=3.1e-18  Score=193.11  Aligned_cols=237  Identities=22%  Similarity=0.218  Sum_probs=137.3

Q ss_pred             CCCcccccccccccCcccCeeeccCcccccc-chhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYM  591 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~  591 (876)
                      .+..+..+|..+.  .+|++|+|++|.|+.+ |..+.++++|++|+|++|......|..|.++++|++|++++|.+....
T Consensus        62 ~~~~l~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~  139 (452)
T 3zyi_A           62 TRRGLSEVPQGIP--SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIP  139 (452)
T ss_dssp             CSSCCSSCCSCCC--TTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBCC
T ss_pred             CCCCcCccCCCCC--CCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCccC
Confidence            4445555665443  4666666666666655 345666666666666666433334455666666666666666553333


Q ss_pred             CccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCcc
Q 042981          592 PIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEE  671 (876)
Q Consensus       592 p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~  671 (876)
                      +..++.+++|++|          +++.+.+..+.                       ...+.++++|+.|+++.|..   
T Consensus       140 ~~~~~~l~~L~~L----------~L~~N~l~~~~-----------------------~~~~~~l~~L~~L~l~~~~~---  183 (452)
T 3zyi_A          140 SGAFEYLSKLREL----------WLRNNPIESIP-----------------------SYAFNRVPSLMRLDLGELKK---  183 (452)
T ss_dssp             TTTSSSCTTCCEE----------ECCSCCCCEEC-----------------------TTTTTTCTTCCEEECCCCTT---
T ss_pred             hhhhcccCCCCEE----------ECCCCCcceeC-----------------------HhHHhcCCcccEEeCCCCCC---
Confidence            3335555555555          22232222111                       11234445555555544211   


Q ss_pred             ccchHHHHHhhCCCCCCccEEEEeecCCCCC-CchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeC
Q 042981          672 GRRKNQQLLEALQPPLNVKELGIVSYGGNIF-PKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVG  749 (876)
Q Consensus       672 ~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l-p~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~  749 (876)
                                                 ...+ +..+..+++|++|+|++|.+. .+|.+..++ |+.|+|++|......+
T Consensus       184 ---------------------------l~~i~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~l~~L~~L~Ls~N~l~~~~~  235 (452)
T 3zyi_A          184 ---------------------------LEYISEGAFEGLFNLKYLNLGMCNIK-DMPNLTPLVGLEELEMSGNHFPEIRP  235 (452)
T ss_dssp             ---------------------------CCEECTTTTTTCTTCCEEECTTSCCS-SCCCCTTCTTCCEEECTTSCCSEECG
T ss_pred             ---------------------------ccccChhhccCCCCCCEEECCCCccc-ccccccccccccEEECcCCcCcccCc
Confidence                                       0111 223556677777777777664 346677777 7777777776444333


Q ss_pred             cccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCC-CCCCC
Q 042981          750 NEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLP-DYLFQ  828 (876)
Q Consensus       750 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp-~~l~~  828 (876)
                      ..                    +..+++|+.|+++++ .+...     .+..+..+++|+.|+|++|. ++.+| ..+..
T Consensus       236 ~~--------------------~~~l~~L~~L~L~~n-~l~~~-----~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~  288 (452)
T 3zyi_A          236 GS--------------------FHGLSSLKKLWVMNS-QVSLI-----ERNAFDGLASLVELNLAHNN-LSSLPHDLFTP  288 (452)
T ss_dssp             GG--------------------GTTCTTCCEEECTTS-CCCEE-----CTTTTTTCTTCCEEECCSSC-CSCCCTTSSTT
T ss_pred             cc--------------------ccCccCCCEEEeCCC-cCceE-----CHHHhcCCCCCCEEECCCCc-CCccChHHhcc
Confidence            22                    335778888877765 23332     23456788899999999884 45554 45677


Q ss_pred             CCCccEEEEecCCC
Q 042981          829 STTLQKLSISYCPI  842 (876)
Q Consensus       829 l~~L~~L~l~~~~~  842 (876)
                      +++|+.|+|++|+.
T Consensus       289 l~~L~~L~L~~Np~  302 (452)
T 3zyi_A          289 LRYLVELHLHHNPW  302 (452)
T ss_dssp             CTTCCEEECCSSCE
T ss_pred             ccCCCEEEccCCCc
Confidence            88999999988874

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.77  E-value=3.5e-18  Score=191.95  Aligned_cols=191  Identities=21%  Similarity=0.232  Sum_probs=111.0

Q ss_pred             EEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-cccc
Q 042981          447 HLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVR  525 (876)
Q Consensus       447 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~  525 (876)
                      .+......+..+|..+.  ++++.|++.+|.      ...+....|.++++|++|+|         ++|.+..++ ..+.
T Consensus        47 ~v~c~~~~l~~iP~~~~--~~l~~L~L~~n~------i~~~~~~~~~~l~~L~~L~L---------s~n~i~~i~~~~~~  109 (440)
T 3zyj_A           47 KVICVRKNLREVPDGIS--TNTRLLNLHENQ------IQIIKVNSFKHLRHLEILQL---------SRNHIRTIEIGAFN  109 (440)
T ss_dssp             EEECCSCCCSSCCSCCC--TTCSEEECCSCC------CCEECTTTTSSCSSCCEEEC---------CSSCCCEECGGGGT
T ss_pred             EEEeCCCCcCcCCCCCC--CCCcEEEccCCc------CCeeCHHHhhCCCCCCEEEC---------CCCcCCccChhhcc
Confidence            44555555566665543  567777776554      23333444677777777777         555555554 4567


Q ss_pred             cCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCc-cCCCCCCCCc
Q 042981          526 KLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPI-GISKLTSLRT  603 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~-~i~~l~~L~~  603 (876)
                      ++++|++|+|++|.++.+|. .+.++++|++|+|++|......+..+.++++|++|++++|.....+|. .+.++++|++
T Consensus       110 ~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~  189 (440)
T 3zyj_A          110 GLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRY  189 (440)
T ss_dssp             TCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCE
T ss_pred             CCccCCEEECCCCcCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCe
Confidence            77777777777777776665 467777777777777743333333566777777777777555555554 4566666666


Q ss_pred             cCceeecCccCCCccccccc---cccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccC
Q 042981          604 LEKFAMGGGVDDISTCRLES---LKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEE  668 (876)
Q Consensus       604 L~~~~~~~~~~~ls~~~l~~---L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~  668 (876)
                      |          +++.+.+..   +..+++|+.|+++++    .+....+..+.++++|+.|++++|.+
T Consensus       190 L----------~L~~n~l~~~~~~~~l~~L~~L~Ls~N----~l~~~~~~~~~~l~~L~~L~L~~n~l  243 (440)
T 3zyj_A          190 L----------NLAMCNLREIPNLTPLIKLDELDLSGN----HLSAIRPGSFQGLMHLQKLWMIQSQI  243 (440)
T ss_dssp             E----------ECTTSCCSSCCCCTTCSSCCEEECTTS----CCCEECTTTTTTCTTCCEEECTTCCC
T ss_pred             e----------cCCCCcCccccccCCCcccCEEECCCC----ccCccChhhhccCccCCEEECCCCce
Confidence            6          333333332   334445555555542    22233334455566666666665544

>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=99.76  E-value=3.5e-18  Score=192.67  Aligned_cols=190  Identities=22%  Similarity=0.290  Sum_probs=109.5

Q ss_pred             EEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-cccc
Q 042981          447 HLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVR  525 (876)
Q Consensus       447 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~  525 (876)
                      .+.....++..+|..+.  ++|+.|++.+|.      ...+.+..|.++++|++|+|         ++|.+..++ ..+.
T Consensus        58 ~v~c~~~~l~~iP~~~~--~~l~~L~L~~n~------i~~~~~~~~~~l~~L~~L~L---------s~n~i~~~~~~~~~  120 (452)
T 3zyi_A           58 KVVCTRRGLSEVPQGIP--SNTRYLNLMENN------IQMIQADTFRHLHHLEVLQL---------GRNSIRQIEVGAFN  120 (452)
T ss_dssp             EEECCSSCCSSCCSCCC--TTCSEEECCSSC------CCEECTTTTTTCTTCCEEEC---------CSSCCCEECTTTTT
T ss_pred             EEEECCCCcCccCCCCC--CCccEEECcCCc------CceECHHHcCCCCCCCEEEC---------CCCccCCcChhhcc
Confidence            44445555555555443  567777776554      23334444667777777777         555555544 5567


Q ss_pred             cCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCcccc-ccccCcCCCceEecCCCCCCccCCc-cCCCCCCCC
Q 042981          526 KLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELP-AGIGKLKKMRSLLNGGTPLLKYMPI-GISKLTSLR  602 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~~p~-~i~~l~~L~  602 (876)
                      ++++|++|+|++|.++.+|.. +.++++|++|+|++|. +..+| ..+.++++|++|++++|..++.+|. .+.++++|+
T Consensus       121 ~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~  199 (452)
T 3zyi_A          121 GLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNP-IESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLK  199 (452)
T ss_dssp             TCTTCCEEECCSSCCSBCCTTTSSSCTTCCEEECCSCC-CCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCC
T ss_pred             CcccCCEEECCCCcCCccChhhhcccCCCCEEECCCCC-cceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCC
Confidence            777777777777777766654 6667777777777774 33443 3566777777777777555555554 356666666


Q ss_pred             ccCceeecCccCCCccccccc---cccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccC
Q 042981          603 TLEKFAMGGGVDDISTCRLES---LKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEE  668 (876)
Q Consensus       603 ~L~~~~~~~~~~~ls~~~l~~---L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~  668 (876)
                      .|          +++.+.+..   +..+++|+.|++++    +.+....+..+.++++|+.|++++|.+
T Consensus       200 ~L----------~L~~n~l~~~~~~~~l~~L~~L~Ls~----N~l~~~~~~~~~~l~~L~~L~L~~n~l  254 (452)
T 3zyi_A          200 YL----------NLGMCNIKDMPNLTPLVGLEELEMSG----NHFPEIRPGSFHGLSSLKKLWVMNSQV  254 (452)
T ss_dssp             EE----------ECTTSCCSSCCCCTTCTTCCEEECTT----SCCSEECGGGGTTCTTCCEEECTTSCC
T ss_pred             EE----------ECCCCcccccccccccccccEEECcC----CcCcccCcccccCccCCCEEEeCCCcC
Confidence            66          333333322   33344455555554    222233334455556666666655544

>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=99.76  E-value=2.1e-18  Score=181.75  Aligned_cols=222  Identities=18%  Similarity=0.178  Sum_probs=139.5

Q ss_pred             EEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc-cccc
Q 042981          446 RHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI-PENV  524 (876)
Q Consensus       446 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l-p~~i  524 (876)
                      +.++...+.+..+|..+  .++|+.|++.++.      ...++...|..+++|++|++         ++|.+..+ |..+
T Consensus        14 ~~~~c~~~~l~~ip~~~--~~~l~~L~l~~n~------i~~~~~~~~~~~~~L~~L~l---------~~n~l~~~~~~~~   76 (285)
T 1ozn_A           14 VTTSCPQQGLQAVPVGI--PAASQRIFLHGNR------ISHVPAASFRACRNLTILWL---------HSNVLARIDAAAF   76 (285)
T ss_dssp             CEEECCSSCCSSCCTTC--CTTCSEEECTTSC------CCEECTTTTTTCTTCCEEEC---------CSSCCCEECTTTT
T ss_pred             eEEEcCcCCcccCCcCC--CCCceEEEeeCCc------CCccCHHHcccCCCCCEEEC---------CCCccceeCHhhc
Confidence            45566666666666543  4678888886665      23444455777888888888         66666665 5667


Q ss_pred             ccCcccCeeeccCcc-cccc-chhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCC
Q 042981          525 RKLIHLKYLNLSELC-IERL-PKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLR  602 (876)
Q Consensus       525 ~~L~~Lr~L~Ls~~~-i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~  602 (876)
                      .++++|++|+|++|. ++.+ |..+.++++|++|++++|......|..+.++++|++|++++|.+....+..++.+++|+
T Consensus        77 ~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~  156 (285)
T 1ozn_A           77 TGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLT  156 (285)
T ss_dssp             TTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             CCccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCcc
Confidence            788888888888886 7766 56678888888888888854444466677888888888888866544444466666666


Q ss_pred             ccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhh
Q 042981          603 TLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEA  682 (876)
Q Consensus       603 ~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~  682 (876)
                      +|          +++.+.+..+                       ....+..+++|+.|++++|.+....       ...
T Consensus       157 ~L----------~l~~n~l~~~-----------------------~~~~~~~l~~L~~L~l~~n~l~~~~-------~~~  196 (285)
T 1ozn_A          157 HL----------FLHGNRISSV-----------------------PERAFRGLHSLDRLLLHQNRVAHVH-------PHA  196 (285)
T ss_dssp             EE----------ECCSSCCCEE-----------------------CTTTTTTCTTCCEEECCSSCCCEEC-------TTT
T ss_pred             EE----------ECCCCccccc-----------------------CHHHhcCccccCEEECCCCcccccC-------HhH
Confidence            66          3333322211                       1122445566666666666543111       122


Q ss_pred             CCCCCCccEEEEeecCCCCCCc-hhhcccCCcEEEEecCCCCC
Q 042981          683 LQPPLNVKELGIVSYGGNIFPK-WLTSLTNLRDLRLKSCVICE  724 (876)
Q Consensus       683 l~~~~~L~~L~l~~~~~~~lp~-~l~~l~~L~~L~L~~~~~~~  724 (876)
                      +..+++|+.|++.++....+|. .+..+++|++|+|++|++..
T Consensus       197 ~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~c  239 (285)
T 1ozn_A          197 FRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVC  239 (285)
T ss_dssp             TTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEEC
T ss_pred             ccCcccccEeeCCCCcCCcCCHHHcccCcccCEEeccCCCccC
Confidence            3334455555555555555553 46677778888887777643

>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=99.76  E-value=1.8e-20  Score=219.89  Aligned_cols=381  Identities=15%  Similarity=0.136  Sum_probs=230.1

Q ss_pred             CCceEEEEeeecCCCCC-ccccc-CCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          442 GDKVRHLGLNFEGGASF-PMSIH-GLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~-~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      .+++++|+++.+.+... +..+. .+++|++|++.++.    .+....+..++..+++|++|+|++|.+.    +.....
T Consensus       104 ~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~----~~~~~~l~~~~~~~~~L~~L~L~~~~i~----~~~~~~  175 (594)
T 2p1m_B          104 YTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCE----GFSTDGLAAIAATCRNLKELDLRESDVD----DVSGHW  175 (594)
T ss_dssp             CTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCE----EEEHHHHHHHHHHCTTCCEEECTTCEEE----CCCGGG
T ss_pred             CCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcC----CCCHHHHHHHHHhCCCCCEEeCcCCccC----CcchHH
Confidence            45788999998876532 33343 58999999998763    1233345666778999999999555432    111122


Q ss_pred             cccccccCcccCeeeccCcc--cc--ccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCC------Cc
Q 042981          520 IPENVRKLIHLKYLNLSELC--IE--RLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPL------LK  589 (876)
Q Consensus       520 lp~~i~~L~~Lr~L~Ls~~~--i~--~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~------~~  589 (876)
                      ++.....+++|++|+|++|.  +.  .++..+.++++|++|++++|.....+|..+.++++|++|+++.+..      ..
T Consensus       176 l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~  255 (594)
T 2p1m_B          176 LSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYS  255 (594)
T ss_dssp             GGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHHCTTCSEEECSBCCCCCCHHHHH
T ss_pred             HHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhcCCcceEcccccccCccchhhHH
Confidence            33334577899999999986  32  3444456689999999999976777888889999999999876632      12


Q ss_pred             cCCccCCCCCCCCccCceeecCccCCCccccccc-cccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccC
Q 042981          590 YMPIGISKLTSLRTLEKFAMGGGVDDISTCRLES-LKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEE  668 (876)
Q Consensus       590 ~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~-L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~  668 (876)
                      .++..+.++++|+.|..+.      +.....+.. +..+++|+.|+++++. +.  .......+..+++|+.|++++| .
T Consensus       256 ~l~~~l~~~~~L~~Ls~~~------~~~~~~l~~~~~~~~~L~~L~L~~~~-l~--~~~l~~~~~~~~~L~~L~l~~~-~  325 (594)
T 2p1m_B          256 GLSVALSGCKELRCLSGFW------DAVPAYLPAVYSVCSRLTTLNLSYAT-VQ--SYDLVKLLCQCPKLQRLWVLDY-I  325 (594)
T ss_dssp             HHHHHHHTCTTCCEEECCB------TCCGGGGGGGHHHHTTCCEEECTTCC-CC--HHHHHHHHTTCTTCCEEEEEGG-G
T ss_pred             HHHHHHhcCCCcccccCCc------ccchhhHHHHHHhhCCCCEEEccCCC-CC--HHHHHHHHhcCCCcCEEeCcCc-c
Confidence            3444567778888772111      111112222 2367889999998854 22  1223333567899999999977 3


Q ss_pred             CccccchHHHHHhhCCCCCCccEEEEeec------CCCCCCc----hh-hcccCCcEEEEecCCCCCC-CCCCC-ccc-C
Q 042981          669 GEEGRRKNQQLLEALQPPLNVKELGIVSY------GGNIFPK----WL-TSLTNLRDLRLKSCVICEH-FPPLG-KLP-L  734 (876)
Q Consensus       669 ~~~~~~~~~~~~~~l~~~~~L~~L~l~~~------~~~~lp~----~l-~~l~~L~~L~L~~~~~~~~-lp~l~-~Lp-L  734 (876)
                      .      ..........+++|++|++.++      ....+..    .+ ..+++|++|.+..+.+... +..+. .+| |
T Consensus       326 ~------~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~~l~~l~~~~~~L~~L~~~~~~l~~~~~~~l~~~~~~L  399 (594)
T 2p1m_B          326 E------DAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMTNAALITIARNRPNM  399 (594)
T ss_dssp             H------HHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCCCHHHHHHHHHHCTTCCEEEEEESCCCHHHHHHHHHHCTTC
T ss_pred             C------HHHHHHHHHhCCCCCEEEEecCcccccccCCCCCHHHHHHHHHhchhHHHHHHhcCCcCHHHHHHHHhhCCCc
Confidence            1      1111112223678999999653      1112211    12 2588999998877776542 22233 478 9


Q ss_pred             ceEeec-----CCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccC-ccccc
Q 042981          735 EKLTLY-----GLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENIS-IMPRL  808 (876)
Q Consensus       735 ~~L~L~-----~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~-~l~~L  808 (876)
                      +.|++.     +|..+...+..              ...+..+..+++|+.|++++  ++.+..+     ..+. .+++|
T Consensus       400 ~~L~L~~~~~~~~~~l~~~~~~--------------~~~~~l~~~~~~L~~L~L~~--~l~~~~~-----~~l~~~~~~L  458 (594)
T 2p1m_B          400 TRFRLCIIEPKAPDYLTLEPLD--------------IGFGAIVEHCKDLRRLSLSG--LLTDKVF-----EYIGTYAKKM  458 (594)
T ss_dssp             CEEEEEESSTTCCCTTTCCCTH--------------HHHHHHHHHCTTCCEEECCS--SCCHHHH-----HHHHHHCTTC
T ss_pred             ceeEeecccCCCcccccCCchh--------------hHHHHHHhhCCCccEEeecC--cccHHHH-----HHHHHhchhc
Confidence            999998     33333211100              00001133577888888755  3333221     1222 37888


Q ss_pred             ceeeeccCccCCCCCCCC-CCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCC
Q 042981          809 SSLTIWYCPRLRVLPDYL-FQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPK  870 (876)
Q Consensus       809 ~~L~l~~c~~l~~lp~~l-~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~  870 (876)
                      +.|+|++|......+..+ ..+++|++|+|++|+. ......  .....+|+|+.|++++|+.
T Consensus       459 ~~L~L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~~-~~~~~~--~~~~~l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          459 EMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCPF-GDKALL--ANASKLETMRSLWMSSCSV  518 (594)
T ss_dssp             CEEEEESCCSSHHHHHHHHHHCTTCCEEEEESCSC-CHHHHH--HTGGGGGGSSEEEEESSCC
T ss_pred             cEeeccCCCCcHHHHHHHHhcCCCcCEEECcCCCC-cHHHHH--HHHHhCCCCCEEeeeCCCC
Confidence            888888885422222122 4478888888888876 222111  1234578888888888864

>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=99.76  E-value=9.5e-20  Score=213.58  Aligned_cols=378  Identities=16%  Similarity=0.055  Sum_probs=214.0

Q ss_pred             CceEEEEeeecCC-C--CCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          443 DKVRHLGLNFEGG-A--SFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       443 ~~lr~L~l~~~~~-~--~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      .++++|.+..+.. .  .++.....+++|++|++.+|.....  ....+..++..+++|+.|++++|.+.    +.....
T Consensus       138 ~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~~--~~~~l~~~~~~~~~L~~L~L~~n~~~----~~~~~~  211 (592)
T 3ogk_B          138 DDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEK--DGKWLHELAQHNTSLEVLNFYMTEFA----KISPKD  211 (592)
T ss_dssp             GGCCEEEEESCEEEEHHHHHHHHHHCTTCSEEECTTCEEECC--CSHHHHHHHHHCCCCCEEECTTCCCS----SCCHHH
T ss_pred             ccCcEEECcCCCCcCHHHHHHHHhhCCCCCEEECccccccCc--chhHHHHHHhcCCCccEEEeeccCCC----ccCHHH
Confidence            3477888776541 1  1122234678888888876641110  11224455677888888888444331    111123


Q ss_pred             cccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCC---ccccccccCcCCCceEecCCCCCCccCCccCC
Q 042981          520 IPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDL---RELPAGIGKLKKMRSLLNGGTPLLKYMPIGIS  596 (876)
Q Consensus       520 lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l---~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~  596 (876)
                      ++..+.++++|++|+|++|.+..+|..+.++++|+.|+++.+...   ...+..+..+++|+.|+++++ ....+|..+.
T Consensus       212 l~~~~~~~~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~-~~~~l~~~~~  290 (592)
T 3ogk_B          212 LETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYM-GPNEMPILFP  290 (592)
T ss_dssp             HHHHHHHCTTCCEEECSSCBGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTC-CTTTGGGGGG
T ss_pred             HHHHHhhCCCCcEEeccCccHHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCcccc-chhHHHHHHh
Confidence            555566788888888888888888888888888888888754222   234455677788888888775 3355666667


Q ss_pred             CCCCCCccCceeecCccCCCccccc-cccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEe----------
Q 042981          597 KLTSLRTLEKFAMGGGVDDISTCRL-ESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEF----------  665 (876)
Q Consensus       597 ~l~~L~~L~~~~~~~~~~~ls~~~l-~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~----------  665 (876)
                      .+++|++|....+.     +....+ ..+..+++|+.|.+.+.    ............+++|+.|+++.          
T Consensus       291 ~~~~L~~L~Ls~~~-----l~~~~~~~~~~~~~~L~~L~L~~~----~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~  361 (592)
T 3ogk_B          291 FAAQIRKLDLLYAL-----LETEDHCTLIQKCPNLEVLETRNV----IGDRGLEVLAQYCKQLKRLRIERGADEQGMEDE  361 (592)
T ss_dssp             GGGGCCEEEETTCC-----CCHHHHHHHHTTCTTCCEEEEEGG----GHHHHHHHHHHHCTTCCEEEEECCCCSSTTSST
T ss_pred             hcCCCcEEecCCCc-----CCHHHHHHHHHhCcCCCEEeccCc----cCHHHHHHHHHhCCCCCEEEeecCccccccccc
Confidence            77777777322111     011111 22466778888877631    11222333345677888888883          


Q ss_pred             -ccCCccccchHHHHHhhCCCCCCccEEEEeecCCCC-CCchhh-cccCCcEEEEecCC---CCCCCCC-------CCcc
Q 042981          666 -DEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNI-FPKWLT-SLTNLRDLRLKSCV---ICEHFPP-------LGKL  732 (876)
Q Consensus       666 -~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~-lp~~l~-~l~~L~~L~L~~~~---~~~~lp~-------l~~L  732 (876)
                       +.+.      ..........+++|++|.+..+.... .+..++ .+++|+.|+|+++.   ..+..|.       +..+
T Consensus       362 ~~~~~------~~~~~~l~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~  435 (592)
T 3ogk_B          362 EGLVS------QRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGC  435 (592)
T ss_dssp             TCCCC------HHHHHHHHHHCTTCSEEEEEESCCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHC
T ss_pred             cCccC------HHHHHHHHhhCccCeEEEeecCCccHHHHHHHHhhCCCCcEEEEeecCCCccccCchHHHHHHHHHHhC
Confidence             3332      11111112235678888885554322 133344 37888888887432   2222211       3446


Q ss_pred             c-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCccccccee
Q 042981          733 P-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSL  811 (876)
Q Consensus       733 p-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L  811 (876)
                      + |+.|+++.|.. ...+..+..                ....+++|+.|+++++. +.+..+    +..+..+++|++|
T Consensus       436 ~~L~~L~L~~~~~-~l~~~~~~~----------------~~~~~~~L~~L~L~~n~-l~~~~~----~~~~~~~~~L~~L  493 (592)
T 3ogk_B          436 KKLRRFAFYLRQG-GLTDLGLSY----------------IGQYSPNVRWMLLGYVG-ESDEGL----MEFSRGCPNLQKL  493 (592)
T ss_dssp             TTCCEEEEECCGG-GCCHHHHHH----------------HHHSCTTCCEEEECSCC-SSHHHH----HHHHTCCTTCCEE
T ss_pred             CCCCEEEEecCCC-CccHHHHHH----------------HHHhCccceEeeccCCC-CCHHHH----HHHHhcCcccCee
Confidence            7 88888876543 111111111                01247888888887763 443222    2234567888888


Q ss_pred             eeccCccCC-CCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEcc
Q 042981          812 TIWYCPRLR-VLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEY  867 (876)
Q Consensus       812 ~l~~c~~l~-~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~  867 (876)
                      +|++|+... .++..+..+++|+.|+|++|+.. .....  .....+|.|....+..
T Consensus       494 ~l~~n~l~~~~~~~~~~~l~~L~~L~ls~n~it-~~~~~--~l~~~~p~l~~~~~~~  547 (592)
T 3ogk_B          494 EMRGCCFSERAIAAAVTKLPSLRYLWVQGYRAS-MTGQD--LMQMARPYWNIELIPS  547 (592)
T ss_dssp             EEESCCCBHHHHHHHHHHCSSCCEEEEESCBCC-TTCTT--GGGGCCTTEEEEEECC
T ss_pred             eccCCCCcHHHHHHHHHhcCccCeeECcCCcCC-HHHHH--HHHHhCCCcEEEEecC
Confidence            888886322 24444456788888888888732 21110  1123556665555543

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.75  E-value=1.6e-19  Score=193.20  Aligned_cols=235  Identities=15%  Similarity=0.133  Sum_probs=135.5

Q ss_pred             CcceEEecCccccccCCCCCccccccccc-ccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCccccccccC
Q 042981          496 ACFRALVIGQRNFIFDPYPNLIREIPENV-RKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGIGK  573 (876)
Q Consensus       496 ~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i-~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~i~~  573 (876)
                      ..++.+++         +.+.+...+..+ ..+++|++|+|++|.++.++ ..++++++|++|+|++|. +...+. +..
T Consensus        10 ~~l~i~~l---------s~~~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~-~~~   78 (317)
T 3o53_A           10 NRYKIEKV---------TDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNV-LYETLD-LES   78 (317)
T ss_dssp             TEEEEESC---------CTTTHHHHHHHHHTTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSC-CEEEEE-ETT
T ss_pred             CceeEeec---------cccchhhhHHHHhccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCc-CCcchh-hhh
Confidence            45666666         566666555443 56778999999999988776 578899999999999884 444444 888


Q ss_pred             cCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCc
Q 042981          574 LKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLH  653 (876)
Q Consensus       574 L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~  653 (876)
                      +++|++|++++|.+ ..+|    ..++|++|          +++.+.+..+.                          ..
T Consensus        79 l~~L~~L~Ls~n~l-~~l~----~~~~L~~L----------~l~~n~l~~~~--------------------------~~  117 (317)
T 3o53_A           79 LSTLRTLDLNNNYV-QELL----VGPSIETL----------HAANNNISRVS--------------------------CS  117 (317)
T ss_dssp             CTTCCEEECCSSEE-EEEE----ECTTCCEE----------ECCSSCCSEEE--------------------------EC
T ss_pred             cCCCCEEECcCCcc-cccc----CCCCcCEE----------ECCCCccCCcC--------------------------cc
Confidence            89999999988855 2232    22455555          22222222111                          01


Q ss_pred             ccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCC-CchhhcccCCcEEEEecCCCCCCCC-CC-C
Q 042981          654 NMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIF-PKWLTSLTNLRDLRLKSCVICEHFP-PL-G  730 (876)
Q Consensus       654 ~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l-p~~l~~l~~L~~L~L~~~~~~~~lp-~l-~  730 (876)
                      .+++|+.|++++|.+                               ..+ |..+..+++|++|+|++|.+.+..+ .+ +
T Consensus       118 ~~~~L~~L~l~~N~l-------------------------------~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~  166 (317)
T 3o53_A          118 RGQGKKNIYLANNKI-------------------------------TMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAA  166 (317)
T ss_dssp             CCSSCEEEECCSSCC-------------------------------CSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGG
T ss_pred             ccCCCCEEECCCCCC-------------------------------CCccchhhhccCCCCEEECCCCCCCcccHHHHhh
Confidence            123444555544433                               222 2244455566666666665544222 12 2


Q ss_pred             ccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccc
Q 042981          731 KLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLS  809 (876)
Q Consensus       731 ~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~  809 (876)
                      .++ |+.|++++|......+                      ...+++|+.|+++++ .+...      +..+..+++|+
T Consensus       167 ~l~~L~~L~L~~N~l~~~~~----------------------~~~l~~L~~L~Ls~N-~l~~l------~~~~~~l~~L~  217 (317)
T 3o53_A          167 SSDTLEHLNLQYNFIYDVKG----------------------QVVFAKLKTLDLSSN-KLAFM------GPEFQSAAGVT  217 (317)
T ss_dssp             GTTTCCEEECTTSCCCEEEC----------------------CCCCTTCCEEECCSS-CCCEE------CGGGGGGTTCS
T ss_pred             ccCcCCEEECCCCcCccccc----------------------ccccccCCEEECCCC-cCCcc------hhhhcccCccc
Confidence            445 6666666554322211                      113566666666655 33322      22355667777


Q ss_pred             eeeeccCccCCCCCCCCCCCCCccEEEEecCCCc
Q 042981          810 SLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIM  843 (876)
Q Consensus       810 ~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l  843 (876)
                      .|++++| .++.+|..+..+++|+.|++++|+..
T Consensus       218 ~L~L~~N-~l~~l~~~~~~l~~L~~L~l~~N~~~  250 (317)
T 3o53_A          218 WISLRNN-KLVLIEKALRFSQNLEHFDLRGNGFH  250 (317)
T ss_dssp             EEECTTS-CCCEECTTCCCCTTCCEEECTTCCCB
T ss_pred             EEECcCC-cccchhhHhhcCCCCCEEEccCCCcc
Confidence            7777776 44556666666777777777777654

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.74  E-value=6.7e-19  Score=188.39  Aligned_cols=86  Identities=21%  Similarity=0.217  Sum_probs=46.0

Q ss_pred             hhHHHhccCCcceEEecCccccccCCCCCcccccc-cccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCc
Q 042981          487 ILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLR  565 (876)
Q Consensus       487 ~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~  565 (876)
                      .+..++..+++|++|+|         ++|.+..++ ..++++++|++|+|++|.++.+++ +..+++|++|++++| .+.
T Consensus        25 ~~~~~~~~~~~L~~L~L---------~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls~n-~l~   93 (317)
T 3o53_A           25 ALASLRQSAWNVKELDL---------SGNPLSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNN-YVQ   93 (317)
T ss_dssp             HHHHHHTTGGGCSEEEC---------TTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEE-ETTCTTCCEEECCSS-EEE
T ss_pred             hHHHHhccCCCCCEEEC---------cCCccCcCCHHHhhCCCcCCEEECCCCcCCcchh-hhhcCCCCEEECcCC-ccc
Confidence            34444555556666666         444444443 345556666666666666554443 555666666666655 233


Q ss_pred             cccccccCcCCCceEecCCCCC
Q 042981          566 ELPAGIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       566 ~lp~~i~~L~~L~~L~l~~~~~  587 (876)
                      .+|    .+++|++|++++|.+
T Consensus        94 ~l~----~~~~L~~L~l~~n~l  111 (317)
T 3o53_A           94 ELL----VGPSIETLHAANNNI  111 (317)
T ss_dssp             EEE----ECTTCCEEECCSSCC
T ss_pred             ccc----CCCCcCEEECCCCcc
Confidence            333    235566666666544

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.72  E-value=1.9e-18  Score=184.41  Aligned_cols=35  Identities=29%  Similarity=0.340  Sum_probs=26.0

Q ss_pred             cccceeeeccCccCCCCCCCCCCCCCccEEEEecCCC
Q 042981          806 PRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPI  842 (876)
Q Consensus       806 ~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~  842 (876)
                      ++|++|++++| .++.+|. +..+++|++|++++|+.
T Consensus       274 ~~L~~L~Ls~N-~l~~~p~-~~~l~~L~~L~L~~N~l  308 (312)
T 1wwl_A          274 AKLSVLDLSYN-RLDRNPS-PDELPQVGNLSLKGNPF  308 (312)
T ss_dssp             SEEEEEECCSS-CCCSCCC-TTTSCEEEEEECTTCTT
T ss_pred             CCceEEECCCC-CCCCChh-HhhCCCCCEEeccCCCC
Confidence            77888888887 4555665 77788888888888763

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.72  E-value=9.3e-19  Score=186.84  Aligned_cols=198  Identities=19%  Similarity=0.175  Sum_probs=110.8

Q ss_pred             cCcccCeeeccCcccc-ccchhh--ccCCcccEEeecCCCCCccccccccCc-----CCCceEecCCCCCCccCCccCCC
Q 042981          526 KLIHLKYLNLSELCIE-RLPKTL--CELYNLQKLDIRWCEDLRELPAGIGKL-----KKMRSLLNGGTPLLKYMPIGISK  597 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~-~lp~~i--~~L~~L~~L~L~~~~~l~~lp~~i~~L-----~~L~~L~l~~~~~~~~~p~~i~~  597 (876)
                      ++++|++|+|++|.++ .+|..+  +.+++|++|+|++|. +...|..+..+     ++|++|++++|.+.+..|..+++
T Consensus        93 ~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~  171 (312)
T 1wwl_A           93 GISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVS-WATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRV  171 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCB-CSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCC
T ss_pred             CcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCC-CcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhcc
Confidence            3444445555444444 344433  444445555554442 22224444443     44455555444443333344444


Q ss_pred             CCCCCccCceeecCccCCCccccc-------ccc--ccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccC
Q 042981          598 LTSLRTLEKFAMGGGVDDISTCRL-------ESL--KNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEE  668 (876)
Q Consensus       598 l~~L~~L~~~~~~~~~~~ls~~~l-------~~L--~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~  668 (876)
                      +++|++|          +++.+.+       ..+  ..+++|+.|+++++. +..........+.++++|+.|++++|.+
T Consensus       172 l~~L~~L----------~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~~~~l~~L~~L~Ls~N~l  240 (312)
T 1wwl_A          172 FPALSTL----------DLSDNPELGERGLISALCPLKFPTLQVLALRNAG-METPSGVCSALAAARVQLQGLDLSHNSL  240 (312)
T ss_dssp             CSSCCEE----------ECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSC-CCCHHHHHHHHHHTTCCCSEEECTTSCC
T ss_pred             CCCCCEE----------ECCCCCcCcchHHHHHHHhccCCCCCEEECCCCc-CcchHHHHHHHHhcCCCCCEEECCCCcC
Confidence            4444444          2222221       111  444555555555521 1111122222345667888888888876


Q ss_pred             CccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCC
Q 042981          669 GEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYG  744 (876)
Q Consensus       669 ~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~  744 (876)
                      .+..+      ...+..+++|+.|++++|....+|.++.  ++|++|+|++|++.+. |.++.++ |+.|++++|+.
T Consensus       241 ~~~~~------~~~~~~l~~L~~L~Ls~N~l~~ip~~~~--~~L~~L~Ls~N~l~~~-p~~~~l~~L~~L~L~~N~l  308 (312)
T 1wwl_A          241 RDAAG------APSCDWPSQLNSLNLSFTGLKQVPKGLP--AKLSVLDLSYNRLDRN-PSPDELPQVGNLSLKGNPF  308 (312)
T ss_dssp             CSSCC------CSCCCCCTTCCEEECTTSCCSSCCSSCC--SEEEEEECCSSCCCSC-CCTTTSCEEEEEECTTCTT
T ss_pred             Ccccc------hhhhhhcCCCCEEECCCCccChhhhhcc--CCceEEECCCCCCCCC-hhHhhCCCCCEEeccCCCC
Confidence            42210      1223345788899998888888888876  8999999999998665 7788999 99999998863

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.72  E-value=8.6e-18  Score=190.42  Aligned_cols=239  Identities=17%  Similarity=0.147  Sum_probs=143.3

Q ss_pred             ccccccccC----cccCeeeccCccccccc-hhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCc
Q 042981          519 EIPENVRKL----IHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPI  593 (876)
Q Consensus       519 ~lp~~i~~L----~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~  593 (876)
                      .+|..+..+    ++|++|+|++|.++.+| ..++++++|++|+|++|. +...+. +..+++|++|++++|.+ ..+|.
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~~   97 (487)
T 3oja_A           21 SLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNV-LYETLD-LESLSTLRTLDLNNNYV-QELLV   97 (487)
T ss_dssp             THHHHHHTTSTTGGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSC-CEEEEE-CTTCTTCCEEECCSSEE-EEEEE
T ss_pred             hhHHHHHHhcccCCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCC-CCCCcc-cccCCCCCEEEecCCcC-CCCCC
Confidence            345444443    37888888888888665 578888888888888884 443333 78888888888888854 22332


Q ss_pred             cCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCcccc
Q 042981          594 GISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGR  673 (876)
Q Consensus       594 ~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~  673 (876)
                          .++|++|          +++.+.+..+.                       +   ..+++|+.|++++|.+     
T Consensus        98 ----~~~L~~L----------~L~~N~l~~~~-----------------------~---~~l~~L~~L~L~~N~l-----  132 (487)
T 3oja_A           98 ----GPSIETL----------HAANNNISRVS-----------------------C---SRGQGKKNIYLANNKI-----  132 (487)
T ss_dssp             ----CTTCCEE----------ECCSSCCCCEE-----------------------E---CCCSSCEEEECCSSCC-----
T ss_pred             ----CCCcCEE----------ECcCCcCCCCC-----------------------c---cccCCCCEEECCCCCC-----
Confidence                1444444          22222221110                       0   1123455555554433     


Q ss_pred             chHHHHHhhCCCCCCccEEEEeecCCCCC-CchhhcccCCcEEEEecCCCCCCCC-CCC-ccc-CceEeecCCCCceEeC
Q 042981          674 RKNQQLLEALQPPLNVKELGIVSYGGNIF-PKWLTSLTNLRDLRLKSCVICEHFP-PLG-KLP-LEKLTLYGLYGVKRVG  749 (876)
Q Consensus       674 ~~~~~~~~~l~~~~~L~~L~l~~~~~~~l-p~~l~~l~~L~~L~L~~~~~~~~lp-~l~-~Lp-L~~L~L~~~~~l~~~~  749 (876)
                                                ..+ |..++.+++|+.|+|++|.+.+..| .+. .++ |+.|+|++|......+
T Consensus       133 --------------------------~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~~  186 (487)
T 3oja_A          133 --------------------------TMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKG  186 (487)
T ss_dssp             --------------------------CSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEEC
T ss_pred             --------------------------CCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCccccccc
Confidence                                      322 4456667777777777777765333 233 566 7777777766433211


Q ss_pred             cccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCC
Q 042981          750 NEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQS  829 (876)
Q Consensus       750 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l  829 (876)
                                            ...+++|+.|+++++ .+...      +..+..+++|+.|++++| .+..+|..+..+
T Consensus       187 ----------------------~~~l~~L~~L~Ls~N-~l~~~------~~~~~~l~~L~~L~Ls~N-~l~~lp~~l~~l  236 (487)
T 3oja_A          187 ----------------------QVVFAKLKTLDLSSN-KLAFM------GPEFQSAAGVTWISLRNN-KLVLIEKALRFS  236 (487)
T ss_dssp             ----------------------CCCCTTCCEEECCSS-CCCEE------CGGGGGGTTCSEEECTTS-CCCEECTTCCCC
T ss_pred             ----------------------cccCCCCCEEECCCC-CCCCC------CHhHcCCCCccEEEecCC-cCcccchhhccC
Confidence                                  124677888877766 34432      234667888888888888 455688888888


Q ss_pred             CCccEEEEecCCCc-hhhccccccCCCCCCCcCEEEE
Q 042981          830 TTLQKLSISYCPIM-EELRILEDHRTTDIPRLSSLEI  865 (876)
Q Consensus       830 ~~L~~L~l~~~~~l-~~l~~~~~~~~~~lp~L~~L~i  865 (876)
                      ++|+.|++++|+.. ..++.    .+..+|.|+.|.+
T Consensus       237 ~~L~~L~l~~N~l~c~~~~~----~~~~l~~L~~l~~  269 (487)
T 3oja_A          237 QNLEHFDLRGNGFHCGTLRD----FFSKNQRVQTVAK  269 (487)
T ss_dssp             TTCCEEECTTCCBCHHHHHH----HHTTCHHHHHHHH
T ss_pred             CCCCEEEcCCCCCcCcchHH----HHHhCCCCcEEec
Confidence            88888888888765 22221    2344555554444

>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=99.71  E-value=1.1e-16  Score=168.42  Aligned_cols=90  Identities=19%  Similarity=0.134  Sum_probs=59.5

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYM  591 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~  591 (876)
                      +++.+..+|..+  .++|++|+|++|.++.+|. .+.++++|++|++++|......|..+..+++|++|++++|.....+
T Consensus        19 ~~~~l~~ip~~~--~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~   96 (285)
T 1ozn_A           19 PQQGLQAVPVGI--PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSV   96 (285)
T ss_dssp             CSSCCSSCCTTC--CTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCC
T ss_pred             CcCCcccCCcCC--CCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCcccc
Confidence            566666777544  3577888888888777664 5777788888888877444444667777888888888777523333


Q ss_pred             -CccCCCCCCCCcc
Q 042981          592 -PIGISKLTSLRTL  604 (876)
Q Consensus       592 -p~~i~~l~~L~~L  604 (876)
                       |..+..+++|++|
T Consensus        97 ~~~~~~~l~~L~~L  110 (285)
T 1ozn_A           97 DPATFHGLGRLHTL  110 (285)
T ss_dssp             CTTTTTTCTTCCEE
T ss_pred             CHHHhcCCcCCCEE
Confidence             4455555555555

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.69  E-value=4.1e-17  Score=184.82  Aligned_cols=214  Identities=13%  Similarity=0.092  Sum_probs=122.5

Q ss_pred             cceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchh
Q 042981          467 RLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKT  546 (876)
Q Consensus       467 ~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~  546 (876)
                      +|++|++.+|.      ...+++..|..+++|++|+|         ++|.+..+++ ++.+++|++|+|++|.|+.+|. 
T Consensus        35 ~L~~L~Ls~n~------l~~~~~~~~~~l~~L~~L~L---------s~N~l~~~~~-l~~l~~L~~L~Ls~N~l~~l~~-   97 (487)
T 3oja_A           35 NVKELDLSGNP------LSQISAADLAPFTKLELLNL---------SSNVLYETLD-LESLSTLRTLDLNNNYVQELLV-   97 (487)
T ss_dssp             GCCEEECCSSC------CCCCCGGGGTTCTTCCEEEC---------TTSCCEEEEE-CTTCTTCCEEECCSSEEEEEEE-
T ss_pred             CccEEEeeCCc------CCCCCHHHHhCCCCCCEEEe---------eCCCCCCCcc-cccCCCCCEEEecCCcCCCCCC-
Confidence            56666665544      22233344566666666666         4444444333 5666666666666666665553 


Q ss_pred             hccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCcccccccccc
Q 042981          547 LCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKN  626 (876)
Q Consensus       547 i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~  626 (876)
                         .++|++|++++|. +..+|.  ..+++|++|++++|.+.+..|..++++++|++|          +++.|.+.    
T Consensus        98 ---~~~L~~L~L~~N~-l~~~~~--~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L----------~Ls~N~l~----  157 (487)
T 3oja_A           98 ---GPSIETLHAANNN-ISRVSC--SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYL----------DLKLNEID----  157 (487)
T ss_dssp             ---CTTCCEEECCSSC-CCCEEE--CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEE----------ECTTSCCC----
T ss_pred             ---CCCcCEEECcCCc-CCCCCc--cccCCCCEEECCCCCCCCCCchhhcCCCCCCEE----------ECCCCCCC----
Confidence               2566666666663 333332  234566666666665554445455555555555          22222221    


Q ss_pred             CCCCCCeeeeCcCCCCCcchhhhccCc-ccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCch
Q 042981          627 LQLLRECGIEGLSNVSHLDEDERLGLH-NMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKW  705 (876)
Q Consensus       627 L~~L~~L~l~~~~~~~~~~~~~~~~l~-~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~  705 (876)
                                         ...+..+. .+++|+.|+|++|.+.+.         .....+++|+.|++++|....+|..
T Consensus       158 -------------------~~~~~~l~~~l~~L~~L~Ls~N~l~~~---------~~~~~l~~L~~L~Ls~N~l~~~~~~  209 (487)
T 3oja_A          158 -------------------TVNFAELAASSDTLEHLNLQYNFIYDV---------KGQVVFAKLKTLDLSSNKLAFMGPE  209 (487)
T ss_dssp             -------------------EEEGGGGGGGTTTCCEEECTTSCCCEE---------ECCCCCTTCCEEECCSSCCCEECGG
T ss_pred             -------------------CcChHHHhhhCCcccEEecCCCccccc---------cccccCCCCCEEECCCCCCCCCCHh
Confidence                               11112222 455566666665554321         1122356677777777776777777


Q ss_pred             hhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCc
Q 042981          706 LTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGV  745 (876)
Q Consensus       706 l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l  745 (876)
                      +..+++|+.|+|++|.+.+..+.++.++ |+.|++++|+..
T Consensus       210 ~~~l~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~l~~N~l~  250 (487)
T 3oja_A          210 FQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFH  250 (487)
T ss_dssp             GGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEECTTCCBC
T ss_pred             HcCCCCccEEEecCCcCcccchhhccCCCCCEEEcCCCCCc
Confidence            8888899999999988876444577788 888888887643

>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=99.69  E-value=6.1e-19  Score=206.86  Aligned_cols=357  Identities=15%  Similarity=0.152  Sum_probs=221.1

Q ss_pred             cCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCC-cccc--cccccccCcccCeeeccCcc
Q 042981          463 HGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPN-LIRE--IPENVRKLIHLKYLNLSELC  539 (876)
Q Consensus       463 ~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~-~i~~--lp~~i~~L~~Lr~L~Ls~~~  539 (876)
                      ..+++|++|++.++.     +....+..+...+++|++|+|         .+| .+..  ++..+.++++|++|+|++|.
T Consensus       102 ~~~~~L~~L~L~~~~-----~~~~~~~~l~~~~~~L~~L~L---------~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~  167 (594)
T 2p1m_B          102 SSYTWLEEIRLKRMV-----VTDDCLELIAKSFKNFKVLVL---------SSCEGFSTDGLAAIAATCRNLKELDLRESD  167 (594)
T ss_dssp             HHCTTCCEEEEESCB-----CCHHHHHHHHHHCTTCCEEEE---------ESCEEEEHHHHHHHHHHCTTCCEEECTTCE
T ss_pred             HhCCCCCeEEeeCcE-----EcHHHHHHHHHhCCCCcEEeC---------CCcCCCCHHHHHHHHHhCCCCCEEeCcCCc
Confidence            467899999997764     344445554457999999999         544 3333  44555689999999999998


Q ss_pred             ccc-----cchhhccCCcccEEeecCCC-CC--ccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecC
Q 042981          540 IER-----LPKTLCELYNLQKLDIRWCE-DL--RELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGG  611 (876)
Q Consensus       540 i~~-----lp~~i~~L~~L~~L~L~~~~-~l--~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~  611 (876)
                      ++.     ++.....+++|++|++++|. .+  ..++..+..+++|++|++++|.....+|..+..+++|+.|.......
T Consensus       168 i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~l~~~~~  247 (594)
T 2p1m_B          168 VDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTA  247 (594)
T ss_dssp             EECCCGGGGGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHHCTTCSEEECSBCCC
T ss_pred             cCCcchHHHHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhcCCcceEcccccccC
Confidence            663     33444478899999999985 11  12333345679999999999965566777778888888884221111


Q ss_pred             ccCCCccccc----cccccCCCCCCe-eeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCC
Q 042981          612 GVDDISTCRL----ESLKNLQLLREC-GIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPP  686 (876)
Q Consensus       612 ~~~~ls~~~l----~~L~~L~~L~~L-~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~  686 (876)
                         ++..+.+    ..+.++++|+.| .+..     ......+..+..+++|+.|++++|.+.      .......+..+
T Consensus       248 ---~~~~~~~~~l~~~l~~~~~L~~Ls~~~~-----~~~~~l~~~~~~~~~L~~L~L~~~~l~------~~~l~~~~~~~  313 (594)
T 2p1m_B          248 ---EVRPDVYSGLSVALSGCKELRCLSGFWD-----AVPAYLPAVYSVCSRLTTLNLSYATVQ------SYDLVKLLCQC  313 (594)
T ss_dssp             ---CCCHHHHHHHHHHHHTCTTCCEEECCBT-----CCGGGGGGGHHHHTTCCEEECTTCCCC------HHHHHHHHTTC
T ss_pred             ---ccchhhHHHHHHHHhcCCCcccccCCcc-----cchhhHHHHHHhhCCCCEEEccCCCCC------HHHHHHHHhcC
Confidence               1111111    245566777766 2322     112333444557899999999988753      22233445567


Q ss_pred             CCccEEEEeecCCCC-CCchhhcccCCcEEEEecCC---------CCC-CCCCC-Cccc-CceEeecCCCCceEeCcccc
Q 042981          687 LNVKELGIVSYGGNI-FPKWLTSLTNLRDLRLKSCV---------ICE-HFPPL-GKLP-LEKLTLYGLYGVKRVGNEFL  753 (876)
Q Consensus       687 ~~L~~L~l~~~~~~~-lp~~l~~l~~L~~L~L~~~~---------~~~-~lp~l-~~Lp-L~~L~L~~~~~l~~~~~~~~  753 (876)
                      ++|+.|++.++.... ++.....+++|++|+|.+|.         +.+ .+..+ ..+| |+.|.+..+. +...  .+.
T Consensus       314 ~~L~~L~l~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~~l~~l~~~~~~L~~L~~~~~~-l~~~--~~~  390 (594)
T 2p1m_B          314 PKLQRLWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQ-MTNA--ALI  390 (594)
T ss_dssp             TTCCEEEEEGGGHHHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCCCHHHHHHHHHHCTTCCEEEEEESC-CCHH--HHH
T ss_pred             CCcCEEeCcCccCHHHHHHHHHhCCCCCEEEEecCcccccccCCCCCHHHHHHHHHhchhHHHHHHhcCC-cCHH--HHH
Confidence            899999999873211 22233368999999996542         211 11112 2367 8888665433 2111  000


Q ss_pred             cCCCCCCCCCCCCCCCcccccCcccceeecc-----ccccccccccccccccccCcccccceeeeccCccCCCCCCCCC-
Q 042981          754 GIEGSSEDDPSSSSSSSSVIAFPKLKSLHIG-----AMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLF-  827 (876)
Q Consensus       754 ~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~-----~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~-  827 (876)
                      .                ....+|+|+.|++.     +|..+.........+..+..+++|+.|+++++ .....+..+. 
T Consensus       391 ~----------------l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~~-l~~~~~~~l~~  453 (594)
T 2p1m_B          391 T----------------IARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGL-LTDKVFEYIGT  453 (594)
T ss_dssp             H----------------HHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCSS-CCHHHHHHHHH
T ss_pred             H----------------HHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecCc-ccHHHHHHHHH
Confidence            0                01258999999998     45555533211111222457899999999773 2222222233 


Q ss_pred             CCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCC
Q 042981          828 QSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPK  870 (876)
Q Consensus       828 ~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~  870 (876)
                      .+++|+.|++++|...... ..  .....+|+|+.|++++|+.
T Consensus       454 ~~~~L~~L~L~~~~i~~~~-~~--~l~~~~~~L~~L~L~~n~~  493 (594)
T 2p1m_B          454 YAKKMEMLSVAFAGDSDLG-MH--HVLSGCDSLRKLEIRDCPF  493 (594)
T ss_dssp             HCTTCCEEEEESCCSSHHH-HH--HHHHHCTTCCEEEEESCSC
T ss_pred             hchhccEeeccCCCCcHHH-HH--HHHhcCCCcCEEECcCCCC
Confidence            3789999999999853221 10  0124589999999999964

>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=99.67  E-value=7.6e-16  Score=161.21  Aligned_cols=148  Identities=26%  Similarity=0.320  Sum_probs=95.2

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYM  591 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~  591 (876)
                      .+..+..+|..+.  .+|++|+|++|.++.+|. .+.++++|++|++++|......+..+.++++|++|++++|.+....
T Consensus        15 ~~~~l~~ip~~l~--~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~   92 (276)
T 2z62_A           15 MELNFYKIPDNLP--FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLA   92 (276)
T ss_dssp             TTSCCSSCCSSSC--TTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEEC
T ss_pred             cCCCccccCCCCC--CCccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccC
Confidence            4445566776554  468888888888887765 6788888888888888443334446778888888888888765555


Q ss_pred             CccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCcc
Q 042981          592 PIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEE  671 (876)
Q Consensus       592 p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~  671 (876)
                      |..+.++++|++|          +++.+.+..+.                       ...+..+++|+.|++++|.+.  
T Consensus        93 ~~~~~~l~~L~~L----------~l~~n~l~~~~-----------------------~~~~~~l~~L~~L~l~~n~l~--  137 (276)
T 2z62_A           93 LGAFSGLSSLQKL----------VAVETNLASLE-----------------------NFPIGHLKTLKELNVAHNLIQ--  137 (276)
T ss_dssp             TTTTTTCTTCCEE----------ECTTSCCCCST-----------------------TCCCTTCTTCCEEECCSSCCC--
T ss_pred             hhhhcCCccccEE----------ECCCCCccccC-----------------------chhcccCCCCCEEECcCCccc--
Confidence            5666667776666          22232222111                       112445566666666655431  


Q ss_pred             ccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCC
Q 042981          672 GRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICE  724 (876)
Q Consensus       672 ~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~  724 (876)
                                                 ...+|.++..+++|++|+|++|.+.+
T Consensus       138 ---------------------------~~~l~~~~~~l~~L~~L~Ls~N~l~~  163 (276)
T 2z62_A          138 ---------------------------SFKLPEYFSNLTNLEHLDLSSNKIQS  163 (276)
T ss_dssp             ---------------------------CCCCCGGGGGCTTCCEEECCSSCCCE
T ss_pred             ---------------------------eecCchhhccCCCCCEEECCCCCCCc
Confidence                                       01247778888888888888887754

>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=99.67  E-value=3.9e-16  Score=164.12  Aligned_cols=142  Identities=17%  Similarity=0.159  Sum_probs=72.2

Q ss_pred             ceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccc
Q 042981          444 KVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPEN  523 (876)
Q Consensus       444 ~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~  523 (876)
                      +++.+.++.+.++.+|..+.  ++++.|++.+|.      ...+.+..|..+++|++|+|         ++|.+..+|..
T Consensus        11 ~l~~l~~~~~~l~~ip~~~~--~~l~~L~L~~N~------l~~~~~~~~~~l~~L~~L~L---------~~n~l~~~~~~   73 (290)
T 1p9a_G           11 SHLEVNCDKRNLTALPPDLP--KDTTILHLSENL------LYTFSLATLMPYTRLTQLNL---------DRAELTKLQVD   73 (290)
T ss_dssp             TCCEEECTTSCCSSCCSCCC--TTCCEEECTTSC------CSEEEGGGGTTCTTCCEEEC---------TTSCCCEEECC
T ss_pred             CccEEECCCCCCCcCCCCCC--CCCCEEEcCCCc------CCccCHHHhhcCCCCCEEEC---------CCCccCcccCC
Confidence            45555555555555554442  455666664443      22233334555566666666         44444444432


Q ss_pred             cccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccc-ccccCcCCCceEecCCCCCCccCCccCCCCCCCC
Q 042981          524 VRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELP-AGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLR  602 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~  602 (876)
                       +.+++|++|+|++|.++.+|..+..+++|++|++++|. +..+| ..|..+++|++|++++|.+....+..+..+++|+
T Consensus        74 -~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~-l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~  151 (290)
T 1p9a_G           74 -GTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLE  151 (290)
T ss_dssp             -SCCTTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSSC-CCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCC
T ss_pred             -CCCCcCCEEECCCCcCCcCchhhccCCCCCEEECCCCc-CcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCC
Confidence             45556666666666666666555556666666666553 33332 4455566666666665544322222233444444


Q ss_pred             cc
Q 042981          603 TL  604 (876)
Q Consensus       603 ~L  604 (876)
                      .|
T Consensus       152 ~L  153 (290)
T 1p9a_G          152 KL  153 (290)
T ss_dssp             EE
T ss_pred             EE
Confidence            44

>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=99.64  E-value=2.1e-17  Score=182.34  Aligned_cols=242  Identities=16%  Similarity=0.154  Sum_probs=145.1

Q ss_pred             CCCCcccccCCCcceEEeeecCCCCCCCCchhh---hHHHhccCCcceEEecCccccccCCCCCcc-cccccc-------
Q 042981          455 GASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSI---LSELFSKLACFRALVIGQRNFIFDPYPNLI-REIPEN-------  523 (876)
Q Consensus       455 ~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~---~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i-~~lp~~-------  523 (876)
                      ...++..+..+++|++|++.+|.     +....   +...+..+++|++|+|++|.+      +.+ ..+|..       
T Consensus        21 ~~~l~~~l~~~~~L~~L~L~~n~-----i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~------~~l~~~~~~~~~~l~~~   89 (386)
T 2ca6_A           21 EKSVFAVLLEDDSVKEIVLSGNT-----IGTEAARWLSENIASKKDLEIAEFSDIFT------GRVKDEIPEALRLLLQA   89 (386)
T ss_dssp             HHTTSHHHHHCSCCCEEECTTSE-----ECHHHHHHHHHTTTTCTTCCEEECCSCCT------TSCGGGSHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCccEEECCCCC-----CCHHHHHHHHHHHHhCCCccEEeCccccc------CccccchhHHHHHHHHH
Confidence            34456677788889999997664     22221   233467888999999944321      111 123433       


Q ss_pred             cccCcccCeeeccCccccc-----cchhhccCCcccEEeecCCCCCcc----ccccccCc---------CCCceEecCCC
Q 042981          524 VRKLIHLKYLNLSELCIER-----LPKTLCELYNLQKLDIRWCEDLRE----LPAGIGKL---------KKMRSLLNGGT  585 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~~-----lp~~i~~L~~L~~L~L~~~~~l~~----lp~~i~~L---------~~L~~L~l~~~  585 (876)
                      +..+++|++|+|++|.++.     +|..+.++++|++|+|++|.....    ++..+..+         ++|++|++++|
T Consensus        90 l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n  169 (386)
T 2ca6_A           90 LLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRN  169 (386)
T ss_dssp             HTTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSS
T ss_pred             HhhCCcccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCC
Confidence            3678899999999998875     788888899999999998854322    33334444         88999999988


Q ss_pred             CCC-ccCC---ccCCCCCCCCccCceeecCccCCCcccccc----------ccccCCCCCCeeeeCcCCCCCcc----hh
Q 042981          586 PLL-KYMP---IGISKLTSLRTLEKFAMGGGVDDISTCRLE----------SLKNLQLLRECGIEGLSNVSHLD----ED  647 (876)
Q Consensus       586 ~~~-~~~p---~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~----------~L~~L~~L~~L~l~~~~~~~~~~----~~  647 (876)
                      .+. ..+|   ..+..+++|++|          +++.+.+.          .+..+++|+.|+++++    .+.    ..
T Consensus       170 ~l~~~~~~~l~~~l~~~~~L~~L----------~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n----~l~~~g~~~  235 (386)
T 2ca6_A          170 RLENGSMKEWAKTFQSHRLLHTV----------KMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDN----TFTHLGSSA  235 (386)
T ss_dssp             CCTGGGHHHHHHHHHHCTTCCEE----------ECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSS----CCHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhCCCcCEE----------ECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCC----CCCcHHHHH
Confidence            765 3333   344556666666          33333333          4455666666666652    222    33


Q ss_pred             hhccCcccccCCceEEEeccCCccccchHHHHHhhC--CCCCCccEEEEeecCCCC-----CCchh-hcccCCcEEEEec
Q 042981          648 ERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEAL--QPPLNVKELGIVSYGGNI-----FPKWL-TSLTNLRDLRLKS  719 (876)
Q Consensus       648 ~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l--~~~~~L~~L~l~~~~~~~-----lp~~l-~~l~~L~~L~L~~  719 (876)
                      .+..+..+++|+.|+|++|.+....   ...+...+  ..+++|+.|++++|....     +|.++ ..+++|++|+|++
T Consensus       236 l~~~l~~~~~L~~L~L~~n~i~~~~---~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~  312 (386)
T 2ca6_A          236 LAIALKSWPNLRELGLNDCLLSARG---AAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNG  312 (386)
T ss_dssp             HHHHGGGCTTCCEEECTTCCCCHHH---HHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTT
T ss_pred             HHHHHccCCCcCEEECCCCCCchhh---HHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccC
Confidence            3445566666777777666553111   11122333  225566666666665554     55555 3456666666666


Q ss_pred             CCCCC
Q 042981          720 CVICE  724 (876)
Q Consensus       720 ~~~~~  724 (876)
                      |.+.+
T Consensus       313 N~l~~  317 (386)
T 2ca6_A          313 NRFSE  317 (386)
T ss_dssp             SBSCT
T ss_pred             CcCCc
Confidence            66554

>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=99.63  E-value=5.7e-16  Score=162.15  Aligned_cols=216  Identities=21%  Similarity=0.193  Sum_probs=132.0

Q ss_pred             CCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccc-ccccCcccCe
Q 042981          454 GGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPE-NVRKLIHLKY  532 (876)
Q Consensus       454 ~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~-~i~~L~~Lr~  532 (876)
                      ++..+|..+.  ++|++|++.++.      ...+....|..+++|++|++         ++|.+..++. .+.++++|++
T Consensus        18 ~l~~ip~~l~--~~l~~L~ls~n~------l~~~~~~~~~~l~~L~~L~l---------~~n~l~~~~~~~~~~l~~L~~   80 (276)
T 2z62_A           18 NFYKIPDNLP--FSTKNLDLSFNP------LRHLGSYSFFSFPELQVLDL---------SRCEIQTIEDGAYQSLSHLST   80 (276)
T ss_dssp             CCSSCCSSSC--TTCCEEECTTCC------CCEECTTTTTTCTTCSEEEC---------TTCCCCEECTTTTTTCTTCCE
T ss_pred             CccccCCCCC--CCccEEECCCCc------ccccCHhHhccccCCcEEEC---------CCCcCCccCHHHccCCcCCCE
Confidence            3444555443  568888886665      23344445777888888888         6666666653 5778888888


Q ss_pred             eeccCccccccc-hhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCc-cCCccCCCCCCCCccCceeec
Q 042981          533 LNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLK-YMPIGISKLTSLRTLEKFAMG  610 (876)
Q Consensus       533 L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~-~~p~~i~~l~~L~~L~~~~~~  610 (876)
                      |+|++|.++.++ ..+.++++|++|++++|......+..+..+++|++|++++|.+.. .+|..++++++|++|      
T Consensus        81 L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L------  154 (276)
T 2z62_A           81 LILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHL------  154 (276)
T ss_dssp             EECTTCCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEE------
T ss_pred             EECCCCccCccChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEE------
Confidence            888888888666 467888888888888874433334467788888888888886644 256666666666666      


Q ss_pred             CccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCC----ceEEEeccCCccccchHHHHHhhCCCC
Q 042981          611 GGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLL----RLSLEFDEEGEEGRRKNQQLLEALQPP  686 (876)
Q Consensus       611 ~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~----~L~L~~~~~~~~~~~~~~~~~~~l~~~  686 (876)
                          +++.+.+..+                       .+..+..+.+|+    .|++++|.+....        ......
T Consensus       155 ----~Ls~N~l~~~-----------------------~~~~~~~l~~L~~l~l~L~ls~n~l~~~~--------~~~~~~  199 (276)
T 2z62_A          155 ----DLSSNKIQSI-----------------------YCTDLRVLHQMPLLNLSLDLSLNPMNFIQ--------PGAFKE  199 (276)
T ss_dssp             ----ECCSSCCCEE-----------------------CGGGGHHHHTCTTCCEEEECCSSCCCEEC--------TTSSCS
T ss_pred             ----ECCCCCCCcC-----------------------CHHHhhhhhhccccceeeecCCCcccccC--------ccccCC
Confidence                3333322221                       111223333333    4555555542111        011122


Q ss_pred             CCccEEEEeecCCCCCCch-hhcccCCcEEEEecCCCCCCCC
Q 042981          687 LNVKELGIVSYGGNIFPKW-LTSLTNLRDLRLKSCVICEHFP  727 (876)
Q Consensus       687 ~~L~~L~l~~~~~~~lp~~-l~~l~~L~~L~L~~~~~~~~lp  727 (876)
                      .+|+.|+++++....+|.. +..+++|+.|+|++|++....+
T Consensus       200 ~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~c~c~  241 (276)
T 2z62_A          200 IRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  241 (276)
T ss_dssp             CCEEEEECCSSCCSCCCTTTTTTCCSCCEEECCSSCBCCCTT
T ss_pred             CcccEEECCCCceeecCHhHhcccccccEEEccCCcccccCC
Confidence            3566666666666666654 3567778888888777654433

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.63  E-value=1.8e-15  Score=157.74  Aligned_cols=63  Identities=22%  Similarity=0.215  Sum_probs=30.6

Q ss_pred             cccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCC
Q 042981          524 VRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~  587 (876)
                      +..+++|++|+|++|.++.++ .++++++|++|++++|......|..+.++++|++|++++|.+
T Consensus        59 l~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l  121 (272)
T 3rfs_A           59 IQYLPNVRYLALGGNKLHDIS-ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQL  121 (272)
T ss_dssp             GGGCTTCCEEECTTSCCCCCG-GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCC
T ss_pred             cccCCCCcEEECCCCCCCCch-hhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcC
Confidence            444555555555555555443 455555555555555532222222345555555555555544

>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=99.63  E-value=5.8e-17  Score=175.20  Aligned_cols=254  Identities=16%  Similarity=0.176  Sum_probs=145.2

Q ss_pred             cceEEeeecCCCCCCCCchhhhHHHhccC--CcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccc--
Q 042981          467 RLRTLLIYFQSPSNPSLNSSILSELFSKL--ACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIER--  542 (876)
Q Consensus       467 ~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l--~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~--  542 (876)
                      .++.+++.++.     +.    +..+..+  +.++.|++         .++.+...+..+..+++|++|+|++|.++.  
T Consensus        48 ~~~~l~l~~~~-----~~----~~~~~~~~~~~l~~L~l---------~~n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~  109 (336)
T 2ast_B           48 LWQTLDLTGKN-----LH----PDVTGRLLSQGVIAFRC---------PRSFMDQPLAEHFSPFRVQHMDLSNSVIEVST  109 (336)
T ss_dssp             TSSEEECTTCB-----CC----HHHHHHHHHTTCSEEEC---------TTCEECSCCCSCCCCBCCCEEECTTCEECHHH
T ss_pred             hheeecccccc-----CC----HHHHHhhhhccceEEEc---------CCccccccchhhccCCCCCEEEccCCCcCHHH
Confidence            36677775443     12    2234444  67777777         555555555556667777888887777662  


Q ss_pred             cchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCC-CCc-cCCccCCCCCCCCccCceeecCccCCCcccc
Q 042981          543 LPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTP-LLK-YMPIGISKLTSLRTLEKFAMGGGVDDISTCR  620 (876)
Q Consensus       543 lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~-~~~-~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~  620 (876)
                      +|..+..+++|++|++++|......|..+.++++|++|++++|. +.. .+|..                          
T Consensus       110 ~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~--------------------------  163 (336)
T 2ast_B          110 LHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTL--------------------------  163 (336)
T ss_dssp             HHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHH--------------------------
T ss_pred             HHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHH--------------------------
Confidence            66677777777777777775444566677777777777777772 221 12222                          


Q ss_pred             ccccccCCCCCCeeeeCcCCCCCcchhhhccCcccc-cCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCC
Q 042981          621 LESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMK-NLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGG  699 (876)
Q Consensus       621 l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~-~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~  699 (876)
                         +..+++|+.|+++++..+..  ...+..+..++ +|+.|++++|..                             ..
T Consensus       164 ---~~~~~~L~~L~l~~~~~l~~--~~~~~~~~~l~~~L~~L~l~~~~~-----------------------------~~  209 (336)
T 2ast_B          164 ---LSSCSRLDELNLSWCFDFTE--KHVQVAVAHVSETITQLNLSGYRK-----------------------------NL  209 (336)
T ss_dssp             ---HHHCTTCCEEECCCCTTCCH--HHHHHHHHHSCTTCCEEECCSCGG-----------------------------GS
T ss_pred             ---HhcCCCCCEEcCCCCCCcCh--HHHHHHHHhcccCCCEEEeCCCcc-----------------------------cC
Confidence               22333444444444211111  11222344455 566666655521                             11


Q ss_pred             --CCCCchhhcccCCcEEEEecCC-CCC-CCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCccccc
Q 042981          700 --NIFPKWLTSLTNLRDLRLKSCV-ICE-HFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIA  774 (876)
Q Consensus       700 --~~lp~~l~~l~~L~~L~L~~~~-~~~-~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  774 (876)
                        ..+|..+..+++|++|+|++|. +.+ .++.++.++ |+.|++++|..+  .+..+.                 .+..
T Consensus       210 ~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~--~~~~~~-----------------~l~~  270 (336)
T 2ast_B          210 QKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDI--IPETLL-----------------ELGE  270 (336)
T ss_dssp             CHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTC--CGGGGG-----------------GGGG
T ss_pred             CHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCCC--CHHHHH-----------------HHhc
Confidence              2235556678888888888888 433 455677778 888888877522  111111                 1345


Q ss_pred             CcccceeeccccccccccccccccccccCcc-cccceeeeccCccCCCCCCCCC
Q 042981          775 FPKLKSLHIGAMEELEEWNYRITRKENISIM-PRLSSLTIWYCPRLRVLPDYLF  827 (876)
Q Consensus       775 ~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l-~~L~~L~l~~c~~l~~lp~~l~  827 (876)
                      +++|+.|++++|  +...        .+..+ .+|+.|++++|......|..+.
T Consensus       271 ~~~L~~L~l~~~--i~~~--------~~~~l~~~l~~L~l~~n~l~~~~~~~~~  314 (336)
T 2ast_B          271 IPTLKTLQVFGI--VPDG--------TLQLLKEALPHLQINCSHFTTIARPTIG  314 (336)
T ss_dssp             CTTCCEEECTTS--SCTT--------CHHHHHHHSTTSEESCCCSCCTTCSSCS
T ss_pred             CCCCCEEeccCc--cCHH--------HHHHHHhhCcceEEecccCccccCCccc
Confidence            788888888776  2221        12233 3467777877765556665543

>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=99.62  E-value=1.3e-15  Score=161.80  Aligned_cols=54  Identities=26%  Similarity=0.236  Sum_probs=31.5

Q ss_pred             CccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCC
Q 042981          688 NVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLY  743 (876)
Q Consensus       688 ~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~  743 (876)
                      +|+.|++.++....+|. +..+++|++|+|++|.+.+. +++..++ |+.|++++|+
T Consensus       174 ~L~~L~l~~n~l~~~~~-l~~l~~L~~L~L~~N~l~~~-~~l~~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          174 KLTTLKADDNKISDISP-LASLPNLIEVHLKNNQISDV-SPLANTSNLFIVTLTNQT  228 (308)
T ss_dssp             TCCEEECCSSCCCCCGG-GGGCTTCCEEECTTSCCCBC-GGGTTCTTCCEEEEEEEE
T ss_pred             CCCEEECCCCccCcChh-hcCCCCCCEEEccCCccCcc-ccccCCCCCCEEEccCCe
Confidence            34444444444344443 55677777777777776543 3466677 7777777654

>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=99.62  E-value=2.5e-15  Score=158.01  Aligned_cols=123  Identities=18%  Similarity=0.118  Sum_probs=90.3

Q ss_pred             ccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-cccccCcccCeeeccCccc
Q 042981          462 IHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVRKLIHLKYLNLSELCI  540 (876)
Q Consensus       462 ~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~~L~~Lr~L~Ls~~~i  540 (876)
                      +.++++++++++.++.      ...++..+   .+.+++|+|         ++|.+..++ ..+.++++|++|+|++|.|
T Consensus         6 ~~~l~~l~~l~~~~~~------l~~ip~~~---~~~l~~L~L---------~~N~l~~~~~~~~~~l~~L~~L~L~~n~l   67 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRN------LTALPPDL---PKDTTILHL---------SENLLYTFSLATLMPYTRLTQLNLDRAEL   67 (290)
T ss_dssp             EECSTTCCEEECTTSC------CSSCCSCC---CTTCCEEEC---------TTSCCSEEEGGGGTTCTTCCEEECTTSCC
T ss_pred             ccccCCccEEECCCCC------CCcCCCCC---CCCCCEEEc---------CCCcCCccCHHHhhcCCCCCEEECCCCcc
Confidence            5667788888886654      22333322   257888888         666666654 5678888888888888888


Q ss_pred             cccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          541 ERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       541 ~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      +.+|.. +.+++|++|++++| .+..+|..+..+++|++|++++|.+....|..++++++|++|
T Consensus        68 ~~~~~~-~~l~~L~~L~Ls~N-~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L  129 (290)
T 1p9a_G           68 TKLQVD-GTLPVLGTLDLSHN-QLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQEL  129 (290)
T ss_dssp             CEEECC-SCCTTCCEEECCSS-CCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEE
T ss_pred             CcccCC-CCCCcCCEEECCCC-cCCcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEE
Confidence            887764 78888888888888 567788888888888888888887754444556777777776

>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=8.2e-15  Score=149.68  Aligned_cols=68  Identities=21%  Similarity=0.313  Sum_probs=46.0

Q ss_pred             ccccccccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccc-cccCcCCCceEecCC-CCC
Q 042981          517 IREIPENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPA-GIGKLKKMRSLLNGG-TPL  587 (876)
Q Consensus       517 i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~L~l~~-~~~  587 (876)
                      +..+|. +.  .+|++|+|++|.++.+|. .+.++++|++|++++|..+..+|. .+.++++|++|++++ |.+
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   93 (239)
T 2xwt_C           23 IQRIPS-LP--PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNL   93 (239)
T ss_dssp             CSSCCC-CC--TTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTC
T ss_pred             ccccCC-CC--CcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCe
Confidence            455665 43  367788888887777766 577777788888877743555543 567777777777776 544

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.61  E-value=2.7e-15  Score=156.35  Aligned_cols=193  Identities=21%  Similarity=0.236  Sum_probs=114.8

Q ss_pred             eEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccc-
Q 042981          445 VRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPEN-  523 (876)
Q Consensus       445 lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~-  523 (876)
                      .+.++++.+.+..+|..+.  ++|+.|++.++.      ...++...|..+++|++|++         ++|.+..+|.. 
T Consensus        18 ~~~l~~~~~~l~~ip~~~~--~~l~~L~l~~n~------l~~~~~~~~~~l~~L~~L~l---------~~n~l~~i~~~~   80 (270)
T 2o6q_A           18 KNSVDCSSKKLTAIPSNIP--ADTKKLDLQSNK------LSSLPSKAFHRLTKLRLLYL---------NDNKLQTLPAGI   80 (270)
T ss_dssp             TTEEECTTSCCSSCCSCCC--TTCSEEECCSSC------CSCCCTTSSSSCTTCCEEEC---------CSSCCSCCCTTT
T ss_pred             CCEEEccCCCCCccCCCCC--CCCCEEECcCCC------CCeeCHHHhcCCCCCCEEEC---------CCCccCeeChhh
Confidence            4556677777766665543  567777776654      23334445677777888887         66666666654 


Q ss_pred             cccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCC
Q 042981          524 VRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLR  602 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~  602 (876)
                      +.++++|++|+|++|.++.+|. .+.++++|++|++++|......|..+..+++|++|++++|.+....+..++.+++|+
T Consensus        81 ~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  160 (270)
T 2o6q_A           81 FKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLK  160 (270)
T ss_dssp             TSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             hcCCCCCCEEECCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccc
Confidence            3677778888888777777765 356777788888877744444444567777888888877765433333356666766


Q ss_pred             ccCceeecCccCCCcccccc-----ccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccC
Q 042981          603 TLEKFAMGGGVDDISTCRLE-----SLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEE  668 (876)
Q Consensus       603 ~L~~~~~~~~~~~ls~~~l~-----~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~  668 (876)
                      .|          +++.+.+.     .+..+++|+.|++++.    .+.......+..+++|+.|++++|.+
T Consensus       161 ~L----------~L~~n~l~~~~~~~~~~l~~L~~L~L~~N----~l~~~~~~~~~~l~~L~~L~l~~N~~  217 (270)
T 2o6q_A          161 EL----------RLYNNQLKRVPEGAFDKLTELKTLKLDNN----QLKRVPEGAFDSLEKLKMLQLQENPW  217 (270)
T ss_dssp             EE----------ECCSSCCSCCCTTTTTTCTTCCEEECCSS----CCSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             ee----------EecCCcCcEeChhHhccCCCcCEEECCCC----cCCcCCHHHhccccCCCEEEecCCCe
Confidence            66          22233222     2334445555555542    11111222344555666666665543

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.60  E-value=8.7e-15  Score=152.45  Aligned_cols=174  Identities=24%  Similarity=0.275  Sum_probs=91.3

Q ss_pred             CcceEEecCccccccCCCCCccccccc-ccccCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCcccc-cccc
Q 042981          496 ACFRALVIGQRNFIFDPYPNLIREIPE-NVRKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELP-AGIG  572 (876)
Q Consensus       496 ~~Lr~L~L~~~~~~~~~~~~~i~~lp~-~i~~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp-~~i~  572 (876)
                      +.|+.|+|         ++|.+..+|. .+.++++|++|+|++|.++.+|.. +.++++|++|++++|. +..+| ..+.
T Consensus        37 ~~l~~L~l---------~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~  106 (270)
T 2o6q_A           37 ADTKKLDL---------QSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNK-LQALPIGVFD  106 (270)
T ss_dssp             TTCSEEEC---------CSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSC-CCCCCTTTTT
T ss_pred             CCCCEEEC---------cCCCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCc-CCcCCHhHcc
Confidence            34556666         4444455443 455566666666666666655543 3556666666666553 33333 3345


Q ss_pred             CcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccC
Q 042981          573 KLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGL  652 (876)
Q Consensus       573 ~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l  652 (876)
                      .+++|++|++++|.+....|..++.+++|++|          +++.+.+..+                       ....+
T Consensus       107 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L----------~Ls~n~l~~~-----------------------~~~~~  153 (270)
T 2o6q_A          107 QLVNLAELRLDRNQLKSLPPRVFDSLTKLTYL----------SLGYNELQSL-----------------------PKGVF  153 (270)
T ss_dssp             TCSSCCEEECCSSCCCCCCTTTTTTCTTCCEE----------ECCSSCCCCC-----------------------CTTTT
T ss_pred             cccCCCEEECCCCccCeeCHHHhCcCcCCCEE----------ECCCCcCCcc-----------------------CHhHc
Confidence            56666666666655433333334444444444          2222211111                       11123


Q ss_pred             cccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCc-hhhcccCCcEEEEecCCCCCCCC-CCC
Q 042981          653 HNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPK-WLTSLTNLRDLRLKSCVICEHFP-PLG  730 (876)
Q Consensus       653 ~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~-~l~~l~~L~~L~L~~~~~~~~lp-~l~  730 (876)
                      ..+++|+.|++++|                               ....+|. .+..+++|++|+|++|.+.+..+ .++
T Consensus       154 ~~l~~L~~L~L~~n-------------------------------~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~  202 (270)
T 2o6q_A          154 DKLTSLKELRLYNN-------------------------------QLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFD  202 (270)
T ss_dssp             TTCTTCCEEECCSS-------------------------------CCSCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTT
T ss_pred             cCCcccceeEecCC-------------------------------cCcEeChhHhccCCCcCEEECCCCcCCcCCHHHhc
Confidence            34445555555444                               3344443 45677788888888887765333 266


Q ss_pred             ccc-CceEeecCCC
Q 042981          731 KLP-LEKLTLYGLY  743 (876)
Q Consensus       731 ~Lp-L~~L~L~~~~  743 (876)
                      .++ |+.|+|++|+
T Consensus       203 ~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          203 SLEKLKMLQLQENP  216 (270)
T ss_dssp             TCTTCCEEECCSSC
T ss_pred             cccCCCEEEecCCC
Confidence            677 8888887765

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.60  E-value=2.6e-14  Score=154.86  Aligned_cols=102  Identities=19%  Similarity=0.104  Sum_probs=67.2

Q ss_pred             cCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeecccccc
Q 042981          710 TNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEE  788 (876)
Q Consensus       710 ~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  788 (876)
                      ..|+.|+|++|.+.+..+.....+ |+.|.+.++..+..++...                   +..+++|+.|+++++ .
T Consensus       154 ~~l~~L~L~~N~i~~i~~~~f~~~~L~~l~l~~~n~l~~i~~~~-------------------f~~l~~L~~LdLs~N-~  213 (350)
T 4ay9_X          154 FESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDV-------------------FHGASGPVILDISRT-R  213 (350)
T ss_dssp             SSCEEEECCSSCCCEECTTSSTTEEEEEEECTTCTTCCCCCTTT-------------------TTTEECCSEEECTTS-C
T ss_pred             hhhhhhccccccccCCChhhccccchhHHhhccCCcccCCCHHH-------------------hccCcccchhhcCCC-C
Confidence            467888888888765333333445 7888887665555443321                   336788888887776 4


Q ss_pred             ccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecC
Q 042981          789 LEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYC  840 (876)
Q Consensus       789 L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~  840 (876)
                      ++.+..        ..+.+|+.|.+.+|..++.+|. +..+++|+.+++.++
T Consensus       214 l~~lp~--------~~~~~L~~L~~l~~~~l~~lP~-l~~l~~L~~l~l~~~  256 (350)
T 4ay9_X          214 IHSLPS--------YGLENLKKLRARSTYNLKKLPT-LEKLVALMEASLTYP  256 (350)
T ss_dssp             CCCCCS--------SSCTTCCEEECTTCTTCCCCCC-TTTCCSCCEEECSCH
T ss_pred             cCccCh--------hhhccchHhhhccCCCcCcCCC-chhCcChhhCcCCCC
Confidence            544321        2467777777777777888884 677888888888653

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.59  E-value=9.3e-15  Score=155.23  Aligned_cols=138  Identities=20%  Similarity=0.271  Sum_probs=98.7

Q ss_pred             CceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccc
Q 042981          443 DKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPE  522 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~  522 (876)
                      +++++|++..+.+..++ .+..+++|++|++.+|.      ...+..  +..+++|++|++         ++|.+..+| 
T Consensus        41 ~~L~~L~l~~~~i~~l~-~~~~l~~L~~L~L~~n~------i~~~~~--~~~l~~L~~L~L---------~~n~l~~~~-  101 (308)
T 1h6u_A           41 DGITTLSAFGTGVTTIE-GVQYLNNLIGLELKDNQ------ITDLAP--LKNLTKITELEL---------SGNPLKNVS-  101 (308)
T ss_dssp             HTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSC------CCCCGG--GTTCCSCCEEEC---------CSCCCSCCG-
T ss_pred             CCcCEEEeeCCCccCch-hhhccCCCCEEEccCCc------CCCChh--HccCCCCCEEEc---------cCCcCCCch-
Confidence            46778888887777654 57778888888887665      222222  677888888888         555566654 


Q ss_pred             ccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCC
Q 042981          523 NVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLR  602 (876)
Q Consensus       523 ~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~  602 (876)
                      .+..+++|++|+|++|.++.+|. +..+++|++|++++| .+..+|. +..+++|++|++++|.+. .++. +..+++|+
T Consensus       102 ~~~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n-~l~~~~~-l~~l~~L~~L~l~~n~l~-~~~~-l~~l~~L~  176 (308)
T 1h6u_A          102 AIAGLQSIKTLDLTSTQITDVTP-LAGLSNLQVLYLDLN-QITNISP-LAGLTNLQYLSIGNAQVS-DLTP-LANLSKLT  176 (308)
T ss_dssp             GGTTCTTCCEEECTTSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG-GGGCTTCCEEECCSSCCC-CCGG-GTTCTTCC
T ss_pred             hhcCCCCCCEEECCCCCCCCchh-hcCCCCCCEEECCCC-ccCcCcc-ccCCCCccEEEccCCcCC-CChh-hcCCCCCC
Confidence            57778888888888888887765 788888888888887 4555555 778888888888888653 3443 66666666


Q ss_pred             cc
Q 042981          603 TL  604 (876)
Q Consensus       603 ~L  604 (876)
                      .|
T Consensus       177 ~L  178 (308)
T 1h6u_A          177 TL  178 (308)
T ss_dssp             EE
T ss_pred             EE
Confidence            66

>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=99.57  E-value=1.6e-14  Score=156.66  Aligned_cols=229  Identities=17%  Similarity=0.169  Sum_probs=136.4

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccc-cccCcCCCce-EecCCCCCCc
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPA-GIGKLKKMRS-LLNGGTPLLK  589 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~-L~l~~~~~~~  589 (876)
                      +++.++++|..+.  .+|++|+|++|.|+.+|. .|.++++|++|+|++|...+.+|. .|.++++|.+ +.+.+|.+..
T Consensus        17 ~~~~Lt~iP~~l~--~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~   94 (350)
T 4ay9_X           17 QESKVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLY   94 (350)
T ss_dssp             ESTTCCSCCTTCC--TTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCE
T ss_pred             cCCCCCccCcCcC--CCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcccc
Confidence            4555666776552  467777777777777775 467777777777777755555554 3566766665 3344454544


Q ss_pred             cCCccCCCCCCCCccCceeecCccCCCccccccccccC-----CCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEE
Q 042981          590 YMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNL-----QLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLE  664 (876)
Q Consensus       590 ~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L-----~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~  664 (876)
                      ..|..+..+++|++|.          ++.+.+..+...     .++..|.+.+...+..+.   ...+..+         
T Consensus        95 l~~~~f~~l~~L~~L~----------l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~---~~~f~~~---------  152 (350)
T 4ay9_X           95 INPEAFQNLPNLQYLL----------ISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIE---RNSFVGL---------  152 (350)
T ss_dssp             ECTTSBCCCTTCCEEE----------EEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEEC---TTSSTTS---------
T ss_pred             cCchhhhhcccccccc----------ccccccccCCchhhcccchhhhhhhcccccccccc---ccchhhc---------
Confidence            4455566666666662          223333222211     112222222211111110   0011111         


Q ss_pred             eccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCC--CCccc-CceEeecC
Q 042981          665 FDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPP--LGKLP-LEKLTLYG  741 (876)
Q Consensus       665 ~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~--l~~Lp-L~~L~L~~  741 (876)
                                           ...++.|++.++....+|.......+|+.|++++|...+.+|.  ++.++ |+.|+|++
T Consensus       153 ---------------------~~~l~~L~L~~N~i~~i~~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~  211 (350)
T 4ay9_X          153 ---------------------SFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISR  211 (350)
T ss_dssp             ---------------------BSSCEEEECCSSCCCEECTTSSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTT
T ss_pred             ---------------------chhhhhhccccccccCCChhhccccchhHHhhccCCcccCCCHHHhccCcccchhhcCC
Confidence                                 1245566666666677777777778999999998776677765  78899 99999999


Q ss_pred             CCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccC
Q 042981          742 LYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYC  816 (876)
Q Consensus       742 ~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c  816 (876)
                      |... .++.                      ..|.+|+.|.+.++.+++..      | .+..+++|+.+++.++
T Consensus       212 N~l~-~lp~----------------------~~~~~L~~L~~l~~~~l~~l------P-~l~~l~~L~~l~l~~~  256 (350)
T 4ay9_X          212 TRIH-SLPS----------------------YGLENLKKLRARSTYNLKKL------P-TLEKLVALMEASLTYP  256 (350)
T ss_dssp             SCCC-CCCS----------------------SSCTTCCEEECTTCTTCCCC------C-CTTTCCSCCEEECSCH
T ss_pred             CCcC-ccCh----------------------hhhccchHhhhccCCCcCcC------C-CchhCcChhhCcCCCC
Confidence            8633 2211                      24677777777777666654      2 4668999999999763

>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=99.57  E-value=6e-15  Score=150.67  Aligned_cols=121  Identities=17%  Similarity=0.159  Sum_probs=58.2

Q ss_pred             cceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCc-cccccc-ccccCcccCeeeccC-cccccc
Q 042981          467 RLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNL-IREIPE-NVRKLIHLKYLNLSE-LCIERL  543 (876)
Q Consensus       467 ~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~-i~~lp~-~i~~L~~Lr~L~Ls~-~~i~~l  543 (876)
                      +|+.|++.++.      ...+++..|..+++|++|++         ++|. +..+|. .+.++++|++|+|++ |.++.+
T Consensus        32 ~l~~L~l~~n~------l~~i~~~~~~~l~~L~~L~l---------~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i   96 (239)
T 2xwt_C           32 STQTLKLIETH------LRTIPSHAFSNLPNISRIYV---------SIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYI   96 (239)
T ss_dssp             TCCEEEEESCC------CSEECTTTTTTCTTCCEEEE---------ECCSSCCEECTTTEESCTTCCEEEEEEETTCCEE
T ss_pred             cccEEEEeCCc------ceEECHHHccCCCCCcEEeC---------CCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEc
Confidence            45555554443      22233333455555555555         4443 444443 345555555555555 555555


Q ss_pred             ch-hhccCCcccEEeecCCCCCccccccccCcCCCc---eEecCCC-CCCccCCccCCCCCCCC-cc
Q 042981          544 PK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMR---SLLNGGT-PLLKYMPIGISKLTSLR-TL  604 (876)
Q Consensus       544 p~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~---~L~l~~~-~~~~~~p~~i~~l~~L~-~L  604 (876)
                      |. .+.++++|++|++++| .+..+|. +..+++|+   +|++++| .+....+..+.++++|+ +|
T Consensus        97 ~~~~f~~l~~L~~L~l~~n-~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L  161 (239)
T 2xwt_C           97 DPDALKELPLLKFLGIFNT-GLKMFPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTL  161 (239)
T ss_dssp             CTTSEECCTTCCEEEEEEE-CCCSCCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEE
T ss_pred             CHHHhCCCCCCCEEeCCCC-CCccccc-cccccccccccEEECCCCcchhhcCcccccchhcceeEE
Confidence            43 3455555555555555 2334554 55555555   5555555 33222222344444444 44

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.56  E-value=2.3e-14  Score=152.52  Aligned_cols=229  Identities=17%  Similarity=0.092  Sum_probs=146.0

Q ss_pred             CCcceEEeeecCCCCCCCCchhhhHHH--hccCCcceEEecCccccccCCCCCccc-cccccc--ccCcccCeeeccCcc
Q 042981          465 LNRLRTLLIYFQSPSNPSLNSSILSEL--FSKLACFRALVIGQRNFIFDPYPNLIR-EIPENV--RKLIHLKYLNLSELC  539 (876)
Q Consensus       465 ~~~Lr~L~l~~~~~~~~~~~~~~~~~~--~~~l~~Lr~L~L~~~~~~~~~~~~~i~-~lp~~i--~~L~~Lr~L~Ls~~~  539 (876)
                      ...++.+.+....     +.......+  +..+++|+.|++         ++|.+. ..|..+  ..+++|++|+|++|.
T Consensus        63 ~~~l~~l~l~~~~-----~~~~~~~~~~~~~~~~~L~~L~l---------~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~  128 (310)
T 4glp_A           63 ALRVRRLTVGAAQ-----VPAQLLVGALRVLAYSRLKELTL---------EDLKITGTMPPLPLEATGLALSSLRLRNVS  128 (310)
T ss_dssp             SCCCCEEEECSCC-----CBHHHHHHHHHHHHHSCCCEEEE---------ESCCCBSCCCCCSSSCCCBCCSSCEEESCC
T ss_pred             hcceeEEEEeCCc-----CCHHHHHHHHHhcccCceeEEEe---------eCCEeccchhhhhhhccCCCCCEEEeeccc
Confidence            3456777775543     222212211  234566999999         555554 456666  889999999999999


Q ss_pred             ccc-cc----hhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCcc--CC--ccCCCCCCCCccCceeec
Q 042981          540 IER-LP----KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKY--MP--IGISKLTSLRTLEKFAMG  610 (876)
Q Consensus       540 i~~-lp----~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~--~p--~~i~~l~~L~~L~~~~~~  610 (876)
                      ++. .|    ..+..+++|++|+|++|......|..+..+++|++|++++|.+.+.  ++  ..++.+++|++|      
T Consensus       129 i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L------  202 (310)
T 4glp_A          129 WATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNL------  202 (310)
T ss_dssp             CSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSC------
T ss_pred             ccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEE------
Confidence            884 22    3456799999999999966556667889999999999999976542  22  233667777777      


Q ss_pred             CccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCcc
Q 042981          611 GGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVK  690 (876)
Q Consensus       611 ~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~  690 (876)
                          +++.+.+..++                    ......+..+++|+.|+|++|.+....+.    .+..+..+++|+
T Consensus       203 ----~Ls~N~l~~l~--------------------~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~----~~~~~~~~~~L~  254 (310)
T 4glp_A          203 ----ALRNTGMETPT--------------------GVCAALAAAGVQPHSLDLSHNSLRATVNP----SAPRCMWSSALN  254 (310)
T ss_dssp             ----BCCSSCCCCHH--------------------HHHHHHHHHTCCCSSEECTTSCCCCCCCS----CCSSCCCCTTCC
T ss_pred             ----ECCCCCCCchH--------------------HHHHHHHhcCCCCCEEECCCCCCCccchh----hHHhccCcCcCC
Confidence                44444443221                    11111123445555555555554321100    011122235677


Q ss_pred             EEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCC
Q 042981          691 ELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYG  744 (876)
Q Consensus       691 ~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~  744 (876)
                      .|++++|....+|.++.  ++|+.|+|++|++.+ +|.+..+| |+.|+|++|+.
T Consensus       255 ~L~Ls~N~l~~lp~~~~--~~L~~L~Ls~N~l~~-~~~~~~l~~L~~L~L~~N~l  306 (310)
T 4glp_A          255 SLNLSFAGLEQVPKGLP--AKLRVLDLSSNRLNR-APQPDELPEVDNLTLDGNPF  306 (310)
T ss_dssp             CEECCSSCCCSCCSCCC--SCCSCEECCSCCCCS-CCCTTSCCCCSCEECSSTTT
T ss_pred             EEECCCCCCCchhhhhc--CCCCEEECCCCcCCC-CchhhhCCCccEEECcCCCC
Confidence            77777777677777764  799999999998864 35577888 99999988763

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.56  E-value=1.7e-14  Score=150.35  Aligned_cols=125  Identities=22%  Similarity=0.217  Sum_probs=76.7

Q ss_pred             ccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCcccc
Q 042981          462 IHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIE  541 (876)
Q Consensus       462 ~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~  541 (876)
                      ...+++|+.|.+.++..      .. ++. +..+++|++|++         ++|.+..++ .++.+++|++|+|++|.++
T Consensus        37 ~~~l~~L~~L~l~~~~i------~~-~~~-l~~l~~L~~L~l---------~~n~l~~~~-~l~~l~~L~~L~L~~n~l~   98 (272)
T 3rfs_A           37 QNELNSIDQIIANNSDI------KS-VQG-IQYLPNVRYLAL---------GGNKLHDIS-ALKELTNLTYLILTGNQLQ   98 (272)
T ss_dssp             HHHHTTCCEEECTTSCC------CC-CTT-GGGCTTCCEEEC---------TTSCCCCCG-GGTTCTTCCEEECTTSCCC
T ss_pred             cccccceeeeeeCCCCc------cc-ccc-cccCCCCcEEEC---------CCCCCCCch-hhcCCCCCCEEECCCCccC
Confidence            34566677777755541      11 111 566777777777         555555543 5677777777777777777


Q ss_pred             ccchh-hccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          542 RLPKT-LCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       542 ~lp~~-i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      .+|.. ++++++|++|++++|......|..+..+++|++|++++|.+.+..|..++.+++|++|
T Consensus        99 ~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  162 (272)
T 3rfs_A           99 SLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTEL  162 (272)
T ss_dssp             CCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             ccChhHhcCCcCCCEEECCCCcCCccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEE
Confidence            66654 5777777777777774333333446777777777777776543333334555555555

>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=99.55  E-value=4.1e-16  Score=171.91  Aligned_cols=233  Identities=19%  Similarity=0.160  Sum_probs=166.8

Q ss_pred             HHhccCCcceEEecCccccccCCCCCcccc-----cccccccCcccCeeeccCcccc----ccchhh-------ccCCcc
Q 042981          490 ELFSKLACFRALVIGQRNFIFDPYPNLIRE-----IPENVRKLIHLKYLNLSELCIE----RLPKTL-------CELYNL  553 (876)
Q Consensus       490 ~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~-----lp~~i~~L~~Lr~L~Ls~~~i~----~lp~~i-------~~L~~L  553 (876)
                      ..+..+++|++|+|         ++|.+..     ++..+..+++|++|+|++|.+.    .+|..+       .++++|
T Consensus        26 ~~l~~~~~L~~L~L---------~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L   96 (386)
T 2ca6_A           26 AVLLEDDSVKEIVL---------SGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKL   96 (386)
T ss_dssp             HHHHHCSCCCEEEC---------TTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTC
T ss_pred             HHHhcCCCccEEEC---------CCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcc
Confidence            34778899999999         5555443     4556778999999999998655    445544       789999


Q ss_pred             cEEeecCCCCCc----cccccccCcCCCceEecCCCCCCccCC----ccCCCC---------CCCCccCceeecCccCCC
Q 042981          554 QKLDIRWCEDLR----ELPAGIGKLKKMRSLLNGGTPLLKYMP----IGISKL---------TSLRTLEKFAMGGGVDDI  616 (876)
Q Consensus       554 ~~L~L~~~~~l~----~lp~~i~~L~~L~~L~l~~~~~~~~~p----~~i~~l---------~~L~~L~~~~~~~~~~~l  616 (876)
                      ++|+|++|....    .+|..+.++++|++|++++|.+....+    ..+..+         ++|++|          ++
T Consensus        97 ~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L----------~L  166 (386)
T 2ca6_A           97 HTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSI----------IC  166 (386)
T ss_dssp             CEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEE----------EC
T ss_pred             cEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEE----------EC
Confidence            999999996544    378889999999999999998743333    223333         788888          33


Q ss_pred             cccccc---------ccccCCCCCCeeeeCcCCCC-CcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCC
Q 042981          617 STCRLE---------SLKNLQLLRECGIEGLSNVS-HLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPP  686 (876)
Q Consensus       617 s~~~l~---------~L~~L~~L~~L~l~~~~~~~-~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~  686 (876)
                      +.+.+.         .+..+++|+.|+++++.-.. ......+..+..+++|+.|+|++|.+..   .....+...+...
T Consensus       167 ~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~---~g~~~l~~~l~~~  243 (386)
T 2ca6_A          167 GRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTH---LGSSALAIALKSW  243 (386)
T ss_dssp             CSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHH---HHHHHHHHHGGGC
T ss_pred             CCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCc---HHHHHHHHHHccC
Confidence            344442         45578899999998842210 0001233367889999999999997631   1123445567778


Q ss_pred             CCccEEEEeecCCCC-----CCchhh--cccCCcEEEEecCCCCC----CCCC-C-Cccc-CceEeecCCCC
Q 042981          687 LNVKELGIVSYGGNI-----FPKWLT--SLTNLRDLRLKSCVICE----HFPP-L-GKLP-LEKLTLYGLYG  744 (876)
Q Consensus       687 ~~L~~L~l~~~~~~~-----lp~~l~--~l~~L~~L~L~~~~~~~----~lp~-l-~~Lp-L~~L~L~~~~~  744 (876)
                      ++|+.|++++|....     +|.++.  .+++|++|+|++|.+..    .+|. + +.+| |+.|++++|..
T Consensus       244 ~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~l  315 (386)
T 2ca6_A          244 PNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRF  315 (386)
T ss_dssp             TTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBS
T ss_pred             CCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccCCcC
Confidence            899999999988654     256664  38999999999999876    3443 3 4578 99999998864

>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=99.52  E-value=3.4e-15  Score=161.27  Aligned_cols=148  Identities=18%  Similarity=0.178  Sum_probs=99.2

Q ss_pred             CceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccc-ccc
Q 042981          443 DKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIR-EIP  521 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~-~lp  521 (876)
                      ..++.+.+..+.+...+..+..+++|++|++.++.     +.....+..+..+++|++|+|         ++|.+. ..|
T Consensus        70 ~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~-----l~~~~~~~~~~~~~~L~~L~L---------~~~~l~~~~~  135 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSV-----IEVSTLHGILSQCSKLQNLSL---------EGLRLSDPIV  135 (336)
T ss_dssp             TTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCE-----ECHHHHHHHHTTBCCCSEEEC---------TTCBCCHHHH
T ss_pred             ccceEEEcCCccccccchhhccCCCCCEEEccCCC-----cCHHHHHHHHhhCCCCCEEeC---------cCcccCHHHH
Confidence            45667777777666555556678888888886553     233335556788888888888         555544 456


Q ss_pred             cccccCcccCeeeccCc-ccc--ccchhhccCCcccEEeecCCCCCcc--ccccccCcC-CCceEecCCCC--CC-ccCC
Q 042981          522 ENVRKLIHLKYLNLSEL-CIE--RLPKTLCELYNLQKLDIRWCEDLRE--LPAGIGKLK-KMRSLLNGGTP--LL-KYMP  592 (876)
Q Consensus       522 ~~i~~L~~Lr~L~Ls~~-~i~--~lp~~i~~L~~L~~L~L~~~~~l~~--lp~~i~~L~-~L~~L~l~~~~--~~-~~~p  592 (876)
                      ..++.+++|++|+|++| .++  .+|..+.++++|++|++++|..+..  +|..+..++ +|++|++++|.  +. ..+|
T Consensus       136 ~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~  215 (336)
T 2ast_B          136 NTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLS  215 (336)
T ss_dssp             HHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHH
T ss_pred             HHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHH
Confidence            67777888888888888 566  4677788888888888888833332  566677888 88888888873  22 2333


Q ss_pred             ccCCCCCCCCcc
Q 042981          593 IGISKLTSLRTL  604 (876)
Q Consensus       593 ~~i~~l~~L~~L  604 (876)
                      ..++++++|++|
T Consensus       216 ~~~~~~~~L~~L  227 (336)
T 2ast_B          216 TLVRRCPNLVHL  227 (336)
T ss_dssp             HHHHHCTTCSEE
T ss_pred             HHHhhCCCCCEE
Confidence            333444444444

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.52  E-value=3.5e-14  Score=151.20  Aligned_cols=144  Identities=16%  Similarity=-0.009  Sum_probs=97.9

Q ss_pred             CceEEEEeeecCCCCC-cccc--cCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          443 DKVRHLGLNFEGGASF-PMSI--HGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~-~~~~--~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      .++++|+++.|.+... +..+  ..+++|++|++.+|....  .........+..+++|++|+|         ++|.+..
T Consensus        91 ~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~--~~~~~~~~~~~~~~~L~~L~L---------s~n~l~~  159 (310)
T 4glp_A           91 SRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWAT--GRSWLAELQQWLKPGLKVLSI---------AQAHSPA  159 (310)
T ss_dssp             SCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSS--TTSSHHHHHTTBCSCCCEEEE---------ECCSSCC
T ss_pred             CceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccc--hhhhhHHHHhhhccCCCEEEe---------eCCCcch
Confidence            3478888888887644 5555  778888888887776221  111112223457888888888         5666665


Q ss_pred             cc-cccccCcccCeeeccCccccc---cchh--hccCCcccEEeecCCCCCcccccc----ccCcCCCceEecCCCCCCc
Q 042981          520 IP-ENVRKLIHLKYLNLSELCIER---LPKT--LCELYNLQKLDIRWCEDLRELPAG----IGKLKKMRSLLNGGTPLLK  589 (876)
Q Consensus       520 lp-~~i~~L~~Lr~L~Ls~~~i~~---lp~~--i~~L~~L~~L~L~~~~~l~~lp~~----i~~L~~L~~L~l~~~~~~~  589 (876)
                      +| ..++.+++|++|+|++|.+..   +|..  ++++++|++|+|++| .+..+|..    +..+++|++|++++|.+.+
T Consensus       160 ~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~  238 (310)
T 4glp_A          160 FSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNT-GMETPTGVCAALAAAGVQPHSLDLSHNSLRA  238 (310)
T ss_dssp             CCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSS-CCCCHHHHHHHHHHHTCCCSSEECTTSCCCC
T ss_pred             hhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCC-CCCchHHHHHHHHhcCCCCCEEECCCCCCCc
Confidence            54 567888888888888888653   4332  467888888888888 45555542    4677888888888887766


Q ss_pred             cCCccCCCC
Q 042981          590 YMPIGISKL  598 (876)
Q Consensus       590 ~~p~~i~~l  598 (876)
                      ..|..++.+
T Consensus       239 ~~p~~~~~~  247 (310)
T 4glp_A          239 TVNPSAPRC  247 (310)
T ss_dssp             CCCSCCSSC
T ss_pred             cchhhHHhc
Confidence            657666554

>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=99.52  E-value=1.1e-13  Score=142.30  Aligned_cols=97  Identities=15%  Similarity=0.134  Sum_probs=67.2

Q ss_pred             cceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcC
Q 042981          497 CFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLK  575 (876)
Q Consensus       497 ~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~  575 (876)
                      ..+.+++         +++.+..+|..+.  .+|++|+|++|.++.++. .+.++++|++|+|++|......|..+..++
T Consensus        15 ~~~~l~~---------~~~~l~~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~   83 (251)
T 3m19_A           15 GKKEVDC---------QGKSLDSVPSGIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLT   83 (251)
T ss_dssp             GGTEEEC---------TTCCCSSCCSCCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCT
T ss_pred             CCeEEec---------CCCCccccCCCCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCC
Confidence            4566777         6666777776665  578888888888776654 577788888888888754444455577788


Q ss_pred             CCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          576 KMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       576 ~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      +|++|++++|.+....+..++.+++|++|
T Consensus        84 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  112 (251)
T 3m19_A           84 ELGTLGLANNQLASLPLGVFDHLTQLDKL  112 (251)
T ss_dssp             TCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             cCCEEECCCCcccccChhHhcccCCCCEE
Confidence            88888888886654444445566666665

>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=1.1e-13  Score=142.49  Aligned_cols=146  Identities=22%  Similarity=0.324  Sum_probs=62.2

Q ss_pred             CceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc
Q 042981          443 DKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP  521 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp  521 (876)
                      ..++.|+++.|.+..+ +..+.++++|++|++.+|.      ...+++..|..+++|++|+|         ++|.+..+|
T Consensus        35 ~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~------l~~~~~~~~~~l~~L~~L~L---------~~n~l~~~~   99 (251)
T 3m19_A           35 ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQ------LQTLSAGVFDDLTELGTLGL---------ANNQLASLP   99 (251)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC------CCCCCTTTTTTCTTCCEEEC---------TTSCCCCCC
T ss_pred             CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCc------CCccCHhHhccCCcCCEEEC---------CCCcccccC
Confidence            3444455544444433 2234444455555544333      11222233444444555555         333333333


Q ss_pred             -cccccCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCccccc-cccCcCCCceEecCCCCCCccCCccCCCC
Q 042981          522 -ENVRKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPA-GIGKLKKMRSLLNGGTPLLKYMPIGISKL  598 (876)
Q Consensus       522 -~~i~~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~~p~~i~~l  598 (876)
                       ..+..+++|++|+|++|.|+.+|.. +.++++|++|+|++| .+..+|. .+..+++|++|++++|.+....|..+..+
T Consensus       100 ~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l  178 (251)
T 3m19_A          100 LGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTN-QLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRL  178 (251)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTC
T ss_pred             hhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCC-cCCccCHHHcCcCcCCCEEECCCCcCCccCHHHHhCC
Confidence             2234444555555555544444433 344445555555444 2223322 34444455555554444433222233444


Q ss_pred             CCCCcc
Q 042981          599 TSLRTL  604 (876)
Q Consensus       599 ~~L~~L  604 (876)
                      ++|+.|
T Consensus       179 ~~L~~L  184 (251)
T 3m19_A          179 GKLQTI  184 (251)
T ss_dssp             TTCCEE
T ss_pred             CCCCEE
Confidence            444443

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.49  E-value=5.8e-15  Score=160.96  Aligned_cols=124  Identities=16%  Similarity=0.201  Sum_probs=61.5

Q ss_pred             eeecCCCCCcccc-cCCCcceEEeeecCCCCCCCCchhhhH----HHhccCC-cceEEecCccccccCCCCCccccc-cc
Q 042981          450 LNFEGGASFPMSI-HGLNRLRTLLIYFQSPSNPSLNSSILS----ELFSKLA-CFRALVIGQRNFIFDPYPNLIREI-PE  522 (876)
Q Consensus       450 l~~~~~~~~~~~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~~----~~~~~l~-~Lr~L~L~~~~~~~~~~~~~i~~l-p~  522 (876)
                      ++.+.+....+.+ ...++|++|++.+|.      ......    ..+..++ +|++|+|         ++|.+... +.
T Consensus         5 ls~n~~~~~~~~~~~~~~~L~~L~Ls~n~------l~~~~~~~l~~~l~~~~~~L~~L~L---------s~N~l~~~~~~   69 (362)
T 3goz_A            5 LTLHPGSNPVEEFTSIPHGVTSLDLSLNN------LYSISTVELIQAFANTPASVTSLNL---------SGNSLGFKNSD   69 (362)
T ss_dssp             CCCCTTCCHHHHHHTSCTTCCEEECTTSC------GGGSCHHHHHHHHHTCCTTCCEEEC---------CSSCGGGSCHH
T ss_pred             cccccchHHHHHHHhCCCCceEEEccCCC------CChHHHHHHHHHHHhCCCceeEEEC---------cCCCCCHHHHH
Confidence            3444444332222 333346777665554      122121    4455666 6777777         44444432 33


Q ss_pred             ccccC-----cccCeeeccCccccccch-h----hccC-CcccEEeecCCCCCccccccc----cC-cCCCceEecCCCC
Q 042981          523 NVRKL-----IHLKYLNLSELCIERLPK-T----LCEL-YNLQKLDIRWCEDLRELPAGI----GK-LKKMRSLLNGGTP  586 (876)
Q Consensus       523 ~i~~L-----~~Lr~L~Ls~~~i~~lp~-~----i~~L-~~L~~L~L~~~~~l~~lp~~i----~~-L~~L~~L~l~~~~  586 (876)
                      .+..+     ++|++|+|++|.++..+. .    +..+ ++|++|+|++|......+..+    .. .++|++|++++|.
T Consensus        70 ~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~  149 (362)
T 3goz_A           70 ELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGND  149 (362)
T ss_dssp             HHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSC
T ss_pred             HHHHHHhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCc
Confidence            34433     667777777776663332 2    3333 667777777664322222222    22 2466777776665


Q ss_pred             CC
Q 042981          587 LL  588 (876)
Q Consensus       587 ~~  588 (876)
                      +.
T Consensus       150 l~  151 (362)
T 3goz_A          150 LG  151 (362)
T ss_dssp             GG
T ss_pred             CC
Confidence            43

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.47  E-value=8.7e-14  Score=146.32  Aligned_cols=71  Identities=21%  Similarity=0.243  Sum_probs=35.4

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~  587 (876)
                      ++|.+..++ .+..+++|++|+|++|.++.++. +.++++|++|++++| .+..+|. +..+++|++|++++|.+
T Consensus        54 ~~~~i~~~~-~~~~l~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~~n-~l~~~~~-l~~l~~L~~L~L~~n~i  124 (291)
T 1h6t_A           54 NNSDIKSVQ-GIQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDEN-KVKDLSS-LKDLKKLKSLSLEHNGI  124 (291)
T ss_dssp             TTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCGGG-GTTCTTCCEEECTTSCC
T ss_pred             cCCCcccCh-hHhcCCCCCEEEccCCccCCCcc-cccCCCCCEEECCCC-cCCCChh-hccCCCCCEEECCCCcC
Confidence            444444443 24455555555555555555544 555555555555555 2333333 55555555555555533

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.47  E-value=1.8e-13  Score=156.02  Aligned_cols=188  Identities=21%  Similarity=0.168  Sum_probs=122.6

Q ss_pred             ceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccc
Q 042981          444 KVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPEN  523 (876)
Q Consensus       444 ~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~  523 (876)
                      +++.|+++.|.+..+|..+  .++|++|++.+|..      ..++    ..+++|++|+|         ++|.+..+|. 
T Consensus        60 ~L~~L~Ls~n~L~~lp~~l--~~~L~~L~Ls~N~l------~~ip----~~l~~L~~L~L---------s~N~l~~ip~-  117 (571)
T 3cvr_A           60 QFSELQLNRLNLSSLPDNL--PPQITVLEITQNAL------ISLP----ELPASLEYLDA---------CDNRLSTLPE-  117 (571)
T ss_dssp             TCSEEECCSSCCSCCCSCC--CTTCSEEECCSSCC------SCCC----CCCTTCCEEEC---------CSSCCSCCCC-
T ss_pred             CccEEEeCCCCCCccCHhH--cCCCCEEECcCCCC------cccc----cccCCCCEEEc---------cCCCCCCcch-
Confidence            5777888888877776655  36788888876652      2222    34677888888         6666666776 


Q ss_pred             cccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCc
Q 042981          524 VRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRT  603 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~  603 (876)
                      +++  +|++|+|++|.|+.+|.   .+++|++|+|++| .+..+|.   .+++|++|++++|.+.+ +|. ++  ++|+.
T Consensus       118 l~~--~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N-~l~~lp~---~l~~L~~L~Ls~N~L~~-lp~-l~--~~L~~  184 (571)
T 3cvr_A          118 LPA--SLKHLDVDNNQLTMLPE---LPALLEYINADNN-QLTMLPE---LPTSLEVLSVRNNQLTF-LPE-LP--ESLEA  184 (571)
T ss_dssp             CCT--TCCEEECCSSCCSCCCC---CCTTCCEEECCSS-CCSCCCC---CCTTCCEEECCSSCCSC-CCC-CC--TTCCE
T ss_pred             hhc--CCCEEECCCCcCCCCCC---cCccccEEeCCCC-ccCcCCC---cCCCcCEEECCCCCCCC-cch-hh--CCCCE
Confidence            554  78888888888887777   5778888888877 4555766   56778888888886533 665 44  55555


Q ss_pred             cCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhC
Q 042981          604 LEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEAL  683 (876)
Q Consensus       604 L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l  683 (876)
                      |          +++.|.+..++.                         +..  +|                        .
T Consensus       185 L----------~Ls~N~L~~lp~-------------------------~~~--~L------------------------~  203 (571)
T 3cvr_A          185 L----------DVSTNLLESLPA-------------------------VPV--RN------------------------H  203 (571)
T ss_dssp             E----------ECCSSCCSSCCC-------------------------CC------------------------------
T ss_pred             E----------ECcCCCCCchhh-------------------------HHH--hh------------------------h
Confidence            5          333333332221                         000  11                        0


Q ss_pred             CCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCC
Q 042981          684 QPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFP  727 (876)
Q Consensus       684 ~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp  727 (876)
                      ...+.|+.|++++|....+|.++..+++|+.|+|++|++.+.+|
T Consensus       204 ~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~~N~l~~~~p  247 (571)
T 3cvr_A          204 HSEETEIFFRCRENRITHIPENILSLDPTCTIILEDNPLSSRIR  247 (571)
T ss_dssp             ----CCEEEECCSSCCCCCCGGGGGSCTTEEEECCSSSCCHHHH
T ss_pred             cccccceEEecCCCcceecCHHHhcCCCCCEEEeeCCcCCCcCH
Confidence            01223466666666777889999999999999999999876443

>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=99.45  E-value=4.6e-13  Score=140.79  Aligned_cols=138  Identities=19%  Similarity=0.256  Sum_probs=91.3

Q ss_pred             CceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccc
Q 042981          443 DKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPE  522 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~  522 (876)
                      .+++.+.++.+.+..++ .+..+++|++|++.+|..      ..+.+  +..+++|++|++         ++|.+..+|.
T Consensus        46 ~~L~~L~l~~~~i~~~~-~~~~l~~L~~L~L~~n~l------~~~~~--l~~l~~L~~L~l---------~~n~l~~~~~  107 (291)
T 1h6t_A           46 NSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLNGNKL------TDIKP--LANLKNLGWLFL---------DENKVKDLSS  107 (291)
T ss_dssp             HTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCC------CCCGG--GTTCTTCCEEEC---------CSSCCCCGGG
T ss_pred             CcccEEEccCCCcccCh-hHhcCCCCCEEEccCCcc------CCCcc--cccCCCCCEEEC---------CCCcCCCChh
Confidence            45677777777776653 466777788887766652      22222  667777888887         5555555543


Q ss_pred             ccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCC
Q 042981          523 NVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLR  602 (876)
Q Consensus       523 ~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~  602 (876)
                       +..+++|++|+|++|.++.++ .+..+++|++|++++| .+..+ ..+..+++|++|++++|.+.. ++. +..+++|+
T Consensus       108 -l~~l~~L~~L~L~~n~i~~~~-~l~~l~~L~~L~l~~n-~l~~~-~~l~~l~~L~~L~L~~N~l~~-~~~-l~~l~~L~  181 (291)
T 1h6t_A          108 -LKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGNN-KITDI-TVLSRLTKLDTLSLEDNQISD-IVP-LAGLTKLQ  181 (291)
T ss_dssp             -GTTCTTCCEEECTTSCCCCCG-GGGGCTTCCEEECCSS-CCCCC-GGGGGCTTCSEEECCSSCCCC-CGG-GTTCTTCC
T ss_pred             -hccCCCCCEEECCCCcCCCCh-hhcCCCCCCEEEccCC-cCCcc-hhhccCCCCCEEEccCCcccc-chh-hcCCCccC
Confidence             777777888888877777764 4777777888888777 44445 457777778888877775533 332 55555555


Q ss_pred             cc
Q 042981          603 TL  604 (876)
Q Consensus       603 ~L  604 (876)
                      .|
T Consensus       182 ~L  183 (291)
T 1h6t_A          182 NL  183 (291)
T ss_dssp             EE
T ss_pred             EE
Confidence            55

>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=1e-13  Score=136.68  Aligned_cols=14  Identities=21%  Similarity=0.147  Sum_probs=5.5

Q ss_pred             cccCCcEEEEecCC
Q 042981          708 SLTNLRDLRLKSCV  721 (876)
Q Consensus       708 ~l~~L~~L~L~~~~  721 (876)
                      .+++|+.|++++|+
T Consensus       179 ~l~~L~~L~l~~N~  192 (197)
T 4ezg_A          179 DFPKLNQLYAFSQT  192 (197)
T ss_dssp             GCSSCCEEEECBC-
T ss_pred             cCCCCCEEEeeCcc
Confidence            33444444444443

>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=99.44  E-value=3.6e-13  Score=135.14  Aligned_cols=141  Identities=20%  Similarity=0.178  Sum_probs=109.0

Q ss_pred             EEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc-ccccc
Q 042981          447 HLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI-PENVR  525 (876)
Q Consensus       447 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l-p~~i~  525 (876)
                      .++...+.+..+|..+.  ++|+.|++.+|.      ...+++..|..+++|++|+|         ++|.+..+ |..|.
T Consensus        15 ~v~c~~~~l~~iP~~l~--~~l~~L~l~~n~------i~~i~~~~~~~l~~L~~L~L---------s~N~i~~~~~~~~~   77 (220)
T 2v9t_B           15 IVDCRGKGLTEIPTNLP--ETITEIRLEQNT------IKVIPPGAFSPYKKLRRIDL---------SNNQISELAPDAFQ   77 (220)
T ss_dssp             EEECTTSCCSSCCSSCC--TTCCEEECCSSC------CCEECTTSSTTCTTCCEEEC---------CSSCCCEECTTTTT
T ss_pred             EEEcCCCCcCcCCCccC--cCCCEEECCCCc------CCCcCHhHhhCCCCCCEEEC---------CCCcCCCcCHHHhh
Confidence            45566667777776554  688999987765      33445556788899999999         66667665 67788


Q ss_pred             cCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          526 KLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      ++++|++|+|++|.|+.+|.. +.++++|++|+|++|......|..|..+++|++|++++|.+....+..+..+++|+.|
T Consensus        78 ~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L  157 (220)
T 2v9t_B           78 GLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTM  157 (220)
T ss_dssp             TCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEE
T ss_pred             CCcCCCEEECCCCcCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEE
Confidence            899999999999999988875 5789999999999986555557778899999999999997765555567778888777

>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=99.44  E-value=2e-13  Score=157.56  Aligned_cols=161  Identities=21%  Similarity=0.184  Sum_probs=76.2

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMP  592 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p  592 (876)
                      ++|.+..+| .+..|++|++|+|++|.++.+|. +.++++|+.|+|++| .+..+| .+..+++|++|++++|.+.. + 
T Consensus        51 ~~n~i~~l~-~l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N-~l~~l~-~l~~l~~L~~L~Ls~N~l~~-l-  124 (605)
T 1m9s_A           51 NNSDIKSVQ-GIQYLPNVTKLFLNGNKLTDIKP-LTNLKNLGWLFLDEN-KIKDLS-SLKDLKKLKSLSLEHNGISD-I-  124 (605)
T ss_dssp             TTCCCCCCT-TGGGCTTCCEEECTTSCCCCCGG-GGGCTTCCEEECCSS-CCCCCT-TSTTCTTCCEEECTTSCCCC-C-
T ss_pred             cCCCCCCCh-HHccCCCCCEEEeeCCCCCCChh-hccCCCCCEEECcCC-CCCCCh-hhccCCCCCEEEecCCCCCC-C-
Confidence            444444443 34455555555555555555444 555555555555555 333333 35555555555555553321 1 


Q ss_pred             ccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccc
Q 042981          593 IGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEG  672 (876)
Q Consensus       593 ~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~  672 (876)
                      +.+..+++|+.|                             +++++.. ..+     ..+..+++|+.|+|++|.+....
T Consensus       125 ~~l~~l~~L~~L-----------------------------~Ls~N~l-~~l-----~~l~~l~~L~~L~Ls~N~l~~~~  169 (605)
T 1m9s_A          125 NGLVHLPQLESL-----------------------------YLGNNKI-TDI-----TVLSRLTKLDTLSLEDNQISDIV  169 (605)
T ss_dssp             GGGGGCTTCSEE-----------------------------ECCSSCC-CCC-----GGGGSCTTCSEEECCSSCCCCCG
T ss_pred             ccccCCCccCEE-----------------------------ECCCCcc-CCc-----hhhcccCCCCEEECcCCcCCCch
Confidence            123333333333                             2222110 000     12334445555555555442111


Q ss_pred             cchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCC
Q 042981          673 RRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICE  724 (876)
Q Consensus       673 ~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~  724 (876)
                               .+..+++|+.|++++|....+| .+..+++|+.|+|++|.+.+
T Consensus       170 ---------~l~~l~~L~~L~Ls~N~i~~l~-~l~~l~~L~~L~L~~N~l~~  211 (605)
T 1m9s_A          170 ---------PLAGLTKLQNLYLSKNHISDLR-ALAGLKNLDVLELFSQECLN  211 (605)
T ss_dssp             ---------GGTTCTTCCEEECCSSCCCBCG-GGTTCTTCSEEECCSEEEEC
T ss_pred             ---------hhccCCCCCEEECcCCCCCCCh-HHccCCCCCEEEccCCcCcC
Confidence                     0333455555555555555543 46677788888888777654

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.43  E-value=7.1e-14  Score=152.31  Aligned_cols=240  Identities=13%  Similarity=0.065  Sum_probs=146.8

Q ss_pred             CCceEEEEeeecCCCCCc-----ccccCCC-cceEEeeecCCCCCCCCchhhhHHHhccC-CcceEEecCccccccCCCC
Q 042981          442 GDKVRHLGLNFEGGASFP-----MSIHGLN-RLRTLLIYFQSPSNPSLNSSILSELFSKL-ACFRALVIGQRNFIFDPYP  514 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~-----~~~~~~~-~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l-~~Lr~L~L~~~~~~~~~~~  514 (876)
                      +..+++|+++.|.+...+     ..+..++ +|++|++.+|....  .........+... ++|++|+|         ++
T Consensus        21 ~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~--~~~~~l~~~l~~~~~~L~~L~L---------s~   89 (362)
T 3goz_A           21 PHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGF--KNSDELVQILAAIPANVTSLNL---------SG   89 (362)
T ss_dssp             CTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGG--SCHHHHHHHHHTSCTTCCEEEC---------CS
T ss_pred             CCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCH--HHHHHHHHHHhccCCCccEEEC---------cC
Confidence            566999999999987663     6778888 99999998775210  0111122223333 99999999         66


Q ss_pred             Ccccccc-cc----cccC-cccCeeeccCccccccch-h----hcc-CCcccEEeecCCCCCc----cccccccCcC-CC
Q 042981          515 NLIREIP-EN----VRKL-IHLKYLNLSELCIERLPK-T----LCE-LYNLQKLDIRWCEDLR----ELPAGIGKLK-KM  577 (876)
Q Consensus       515 ~~i~~lp-~~----i~~L-~~Lr~L~Ls~~~i~~lp~-~----i~~-L~~L~~L~L~~~~~l~----~lp~~i~~L~-~L  577 (876)
                      |.+...+ ..    +..+ ++|++|+|++|.++..+. .    +.. .++|++|+|++|....    .++..+..++ +|
T Consensus        90 n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L  169 (362)
T 3goz_A           90 NFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANV  169 (362)
T ss_dssp             SCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTC
T ss_pred             CcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccc
Confidence            6665433 32    4444 899999999999986654 3    334 3699999999995442    4555566676 99


Q ss_pred             ceEecCCCCCCccCCccC----CCC-CCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccC
Q 042981          578 RSLLNGGTPLLKYMPIGI----SKL-TSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGL  652 (876)
Q Consensus       578 ~~L~l~~~~~~~~~p~~i----~~l-~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l  652 (876)
                      ++|++++|.+....+..+    ..+ ++|++|          +++.+.+..                   ......+..+
T Consensus       170 ~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L----------~Ls~N~i~~-------------------~~~~~l~~~l  220 (362)
T 3goz_A          170 NSLNLRGNNLASKNCAELAKFLASIPASVTSL----------DLSANLLGL-------------------KSYAELAYIF  220 (362)
T ss_dssp             CEEECTTSCGGGSCHHHHHHHHHTSCTTCCEE----------ECTTSCGGG-------------------SCHHHHHHHH
T ss_pred             cEeeecCCCCchhhHHHHHHHHHhCCCCCCEE----------ECCCCCCCh-------------------hHHHHHHHHH
Confidence            999999997754443322    223 355555          333333332                   0001122223


Q ss_pred             cc-cccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCC--------CchhhcccCCcEEEEecCCCC
Q 042981          653 HN-MKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIF--------PKWLTSLTNLRDLRLKSCVIC  723 (876)
Q Consensus       653 ~~-l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l--------p~~l~~l~~L~~L~L~~~~~~  723 (876)
                      .. .++|+.|+|++|.+....   ...+...+...++|+.|++++|....+        +..+..+++|+.|++++|.+.
T Consensus       221 ~~~~~~L~~L~Ls~N~l~~~~---~~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N~l~  297 (362)
T 3goz_A          221 SSIPNHVVSLNLCLNCLHGPS---LENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGKEIH  297 (362)
T ss_dssp             HHSCTTCCEEECCSSCCCCCC---HHHHHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSCBCC
T ss_pred             hcCCCCceEEECcCCCCCcHH---HHHHHHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCCcCC
Confidence            23 236666666666553221   122334445556666666666653322        233456778888888888864


Q ss_pred             C
Q 042981          724 E  724 (876)
Q Consensus       724 ~  724 (876)
                      .
T Consensus       298 ~  298 (362)
T 3goz_A          298 P  298 (362)
T ss_dssp             G
T ss_pred             C
Confidence            4

>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=99.43  E-value=4.2e-13  Score=132.27  Aligned_cols=142  Identities=15%  Similarity=0.184  Sum_probs=110.2

Q ss_pred             CCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc-c
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE-I  520 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~-l  520 (876)
                      .+++++++++.+.+..++ .+..+++|++|++.+|..      .. ++ .+..+++|++|++         ++|.+.. .
T Consensus        43 l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~~n~~------~~-~~-~l~~l~~L~~L~l---------~~n~l~~~~  104 (197)
T 4ezg_A           43 MNSLTYITLANINVTDLT-GIEYAHNIKDLTINNIHA------TN-YN-PISGLSNLERLRI---------MGKDVTSDK  104 (197)
T ss_dssp             HHTCCEEEEESSCCSCCT-TGGGCTTCSEEEEESCCC------SC-CG-GGTTCTTCCEEEE---------ECTTCBGGG
T ss_pred             cCCccEEeccCCCccChH-HHhcCCCCCEEEccCCCC------Cc-ch-hhhcCCCCCEEEe---------ECCccCccc
Confidence            356889999999888766 688899999999987741      11 22 3778899999999         5555554 5


Q ss_pred             ccccccCcccCeeeccCccccc-cchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCC
Q 042981          521 PENVRKLIHLKYLNLSELCIER-LPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLT  599 (876)
Q Consensus       521 p~~i~~L~~Lr~L~Ls~~~i~~-lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~  599 (876)
                      |..++.+++|++|+|++|.++. .|..++++++|++|++++|..+..+| .+..+++|++|++++|.+. .++ .+..++
T Consensus       105 ~~~l~~l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n~i~-~~~-~l~~l~  181 (197)
T 4ezg_A          105 IPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFDGVH-DYR-GIEDFP  181 (197)
T ss_dssp             SCCCTTCTTCCEEECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTBCCC-CCT-TGGGCS
T ss_pred             ChhhcCCCCCCEEEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCCCCc-ChH-HhccCC
Confidence            7778889999999999999884 67788999999999999986577777 5889999999999998663 344 455666


Q ss_pred             CCCcc
Q 042981          600 SLRTL  604 (876)
Q Consensus       600 ~L~~L  604 (876)
                      +|+.|
T Consensus       182 ~L~~L  186 (197)
T 4ezg_A          182 KLNQL  186 (197)
T ss_dssp             SCCEE
T ss_pred             CCCEE
Confidence            66666

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.42  E-value=3.4e-13  Score=159.86  Aligned_cols=150  Identities=19%  Similarity=0.188  Sum_probs=90.8

Q ss_pred             CCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP  521 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp  521 (876)
                      ...++++++..+.+...+..+....+|+.+.+.......+.+  ..++..|..++.|++|+|         ++|.+..+|
T Consensus       172 ~~~~~~l~L~~n~~~~~~~~~l~~l~Ls~~~i~~~~~~~n~~--~~~~~~~~~l~~L~~L~L---------s~n~l~~l~  240 (727)
T 4b8c_D          172 TPLTPKIELFANGKDEANQALLQHKKLSQYSIDEDDDIENRM--VMPKDSKYDDQLWHALDL---------SNLQIFNIS  240 (727)
T ss_dssp             ----------------------------------------------------CCCCCCEEEC---------TTSCCSCCC
T ss_pred             CCccceEEeeCCCCCcchhhHhhcCccCcccccCccccccce--ecChhhhccCCCCcEEEC---------CCCCCCCCC
Confidence            456888999888777665555555556655554322111211  245666889999999999         777788899


Q ss_pred             cccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCC
Q 042981          522 ENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSL  601 (876)
Q Consensus       522 ~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L  601 (876)
                      ..+.++++|++|+|++|.|+.+|..|++|++|++|+|++|. +..+|..|++|++|++|+|++|.+ +.+|..|+++++|
T Consensus       241 ~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~-l~~lp~~~~~l~~L~~L~L~~N~l-~~lp~~~~~l~~L  318 (727)
T 4b8c_D          241 ANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTSLPAELGSCFQLKYFYFFDNMV-TTLPWEFGNLCNL  318 (727)
T ss_dssp             GGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSC-CSSCCSSGGGGTTCSEEECCSSCC-CCCCSSTTSCTTC
T ss_pred             hhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCc-CCccChhhcCCCCCCEEECCCCCC-CccChhhhcCCCc
Confidence            88889999999999999999999999999999999999994 668899999999999999999966 6889889999999


Q ss_pred             Ccc
Q 042981          602 RTL  604 (876)
Q Consensus       602 ~~L  604 (876)
                      ++|
T Consensus       319 ~~L  321 (727)
T 4b8c_D          319 QFL  321 (727)
T ss_dssp             CCE
T ss_pred             cEE
Confidence            988

>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=99.42  E-value=6.3e-13  Score=133.40  Aligned_cols=142  Identities=18%  Similarity=0.124  Sum_probs=112.2

Q ss_pred             EEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccc-ccc
Q 042981          447 HLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPE-NVR  525 (876)
Q Consensus       447 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~-~i~  525 (876)
                      .++++.+.++.+|..+.  +.++.|++.+|.     +....+..+|..+++|++|+|         ++|.+..++. .+.
T Consensus        15 ~l~~s~n~l~~iP~~~~--~~~~~L~L~~N~-----l~~~~~~~~~~~l~~L~~L~L---------~~N~i~~i~~~~~~   78 (220)
T 2v70_A           15 TVDCSNQKLNKIPEHIP--QYTAELRLNNNE-----FTVLEATGIFKKLPQLRKINF---------SNNKITDIEEGAFE   78 (220)
T ss_dssp             EEECCSSCCSSCCSCCC--TTCSEEECCSSC-----CCEECCCCCGGGCTTCCEEEC---------CSSCCCEECTTTTT
T ss_pred             EeEeCCCCcccCccCCC--CCCCEEEcCCCc-----CCccCchhhhccCCCCCEEEC---------CCCcCCEECHHHhC
Confidence            67788888887776653  457889987765     222213345788999999999         7777777764 688


Q ss_pred             cCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          526 KLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      ++++|++|+|++|.++.+|. .+.++++|++|+|++|......|..+..+++|++|++++|.+.+..|..+..+++|+.|
T Consensus        79 ~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L  158 (220)
T 2v70_A           79 GASGVNEILLTSNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTL  158 (220)
T ss_dssp             TCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEE
T ss_pred             CCCCCCEEECCCCccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEE
Confidence            99999999999999998776 48889999999999996555557888999999999999998877668888888888887

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.42  E-value=4.5e-13  Score=133.48  Aligned_cols=138  Identities=26%  Similarity=0.327  Sum_probs=73.8

Q ss_pred             EeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccc-cccC
Q 042981          449 GLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPEN-VRKL  527 (876)
Q Consensus       449 ~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~-i~~L  527 (876)
                      ....+.+..+|..+  .++|+.|++.++.      ...++...|..+++|++|++         ++|.+..+|.. +..+
T Consensus        13 ~c~~~~l~~~p~~~--~~~l~~L~l~~n~------l~~~~~~~~~~l~~L~~L~l---------~~n~l~~~~~~~~~~l   75 (208)
T 2o6s_A           13 ECYSQGRTSVPTGI--PAQTTYLDLETNS------LKSLPNGVFDELTSLTQLYL---------GGNKLQSLPNGVFNKL   75 (208)
T ss_dssp             ECCSSCCSSCCSCC--CTTCSEEECCSSC------CCCCCTTTTTTCTTCSEEEC---------CSSCCCCCCTTTTTTC
T ss_pred             EecCCCccCCCCCC--CCCCcEEEcCCCc------cCcCChhhhcccccCcEEEC---------CCCccCccChhhcCCC
Confidence            33344444444333  3456666665544      12333344556666666666         44555555533 3566


Q ss_pred             cccCeeeccCccccccchh-hccCCcccEEeecCCCCCccccc-cccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          528 IHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPA-GIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       528 ~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      ++|++|+|++|.++.+|.. +.++++|++|++++|. +..+|. .+.++++|++|++++|.+.+..+..+..+++|+.|
T Consensus        76 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L  153 (208)
T 2o6s_A           76 TSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQ-LQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYI  153 (208)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEE
T ss_pred             CCcCEEECCCCcCCccCHhHhcCccCCCEEEcCCCc-CcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEE
Confidence            6666666666666655543 4566666666666663 333333 35566666666666665543333334555555555

>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=99.41  E-value=8.3e-13  Score=133.47  Aligned_cols=140  Identities=22%  Similarity=0.287  Sum_probs=100.7

Q ss_pred             EEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccc-cc
Q 042981          447 HLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPEN-VR  525 (876)
Q Consensus       447 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~-i~  525 (876)
                      .++.+.+.+..+|..+.  ++|+.|++.+|.      ...+.+..|..+++|++|+|         ++|.+..+|.. +.
T Consensus        23 ~v~c~~~~l~~ip~~~~--~~L~~L~Ls~n~------i~~~~~~~~~~l~~L~~L~L---------~~N~l~~i~~~~~~   85 (229)
T 3e6j_A           23 TVDCRSKRHASVPAGIP--TNAQILYLHDNQ------ITKLEPGVFDSLINLKELYL---------GSNQLGALPVGVFD   85 (229)
T ss_dssp             EEECTTSCCSSCCSCCC--TTCSEEECCSSC------CCCCCTTTTTTCTTCCEEEC---------CSSCCCCCCTTTTT
T ss_pred             EeEccCCCcCccCCCCC--CCCCEEEcCCCc------cCccCHHHhhCccCCcEEEC---------CCCCCCCcChhhcc
Confidence            35555666666666543  788888887665      23334455778888888888         66677777744 57


Q ss_pred             cCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          526 KLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      .+++|++|+|++|.|+.+|.. +..+++|++|+|++| .+..+|..+..+++|++|++++|.+....+..+..+++|+.|
T Consensus        86 ~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L  164 (229)
T 3e6j_A           86 SLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCN-KLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHA  164 (229)
T ss_dssp             TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCSCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             cCCCcCEEECCCCcCCccChhHhCcchhhCeEeccCC-cccccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEE
Confidence            888888888888888877764 577888888888888 566788888888888888888886654333456667777766

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.40  E-value=1.2e-12  Score=149.41  Aligned_cols=179  Identities=17%  Similarity=0.122  Sum_probs=121.0

Q ss_pred             cceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCC
Q 042981          497 CFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKK  576 (876)
Q Consensus       497 ~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~  576 (876)
                      +|+.|+|         ++|.+..+|..+.  ++|++|+|++|.|+.+|   ..+++|++|+|++| .+..+|. +.+  +
T Consensus        60 ~L~~L~L---------s~n~L~~lp~~l~--~~L~~L~Ls~N~l~~ip---~~l~~L~~L~Ls~N-~l~~ip~-l~~--~  121 (571)
T 3cvr_A           60 QFSELQL---------NRLNLSSLPDNLP--PQITVLEITQNALISLP---ELPASLEYLDACDN-RLSTLPE-LPA--S  121 (571)
T ss_dssp             TCSEEEC---------CSSCCSCCCSCCC--TTCSEEECCSSCCSCCC---CCCTTCCEEECCSS-CCSCCCC-CCT--T
T ss_pred             CccEEEe---------CCCCCCccCHhHc--CCCCEEECcCCCCcccc---cccCCCCEEEccCC-CCCCcch-hhc--C
Confidence            7888888         6666777777663  68888888888888888   45788888888888 4555777 655  8


Q ss_pred             CceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccc
Q 042981          577 MRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMK  656 (876)
Q Consensus       577 L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~  656 (876)
                      |++|++++|.+.+ +|.   .+++|+.|          +++.|.+..++.                           .++
T Consensus       122 L~~L~Ls~N~l~~-lp~---~l~~L~~L----------~Ls~N~l~~lp~---------------------------~l~  160 (571)
T 3cvr_A          122 LKHLDVDNNQLTM-LPE---LPALLEYI----------NADNNQLTMLPE---------------------------LPT  160 (571)
T ss_dssp             CCEEECCSSCCSC-CCC---CCTTCCEE----------ECCSSCCSCCCC---------------------------CCT
T ss_pred             CCEEECCCCcCCC-CCC---cCccccEE----------eCCCCccCcCCC---------------------------cCC
Confidence            8888888886644 665   45666666          333443333221                           234


Q ss_pred             cCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCC-------cEEEEecCCCCCCCCCC
Q 042981          657 NLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNL-------RDLRLKSCVICEHFPPL  729 (876)
Q Consensus       657 ~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L-------~~L~L~~~~~~~~lp~l  729 (876)
                      +|+.|+|++|.+....         .+.  ++|+.|++++|....+|. +..  +|       +.|+|++|.+....+.+
T Consensus       161 ~L~~L~Ls~N~L~~lp---------~l~--~~L~~L~Ls~N~L~~lp~-~~~--~L~~~~~~L~~L~Ls~N~l~~lp~~l  226 (571)
T 3cvr_A          161 SLEVLSVRNNQLTFLP---------ELP--ESLEALDVSTNLLESLPA-VPV--RNHHSEETEIFFRCRENRITHIPENI  226 (571)
T ss_dssp             TCCEEECCSSCCSCCC---------CCC--TTCCEEECCSSCCSSCCC-CC----------CCEEEECCSSCCCCCCGGG
T ss_pred             CcCEEECCCCCCCCcc---------hhh--CCCCEEECcCCCCCchhh-HHH--hhhcccccceEEecCCCcceecCHHH
Confidence            5566666666543211         011  567777777777777777 443  66       99999999987533347


Q ss_pred             Cccc-CceEeecCCCCceEe
Q 042981          730 GKLP-LEKLTLYGLYGVKRV  748 (876)
Q Consensus       730 ~~Lp-L~~L~L~~~~~l~~~  748 (876)
                      ..++ |+.|+|++|+.....
T Consensus       227 ~~l~~L~~L~L~~N~l~~~~  246 (571)
T 3cvr_A          227 LSLDPTCTIILEDNPLSSRI  246 (571)
T ss_dssp             GGSCTTEEEECCSSSCCHHH
T ss_pred             hcCCCCCEEEeeCCcCCCcC
Confidence            7899 999999998764433

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.39  E-value=2.9e-13  Score=139.93  Aligned_cols=81  Identities=17%  Similarity=0.208  Sum_probs=59.6

Q ss_pred             cCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccC
Q 042981          494 KLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGK  573 (876)
Q Consensus       494 ~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~  573 (876)
                      .+..+..+++         ..+.+..++ .+..+.+|++|++++|.++.+| .++.+++|++|++++| .+..+|. +.+
T Consensus        17 ~l~~l~~l~l---------~~~~i~~~~-~~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~L~~N-~i~~~~~-l~~   83 (263)
T 1xeu_A           17 GLANAVKQNL---------GKQSVTDLV-SQKELSGVQNFNGDNSNIQSLA-GMQFFTNLKELHLSHN-QISDLSP-LKD   83 (263)
T ss_dssp             HHHHHHHHHH---------TCSCTTSEE-CHHHHTTCSEEECTTSCCCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTT
T ss_pred             HHHHHHHHHh---------cCCCccccc-chhhcCcCcEEECcCCCcccch-HHhhCCCCCEEECCCC-ccCCChh-hcc
Confidence            4555666677         566666666 5677788888888888888777 6778888888888877 4556665 778


Q ss_pred             cCCCceEecCCCCC
Q 042981          574 LKKMRSLLNGGTPL  587 (876)
Q Consensus       574 L~~L~~L~l~~~~~  587 (876)
                      +++|++|++++|.+
T Consensus        84 l~~L~~L~L~~N~l   97 (263)
T 1xeu_A           84 LTKLEELSVNRNRL   97 (263)
T ss_dssp             CSSCCEEECCSSCC
T ss_pred             CCCCCEEECCCCcc
Confidence            88888888888755

>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=99.38  E-value=8.9e-13  Score=152.18  Aligned_cols=161  Identities=20%  Similarity=0.267  Sum_probs=103.6

Q ss_pred             CceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccc
Q 042981          443 DKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPE  522 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~  522 (876)
                      ..++.|.++.+.+..++ .+..+++|+.|++.+|..      ..+++  +..+++|+.|+|         ++|.+..+| 
T Consensus        43 ~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~Ls~N~l------~~~~~--l~~l~~L~~L~L---------s~N~l~~l~-  103 (605)
T 1m9s_A           43 NSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLNGNKL------TDIKP--LTNLKNLGWLFL---------DENKIKDLS-  103 (605)
T ss_dssp             TTCCCCBCTTCCCCCCT-TGGGCTTCCEEECTTSCC------CCCGG--GGGCTTCCEEEC---------CSSCCCCCT-
T ss_pred             CCCCEEECcCCCCCCCh-HHccCCCCCEEEeeCCCC------CCChh--hccCCCCCEEEC---------cCCCCCCCh-
Confidence            45677777777766643 567777888888766641      22222  667777888888         555555554 


Q ss_pred             ccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCC
Q 042981          523 NVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLR  602 (876)
Q Consensus       523 ~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~  602 (876)
                      .++.|++|++|+|++|.+..+| .+..|++|+.|+|++| .+..+ ..+..+++|++|+|++|.+....|  +..+++|+
T Consensus       104 ~l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L~Ls~N-~l~~l-~~l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~  178 (605)
T 1m9s_A          104 SLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGNN-KITDI-TVLSRLTKLDTLSLEDNQISDIVP--LAGLTKLQ  178 (605)
T ss_dssp             TSTTCTTCCEEECTTSCCCCCG-GGGGCTTCSEEECCSS-CCCCC-GGGGSCTTCSEEECCSSCCCCCGG--GTTCTTCC
T ss_pred             hhccCCCCCEEEecCCCCCCCc-cccCCCccCEEECCCC-ccCCc-hhhcccCCCCEEECcCCcCCCchh--hccCCCCC
Confidence            5677777777787777777764 4777777777777777 44445 457777777777777776644333  66677777


Q ss_pred             ccCceeecCccCCCccccc---cccccCCCCCCeeeeC
Q 042981          603 TLEKFAMGGGVDDISTCRL---ESLKNLQLLRECGIEG  637 (876)
Q Consensus       603 ~L~~~~~~~~~~~ls~~~l---~~L~~L~~L~~L~l~~  637 (876)
                      .|          +++.|.+   ..+..+++|+.|++++
T Consensus       179 ~L----------~Ls~N~i~~l~~l~~l~~L~~L~L~~  206 (605)
T 1m9s_A          179 NL----------YLSKNHISDLRALAGLKNLDVLELFS  206 (605)
T ss_dssp             EE----------ECCSSCCCBCGGGTTCTTCSEEECCS
T ss_pred             EE----------ECcCCCCCCChHHccCCCCCEEEccC
Confidence            66          3333333   2344555666666655

>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=99.35  E-value=2.4e-12  Score=130.13  Aligned_cols=132  Identities=20%  Similarity=0.275  Sum_probs=114.3

Q ss_pred             CCCceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          441 FGDKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       441 ~~~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      .+.++++|+++.|.+..+ +..|..+++|+.|++.+|.      ...++...|..+++|++|+|         ++|.+..
T Consensus        38 ~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~------l~~i~~~~~~~l~~L~~L~L---------s~N~l~~  102 (229)
T 3e6j_A           38 IPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQ------LGALPVGVFDSLTQLTVLDL---------GTNQLTV  102 (229)
T ss_dssp             CCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC------CCCCCTTTTTTCTTCCEEEC---------CSSCCCC
T ss_pred             CCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCC------CCCcChhhcccCCCcCEEEC---------CCCcCCc
Confidence            367899999999999887 6778999999999998876      34555666899999999999         7777788


Q ss_pred             cccc-cccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccc-ccccCcCCCceEecCCCCCC
Q 042981          520 IPEN-VRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELP-AGIGKLKKMRSLLNGGTPLL  588 (876)
Q Consensus       520 lp~~-i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~  588 (876)
                      +|.. +..+++|++|+|++|.|+.+|..+.++++|++|+|++|. +..+| ..+..+++|++|++++|.+.
T Consensus       103 l~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~~  172 (229)
T 3e6j_A          103 LPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQ-LKSIPHGAFDRLSSLTHAYLFGNPWD  172 (229)
T ss_dssp             CCTTTTTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECTTSCBC
T ss_pred             cChhHhCcchhhCeEeccCCcccccCcccccCCCCCEEECCCCc-CCccCHHHHhCCCCCCEEEeeCCCcc
Confidence            7755 689999999999999999999999999999999999994 55555 56889999999999999664

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.35  E-value=4e-12  Score=131.36  Aligned_cols=139  Identities=19%  Similarity=0.219  Sum_probs=108.3

Q ss_pred             CCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP  521 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp  521 (876)
                      ..+++.|+++.|.+..++ .+..+++|++|++.+|.      ...+++  +..+++|++|++         ++|.+..+|
T Consensus        40 l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~L~~N~------i~~~~~--l~~l~~L~~L~L---------~~N~l~~l~  101 (263)
T 1xeu_A           40 LSGVQNFNGDNSNIQSLA-GMQFFTNLKELHLSHNQ------ISDLSP--LKDLTKLEELSV---------NRNRLKNLN  101 (263)
T ss_dssp             HTTCSEEECTTSCCCCCT-TGGGCTTCCEEECCSSC------CCCCGG--GTTCSSCCEEEC---------CSSCCSCCT
T ss_pred             cCcCcEEECcCCCcccch-HHhhCCCCCEEECCCCc------cCCChh--hccCCCCCEEEC---------CCCccCCcC
Confidence            357888899888888766 67888999999997775      223333  788899999999         666667766


Q ss_pred             cccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCC
Q 042981          522 ENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSL  601 (876)
Q Consensus       522 ~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L  601 (876)
                      ....  .+|++|+|++|.++.+| .++++++|++|++++| .+..+| .+..+++|++|++++|.+...  ..+..+++|
T Consensus       102 ~~~~--~~L~~L~L~~N~l~~~~-~l~~l~~L~~L~Ls~N-~i~~~~-~l~~l~~L~~L~L~~N~i~~~--~~l~~l~~L  174 (263)
T 1xeu_A          102 GIPS--ACLSRLFLDNNELRDTD-SLIHLKNLEILSIRNN-KLKSIV-MLGFLSKLEVLDLHGNEITNT--GGLTRLKKV  174 (263)
T ss_dssp             TCCC--SSCCEEECCSSCCSBSG-GGTTCTTCCEEECTTS-CCCBCG-GGGGCTTCCEEECTTSCCCBC--TTSTTCCCC
T ss_pred             cccc--CcccEEEccCCccCCCh-hhcCcccccEEECCCC-cCCCCh-HHccCCCCCEEECCCCcCcch--HHhccCCCC
Confidence            5333  88999999999998876 4888999999999988 466666 588899999999999977544  567778888


Q ss_pred             CccC
Q 042981          602 RTLE  605 (876)
Q Consensus       602 ~~L~  605 (876)
                      +.|.
T Consensus       175 ~~L~  178 (263)
T 1xeu_A          175 NWID  178 (263)
T ss_dssp             CEEE
T ss_pred             CEEe
Confidence            8774

>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=99.32  E-value=1.7e-12  Score=124.30  Aligned_cols=128  Identities=22%  Similarity=0.156  Sum_probs=80.6

Q ss_pred             CCceEEEEeeecCCC--CCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          442 GDKVRHLGLNFEGGA--SFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~--~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      +.++++|.++.|.+.  .++..+..+++|+.|++.+|..      ..+  ..+..+++|++|++         ++|.+..
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l------~~~--~~~~~l~~L~~L~L---------s~N~l~~   85 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGL------ISV--SNLPKLPKLKKLEL---------SENRIFG   85 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCC------CCC--SSCCCCSSCCEEEE---------ESCCCCS
T ss_pred             cccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCC------CCh--hhhccCCCCCEEEC---------cCCcCch
Confidence            566777777777765  5566666677777777766542      111  33566677777777         4444444


Q ss_pred             -cccccccCcccCeeeccCccccccc--hhhccCCcccEEeecCCCCCccccc----cccCcCCCceEecCCCCC
Q 042981          520 -IPENVRKLIHLKYLNLSELCIERLP--KTLCELYNLQKLDIRWCEDLRELPA----GIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       520 -lp~~i~~L~~Lr~L~Ls~~~i~~lp--~~i~~L~~L~~L~L~~~~~l~~lp~----~i~~L~~L~~L~l~~~~~  587 (876)
                       +|..+..+++|++|+|++|.++.+|  ..+..+++|++|++++| .+..+|.    .+..+++|++|++++|..
T Consensus        86 ~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~~n~~  159 (168)
T 2ell_A           86 GLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNC-EVTNLNDYRESVFKLLPQLTYLDGYDRED  159 (168)
T ss_dssp             CCCHHHHHCTTCCEEECBSSSCCSSGGGGGGSSCSCCCEEECCSS-GGGTSTTHHHHHHTTCSSCCEETTEETTS
T ss_pred             HHHHHHhhCCCCCEEeccCCccCcchhHHHHhcCCCCCEEEeeCC-cCcchHHHHHHHHHhCccCcEecCCCCCh
Confidence             5555556777777777777776665  56666777777777766 3444444    566677777777766643

>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=99.32  E-value=5.9e-14  Score=161.06  Aligned_cols=176  Identities=17%  Similarity=0.187  Sum_probs=96.6

Q ss_pred             CCceEEEEeeecCCCCCcccccCCCcceEEeeecCCCC--------CCCCchhhhHHHhccCCcceEEe-cCccccc---
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPS--------NPSLNSSILSELFSKLACFRALV-IGQRNFI---  509 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~--------~~~~~~~~~~~~~~~l~~Lr~L~-L~~~~~~---  509 (876)
                      .+.+++|+++.|.+..+|..+..+++|+.|++.++...        ... ....++..+..+++|+.|+ ++.|.+.   
T Consensus       348 ~~~L~~L~Ls~n~L~~Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~-~~~~~~~~l~~l~~L~~L~~l~~n~~~~L~  426 (567)
T 1dce_A          348 DEQLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALD-PLLYEKETLQYFSTLKAVDPMRAAYLDDLR  426 (567)
T ss_dssp             TTTSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC-TGGGHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             CccceeccCChhhHHhhHHHHHHHHHHHHhccccchhhhhHHHHHHhcc-cccCCHHHHHHHHhcccCcchhhcccchhh
Confidence            34566778888877777888888888888887433100        000 1223444566677777776 4332210   


Q ss_pred             -cCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCC
Q 042981          510 -FDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLL  588 (876)
Q Consensus       510 -~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~  588 (876)
                       ....+|.+..+|.     ..|++|+|++|.|+.+|. ++++++|++|+|++| .+..+|..++.+++|++|++++|.+.
T Consensus       427 ~l~l~~n~i~~l~~-----~~L~~L~Ls~n~l~~lp~-~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~Ls~N~l~  499 (567)
T 1dce_A          427 SKFLLENSVLKMEY-----ADVRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDNALE  499 (567)
T ss_dssp             HHHHHHHHHHHHHH-----TTCSEEECTTSCCSSCCC-GGGGTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSSCCC
T ss_pred             hhhhhcccccccCc-----cCceEEEecCCCCCCCcC-ccccccCcEeecCcc-cccccchhhhcCCCCCEEECCCCCCC
Confidence             0001111222221     136666666666666665 666666666666666 34466666666666666666666553


Q ss_pred             ccCCccCCCCCCCCccCceeecCccCCCccccc------cccccCCCCCCeeeeC
Q 042981          589 KYMPIGISKLTSLRTLEKFAMGGGVDDISTCRL------ESLKNLQLLRECGIEG  637 (876)
Q Consensus       589 ~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l------~~L~~L~~L~~L~l~~  637 (876)
                      + +| .++++++|++|          +++.|.+      ..+..+++|+.|++++
T Consensus       500 ~-lp-~l~~l~~L~~L----------~Ls~N~l~~~~~p~~l~~l~~L~~L~L~~  542 (567)
T 1dce_A          500 N-VD-GVANLPRLQEL----------LLCNNRLQQSAAIQPLVSCPRLVLLNLQG  542 (567)
T ss_dssp             C-CG-GGTTCSSCCEE----------ECCSSCCCSSSTTGGGGGCTTCCEEECTT
T ss_pred             C-Cc-ccCCCCCCcEE----------ECCCCCCCCCCCcHHHhcCCCCCEEEecC
Confidence            3 55 56666666666          2222222      3344566666666665

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.31  E-value=4.2e-12  Score=127.32  Aligned_cols=132  Identities=16%  Similarity=0.130  Sum_probs=112.2

Q ss_pred             CCceEEEEeeecCCCCCc--ccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          442 GDKVRHLGLNFEGGASFP--MSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~--~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      +..++.|.++.|.+..++  ..|..+++|+.|++.+|.      ...+++..|..+++|++|+|         ++|.+..
T Consensus        31 ~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~------i~~i~~~~~~~l~~L~~L~L---------s~N~l~~   95 (220)
T 2v70_A           31 PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNK------ITDIEEGAFEGASGVNEILL---------TSNRLEN   95 (220)
T ss_dssp             CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSC------CCEECTTTTTTCTTCCEEEC---------CSSCCCC
T ss_pred             CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCc------CCEECHHHhCCCCCCCEEEC---------CCCccCc
Confidence            567889999999998773  347899999999998776      34455556899999999999         7777777


Q ss_pred             ccc-ccccCcccCeeeccCcccccc-chhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCC
Q 042981          520 IPE-NVRKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLL  588 (876)
Q Consensus       520 lp~-~i~~L~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~  588 (876)
                      +|. .+..+++|++|+|++|.|+.+ |..+.++++|++|+|++|......|..|..+++|++|++++|.+.
T Consensus        96 ~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  166 (220)
T 2v70_A           96 VQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPFN  166 (220)
T ss_dssp             CCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCCEE
T ss_pred             cCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcCCc
Confidence            765 489999999999999999977 578999999999999999655555888999999999999999764

>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=99.31  E-value=4.8e-12  Score=126.91  Aligned_cols=131  Identities=20%  Similarity=0.275  Sum_probs=111.3

Q ss_pred             CCceEEEEeeecCCCCCc-ccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc
Q 042981          442 GDKVRHLGLNFEGGASFP-MSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI  520 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~-~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l  520 (876)
                      +..++.|.++.|.+..++ ..|..+++|+.|++.+|.      ...+.+..|..+++|++|+|         ++|.+..+
T Consensus        31 ~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~------i~~~~~~~~~~l~~L~~L~L---------s~N~l~~l   95 (220)
T 2v9t_B           31 PETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQ------ISELAPDAFQGLRSLNSLVL---------YGNKITEL   95 (220)
T ss_dssp             CTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSC------CCEECTTTTTTCSSCCEEEC---------CSSCCCCC
T ss_pred             CcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCc------CCCcCHHHhhCCcCCCEEEC---------CCCcCCcc
Confidence            578999999999998874 478899999999998776      34455566899999999999         77888888


Q ss_pred             ccc-cccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCC
Q 042981          521 PEN-VRKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       521 p~~-i~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~  587 (876)
                      |.. +..+++|++|+|++|.|+.++ ..+.++++|++|+|++|......|..+..+++|++|++++|.+
T Consensus        96 ~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~  164 (220)
T 2v9t_B           96 PKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPF  164 (220)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCE
T ss_pred             CHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCCc
Confidence            866 588999999999999999774 5799999999999999954444445688999999999999965

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.30  E-value=7.4e-12  Score=124.59  Aligned_cols=140  Identities=22%  Similarity=0.308  Sum_probs=114.9

Q ss_pred             CCceEEEEeeecCCCCCcc-cccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc
Q 042981          442 GDKVRHLGLNFEGGASFPM-SIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI  520 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~-~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l  520 (876)
                      +.++++|+++.|.+..++. .+..+++|++|++.+|.      ...++...|..+++|++|++         ++|.+..+
T Consensus        27 ~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~------l~~~~~~~~~~l~~L~~L~L---------s~n~l~~~   91 (208)
T 2o6s_A           27 PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNK------LQSLPNGVFNKLTSLTYLNL---------STNQLQSL   91 (208)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC------CCCCCTTTTTTCTTCCEEEC---------CSSCCCCC
T ss_pred             CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCc------cCccChhhcCCCCCcCEEEC---------CCCcCCcc
Confidence            5689999999999987744 57899999999998776      23455666889999999999         77777777


Q ss_pred             ccc-cccCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCccccc-cccCcCCCceEecCCCCCCccCCccCCC
Q 042981          521 PEN-VRKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPA-GIGKLKKMRSLLNGGTPLLKYMPIGISK  597 (876)
Q Consensus       521 p~~-i~~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~~p~~i~~  597 (876)
                      |.. +..+++|++|+|++|.++.+|.. +.++++|++|++++|. +..+|. .+..+++|++|++++|.+.       +.
T Consensus        92 ~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~~-------~~  163 (208)
T 2o6s_A           92 PNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQ-LKSVPDGVFDRLTSLQYIWLHDNPWD-------CT  163 (208)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSCCBC-------CC
T ss_pred             CHhHhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCc-cceeCHHHhccCCCccEEEecCCCee-------cC
Confidence            755 68999999999999999988875 7899999999999995 555554 4789999999999999653       34


Q ss_pred             CCCCCcc
Q 042981          598 LTSLRTL  604 (876)
Q Consensus       598 l~~L~~L  604 (876)
                      +++|+.|
T Consensus       164 ~~~l~~L  170 (208)
T 2o6s_A          164 CPGIRYL  170 (208)
T ss_dssp             TTTTHHH
T ss_pred             CCCHHHH
Confidence            4566666

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.30  E-value=5.2e-12  Score=137.32  Aligned_cols=90  Identities=19%  Similarity=0.128  Sum_probs=41.2

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccchh-hc-cCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCcc
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPKT-LC-ELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKY  590 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~-i~-~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~  590 (876)
                      +++.+..+|..+.  ..+++|+|++|.|+.+|.. +. ++++|++|+|++|......|..|..+++|++|++++|.+...
T Consensus        26 ~~~~l~~iP~~~~--~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~  103 (361)
T 2xot_A           26 SKQQLPNVPQSLP--SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTL  103 (361)
T ss_dssp             CSSCCSSCCSSCC--TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEE
T ss_pred             CCCCcCccCccCC--CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCCcC
Confidence            4444444554432  2355555555555554443 22 455555555555532222223455555555555555544332


Q ss_pred             CCccCCCCCCCCcc
Q 042981          591 MPIGISKLTSLRTL  604 (876)
Q Consensus       591 ~p~~i~~l~~L~~L  604 (876)
                      .+..+..+++|+.|
T Consensus       104 ~~~~~~~l~~L~~L  117 (361)
T 2xot_A          104 DEFLFSDLQALEVL  117 (361)
T ss_dssp             CTTTTTTCTTCCEE
T ss_pred             CHHHhCCCcCCCEE
Confidence            22334444444444

>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=99.29  E-value=1.2e-13  Score=158.39  Aligned_cols=201  Identities=17%  Similarity=0.166  Sum_probs=117.0

Q ss_pred             cCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCcccccc-----CCCCCcccccccccccCcccCeee-cc
Q 042981          463 HGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIF-----DPYPNLIREIPENVRKLIHLKYLN-LS  536 (876)
Q Consensus       463 ~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~-----~~~~~~i~~lp~~i~~L~~Lr~L~-Ls  536 (876)
                      ..+++|+.|++.+|.      ... ++..+..++.|+.|++++|....     ....+....+|..+++|.+|+.|+ ++
T Consensus       346 ~~~~~L~~L~Ls~n~------L~~-Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~  418 (567)
T 1dce_A          346 ATDEQLFRCELSVEK------STV-LQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMR  418 (567)
T ss_dssp             STTTTSSSCCCCHHH------HHH-HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGG
T ss_pred             ccCccceeccCChhh------HHh-hHHHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchh
Confidence            456677777776554      233 33446777777777774332100     000011234556667777777777 55


Q ss_pred             Cccccccch------hhcc--CCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCccCcee
Q 042981          537 ELCIERLPK------TLCE--LYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFA  608 (876)
Q Consensus       537 ~~~i~~lp~------~i~~--L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~  608 (876)
                      .|.+..++.      .+..  ...|++|+|++| .+..+|. ++.+++|++|++++|.+. .+|..++++++|+.|    
T Consensus       419 ~n~~~~L~~l~l~~n~i~~l~~~~L~~L~Ls~n-~l~~lp~-~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L----  491 (567)
T 1dce_A          419 AAYLDDLRSKFLLENSVLKMEYADVRVLHLAHK-DLTVLCH-LEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVL----  491 (567)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCSEEECTTS-CCSSCCC-GGGGTTCCEEECCSSCCC-CCCGGGGGCTTCCEE----
T ss_pred             hcccchhhhhhhhcccccccCccCceEEEecCC-CCCCCcC-ccccccCcEeecCccccc-ccchhhhcCCCCCEE----
Confidence            554443332      1111  124777777777 4556776 777777777777777553 666666666666666    


Q ss_pred             ecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCC
Q 042981          609 MGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLN  688 (876)
Q Consensus       609 ~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~  688 (876)
                            +++.|.+..+                        + .+.++++|+.|+|++|.+                    
T Consensus       492 ------~Ls~N~l~~l------------------------p-~l~~l~~L~~L~Ls~N~l--------------------  520 (567)
T 1dce_A          492 ------QASDNALENV------------------------D-GVANLPRLQELLLCNNRL--------------------  520 (567)
T ss_dssp             ------ECCSSCCCCC------------------------G-GGTTCSSCCEEECCSSCC--------------------
T ss_pred             ------ECCCCCCCCC------------------------c-ccCCCCCCcEEECCCCCC--------------------
Confidence                  3333322221                        1 244555566666655543                    


Q ss_pred             ccEEEEeecCCCCC--CchhhcccCCcEEEEecCCCCCCCCCCCc----cc-CceEee
Q 042981          689 VKELGIVSYGGNIF--PKWLTSLTNLRDLRLKSCVICEHFPPLGK----LP-LEKLTL  739 (876)
Q Consensus       689 L~~L~l~~~~~~~l--p~~l~~l~~L~~L~L~~~~~~~~lp~l~~----Lp-L~~L~L  739 (876)
                                 ..+  |..++.+++|+.|+|++|.+.+..|....    +| |+.|++
T Consensus       521 -----------~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          521 -----------QQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSILT  567 (567)
T ss_dssp             -----------CSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEEC
T ss_pred             -----------CCCCCcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccCC
Confidence                       444  77888899999999999988766554433    67 777653

>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=99.26  E-value=6e-12  Score=120.48  Aligned_cols=125  Identities=22%  Similarity=0.184  Sum_probs=85.3

Q ss_pred             CCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccc-
Q 042981          464 GLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIER-  542 (876)
Q Consensus       464 ~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~-  542 (876)
                      ..++|+.|++.+|.     +.....+..+..+++|++|++         ++|.+..+ ..++.+++|++|+|++|.++. 
T Consensus        22 ~~~~L~~L~l~~n~-----l~~~~i~~~~~~l~~L~~L~l---------~~n~l~~~-~~~~~l~~L~~L~Ls~N~l~~~   86 (168)
T 2ell_A           22 TPAAVRELVLDNCK-----SNDGKIEGLTAEFVNLEFLSL---------INVGLISV-SNLPKLPKLKKLELSENRIFGG   86 (168)
T ss_dssp             CTTSCSEEECCSCB-----CBTTBCSSCCGGGGGCCEEEE---------ESSCCCCC-SSCCCCSSCCEEEEESCCCCSC
T ss_pred             CcccCCEEECCCCC-----CChhhHHHHHHhCCCCCEEeC---------cCCCCCCh-hhhccCCCCCEEECcCCcCchH
Confidence            34678888886654     221122333667788888888         55555555 567778888888888888776 


Q ss_pred             cchhhccCCcccEEeecCCCCCcccc--ccccCcCCCceEecCCCCCCccCCc----cCCCCCCCCccC
Q 042981          543 LPKTLCELYNLQKLDIRWCEDLRELP--AGIGKLKKMRSLLNGGTPLLKYMPI----GISKLTSLRTLE  605 (876)
Q Consensus       543 lp~~i~~L~~L~~L~L~~~~~l~~lp--~~i~~L~~L~~L~l~~~~~~~~~p~----~i~~l~~L~~L~  605 (876)
                      +|..+.++++|++|++++| .+..+|  ..+..+++|++|++++|.+. .+|.    .+..+++|+.|.
T Consensus        87 ~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~l~~l~~L~~L~l~~N~l~-~~~~~~~~~~~~l~~L~~L~  153 (168)
T 2ell_A           87 LDMLAEKLPNLTHLNLSGN-KLKDISTLEPLKKLECLKSLDLFNCEVT-NLNDYRESVFKLLPQLTYLD  153 (168)
T ss_dssp             CCHHHHHCTTCCEEECBSS-SCCSSGGGGGGSSCSCCCEEECCSSGGG-TSTTHHHHHHTTCSSCCEET
T ss_pred             HHHHHhhCCCCCEEeccCC-ccCcchhHHHHhcCCCCCEEEeeCCcCc-chHHHHHHHHHhCccCcEec
Confidence            6666777888888888887 455554  56778888888888888653 3443    566777777773

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.25  E-value=4.2e-12  Score=118.83  Aligned_cols=65  Identities=26%  Similarity=0.277  Sum_probs=31.5

Q ss_pred             cccccCcccCeeeccCccccc-cchhhccCCcccEEeecCCCCCcccc--ccccCcCCCceEecCCCCC
Q 042981          522 ENVRKLIHLKYLNLSELCIER-LPKTLCELYNLQKLDIRWCEDLRELP--AGIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       522 ~~i~~L~~Lr~L~Ls~~~i~~-lp~~i~~L~~L~~L~L~~~~~l~~lp--~~i~~L~~L~~L~l~~~~~  587 (876)
                      ..++.+++|++|+|++|.++. +|..++++++|++|++++|. +..+|  ..+..+++|++|++++|.+
T Consensus        58 ~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~ls~N~-i~~~~~~~~~~~l~~L~~L~l~~N~l  125 (149)
T 2je0_A           58 ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNK-IKDLSTIEPLKKLENLKSLDLFNCEV  125 (149)
T ss_dssp             TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEECTTSC-CCSHHHHGGGGGCTTCCEEECTTCGG
T ss_pred             hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEECCCCc-CCChHHHHHHhhCCCCCEEeCcCCcc
Confidence            334445555555555555554 44444445555555555552 33322  4445555555555555543

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.25  E-value=1.6e-11  Score=133.40  Aligned_cols=140  Identities=19%  Similarity=0.220  Sum_probs=95.1

Q ss_pred             EEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhc-cCCcceEEecCccccccCCCCCcccccc-ccc
Q 042981          447 HLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFS-KLACFRALVIGQRNFIFDPYPNLIREIP-ENV  524 (876)
Q Consensus       447 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~-~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i  524 (876)
                      .++++.+.+..+|..+.  +.++.|++.+|.      ...++...|. .+++|++|+|         ++|.+..++ ..+
T Consensus        22 ~l~c~~~~l~~iP~~~~--~~l~~L~Ls~N~------l~~l~~~~~~~~l~~L~~L~L---------~~N~i~~i~~~~~   84 (361)
T 2xot_A           22 ILSCSKQQLPNVPQSLP--SYTALLDLSHNN------LSRLRAEWTPTRLTNLHSLLL---------SHNHLNFISSEAF   84 (361)
T ss_dssp             EEECCSSCCSSCCSSCC--TTCSEEECCSSC------CCEECTTSSSSCCTTCCEEEC---------CSSCCCEECTTTT
T ss_pred             EEEeCCCCcCccCccCC--CCCCEEECCCCC------CCccChhhhhhcccccCEEEC---------CCCcCCccChhhc
Confidence            46666677777666543  457788887665      3334444455 7888888888         666666666 457


Q ss_pred             ccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccC----CCCC
Q 042981          525 RKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGI----SKLT  599 (876)
Q Consensus       525 ~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i----~~l~  599 (876)
                      .++++|++|+|++|.|+.+|. .+.++++|++|+|++|......|..|..+++|++|++++|.+ ..+|..+    ..++
T Consensus        85 ~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l-~~l~~~~~~~~~~l~  163 (361)
T 2xot_A           85 VPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQI-SRFPVELIKDGNKLP  163 (361)
T ss_dssp             TTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC-CSCCGGGTC----CT
T ss_pred             cCCCCCCEEECCCCcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcC-CeeCHHHhcCcccCC
Confidence            788888888888888887765 477888888888888854444566778888888888888865 3444432    3455


Q ss_pred             CCCcc
Q 042981          600 SLRTL  604 (876)
Q Consensus       600 ~L~~L  604 (876)
                      +|+.|
T Consensus       164 ~L~~L  168 (361)
T 2xot_A          164 KLMLL  168 (361)
T ss_dssp             TCCEE
T ss_pred             cCCEE
Confidence            55555

>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=99.23  E-value=1.5e-11  Score=120.48  Aligned_cols=126  Identities=21%  Similarity=0.244  Sum_probs=85.9

Q ss_pred             EEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhH-HHhccCCcceEEecCccccccCCCCCccccc-ccc
Q 042981          446 RHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILS-ELFSKLACFRALVIGQRNFIFDPYPNLIREI-PEN  523 (876)
Q Consensus       446 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~-~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l-p~~  523 (876)
                      +.++++.+.+..+|..+..  +|++|++.+|.      ...+++ .+|..+++|++|+|         ++|.+..+ |..
T Consensus        11 ~~l~~s~~~l~~ip~~~~~--~l~~L~l~~n~------i~~~~~~~~~~~l~~L~~L~L---------s~N~l~~~~~~~   73 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDIPL--HTTELLLNDNE------LGRISSDGLFGRLPHLVKLEL---------KRNQLTGIEPNA   73 (192)
T ss_dssp             TEEECTTSCCSSCCSCCCT--TCSEEECCSCC------CCSBCCSCSGGGCTTCCEEEC---------CSSCCCCBCTTT
T ss_pred             CEEEcCCCCcCcCccCCCC--CCCEEECCCCc------CCccCCccccccCCCCCEEEC---------CCCCCCCcCHhH
Confidence            4566777777776665533  77788776664      122222 23667778888888         55666655 566


Q ss_pred             cccCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCC
Q 042981          524 VRKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLL  588 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~  588 (876)
                      +.++++|++|+|++|.|+.+|.. +.++++|++|+|++|......|..+..+++|++|++++|.+.
T Consensus        74 ~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           74 FEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             TTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             cCCcccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCCcc
Confidence            77778888888888887766653 777788888888877555555777777788888888777654

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.21  E-value=7.2e-12  Score=117.24  Aligned_cols=124  Identities=23%  Similarity=0.209  Sum_probs=89.9

Q ss_pred             CCceEEEEeeecCCC--CCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          442 GDKVRHLGLNFEGGA--SFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~--~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      +.+++++.++.|.+.  .++..+..+++|+.|++.+|..      ..+  ..+..+++|++|++         ++|.+..
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l------~~~--~~~~~l~~L~~L~L---------s~n~i~~   78 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGL------TSI--ANLPKLNKLKKLEL---------SDNRVSG   78 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCC------CCC--TTCCCCTTCCEEEC---------CSSCCCS
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCC------CCc--hhhhcCCCCCEEEC---------CCCcccc
Confidence            466788888888776  5677777788888888876652      111  34677888888888         5666665


Q ss_pred             -cccccccCcccCeeeccCccccccc--hhhccCCcccEEeecCCCCCccccc----cccCcCCCceEecC
Q 042981          520 -IPENVRKLIHLKYLNLSELCIERLP--KTLCELYNLQKLDIRWCEDLRELPA----GIGKLKKMRSLLNG  583 (876)
Q Consensus       520 -lp~~i~~L~~Lr~L~Ls~~~i~~lp--~~i~~L~~L~~L~L~~~~~l~~lp~----~i~~L~~L~~L~l~  583 (876)
                       +|..++.+++|++|++++|.++.+|  ..++.+++|++|++++| .+..+|.    .+..+++|++|+++
T Consensus        79 ~~~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           79 GLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNC-EVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             CTHHHHHHCTTCCEEECTTSCCCSHHHHGGGGGCTTCCEEECTTC-GGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             hHHHHhhhCCCCCEEECCCCcCCChHHHHHHhhCCCCCEEeCcCC-cccchHHHHHHHHHHCCCcccccCC
Confidence             6666677888888888888888765  67888888888888887 4555554    57778888888765

>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=99.20  E-value=1.3e-11  Score=119.18  Aligned_cols=125  Identities=26%  Similarity=0.194  Sum_probs=86.3

Q ss_pred             cccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccc
Q 042981          461 SIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCI  540 (876)
Q Consensus       461 ~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i  540 (876)
                      .+.++++|+.|++.+|..      ..+ +.+....++|++|++         ++|.+..+ +.++.+++|++|+|++|.|
T Consensus        14 ~~~~~~~L~~L~l~~n~l------~~i-~~~~~~~~~L~~L~L---------s~N~l~~~-~~l~~l~~L~~L~Ls~N~l   76 (176)
T 1a9n_A           14 QYTNAVRDRELDLRGYKI------PVI-ENLGATLDQFDAIDF---------SDNEIRKL-DGFPLLRRLKTLLVNNNRI   76 (176)
T ss_dssp             EEECTTSCEEEECTTSCC------CSC-CCGGGGTTCCSEEEC---------CSSCCCEE-CCCCCCSSCCEEECCSSCC
T ss_pred             hcCCcCCceEEEeeCCCC------chh-HHhhhcCCCCCEEEC---------CCCCCCcc-cccccCCCCCEEECCCCcc
Confidence            455677777887766652      121 222333447888888         55666665 5677788888888888888


Q ss_pred             cccchhh-ccCCcccEEeecCCCCCccccc--cccCcCCCceEecCCCCCCccCCcc----CCCCCCCCcc
Q 042981          541 ERLPKTL-CELYNLQKLDIRWCEDLRELPA--GIGKLKKMRSLLNGGTPLLKYMPIG----ISKLTSLRTL  604 (876)
Q Consensus       541 ~~lp~~i-~~L~~L~~L~L~~~~~l~~lp~--~i~~L~~L~~L~l~~~~~~~~~p~~----i~~l~~L~~L  604 (876)
                      +.+|+.+ +.+++|++|++++| .+..+|.  .+..+++|++|++++|.+ ..+|..    ++.+++|+.|
T Consensus        77 ~~~~~~~~~~l~~L~~L~L~~N-~i~~~~~~~~l~~l~~L~~L~l~~N~i-~~~~~~~~~~~~~l~~L~~L  145 (176)
T 1a9n_A           77 CRIGEGLDQALPDLTELILTNN-SLVELGDLDPLASLKSLTYLCILRNPV-TNKKHYRLYVIYKVPQVRVL  145 (176)
T ss_dssp             CEECSCHHHHCTTCCEEECCSC-CCCCGGGGGGGGGCTTCCEEECCSSGG-GGSTTHHHHHHHHCTTCSEE
T ss_pred             cccCcchhhcCCCCCEEECCCC-cCCcchhhHhhhcCCCCCEEEecCCCC-CCcHhHHHHHHHHCCcccee
Confidence            8877654 78888888888887 4566776  677888888888888865 355553    5666666666

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.20  E-value=8.4e-12  Score=147.88  Aligned_cols=120  Identities=22%  Similarity=0.207  Sum_probs=89.3

Q ss_pred             cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCc
Q 042981          459 PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSEL  538 (876)
Q Consensus       459 ~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~  538 (876)
                      +..+..+++|+.|++.+|.      ...++..+ ..+++|++|+|         ++|.+..+|..|++|++|++|+|++|
T Consensus       217 ~~~~~~l~~L~~L~Ls~n~------l~~l~~~~-~~l~~L~~L~L---------s~N~l~~lp~~~~~l~~L~~L~Ls~N  280 (727)
T 4b8c_D          217 KDSKYDDQLWHALDLSNLQ------IFNISANI-FKYDFLTRLYL---------NGNSLTELPAEIKNLSNLRVLDLSHN  280 (727)
T ss_dssp             -----CCCCCCEEECTTSC------CSCCCGGG-GGCCSCSCCBC---------TTSCCSCCCGGGGGGTTCCEEECTTS
T ss_pred             hhhhccCCCCcEEECCCCC------CCCCChhh-cCCCCCCEEEe---------eCCcCcccChhhhCCCCCCEEeCcCC
Confidence            5667778888888887665      22334443 37888888888         66777778888888888888888888


Q ss_pred             cccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccC
Q 042981          539 CIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGI  595 (876)
Q Consensus       539 ~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i  595 (876)
                      .|+.+|..|++|++|++|+|++| .+..+|..|++|++|++|+|++|.+.+.+|..+
T Consensus       281 ~l~~lp~~~~~l~~L~~L~L~~N-~l~~lp~~~~~l~~L~~L~L~~N~l~~~~p~~~  336 (727)
T 4b8c_D          281 RLTSLPAELGSCFQLKYFYFFDN-MVTTLPWEFGNLCNLQFLGVEGNPLEKQFLKIL  336 (727)
T ss_dssp             CCSSCCSSGGGGTTCSEEECCSS-CCCCCCSSTTSCTTCCCEECTTSCCCSHHHHHH
T ss_pred             cCCccChhhcCCCCCCEEECCCC-CCCccChhhhcCCCccEEeCCCCccCCCChHHH
Confidence            88888888888888888888888 567888888888888888888887766666544

>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=99.18  E-value=3.8e-11  Score=117.55  Aligned_cols=99  Identities=19%  Similarity=0.186  Sum_probs=77.1

Q ss_pred             cceEEecCccccccCCCCCcccccccc--cccCcccCeeeccCcccccc-chhhccCCcccEEeecCCCCCccccccccC
Q 042981          497 CFRALVIGQRNFIFDPYPNLIREIPEN--VRKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAGIGK  573 (876)
Q Consensus       497 ~Lr~L~L~~~~~~~~~~~~~i~~lp~~--i~~L~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~~i~~  573 (876)
                      .|++|++         ++|.+..++..  ++.+++|++|+|++|.|+.+ |..+.++++|++|+|++|......|..+..
T Consensus        30 ~l~~L~l---------~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~  100 (192)
T 1w8a_A           30 HTTELLL---------NDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLG  100 (192)
T ss_dssp             TCSEEEC---------CSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTT
T ss_pred             CCCEEEC---------CCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcCCccCHHHhcC
Confidence            7888888         66677777653  78888888888888888866 567888888888888888544445555788


Q ss_pred             cCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          574 LKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       574 L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      +++|++|++++|.+.+..|..++.+++|++|
T Consensus       101 l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L  131 (192)
T 1w8a_A          101 LHQLKTLNLYDNQISCVMPGSFEHLNSLTSL  131 (192)
T ss_dssp             CTTCCEEECCSSCCCEECTTSSTTCTTCCEE
T ss_pred             CCCCCEEECCCCcCCeeCHHHhhcCCCCCEE
Confidence            8888888888888777777777777777777

>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=99.17  E-value=2.8e-11  Score=116.78  Aligned_cols=127  Identities=20%  Similarity=0.120  Sum_probs=107.4

Q ss_pred             CCceEEEEeeecCCCCCcccccCCC-cceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccc
Q 042981          442 GDKVRHLGLNFEGGASFPMSIHGLN-RLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREI  520 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~~~~~~~~~-~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l  520 (876)
                      ..+++.|.+++|.+..++. +..+. +|+.|++.+|..      ..+  ..+..+++|++|++         ++|.+..+
T Consensus        18 ~~~L~~L~l~~n~l~~i~~-~~~~~~~L~~L~Ls~N~l------~~~--~~l~~l~~L~~L~L---------s~N~l~~~   79 (176)
T 1a9n_A           18 AVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEI------RKL--DGFPLLRRLKTLLV---------NNNRICRI   79 (176)
T ss_dssp             TTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSSCC------CEE--CCCCCCSSCCEEEC---------CSSCCCEE
T ss_pred             cCCceEEEeeCCCCchhHH-hhhcCCCCCEEECCCCCC------Ccc--cccccCCCCCEEEC---------CCCccccc
Confidence            6789999999999988754 44444 999999987762      222  34789999999999         77888888


Q ss_pred             cccc-ccCcccCeeeccCccccccch--hhccCCcccEEeecCCCCCcccccc----ccCcCCCceEecCCCCC
Q 042981          521 PENV-RKLIHLKYLNLSELCIERLPK--TLCELYNLQKLDIRWCEDLRELPAG----IGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       521 p~~i-~~L~~Lr~L~Ls~~~i~~lp~--~i~~L~~L~~L~L~~~~~l~~lp~~----i~~L~~L~~L~l~~~~~  587 (876)
                      |..+ +.+++|++|+|++|.|+.+|.  .+..+++|++|++++| .+..+|..    +..+++|++|++++|..
T Consensus        80 ~~~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N-~i~~~~~~~~~~~~~l~~L~~Ld~~~n~~  152 (176)
T 1a9n_A           80 GEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRN-PVTNKKHYRLYVIYKVPQVRVLDFQKVKL  152 (176)
T ss_dssp             CSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSS-GGGGSTTHHHHHHHHCTTCSEETTEECCH
T ss_pred             CcchhhcCCCCCEEECCCCcCCcchhhHhhhcCCCCCEEEecCC-CCCCcHhHHHHHHHHCCccceeCCCcCCH
Confidence            8665 899999999999999999997  8999999999999999 56677875    89999999999998854

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.13  E-value=1.2e-10  Score=113.87  Aligned_cols=120  Identities=17%  Similarity=0.201  Sum_probs=54.9

Q ss_pred             EEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-cccc
Q 042981          447 HLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVR  525 (876)
Q Consensus       447 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~  525 (876)
                      .++++.+.+..+|..+.  ++|++|++.+|..      ..++ ..|..+++|++|+|         ++|.+..++ ..|.
T Consensus        14 ~l~~~~~~l~~ip~~~~--~~l~~L~L~~n~i------~~ip-~~~~~l~~L~~L~L---------s~N~i~~i~~~~f~   75 (193)
T 2wfh_A           14 VVRCSNKGLKVLPKGIP--RDVTELYLDGNQF------TLVP-KELSNYKHLTLIDL---------SNNRISTLSNQSFS   75 (193)
T ss_dssp             EEECTTSCCSSCCSCCC--TTCCEEECCSSCC------CSCC-GGGGGCTTCCEEEC---------CSSCCCCCCTTTTT
T ss_pred             EEEcCCCCCCcCCCCCC--CCCCEEECCCCcC------chhH-HHhhcccCCCEEEC---------CCCcCCEeCHhHcc
Confidence            34455555555444332  3455555544431      1122 23445555555555         444444433 2345


Q ss_pred             cCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccc-cccCcCCCceEecCCC
Q 042981          526 KLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPA-GIGKLKKMRSLLNGGT  585 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~L~l~~~  585 (876)
                      ++++|++|+|++|.|+.+|. .+.++++|++|+|++|. +..+|. .+..+++|++|++++|
T Consensus        76 ~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N  136 (193)
T 2wfh_A           76 NMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGND-ISVVPEGAFNDLSALSHLAIGAN  136 (193)
T ss_dssp             TCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSC-CCBCCTTTTTTCTTCCEEECCSS
T ss_pred             CCCCCCEEECCCCccCEeCHHHhCCCCCCCEEECCCCC-CCeeChhhhhcCccccEEEeCCC
Confidence            55555555555555554443 34455555555555542 333332 2444555555555554

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.13  E-value=1.6e-10  Score=112.99  Aligned_cols=90  Identities=18%  Similarity=0.175  Sum_probs=49.6

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMP  592 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p  592 (876)
                      +++.+..+|..+.  .+|++|+|++|.|+.+|..+.++++|++|+|++|......|..|..+++|++|++++|.+....|
T Consensus        18 ~~~~l~~ip~~~~--~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~   95 (193)
T 2wfh_A           18 SNKGLKVLPKGIP--RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPP   95 (193)
T ss_dssp             TTSCCSSCCSCCC--TTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCT
T ss_pred             CCCCCCcCCCCCC--CCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCEeCH
Confidence            4555555555443  35666666666666666666666666666666663333333445666666666666665544444


Q ss_pred             ccCCCCCCCCcc
Q 042981          593 IGISKLTSLRTL  604 (876)
Q Consensus       593 ~~i~~l~~L~~L  604 (876)
                      ..++.+++|+.|
T Consensus        96 ~~f~~l~~L~~L  107 (193)
T 2wfh_A           96 RTFDGLKSLRLL  107 (193)
T ss_dssp             TTTTTCTTCCEE
T ss_pred             HHhCCCCCCCEE
Confidence            445555555555

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.12  E-value=1.6e-10  Score=111.53  Aligned_cols=126  Identities=24%  Similarity=0.343  Sum_probs=89.8

Q ss_pred             EEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccc-c
Q 042981          446 RHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPEN-V  524 (876)
Q Consensus       446 r~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~-i  524 (876)
                      +.+.+..+++..+|..+  .++|++|++.++.      ...++...|..+++|++|++         ++|.+..+|.. +
T Consensus        10 ~~l~~~~~~l~~~p~~~--~~~l~~L~l~~n~------l~~~~~~~~~~l~~L~~L~l---------~~n~l~~~~~~~~   72 (177)
T 2o6r_A           10 TEIRCNSKGLTSVPTGI--PSSATRLELESNK------LQSLPHGVFDKLTQLTKLSL---------SQNQIQSLPDGVF   72 (177)
T ss_dssp             TEEECCSSCCSSCCTTC--CTTCSEEECCSSC------CCCCCTTTTTTCTTCSEEEC---------CSSCCCCCCTTTT
T ss_pred             CEEEecCCCCccCCCCC--CCCCcEEEeCCCc------ccEeCHHHhcCcccccEEEC---------CCCcceEeChhHc
Confidence            34666667776666444  3688888887665      23344555677888888888         66666676654 5


Q ss_pred             ccCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCcccccc-ccCcCCCceEecCCCCCCc
Q 042981          525 RKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPAG-IGKLKKMRSLLNGGTPLLK  589 (876)
Q Consensus       525 ~~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~  589 (876)
                      ..+++|++|+|++|.++.+|.. +.++++|++|++++| .+..+|.. +..+++|++|++++|.+..
T Consensus        73 ~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N~~~~  138 (177)
T 2o6r_A           73 DKLTKLTILYLHENKLQSLPNGVFDKLTQLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHTNPWDC  138 (177)
T ss_dssp             TTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSCBCC
T ss_pred             cCCCccCEEECCCCCccccCHHHhhCCcccCEEECcCC-cceEeCHHHhcCCcccCEEEecCCCeec
Confidence            7888888888888888877764 578888888888888 45555554 4678888888888886543

>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=99.09  E-value=1.1e-09  Score=117.39  Aligned_cols=119  Identities=10%  Similarity=0.118  Sum_probs=69.8

Q ss_pred             CCcceEEeeecCCCCCCCCchhhhHHHhcc-CCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCcccccc
Q 042981          465 LNRLRTLLIYFQSPSNPSLNSSILSELFSK-LACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERL  543 (876)
Q Consensus       465 ~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~-l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~l  543 (876)
                      +.+|+.|.+.++-      ....... +.. +++|++|||++|         .+......-+.++.++++.+..+   .+
T Consensus        24 ~~~l~~L~l~g~i------~~~~~~~-l~~~l~~L~~LdLs~n---------~i~~~~~~~~~~~~~~~~~~~~~---~I   84 (329)
T 3sb4_A           24 ANSITHLTLTGKL------NAEDFRH-LRDEFPSLKVLDISNA---------EIKMYSGKAGTYPNGKFYIYMAN---FV   84 (329)
T ss_dssp             HHHCSEEEEEEEE------CHHHHHH-HHHSCTTCCEEEEEEE---------EECCEEESSSSSGGGCCEEECTT---EE
T ss_pred             hCceeEEEEeccc------cHHHHHH-HHHhhccCeEEecCcc---------eeEEecCcccccccccccccccc---cc
Confidence            5678888886542      1222233 333 888999999444         44411111122233566666665   33


Q ss_pred             ch-hhcc--------CCcccEEeecCCCCCcccc-ccccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          544 PK-TLCE--------LYNLQKLDIRWCEDLRELP-AGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       544 p~-~i~~--------L~~L~~L~L~~~~~l~~lp-~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      |+ .|.+        +++|+.|+|.+  .+..++ ..|..+++|+.|++++|.+....+..|..+.++..+
T Consensus        85 ~~~aF~~~~~~~~~g~~~L~~l~L~~--~i~~I~~~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l  153 (329)
T 3sb4_A           85 PAYAFSNVVNGVTKGKQTLEKVILSE--KIKNIEDAAFKGCDNLKICQIRKKTAPNLLPEALADSVTAIFI  153 (329)
T ss_dssp             CTTTTEEEETTEEEECTTCCC-CBCT--TCCEECTTTTTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEE
T ss_pred             CHHHhcccccccccccCCCcEEECCc--cccchhHHHhhcCcccceEEcCCCCccccchhhhcCCCceEEe
Confidence            33 4666        88899998887  344444 457888899999988886654445556555544444

>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=99.06  E-value=2.1e-12  Score=127.34  Aligned_cols=119  Identities=22%  Similarity=0.211  Sum_probs=74.6

Q ss_pred             CCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeee
Q 042981          455 GASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLN  534 (876)
Q Consensus       455 ~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~  534 (876)
                      ++.++..+..+++|++|++.+|..      ..++  .+..+++|++|++         ++|.+..+|..+..+++|++|+
T Consensus        37 l~~l~~~~~~l~~L~~L~ls~n~l------~~l~--~~~~l~~L~~L~l---------~~n~l~~l~~~~~~~~~L~~L~   99 (198)
T 1ds9_A           37 IEKMDATLSTLKACKHLALSTNNI------EKIS--SLSGMENLRILSL---------GRNLIKKIENLDAVADTLEELW   99 (198)
T ss_dssp             CCCCHHHHHHTTTCSEEECSEEEE------SCCC--CHHHHTTCCEEEE---------EEEEECSCSSHHHHHHHCSEEE
T ss_pred             HhhhhHHHhcCCCCCEEECCCCCC------cccc--ccccCCCCCEEEC---------CCCCcccccchhhcCCcCCEEE
Confidence            344444666677777777765541      1222  3566677777777         5555556666666667777777


Q ss_pred             ccCccccccchhhccCCcccEEeecCCCCCccccc--cccCcCCCceEecCCCCCCccCC
Q 042981          535 LSELCIERLPKTLCELYNLQKLDIRWCEDLRELPA--GIGKLKKMRSLLNGGTPLLKYMP  592 (876)
Q Consensus       535 Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~--~i~~L~~L~~L~l~~~~~~~~~p  592 (876)
                      |++|.++.+| .+.++++|++|++++| .+..+|.  .+..+++|++|++++|.+....|
T Consensus       100 L~~N~l~~l~-~~~~l~~L~~L~l~~N-~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~  157 (198)
T 1ds9_A          100 ISYNQIASLS-GIEKLVNLRVLYMSNN-KITNWGEIDKLAALDKLEDLLLAGNPLYNDYK  157 (198)
T ss_dssp             EEEEECCCHH-HHHHHHHSSEEEESEE-ECCCHHHHHHHTTTTTCSEEEECSCHHHHHHH
T ss_pred             CcCCcCCcCC-ccccCCCCCEEECCCC-cCCchhHHHHHhcCCCCCEEEecCCccccccc
Confidence            7777777766 4667777777777776 3444443  56677777777777775544433

>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=98.99  E-value=5.4e-12  Score=124.40  Aligned_cols=101  Identities=23%  Similarity=0.312  Sum_probs=78.0

Q ss_pred             HhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccccc
Q 042981          491 LFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAG  570 (876)
Q Consensus       491 ~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~  570 (876)
                      .+..+++|++|++         ++|.+..+| .+..+++|++|++++|.++.+|..+..+++|++|++++| .+..+| .
T Consensus        43 ~~~~l~~L~~L~l---------s~n~l~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N-~l~~l~-~  110 (198)
T 1ds9_A           43 TLSTLKACKHLAL---------STNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYN-QIASLS-G  110 (198)
T ss_dssp             HHHHTTTCSEEEC---------SEEEESCCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEE-ECCCHH-H
T ss_pred             HHhcCCCCCEEEC---------CCCCCcccc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCC-cCCcCC-c
Confidence            4778888899998         666666777 788888899999998888888888888888999999888 556676 5


Q ss_pred             ccCcCCCceEecCCCCCCccCC--ccCCCCCCCCcc
Q 042981          571 IGKLKKMRSLLNGGTPLLKYMP--IGISKLTSLRTL  604 (876)
Q Consensus       571 i~~L~~L~~L~l~~~~~~~~~p--~~i~~l~~L~~L  604 (876)
                      +..+++|++|++++|.+.. +|  ..+..+++|++|
T Consensus       111 ~~~l~~L~~L~l~~N~i~~-~~~~~~l~~l~~L~~L  145 (198)
T 1ds9_A          111 IEKLVNLRVLYMSNNKITN-WGEIDKLAALDKLEDL  145 (198)
T ss_dssp             HHHHHHSSEEEESEEECCC-HHHHHHHTTTTTCSEE
T ss_pred             cccCCCCCEEECCCCcCCc-hhHHHHHhcCCCCCEE
Confidence            8888889999888886532 22  245566666666

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.95  E-value=2.1e-09  Score=103.53  Aligned_cols=99  Identities=28%  Similarity=0.390  Sum_probs=76.5

Q ss_pred             CCcceEEecCccccccCCCCCcccccccc-cccCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCccccc-cc
Q 042981          495 LACFRALVIGQRNFIFDPYPNLIREIPEN-VRKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPA-GI  571 (876)
Q Consensus       495 l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~-i~~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~-~i  571 (876)
                      .++|+.|++         ++|.+..+|.. ++.+++|++|+|++|.++.+|.. +.++++|++|++++|. +..+|. .+
T Consensus        27 ~~~l~~L~l---------~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~   96 (177)
T 2o6r_A           27 PSSATRLEL---------ESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENK-LQSLPNGVF   96 (177)
T ss_dssp             CTTCSEEEC---------CSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTT
T ss_pred             CCCCcEEEe---------CCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCC-ccccCHHHh
Confidence            368899999         66667777654 58889999999999999988765 6889999999999984 445544 46


Q ss_pred             cCcCCCceEecCCCCCCccCCcc-CCCCCCCCcc
Q 042981          572 GKLKKMRSLLNGGTPLLKYMPIG-ISKLTSLRTL  604 (876)
Q Consensus       572 ~~L~~L~~L~l~~~~~~~~~p~~-i~~l~~L~~L  604 (876)
                      ..+++|++|++++|.+. .+|.. +..+++|++|
T Consensus        97 ~~l~~L~~L~l~~N~l~-~~~~~~~~~l~~L~~L  129 (177)
T 2o6r_A           97 DKLTQLKELALDTNQLK-SVPDGIFDRLTSLQKI  129 (177)
T ss_dssp             TTCTTCCEEECCSSCCS-CCCTTTTTTCTTCCEE
T ss_pred             hCCcccCEEECcCCcce-EeCHHHhcCCcccCEE
Confidence            88999999999999775 44443 4667777777

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=98.93  E-value=1.6e-09  Score=120.11  Aligned_cols=233  Identities=14%  Similarity=0.005  Sum_probs=127.4

Q ss_pred             CCceeeccchHHHHHHHh-hccCCcCCCCeEEEEE--EecCCchHHHHHHHHHcCccccc-----cCC-eEEEEEeCCch
Q 042981          123 EGEVCGRVDEKNELLSKL-LFESSEQQKGLHVISL--VGLGGMGKTTLAQLAYNNDEVKR-----NFE-KVIWVCVSDTF  193 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L-~~~~~~~~~~~~vi~I--~G~gGiGKTtLa~~v~~~~~~~~-----~F~-~~~wv~vs~~~  193 (876)
                      +..++||+++++++.+.+ ...........+++.|  +|++|+||||||+++++.  ...     .|+ .++|+.+....
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~   98 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKR--VSEAAAKEGLTVKQAYVNAFNAP   98 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHH--HHHHHHHTTCCEEEEEEEGGGCC
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHH--HHHHHhccCCceeEEEEECCCCC
Confidence            367999999999999988 4321100013345555  999999999999999984  322     123 35677754433


Q ss_pred             hHHHHHHHHH-------------------------Hh--------ccccccCC------ccChhhHHhhhccC---C--C
Q 042981          194 EEIRVANAII-------------------------EG--------LDDVWDGD------YNKWEPFFHCLKHG---L--H  229 (876)
Q Consensus       194 ~~~~~~~~i~-------------------------~~--------lDdvw~~~------~~~~~~l~~~l~~~---~--~  229 (876)
                      +...+...++                         ..        |||+|.-+      .+.+..+...+...   +  .
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            3333222221                         11        89987632      12333333333322   1  3


Q ss_pred             CCEEEEEcCchHHHHhh--------CC-cceEeCCCCCcccc--ccCCC----cCCccchHHHHHHHHHHcC------CC
Q 042981          230 GSKILLTTRNESVARMM--------GS-TNIIFIEQLTEEES--FSGRS----FEDCEKLEPIGRKIARKCK------GL  288 (876)
Q Consensus       230 gs~iivTTR~~~v~~~~--------~~-~~~~~l~~L~~~~~--~f~~~----~~~~~~l~~~~~~i~~~c~------Gl  288 (876)
                      ...||+||+...+...+        .. ...+++.+++.++.  ++...    .....--.+....|++.|+      |.
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            34478888766543211        11 22399999999987  33211    1111122457788999999      99


Q ss_pred             chHHHHhhhhh-c-----CC--ccHHHHHHHhhhhhccccccCCcchhhHhhcccCCCCchhHHHHHhHhccCC--CCce
Q 042981          289 PLAAKATGNLL-R-----SK--SILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAIFP--KEYN  358 (876)
Q Consensus       289 Plai~~~~~~L-~-----~~--~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~lk~cfly~~~fp--~~~~  358 (876)
                      |..+..+.... .     ..  -+.+.+..++.....         ...+.-++..||.  +.+.++..++.+.  .+..
T Consensus       259 p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~---------~~~~~~~l~~l~~--~~~~~l~aia~l~~~~~~~  327 (412)
T 1w5s_A          259 ARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA---------ASIQTHELEALSI--HELIILRLIAEATLGGMEW  327 (412)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC---------------CCSSSSSCH--HHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc---------cchHHHHHHcCCH--HHHHHHHHHHHHHhcCCCC
Confidence            97655544321 1     11  123334433322100         2334556788998  7888888888653  2234


Q ss_pred             eChHHHHHHH
Q 042981          359 IKKKELISLW  368 (876)
Q Consensus       359 i~~~~li~~W  368 (876)
                      +...++...|
T Consensus       328 ~~~~~~~~~~  337 (412)
T 1w5s_A          328 INAGLLRQRY  337 (412)
T ss_dssp             BCHHHHHHHH
T ss_pred             ccHHHHHHHH
Confidence            5555544433

>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=2.6e-09  Score=102.01  Aligned_cols=89  Identities=25%  Similarity=0.331  Sum_probs=51.9

Q ss_pred             CCCcccccccccccCcccCeeeccCcccccc-chhhccCCcccEEeecCCCCCcccccc-ccCcCCCceEecCCCCCCcc
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAG-IGKLKKMRSLLNGGTPLLKY  590 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~  590 (876)
                      +++.+..+|..+.  .+|++|+|++|.|+.+ |..+.++++|++|+|++|. +..+|.. |..+++|++|++++|.+.+.
T Consensus        17 s~n~l~~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~~~f~~l~~L~~L~L~~N~l~~~   93 (170)
T 3g39_A           17 SGKSLASVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQ-LTVLPAGVFDKLTQLTQLSLNDNQLKSI   93 (170)
T ss_dssp             TTSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCCC
T ss_pred             CCCCcCccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCC-cCccChhhccCCCCCCEEECCCCccCEe
Confidence            5555566665543  5666666666666655 3446666666666666663 3344433 45666666666666655433


Q ss_pred             CCccCCCCCCCCcc
Q 042981          591 MPIGISKLTSLRTL  604 (876)
Q Consensus       591 ~p~~i~~l~~L~~L  604 (876)
                      .+..++.+++|+.|
T Consensus        94 ~~~~~~~l~~L~~L  107 (170)
T 3g39_A           94 PRGAFDNLKSLTHI  107 (170)
T ss_dssp             CTTTTTTCTTCCEE
T ss_pred             CHHHhcCCCCCCEE
Confidence            33345566666655

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.89  E-value=4.4e-09  Score=100.76  Aligned_cols=88  Identities=25%  Similarity=0.340  Sum_probs=38.8

Q ss_pred             CCCcccccccccccCcccCeeeccCcccccc-chhhccCCcccEEeecCCCCCcccccc-ccCcCCCceEecCCCCCCcc
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAG-IGKLKKMRSLLNGGTPLLKY  590 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~~-i~~L~~L~~L~l~~~~~~~~  590 (876)
                      +++.+..+|..+.  .+|++|+|++|.|+.+ |..+.++++|++|+|++| .+..+|.. +.++++|++|++++|.+. .
T Consensus        20 ~~n~l~~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L~L~~N~l~-~   95 (174)
T 2r9u_A           20 QNIRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSN-KLTAIPTGVFDKLTQLTQLDLNDNHLK-S   95 (174)
T ss_dssp             CSSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC-C
T ss_pred             CCCCCCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCC-CCCccChhHhCCcchhhEEECCCCccc-e
Confidence            4444444444432  4455555555555444 233444555555555544 23333332 344555555555554432 2


Q ss_pred             CCc-cCCCCCCCCcc
Q 042981          591 MPI-GISKLTSLRTL  604 (876)
Q Consensus       591 ~p~-~i~~l~~L~~L  604 (876)
                      +|. .++.+++|+.|
T Consensus        96 l~~~~~~~l~~L~~L  110 (174)
T 2r9u_A           96 IPRGAFDNLKSLTHI  110 (174)
T ss_dssp             CCTTTTTTCTTCSEE
T ss_pred             eCHHHhccccCCCEE
Confidence            222 24444444444

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.86  E-value=2.7e-09  Score=102.26  Aligned_cols=82  Identities=22%  Similarity=0.357  Sum_probs=59.1

Q ss_pred             CcceEEecCccccccCCCCCccccc-ccccccCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCcccccc-cc
Q 042981          496 ACFRALVIGQRNFIFDPYPNLIREI-PENVRKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPAG-IG  572 (876)
Q Consensus       496 ~~Lr~L~L~~~~~~~~~~~~~i~~l-p~~i~~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~~-i~  572 (876)
                      +.|++|+|         ++|.+..+ |..+.++++|++|+|++|.|+.+|.. +.++++|++|+|++| .+..+|.. +.
T Consensus        33 ~~L~~L~L---------s~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~  102 (174)
T 2r9u_A           33 TDKQRLWL---------NNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDN-HLKSIPRGAFD  102 (174)
T ss_dssp             TTCSEEEC---------CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTT
T ss_pred             CCCcEEEe---------CCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCC-ccceeCHHHhc
Confidence            56777777         66666665 45667788888888888888877765 467888888888877 45555554 77


Q ss_pred             CcCCCceEecCCCCC
Q 042981          573 KLKKMRSLLNGGTPL  587 (876)
Q Consensus       573 ~L~~L~~L~l~~~~~  587 (876)
                      .+++|++|++++|.+
T Consensus       103 ~l~~L~~L~L~~N~~  117 (174)
T 2r9u_A          103 NLKSLTHIYLYNNPW  117 (174)
T ss_dssp             TCTTCSEEECCSSCB
T ss_pred             cccCCCEEEeCCCCc
Confidence            788888888887755

>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=98.82  E-value=9.6e-09  Score=111.40  Aligned_cols=161  Identities=16%  Similarity=0.206  Sum_probs=102.6

Q ss_pred             cCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCc---------
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT---------  192 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~---------  192 (876)
                      ....++||+++.+.+.+ +.      .   +++.|+|++|+|||||++++.+.  ...   ..+|+.+...         
T Consensus        11 ~~~~~~gR~~el~~L~~-l~------~---~~v~i~G~~G~GKT~L~~~~~~~--~~~---~~~~~~~~~~~~~~~~~~~   75 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LR------A---PITLVLGLRRTGKSSIIKIGINE--LNL---PYIYLDLRKFEERNYISYK   75 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TC------S---SEEEEEESTTSSHHHHHHHHHHH--HTC---CEEEEEGGGGTTCSCCCHH
T ss_pred             CHHHhcChHHHHHHHHH-hc------C---CcEEEECCCCCCHHHHHHHHHHh--cCC---CEEEEEchhhccccCCCHH
Confidence            34579999999999998 63      1   58999999999999999999873  222   2467765431         


Q ss_pred             ----------------------------------------------hhHHHHHHHHHH----h----ccccccCCc---c
Q 042981          193 ----------------------------------------------FEEIRVANAIIE----G----LDDVWDGDY---N  215 (876)
Q Consensus       193 ----------------------------------------------~~~~~~~~~i~~----~----lDdvw~~~~---~  215 (876)
                                                                    .....+...+.+    .    +||++.-+.   .
T Consensus        76 ~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~  155 (357)
T 2fna_A           76 DFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGV  155 (357)
T ss_dssp             HHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTC
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCch
Confidence                                                          011223322222    1    788865321   2


Q ss_pred             ChhhHHhhhccCCCCCEEEEEcCchHHHHhh-----------CC-cceEeCCCCCcccc--ccCCC----cCCccchHHH
Q 042981          216 KWEPFFHCLKHGLHGSKILLTTRNESVARMM-----------GS-TNIIFIEQLTEEES--FSGRS----FEDCEKLEPI  277 (876)
Q Consensus       216 ~~~~l~~~l~~~~~gs~iivTTR~~~v~~~~-----------~~-~~~~~l~~L~~~~~--~f~~~----~~~~~~l~~~  277 (876)
                      .|..+...+.+...+.++|+|+|.......+           +. ...+++.+|+.+|+  ++...    .......   
T Consensus       156 ~~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~---  232 (357)
T 2fna_A          156 NLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKDY---  232 (357)
T ss_dssp             CCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCCH---
T ss_pred             hHHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCcH---
Confidence            3433333333222467899999987643211           11 25789999999998  33211    1111121   


Q ss_pred             HHHHHHHcCCCchHHHHhhhhhcC
Q 042981          278 GRKIARKCKGLPLAAKATGNLLRS  301 (876)
Q Consensus       278 ~~~i~~~c~GlPlai~~~~~~L~~  301 (876)
                       ..|++.|+|.|+++..++..+..
T Consensus       233 -~~i~~~t~G~P~~l~~~~~~~~~  255 (357)
T 2fna_A          233 -EVVYEKIGGIPGWLTYFGFIYLD  255 (357)
T ss_dssp             -HHHHHHHCSCHHHHHHHHHHHHH
T ss_pred             -HHHHHHhCCCHHHHHHHHHHHcc
Confidence             78999999999999999887643

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.81  E-value=8.4e-09  Score=111.52  Aligned_cols=162  Identities=17%  Similarity=0.207  Sum_probs=102.6

Q ss_pred             cCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCch--------
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF--------  193 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~--------  193 (876)
                      ....++||+++.+++.+++..       + +++.|+|++|+|||||++++++..      . .+|+.+....        
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~-------~-~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~~~   74 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLEN-------Y-PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHITR   74 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHH-------C-SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCBCH
T ss_pred             ChHhcCChHHHHHHHHHHHhc-------C-CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCCCH
Confidence            345799999999999998863       1 689999999999999999998732      1 5666654321        


Q ss_pred             -------------------------------------hHHHHHHHHHH------h----ccccccCCc-------cChhh
Q 042981          194 -------------------------------------EEIRVANAIIE------G----LDDVWDGDY-------NKWEP  219 (876)
Q Consensus       194 -------------------------------------~~~~~~~~i~~------~----lDdvw~~~~-------~~~~~  219 (876)
                                                           +...+...+.+      .    +||++.-+.       +.+..
T Consensus        75 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~  154 (350)
T 2qen_A           75 EELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLAL  154 (350)
T ss_dssp             HHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHH
Confidence                                                 11122222211      1    788865321       11222


Q ss_pred             HHhhhccCCCCCEEEEEcCchHHHHhh-----------CC-cceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHH
Q 042981          220 FFHCLKHGLHGSKILLTTRNESVARMM-----------GS-TNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIAR  283 (876)
Q Consensus       220 l~~~l~~~~~gs~iivTTR~~~v~~~~-----------~~-~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~  283 (876)
                      +...... ..+.++|+|++...+...+           +. ...+++.+|+.+|+  ++....  ...+--.+.+..|++
T Consensus       155 L~~~~~~-~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~  233 (350)
T 2qen_A          155 FAYAYDS-LPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVPENEIEEAVE  233 (350)
T ss_dssp             HHHHHHH-CTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHH
T ss_pred             HHHHHHh-cCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            3222222 2477899999886542211           11 24789999999998  322110  000112456789999


Q ss_pred             HcCCCchHHHHhhhhh
Q 042981          284 KCKGLPLAAKATGNLL  299 (876)
Q Consensus       284 ~c~GlPlai~~~~~~L  299 (876)
                      .|+|.|+++..++..+
T Consensus       234 ~tgG~P~~l~~~~~~~  249 (350)
T 2qen_A          234 LLDGIPGWLVVFGVEY  249 (350)
T ss_dssp             HHTTCHHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHH
Confidence            9999999999998764

>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=98.79  E-value=7.2e-09  Score=98.88  Aligned_cols=82  Identities=23%  Similarity=0.385  Sum_probs=62.1

Q ss_pred             CcceEEecCccccccCCCCCccccc-ccccccCcccCeeeccCccccccchh-hccCCcccEEeecCCCCCccccc-ccc
Q 042981          496 ACFRALVIGQRNFIFDPYPNLIREI-PENVRKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCEDLRELPA-GIG  572 (876)
Q Consensus       496 ~~Lr~L~L~~~~~~~~~~~~~i~~l-p~~i~~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~-~i~  572 (876)
                      +.|++|+|         ++|.+..+ |..+.++.+|++|+|++|.|+.+|.. +.++++|++|+|++| .+..+|. .+.
T Consensus        30 ~~l~~L~L---------~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N-~l~~~~~~~~~   99 (170)
T 3g39_A           30 TTTQVLYL---------YDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDN-QLKSIPRGAFD   99 (170)
T ss_dssp             TTCSEEEC---------CSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTT
T ss_pred             CCCcEEEc---------CCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCC-ccCEeCHHHhc
Confidence            66778888         66666666 45678888888888888888887765 578888888888888 4555554 477


Q ss_pred             CcCCCceEecCCCCC
Q 042981          573 KLKKMRSLLNGGTPL  587 (876)
Q Consensus       573 ~L~~L~~L~l~~~~~  587 (876)
                      .+++|++|++++|.+
T Consensus       100 ~l~~L~~L~L~~N~~  114 (170)
T 3g39_A          100 NLKSLTHIWLLNNPW  114 (170)
T ss_dssp             TCTTCCEEECCSSCB
T ss_pred             CCCCCCEEEeCCCCC
Confidence            888888888888865

>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=98.74  E-value=3.9e-08  Score=100.17  Aligned_cols=170  Identities=16%  Similarity=0.204  Sum_probs=109.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc-------------------cCCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR-------------------NFEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~F~~~  184 (876)
                      .+++|++..++.+..++....     ..+++.|+|.+|+||||||+++++......                   .+...
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~-----~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDL   97 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTC-----CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSSE
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcce
Confidence            469999999999999987532     235889999999999999999987321111                   11122


Q ss_pred             EEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH-HHH-hhCC
Q 042981          185 IWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES-VAR-MMGS  248 (876)
Q Consensus       185 ~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~~-~~~~  248 (876)
                      ..+....... ....+.+++.              +||++.-+...++.+...+.....+.++|+||+... +.. ....
T Consensus        98 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r  176 (250)
T 1njg_A           98 IEIDAASRTK-VEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR  176 (250)
T ss_dssp             EEEETTCGGG-HHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTT
T ss_pred             EEecCccccc-HHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHH
Confidence            3333332222 2223344432              899876655667778777776666788999887653 211 1223


Q ss_pred             cceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHHHhhhhh
Q 042981          249 TNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAKATGNLL  299 (876)
Q Consensus       249 ~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L  299 (876)
                      ...+++++++.++.  ++....  ....--.+....|++.|+|.|..+..+...+
T Consensus       177 ~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          177 CLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhhccCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            46899999999887  222110  0111124567889999999999888776443

>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=98.72  E-value=2e-08  Score=107.36  Aligned_cols=73  Identities=11%  Similarity=0.034  Sum_probs=48.2

Q ss_pred             CcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccc-ccccC--------cCCCceEecCCCCCCccCCccCCC
Q 042981          527 LIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELP-AGIGK--------LKKMRSLLNGGTPLLKYMPIGISK  597 (876)
Q Consensus       527 L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp-~~i~~--------L~~L~~L~l~~~~~~~~~p~~i~~  597 (876)
                      +++|++|+|++|.|......-+.++.+..+.+..+    .+| ..|.+        +++|+.|++.. .+...-+..|.+
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~----~I~~~aF~~~~~~~~~g~~~L~~l~L~~-~i~~I~~~aF~~  122 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMAN----FVPAYAFSNVVNGVTKGKQTLEKVILSE-KIKNIEDAAFKG  122 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTT----EECTTTTEEEETTEEEECTTCCC-CBCT-TCCEECTTTTTT
T ss_pred             hccCeEEecCcceeEEecCcccccccccccccccc----ccCHHHhcccccccccccCCCcEEECCc-cccchhHHHhhc
Confidence            78899999999998822211223333555665544    233 34566        99999999988 454444456888


Q ss_pred             CCCCCcc
Q 042981          598 LTSLRTL  604 (876)
Q Consensus       598 l~~L~~L  604 (876)
                      +++|+.+
T Consensus       123 ~~~L~~l  129 (329)
T 3sb4_A          123 CDNLKIC  129 (329)
T ss_dssp             CTTCCEE
T ss_pred             CcccceE
Confidence            9999988

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.66  E-value=1.3e-06  Score=95.36  Aligned_cols=103  Identities=19%  Similarity=0.244  Sum_probs=50.3

Q ss_pred             hhHHHhccCCcceEEecCccccccCCCCCcccccc-cccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCC
Q 042981          487 ILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDL  564 (876)
Q Consensus       487 ~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l  564 (876)
                      +....|.++ +|+.+.+         ..+ +..++ ..|.+ .+|+.+.|.. .++.++. .|.++.+|+.+++.+| .+
T Consensus       127 I~~~aF~~~-~L~~i~l---------~~~-i~~I~~~aF~~-~~L~~i~lp~-~l~~I~~~aF~~c~~L~~l~l~~n-~l  192 (401)
T 4fdw_A          127 IPKDAFRNS-QIAKVVL---------NEG-LKSIGDMAFFN-STVQEIVFPS-TLEQLKEDIFYYCYNLKKADLSKT-KI  192 (401)
T ss_dssp             ECTTTTTTC-CCSEEEC---------CTT-CCEECTTTTTT-CCCCEEECCT-TCCEECSSTTTTCTTCCEEECTTS-CC
T ss_pred             ehHhhcccC-CccEEEe---------CCC-ccEECHHhcCC-CCceEEEeCC-CccEehHHHhhCcccCCeeecCCC-cc
Confidence            334445554 4666666         222 34443 22333 2466666654 3555542 4566666666666655 34


Q ss_pred             ccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          565 RELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       565 ~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      ..+|.......+|+.+.+..+ +...-...|.++++|+.+
T Consensus       193 ~~I~~~aF~~~~L~~l~lp~~-l~~I~~~aF~~~~~L~~l  231 (401)
T 4fdw_A          193 TKLPASTFVYAGIEEVLLPVT-LKEIGSQAFLKTSQLKTI  231 (401)
T ss_dssp             SEECTTTTTTCCCSEEECCTT-CCEECTTTTTTCTTCCCE
T ss_pred             eEechhhEeecccCEEEeCCc-hheehhhHhhCCCCCCEE
Confidence            455544434556666666543 222222334444444444

>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=98.61  E-value=1.1e-07  Score=104.22  Aligned_cols=211  Identities=15%  Similarity=0.065  Sum_probs=118.1

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccccc--------CCeEEEEEeCCch-h
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRN--------FEKVIWVCVSDTF-E  194 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~--------F~~~~wv~vs~~~-~  194 (876)
                      ..++||+++++++.+++.....  ....+.+.|+|++|+||||||+++++.  ....        ....+|+..+... +
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~--~~~~~~vll~G~~G~GKT~la~~l~~~--~~~~~~~~~~~~~~~~~~i~~~~~~~~   95 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVK--NEVKFSNLFLGLTGTGKTFVSKYIFNE--IEEVKKEDEEYKDVKQAYVNCREVGGT   95 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHT--TCCCCEEEEEECTTSSHHHHHHHHHHH--HHHHHHHSSSSTTCEEEEEEHHHHCSC
T ss_pred             CCCCChHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHH--HHHHhhhhcCCCCceEEEEECccCCCC
Confidence            6799999999999988865211  224568999999999999999999983  3221        2345677654433 2


Q ss_pred             HHHHHH-----------------------HHHHh---------ccccccCCccChhhH-HhhhccCCCCCEEEEEcCchH
Q 042981          195 EIRVAN-----------------------AIIEG---------LDDVWDGDYNKWEPF-FHCLKHGLHGSKILLTTRNES  241 (876)
Q Consensus       195 ~~~~~~-----------------------~i~~~---------lDdvw~~~~~~~~~l-~~~l~~~~~gs~iivTTR~~~  241 (876)
                      ...+..                       .+...         ||+++.-....+..+ ...+.....+.+||+||+...
T Consensus        96 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~  175 (384)
T 2qby_B           96 PQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDIN  175 (384)
T ss_dssp             HHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTT
T ss_pred             HHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCc
Confidence            222222                       22111         788765322222223 333333226788999998653


Q ss_pred             H--------HHhhCCcceEeCCCCCcccc--ccCC----CcCCccchHHHHHHHHHHcC---CCch-HHHHhhhhh--c-
Q 042981          242 V--------ARMMGSTNIIFIEQLTEEES--FSGR----SFEDCEKLEPIGRKIARKCK---GLPL-AAKATGNLL--R-  300 (876)
Q Consensus       242 v--------~~~~~~~~~~~l~~L~~~~~--~f~~----~~~~~~~l~~~~~~i~~~c~---GlPl-ai~~~~~~L--~-  300 (876)
                      .        ...+  ...+++++++.++.  ++..    ......--.+..+.+++.|+   |-|. |+..+..+.  . 
T Consensus       176 ~~~~l~~~l~sr~--~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~  253 (384)
T 2qby_B          176 VRDYMEPRVLSSL--GPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLAS  253 (384)
T ss_dssp             TTTTSCHHHHHTC--CCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTT
T ss_pred             hHhhhCHHHHhcC--CCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhc
Confidence            2        1211  23899999999887  2211    11111111245567777777   8776 444433322  2 


Q ss_pred             --CCccHHHHHHHhhhhhccccccCCcchhhHhhcccCCCCchhHHHHHhHhcc
Q 042981          301 --SKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCAI  352 (876)
Q Consensus       301 --~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~lk~cfly~~~  352 (876)
                        ..-+.+.+..+++...          ...+.-++..|+.  +.|..+..++.
T Consensus       254 ~~~~i~~~~v~~~~~~~~----------~~~~~~~~~~l~~--~~~~~l~al~~  295 (384)
T 2qby_B          254 GGGIIRKEHVDKAIVDYE----------QERLIEAVKALPF--HYKLALRSLIE  295 (384)
T ss_dssp             SSSCCCHHHHHHHHHHHH----------HHHHHHHHHSSCH--HHHHHHHHHHT
T ss_pred             CCCccCHHHHHHHHHHHh----------cchHHHHHHcCCH--HHHHHHHHHHH
Confidence              1234566766665421          1234456667776  44444443443

>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=98.60  E-value=1.3e-07  Score=94.76  Aligned_cols=164  Identities=15%  Similarity=0.051  Sum_probs=102.7

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc-cCC-eEEEEEeCCchhHHHHHH-
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR-NFE-KVIWVCVSDTFEEIRVAN-  200 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~F~-~~~wv~vs~~~~~~~~~~-  200 (876)
                      .+++|+++.++++.+++...      ..+.+.|+|.+|+||||+|+.+++.  ... .+. ..+.+..+.......+.. 
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKT~l~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERK------NIPHLLFSGPPGTGKTATAIALARD--LFGENWRDNFIEMNASDERGIDVVRHK   88 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT------CCCCEEEECSTTSSHHHHHHHHHHH--HHGGGGGGGEEEEETTCTTCHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHH--HhccccccceEEeccccccChHHHHHH
Confidence            46899999999999988753      2234889999999999999999873  222 222 234445444444333322 


Q ss_pred             --HHHHh------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchHH-HH-hhCCcceEeCCCCCcccc--
Q 042981          201 --AIIEG------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESV-AR-MMGSTNIIFIEQLTEEES--  262 (876)
Q Consensus       201 --~i~~~------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~v-~~-~~~~~~~~~l~~L~~~~~--  262 (876)
                        .....            +||++.-....++.+...+.....+.++|+||+...- .. .......+++.+++.++.  
T Consensus        89 ~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~~~~~~~  168 (226)
T 2chg_A           89 IKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKK  168 (226)
T ss_dssp             HHHHHTSCCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             HHHHhcccCCCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCCCCHHHHHH
Confidence              22211            7888766545566677777666667889999886531 11 112234889999998887  


Q ss_pred             ccCCCc--CCccchHHHHHHHHHHcCCCchHHHHh
Q 042981          263 FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAKAT  295 (876)
Q Consensus       263 ~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~~~  295 (876)
                      ++....  ....--.+....+++.++|.|..+..+
T Consensus       169 ~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~l~~~  203 (226)
T 2chg_A          169 RLLEICEKEGVKITEDGLEALIYISGGDFRKAINA  203 (226)
T ss_dssp             HHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            221110  001112356677888999999865443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.58  E-value=3e-07  Score=100.48  Aligned_cols=224  Identities=12%  Similarity=0.090  Sum_probs=136.8

Q ss_pred             cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-cccccCcccCeeeccC
Q 042981          459 PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVRKLIHLKYLNLSE  537 (876)
Q Consensus       459 ~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~~L~~Lr~L~Ls~  537 (876)
                      ...|.++ +|+.+.+..+       ...+...+|.++ .|+.+.+         .. .+..++ ..|.++.+|+.++|++
T Consensus       129 ~~aF~~~-~L~~i~l~~~-------i~~I~~~aF~~~-~L~~i~l---------p~-~l~~I~~~aF~~c~~L~~l~l~~  189 (401)
T 4fdw_A          129 KDAFRNS-QIAKVVLNEG-------LKSIGDMAFFNS-TVQEIVF---------PS-TLEQLKEDIFYYCYNLKKADLSK  189 (401)
T ss_dssp             TTTTTTC-CCSEEECCTT-------CCEECTTTTTTC-CCCEEEC---------CT-TCCEECSSTTTTCTTCCEEECTT
T ss_pred             HhhcccC-CccEEEeCCC-------ccEECHHhcCCC-CceEEEe---------CC-CccEehHHHhhCcccCCeeecCC
Confidence            4556665 7999988543       244555667775 6999998         43 456665 5678899999999999


Q ss_pred             ccccccchhhccCCcccEEeecCCCCCccc-cccccCcCCCceEecCCCCCCccCC-ccCCCCCCCCccCceeecCccCC
Q 042981          538 LCIERLPKTLCELYNLQKLDIRWCEDLREL-PAGIGKLKKMRSLLNGGTPLLKYMP-IGISKLTSLRTLEKFAMGGGVDD  615 (876)
Q Consensus       538 ~~i~~lp~~i~~L~~L~~L~L~~~~~l~~l-p~~i~~L~~L~~L~l~~~~~~~~~p-~~i~~l~~L~~L~~~~~~~~~~~  615 (876)
                      |.++.+|.......+|+.+.|..+  +..+ ...|.++++|+.+.+..+ + ..++ ..|.+ .+|+.+..   ...   
T Consensus       190 n~l~~I~~~aF~~~~L~~l~lp~~--l~~I~~~aF~~~~~L~~l~l~~~-l-~~I~~~aF~~-~~L~~i~l---p~~---  258 (401)
T 4fdw_A          190 TKITKLPASTFVYAGIEEVLLPVT--LKEIGSQAFLKTSQLKTIEIPEN-V-STIGQEAFRE-SGITTVKL---PNG---  258 (401)
T ss_dssp             SCCSEECTTTTTTCCCSEEECCTT--CCEECTTTTTTCTTCCCEECCTT-C-CEECTTTTTT-CCCSEEEE---ETT---
T ss_pred             CcceEechhhEeecccCEEEeCCc--hheehhhHhhCCCCCCEEecCCC-c-cCcccccccc-CCccEEEe---CCC---
Confidence            999999986666799999999854  4444 456788999999999876 3 3333 34444 56666632   111   


Q ss_pred             CccccccccccCCCCCCeeeeCcCCC-CCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEE
Q 042981          616 ISTCRLESLKNLQLLRECGIEGLSNV-SHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGI  694 (876)
Q Consensus       616 ls~~~l~~L~~L~~L~~L~l~~~~~~-~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l  694 (876)
                      +..-.-..+.++++|+.+.+.+.... ..........|.+|.+|+.+.+.. .+...       -...+..+.+|+.+.+
T Consensus       259 i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~-~i~~I-------~~~aF~~c~~L~~l~l  330 (401)
T 4fdw_A          259 VTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPE-SIRIL-------GQGLLGGNRKVTQLTI  330 (401)
T ss_dssp             CCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCT-TCCEE-------CTTTTTTCCSCCEEEE
T ss_pred             ccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCC-ceEEE-------hhhhhcCCCCccEEEE
Confidence            11111223456667777777552111 011112234567777777777762 22111       0123445567777777


Q ss_pred             eecCCCCC-CchhhcccCCcEEEEecCCC
Q 042981          695 VSYGGNIF-PKWLTSLTNLRDLRLKSCVI  722 (876)
Q Consensus       695 ~~~~~~~l-p~~l~~l~~L~~L~L~~~~~  722 (876)
                      ..+ ...+ +..+..+ +|+.|++.+|..
T Consensus       331 p~~-l~~I~~~aF~~~-~L~~l~l~~n~~  357 (401)
T 4fdw_A          331 PAN-VTQINFSAFNNT-GIKEVKVEGTTP  357 (401)
T ss_dssp             CTT-CCEECTTSSSSS-CCCEEEECCSSC
T ss_pred             Ccc-ccEEcHHhCCCC-CCCEEEEcCCCC
Confidence            443 2333 3344456 777777777654

>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=98.58  E-value=1.1e-07  Score=102.39  Aligned_cols=85  Identities=15%  Similarity=0.220  Sum_probs=40.7

Q ss_pred             hccCCcceEEecCccccccCCCC-Ccccccc-cccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCcccc
Q 042981          492 FSKLACFRALVIGQRNFIFDPYP-NLIREIP-ENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELP  568 (876)
Q Consensus       492 ~~~l~~Lr~L~L~~~~~~~~~~~-~~i~~lp-~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp  568 (876)
                      +..+++|+.|+|         ++ |.+..+| ..|++|.+|++|+|++|.|+.+|+ .|.+|++|+.|+|++| .+..+|
T Consensus        27 l~~~~~L~~L~l---------~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~   96 (347)
T 2ifg_A           27 LPGAENLTELYI---------ENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN-ALESLS   96 (347)
T ss_dssp             SCSCSCCSEEEC---------CSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS-CCSCCC
T ss_pred             CCCCCCeeEEEc---------cCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCC-ccceeC
Confidence            445555555555         32 4444444 334555555555555555554433 3455555555555555 333444


Q ss_pred             ccccCcCCCceEecCCCC
Q 042981          569 AGIGKLKKMRSLLNGGTP  586 (876)
Q Consensus       569 ~~i~~L~~L~~L~l~~~~  586 (876)
                      ..+....+|+.|++.+|.
T Consensus        97 ~~~~~~~~L~~l~l~~N~  114 (347)
T 2ifg_A           97 WKTVQGLSLQELVLSGNP  114 (347)
T ss_dssp             STTTCSCCCCEEECCSSC
T ss_pred             HHHcccCCceEEEeeCCC
Confidence            333222225555555553

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.56  E-value=2.2e-06  Score=93.89  Aligned_cols=309  Identities=13%  Similarity=0.044  Sum_probs=152.1

Q ss_pred             cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-cccccCcccCeeeccC
Q 042981          459 PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVRKLIHLKYLNLSE  537 (876)
Q Consensus       459 ~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~~L~~Lr~L~Ls~  537 (876)
                      ..+|.+|.+|+++.+..+       ...+...+|.+|.+|+.+++         ..+ +..++ ..+.++..|+.+.+..
T Consensus        64 ~~AF~~c~~L~~i~lp~~-------i~~I~~~aF~~c~~L~~i~l---------p~~-l~~I~~~aF~~c~~L~~i~~p~  126 (394)
T 4fs7_A           64 YAAFQGCRKVTEIKIPST-------VREIGEFAFENCSKLEIINI---------PDS-VKMIGRCTFSGCYALKSILLPL  126 (394)
T ss_dssp             TTTTTTCTTEEEEECCTT-------CCEECTTTTTTCTTCCEECC---------CTT-CCEECTTTTTTCTTCCCCCCCT
T ss_pred             HHHhhCCCCceEEEeCCC-------ccCcchhHhhCCCCCcEEEe---------CCC-ceEccchhhcccccchhhcccC
Confidence            456888899999988432       24455667889999999998         332 44454 3467778888877765


Q ss_pred             ccccccc-hhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCC
Q 042981          538 LCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDI  616 (876)
Q Consensus       538 ~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~l  616 (876)
                      + +..++ ..+.++..+.........  ..-...|.++++|+.+.+..+ ....-...+.++.+|+.+..-.   ....+
T Consensus       127 ~-l~~i~~~aF~~~~~~~~~~~~~~~--~i~~~aF~~c~~L~~i~l~~~-~~~I~~~~F~~c~~L~~i~l~~---~~~~I  199 (394)
T 4fs7_A          127 M-LKSIGVEAFKGCDFKEITIPEGVT--VIGDEAFATCESLEYVSLPDS-METLHNGLFSGCGKLKSIKLPR---NLKII  199 (394)
T ss_dssp             T-CCEECTTTTTTCCCSEEECCTTCC--EECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCBCCCCT---TCCEE
T ss_pred             c-eeeecceeeecccccccccCcccc--ccchhhhcccCCCcEEecCCc-cceeccccccCCCCceEEEcCC---CceEe
Confidence            4 44443 345555444433333221  122345677888888888665 2222234466677777663210   00000


Q ss_pred             ccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEee
Q 042981          617 STCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVS  696 (876)
Q Consensus       617 s~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~  696 (876)
                         .-..+.++..|+.+.+...  .....    .......+|+.+.+..+.. ..       ....+..+.+++.+.+..
T Consensus       200 ---~~~~F~~~~~L~~i~~~~~--~~~i~----~~~~~~~~l~~i~ip~~~~-~i-------~~~~f~~~~~l~~~~~~~  262 (394)
T 4fs7_A          200 ---RDYCFAECILLENMEFPNS--LYYLG----DFALSKTGVKNIIIPDSFT-EL-------GKSVFYGCTDLESISIQN  262 (394)
T ss_dssp             ---CTTTTTTCTTCCBCCCCTT--CCEEC----TTTTTTCCCCEEEECTTCC-EE-------CSSTTTTCSSCCEEEECC
T ss_pred             ---CchhhccccccceeecCCC--ceEee----hhhcccCCCceEEECCCce-ec-------ccccccccccceeEEcCC
Confidence               0011223334443333221  00010    1122334566665532210 00       001223344555555544


Q ss_pred             cCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccC
Q 042981          697 YGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAF  775 (876)
Q Consensus       697 ~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  775 (876)
                      .....-...+..+..|+.+.+....+..  ..+.... |+.+.+...  +..++..                   .+..+
T Consensus       263 ~~~~i~~~~F~~~~~l~~~~~~~~~i~~--~~F~~~~~L~~i~l~~~--i~~I~~~-------------------aF~~c  319 (394)
T 4fs7_A          263 NKLRIGGSLFYNCSGLKKVIYGSVIVPE--KTFYGCSSLTEVKLLDS--VKFIGEE-------------------AFESC  319 (394)
T ss_dssp             TTCEECSCTTTTCTTCCEEEECSSEECT--TTTTTCTTCCEEEECTT--CCEECTT-------------------TTTTC
T ss_pred             CcceeeccccccccccceeccCceeecc--ccccccccccccccccc--cceechh-------------------hhcCC
Confidence            3322112333455555555554432211  1123334 555555432  3333221                   23356


Q ss_pred             cccceeeccccccccccccccccccccCcccccceeeeccCccCCCCC-CCCCCCCCccEEEEecC
Q 042981          776 PKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLP-DYLFQSTTLQKLSISYC  840 (876)
Q Consensus       776 ~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp-~~l~~l~~L~~L~l~~~  840 (876)
                      .+|+.+.|.+  +++.+.     ...+..+++|+.+.+..+  ++.++ ..|.++++|+.+++..+
T Consensus       320 ~~L~~i~lp~--~v~~I~-----~~aF~~c~~L~~i~lp~~--l~~I~~~aF~~C~~L~~i~lp~~  376 (394)
T 4fs7_A          320 TSLVSIDLPY--LVEEIG-----KRSFRGCTSLSNINFPLS--LRKIGANAFQGCINLKKVELPKR  376 (394)
T ss_dssp             TTCCEECCCT--TCCEEC-----TTTTTTCTTCCEECCCTT--CCEECTTTBTTCTTCCEEEEEGG
T ss_pred             CCCCEEEeCC--cccEEh-----HHhccCCCCCCEEEECcc--ccEehHHHhhCCCCCCEEEECCC
Confidence            6777776643  232221     235566777777777654  44443 45667777777777654

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.54  E-value=2.2e-07  Score=101.78  Aligned_cols=212  Identities=15%  Similarity=0.032  Sum_probs=113.3

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccccc------CCeEEEEEeCCchhHH
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRN------FEKVIWVCVSDTFEEI  196 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~------F~~~~wv~vs~~~~~~  196 (876)
                      +..++||+++++++..++...-.  ....+.+.|+|++|+||||+|+++++.  ....      --..+|+......+..
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~~--~~~~~~vll~G~~G~GKT~l~~~~~~~--~~~~~~~~~~~~~~~~i~~~~~~~~~   93 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPALR--GEKPSNALLYGLTGTGKTAVARLVLRR--LEARASSLGVLVKPIYVNARHRETPY   93 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGTS--SCCCCCEEECBCTTSSHHHHHHHHHHH--HHHHHHHHTCCEEEEEEETTTSCSHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHH--HHHHHhccCCCeEEEEEECCcCCCHH
Confidence            36799999999999998864311  124567899999999999999999973  3221      1235666655433322


Q ss_pred             HH----------------------HHHHHHh-----------ccccccCCcc--ChhhHHhhhcc--C---CCCCEEEEE
Q 042981          197 RV----------------------ANAIIEG-----------LDDVWDGDYN--KWEPFFHCLKH--G---LHGSKILLT  236 (876)
Q Consensus       197 ~~----------------------~~~i~~~-----------lDdvw~~~~~--~~~~l~~~l~~--~---~~gs~iivT  236 (876)
                      .+                      ...+...           ||++..-...  ..+.+...+..  .   ..+..+|.|
T Consensus        94 ~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~  173 (387)
T 2v1u_A           94 RVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGI  173 (387)
T ss_dssp             HHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEE
T ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEE
Confidence            22                      2222221           7777543211  11223222221  1   345678888


Q ss_pred             cCchH--------HHHhhCCcceEeCCCCCcccc--ccCCC----cCCccchHHHHHHHHHHcC---CCc-hHHHHhhhh
Q 042981          237 TRNES--------VARMMGSTNIIFIEQLTEEES--FSGRS----FEDCEKLEPIGRKIARKCK---GLP-LAAKATGNL  298 (876)
Q Consensus       237 TR~~~--------v~~~~~~~~~~~l~~L~~~~~--~f~~~----~~~~~~l~~~~~~i~~~c~---GlP-lai~~~~~~  298 (876)
                      |+...        +...++ ...+.+++++.++.  ++...    .....--.+..+.++++++   |.| .|+.++..+
T Consensus       174 t~~~~~~~~l~~~l~~r~~-~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a  252 (387)
T 2v1u_A          174 TNSLGFVENLEPRVKSSLG-EVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVA  252 (387)
T ss_dssp             CSCSTTSSSSCHHHHTTTT-SEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             ECCCchHhhhCHHHHhcCC-CeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            87652        222221 14789999998887  22110    0000111234566777777   998 333333332


Q ss_pred             hc-------CCccHHHHHHHhhhhhccccccCCcchhhHhhcccCCCCchhHHHHHhHhc
Q 042981          299 LR-------SKSILKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYCA  351 (876)
Q Consensus       299 L~-------~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~lk~cfly~~  351 (876)
                      ..       ..-+.+.+..+++...          ...+.-++..|+.  +.+..++.++
T Consensus       253 ~~~a~~~~~~~i~~~~v~~a~~~~~----------~~~~~~~~~~l~~--~~~~~l~a~~  300 (387)
T 2v1u_A          253 GEIAERRREERVRREHVYSARAEIE----------RDRVSEVVRTLPL--HAKLVLLSIM  300 (387)
T ss_dssp             HHHHHHTTCSCBCHHHHHHHHHHHH----------HHHHHHHHHSSCH--HHHHHHHHHH
T ss_pred             HHHHHHcCCCCcCHHHHHHHHHHHh----------hchHHHHHHcCCH--HHHHHHHHHH
Confidence            21       1234566666555321          1234456677877  5555444444

>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=98.53  E-value=1.2e-07  Score=103.75  Aligned_cols=167  Identities=15%  Similarity=0.133  Sum_probs=96.5

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccC---CeEEEEEeCCchh-----
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF---EKVIWVCVSDTFE-----  194 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F---~~~~wv~vs~~~~-----  194 (876)
                      +..++||+++++.+.+++.....  ....+.+.|+|++|+||||||+++++  .....|   ...+|+......+     
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~--~~~~~~vli~G~~G~GKTtl~~~l~~--~~~~~~~~~~~~~~i~~~~~~~~~~~~   94 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYR--EEKPNNIFIYGLTGTGKTAVVKFVLS--KLHKKFLGKFKHVYINTRQIDTPYRVL   94 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGG--TCCCCCEEEEECTTSSHHHHHHHHHH--HHHHHTCSSCEEEEEEHHHHCSHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHc--CCCCCeEEEECCCCCCHHHHHHHHHH--HHHHHhcCCceEEEEECCCCCCHHHHH
Confidence            46799999999999998875311  12456889999999999999999997  343333   2456666433222     


Q ss_pred             -----------------HHHHHHHHHHh-----------ccccccCC----ccChhhHHhhhcc-CCCCCEEEEEcCchH
Q 042981          195 -----------------EIRVANAIIEG-----------LDDVWDGD----YNKWEPFFHCLKH-GLHGSKILLTTRNES  241 (876)
Q Consensus       195 -----------------~~~~~~~i~~~-----------lDdvw~~~----~~~~~~l~~~l~~-~~~gs~iivTTR~~~  241 (876)
                                       ...+...+.+.           +|+++.-.    .+.+..+...+.. ...+..+|+||+...
T Consensus        95 ~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~  174 (386)
T 2qby_A           95 ADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVK  174 (386)
T ss_dssp             HHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGG
T ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCC
Confidence                             22222222211           78776421    2233334333322 233556788887654


Q ss_pred             HHHhhC-------CcceEeCCCCCcccc--ccCC----CcCCccchHHHHHHHHHHcC---CCchHHH
Q 042981          242 VARMMG-------STNIIFIEQLTEEES--FSGR----SFEDCEKLEPIGRKIARKCK---GLPLAAK  293 (876)
Q Consensus       242 v~~~~~-------~~~~~~l~~L~~~~~--~f~~----~~~~~~~l~~~~~~i~~~c~---GlPlai~  293 (876)
                      ....+.       ....+++++++.++.  ++..    ......--.+..+.+++.++   |.|..+.
T Consensus       175 ~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~  242 (386)
T 2qby_A          175 FVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRAL  242 (386)
T ss_dssp             GGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             hHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHH
Confidence            332221       124899999999887  2221    11111223455667777777   9887443

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.46  E-value=1.3e-08  Score=110.22  Aligned_cols=137  Identities=15%  Similarity=0.107  Sum_probs=79.2

Q ss_pred             CceEEEEeeecCCCCC-----ccccc-CCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCc
Q 042981          443 DKVRHLGLNFEGGASF-----PMSIH-GLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNL  516 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~-----~~~~~-~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~  516 (876)
                      ..++.++++.|.+...     ...+. ..++|++|++.+|.     +.......+...+++|+.|+|++|.+.    ...
T Consensus        72 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~-----l~~~~~~~l~~~L~~L~~L~Ls~n~l~----~~~  142 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQ-----LDPAGLRTLLPVFLRARKLGLQLNSLG----PEA  142 (372)
T ss_dssp             TTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCC-----CCHHHHHHTHHHHHTEEEEECCSSCCC----HHH
T ss_pred             hhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCC-----CCHHHHHHHHHHHHhccHhhcCCCCCC----HHH
Confidence            4567777777776532     11222 23678888886554     333334444455667888888333321    001


Q ss_pred             cccccccc-ccCcccCeeeccCcccc-----ccchhhccCCcccEEeecCCCCCc----cccccccCcCCCceEecCCCC
Q 042981          517 IREIPENV-RKLIHLKYLNLSELCIE-----RLPKTLCELYNLQKLDIRWCEDLR----ELPAGIGKLKKMRSLLNGGTP  586 (876)
Q Consensus       517 i~~lp~~i-~~L~~Lr~L~Ls~~~i~-----~lp~~i~~L~~L~~L~L~~~~~l~----~lp~~i~~L~~L~~L~l~~~~  586 (876)
                      ...+...+ ...++|++|+|++|.|+     .++..+..+++|++|+|++|....    .++..+...++|++|++++|.
T Consensus       143 ~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~  222 (372)
T 3un9_A          143 CKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNG  222 (372)
T ss_dssp             HHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSC
T ss_pred             HHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCC
Confidence            11122222 23567888888888775     355556677788888888774321    234556667778888888775


Q ss_pred             CC
Q 042981          587 LL  588 (876)
Q Consensus       587 ~~  588 (876)
                      +.
T Consensus       223 i~  224 (372)
T 3un9_A          223 AG  224 (372)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.42  E-value=1.4e-05  Score=87.41  Aligned_cols=315  Identities=12%  Similarity=0.032  Sum_probs=179.9

Q ss_pred             CceEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc
Q 042981          443 DKVRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP  521 (876)
Q Consensus       443 ~~lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp  521 (876)
                      .+++.+.+.. .+..+ ..+|.+|++|+++.+..+       ...+....|..+..|+.+.++.         + +..+.
T Consensus        71 ~~L~~i~lp~-~i~~I~~~aF~~c~~L~~i~lp~~-------l~~I~~~aF~~c~~L~~i~~p~---------~-l~~i~  132 (394)
T 4fs7_A           71 RKVTEIKIPS-TVREIGEFAFENCSKLEIINIPDS-------VKMIGRCTFSGCYALKSILLPL---------M-LKSIG  132 (394)
T ss_dssp             TTEEEEECCT-TCCEECTTTTTTCTTCCEECCCTT-------CCEECTTTTTTCTTCCCCCCCT---------T-CCEEC
T ss_pred             CCceEEEeCC-CccCcchhHhhCCCCCcEEEeCCC-------ceEccchhhcccccchhhcccC---------c-eeeec
Confidence            4688888864 35555 567899999999998543       2344556688999998887732         1 22222


Q ss_pred             -cccccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCC
Q 042981          522 -ENVRKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLT  599 (876)
Q Consensus       522 -~~i~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~  599 (876)
                       ..+.++..+......  .+..+. ..+.++.+|+.+.+..+ ....-...|..+.+|+.+.+..+ +...-...+.++.
T Consensus       133 ~~aF~~~~~~~~~~~~--~~~~i~~~aF~~c~~L~~i~l~~~-~~~I~~~~F~~c~~L~~i~l~~~-~~~I~~~~F~~~~  208 (394)
T 4fs7_A          133 VEAFKGCDFKEITIPE--GVTVIGDEAFATCESLEYVSLPDS-METLHNGLFSGCGKLKSIKLPRN-LKIIRDYCFAECI  208 (394)
T ss_dssp             TTTTTTCCCSEEECCT--TCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCBCCCCTT-CCEECTTTTTTCT
T ss_pred             ceeeecccccccccCc--cccccchhhhcccCCCcEEecCCc-cceeccccccCCCCceEEEcCCC-ceEeCchhhcccc
Confidence             233444333222221  123332 35778888888888754 22222345677888888888766 3233334566677


Q ss_pred             CCCccCceeecCccCCCccccccc-cccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHH
Q 042981          600 SLRTLEKFAMGGGVDDISTCRLES-LKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQ  678 (876)
Q Consensus       600 ~L~~L~~~~~~~~~~~ls~~~l~~-L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~  678 (876)
                      .|+.+.......        .+.. .-....|+.+.+..     .........+.++..|+.+.+..+...        .
T Consensus       209 ~L~~i~~~~~~~--------~i~~~~~~~~~l~~i~ip~-----~~~~i~~~~f~~~~~l~~~~~~~~~~~--------i  267 (394)
T 4fs7_A          209 LLENMEFPNSLY--------YLGDFALSKTGVKNIIIPD-----SFTELGKSVFYGCTDLESISIQNNKLR--------I  267 (394)
T ss_dssp             TCCBCCCCTTCC--------EECTTTTTTCCCCEEEECT-----TCCEECSSTTTTCSSCCEEEECCTTCE--------E
T ss_pred             ccceeecCCCce--------EeehhhcccCCCceEEECC-----CceecccccccccccceeEEcCCCcce--------e
Confidence            777663211000        0000 11123455554432     111111234667778888877654221        0


Q ss_pred             HHhhCCCCCCccEEEEeecCCCCCCc-hhhcccCCcEEEEecCCCCCCC--CCCCccc-CceEeecCCCCceEeCccccc
Q 042981          679 LLEALQPPLNVKELGIVSYGGNIFPK-WLTSLTNLRDLRLKSCVICEHF--PPLGKLP-LEKLTLYGLYGVKRVGNEFLG  754 (876)
Q Consensus       679 ~~~~l~~~~~L~~L~l~~~~~~~lp~-~l~~l~~L~~L~L~~~~~~~~l--p~l~~Lp-L~~L~L~~~~~l~~~~~~~~~  754 (876)
                      ....+..+..++.+......   ++. .+..+.+|+.+.+.++-  ..+  ..+.... |+.+.|...  +..++..   
T Consensus       268 ~~~~F~~~~~l~~~~~~~~~---i~~~~F~~~~~L~~i~l~~~i--~~I~~~aF~~c~~L~~i~lp~~--v~~I~~~---  337 (394)
T 4fs7_A          268 GGSLFYNCSGLKKVIYGSVI---VPEKTFYGCSSLTEVKLLDSV--KFIGEEAFESCTSLVSIDLPYL--VEEIGKR---  337 (394)
T ss_dssp             CSCTTTTCTTCCEEEECSSE---ECTTTTTTCTTCCEEEECTTC--CEECTTTTTTCTTCCEECCCTT--CCEECTT---
T ss_pred             eccccccccccceeccCcee---ecccccccccccccccccccc--ceechhhhcCCCCCCEEEeCCc--ccEEhHH---
Confidence            01123345566666554322   232 34578899999997652  222  2356667 888888542  4444432   


Q ss_pred             CCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccE
Q 042981          755 IEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQK  834 (876)
Q Consensus       755 ~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~  834 (876)
                                      .+.+|.+|+.+.+...  +..+.     ...+..+++|+.++|..+  +..+...|.++++|+.
T Consensus       338 ----------------aF~~c~~L~~i~lp~~--l~~I~-----~~aF~~C~~L~~i~lp~~--~~~~~~~F~~c~~L~~  392 (394)
T 4fs7_A          338 ----------------SFRGCTSLSNINFPLS--LRKIG-----ANAFQGCINLKKVELPKR--LEQYRYDFEDTTKFKW  392 (394)
T ss_dssp             ----------------TTTTCTTCCEECCCTT--CCEEC-----TTTBTTCTTCCEEEEEGG--GGGGGGGBCTTCEEEE
T ss_pred             ----------------hccCCCCCCEEEECcc--ccEeh-----HHHhhCCCCCCEEEECCC--CEEhhheecCCCCCcE
Confidence                            2446889999987542  43332     346778999999999765  4555567888888876


Q ss_pred             E
Q 042981          835 L  835 (876)
Q Consensus       835 L  835 (876)
                      +
T Consensus       393 I  393 (394)
T 4fs7_A          393 I  393 (394)
T ss_dssp             E
T ss_pred             E
Confidence            5

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=98.41  E-value=2.6e-07  Score=80.42  Aligned_cols=31  Identities=29%  Similarity=0.588  Sum_probs=29.1

Q ss_pred             ccHHHHHHHHHHHHhHhhhhhHhhhHHHHHH
Q 042981            3 QDKVVTFWLDQLKDASYDMEDVLDEWVFARL   33 (876)
Q Consensus         3 ~~~~~~~wl~~lr~~~yd~eD~lD~~~~~~~   33 (876)
                      +|++++.|+++|||+|||+|||||+|.++..
T Consensus        53 ~d~~vk~W~~~vrdlaYD~ED~iD~f~~~~~   83 (115)
T 3qfl_A           53 LDSQDKLWADEVRELSYVIEDVVDKFLVQVD   83 (115)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            6899999999999999999999999999873

>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=98.40  E-value=3.9e-07  Score=98.20  Aligned_cols=101  Identities=22%  Similarity=0.119  Sum_probs=83.2

Q ss_pred             EEeeec-CCCCCcccccCCCcceEEeeec-CCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-ccc
Q 042981          448 LGLNFE-GGASFPMSIHGLNRLRTLLIYF-QSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENV  524 (876)
Q Consensus       448 L~l~~~-~~~~~~~~~~~~~~Lr~L~l~~-~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i  524 (876)
                      ++.+.+ .+..+|. +..+++|+.|++.+ |.      ...+++..|..+++|++|+|         ++|.+..+| ..|
T Consensus        13 v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~------l~~~~~~~~~~l~~L~~L~l---------~~N~l~~~~~~~~   76 (347)
T 2ifg_A           13 LRCTRDGALDSLHH-LPGAENLTELYIENQQH------LQHLELRDLRGLGELRNLTI---------VKSGLRFVAPDAF   76 (347)
T ss_dssp             EECCSSCCCTTTTT-SCSCSCCSEEECCSCSS------CCEECGGGSCSCCCCSEEEC---------CSSCCCEECTTGG
T ss_pred             EEcCCCCCCCccCC-CCCCCCeeEEEccCCCC------CCCcChhHhccccCCCEEEC---------CCCccceeCHHHh
Confidence            456666 7888888 99999999999975 65      45566677999999999999         777777766 467


Q ss_pred             ccCcccCeeeccCccccccchhhccCCcccEEeecCCCCC
Q 042981          525 RKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDL  564 (876)
Q Consensus       525 ~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l  564 (876)
                      .+|++|++|+|++|.|+.+|..+.....|++|+|.+|...
T Consensus        77 ~~l~~L~~L~l~~N~l~~~~~~~~~~~~L~~l~l~~N~~~  116 (347)
T 2ifg_A           77 HFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLSGNPLH  116 (347)
T ss_dssp             GSCSCCCEEECCSSCCSCCCSTTTCSCCCCEEECCSSCCC
T ss_pred             cCCcCCCEEeCCCCccceeCHHHcccCCceEEEeeCCCcc
Confidence            9999999999999999999987655555999999998543

>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=98.38  E-value=9.3e-07  Score=96.87  Aligned_cols=169  Identities=15%  Similarity=0.092  Sum_probs=101.8

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccC-CeEEEEEeCCchhHHHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF-EKVIWVCVSDTFEEIRVANAI  202 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F-~~~~wv~vs~~~~~~~~~~~i  202 (876)
                      +.++||+++++++..++...........+.+.|+|..|+||||||+.+++.  ..... ...+|+..+...+...+...+
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~i~~~~~~~~~~~~~~l   94 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWEL--YKDKTTARFVYINGFIYRNFTAIIGEI   94 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHH--HTTSCCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHH--HhhhcCeeEEEEeCccCCCHHHHHHHH
Confidence            679999999999999887531100123348999999999999999999973  33321 245677755544433333332


Q ss_pred             HH-------------------------h--------ccccccCCccChhhHHhhhccCC----CCCEEEEEcCchHHHHh
Q 042981          203 IE-------------------------G--------LDDVWDGDYNKWEPFFHCLKHGL----HGSKILLTTRNESVARM  245 (876)
Q Consensus       203 ~~-------------------------~--------lDdvw~~~~~~~~~l~~~l~~~~----~gs~iivTTR~~~v~~~  245 (876)
                      +.                         .        ||+++.-+......+...+....    .+..||+||+.......
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            21                         1        78886654444555555443211    36678888887654433


Q ss_pred             hC-------CcceEeCCCCCcccc--ccCCC----cCCccchHHHHHHHHHHc---------CCCchHHHH
Q 042981          246 MG-------STNIIFIEQLTEEES--FSGRS----FEDCEKLEPIGRKIARKC---------KGLPLAAKA  294 (876)
Q Consensus       246 ~~-------~~~~~~l~~L~~~~~--~f~~~----~~~~~~l~~~~~~i~~~c---------~GlPlai~~  294 (876)
                      +.       ....+.+.+++.++.  ++...    .....--.+....+++.+         .|.|-.+..
T Consensus       175 l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~  245 (389)
T 1fnn_A          175 LDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAID  245 (389)
T ss_dssp             SCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHH
T ss_pred             hCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHH
Confidence            22       123799999999886  21110    001112245677888888         787654433

>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=98.28  E-value=1e-06  Score=93.73  Aligned_cols=166  Identities=13%  Similarity=0.130  Sum_probs=104.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc-cC-CeEEEEEeCCchhH---HHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR-NF-EKVIWVCVSDTFEE---IRV  198 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~F-~~~~wv~vs~~~~~---~~~  198 (876)
                      .+++|++..++.+.+++...      ..+.+.|+|++|+||||+|+.+++.  +.. .+ ...+++..++....   .++
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKt~la~~l~~~--l~~~~~~~~~~~~~~~~~~~~~~i~~~   92 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDG------NMPHMIISGMPGIGKTTSVHCLAHE--LLGRSYADGVLELNASDDRGIDVVRNQ   92 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSC------CCCCEEEECSTTSSHHHHHHHHHHH--HHGGGHHHHEEEECTTSCCSHHHHHTH
T ss_pred             HHHHCCHHHHHHHHHHHHcC------CCCeEEEECcCCCCHHHHHHHHHHH--hcCCcccCCEEEecCccccChHHHHHH
Confidence            46999999999999988643      2233889999999999999999873  321 11 12444554443332   233


Q ss_pred             HHHHH-------Hh------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH-HHH-hhCCcceEeCCCCCcccc-
Q 042981          199 ANAII-------EG------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES-VAR-MMGSTNIIFIEQLTEEES-  262 (876)
Q Consensus       199 ~~~i~-------~~------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~~-~~~~~~~~~l~~L~~~~~-  262 (876)
                      .+.+.       ..      +||++.-....++.+...+.....+.++|+||+... +.. .......+++.+++.++. 
T Consensus        93 ~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~  172 (323)
T 1sxj_B           93 IKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVL  172 (323)
T ss_dssp             HHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHH
T ss_pred             HHHHHhccccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecCCCHHHHH
Confidence            33333       11      888876554556667777766666788888887643 211 122345899999999887 


Q ss_pred             -ccCCCc--CCccchHHHHHHHHHHcCCCch-HHHHhhh
Q 042981          263 -FSGRSF--EDCEKLEPIGRKIARKCKGLPL-AAKATGN  297 (876)
Q Consensus       263 -~f~~~~--~~~~~l~~~~~~i~~~c~GlPl-ai~~~~~  297 (876)
                       ++....  ....--.+....+++.|+|.|. |+..+..
T Consensus       173 ~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~a~~~l~~  211 (323)
T 1sxj_B          173 KRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQS  211 (323)
T ss_dssp             HHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence             222110  0011123566789999999995 4444443

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.23  E-value=4.8e-07  Score=97.89  Aligned_cols=140  Identities=14%  Similarity=0.067  Sum_probs=97.3

Q ss_pred             CCceEEEEeeecCCCCC-c-ccccCCCcceEEeeecCCCCCCCCchhh---hHHHh-ccCCcceEEecCccccccCCCCC
Q 042981          442 GDKVRHLGLNFEGGASF-P-MSIHGLNRLRTLLIYFQSPSNPSLNSSI---LSELF-SKLACFRALVIGQRNFIFDPYPN  515 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~~-~-~~~~~~~~Lr~L~l~~~~~~~~~~~~~~---~~~~~-~~l~~Lr~L~L~~~~~~~~~~~~  515 (876)
                      ...++.|+++.|.+... . .-...+++|+.|++.+|.     +....   +...+ ...+.|+.|+|++|.+.    ..
T Consensus       100 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~-----l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~----~~  170 (372)
T 3un9_A          100 RHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNS-----LGPEACKDLRDLLLHDQCQITTLRLSNNPLT----AA  170 (372)
T ss_dssp             SSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSC-----CCHHHHHHHHHHHHSTTCCCCEEECCSSCCH----HH
T ss_pred             CCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCC-----CCHHHHHHHHHHHHhcCCccceeeCCCCCCC----hH
Confidence            36799999999987532 1 122345689999998775     22222   22222 35788999999444331    11


Q ss_pred             cccccccccccCcccCeeeccCcccc-----ccchhhccCCcccEEeecCCCCCc----cccccccCcCCCceEecCCCC
Q 042981          516 LIREIPENVRKLIHLKYLNLSELCIE-----RLPKTLCELYNLQKLDIRWCEDLR----ELPAGIGKLKKMRSLLNGGTP  586 (876)
Q Consensus       516 ~i~~lp~~i~~L~~Lr~L~Ls~~~i~-----~lp~~i~~L~~L~~L~L~~~~~l~----~lp~~i~~L~~L~~L~l~~~~  586 (876)
                      ....++..+..+++|++|+|++|.|+     .++..+...++|++|+|++|....    .++..+...++|++|++++|.
T Consensus       171 ~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~  250 (372)
T 3un9_A          171 GVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLHLYFNE  250 (372)
T ss_dssp             HHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEECTTSS
T ss_pred             HHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEeccCCC
Confidence            12235666778899999999999987     456778888999999999995432    244556678999999999997


Q ss_pred             CCcc
Q 042981          587 LLKY  590 (876)
Q Consensus       587 ~~~~  590 (876)
                      +...
T Consensus       251 i~~~  254 (372)
T 3un9_A          251 LSSE  254 (372)
T ss_dssp             CCHH
T ss_pred             CCHH
Confidence            6543

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.12  E-value=3.5e-06  Score=89.77  Aligned_cols=166  Identities=14%  Similarity=0.054  Sum_probs=103.1

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccccc-C-CeEEEEEeCCchhHHH---H
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRN-F-EKVIWVCVSDTFEEIR---V  198 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-F-~~~~wv~vs~~~~~~~---~  198 (876)
                      .+++|++..++.+..++...      ....+.|+|++|+||||+|+.+++.  +... + ...+.+..++......   .
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKT~la~~l~~~--l~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTG------SMPHLLFAGPPGVGKTTAALALARE--LFGENWRHNFLELNASDERGINVIREK   96 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT------CCCEEEEESCTTSSHHHHHHHHHHH--HHGGGHHHHEEEEETTCHHHHHTTHHH
T ss_pred             HHhhCCHHHHHHHHHHHHcC------CCCeEEEECcCCCCHHHHHHHHHHH--hcCCcccCceEEeeccccCchHHHHHH
Confidence            45999999999999888653      3334889999999999999999873  2211 1 1234445444333222   2


Q ss_pred             HHHHHHh------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH-HHHh-hCCcceEeCCCCCcccc--
Q 042981          199 ANAIIEG------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES-VARM-MGSTNIIFIEQLTEEES--  262 (876)
Q Consensus       199 ~~~i~~~------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~~~-~~~~~~~~l~~L~~~~~--  262 (876)
                      .......            +|+++.-....++.+...+.....+.++|+||.... +... ......+++.+++.++.  
T Consensus        97 ~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~~l~~~~~~~  176 (327)
T 1iqp_A           97 VKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAK  176 (327)
T ss_dssp             HHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHH
T ss_pred             HHHHHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEecCCCHHHHHH
Confidence            2222211            888876655566777777776667788998887643 1111 11234789999998886  


Q ss_pred             ccCCCc--CCccchHHHHHHHHHHcCCCchHHHHhhh
Q 042981          263 FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAKATGN  297 (876)
Q Consensus       263 ~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~~~~~  297 (876)
                      ++....  ....--.+....|++.++|.|..+..+..
T Consensus       177 ~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~  213 (327)
T 1iqp_A          177 RLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQ  213 (327)
T ss_dssp             HHHHHHHTTTCEECHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            221100  01111235667888999999886554433

>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=98.09  E-value=1.1e-06  Score=82.49  Aligned_cols=90  Identities=11%  Similarity=0.168  Sum_probs=65.8

Q ss_pred             CcccceeeccccccccccccccccccccCcccccceeeeccCccCCCC-CCCCCCC----CCccEEEEecCCCchhhccc
Q 042981          775 FPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVL-PDYLFQS----TTLQKLSISYCPIMEELRIL  849 (876)
Q Consensus       775 ~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l-p~~l~~l----~~L~~L~l~~~~~l~~l~~~  849 (876)
                      -.+|+.|++++|. +.+..+     ..+..+++|++|+|++|..++.- -..+..+    ++|++|+|++|+.+++-...
T Consensus        60 ~~~L~~LDLs~~~-Itd~GL-----~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~  133 (176)
T 3e4g_A           60 KYKIQAIDATDSC-IMSIGF-----DHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGII  133 (176)
T ss_dssp             CCCEEEEEEESCC-CCGGGG-----GGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHH
T ss_pred             CceEeEEeCcCCC-ccHHHH-----HHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHH
Confidence            3479999999985 665444     34568999999999999866621 0112222    47999999999988774332


Q ss_pred             cccCCCCCCCcCEEEEccCCCCCC
Q 042981          850 EDHRTTDIPRLSSLEIEYCPKLNV  873 (876)
Q Consensus       850 ~~~~~~~lp~L~~L~i~~c~~L~~  873 (876)
                         .+..+|+|+.|++++||+++.
T Consensus       134 ---~L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          134 ---ALHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             ---HGGGCTTCCEEEEESCTTCCC
T ss_pred             ---HHhcCCCCCEEECCCCCCCCc
Confidence               345789999999999998874

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.06  E-value=0.00015  Score=79.20  Aligned_cols=111  Identities=10%  Similarity=0.075  Sum_probs=66.8

Q ss_pred             ccccCCC-cceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-cccccCcccCeeeccC
Q 042981          460 MSIHGLN-RLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVRKLIHLKYLNLSE  537 (876)
Q Consensus       460 ~~~~~~~-~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~~L~~Lr~L~Ls~  537 (876)
                      .+|.+++ .|+++.+...       ...+...+|.++.+|+.+.++.+.      ...+..+. ..|..+..|+.+.+..
T Consensus        57 ~aF~~~~~~L~sI~iP~s-------vt~Ig~~AF~~C~~L~~i~~~~n~------p~~l~~Ig~~aF~~c~~L~~i~~~~  123 (394)
T 4gt6_A           57 RVFCNYKYVLTSVQIPDT-------VTEIGSNAFYNCTSLKRVTIQDNK------PSCVKKIGRQAFMFCSELTDIPILD  123 (394)
T ss_dssp             TTTTTCCSCCCEEEECTT-------CCEECTTTTTTCTTCCEEEEGGGC------CCCCCEECTTTTTTCTTCCBCGGGT
T ss_pred             hhccCCCCcCEEEEECCC-------eeEEhHHHhhCCccCceEeecCCC------CCeeeEechhhchhcccceeeccCC
Confidence            4566664 5788877432       234455668888888888873321      12344454 3456677777777765


Q ss_pred             ccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCC
Q 042981          538 LCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGT  585 (876)
Q Consensus       538 ~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~  585 (876)
                      + ++.++. .+..+.+|+.+.+..+ ....-...+..+.+|+.+.+..+
T Consensus       124 ~-~~~I~~~aF~~c~~L~~i~lp~~-~~~I~~~~F~~c~~L~~i~~~~~  170 (394)
T 4gt6_A          124 S-VTEIDSEAFHHCEELDTVTIPEG-VTSVADGMFSYCYSLHTVTLPDS  170 (394)
T ss_dssp             T-CSEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEECCTT
T ss_pred             c-cceehhhhhhhhcccccccccce-eeeecccceecccccccccccce
Confidence            4 555553 4677788888888643 22222334567777777777654

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.06  E-value=1.4e-06  Score=93.27  Aligned_cols=59  Identities=17%  Similarity=0.041  Sum_probs=28.4

Q ss_pred             ccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccccccc--CcCCCceEecC
Q 042981          523 NVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIG--KLKKMRSLLNG  583 (876)
Q Consensus       523 ~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~--~L~~L~~L~l~  583 (876)
                      .+..+++|+.|+|++|.-..+|. + .+++|++|+|..|.........+.  .+++|++|+|+
T Consensus       167 ll~~~P~L~~L~L~g~~~l~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~  227 (362)
T 2ra8_A          167 VLDAMPLLNNLKIKGTNNLSIGK-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLY  227 (362)
T ss_dssp             HHHTCTTCCEEEEECCBTCBCCS-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEE
T ss_pred             HHhcCCCCcEEEEeCCCCceecc-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEe
Confidence            33455566666665553123333 2 256666666665532221112222  56666666654

>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=98.03  E-value=6.2e-06  Score=87.71  Aligned_cols=169  Identities=18%  Similarity=0.143  Sum_probs=98.5

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAII  203 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  203 (876)
                      .+++|++..++.+..++...... ......+.|+|..|+||||+|+++++  ....   ...++..+.......+...+-
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~-~~~~~~vll~G~~GtGKT~la~~i~~--~~~~---~~~~~~~~~~~~~~~l~~~l~   85 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKAR-KEPLEHLLLFGPPGLGKTTLAHVIAH--ELGV---NLRVTSGPAIEKPGDLAAILA   85 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHH-CSCCCCCEEECCTTCCCHHHHHHHHH--HHTC---CEEEECTTTCCSHHHHHHHHT
T ss_pred             HHhhCHHHHHHHHHHHHHHHHcc-CCCCCcEEEECCCCCCHHHHHHHHHH--HhCC---CEEEEeccccCChHHHHHHHH
Confidence            56999999999888877632110 11335678999999999999999987  3322   233454444333444444433


Q ss_pred             Hh--------ccccccCCccChhhHHhhhccCC------------------CCCEEEEEcCchH-HHHhh-CC-cceEeC
Q 042981          204 EG--------LDDVWDGDYNKWEPFFHCLKHGL------------------HGSKILLTTRNES-VARMM-GS-TNIIFI  254 (876)
Q Consensus       204 ~~--------lDdvw~~~~~~~~~l~~~l~~~~------------------~gs~iivTTR~~~-v~~~~-~~-~~~~~l  254 (876)
                      ..        +|++..-.....+.+...+....                  .+.++|.||.... +...+ .. ...+++
T Consensus        86 ~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~~i~l  165 (324)
T 1hqc_A           86 NSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHL  165 (324)
T ss_dssp             TTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSCEEEC
T ss_pred             HhccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccEEEec
Confidence            31        78886544334444554443321                  2345666666432 11111 11 258899


Q ss_pred             CCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHHHhhhh
Q 042981          255 EQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAKATGNL  298 (876)
Q Consensus       255 ~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~~~~~~  298 (876)
                      .+++.+|.  ++....  ....--.+....+++.+.|.|-.+..+...
T Consensus       166 ~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~~~l~~  213 (324)
T 1hqc_A          166 EYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRR  213 (324)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccCCHHHHHHHHHH
Confidence            99998886  211100  001112456788999999999877665543

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.99  E-value=5.1e-06  Score=89.01  Aligned_cols=61  Identities=23%  Similarity=0.175  Sum_probs=38.4

Q ss_pred             ccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccC--CCCCCCCccC
Q 042981          542 RLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGI--SKLTSLRTLE  605 (876)
Q Consensus       542 ~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i--~~l~~L~~L~  605 (876)
                      .++..+..+++|+.|+|++|... .+|. + .+++|++|++..|.+.......+  ..+++|+.|.
T Consensus       163 ~L~~ll~~~P~L~~L~L~g~~~l-~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~  225 (362)
T 2ra8_A          163 DLSPVLDAMPLLNNLKIKGTNNL-SIGK-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLV  225 (362)
T ss_dssp             BCHHHHHTCTTCCEEEEECCBTC-BCCS-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEE
T ss_pred             CHHHHHhcCCCCcEEEEeCCCCc-eecc-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEE
Confidence            45566778899999999887333 3444 4 37889999988775432222222  2456666663

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.91  E-value=4.3e-06  Score=80.59  Aligned_cols=122  Identities=13%  Similarity=-0.032  Sum_probs=74.0

Q ss_pred             ccccCCCcceEEeeecC-CCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCc
Q 042981          460 MSIHGLNRLRTLLIYFQ-SPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSEL  538 (876)
Q Consensus       460 ~~~~~~~~Lr~L~l~~~-~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~  538 (876)
                      ..+...+.|++|++.+| ....  .....+...+...+.|++|+|++|.+.    ......+...+...++|++|+|++|
T Consensus        30 ~~l~~~~~L~~L~L~~n~~i~~--~g~~~l~~~L~~~~~L~~L~Ls~n~i~----~~g~~~l~~~L~~n~~L~~L~L~~N  103 (185)
T 1io0_A           30 RIQNNDPDLEEVNLNNIMNIPV--PTLKACAEALKTNTYVKKFSIVGTRSN----DPVAFALAEMLKVNNTLKSLNVESN  103 (185)
T ss_dssp             HHHTTCTTCCEEECTTCTTCCH--HHHHHHHHHHTTCCSCCEEECTTSCCC----HHHHHHHHHHHHHCSSCCEEECCSS
T ss_pred             HHHhcCCCCCEEEecCCCCCCH--HHHHHHHHHHHhCCCcCEEECcCCCCC----hHHHHHHHHHHHhCCCcCEEECcCC
Confidence            34556778888888665 3110  001123344566778888888444331    1111234455556677888888888


Q ss_pred             ccc-----ccchhhccCCcccEEee--cCCCCCcc----ccccccCcCCCceEecCCCCC
Q 042981          539 CIE-----RLPKTLCELYNLQKLDI--RWCEDLRE----LPAGIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       539 ~i~-----~lp~~i~~L~~L~~L~L--~~~~~l~~----lp~~i~~L~~L~~L~l~~~~~  587 (876)
                      .|.     .+...+...++|++|+|  ++|.....    +...+...++|++|++++|.+
T Consensus       104 ~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          104 FISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             CCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             cCCHHHHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCC
Confidence            877     35666777788888888  66643322    334455667888888887754

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.89  E-value=0.00023  Score=77.74  Aligned_cols=142  Identities=12%  Similarity=0.099  Sum_probs=92.8

Q ss_pred             eEEEEeeecCCCCC-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-c
Q 042981          445 VRHLGLNFEGGASF-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-E  522 (876)
Q Consensus       445 lr~L~l~~~~~~~~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~  522 (876)
                      ++.+.+..+ ++.+ ..+|.+|.+|+++.+..+..   .....+...+|..+..|+.+.+         .. .+..++ .
T Consensus        66 L~sI~iP~s-vt~Ig~~AF~~C~~L~~i~~~~n~p---~~l~~Ig~~aF~~c~~L~~i~~---------~~-~~~~I~~~  131 (394)
T 4gt6_A           66 LTSVQIPDT-VTEIGSNAFYNCTSLKRVTIQDNKP---SCVKKIGRQAFMFCSELTDIPI---------LD-SVTEIDSE  131 (394)
T ss_dssp             CCEEEECTT-CCEECTTTTTTCTTCCEEEEGGGCC---CCCCEECTTTTTTCTTCCBCGG---------GT-TCSEECTT
T ss_pred             CEEEEECCC-eeEEhHHHhhCCccCceEeecCCCC---CeeeEechhhchhcccceeecc---------CC-ccceehhh
Confidence            666776543 4444 67889999999999976531   1123445566888999998887         22 244454 4


Q ss_pred             ccccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCC
Q 042981          523 NVRKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSL  601 (876)
Q Consensus       523 ~i~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L  601 (876)
                      .+..+.+|+.+.+..+ +..++ ..+.++.+|+.+.+..+  +..+........+|+.+.+..+ ....-...+..+.+|
T Consensus       132 aF~~c~~L~~i~lp~~-~~~I~~~~F~~c~~L~~i~~~~~--~~~I~~~aF~~~~l~~i~ip~~-~~~i~~~af~~c~~l  207 (394)
T 4gt6_A          132 AFHHCEELDTVTIPEG-VTSVADGMFSYCYSLHTVTLPDS--VTAIEERAFTGTALTQIHIPAK-VTRIGTNAFSECFAL  207 (394)
T ss_dssp             TTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEECCTT--CCEECTTTTTTCCCSEEEECTT-CCEECTTTTTTCTTC
T ss_pred             hhhhhcccccccccce-eeeecccceecccccccccccce--eeEeccccccccceeEEEECCc-ccccccchhhhcccc
Confidence            4678899999999765 45554 46788999999999764  4555444334567888888765 223333445555555


Q ss_pred             Ccc
Q 042981          602 RTL  604 (876)
Q Consensus       602 ~~L  604 (876)
                      ...
T Consensus       208 ~~~  210 (394)
T 4gt6_A          208 STI  210 (394)
T ss_dssp             CEE
T ss_pred             cee
Confidence            543

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.87  E-value=3.9e-05  Score=74.28  Aligned_cols=45  Identities=24%  Similarity=0.262  Sum_probs=37.8

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..++||+++++++.+.+...      ..+.+.|+|.+|+||||+|+++++.
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRR------TKNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS------SSCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcC------CCCceEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999998653      3355789999999999999999873

>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=97.83  E-value=2.7e-05  Score=84.50  Aligned_cols=168  Identities=17%  Similarity=0.189  Sum_probs=101.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccccc-------------------CCeE
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRN-------------------FEKV  184 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-------------------F~~~  184 (876)
                      .+++|++..++.+...+....     ....+.|+|..|+||||+|+.+.+.......                   +...
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~-----~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDL   90 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTC-----CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHTSCCSSC
T ss_pred             hhccCcHHHHHHHHHHHHhCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhccCCCce
Confidence            359999999999999886532     2357789999999999999998763211110                   1112


Q ss_pred             EEEEeCCc---hhHHHHHHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH-HH-HhhCCc
Q 042981          185 IWVCVSDT---FEEIRVANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES-VA-RMMGST  249 (876)
Q Consensus       185 ~wv~vs~~---~~~~~~~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~-~~~~~~  249 (876)
                      +.+..+..   -+...+...+...          +||+..-+...++.+...+.....+..+|++|.... +. ......
T Consensus        91 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~  170 (373)
T 1jr3_A           91 IEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC  170 (373)
T ss_dssp             EEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHTTS
T ss_pred             EEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHhhe
Confidence            33333221   1233444333211          788866555566777777766656777777776442 21 112234


Q ss_pred             ceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHHHhh
Q 042981          250 NIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAKATG  296 (876)
Q Consensus       250 ~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~~~~  296 (876)
                      ..+++.+++.++.  +.....  ....--.+....|++.++|.|..+..+.
T Consensus       171 ~~i~~~~l~~~~~~~~l~~~~~~~~~~~~~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          171 LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHSSSCHHHHHHHH
T ss_pred             eEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHCCCCHHHHHHHH
Confidence            6889999998886  221100  0011123456788899999998776554

>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=5.4e-06  Score=77.69  Aligned_cols=84  Identities=17%  Similarity=0.190  Sum_probs=55.7

Q ss_pred             ccCcccceeeccccccccccccccccccccCc----ccccceeeeccCccCCC--CCCCCCCCCCccEEEEecCCCchhh
Q 042981          773 IAFPKLKSLHIGAMEELEEWNYRITRKENISI----MPRLSSLTIWYCPRLRV--LPDYLFQSTTLQKLSISYCPIMEEL  846 (876)
Q Consensus       773 ~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~----l~~L~~L~l~~c~~l~~--lp~~l~~l~~L~~L~l~~~~~l~~l  846 (876)
                      ..+++|+.|+|++|..+++..+     ..+..    .++|++|+|++|+.++.  +. .+.++++|+.|+|++|+.+++.
T Consensus        82 ~~~~~L~~L~L~~C~~ItD~gL-----~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~-~L~~~~~L~~L~L~~c~~Itd~  155 (176)
T 3e4g_A           82 EGLQYVEKIRLCKCHYIEDGCL-----ERLSQLENLQKSMLEMEIISCGNVTDKGII-ALHHFRNLKYLFLSDLPGVKEK  155 (176)
T ss_dssp             TTCSCCCEEEEESCTTCCHHHH-----HHHHTCHHHHHHCCEEEEESCTTCCHHHHH-HGGGCTTCCEEEEESCTTCCCH
T ss_pred             cCCCCCCEEEeCCCCccCHHHH-----HHHHhcccccCCCCEEEcCCCCcCCHHHHH-HHhcCCCCCEEECCCCCCCCch
Confidence            3688888888888887777654     22333    35899999999987662  22 3456899999999999987764


Q ss_pred             ccccccCCCCCCCcCE
Q 042981          847 RILEDHRTTDIPRLSS  862 (876)
Q Consensus       847 ~~~~~~~~~~lp~L~~  862 (876)
                      .......-..+|+++.
T Consensus       156 gl~~~~L~~~lP~l~V  171 (176)
T 3e4g_A          156 EKIVQAFKTSLPSLEL  171 (176)
T ss_dssp             HHHHHHHHHHCTTCEE
T ss_pred             HHHHHHHHHHCCCcEE
Confidence            2211111235666543

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.80  E-value=4.8e-06  Score=80.24  Aligned_cols=100  Identities=12%  Similarity=0.059  Sum_probs=72.9

Q ss_pred             hhhhHHHhccCCcceEEecCcc-ccccCCCCCcccccccccccCcccCeeeccCcccc-----ccchhhccCCcccEEee
Q 042981          485 SSILSELFSKLACFRALVIGQR-NFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIE-----RLPKTLCELYNLQKLDI  558 (876)
Q Consensus       485 ~~~~~~~~~~l~~Lr~L~L~~~-~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~-----~lp~~i~~L~~L~~L~L  558 (876)
                      ...+..++...+.|+.|+|++| .+    .......+...+...++|++|+|++|.|.     .+...+...++|++|+|
T Consensus        25 ~~~l~~~l~~~~~L~~L~L~~n~~i----~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L  100 (185)
T 1io0_A           25 EETLKRIQNNDPDLEEVNLNNIMNI----PVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNV  100 (185)
T ss_dssp             HHHHHHHHTTCTTCCEEECTTCTTC----CHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEEC
T ss_pred             HHHHHHHHhcCCCCCEEEecCCCCC----CHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEEC
Confidence            3445666888999999999544 33    11122345566777889999999999987     35666777889999999


Q ss_pred             cCCCCCcc----ccccccCcCCCceEec--CCCCCC
Q 042981          559 RWCEDLRE----LPAGIGKLKKMRSLLN--GGTPLL  588 (876)
Q Consensus       559 ~~~~~l~~----lp~~i~~L~~L~~L~l--~~~~~~  588 (876)
                      ++|.....    +...+...++|++|++  ++|.+.
T Consensus       101 ~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i~  136 (185)
T 1io0_A          101 ESNFISGSGILALVEALQSNTSLIELRIDNQSQPLG  136 (185)
T ss_dssp             CSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCC
T ss_pred             cCCcCCHHHHHHHHHHHHhCCCceEEEecCCCCCCC
Confidence            99954322    5566778889999999  777653

>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=97.79  E-value=1.6e-05  Score=80.33  Aligned_cols=143  Identities=13%  Similarity=0.094  Sum_probs=75.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhH-HHHHHHHHHh----ccccccCCccC--hhhHHh
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE-IRVANAIIEG----LDDVWDGDYNK--WEPFFH  222 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~-~~~~~~i~~~----lDdvw~~~~~~--~~~l~~  222 (876)
                      ..+.+.|+|.+|+||||||+.+++  ........+.|+..++..+. .+....+-..    +||+.......  .+.+..
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~~~~~~~~~~~l~~  128 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACA--RANELERRSFYIPLGIHASISTALLEGLEQFDLICIDDVDAVAGHPLWEEAIFD  128 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHH--HHHHTTCCEEEEEGGGGGGSCGGGGTTGGGSSEEEEETGGGGTTCHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEEHHHHHHHHHHHHHhccCCCEEEEeccccccCCHHHHHHHHH
Confidence            346788999999999999999987  33333345667776553221 0111111111    78886543222  233444


Q ss_pred             hhccC-CCCC-EEEEEcCch---------HHHHhhCCcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCC
Q 042981          223 CLKHG-LHGS-KILLTTRNE---------SVARMMGSTNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKG  287 (876)
Q Consensus       223 ~l~~~-~~gs-~iivTTR~~---------~v~~~~~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~G  287 (876)
                      .+... ..|. +||+||+..         .+...+.....+++.+++.++.  ++....  ....--.+....+++.++|
T Consensus       129 ~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g  208 (242)
T 3bos_A          129 LYNRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQLPEDVGRFLLNRMAR  208 (242)
T ss_dssp             HHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCCCCHHHHHHHHHHTTT
T ss_pred             HHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccC
Confidence            33221 1222 477777632         2222222236889999998776  111100  0011123455677777777


Q ss_pred             CchHHHH
Q 042981          288 LPLAAKA  294 (876)
Q Consensus       288 lPlai~~  294 (876)
                      .+-.+..
T Consensus       209 ~~r~l~~  215 (242)
T 3bos_A          209 DLRTLFD  215 (242)
T ss_dssp             CHHHHHH
T ss_pred             CHHHHHH
Confidence            6654443

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.78  E-value=2.7e-05  Score=71.58  Aligned_cols=106  Identities=15%  Similarity=0.071  Sum_probs=64.1

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc-cccCCeEEEEEeCCchhHHHHHHHHH
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV-KRNFEKVIWVCVSDTFEEIRVANAII  203 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~  203 (876)
                      +++|+...++++.+.+.....   .. .-|-|+|..|+|||++|+.+++...- ...|   + +..+...+.... ...+
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~---~~-~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~---v-~~~~~~~~~~~~-~~~~   72 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSE---TD-IAVWLYGAPGTGRMTGARYLHQFGRNAQGEF---V-YRELTPDNAPQL-NDFI   72 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTT---CC-SCEEEESSTTSSHHHHHHHHHHSSTTTTSCC---E-EEECCTTTSSCH-HHHH
T ss_pred             CceeCCHHHHHHHHHHHHHhC---CC-CCEEEECCCCCCHHHHHHHHHHhCCccCCCE---E-EECCCCCcchhh-hcHH
Confidence            578999999999988865322   12 23679999999999999999974211 2222   2 554443221111 1112


Q ss_pred             Hh-------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc
Q 042981          204 EG-------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN  239 (876)
Q Consensus       204 ~~-------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~  239 (876)
                      ..       +|++..-.......+...+.......+||.||..
T Consensus        73 ~~a~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~  115 (145)
T 3n70_A           73 ALAQGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDT  115 (145)
T ss_dssp             HHHTTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESS
T ss_pred             HHcCCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCc
Confidence            21       8888766555556666666554445677777764

>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=97.70  E-value=9.9e-06  Score=82.08  Aligned_cols=37  Identities=30%  Similarity=0.260  Sum_probs=16.2

Q ss_pred             cccCcccCeeeccCccccccchhhccCC--cccEEeecCC
Q 042981          524 VRKLIHLKYLNLSELCIERLPKTLCELY--NLQKLDIRWC  561 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~--~L~~L~L~~~  561 (876)
                      +..+++|++|+|++|.|+.+ ..+..+.  +|++|+|++|
T Consensus       192 ~~~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~~N  230 (267)
T 3rw6_A          192 VQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDGN  230 (267)
T ss_dssp             HHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTTS
T ss_pred             HhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccCC
Confidence            34445555555555544443 1222222  4444444444

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.64  E-value=4.2e-05  Score=77.43  Aligned_cols=81  Identities=25%  Similarity=0.260  Sum_probs=61.9

Q ss_pred             ccCcccCeeeccCcccccc---chhhccCCcccEEeecCCCCCccccccccCcC--CCceEecCCCCCCccCCc------
Q 042981          525 RKLIHLKYLNLSELCIERL---PKTLCELYNLQKLDIRWCEDLRELPAGIGKLK--KMRSLLNGGTPLLKYMPI------  593 (876)
Q Consensus       525 ~~L~~Lr~L~Ls~~~i~~l---p~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~--~L~~L~l~~~~~~~~~p~------  593 (876)
                      .++++|+.|+|++|.|+.+   |..+..+++|++|+|++|. +..+ ..+..+.  +|++|++++|.+.+.+|.      
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~-i~~~-~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~  244 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNE-LKSE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTYIS  244 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSC-CCSG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHH
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCc-cCCc-hhhhhcccCCcceEEccCCcCccccCcchhHHH
Confidence            4678899999999988754   4667899999999999984 5544 3355555  999999999988776662      


Q ss_pred             -cCCCCCCCCccCce
Q 042981          594 -GISKLTSLRTLEKF  607 (876)
Q Consensus       594 -~i~~l~~L~~L~~~  607 (876)
                       .+..+++|+.|+..
T Consensus       245 ~il~~~P~L~~LDg~  259 (267)
T 3rw6_A          245 AIRERFPKLLRLDGH  259 (267)
T ss_dssp             HHHHHCTTCCEESSC
T ss_pred             HHHHHCcccCeECCc
Confidence             25678889888543

>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=97.62  E-value=0.0013  Score=71.24  Aligned_cols=59  Identities=15%  Similarity=0.140  Sum_probs=33.6

Q ss_pred             ccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCC-CCCCCCCCccEEEEec
Q 042981          773 IAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLP-DYLFQSTTLQKLSISY  839 (876)
Q Consensus       773 ~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp-~~l~~l~~L~~L~l~~  839 (876)
                      ..+++|+.+.+.+. .++.+.     ...+..+++|+.+.|..+  ++.++ ..|.++++|+.+.+..
T Consensus       283 ~~c~~L~~i~l~~~-~i~~I~-----~~aF~~c~~L~~i~lp~~--l~~I~~~aF~~C~~L~~i~ip~  342 (379)
T 4h09_A          283 SGCSNLTKVVMDNS-AIETLE-----PRVFMDCVKLSSVTLPTA--LKTIQVYAFKNCKALSTISYPK  342 (379)
T ss_dssp             TTCTTCCEEEECCT-TCCEEC-----TTTTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCCCCCCT
T ss_pred             cccccccccccccc-ccceeh-----hhhhcCCCCCCEEEcCcc--ccEEHHHHhhCCCCCCEEEECC
Confidence            35677777766432 122221     235566777777777543  44443 3566677777777644

>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=97.61  E-value=4.8e-05  Score=80.49  Aligned_cols=161  Identities=14%  Similarity=0.068  Sum_probs=95.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc-cccCC-eEEEEEeCCch---hHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV-KRNFE-KVIWVCVSDTF---EEIRV  198 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~F~-~~~wv~vs~~~---~~~~~  198 (876)
                      .+++|++..++.+.+++...      ....+-|+|..|+||||+|+.+++.  + ...+. ..+.+..+...   .....
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKt~la~~l~~~--l~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERK------NIPHLLFSGPPGTGKTATAIALARD--LFGENWRDNFIEMNASDERGIDVVRHK   88 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTT------CCCCEEEESSSSSSHHHHHHHHHHH--HHTTCHHHHCEEEETTSTTCTTTSSHH
T ss_pred             HHHhCCHHHHHHHHHHHhCC------CCCeEEEECcCCcCHHHHHHHHHHH--hcCCcccCCeEEEeCccccChHHHHHH
Confidence            45899999999988877642      2333889999999999999999873  2 11111 12334443321   22233


Q ss_pred             HHHHHHh------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH-HHH-hhCCcceEeCCCCCcccc--
Q 042981          199 ANAIIEG------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES-VAR-MMGSTNIIFIEQLTEEES--  262 (876)
Q Consensus       199 ~~~i~~~------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~~-~~~~~~~~~l~~L~~~~~--  262 (876)
                      .......            +|++..-.....+.+...+.....+.++|+||.... +.. .......+++.+++.++.  
T Consensus        89 ~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~  168 (319)
T 2chq_A           89 IKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKK  168 (319)
T ss_dssp             HHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECCCCCHHHHHH
T ss_pred             HHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEecCCCHHHHHH
Confidence            3333311            788765544445666666666556778888876543 211 122345889999998876  


Q ss_pred             c----cCCCcCCccchHHHHHHHHHHcCCCchHHHH
Q 042981          263 F----SGRSFEDCEKLEPIGRKIARKCKGLPLAAKA  294 (876)
Q Consensus       263 ~----f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~  294 (876)
                      +    +....  ..--.+....+++.++|-+-.+..
T Consensus       169 ~l~~~~~~~~--~~i~~~~l~~l~~~~~G~~r~~~~  202 (319)
T 2chq_A          169 RLLEICEKEG--VKITEDGLEALIYISGGDFRKAIN  202 (319)
T ss_dssp             HHHHHHHTTC--CCBCHHHHHHHHHTTTTCHHHHHH
T ss_pred             HHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHH
Confidence            1    11111  111234566777888887765443

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.52  E-value=4.7e-05  Score=69.74  Aligned_cols=102  Identities=13%  Similarity=0.117  Sum_probs=59.9

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHH
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIE  204 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~  204 (876)
                      +++|++..++++.+.+.....    ...-|-|+|..|+|||++|+.+++...        -|+.+.-..-.......+++
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~----~~~~vll~G~~GtGKt~lA~~i~~~~~--------~~~~~~~~~~~~~~~~~~~~   72 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAK----RTSPVFLTGEAGSPFETVARYFHKNGT--------PWVSPARVEYLIDMPMELLQ   72 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHT----CSSCEEEEEETTCCHHHHHGGGCCTTS--------CEECCSSTTHHHHCHHHHHH
T ss_pred             CceeCCHHHHHHHHHHHHHhC----CCCcEEEECCCCccHHHHHHHHHHhCC--------CeEEechhhCChHhhhhHHH
Confidence            588999999988888764321    112367999999999999999987322        23333221111122333333


Q ss_pred             h-------ccccccCCccChhhHHhhhccC-CCCCEEEEEcC
Q 042981          205 G-------LDDVWDGDYNKWEPFFHCLKHG-LHGSKILLTTR  238 (876)
Q Consensus       205 ~-------lDdvw~~~~~~~~~l~~~l~~~-~~gs~iivTTR  238 (876)
                      .       +|++..-..+....+...+... ..+.+||.||.
T Consensus        73 ~a~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn  114 (143)
T 3co5_A           73 KAEGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCS  114 (143)
T ss_dssp             HTTTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEE
T ss_pred             hCCCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecC
Confidence            3       7888665544455555555443 34567887775

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.41  E-value=0.00027  Score=67.76  Aligned_cols=44  Identities=25%  Similarity=0.188  Sum_probs=37.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|++.+++.+.+.+...      ..+.+.|+|..|+||||+|+.+++
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~------~~~~vll~G~~G~GKT~la~~~~~   65 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRR------TKNNPILLGDPGVGKTAIVEGLAI   65 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS------SSCEEEEESCGGGCHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCC------CCCceEEECCCCCCHHHHHHHHHH
Confidence            46899999999999988652      234568999999999999999987

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.35  E-value=0.00025  Score=69.24  Aligned_cols=86  Identities=24%  Similarity=0.275  Sum_probs=48.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhH----------HHHHHHHHHh----ccccccCCccCh
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE----------IRVANAIIEG----LDDVWDGDYNKW  217 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~----------~~~~~~i~~~----lDdvw~~~~~~~  217 (876)
                      +.+.|+|.+|+||||||+++++  ........++|++++.-...          ..+...+...    |||++......|
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lilDei~~~~~~~~  132 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIAN--ELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKLDYIKKVPVLMLDDLGAEAMSSW  132 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH--HHHTTTCCEEEEEHHHHHHHHHHC---CCCHHHHHHHHHSSEEEEEEECCC---CC
T ss_pred             CeEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEEhHHHHHHHHHHhccchHHHHHHHhcCCCEEEEcCCCCCcCCHH
Confidence            6788999999999999999998  44444445667765432110          1111222111    899976544444


Q ss_pred             hh--HHh-hhccC-CCCCEEEEEcCc
Q 042981          218 EP--FFH-CLKHG-LHGSKILLTTRN  239 (876)
Q Consensus       218 ~~--l~~-~l~~~-~~gs~iivTTR~  239 (876)
                      ..  +.. .+... ..+.++|+||..
T Consensus       133 ~~~~ll~~~l~~~~~~~~~~i~tsn~  158 (202)
T 2w58_A          133 VRDDVFGPILQYRMFENLPTFFTSNF  158 (202)
T ss_dssp             GGGTTHHHHHHHHHHTTCCEEEEESS
T ss_pred             HHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence            32  322 22221 235678888874

>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=97.32  E-value=0.00029  Score=75.70  Aligned_cols=166  Identities=11%  Similarity=-0.011  Sum_probs=95.0

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCC-eEEEEEeCCchhHHH---HH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEIR---VA  199 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~~---~~  199 (876)
                      .+++|+++.++.+..++....      ...+.|+|..|+||||+|+.+.+.-.....+. ....+..++......   ..
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSAN------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKV  110 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTT------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHH
T ss_pred             HHhhCCHHHHHHHHHHHhcCC------CCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHHHHH
Confidence            468999999999999886532      22378999999999999999987321111111 233344443222221   12


Q ss_pred             HHHHH----------------------hccccccCCccChhhHHhhhccCCCCCEEEEEcCchH-HHHh-hCCcceEeCC
Q 042981          200 NAIIE----------------------GLDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES-VARM-MGSTNIIFIE  255 (876)
Q Consensus       200 ~~i~~----------------------~lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~~~-~~~~~~~~l~  255 (876)
                      .....                      -+|++..-.......+...+.......++|++|.... +... ......+++.
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i~~~  190 (353)
T 1sxj_D          111 KNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFK  190 (353)
T ss_dssp             HHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECC
T ss_pred             HHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceEEeC
Confidence            22211                      0677654443445556666665555677777775432 2111 1123478899


Q ss_pred             CCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHHHh
Q 042981          256 QLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAKAT  295 (876)
Q Consensus       256 ~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~~~  295 (876)
                      +++.++.  +.....  ....--.+....|++.++|-|-.+..+
T Consensus       191 ~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          191 ALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             CCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            9998886  111100  001112456788889999988765443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.30  E-value=9.2e-05  Score=79.04  Aligned_cols=163  Identities=17%  Similarity=0.131  Sum_probs=91.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAII  203 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  203 (876)
                      .+++|++..++++..++...... ......|-|+|..|+|||++|+++++  .....|   +.+..+.......+ ...+
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~-~~~~~~vll~G~~GtGKT~la~~ia~--~~~~~~---~~~~~~~~~~~~~~-~~~~  101 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKR-NECLDHILFSGPAGLGKTTLANIISY--EMSANI---KTTAAPMIEKSGDL-AAIL  101 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHT-TSCCCCEEEECSTTSSHHHHHHHHHH--HTTCCE---EEEEGGGCCSHHHH-HHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHHhc-CCCCCeEEEECcCCCCHHHHHHHHHH--HhCCCe---EEecchhccchhHH-HHHH
Confidence            46999999999998888753110 12345678999999999999999987  333332   23333222222222 2333


Q ss_pred             Hh--------ccccccCCccChhhHHhhhccCC------------------CCCEEEEEcCchHH-HHh-hCC-cceEeC
Q 042981          204 EG--------LDDVWDGDYNKWEPFFHCLKHGL------------------HGSKILLTTRNESV-ARM-MGS-TNIIFI  254 (876)
Q Consensus       204 ~~--------lDdvw~~~~~~~~~l~~~l~~~~------------------~gs~iivTTR~~~v-~~~-~~~-~~~~~l  254 (876)
                      ..        ||++..-.......+...+....                  ++-++|.+|..... ... ... ...+++
T Consensus       102 ~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~~R~~~~i~l  181 (338)
T 3pfi_A          102 TNLSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRFGMQFRL  181 (338)
T ss_dssp             HTCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGGSCHHHHTTCSEEEEC
T ss_pred             HhccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccccCHHHHhhcCEEeeC
Confidence            32        78887654444445555554322                  12456666554321 111 111 368899


Q ss_pred             CCCCcccc--ccCCCc--CCccchHHHHHHHHHHcCCCchHHH
Q 042981          255 EQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCKGLPLAAK  293 (876)
Q Consensus       255 ~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~GlPlai~  293 (876)
                      .+++.++.  ++....  ....--.+....+++.+.|.|-.+.
T Consensus       182 ~~~~~~e~~~il~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~  224 (338)
T 3pfi_A          182 EFYKDSELALILQKAALKLNKTCEEKAALEIAKRSRSTPRIAL  224 (338)
T ss_dssp             CCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHTTTTCHHHHH
T ss_pred             CCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHCcCHHHHH
Confidence            99988876  211110  0111123456677778888874443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=97.30  E-value=0.00073  Score=74.34  Aligned_cols=157  Identities=20%  Similarity=0.245  Sum_probs=84.4

Q ss_pred             CceeeccchH---HHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCC--chhHHHH
Q 042981          124 GEVCGRVDEK---NELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSD--TFEEIRV  198 (876)
Q Consensus       124 ~~~vGr~~~~---~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~--~~~~~~~  198 (876)
                      .+++|.+..+   ..+...+...      ....+.|+|..|+||||+|+.+++  .....|-   -+....  .-+.+.+
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~------~~~~vLL~GppGtGKTtlAr~ia~--~~~~~f~---~l~a~~~~~~~ir~~   94 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAG------HLHSMILWGPPGTGKTTLAEVIAR--YANADVE---RISAVTSGVKEIREA   94 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHT------CCCEEEEECSTTSSHHHHHHHHHH--HTTCEEE---EEETTTCCHHHHHHH
T ss_pred             HHhCCcHHHHhchHHHHHHHHcC------CCcEEEEECCCCCcHHHHHHHHHH--HhCCCeE---EEEeccCCHHHHHHH
Confidence            4588887766   5566666532      446789999999999999999997  3333331   122211  1122233


Q ss_pred             HHHHHHh----------ccccccCCccChhhHHhhhccCCCCCEEE-EEcCchH--H-HHhhCCcceEeCCCCCcccc--
Q 042981          199 ANAIIEG----------LDDVWDGDYNKWEPFFHCLKHGLHGSKIL-LTTRNES--V-ARMMGSTNIIFIEQLTEEES--  262 (876)
Q Consensus       199 ~~~i~~~----------lDdvw~~~~~~~~~l~~~l~~~~~gs~ii-vTTR~~~--v-~~~~~~~~~~~l~~L~~~~~--  262 (876)
                      +......          +|++..-+....+.+...+..+  .-.+| .||.+..  + ........++.+++++.++-  
T Consensus        95 ~~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~--~v~lI~att~n~~~~l~~aL~sR~~v~~l~~l~~edi~~  172 (447)
T 3pvs_A           95 IERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDG--TITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQ  172 (447)
T ss_dssp             HHHHHHHHHTTCCEEEEEETTTCC------CCHHHHHTT--SCEEEEEESSCGGGSSCHHHHTTEEEEECCCCCHHHHHH
T ss_pred             HHHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcC--ceEEEecCCCCcccccCHHHhCceeEEeeCCcCHHHHHH
Confidence            3222211          8888765555566666666652  12333 3555542  2 12223456889999998876  


Q ss_pred             ----ccCC---Cc--CCccchHHHHHHHHHHcCCCchHHH
Q 042981          263 ----FSGR---SF--EDCEKLEPIGRKIARKCKGLPLAAK  293 (876)
Q Consensus       263 ----~f~~---~~--~~~~~l~~~~~~i~~~c~GlPlai~  293 (876)
                          ++..   ..  ....--.+....+++.++|-+-.+.
T Consensus       173 il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~ll  212 (447)
T 3pvs_A          173 VLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRAL  212 (447)
T ss_dssp             HHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHH
T ss_pred             HHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHH
Confidence                1111   10  1111223456677777888665443

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.20  E-value=0.00046  Score=71.66  Aligned_cols=78  Identities=6%  Similarity=0.002  Sum_probs=54.2

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcccccc-----CC--eEEEEEeCCchhHHH
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRN-----FE--KVIWVCVSDTFEEIR  197 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-----F~--~~~wv~vs~~~~~~~  197 (876)
                      .+.||+++.++|...|...-.  .+....+-|+|.+|+|||++|++|.+.  +...     ..  ..+.|....-.+...
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~--~~~~~~lli~GpPGTGKT~~v~~v~~~--L~~~~~~~~~~~~~~v~INc~~~~t~~~   96 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLM--SSQNKLFYITNADDSTKFQLVNDVMDE--LITSSARKELPIFDYIHIDALELAGMDA   96 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH--TTCCCEEEEECCCSHHHHHHHHHHHHH--HHHTTTTTSSCCEEEEEEETTCCC--HH
T ss_pred             ccCCHHHHHHHHHHHHHHHhc--CCCCCeEEEECCCCCCHHHHHHHHHHH--HHHHhhhccCCceEEEEEeccccCCHHH
Confidence            388999999999988876432  235678899999999999999999984  3221     11  245555555556666


Q ss_pred             HHHHHHHhc
Q 042981          198 VANAIIEGL  206 (876)
Q Consensus       198 ~~~~i~~~l  206 (876)
                      +...|+++|
T Consensus        97 ~~~~I~~~L  105 (318)
T 3te6_A           97 LYEKIWFAI  105 (318)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666666665

>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=97.19  E-value=0.00031  Score=67.17  Aligned_cols=88  Identities=18%  Similarity=0.256  Sum_probs=47.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHH----------HHHHHHHHh----ccccccCCccC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI----------RVANAIIEG----LDDVWDGDYNK  216 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~----------~~~~~i~~~----lDdvw~~~~~~  216 (876)
                      -+.+.|+|..|+||||||+++++.......+ .++++++.+-.+..          .....+.+.    |||++....+.
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDE~~~~~~~~  116 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKAIYEKKGI-RGYFFDTKDLIFRLKHLMDEGKDTKFLKTVLNSPVLVLDDLGSERLSD  116 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHHHHHHSCC-CCCEEEHHHHHHHHHHHHHHTCCSHHHHHHHTCSEEEEETCSSSCCCH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHHcCC-eEEEEEHHHHHHHHHHHhcCchHHHHHHHhcCCCEEEEeCCCCCcCCH
Confidence            4688999999999999999998732212222 23444443321110          111111111    89997433344


Q ss_pred             hhh--HHhhhccC-CCCCEEEEEcCc
Q 042981          217 WEP--FFHCLKHG-LHGSKILLTTRN  239 (876)
Q Consensus       217 ~~~--l~~~l~~~-~~gs~iivTTR~  239 (876)
                      |..  +...+... ..|..||+||..
T Consensus       117 ~~~~~l~~ll~~~~~~~~~ii~tsn~  142 (180)
T 3ec2_A          117 WQRELISYIITYRYNNLKSTIITTNY  142 (180)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEEECCC
T ss_pred             HHHHHHHHHHHHHHHcCCCEEEEcCC
Confidence            542  33333321 246788888864

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.18  E-value=0.00077  Score=70.76  Aligned_cols=137  Identities=14%  Similarity=0.150  Sum_probs=72.5

Q ss_pred             ceeeccchHHHHHHHhhccC---------CcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCC--eEEEEEeCCc-
Q 042981          125 EVCGRVDEKNELLSKLLFES---------SEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE--KVIWVCVSDT-  192 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~---------~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~--~~~wv~vs~~-  192 (876)
                      +++|.+..++.+.+.+....         -........+.|+|.+|+|||++|+.+++.-.......  ..+.+..++- 
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            47888888888776654210         00012345688999999999999998876321111111  2222322211 


Q ss_pred             ---h-hHHHHHHHHHHh-------ccccccC---------CccChhhHHhhhccCCCCCEEEEEcCchHHHHh--hC---
Q 042981          193 ---F-EEIRVANAIIEG-------LDDVWDG---------DYNKWEPFFHCLKHGLHGSKILLTTRNESVARM--MG---  247 (876)
Q Consensus       193 ---~-~~~~~~~~i~~~-------lDdvw~~---------~~~~~~~l~~~l~~~~~gs~iivTTR~~~v~~~--~~---  247 (876)
                         + ....-...++..       +|++..-         .......+...+.....+..||.||........  ..   
T Consensus       112 ~~~~g~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l  191 (309)
T 3syl_A          112 GQYIGHTAPKTKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGF  191 (309)
T ss_dssp             CSSTTCHHHHHHHHHHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTH
T ss_pred             hhcccccHHHHHHHHHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHH
Confidence               1 111122333332       7888632         223345566666666667788888865432111  01   


Q ss_pred             ---CcceEeCCCCCccc
Q 042981          248 ---STNIIFIEQLTEEE  261 (876)
Q Consensus       248 ---~~~~~~l~~L~~~~  261 (876)
                         -...+++++++.++
T Consensus       192 ~~R~~~~i~~~~~~~~~  208 (309)
T 3syl_A          192 RSRIAHHIEFPDYSDEE  208 (309)
T ss_dssp             HHHEEEEEEECCCCHHH
T ss_pred             HHhCCeEEEcCCcCHHH
Confidence               12566777766544

>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=97.14  E-value=0.00031  Score=77.41  Aligned_cols=108  Identities=19%  Similarity=0.187  Sum_probs=62.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCC--eEEEEEeCCchhHHHHHH-----------HHHH-h-----cccccc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE--KVIWVCVSDTFEEIRVAN-----------AIIE-G-----LDDVWD  211 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~--~~~wv~vs~~~~~~~~~~-----------~i~~-~-----lDdvw~  211 (876)
                      ...+.|+|.+|+||||||+++++  .+...|.  .++++..+.-  ..++..           .-.. .     +||+..
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~--~l~~~~~~~~v~~v~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~vL~IDEi~~  205 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGN--YVVQNEPDLRVMYITSEKF--LNDLVDSMKEGKLNEFREKYRKKVDILLIDDVQF  205 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHH--HHHHHCCSSCEEEEEHHHH--HHHHHHHHHTTCHHHHHHHHTTTCSEEEEECGGG
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHHhCCCCeEEEeeHHHH--HHHHHHHHHcccHHHHHHHhcCCCCEEEEeCccc
Confidence            56789999999999999999998  4444442  3445554331  111111           1112 2     788865


Q ss_pred             CCc--cChhhHHhhhcc-CCCCCEEEEEcCc---------hHHHHhhCCcceEeCCCCCcccc
Q 042981          212 GDY--NKWEPFFHCLKH-GLHGSKILLTTRN---------ESVARMMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       212 ~~~--~~~~~l~~~l~~-~~~gs~iivTTR~---------~~v~~~~~~~~~~~l~~L~~~~~  262 (876)
                      -..  ...+.+...+.. ...|..||+||.+         ..+...+....++.+++++.++-
T Consensus       206 l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e~r  268 (440)
T 2z4s_A          206 LIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETR  268 (440)
T ss_dssp             GSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHHHH
T ss_pred             ccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHHHH
Confidence            432  122334444432 2357789999876         23333343346778888877665

>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=97.05  E-value=0.0019  Score=66.30  Aligned_cols=47  Identities=21%  Similarity=0.136  Sum_probs=34.1

Q ss_pred             CceeeccchHHHHHHH-------hhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSK-------LLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~-------L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.....++++..       +....   ....+.+-|+|..|+|||++|+++++
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~---~~~~~~vLl~G~~GtGKT~la~~ia~   86 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSD---RTPLVSVLLEGPPHSGKTALAAKIAE   86 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCS---SCSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccC---CCCCeEEEEECCCCCcHHHHHHHHHH
Confidence            3477877776666663       22111   23567888999999999999999997

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.04  E-value=0.00062  Score=70.54  Aligned_cols=51  Identities=22%  Similarity=0.180  Sum_probs=38.2

Q ss_pred             CCceeeccchHHHHHHHhhccCCc-------CCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSE-------QQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+++|.++.++++.+.+......       +-...+-+.|+|.+|+||||||+++++
T Consensus        16 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~   73 (285)
T 3h4m_A           16 YEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVAT   73 (285)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            356999999999998887532000       002345688999999999999999987

>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=97.00  E-value=0.00071  Score=71.59  Aligned_cols=124  Identities=19%  Similarity=0.148  Sum_probs=78.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHH---HH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRV---AN  200 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~---~~  200 (876)
                      ++++|.+..++.+.+++....     ...++-+.|..|+||||+|+++.+  ...   ...+.+..+. .....+   ..
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~-----~~~~~L~~G~~G~GKT~la~~la~--~l~---~~~~~i~~~~-~~~~~i~~~~~   94 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGK-----IPHIILHSPSPGTGKTTVAKALCH--DVN---ADMMFVNGSD-CKIDFVRGPLT   94 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTC-----CCSEEEECSSTTSSHHHHHHHHHH--HTT---EEEEEEETTT-CCHHHHHTHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-----CCeEEEeeCcCCCCHHHHHHHHHH--HhC---CCEEEEcccc-cCHHHHHHHHH
Confidence            569999999999999887432     346777788899999999999987  332   1234455444 223222   22


Q ss_pred             HHHHh-----------ccccccCC-ccChhhHHhhhccCCCCCEEEEEcCchH-----HHHhhCCcceEeCCCCCccc
Q 042981          201 AIIEG-----------LDDVWDGD-YNKWEPFFHCLKHGLHGSKILLTTRNES-----VARMMGSTNIIFIEQLTEEE  261 (876)
Q Consensus       201 ~i~~~-----------lDdvw~~~-~~~~~~l~~~l~~~~~gs~iivTTR~~~-----v~~~~~~~~~~~l~~L~~~~  261 (876)
                      .....           +|++..-. .+..+.+...+.....+.++|+||....     +...   ...+++++++.++
T Consensus        95 ~~~~~~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR---~~~i~~~~~~~~e  169 (324)
T 3u61_B           95 NFASAASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSR---CRVITFGQPTDED  169 (324)
T ss_dssp             HHHHBCCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHH---SEEEECCCCCHHH
T ss_pred             HHHhhcccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhh---CcEEEeCCCCHHH
Confidence            22221           78886543 3344555555554445678888887543     2222   3478898888776

>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=96.99  E-value=0.0018  Score=73.16  Aligned_cols=164  Identities=15%  Similarity=0.151  Sum_probs=90.6

Q ss_pred             CceeeccchHHHHHHHhhccCC-----------cCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCc
Q 042981          124 GEVCGRVDEKNELLSKLLFESS-----------EQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  192 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~-----------~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~  192 (876)
                      .+++|++..++++.+++.....           .+....+.+-|+|++|+||||+|+.+++.  ..  + ..+.+..++.
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~--l~--~-~~i~in~s~~  113 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQE--LG--Y-DILEQNASDV  113 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHH--TT--C-EEEEECTTSC
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHH--cC--C-CEEEEeCCCc
Confidence            5699999999999999875110           00113468899999999999999999973  31  2 2334444443


Q ss_pred             hhHHHHHHHHHH----------------------h------ccccccCCc---cChhhHHhhhccCCCCCEEEEEcCchH
Q 042981          193 FEEIRVANAIIE----------------------G------LDDVWDGDY---NKWEPFFHCLKHGLHGSKILLTTRNES  241 (876)
Q Consensus       193 ~~~~~~~~~i~~----------------------~------lDdvw~~~~---~~~~~l~~~l~~~~~gs~iivTTR~~~  241 (876)
                      ..... ....+.                      .      +|++..-..   ..+..+...+...  +..||+++.+..
T Consensus       114 ~~~~~-~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~--~~~iIli~~~~~  190 (516)
T 1sxj_A          114 RSKTL-LNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT--STPLILICNERN  190 (516)
T ss_dssp             CCHHH-HHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC--SSCEEEEESCTT
T ss_pred             chHHH-HHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhc--CCCEEEEEcCCC
Confidence            32221 111111                      1      677654321   1224444444432  334666655432


Q ss_pred             ---HHHhhCCcceEeCCCCCcccc--ccC-----CCcCCccchHHHHHHHHHHcCC-CchHHHHhhhh
Q 042981          242 ---VARMMGSTNIIFIEQLTEEES--FSG-----RSFEDCEKLEPIGRKIARKCKG-LPLAAKATGNL  298 (876)
Q Consensus       242 ---v~~~~~~~~~~~l~~L~~~~~--~f~-----~~~~~~~~l~~~~~~i~~~c~G-lPlai~~~~~~  298 (876)
                         +.........+++++++.++.  .+.     ......   .+....|++.++| ++-|+..+...
T Consensus       191 ~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~---~~~l~~la~~s~GdiR~~i~~L~~~  255 (516)
T 1sxj_A          191 LPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD---PNVIDRLIQTTRGDIRQVINLLSTI  255 (516)
T ss_dssp             SSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHTTTCHHHHHHHHTHH
T ss_pred             CccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCcHHHHHHHHHHH
Confidence               222222345788899988876  111     111111   1345678888988 55666665433

>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=96.97  E-value=0.0025  Score=64.85  Aligned_cols=50  Identities=28%  Similarity=0.231  Sum_probs=35.2

Q ss_pred             CceeeccchHHHHHHHhhccCCc------CCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSE------QQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.+..++.+.+++..-...      +....+-|.|+|.+|+|||++|+++++
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            46899988887776654321000      012345678999999999999999997

>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=96.96  E-value=0.0031  Score=66.80  Aligned_cols=157  Identities=15%  Similarity=0.109  Sum_probs=93.1

Q ss_pred             cchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccc--------------------cccCCeEEEEEe
Q 042981          130 VDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEV--------------------KRNFEKVIWVCV  189 (876)
Q Consensus       130 ~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--------------------~~~F~~~~wv~v  189 (876)
                      ++..+.+...+..+     .-.+.+-++|..|+||||+|+.+.+.-.-                    ..|+| ..++..
T Consensus         8 ~~~~~~l~~~i~~~-----~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~   81 (334)
T 1a5t_A            8 RPDFEKLVASYQAG-----RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAP   81 (334)
T ss_dssp             HHHHHHHHHHHHTT-----CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECC
T ss_pred             HHHHHHHHHHHHcC-----CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEec
Confidence            34455666665432     23467889999999999999988752110                    01233 344443


Q ss_pred             C---CchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH-HHH-hhCCcc
Q 042981          190 S---DTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES-VAR-MMGSTN  250 (876)
Q Consensus       190 s---~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~~-~~~~~~  250 (876)
                      .   .......+ +++++.              +|++..-+.+..+.+...+.....+..+|++|.+.+ +.. ..+...
T Consensus        82 ~~~~~~~~i~~i-r~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~  160 (334)
T 1a5t_A           82 EKGKNTLGVDAV-REVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCR  160 (334)
T ss_dssp             CTTCSSBCHHHH-HHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             cccCCCCCHHHH-HHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcce
Confidence            2   23333332 333332              788766554556667777776666778777776643 222 223456


Q ss_pred             eEeCCCCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHHHHhh
Q 042981          251 IIFIEQLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAAKATG  296 (876)
Q Consensus       251 ~~~l~~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai~~~~  296 (876)
                      .+++.+++.++.  +.....   .--.+....+++.++|-|..+..+.
T Consensus       161 ~~~~~~~~~~~~~~~L~~~~---~~~~~~~~~l~~~s~G~~r~a~~~l  205 (334)
T 1a5t_A          161 LHYLAPPPEQYAVTWLSREV---TMSQDALLAALRLSAGSPGAALALF  205 (334)
T ss_dssp             EEECCCCCHHHHHHHHHHHC---CCCHHHHHHHHHHTTTCHHHHHHTT
T ss_pred             eeeCCCCCHHHHHHHHHHhc---CCCHHHHHHHHHHcCCCHHHHHHHh
Confidence            899999998886  111111   1113445778899999997765554

>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=96.93  E-value=0.00099  Score=71.44  Aligned_cols=166  Identities=13%  Similarity=0.081  Sum_probs=89.3

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC---ccccc-cCC-----------------
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN---DEVKR-NFE-----------------  182 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~---~~~~~-~F~-----------------  182 (876)
                      .+++|.+..++.+..++....     ....+.|+|..|+||||+|+.+.+.   +.... .++                 
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~-----~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~   88 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPR-----DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   88 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT-----CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             HHhcCCHHHHHHHHHHHhhCC-----CCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeee
Confidence            458999988888887772221     2222899999999999999988762   11000 000                 


Q ss_pred             ---eEEEEEeCCc--h---hHHHHHHHHHH---------------h-----ccccccCCccChhhHHhhhccCCCCCEEE
Q 042981          183 ---KVIWVCVSDT--F---EEIRVANAIIE---------------G-----LDDVWDGDYNKWEPFFHCLKHGLHGSKIL  234 (876)
Q Consensus       183 ---~~~wv~vs~~--~---~~~~~~~~i~~---------------~-----lDdvw~~~~~~~~~l~~~l~~~~~gs~ii  234 (876)
                         ..+.+..+..  .   ..++..+.+..               .     +|++..-+....+.+...+.....+..+|
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~~~~I  168 (354)
T 1sxj_E           89 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLI  168 (354)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEE
T ss_pred             cccceEEecHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCCCEEE
Confidence               1122222211  1   13333333321               1     67776554445566666666555577888


Q ss_pred             EEcCch-HHHH-hhCCcceEeCCCCCcccc--ccCCCc--CCccch-HHHHHHHHHHcCCCchHHHH
Q 042981          235 LTTRNE-SVAR-MMGSTNIIFIEQLTEEES--FSGRSF--EDCEKL-EPIGRKIARKCKGLPLAAKA  294 (876)
Q Consensus       235 vTTR~~-~v~~-~~~~~~~~~l~~L~~~~~--~f~~~~--~~~~~l-~~~~~~i~~~c~GlPlai~~  294 (876)
                      +||.+. .+.. .......+++.+++.++.  +.....  ....-- .+....|++.++|-+-.+..
T Consensus       169 l~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~i~~~~~G~~r~a~~  235 (354)
T 1sxj_E          169 MVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLL  235 (354)
T ss_dssp             EEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHHHHH
T ss_pred             EEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCCHHHHHH
Confidence            887653 2221 122346889999998776  111000  000001 24456677777776654433

>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=96.92  E-value=0.0016  Score=68.83  Aligned_cols=107  Identities=24%  Similarity=0.254  Sum_probs=57.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHH-----------HHh-----ccccccCCc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAI-----------IEG-----LDDVWDGDY  214 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i-----------~~~-----lDdvw~~~~  214 (876)
                      ...+.|+|..|+||||||+.+++.  ....-...+++..++-.  ..+...+           +..     +||+..-..
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~--~~~~~~~~~~i~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~vL~iDEi~~l~~  112 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNE--AKKRGYRVIYSSADDFA--QAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFLSG  112 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHH--HHHTTCCEEEEEHHHHH--HHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGGTT
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH--HHHCCCEEEEEEHHHHH--HHHHHHHHcCcHHHHHHHhcCCCEEEEcCcccccC
Confidence            456889999999999999999973  32211134455543321  1111111           111     788854322


Q ss_pred             --cChhhHHhhhcc-CCCCCEEEEEcCch---------HHHHhhCCcceEeCCCCCcccc
Q 042981          215 --NKWEPFFHCLKH-GLHGSKILLTTRNE---------SVARMMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       215 --~~~~~l~~~l~~-~~~gs~iivTTR~~---------~v~~~~~~~~~~~l~~L~~~~~  262 (876)
                        ...+.+...+.. ...|..||+||...         .+...+.....+++++ +.++.
T Consensus       113 ~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~e~  171 (324)
T 1l8q_A          113 KERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNKTR  171 (324)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHHHH
T ss_pred             ChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHHHH
Confidence              112334444322 12366788887632         2333333345788888 76665

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.91  E-value=0.016  Score=62.45  Aligned_cols=109  Identities=14%  Similarity=0.106  Sum_probs=55.7

Q ss_pred             CCCCccEEEEeecCCCCC-CchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCCceEeCcccccCCCCCCCC
Q 042981          685 PPLNVKELGIVSYGGNIF-PKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDD  762 (876)
Q Consensus       685 ~~~~L~~L~l~~~~~~~l-p~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~  762 (876)
                      .+.+|+.+.+.... ..+ ...+..+.+|+.+.+..+-..-.-..+...+ |+.+.+.++. ++.++..           
T Consensus       238 ~~~~L~~i~lp~~v-~~I~~~aF~~~~~l~~i~l~~~i~~i~~~aF~~c~~L~~i~l~~~~-i~~I~~~-----------  304 (379)
T 4h09_A          238 GMKALDEIAIPKNV-TSIGSFLLQNCTALKTLNFYAKVKTVPYLLCSGCSNLTKVVMDNSA-IETLEPR-----------  304 (379)
T ss_dssp             TCSSCCEEEECTTC-CEECTTTTTTCTTCCEEEECCCCSEECTTTTTTCTTCCEEEECCTT-CCEECTT-----------
T ss_pred             CCccceEEEcCCCc-cEeCccccceeehhccccccccceeccccccccccccccccccccc-cceehhh-----------
Confidence            34455555553321 222 2234466777777775432110112245556 7777765433 2333221           


Q ss_pred             CCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCC
Q 042981          763 PSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLP  823 (876)
Q Consensus       763 ~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp  823 (876)
                              .+..+.+|+.+.|..  +++.+.     ...+..+++|+.+.|..+  ++.+.
T Consensus       305 --------aF~~c~~L~~i~lp~--~l~~I~-----~~aF~~C~~L~~i~ip~~--v~~I~  348 (379)
T 4h09_A          305 --------VFMDCVKLSSVTLPT--ALKTIQ-----VYAFKNCKALSTISYPKS--ITLIE  348 (379)
T ss_dssp             --------TTTTCTTCCEEECCT--TCCEEC-----TTTTTTCTTCCCCCCCTT--CCEEC
T ss_pred             --------hhcCCCCCCEEEcCc--cccEEH-----HHHhhCCCCCCEEEECCc--cCEEc
Confidence                    234578888887743  233322     245667888888887543  44443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.84  E-value=0.003  Score=68.03  Aligned_cols=47  Identities=17%  Similarity=0.202  Sum_probs=34.7

Q ss_pred             CceeeccchHHHH---HHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNEL---LSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i---~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ++++|++..++.+   .+.+....    ...+.+-|+|.+|+|||++|+++.+.
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~----~~~~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGK----IAGRAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTC----CTTCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCC----CCCCEEEEECCCCCCHHHHHHHHHHH
Confidence            4699999887664   44444322    12357889999999999999999873

>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=96.83  E-value=0.003  Score=64.52  Aligned_cols=47  Identities=17%  Similarity=0.171  Sum_probs=33.8

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..++|.+..+.++.+.+.....    ....|-|+|..|+|||++|+.+++.
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~----~~~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAP----LDKPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTT----SCSCEEEECCTTSCHHHHHHHHHHT
T ss_pred             ccceeCCHHHHHHHHHHHHHhC----CCCCEEEECCCCCcHHHHHHHHHHh
Confidence            3588999999988877764322    1244679999999999999999973

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.76  E-value=0.00055  Score=62.85  Aligned_cols=81  Identities=16%  Similarity=0.104  Sum_probs=44.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHHh-----ccccccCCccChhhHHhhhcc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEG-----LDDVWDGDYNKWEPFFHCLKH  226 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~-----lDdvw~~~~~~~~~l~~~l~~  226 (876)
                      .+++|+|..|+|||||++.+++.... ..+ .++++...+-...     .++..     |||+-..+...-+.+...+..
T Consensus        37 ~~~~l~G~~G~GKTtL~~~i~~~~~~-~g~-~~~~~~~~~~~~~-----~~~~~~~lLilDE~~~~~~~~~~~l~~li~~  109 (149)
T 2kjq_A           37 QFIYVWGEEGAGKSHLLQAWVAQALE-AGK-NAAYIDAASMPLT-----DAAFEAEYLAVDQVEKLGNEEQALLFSIFNR  109 (149)
T ss_dssp             SEEEEESSSTTTTCHHHHHHHHHHHT-TTC-CEEEEETTTSCCC-----GGGGGCSEEEEESTTCCCSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHh-cCC-cEEEEcHHHhhHH-----HHHhCCCEEEEeCccccChHHHHHHHHHHHH
Confidence            57899999999999999999973221 111 2566655443221     11222     788754332222223333322


Q ss_pred             -CCCCC-EEEEEcCc
Q 042981          227 -GLHGS-KILLTTRN  239 (876)
Q Consensus       227 -~~~gs-~iivTTR~  239 (876)
                       ...|. +||+||+.
T Consensus       110 ~~~~g~~~iiits~~  124 (149)
T 2kjq_A          110 FRNSGKGFLLLGSEY  124 (149)
T ss_dssp             HHHHTCCEEEEEESS
T ss_pred             HHHcCCcEEEEECCC
Confidence             11233 48888874

>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=96.63  E-value=0.0035  Score=65.09  Aligned_cols=127  Identities=13%  Similarity=-0.007  Sum_probs=78.4

Q ss_pred             eccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCc-cccccCCeEEEEEeCC-chhHHHHHHHHHHh
Q 042981          128 GRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNND-EVKRNFEKVIWVCVSD-TFEEIRVANAIIEG  205 (876)
Q Consensus       128 Gr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~-~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~  205 (876)
                      |-++.++.+...+...      +.+..-++|..|+||||+|+.+.+.. ..+..+....++..+. ...+..+ +++++.
T Consensus         1 g~~~~~~~L~~~i~~~------~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~i-r~li~~   73 (305)
T 2gno_A            1 GAKDQLETLKRIIEKS------EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDI-RTIKDF   73 (305)
T ss_dssp             ---CHHHHHHHHHHTC------SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHH-HHHHHH
T ss_pred             ChHHHHHHHHHHHHCC------CCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHH-HHHHHH
Confidence            3455566666666532      35788899999999999999997631 1111223345555543 3433322 333332


Q ss_pred             --------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHhhCCcceEeCCCCCcccc
Q 042981          206 --------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARMMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       206 --------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~~~~~~~~~l~~L~~~~~  262 (876)
                                    +|++..-+.+..+.++..+......+.+|++|.+. .+...+... .++++++++++.
T Consensus        74 ~~~~p~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~~l~~~~i  144 (305)
T 2gno_A           74 LNYSPELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVVNVPKEF  144 (305)
T ss_dssp             HTSCCSSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEECCCCHHH
T ss_pred             HhhccccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeCCCCCHHHH
Confidence                          78887665566777888887777788888877554 343333334 888888887665

>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=96.47  E-value=0.0036  Score=66.52  Aligned_cols=158  Identities=11%  Similarity=0.046  Sum_probs=86.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc-cCC-eEEEEEeCCchhHHH---H
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR-NFE-KVIWVCVSDTFEEIR---V  198 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~F~-~~~wv~vs~~~~~~~---~  198 (876)
                      .+++|.+..++.+...+...      .+..+.++|..|+||||+|+.+.+.  +.. .+. ...-+..++......   .
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g------~~~~~ll~Gp~G~GKTtla~~la~~--l~~~~~~~~~~~~~~~~~~~~~~ir~~   96 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEG------KLPHLLFYGPPGTGKTSTIVALARE--IYGKNYSNMVLELNASDDRGIDVVRNQ   96 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT------CCCCEEEECSSSSSHHHHHHHHHHH--HHTTSHHHHEEEECTTSCCSHHHHHTH
T ss_pred             HHhcCcHHHHHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHH--HcCCCccceEEEEcCcccccHHHHHHH
Confidence            35788888888877777643      2333889999999999999998873  211 111 122233333222222   2


Q ss_pred             HHHHHHh------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH-HHH-hhCCcceEeCCCCCcccc--
Q 042981          199 ANAIIEG------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES-VAR-MMGSTNIIFIEQLTEEES--  262 (876)
Q Consensus       199 ~~~i~~~------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~~-~~~~~~~~~l~~L~~~~~--  262 (876)
                      .+.+.+.            +|++..-.....+.+...+.......++|++|.... +.. ..+....+++.+++.++.  
T Consensus        97 i~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~~~~~l~~~~~~~  176 (340)
T 1sxj_C           97 IKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIER  176 (340)
T ss_dssp             HHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             HHHHHhhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeEeccCCCHHHHHH
Confidence            2233321            566644333445556666655555667777765432 111 112234788888887765  


Q ss_pred             ----ccCCCcCCccchHHHHHHHHHHcCCCchH
Q 042981          263 ----FSGRSFEDCEKLEPIGRKIARKCKGLPLA  291 (876)
Q Consensus       263 ----~f~~~~~~~~~l~~~~~~i~~~c~GlPla  291 (876)
                          ......  ..--.+..+.+++.++|-+--
T Consensus       177 ~l~~~~~~~~--~~i~~~~~~~i~~~s~G~~r~  207 (340)
T 1sxj_C          177 RIANVLVHEK--LKLSPNAEKALIELSNGDMRR  207 (340)
T ss_dssp             HHHHHHHTTT--CCBCHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHH
Confidence                111110  011134556677777776653

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=96.26  E-value=0.0049  Score=64.14  Aligned_cols=46  Identities=17%  Similarity=0.250  Sum_probs=36.3

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.++|+...++++.+.+.....    ....|-|+|..|+|||++|+.+++
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~----~~~~vLi~Ge~GtGKt~lAr~i~~   47 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAP----SDATVLIHGDSGTGKELVARALHA   47 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCS----TTSCEEEESCTTSCHHHHHHHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHHhC----CCCcEEEECCCCchHHHHHHHHHH
Confidence            3589999999999888865432    223466999999999999999987

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.25  E-value=0.005  Score=64.47  Aligned_cols=49  Identities=18%  Similarity=0.293  Sum_probs=36.8

Q ss_pred             ceeeccchHHHHHHHhhccCC---cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          125 EVCGRVDEKNELLSKLLFESS---EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|.+..++.+...+.....   ........+.|+|..|+||||+|+.+++
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~   69 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAA   69 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHH
Confidence            478888888888887765310   0012246889999999999999999987

>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=96.18  E-value=0.015  Score=60.71  Aligned_cols=50  Identities=22%  Similarity=0.301  Sum_probs=36.5

Q ss_pred             CceeeccchHHHHHHHhhcc--CCc------CCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE--SSE------QQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~--~~~------~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.+..++.+...+...  ...      ......-+-|+|..|+|||++|+.+.+
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            46899999999988877541  000      001234577999999999999999987

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.13  E-value=0.0086  Score=71.12  Aligned_cols=113  Identities=16%  Similarity=0.274  Sum_probs=66.9

Q ss_pred             CceeeccchHHHHHHHhhccCCc---CCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchh-----H
Q 042981          124 GEVCGRVDEKNELLSKLLFESSE---QQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFE-----E  195 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~---~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~-----~  195 (876)
                      ..++|.+..++.+...+......   .......+-++|..|+|||++|+++++.  ....-...+.+..+.-.+     .
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~--l~~~~~~~i~i~~s~~~~~~~~~~  568 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAES--IFGDEESMIRIDMSEYMEKHSTSG  568 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHH--HHSCTTCEEEEEGGGGCSSCCCC-
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH--hcCCCcceEEEechhccccccccc
Confidence            46899999998888888653211   0122347899999999999999999873  222122334444443221     1


Q ss_pred             HHHHHHHHHh------ccccccCCccChhhHHhhhccC-----------CCCCEEEEEcC
Q 042981          196 IRVANAIIEG------LDDVWDGDYNKWEPFFHCLKHG-----------LHGSKILLTTR  238 (876)
Q Consensus       196 ~~~~~~i~~~------lDdvw~~~~~~~~~l~~~l~~~-----------~~gs~iivTTR  238 (876)
                      ..+...+-..      ||++..-..+....+...+..+           ....+||+||.
T Consensus       569 ~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn  628 (758)
T 3pxi_A          569 GQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSN  628 (758)
T ss_dssp             --CHHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEES
T ss_pred             chhhHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCC
Confidence            1222222222      7888665555555666665542           13468888887

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=95.97  E-value=0.011  Score=71.15  Aligned_cols=44  Identities=27%  Similarity=0.348  Sum_probs=36.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.++||+++++++++.|....      ..-+.++|.+|+||||+|+.+++
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            458999999999999986532      23467999999999999999987

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=95.92  E-value=0.0091  Score=62.79  Aligned_cols=50  Identities=26%  Similarity=0.315  Sum_probs=37.5

Q ss_pred             CceeeccchHHHHHHHhhcc---C---CcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE---S---SEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~---~---~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.++.++.+.+.+...   .   .......+-|-|+|.+|+|||+||+++++
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~   73 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVAT   73 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            57999999999998877311   0   00012345688999999999999999997

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.78  E-value=0.029  Score=60.79  Aligned_cols=50  Identities=24%  Similarity=0.222  Sum_probs=36.7

Q ss_pred             CceeeccchHHHHHHHhhcc---CC----cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE---SS----EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~---~~----~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++.|.++.+++|.+.+...   ..    -+-...+-|-++|++|.|||+||++|++
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~  237 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAA  237 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            46788988888887766431   00    0122457788999999999999999998

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.71  E-value=0.0086  Score=62.34  Aligned_cols=38  Identities=18%  Similarity=0.164  Sum_probs=27.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccc-ccCCeEEEEEeC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVK-RNFEKVIWVCVS  190 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~F~~~~wv~vs  190 (876)
                      .+.+.|+|..|+|||+||+++++  ... ..-..+.+++++
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~--~~~~~~g~~v~~~~~~  190 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAH--ELSEKKGVSTTLLHFP  190 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH--HHHHHSCCCEEEEEHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH--HHHHhcCCcEEEEEHH
Confidence            46788999999999999999998  333 322345556544

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.66  E-value=0.023  Score=60.56  Aligned_cols=50  Identities=22%  Similarity=0.176  Sum_probs=36.6

Q ss_pred             CceeeccchHHHHHHHhhccC--C-----cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFES--S-----EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~--~-----~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +++.|.++.+++|.+.+.-+-  +     -+-...+-|-++|++|.|||.||++|++
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~  204 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAH  204 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHH
Confidence            468899988888877664310  0     0122346678999999999999999998

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=95.52  E-value=0.0073  Score=67.07  Aligned_cols=44  Identities=27%  Similarity=0.323  Sum_probs=36.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.++|++.+++.++..|....      ..-+-|+|.+|+|||++|+.+++
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            359999999999999987532      23356999999999999999987

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.51  E-value=0.029  Score=60.70  Aligned_cols=50  Identities=22%  Similarity=0.271  Sum_probs=37.2

Q ss_pred             CceeeccchHHHHHHHhhcc---CC----cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE---SS----EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~---~~----~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++.|.++.+++|.+.+...   ..    -+-...+-|-++|++|.|||.||+++++
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~  237 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAA  237 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHH
Confidence            46889999888888765321   00    0123456788999999999999999998

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.36  E-value=0.014  Score=56.44  Aligned_cols=42  Identities=31%  Similarity=0.294  Sum_probs=32.1

Q ss_pred             ccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          129 RVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       129 r~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      |++.++++.+.+....   .....+|+|+|..|+||||+++.+..
T Consensus         3 ~~~~~~~l~~~~~~~~---~~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIK---TAGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             HHHHHHHHHHHHHTSC---CSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhc---cCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4456677777776532   23558999999999999999999875

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=95.06  E-value=0.012  Score=61.17  Aligned_cols=50  Identities=26%  Similarity=0.246  Sum_probs=37.3

Q ss_pred             CceeeccchHHHHHHHhhccC--C-----cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFES--S-----EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~--~-----~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.++.++++.+.+...-  .     -+-...+.|.|+|..|+||||||+++++
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~   71 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN   71 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHH
Confidence            469999998888888765310  0     0012346789999999999999999997

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=94.95  E-value=0.017  Score=59.92  Aligned_cols=50  Identities=24%  Similarity=0.276  Sum_probs=37.5

Q ss_pred             CceeeccchHHHHHHHhhccCC------cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESS------EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~------~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.+..++.+.+.+.....      .-....+.+.|+|..|+||||+|+++++
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHH
Confidence            4699999999999887743100      0011346788999999999999999987

>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=94.87  E-value=0.015  Score=62.14  Aligned_cols=50  Identities=18%  Similarity=0.210  Sum_probs=37.7

Q ss_pred             CceeeccchHHHHHHHhhcc---CC---cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE---SS---EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~---~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.+..++.+.+.+...   ..   ......+.|.|+|..|+|||+||+++++
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~  139 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIAS  139 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            46899999999998877531   00   0012346788999999999999999987

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.76  E-value=0.036  Score=49.17  Aligned_cols=48  Identities=17%  Similarity=0.130  Sum_probs=30.5

Q ss_pred             CCCccc--ccccccccCcccCeeeccCccccccchh-hccCCcccEEeecCCC
Q 042981          513 YPNLIR--EIPENVRKLIHLKYLNLSELCIERLPKT-LCELYNLQKLDIRWCE  562 (876)
Q Consensus       513 ~~~~i~--~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L~~~~  562 (876)
                      +++.++  .+|..+.  .+|++|+|++|.|+.+|.. +..+++|++|+|.+|.
T Consensus        16 s~~~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           16 GRRGLTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             CSSCCCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             CCCCCccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCCC
Confidence            555555  6665442  3577777777777777653 5566777777777664

>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=94.70  E-value=0.027  Score=67.64  Aligned_cols=49  Identities=18%  Similarity=0.293  Sum_probs=37.0

Q ss_pred             ceeeccchHHHHHHHhhccCC---cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          125 EVCGRVDEKNELLSKLLFESS---EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|.+..++.+...+.....   ..+.....+.|+|..|+|||++|+.+++
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~  610 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAA  610 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            579999988888887764321   0022345788999999999999999986

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.64  E-value=0.025  Score=58.96  Aligned_cols=45  Identities=22%  Similarity=0.201  Sum_probs=32.6

Q ss_pred             eeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          127 CGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       127 vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      |+.+.-++++++.+...-.  .+....|.|+|+.|+||||+++.++.
T Consensus         2 ~~~~~L~~~il~~l~~~i~--~g~~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIE--DNYRVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTT--TCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhc--cCCeeEEEEECCCCCcHHHHHHHHHH
Confidence            4455566777776653322  23456789999999999999998876

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=94.51  E-value=0.025  Score=55.10  Aligned_cols=37  Identities=30%  Similarity=0.377  Sum_probs=27.2

Q ss_pred             HHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          133 KNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       133 ~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|.+.+...    .+.-.+|+|+|..|.|||||++.+..
T Consensus         8 ~~~~~~~~~~~----~~~g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A            8 CQGVLERLDPR----QPGRQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             HHHHHHHSCTT----CCSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             HHHHHHHHHhc----CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34455554432    12457999999999999999999876

>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=94.51  E-value=0.017  Score=54.42  Aligned_cols=20  Identities=40%  Similarity=0.694  Sum_probs=18.8

Q ss_pred             EEEEEEecCCchHHHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQLA  171 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v  171 (876)
                      .+|.|+|+.|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47899999999999999999

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=94.48  E-value=0.014  Score=61.78  Aligned_cols=49  Identities=31%  Similarity=0.351  Sum_probs=34.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.+..++.+-..+...... +.....+.|+|..|+||||||+.+.+
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~-~~~~~~~ll~Gp~G~GKTTLa~~ia~   73 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMR-GEVLDHVLLAGPPGLGKTTLAHIIAS   73 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHH-TCCCCCEEEESSTTSSHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHhc-CCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            35788776666665555432100 12346789999999999999999997

>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=94.40  E-value=0.022  Score=54.56  Aligned_cols=24  Identities=33%  Similarity=0.401  Sum_probs=21.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -.+++|+|+.|+|||||++.+...
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            368999999999999999999873

>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=94.33  E-value=0.032  Score=53.14  Aligned_cols=115  Identities=11%  Similarity=0.067  Sum_probs=58.8

Q ss_pred             cCCCcceEEeeecCCCCCCCCch---hhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCcc
Q 042981          463 HGLNRLRTLLIYFQSPSNPSLNS---SILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELC  539 (876)
Q Consensus       463 ~~~~~Lr~L~l~~~~~~~~~~~~---~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~  539 (876)
                      .+-+.|+.|++.++.    .+..   ..+...+..-..|+.|+|++|.+.    +.....+.+.+..-..|++|+|++|.
T Consensus        38 ~~n~~L~~L~L~~nn----~igd~ga~~la~aL~~N~~L~~L~L~~n~ig----d~ga~alA~aL~~N~tL~~L~L~~N~  109 (197)
T 1pgv_A           38 EDDTDLKEVNINNMK----RVSKERIRSLIEAACNSKHIEKFSLANTAIS----DSEARGLIELIETSPSLRVLNVESNF  109 (197)
T ss_dssp             TTCSSCCEEECTTCC----SSCHHHHHHHHHHHTTCSCCCEEECTTSCCB----HHHHTTHHHHHHHCSSCCEEECCSSB
T ss_pred             hcCCCccEEECCCCC----CCCHHHHHHHHHHHhhCCCcCEEEccCCCCC----hHHHHHHHHHHhcCCccCeEecCCCc
Confidence            345567777775431    1111   123344556667777777333321    00111233444445667777777777


Q ss_pred             cc-----ccchhhccCCcccEEeecCCCC--Cc-----cccccccCcCCCceEecCCC
Q 042981          540 IE-----RLPKTLCELYNLQKLDIRWCED--LR-----ELPAGIGKLKKMRSLLNGGT  585 (876)
Q Consensus       540 i~-----~lp~~i~~L~~L~~L~L~~~~~--l~-----~lp~~i~~L~~L~~L~l~~~  585 (876)
                      |.     .+-+.+..-+.|++|+|++|..  ++     .+-..+..-+.|+.|+++.+
T Consensus       110 Ig~~Ga~ala~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~N~tL~~L~l~~~  167 (197)
T 1pgv_A          110 LTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  167 (197)
T ss_dssp             CCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             CCHHHHHHHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCC
Confidence            66     3344455556677777765421  11     12233444466777776655

>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=94.30  E-value=0.019  Score=53.82  Aligned_cols=22  Identities=27%  Similarity=0.137  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|+.|+||||+|+.+..
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            4789999999999999999986

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=94.24  E-value=0.024  Score=67.30  Aligned_cols=44  Identities=27%  Similarity=0.323  Sum_probs=36.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.++|+++++++++..|....      ..-+-++|.+|+||||+|+.+.+
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            469999999999999987532      22367999999999999999987

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=94.24  E-value=0.038  Score=57.88  Aligned_cols=51  Identities=24%  Similarity=0.289  Sum_probs=37.1

Q ss_pred             CCceeeccchHHHHHHHhhcc---CC---cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          123 EGEVCGRVDEKNELLSKLLFE---SS---EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~---~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+++|.++.++.+.+.+...   ..   ......+-|-++|++|+|||+||+++++
T Consensus        11 ~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~   67 (322)
T 1xwi_A           11 WSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVAT   67 (322)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHH
Confidence            357899998888888766321   00   0012346788999999999999999997

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=94.21  E-value=0.021  Score=55.14  Aligned_cols=23  Identities=39%  Similarity=0.413  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|.|+|+.|+||||+|+.+..
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            46899999999999999999986

>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=94.20  E-value=0.021  Score=54.00  Aligned_cols=22  Identities=23%  Similarity=0.298  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|+.|+||||+|+.+..
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            5789999999999999999986

>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=94.16  E-value=0.031  Score=57.39  Aligned_cols=25  Identities=32%  Similarity=0.321  Sum_probs=22.4

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ....+|+|+|..|+||||||+.+..
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999998876

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=94.14  E-value=0.027  Score=57.00  Aligned_cols=50  Identities=28%  Similarity=0.290  Sum_probs=33.9

Q ss_pred             CceeeccchHHHHHHHhhc---cCC---cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLF---ESS---EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~---~~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.+..++++.+.+..   ...   -+....+-+.|+|..|+||||||+++++
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~   67 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG   67 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHH
Confidence            5689998877777654421   100   0001234478999999999999999987

>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=53.35  Aligned_cols=22  Identities=32%  Similarity=0.410  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|++|+||||+|+.+..
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

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=93.99  E-value=0.031  Score=58.91  Aligned_cols=42  Identities=26%  Similarity=0.192  Sum_probs=34.7

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|+++.++.+...+...        .-+-++|.+|+|||+||+.+.+
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--------~~vll~G~pGtGKT~la~~la~   68 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--------GHILLEGVPGLAKTLSVNTLAK   68 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--------CCEEEESCCCHHHHHHHHHHHH
T ss_pred             cceeCcHHHHHHHHHHHHcC--------CeEEEECCCCCcHHHHHHHHHH
Confidence            35889998888888877643        2477999999999999999987

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=93.96  E-value=0.026  Score=53.47  Aligned_cols=22  Identities=18%  Similarity=0.449  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++++|+|+.|+|||||++.+..
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~   27 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLIT   27 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            6899999999999999999976

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=93.92  E-value=0.024  Score=57.79  Aligned_cols=50  Identities=28%  Similarity=0.309  Sum_probs=34.8

Q ss_pred             CceeeccchHHHHHHHhhccCCc------CCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSE------QQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.+..++.+.+.+..-...      +....+-+.|+|..|+|||+||+++++
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~   66 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAG   66 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHH
Confidence            56999998888887765420000      001123367999999999999999997

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=93.88  E-value=0.03  Score=60.52  Aligned_cols=50  Identities=24%  Similarity=0.264  Sum_probs=37.5

Q ss_pred             CceeeccchHHHHHHHhhccCC------cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESS------EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~------~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.+..++.+.+.+.....      ......+-|-|+|..|+|||+||+++++
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~  170 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAA  170 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999988732100      0011245788999999999999999987

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=93.84  E-value=0.022  Score=53.50  Aligned_cols=22  Identities=36%  Similarity=0.425  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|+|+|+.|+||||+++.+..
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            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=93.81  E-value=0.037  Score=65.72  Aligned_cols=44  Identities=27%  Similarity=0.252  Sum_probs=36.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.++||+.+++++++.|....      ..-+.|+|.+|+||||+|+.+.+
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            468999999999999987532      23457999999999999999987

>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=93.80  E-value=0.04  Score=58.64  Aligned_cols=50  Identities=26%  Similarity=0.315  Sum_probs=36.8

Q ss_pred             CceeeccchHHHHHHHhhcc---C---CcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE---S---SEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~---~---~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.+..++.+.+.+...   .   .......+-|-|+|..|+|||+||+++++
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~  106 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVAT  106 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHH
Confidence            46999999999998877321   0   00011234578999999999999999998

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=93.78  E-value=0.028  Score=53.51  Aligned_cols=23  Identities=39%  Similarity=0.520  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+.|.|+|+.|+||||+|+.+..
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            35788999999999999999986

>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=93.76  E-value=0.037  Score=53.42  Aligned_cols=24  Identities=42%  Similarity=0.418  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-.+|.|+|+.|.||||+|+.+..
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999986

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=93.70  E-value=0.087  Score=46.62  Aligned_cols=54  Identities=19%  Similarity=0.304  Sum_probs=43.8

Q ss_pred             CeeeccCcccc--ccchhhccCCcccEEeecCCCCCccccc-cccCcCCCceEecCCCCC
Q 042981          531 KYLNLSELCIE--RLPKTLCELYNLQKLDIRWCEDLRELPA-GIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       531 r~L~Ls~~~i~--~lp~~i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~L~l~~~~~  587 (876)
                      ..++.+++.++  .+|..+  -.+|++|+|++| .+..+|. .|..+++|+.|+|.+|..
T Consensus        11 ~~v~Cs~~~L~~~~vP~~l--p~~l~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAF--PVDTTELVLTGN-NLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCC--CTTCSEEECTTS-CCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             CEEEeCCCCCccccCCCCC--CcCCCEEECCCC-cCCccChhhhhhccccCEEEecCCCe
Confidence            47889999998  999754  357999999999 5666665 467899999999999854

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=93.68  E-value=0.051  Score=56.37  Aligned_cols=45  Identities=16%  Similarity=0.145  Sum_probs=30.9

Q ss_pred             eeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          127 CGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       127 vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|-......+...+.....  .....+|+|.|..|+||||+|+.+..
T Consensus        70 ~~~~~~l~~~~~~~l~~~~--~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           70 VTARQTLQQATYQFLGKPE--PKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             HHHHHHHHHHHHHHHTCCC--CCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             hcchHHHHHHHHHHhccCC--CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3433444445544444322  34678999999999999999998875

>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=93.67  E-value=0.035  Score=57.68  Aligned_cols=23  Identities=35%  Similarity=0.582  Sum_probs=19.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~  172 (876)
                      +.+||+|.|-|||||||.|-.+.
T Consensus        47 ~aKVIAIaGKGGVGKTTtavNLA   69 (314)
T 3fwy_A           47 GAKVFAVYGKGGIGKSTTSSNLS   69 (314)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CceEEEEECCCccCHHHHHHHHH
Confidence            67999999999999999776554

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=93.65  E-value=0.03  Score=52.30  Aligned_cols=24  Identities=33%  Similarity=0.427  Sum_probs=20.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|+|.|+.|+||||+|+.+..
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            568999999999999999999986

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=93.60  E-value=0.036  Score=52.01  Aligned_cols=23  Identities=35%  Similarity=0.690  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+++|+|..|.|||||++..+.
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            36899999999999999998664

>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=93.58  E-value=0.04  Score=58.96  Aligned_cols=49  Identities=29%  Similarity=0.289  Sum_probs=35.3

Q ss_pred             ceeeccchHHHHHHHhhcc-------C--CcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          125 EVCGRVDEKNELLSKLLFE-------S--SEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~-------~--~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|.+..++.+...+...       .  .......+.|.++|.+|+|||++|+++++
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            4789888888888777310       0  00011345688999999999999999997

>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=93.58  E-value=0.037  Score=52.04  Aligned_cols=24  Identities=29%  Similarity=0.526  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-.+|+|+|+.|+||||+|+.+..
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            347899999999999999999875

>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=93.58  E-value=0.04  Score=53.24  Aligned_cols=25  Identities=36%  Similarity=0.422  Sum_probs=22.7

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+..+|+|+|+.|+||||+|+.+..
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            3568999999999999999999986

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=93.57  E-value=0.037  Score=53.00  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|+.|+||||+|+.+.+
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            5789999999999999999986

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=93.57  E-value=0.049  Score=50.53  Aligned_cols=24  Identities=33%  Similarity=0.375  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++++|+|..|+|||||+.++..
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            467999999999999999999886

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=93.56  E-value=0.053  Score=55.64  Aligned_cols=41  Identities=24%  Similarity=0.311  Sum_probs=28.5

Q ss_pred             hHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          132 EKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       132 ~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++++..++..... .....+|.|.|+.|+||||+|+.+..
T Consensus        15 ~~~~~~~~~l~~~~~-~~~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           15 RLNDNLEELIQGKKA-VESPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             HHHHHHHHHHTTCCC-CSSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             HHHHHHHHHhccccC-CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            344455544433221 33467899999999999999999975

>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=93.52  E-value=0.045  Score=53.15  Aligned_cols=24  Identities=33%  Similarity=0.427  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|+|+|+.|.||||+|+.+..
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            457999999999999999999886

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=93.51  E-value=0.048  Score=54.89  Aligned_cols=42  Identities=26%  Similarity=0.241  Sum_probs=29.8

Q ss_pred             chHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          131 DEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       131 ~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...++++..+...... .....+|.|+|++|+||||+|+.+..
T Consensus        13 ~~~~~~~~~~~~~~~~-~~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           13 HALARNLRSLTRGKKS-SKQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             HHHHHHHHHHHTTCCC-CSSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCCc-ccCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3445555555543321 34567899999999999999999976

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.49  E-value=0.05  Score=58.78  Aligned_cols=50  Identities=24%  Similarity=0.208  Sum_probs=37.1

Q ss_pred             CceeeccchHHHHHHHhhccC--C-----cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFES--S-----EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~--~-----~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++.|.++.+++|.+.+...-  .     -+-...+-|-++|++|.|||+||+++++
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            468899998888877664210  0     0122456688999999999999999998

>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=93.48  E-value=0.043  Score=52.51  Aligned_cols=24  Identities=33%  Similarity=0.322  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.|.|+.|+||||+|+.+..
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            347899999999999999999976

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=93.46  E-value=0.04  Score=61.13  Aligned_cols=42  Identities=19%  Similarity=0.140  Sum_probs=34.3

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++|.++.++.+...+...        .-|-|+|.+|+|||+||+++++.
T Consensus        23 ~ivGq~~~i~~l~~al~~~--------~~VLL~GpPGtGKT~LAraLa~~   64 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSG--------ESVFLLGPPGIAKSLIARRLKFA   64 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHT--------CEEEEECCSSSSHHHHHHHGGGG
T ss_pred             hhHHHHHHHHHHHHHHhcC--------CeeEeecCchHHHHHHHHHHHHH
Confidence            4788888888887777643        24779999999999999999973

>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=93.42  E-value=0.041  Score=52.54  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=20.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|+.|+|||||++.+..
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            5789999999999999999974

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=93.41  E-value=0.027  Score=54.49  Aligned_cols=23  Identities=22%  Similarity=0.424  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|.|.|+.|+||||+|+.+..
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            46899999999999999999876

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=93.37  E-value=0.046  Score=53.26  Aligned_cols=24  Identities=42%  Similarity=0.376  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|+|+|..|.|||||++.+..
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999876

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=93.37  E-value=0.077  Score=63.01  Aligned_cols=50  Identities=18%  Similarity=0.218  Sum_probs=36.9

Q ss_pred             CceeeccchHHHHHHHhhccCC---cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESS---EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.+..++.+...+.....   ..+.....+-++|..|+|||++|+.+.+
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            4588999888888877754211   0012345789999999999999999987

>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=93.37  E-value=0.05  Score=51.78  Aligned_cols=96  Identities=15%  Similarity=0.089  Sum_probs=60.5

Q ss_pred             hhhHHHhccCCcceEEecCcc-ccccCCCCCcccccccccccCcccCeeeccCcccc-----ccchhhccCCcccEEeec
Q 042981          486 SILSELFSKLACFRALVIGQR-NFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIE-----RLPKTLCELYNLQKLDIR  559 (876)
Q Consensus       486 ~~~~~~~~~l~~Lr~L~L~~~-~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~-----~lp~~i~~L~~L~~L~L~  559 (876)
                      ..+..++..-+.|+.|+|+++ .+    .......+-+.+..-..|+.|+|++|.|.     .+.+.+..-+.|++|+|+
T Consensus        31 ~~l~~ll~~n~~L~~L~L~~nn~i----gd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~  106 (197)
T 1pgv_A           31 SCINRLREDDTDLKEVNINNMKRV----SKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVE  106 (197)
T ss_dssp             HHHHHHHTTCSSCCEEECTTCCSS----CHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECC
T ss_pred             HHHHHHHhcCCCccEEECCCCCCC----CHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecC
Confidence            345556677888999999432 22    11112234455666678999999999877     445556667788888888


Q ss_pred             CCCCCcc----ccccccCcCCCceEecCCC
Q 042981          560 WCEDLRE----LPAGIGKLKKMRSLLNGGT  585 (876)
Q Consensus       560 ~~~~l~~----lp~~i~~L~~L~~L~l~~~  585 (876)
                      +|.....    +-..+..-+.|++|+|++|
T Consensus       107 ~N~Ig~~Ga~ala~aL~~N~tL~~L~L~n~  136 (197)
T 1pgv_A          107 SNFLTPELLARLLRSTLVTQSIVEFKADNQ  136 (197)
T ss_dssp             SSBCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             CCcCCHHHHHHHHHHHhhCCceeEEECCCC
Confidence            8843321    2233444556888887754

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=93.37  E-value=0.039  Score=53.27  Aligned_cols=24  Identities=29%  Similarity=0.447  Sum_probs=21.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-.+|+|+|+.|+|||||++.+..
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            347899999999999999999986

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=93.36  E-value=0.058  Score=55.66  Aligned_cols=24  Identities=21%  Similarity=0.347  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+.+.++|++|+|||+||+++++
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            456788999999999999999998

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=93.28  E-value=0.039  Score=53.48  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|+.|+|||||++.+..
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            5899999999999999999976

>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=93.25  E-value=0.05  Score=60.14  Aligned_cols=49  Identities=20%  Similarity=0.213  Sum_probs=34.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.++.++.+..++..-... ....+-+-++|++|+|||++|+++.+
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~-~~~~~~iLl~GppGtGKT~la~ala~   85 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSK-KMAGRAVLLAGPPGTGKTALALAIAQ   85 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTT-CCTTCEEEEECCTTSSHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhC-CCCCCeEEEECCCcCCHHHHHHHHHH
Confidence            57999998877655443221110 11235578999999999999999998

>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=93.23  E-value=0.042  Score=53.22  Aligned_cols=22  Identities=41%  Similarity=0.487  Sum_probs=20.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|+|+|+.|+||||+++.+..
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            4799999999999999999875

>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=93.23  E-value=0.044  Score=55.17  Aligned_cols=24  Identities=17%  Similarity=0.218  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|+|.|+.|+||||+|+.+..
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            567999999999999999999876

>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=93.22  E-value=0.034  Score=52.58  Aligned_cols=23  Identities=43%  Similarity=0.494  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|.|+|+.|+||||+|+.+..
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            46788999999999999999986

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=93.21  E-value=0.044  Score=60.78  Aligned_cols=50  Identities=22%  Similarity=0.193  Sum_probs=37.2

Q ss_pred             CceeeccchHHHHHHHhhccCC-------cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESS-------EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.+..++++.+++.....       -+....+-|-|+|..|+|||++|+++++
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            4689999999999888753200       0011335588999999999999999987

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=93.18  E-value=0.043  Score=55.22  Aligned_cols=22  Identities=23%  Similarity=0.136  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|+|+.|+||||||+.+..
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            5789999999999999999976

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=93.17  E-value=0.05  Score=52.59  Aligned_cols=24  Identities=29%  Similarity=0.328  Sum_probs=22.0

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.|.|+.|+||||+|+.+.+
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            567999999999999999999986

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=93.15  E-value=0.041  Score=53.22  Aligned_cols=21  Identities=29%  Similarity=0.430  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|+|.|+.|+||||+|+.+.+
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            589999999999999999986

>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=93.15  E-value=0.04  Score=52.65  Aligned_cols=22  Identities=41%  Similarity=0.678  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|+.|+||||+|+.+..
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            5799999999999999999986

>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=93.10  E-value=0.071  Score=58.58  Aligned_cols=50  Identities=24%  Similarity=0.330  Sum_probs=37.3

Q ss_pred             CceeeccchHHHHHHHhhcc----C--CcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE----S--SEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~----~--~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.++.++.+.+.+...    .  .......+-|-|+|++|+|||+||+++++
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~  189 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVAT  189 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            56899999999888876321    0  00012346788999999999999999997

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=93.04  E-value=0.036  Score=52.20  Aligned_cols=22  Identities=36%  Similarity=0.526  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|+|+.|+||||+|+.+..
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            3689999999999999999986

>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=93.03  E-value=0.051  Score=52.73  Aligned_cols=22  Identities=41%  Similarity=0.516  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|+|+|+.|+||||+++.+..
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            5799999999999999999975

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=92.98  E-value=0.048  Score=51.80  Aligned_cols=24  Identities=29%  Similarity=0.344  Sum_probs=21.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.|+|+.|+||||+|+.+..
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~   32 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAA   32 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999886

>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=92.98  E-value=0.05  Score=51.30  Aligned_cols=22  Identities=36%  Similarity=0.475  Sum_probs=19.9

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++|+|..|+|||||++.+...
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            5899999999999999999863

>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=92.96  E-value=0.051  Score=52.80  Aligned_cols=24  Identities=29%  Similarity=0.450  Sum_probs=21.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-++|+|+|+.|+|||||++.+..
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~   30 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFK   30 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHh
Confidence            346899999999999999999986

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=92.93  E-value=0.051  Score=52.11  Aligned_cols=23  Identities=30%  Similarity=0.345  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|.|.|+.|+||||+|+.+.+
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            46899999999999999999976

>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=92.93  E-value=0.094  Score=51.27  Aligned_cols=43  Identities=28%  Similarity=0.166  Sum_probs=32.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRV  198 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~  198 (876)
                      -.++.|+|.+|+||||||..+..     ..=..++|++....++..++
T Consensus        20 G~~~~i~G~~GsGKTtl~~~l~~-----~~~~~v~~i~~~~~~~~~~~   62 (220)
T 2cvh_A           20 GVLTQVYGPYASGKTTLALQTGL-----LSGKKVAYVDTEGGFSPERL   62 (220)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHH-----HHCSEEEEEESSCCCCHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH-----HcCCcEEEEECCCCCCHHHH
Confidence            36899999999999999999876     11246788877665555444

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=92.89  E-value=0.038  Score=53.57  Aligned_cols=24  Identities=25%  Similarity=0.421  Sum_probs=21.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.|+|+.|+||||+++.+..
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999976

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=92.88  E-value=0.053  Score=51.62  Aligned_cols=24  Identities=42%  Similarity=0.422  Sum_probs=21.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.|+|+.|+||||+|+.+..
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            457899999999999999999986

>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=92.86  E-value=0.048  Score=53.83  Aligned_cols=22  Identities=36%  Similarity=0.490  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|+|+|+.|+||||+|+.+..
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            5899999999999999999975

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=92.86  E-value=0.053  Score=51.94  Aligned_cols=23  Identities=26%  Similarity=0.238  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|.|.|+.|+||||+|+.+..
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            36899999999999999999875

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=92.79  E-value=0.056  Score=52.38  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+|+|+|+.|+||||+++.+..
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            36899999999999999999976

>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=92.75  E-value=0.056  Score=54.63  Aligned_cols=23  Identities=35%  Similarity=0.573  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|.|+|++|+||||+|+.+..
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            46899999999999999999886

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=92.70  E-value=0.045  Score=52.75  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++++|+|+.|+|||||++.+..
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            5789999999999999999875

>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=92.69  E-value=0.04  Score=52.34  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|+.|+||||+|+.+..
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            3589999999999999999976

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=92.65  E-value=0.055  Score=52.06  Aligned_cols=22  Identities=27%  Similarity=0.379  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|+.|+||||+|+.+..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999986

>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=92.60  E-value=0.065  Score=55.59  Aligned_cols=24  Identities=25%  Similarity=0.307  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|+|+|..|+|||||++.+..
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            457999999999999999999886

>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=92.59  E-value=0.058  Score=54.04  Aligned_cols=23  Identities=30%  Similarity=0.328  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|+|+|+.|+|||||++.+.+
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            46899999999999999999984

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=92.58  E-value=0.06  Score=51.13  Aligned_cols=22  Identities=27%  Similarity=0.339  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|+.|+||||+|+.+.+
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999975

>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=92.55  E-value=0.064  Score=51.22  Aligned_cols=23  Identities=26%  Similarity=0.252  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|.|.|+.|+||||+|+.+..
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            47899999999999999999976

>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=92.51  E-value=0.07  Score=49.09  Aligned_cols=23  Identities=35%  Similarity=0.317  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+++|+|.-|.|||||++.+..
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            36899999999999999999986

>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=92.47  E-value=0.047  Score=51.15  Aligned_cols=22  Identities=32%  Similarity=0.368  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|.|+.|+||||+|+.+..
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            4689999999999999999976

>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=92.47  E-value=0.075  Score=50.74  Aligned_cols=25  Identities=32%  Similarity=0.437  Sum_probs=22.4

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..-.+|+|.|+.|+||||+|+.+..
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            3568999999999999999999876

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.44  E-value=0.067  Score=57.77  Aligned_cols=50  Identities=26%  Similarity=0.206  Sum_probs=36.7

Q ss_pred             CceeeccchHHHHHHHhhcc---CC----cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE---SS----EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~---~~----~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++.|.++.+++|.+.+...   ..    -+-...+-|-++|++|.|||+||+++++
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~  265 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVAN  265 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHh
Confidence            46889998888887765320   00    0123456788999999999999999998

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=92.42  E-value=0.052  Score=50.72  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++++|+|..|.|||||++.+..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~   24 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMP   24 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999876

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=92.40  E-value=0.064  Score=52.16  Aligned_cols=22  Identities=32%  Similarity=0.549  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|+.|+||||+|+.+..
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            6899999999999999999986

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=92.36  E-value=0.061  Score=51.32  Aligned_cols=24  Identities=21%  Similarity=0.556  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-++|+|+|+.|+|||||++.+..
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~   41 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLS   41 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHh
Confidence            347899999999999999999885

>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=92.36  E-value=0.15  Score=50.64  Aligned_cols=48  Identities=17%  Similarity=0.173  Sum_probs=33.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccc----cCCeEEEEEeCCchhHHHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRV  198 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~  198 (876)
                      -.++.|+|..|+||||||..+........    .-..++|+.....++..++
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~   75 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL   75 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHH
Confidence            36899999999999999998876311111    1247888887765554433

>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=92.34  E-value=0.063  Score=52.09  Aligned_cols=23  Identities=26%  Similarity=0.365  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+++|+|..|+|||||++.+..
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            36899999999999999999986

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=92.25  E-value=0.065  Score=49.88  Aligned_cols=21  Identities=33%  Similarity=0.420  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|.|.|+.|+||||+|+.+.+
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            588999999999999999986

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=92.22  E-value=0.11  Score=51.08  Aligned_cols=25  Identities=32%  Similarity=0.476  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ...+|.|+|.+|+|||||+..+...
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            5688999999999999999888763

>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=92.21  E-value=0.072  Score=51.38  Aligned_cols=24  Identities=29%  Similarity=0.231  Sum_probs=21.1

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.|+|+.|+||||+|+.+..
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            345899999999999999999976

>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=92.19  E-value=0.044  Score=53.47  Aligned_cols=21  Identities=33%  Similarity=0.561  Sum_probs=19.5

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|+|+|..|+||||+|+.+..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            689999999999999999876

>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=92.18  E-value=0.14  Score=53.18  Aligned_cols=24  Identities=29%  Similarity=0.300  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|+|+|..|.|||||++.+..
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            457999999999999999999886

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=92.17  E-value=0.069  Score=53.67  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+|+|+|+.|.||||+++.+..
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            36899999999999999999985

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=92.17  E-value=0.081  Score=52.91  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|+|.|..|+|||||++.+..
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            347899999999999999999875

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=92.13  E-value=0.08  Score=51.49  Aligned_cols=25  Identities=28%  Similarity=0.268  Sum_probs=22.7

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+||.|.|++|+||||.|+.+.+
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3679999999999999999999886

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=92.12  E-value=0.13  Score=53.64  Aligned_cols=25  Identities=40%  Similarity=0.428  Sum_probs=22.3

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ....+++|+|..|+||||+++.+..
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3568999999999999999998886

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=92.09  E-value=0.069  Score=51.06  Aligned_cols=21  Identities=43%  Similarity=0.702  Sum_probs=19.7

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|+|.|+.|+||||+|+.+.+
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            689999999999999999986

>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=92.09  E-value=0.085  Score=53.94  Aligned_cols=23  Identities=43%  Similarity=0.699  Sum_probs=21.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~  172 (876)
                      ...+|+|.|+.|+||||+|+.+.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            56799999999999999999987

>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=92.09  E-value=0.073  Score=54.96  Aligned_cols=24  Identities=33%  Similarity=0.379  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+++|+|..|+||||+++.+..
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            457999999999999999999886

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=92.08  E-value=0.1  Score=51.06  Aligned_cols=39  Identities=21%  Similarity=0.192  Sum_probs=28.4

Q ss_pred             ccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          129 RVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       129 r~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++..+++.+.+..      ....+|.|+|.+|+|||||+.++..
T Consensus        14 ~~~~~~~~~~~~~~------~~~~~i~i~G~~g~GKTTl~~~l~~   52 (221)
T 2wsm_A           14 NKRLAEKNREALRE------SGTVAVNIMGAIGSGKTLLIERTIE   52 (221)
T ss_dssp             HHHHHHHHHHHHHH------HTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cHHHHHHHHHhhcc------cCceEEEEEcCCCCCHHHHHHHHHH
Confidence            34445555554432      2568999999999999999988876

>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=92.07  E-value=0.078  Score=58.30  Aligned_cols=50  Identities=30%  Similarity=0.288  Sum_probs=34.6

Q ss_pred             CceeeccchHHHHHHHhhccCCc------CCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSE------QQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.++.++++.+.+..-...      +..-.+-|.|+|+.|+||||||+++++
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~   71 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAG   71 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHH
Confidence            46999998877776654321100      011223477999999999999999997

>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=92.05  E-value=0.1  Score=50.78  Aligned_cols=23  Identities=26%  Similarity=0.289  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|.|.|+.|+||||+|+.+.+
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            46899999999999999999986

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=92.02  E-value=0.06  Score=52.73  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|+|||||++.+..
T Consensus        24 ~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           24 YPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            6899999999999999999876

>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=91.98  E-value=0.2  Score=49.34  Aligned_cols=44  Identities=27%  Similarity=0.326  Sum_probs=29.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccc---c-cCCeEEEEEeCCchh
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVK---R-NFEKVIWVCVSDTFE  194 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~-~F~~~~wv~vs~~~~  194 (876)
                      -.+++|+|..|+|||||++.+.......   . .-...+|+.-...+.
T Consensus        25 G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~   72 (231)
T 4a74_A           25 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFR   72 (231)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCC
Confidence            3799999999999999999987521111   1 123577777554433

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=91.97  E-value=0.051  Score=51.48  Aligned_cols=23  Identities=30%  Similarity=0.277  Sum_probs=16.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|.|.|+.|+||||+|+.+..
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            46899999999999999999975

>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=91.97  E-value=0.086  Score=49.73  Aligned_cols=24  Identities=33%  Similarity=0.369  Sum_probs=21.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-.+|+|+|+.|+||||+++.+..
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346889999999999999999976

>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=91.85  E-value=0.06  Score=50.95  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=19.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.|.|+|+.|+|||||++++..
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            4478999999999999999875

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=91.77  E-value=0.08  Score=51.49  Aligned_cols=23  Identities=30%  Similarity=0.365  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|.|.|+.|+||||+|+.+.+
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            46899999999999999999986

>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=91.77  E-value=0.089  Score=54.13  Aligned_cols=24  Identities=33%  Similarity=0.261  Sum_probs=21.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++++|+|.+|+||||++..+..
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            457999999999999999988875

>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=91.71  E-value=0.083  Score=56.74  Aligned_cols=50  Identities=28%  Similarity=0.242  Sum_probs=34.2

Q ss_pred             CceeeccchHHHHHHHhhc----cC--------------------CcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLF----ES--------------------SEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~----~~--------------------~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.+..++.+...+..    ..                    .........+.++|..|+|||++|+.+++
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            3578888888877766620    00                    00011234578999999999999999987

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=91.71  E-value=0.082  Score=52.14  Aligned_cols=23  Identities=26%  Similarity=0.315  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...|.|.|+.|+||||+|+.+..
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            46799999999999999999986

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.70  E-value=0.085  Score=56.41  Aligned_cols=50  Identities=24%  Similarity=0.257  Sum_probs=36.6

Q ss_pred             CceeeccchHHHHHHHhhcc---CC----cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE---SS----EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~---~~----~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++.|.++.+++|.+.+...   ..    -+-...+-|-++|++|.|||.||+++++
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~  238 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVAN  238 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHH
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHH
Confidence            46788888888887765421   10    0122456788999999999999999998

>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=91.69  E-value=0.083  Score=51.81  Aligned_cols=23  Identities=30%  Similarity=0.258  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...|.|.|+.|+||||+|+.+..
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            35789999999999999999986

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=91.64  E-value=0.12  Score=51.43  Aligned_cols=24  Identities=21%  Similarity=0.070  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.|.|+.|+||||+|+.+.+
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999975

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=91.52  E-value=0.078  Score=50.45  Aligned_cols=22  Identities=41%  Similarity=0.448  Sum_probs=20.0

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      +++|+|..|+|||||++.+...
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            6899999999999999998873

>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=91.51  E-value=0.089  Score=51.43  Aligned_cols=23  Identities=22%  Similarity=0.248  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g   38 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLK   38 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999886

>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=91.47  E-value=0.088  Score=59.43  Aligned_cols=50  Identities=26%  Similarity=0.294  Sum_probs=35.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.++-++.+.+.+....-.......++.|+|..|+||||||+.++.
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            45889888777776554321110012456899999999999999999987

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=91.46  E-value=0.071  Score=53.26  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|+|+|+.|+||||+++.+..
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            5799999999999999999986

>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=91.40  E-value=0.11  Score=50.65  Aligned_cols=24  Identities=38%  Similarity=0.289  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.|+|+.|+||||+|+.+..
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            347899999999999999999876

>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=91.37  E-value=0.17  Score=53.79  Aligned_cols=37  Identities=27%  Similarity=0.416  Sum_probs=27.3

Q ss_pred             HHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          133 KNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       133 ~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++.+.+...    .....+|+|+|.+|+|||||+.++..
T Consensus        65 ~~~~~~~~~~~----~~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           65 AQQLLLRLLPD----SGNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             HHHHHHHHGGG----CCCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhHhh----cCCceEEEEECCCCCCHHHHHHHHHH
Confidence            44555555432    23678999999999999999988764

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=91.35  E-value=0.11  Score=53.64  Aligned_cols=24  Identities=38%  Similarity=0.364  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+++|+|..|+||||+++.+..
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            457999999999999999999886

>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=91.29  E-value=0.11  Score=50.77  Aligned_cols=23  Identities=30%  Similarity=0.364  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|+|.|+.|+||||+|+.+..
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            36899999999999999999864

>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=91.28  E-value=0.092  Score=50.67  Aligned_cols=22  Identities=32%  Similarity=0.333  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|+.|+||||+|+.+.+
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~   26 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIME   26 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999986

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=91.23  E-value=0.1  Score=51.81  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      . .+++|+|..|.|||||.+.+..
T Consensus        24 ~-e~~~liG~nGsGKSTLl~~l~G   46 (240)
T 2onk_A           24 R-DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             S-SEEEEECCTTSSHHHHHHHHHT
T ss_pred             C-EEEEEECCCCCCHHHHHHHHhC
Confidence            5 7999999999999999999986

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=91.19  E-value=0.091  Score=51.40  Aligned_cols=22  Identities=32%  Similarity=0.495  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..|.|.|+.|+||||+|+.+..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5688999999999999999976

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=91.18  E-value=0.071  Score=56.58  Aligned_cols=44  Identities=23%  Similarity=0.248  Sum_probs=31.4

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.+..++.+...+....      ..-|-|+|..|+|||++|+.+++
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~------~~~vLl~G~~GtGKT~la~~la~   67 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPG------IGGVLVFGDRGTGKSTAVRALAA   67 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG------GCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHhhCCC------CceEEEECCCCccHHHHHHHHHH
Confidence            458998876655444333221      12278999999999999999987

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=91.17  E-value=0.1  Score=54.23  Aligned_cols=22  Identities=32%  Similarity=0.373  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|+|.|+.|+||||||+.+..
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            5899999999999999999886

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=91.17  E-value=0.1  Score=48.86  Aligned_cols=24  Identities=25%  Similarity=0.368  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++++|+|..|+|||||++.+..
T Consensus         5 ~~~~i~i~G~sGsGKTTl~~~l~~   28 (174)
T 1np6_A            5 MIPLLAFAAWSGTGKTTLLKKLIP   28 (174)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCHHHHHHHHHH
Confidence            367899999999999999999886

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=91.14  E-value=0.092  Score=51.55  Aligned_cols=23  Identities=22%  Similarity=0.203  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...|.|.|+.|+||||+|+.+..
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            45789999999999999999986

>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=91.08  E-value=0.15  Score=50.42  Aligned_cols=22  Identities=27%  Similarity=0.492  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            6899999999999999999985

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=91.08  E-value=0.091  Score=53.48  Aligned_cols=50  Identities=26%  Similarity=0.239  Sum_probs=31.7

Q ss_pred             CceeeccchHHHHHHHhhccCCc-------CCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSE-------QQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++.|.++.++++.+.+...-..       +-.-.+=+.++|+.|.||||||+.++.
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~   66 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVAN   66 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            45778777777776654311000       000112289999999999999999997

>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=91.03  E-value=0.095  Score=52.72  Aligned_cols=51  Identities=29%  Similarity=0.347  Sum_probs=31.5

Q ss_pred             CceeeccchHHHHHHHhhccCCc------CCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLFESSE------QQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ++++|.+..+.++.+....-...      +-.-.+-+.|+|..|+||||||+.+++.
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            46788776665554433210000      0001122889999999999999999973

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=91.03  E-value=0.1  Score=50.86  Aligned_cols=21  Identities=43%  Similarity=0.521  Sum_probs=18.9

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|.|.|+.|+||||+|+.+..
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            478999999999999999875

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=90.98  E-value=0.21  Score=54.21  Aligned_cols=41  Identities=29%  Similarity=0.328  Sum_probs=28.1

Q ss_pred             HHHHHHHhhccCCc---CCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          133 KNELLSKLLFESSE---QQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       133 ~~~i~~~L~~~~~~---~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++.+.|......   .....++|.|+|.+|+||||+|..+..
T Consensus        79 ~~~l~~~l~~~~~~~~~~~~~~~vI~ivG~~GvGKTT~a~~LA~  122 (433)
T 2xxa_A           79 RNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLGK  122 (433)
T ss_dssp             HHHHHHHHCSSSCCCCCCSSSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            44566665432110   123578999999999999999987775

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=90.93  E-value=0.11  Score=50.98  Aligned_cols=22  Identities=32%  Similarity=0.489  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~G   52 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGL   52 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999999986

>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=90.92  E-value=0.16  Score=51.54  Aligned_cols=33  Identities=27%  Similarity=0.326  Sum_probs=25.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEE
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWV  187 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  187 (876)
                      .+++|+|..|.|||||++.+..   +.....+.+++
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~G---l~~p~~G~I~~   67 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNG---ILKPSSGRILF   67 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTT---SSCCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHc---CCCCCCeEEEE
Confidence            5899999999999999999986   22334455444

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=90.90  E-value=0.077  Score=52.52  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=16.0

Q ss_pred             EEEEEEecCCchHHHHHHHHH-c
Q 042981          152 HVISLVGLGGMGKTTLAQLAY-N  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~-~  173 (876)
                      .+++|+|+.|+|||||++.+. .
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~   50 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEK   50 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999998 5

>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=90.86  E-value=0.14  Score=52.91  Aligned_cols=24  Identities=38%  Similarity=0.411  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.|+|.+|+||||++..+..
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            468999999999999999988876

>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=90.83  E-value=0.34  Score=52.38  Aligned_cols=24  Identities=29%  Similarity=0.392  Sum_probs=21.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...||.++|.+|+||||++.++..
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            468999999999999999987765

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=90.81  E-value=0.11  Score=50.64  Aligned_cols=21  Identities=33%  Similarity=0.457  Sum_probs=18.9

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|.|.|+.|+||||+|+.+..
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            378999999999999999875

>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=50.12  Aligned_cols=21  Identities=19%  Similarity=0.403  Sum_probs=19.9

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|+|.|+.|+||||+|+.+..
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            899999999999999999976

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=90.75  E-value=0.19  Score=47.87  Aligned_cols=25  Identities=28%  Similarity=0.267  Sum_probs=21.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ....|.|+|.+|+|||||...+...
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            3457889999999999999988764

>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=90.72  E-value=0.25  Score=57.71  Aligned_cols=51  Identities=22%  Similarity=0.225  Sum_probs=37.5

Q ss_pred             CceeeccchHHHHHHHhhc---cCC----cCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          124 GEVCGRVDEKNELLSKLLF---ESS----EQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~---~~~----~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++.|.++.+++|.+.+..   ...    -+-...+-|-++|++|.|||+||++|++.
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~e  261 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE  261 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTT
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            4688999888888876532   110    01224567889999999999999999983

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=90.71  E-value=0.17  Score=51.02  Aligned_cols=22  Identities=36%  Similarity=0.536  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        33 e~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           33 DVISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            6899999999999999999986

>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=90.60  E-value=0.18  Score=54.58  Aligned_cols=50  Identities=22%  Similarity=0.292  Sum_probs=35.2

Q ss_pred             CceeeccchHHHHHHHhhcc--------CCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFE--------SSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~--------~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.++.++.+...+...        ........+-|.++|++|+||||+|+.+..
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            46889888888887666321        000011235588999999999999999987

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=90.54  E-value=0.13  Score=50.66  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+|+|.|+.|.||||+|+.+..
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

>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=90.44  E-value=0.15  Score=51.37  Aligned_cols=24  Identities=33%  Similarity=0.394  Sum_probs=21.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...++.+.|.||+||||++..+..
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~   36 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGR   36 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHH
Confidence            567889999999999999988874

>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=90.40  E-value=0.12  Score=51.20  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~G   53 (237)
T 2cbz_A           32 ALVAVVGQVGCGKSSLLSALLA   53 (237)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999999986

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=90.34  E-value=0.15  Score=53.81  Aligned_cols=24  Identities=38%  Similarity=0.364  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...|++|+|..|+||||+++.+..
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHh
Confidence            457999999999999999999886

>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=90.33  E-value=0.2  Score=50.57  Aligned_cols=22  Identities=32%  Similarity=0.638  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        38 e~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            6899999999999999999986

>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=90.29  E-value=0.32  Score=50.78  Aligned_cols=50  Identities=24%  Similarity=0.276  Sum_probs=35.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccccc----CCeEEEEEeCCchhHHHHHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRN----FEKVIWVCVSDTFEEIRVAN  200 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~~~~  200 (876)
                      -.++.|+|.+|+||||||.++.........    =..++|++....++..++..
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~  160 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN  160 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH
Confidence            368999999999999999887753211110    24688999888777666543

>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=90.28  E-value=0.2  Score=50.02  Aligned_cols=22  Identities=45%  Similarity=0.699  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~G   57 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQR   57 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999999986

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=90.28  E-value=0.19  Score=55.61  Aligned_cols=52  Identities=29%  Similarity=0.316  Sum_probs=34.6

Q ss_pred             CCceeeccchHHHHHHHhhccCCc------CCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSE------QQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -.+++|.++.++++.+....-...      +-.-.+-|.|+|..|+||||||++++..
T Consensus        30 f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           30 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            356899988777766554321000      0011233889999999999999999973

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=90.27  E-value=0.1  Score=50.47  Aligned_cols=22  Identities=32%  Similarity=0.309  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
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            4799999999999999999986

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=90.26  E-value=0.17  Score=52.47  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.|+|+.|+||||||..+..
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~   62 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAA   62 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999987

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=90.23  E-value=0.16  Score=52.89  Aligned_cols=25  Identities=40%  Similarity=0.534  Sum_probs=22.0

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...++|+|+|.+|+||||++..+..
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~  127 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMAN  127 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3568999999999999999988875

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=90.22  E-value=0.24  Score=48.72  Aligned_cols=24  Identities=33%  Similarity=0.429  Sum_probs=21.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-.+|.|.|+.|+||||+++.+.+
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~   48 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYH   48 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            346899999999999999999987

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=90.12  E-value=0.13  Score=52.62  Aligned_cols=52  Identities=29%  Similarity=0.316  Sum_probs=33.0

Q ss_pred             CCceeeccchHHHHHHHhhccCCc------CCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSE------QQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -++++|.++.++++.+....-...      +-.-.+-+.|+|..|+||||||+.++..
T Consensus        39 ~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           39 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             GGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHH
Confidence            356888887766665543211000      0001122889999999999999999973

>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=90.09  E-value=0.15  Score=49.68  Aligned_cols=21  Identities=38%  Similarity=0.357  Sum_probs=19.0

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|.|.|+.|+||||+|+.+..
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            378999999999999999976

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=90.06  E-value=0.15  Score=52.69  Aligned_cols=22  Identities=36%  Similarity=0.366  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|+|+.|+||||||+.+..
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            5899999999999999999986

>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=90.05  E-value=0.15  Score=50.79  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            6899999999999999999986

>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=90.03  E-value=0.14  Score=50.54  Aligned_cols=22  Identities=27%  Similarity=0.545  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~G   56 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMG   56 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999986

>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=90.02  E-value=0.36  Score=50.43  Aligned_cols=51  Identities=22%  Similarity=0.294  Sum_probs=36.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccc---------cC-----CeEEEEEeCCchhHHHHHHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKR---------NF-----EKVIWVCVSDTFEEIRVANA  201 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---------~F-----~~~~wv~vs~~~~~~~~~~~  201 (876)
                      -.++-|+|.+|+||||||.++........         ..     ..++|++....++..++.+.
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~~  162 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQM  162 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHHH
Confidence            47899999999999999988775321111         11     46889998888776666543

>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=90.01  E-value=0.14  Score=50.83  Aligned_cols=22  Identities=32%  Similarity=0.552  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999986

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=90.00  E-value=0.21  Score=50.58  Aligned_cols=22  Identities=50%  Similarity=0.675  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        46 e~~~i~G~nGsGKSTLlk~l~G   67 (271)
T 2ixe_A           46 KVTALVGPNGSGKSTVAALLQN   67 (271)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999999986

>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=89.97  E-value=0.12  Score=50.16  Aligned_cols=22  Identities=36%  Similarity=0.576  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.++.
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~G   57 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTIST   57 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5789999999999999999986

>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=89.95  E-value=0.16  Score=48.43  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .-.|+|+|..|+|||||.+.+...
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            457899999999999999998764

>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=89.95  E-value=0.15  Score=50.93  Aligned_cols=22  Identities=36%  Similarity=0.584  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999997

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=89.93  E-value=1  Score=47.33  Aligned_cols=144  Identities=7%  Similarity=-0.075  Sum_probs=87.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHHh----------cccccc-CCccChh
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEG----------LDDVWD-GDYNKWE  218 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~----------lDdvw~-~~~~~~~  218 (876)
                      -.++.-++|..|.||++.|+.+.+.. ....|+....+.+....+.+++...+-..          +|++.. -+.+.++
T Consensus        17 ~~~~yl~~G~e~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~plf~~~kvvii~~~~~kl~~~~~~   95 (343)
T 1jr3_D           17 LRAAYLLLGNDPLLLQESQDAVRQVA-AAQGFEEHHTFSIDPNTDWNAIFSLCQAMSLFASRQTLLLLLPENGPNAAINE   95 (343)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHH-HHHTCCEEEEEECCTTCCHHHHHHHHHHHHHCCSCEEEEEECCSSCCCTTHHH
T ss_pred             CCcEEEEECCcHHHHHHHHHHHHHHH-HhCCCCeeEEEEecCCCCHHHHHHHhcCcCCccCCeEEEEECCCCCCChHHHH
Confidence            34688899999999999998887621 12345432233455556777766554332          788755 3445677


Q ss_pred             hHHhhhccCCCCCEEEEEcCc-------hHHHHhhC-CcceEeCCCCCcccc--ccCCCc--CCccchHHHHHHHHHHcC
Q 042981          219 PFFHCLKHGLHGSKILLTTRN-------ESVARMMG-STNIIFIEQLTEEES--FSGRSF--EDCEKLEPIGRKIARKCK  286 (876)
Q Consensus       219 ~l~~~l~~~~~gs~iivTTR~-------~~v~~~~~-~~~~~~l~~L~~~~~--~f~~~~--~~~~~l~~~~~~i~~~c~  286 (876)
                      .+...+.....++.+|++|-.       ..+...+. ....++..+++.++-  +.....  ..-.--.+....+++.++
T Consensus        96 aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~  175 (343)
T 1jr3_D           96 QLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQLNLELDDAANQVLCYCYE  175 (343)
T ss_dssp             HHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHHHHTTCEECHHHHHHHHHSST
T ss_pred             HHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhc
Confidence            888888776678888776643       24444433 456888888887765  111000  001112345667777777


Q ss_pred             CCchHHHH
Q 042981          287 GLPLAAKA  294 (876)
Q Consensus       287 GlPlai~~  294 (876)
                      |-..++..
T Consensus       176 gdl~~~~~  183 (343)
T 1jr3_D          176 GNLLALAQ  183 (343)
T ss_dssp             TCHHHHHH
T ss_pred             hHHHHHHH
Confidence            76665544

>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=89.91  E-value=0.15  Score=51.43  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        51 ei~~liG~NGsGKSTLlk~l~G   72 (263)
T 2olj_A           51 EVVVVIGPSGSGKSTFLRCLNL   72 (263)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEEcCCCCcHHHHHHHHHc
Confidence            6899999999999999999986

>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=89.91  E-value=0.15  Score=51.37  Aligned_cols=22  Identities=32%  Similarity=0.518  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        34 e~~~liG~nGsGKSTLlk~l~G   55 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITG   55 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999986

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=89.85  E-value=0.15  Score=50.05  Aligned_cols=21  Identities=33%  Similarity=0.438  Sum_probs=19.2

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|.|.|+.|+||||+|+.+..
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            478999999999999999976

>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=89.73  E-value=0.16  Score=51.30  Aligned_cols=22  Identities=32%  Similarity=0.477  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.++.
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~G   68 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAG   68 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999997

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=89.71  E-value=0.17  Score=50.11  Aligned_cols=23  Identities=30%  Similarity=0.166  Sum_probs=20.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...|.|.|+.|+||||+|+.+.+
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            45789999999999999999986

>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=0.16  Score=51.02  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999999986

>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=89.69  E-value=0.45  Score=50.12  Aligned_cols=51  Identities=20%  Similarity=0.260  Sum_probs=36.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccc----cCCeEEEEEeCCchhHHHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRVAN  200 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~~~  200 (876)
                      .-.++.|+|..|+||||||.++........    .=..++|++....++..++..
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~  175 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD  175 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH
Confidence            447899999999999999988776321211    124688999888777666544

>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=89.69  E-value=0.35  Score=51.05  Aligned_cols=48  Identities=27%  Similarity=0.324  Sum_probs=32.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccC----CeEEEEEeCCchhHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF----EKVIWVCVSDTFEEIR  197 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F----~~~~wv~vs~~~~~~~  197 (876)
                      .-.++.|+|..|+|||||+.++..........    ..++|++....+...+
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~  181 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER  181 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHH
Confidence            34799999999999999999887632111111    2458888766554333

>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=89.63  E-value=0.18  Score=51.83  Aligned_cols=24  Identities=42%  Similarity=0.358  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++++|+|.+|+||||++..++.
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~  120 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLAL  120 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999998876

>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=89.63  E-value=0.4  Score=49.30  Aligned_cols=38  Identities=24%  Similarity=0.252  Sum_probs=27.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCC-eEEEEEeCC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFE-KVIWVCVSD  191 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~  191 (876)
                      .+++|+|..|+|||||++.+...  +...-. .++|+....
T Consensus        36 ~~~~i~G~~G~GKTTl~~~ia~~--~~~~~G~~v~~~~~e~   74 (296)
T 1cr0_A           36 EVIMVTSGSGMGKSTFVRQQALQ--WGTAMGKKVGLAMLEE   74 (296)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH--HHHTSCCCEEEEESSS
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH--HHHHcCCeEEEEeCcC
Confidence            68999999999999999988763  222212 466665543

>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=89.62  E-value=0.22  Score=46.08  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..|+|+|.+|+|||||.+.+...
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            46899999999999999998763

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=89.62  E-value=0.17  Score=51.68  Aligned_cols=23  Identities=22%  Similarity=0.381  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|.|+|+.|+||||||..+..
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            36899999999999999999986

>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=89.62  E-value=0.35  Score=50.88  Aligned_cols=44  Identities=18%  Similarity=0.263  Sum_probs=32.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  196 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~  196 (876)
                      -+++.|+|.+|+||||||.++...  ....=..++|++....++..
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~--~~~~gg~VlyId~E~s~~~~  104 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAE--AQKMGGVAAFIDAEHALDPV  104 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHH--HHHTTCCEEEEESSCCCCHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEecccccchH
Confidence            479999999999999999988863  22221357788877766644

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=89.61  E-value=0.21  Score=49.13  Aligned_cols=38  Identities=26%  Similarity=0.368  Sum_probs=26.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  191 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  191 (876)
                      .++.|+|..|+|||||++.+....  ...=..++|+....
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~--~~~~~~v~~~~~~~   61 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKG--LRDGDPCIYVTTEE   61 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH--HHHTCCEEEEESSS
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH--HHCCCeEEEEEccc
Confidence            689999999999999999988532  11112456666544

>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=89.59  E-value=0.4  Score=51.81  Aligned_cols=24  Identities=42%  Similarity=0.375  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+||.++|.+|+||||++..+..
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            468999999999999999988775

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=89.55  E-value=0.16  Score=51.23  Aligned_cols=22  Identities=45%  Similarity=0.717  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~G   68 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYR   68 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999999986

>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=89.50  E-value=0.19  Score=54.58  Aligned_cols=24  Identities=46%  Similarity=0.491  Sum_probs=21.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.|+|.+|+||||+|.++..
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~  121 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLAR  121 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999988775

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=89.46  E-value=0.32  Score=53.73  Aligned_cols=25  Identities=40%  Similarity=0.413  Sum_probs=20.7

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...++|.|+|.+|+||||++.++..
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~  123 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAY  123 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999988875

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=89.46  E-value=0.2  Score=45.78  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      +-|.|+|.+|+|||||+..+...
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            45889999999999999988764

>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=89.46  E-value=0.62  Score=51.33  Aligned_cols=21  Identities=29%  Similarity=0.520  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+.|.|.+|+||||++.++..
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~   67 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIE   67 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            889999999999999988876

>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=89.40  E-value=0.17  Score=50.50  Aligned_cols=22  Identities=36%  Similarity=0.543  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        27 e~~~liG~NGsGKSTLlk~l~G   48 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAG   48 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            5899999999999999999986

>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=89.37  E-value=0.19  Score=54.86  Aligned_cols=24  Identities=38%  Similarity=0.461  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-.|++|+|..|+|||||++.+..
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHH
Confidence            457999999999999999999886

>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=89.28  E-value=0.17  Score=47.88  Aligned_cols=22  Identities=41%  Similarity=0.489  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -|+|+|.+|+|||||++.+...
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            3689999999999999998863

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=89.25  E-value=0.26  Score=46.90  Aligned_cols=23  Identities=13%  Similarity=0.212  Sum_probs=20.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+.|+|++|+||||+|.++++
T Consensus        58 kn~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           58 KNCLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999988876

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=89.23  E-value=0.18  Score=51.05  Aligned_cols=22  Identities=32%  Similarity=0.472  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.++.
T Consensus        34 e~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            5899999999999999999986

>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=89.22  E-value=0.18  Score=52.04  Aligned_cols=22  Identities=32%  Similarity=0.410  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|++|+||||+|+.+..
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

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=89.21  E-value=0.18  Score=50.54  Aligned_cols=22  Identities=32%  Similarity=0.649  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G   53 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLG   53 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999986

>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=89.12  E-value=0.23  Score=51.09  Aligned_cols=22  Identities=36%  Similarity=0.730  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        81 e~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           81 QTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             CEEEEESSSCHHHHHHHHHHTT
T ss_pred             CEEEEECCCCchHHHHHHHHHc
Confidence            6899999999999999999985

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=89.10  E-value=0.18  Score=51.27  Aligned_cols=22  Identities=41%  Similarity=0.502  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        48 e~~~liG~NGsGKSTLlk~l~G   69 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNA   69 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            5899999999999999999986

>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=89.03  E-value=0.2  Score=48.39  Aligned_cols=21  Identities=29%  Similarity=0.414  Sum_probs=19.1

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|.|.|++|+||+|.|+.+.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            577899999999999999986

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=88.97  E-value=0.22  Score=50.44  Aligned_cols=22  Identities=32%  Similarity=0.543  Sum_probs=19.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|+|.|-||+||||+|..+..
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            6888899999999999977765

>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=88.97  E-value=0.29  Score=51.63  Aligned_cols=43  Identities=23%  Similarity=0.228  Sum_probs=31.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE  195 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~  195 (876)
                      -+++.|+|.+|+||||||.++...  ....=..++|++....++.
T Consensus        61 G~iv~I~G~pGsGKTtLal~la~~--~~~~g~~vlyi~~E~~~~~  103 (349)
T 2zr9_A           61 GRVIEIYGPESSGKTTVALHAVAN--AQAAGGIAAFIDAEHALDP  103 (349)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHH--HHHTTCCEEEEESSCCCCH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCCCcCH
Confidence            368999999999999999888752  2222236788888776654

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=88.94  E-value=0.1  Score=53.56  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=18.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +..+|+|.|..|+||||+|+.+.+
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999999876

>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=88.92  E-value=0.23  Score=50.91  Aligned_cols=23  Identities=30%  Similarity=0.494  Sum_probs=20.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|+|.|-||+||||+|..+..
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            47889999999999999987765

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=88.91  E-value=0.25  Score=56.65  Aligned_cols=42  Identities=21%  Similarity=0.270  Sum_probs=34.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.+..++.+...+...        ..+.|+|..|+||||||+.+..
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            46899888777777666532        4689999999999999999987

>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=88.89  E-value=0.18  Score=49.81  Aligned_cols=24  Identities=25%  Similarity=0.155  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-.+|+|.|..|+||||+++.+..
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            457999999999999999999886

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=88.88  E-value=0.21  Score=49.53  Aligned_cols=25  Identities=24%  Similarity=0.287  Sum_probs=22.1

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ....+|+|+|+.|+||||+++.+..
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3557899999999999999999886

>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=88.87  E-value=0.22  Score=51.18  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +++-|+|++|+||||||.++..
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~  145 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGE  145 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            5678999999999999999886

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=88.78  E-value=0.23  Score=50.03  Aligned_cols=23  Identities=26%  Similarity=0.371  Sum_probs=20.6

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+++|+|..|.|||||++.+..
T Consensus        25 g~~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           25 MGLILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             SEEEEEECSTTCSHHHHHHHHHH
T ss_pred             CCEEEEECCCCccHHHHHHHHHH
Confidence            36899999999999999998865

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=88.77  E-value=0.63  Score=45.05  Aligned_cols=23  Identities=26%  Similarity=0.270  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -..|.|-|+.|+||||+++.+.+
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            36889999999999999999986

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=88.75  E-value=0.31  Score=48.43  Aligned_cols=39  Identities=31%  Similarity=0.301  Sum_probs=27.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  192 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~  192 (876)
                      .++.|.|.+|+||||||.++...  ....=..++|++....
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~~~--~~~~~~~v~~~~~e~~   62 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFLWN--GLKMGEPGIYVALEEH   62 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH--HHHTTCCEEEEESSSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEEccCC
Confidence            58999999999999999777542  2122235777776554

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=88.71  E-value=0.25  Score=50.38  Aligned_cols=24  Identities=33%  Similarity=0.217  Sum_probs=21.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.|+|+.|+||||||..+..
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCccCHHHHHHHHHH
Confidence            457899999999999999999986

>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=88.67  E-value=0.22  Score=45.64  Aligned_cols=22  Identities=36%  Similarity=0.623  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -|.++|.+|+|||||+..+...
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            4789999999999999998764

>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=88.67  E-value=0.29  Score=51.60  Aligned_cols=44  Identities=18%  Similarity=0.284  Sum_probs=32.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI  196 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~  196 (876)
                      -+++.|.|.+|+||||||.++...  ....=..++|++....++..
T Consensus        63 G~ii~I~G~pGsGKTtLal~la~~--~~~~g~~vlyid~E~s~~~~  106 (356)
T 1u94_A           63 GRIVEIYGPESSGKTTLTLQVIAA--AQREGKTCAFIDAEHALDPI  106 (356)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEEESSCCCCHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEeCCCCccHH
Confidence            368999999999999999887753  22222368899887776643

>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=88.66  E-value=0.22  Score=51.18  Aligned_cols=23  Identities=17%  Similarity=0.345  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+++|+|..|.|||||++.+..
T Consensus       126 Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          126 KNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhh
Confidence            36899999999999999999875

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=88.63  E-value=0.22  Score=47.72  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .-.|+|+|..|+|||||.+.+...
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            356899999999999999998864

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=88.61  E-value=0.25  Score=49.13  Aligned_cols=22  Identities=27%  Similarity=0.377  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..|.|.|..|+||||+++.+.+
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~   24 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            6799999999999999999986

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=88.60  E-value=0.23  Score=50.24  Aligned_cols=21  Identities=38%  Similarity=0.673  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|+|..|+|||||.+.++.
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            579999999999999999986

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=88.58  E-value=0.27  Score=46.38  Aligned_cols=24  Identities=25%  Similarity=0.307  Sum_probs=21.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ...|+|+|.+|+|||||.+.+...
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            457899999999999999999864

>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=88.56  E-value=0.21  Score=54.23  Aligned_cols=24  Identities=33%  Similarity=0.432  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|.|+|+.|+||||+|+.+..
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            468999999999999999999886

>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=88.54  E-value=0.21  Score=50.92  Aligned_cols=22  Identities=41%  Similarity=0.424  Sum_probs=20.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++.|+|.+|+||||||.++..
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            6899999999999999998875

>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=88.15  E-value=0.23  Score=46.99  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      --|.++|.+|+|||||+..+...
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            35789999999999999998764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=88.10  E-value=0.36  Score=44.98  Aligned_cols=25  Identities=28%  Similarity=0.335  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ....|.|+|..|+|||||...+...
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            4567889999999999999998764

>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=88.07  E-value=0.34  Score=51.44  Aligned_cols=24  Identities=29%  Similarity=0.151  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-.+++|+|+.|.|||||++.+..
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            446899999999999999999986

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=88.05  E-value=0.24  Score=49.88  Aligned_cols=22  Identities=32%  Similarity=0.457  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
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            4899999999999999999986

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=88.00  E-value=0.59  Score=44.66  Aligned_cols=48  Identities=27%  Similarity=0.279  Sum_probs=29.5

Q ss_pred             EEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHH
Q 042981          154 ISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAII  203 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  203 (876)
                      |+|=|.-|+||||.++.+++  ..+..-..+++..-.......+..++++
T Consensus         3 I~~EG~DGsGKsTq~~~L~~--~L~~~g~~v~~treP~~t~~~~~ir~~l   50 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQ--YLEKRGKKVILKREPGGTETGEKIRKIL   50 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHH--HHHHTTCCEEEEESSCSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH--HHHHCCCcEEEEECCCCCcHHHHHHHHh
Confidence            67889999999999999987  4544433444444333333333334433

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=87.97  E-value=0.28  Score=46.18  Aligned_cols=22  Identities=23%  Similarity=0.415  Sum_probs=19.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+.+|+|..|.|||||+++++-
T Consensus        27 g~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            3789999999999999999864

>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=87.95  E-value=0.26  Score=45.75  Aligned_cols=24  Identities=42%  Similarity=0.528  Sum_probs=20.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .--|.|+|.+|+|||||...+...
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            345789999999999999988764

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=87.91  E-value=0.24  Score=51.54  Aligned_cols=25  Identities=40%  Similarity=0.485  Sum_probs=22.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++|++|+|+-|.|||||.+.+...
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhh
Confidence            5789999999999999999999863

>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=87.87  E-value=0.27  Score=45.78  Aligned_cols=23  Identities=17%  Similarity=0.247  Sum_probs=20.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..|+|+|.+|+|||||.+.+...
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            35789999999999999998864

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=87.86  E-value=0.25  Score=50.54  Aligned_cols=22  Identities=27%  Similarity=0.545  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        65 e~~~i~G~NGsGKSTLlk~l~G   86 (290)
T 2bbs_A           65 QLLAVAGSTGAGKTSLLMMIMG   86 (290)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            6899999999999999999986

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=87.57  E-value=0.34  Score=44.55  Aligned_cols=24  Identities=25%  Similarity=0.386  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .--|.|+|.+|+|||||+..+.+.
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            345789999999999999998764

>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=87.56  E-value=0.59  Score=50.07  Aligned_cols=48  Identities=19%  Similarity=0.243  Sum_probs=32.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCcccc----ccCCeEEEEEeCCchhHHHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVK----RNFEKVIWVCVSDTFEEIRV  198 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~F~~~~wv~vs~~~~~~~~  198 (876)
                      -.++.|+|..|+|||||+..++-.....    ..-..++|++....++..++
T Consensus       178 Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl  229 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL  229 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH
Confidence            3689999999999999999664211111    12246888887776655543

>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=87.51  E-value=0.28  Score=45.10  Aligned_cols=23  Identities=35%  Similarity=0.619  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .-|.|+|.+|+|||||...+...
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            45789999999999999988764

>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=87.45  E-value=0.36  Score=45.87  Aligned_cols=25  Identities=32%  Similarity=0.513  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ....|.|+|..|+|||||...+...
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            4566889999999999999998864

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=87.35  E-value=0.61  Score=48.40  Aligned_cols=50  Identities=16%  Similarity=0.132  Sum_probs=33.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHHHh
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAIIEG  205 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~  205 (876)
                      .++.|.|.+|+||||+|.++..+.-.+.  ..++|++.-  .+...+...++..
T Consensus        69 ~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           69 NFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHHH
Confidence            6788999999999999988765322222  567777765  3445555555543

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=87.26  E-value=0.31  Score=51.72  Aligned_cols=22  Identities=32%  Similarity=0.493  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|.|+.|+||||||..+..
T Consensus         3 ~~i~i~GptgsGKttla~~La~   24 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQ   24 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHH
Confidence            6899999999999999998875

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=87.23  E-value=0.3  Score=45.99  Aligned_cols=24  Identities=29%  Similarity=0.299  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .--|.|+|.+|+|||||+..+.+.
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999988764

>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=87.13  E-value=0.55  Score=49.40  Aligned_cols=24  Identities=21%  Similarity=0.230  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|+|+|.+|+|||||+..+..
T Consensus        55 ~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           55 NTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Confidence            568999999999999999988864

>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=87.10  E-value=0.3  Score=44.89  Aligned_cols=22  Identities=27%  Similarity=0.517  Sum_probs=19.3

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -|.|+|..|+|||||...+.+.
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            4789999999999999998764

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=87.10  E-value=0.22  Score=50.36  Aligned_cols=24  Identities=25%  Similarity=0.328  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ....|.|.|..|+||||+|+.+.+
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998876

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=87.10  E-value=0.32  Score=45.97  Aligned_cols=22  Identities=23%  Similarity=0.246  Sum_probs=20.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.|.|.|..|+||||||..+..
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~   56 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQ   56 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6688999999999999999876

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=87.09  E-value=0.31  Score=45.06  Aligned_cols=22  Identities=27%  Similarity=0.534  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -|.|+|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4689999999999999998764

>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=87.08  E-value=0.35  Score=44.65  Aligned_cols=24  Identities=33%  Similarity=0.419  Sum_probs=20.4

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .--|.|+|.+|+|||||...+...
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            345789999999999999988764

>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=87.05  E-value=0.31  Score=44.83  Aligned_cols=21  Identities=33%  Similarity=0.537  Sum_probs=18.5

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -|.|+|.+|+|||||.+.+.+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            368999999999999998865

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=87.01  E-value=0.76  Score=45.20  Aligned_cols=52  Identities=17%  Similarity=0.218  Sum_probs=31.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHHHHHHHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIRVANAII  203 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~i~  203 (876)
                      -..|.|.|..|+||||+++.+.+.-. ...+..+....-.......+.+++++
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~-~~~~~~~~~~rep~~t~~g~~ir~~l   78 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQ-QNGIDHITRTREPGGTLLAEKLRALV   78 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHH-HTTCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-hcCCCeeeeecCCCCCHHHHHHHHHH
Confidence            36899999999999999999987321 23455344444332222333444444

>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=87.01  E-value=0.24  Score=50.88  Aligned_cols=23  Identities=48%  Similarity=0.440  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++++++|.+|+||||++..+..
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            67999999999999999988875

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=87.00  E-value=0.35  Score=51.96  Aligned_cols=24  Identities=17%  Similarity=0.318  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+++|+|..|+|||||.+.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            456999999999999999999987

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=86.94  E-value=0.4  Score=45.07  Aligned_cols=25  Identities=36%  Similarity=0.351  Sum_probs=21.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ....|.|+|.+|+|||||...+...
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999998764

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=86.93  E-value=0.28  Score=46.93  Aligned_cols=23  Identities=30%  Similarity=0.517  Sum_probs=19.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..|+|+|.+|+|||||.+++..+
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            34789999999999999988763

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=86.88  E-value=0.32  Score=44.86  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=19.2

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -|.|+|..|+|||||...+.++
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999888764

>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=86.85  E-value=0.32  Score=44.88  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      --|.|+|..|+|||||...+.+.
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            35789999999999999988764

>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=86.78  E-value=0.32  Score=51.15  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        55 ei~~IiGpnGaGKSTLlr~i~G   76 (366)
T 3tui_C           55 QIYGVIGASGAGKSTLIRCVNL   76 (366)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEEcCCCchHHHHHHHHhc
Confidence            6899999999999999999986

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=86.70  E-value=0.36  Score=46.95  Aligned_cols=25  Identities=28%  Similarity=0.267  Sum_probs=21.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ....|.|+|.+|+|||||+..+.+.
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4556889999999999999988764

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=86.66  E-value=0.36  Score=45.56  Aligned_cols=22  Identities=27%  Similarity=0.339  Sum_probs=19.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -|.|+|.+|+|||||...+...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4789999999999999998864

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=86.65  E-value=0.42  Score=45.30  Aligned_cols=24  Identities=25%  Similarity=0.475  Sum_probs=20.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ...|.|+|..|+|||||...+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcC
Confidence            456789999999999999998875

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=86.63  E-value=0.47  Score=44.25  Aligned_cols=25  Identities=32%  Similarity=0.505  Sum_probs=21.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ...-|.|+|..|+|||||...+.+.
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            4556899999999999999998765

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=86.61  E-value=0.81  Score=44.52  Aligned_cols=24  Identities=38%  Similarity=0.565  Sum_probs=21.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-..|.|.|..|+||||+++.+.+
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~   43 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAE   43 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999987

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=86.57  E-value=0.34  Score=44.47  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=19.2

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -|.|+|..|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999888754

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=86.56  E-value=0.35  Score=50.78  Aligned_cols=22  Identities=32%  Similarity=0.539  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+.-
T Consensus        31 e~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           31 EILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCchHHHHHHHHhc
Confidence            5899999999999999999986

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=86.55  E-value=0.33  Score=45.85  Aligned_cols=23  Identities=22%  Similarity=0.263  Sum_probs=19.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      --|.|+|.+|+|||||+..+.+.
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999877653

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=86.54  E-value=0.35  Score=45.90  Aligned_cols=23  Identities=35%  Similarity=0.524  Sum_probs=19.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..|+|+|.+|+|||||..++.++
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            35789999999999999988764

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=86.50  E-value=0.91  Score=43.90  Aligned_cols=51  Identities=16%  Similarity=0.255  Sum_probs=31.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCcccc-ccCCeEEEEEeCCchhHHHHHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVK-RNFEKVIWVCVSDTFEEIRVANAIIE  204 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~F~~~~wv~vs~~~~~~~~~~~i~~  204 (876)
                      ..|.|-|..|+||||+++.+.+  ... ..+..+.+..-.......+..++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~--~l~~~~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVE--TLEQLGIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHH--HHHHTTCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH--HHHHcCCCcceeeeCCCCCHHHHHHHHHHh
Confidence            5789999999999999999987  332 23433444433332333444455544

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=86.46  E-value=0.6  Score=48.94  Aligned_cols=24  Identities=21%  Similarity=0.307  Sum_probs=21.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .-.+++|+|..|+|||||.+.+..
T Consensus        54 ~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           54 RAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999874

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=86.45  E-value=0.38  Score=50.80  Aligned_cols=24  Identities=25%  Similarity=0.260  Sum_probs=21.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+|+|+|.+|+|||||..++..
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHH
Confidence            467999999999999999999875

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=86.42  E-value=0.37  Score=51.36  Aligned_cols=23  Identities=17%  Similarity=0.276  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...++|+|..|.|||||++.+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~g  192 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAA  192 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999875

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=86.41  E-value=0.32  Score=46.24  Aligned_cols=22  Identities=36%  Similarity=0.372  Sum_probs=19.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      --|.|+|.+|+|||||++.+.+
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~   36 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYS   36 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHh
Confidence            4578999999999999987765

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=86.39  E-value=0.34  Score=45.82  Aligned_cols=23  Identities=22%  Similarity=0.371  Sum_probs=19.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      --|.|+|.+|+|||||+..+.++
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCcHHHHHHHHHhC
Confidence            45789999999999999888764

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=86.33  E-value=0.37  Score=44.42  Aligned_cols=23  Identities=30%  Similarity=0.390  Sum_probs=19.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      --|.|+|..|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            35789999999999999988754

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=86.30  E-value=0.6  Score=45.64  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=17.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -..|.|-|+.|+||||+++.+.+
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            36789999999999999999987

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=86.30  E-value=0.33  Score=45.37  Aligned_cols=25  Identities=28%  Similarity=0.426  Sum_probs=21.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..--|.|+|..|+|||||...+..+
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999998764

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=86.29  E-value=0.33  Score=50.07  Aligned_cols=23  Identities=30%  Similarity=0.531  Sum_probs=20.0

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++| +|+|..|+|||||.+.++.
T Consensus        18 ~~~I-~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           18 EFTL-MVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             CEEE-EEEEETTSSHHHHHHHHHC
T ss_pred             CEEE-EEECCCCCCHHHHHHHHhC
Confidence            3454 9999999999999999886

>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=86.21  E-value=0.47  Score=43.72  Aligned_cols=21  Identities=43%  Similarity=0.506  Sum_probs=18.7

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -|.|+|.+|+|||||...+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999998864

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=86.19  E-value=0.38  Score=45.89  Aligned_cols=22  Identities=27%  Similarity=0.557  Sum_probs=19.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      --|.|+|.+|+|||||.+.+.+
T Consensus        21 ~ki~~vG~~~vGKTsLi~~l~~   42 (196)
T 3llu_A           21 PRILLMGLRRSGKSSIQKVVFH   42 (196)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            3468999999999999997776

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=86.16  E-value=0.53  Score=45.63  Aligned_cols=21  Identities=29%  Similarity=0.191  Sum_probs=17.7

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|.+.|.||+||||+|-.+..
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~   28 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAH   28 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            367889999999999877765

---

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	876
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-32
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	0.001
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	0.002

>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 =  124 bits (313), Expect = 2e-32
 Identities = 39/287 (13%), Positives = 76/287 (26%), Gaps = 69/287 (24%)

Query: 113 KQARTTSLIDEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAY 172
           ++    ++  +     R    + ++ KL             + L G  G GK+ +A  A 
Sbjct: 9   RKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLD---SFFLFLHGRAGSGKSVIASQAL 65

Query: 173 NNDE--VKRNFEKVIWVCVSDTFEEIRVANAIIEG------------------------- 205
           +  +  +  N++ ++W+  S T  +                                   
Sbjct: 66  SKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKR 125

Query: 206 ---------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMGSTN 250
                           DDV   +  +W              + L+TTR+  ++     T 
Sbjct: 126 MICNALIDRPNTLFVFDDVVQEETIRWAQEL--------RLRCLVTTRDVEISNAASQTC 177

Query: 251 IIF-IEQLTEEES---FSGRSFEDCE--KLEPIGRKIARKCKGLPLAAKATGNLLRSKSI 304
               +  L  +E                K E +  K      G P            K+ 
Sbjct: 178 EFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTF 237

Query: 305 --LKEWQKTLDSEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSY 349
             + +    L+S          G+      SY  L     ++RC   
Sbjct: 238 EKMAQLNNKLESRGL------VGVECITPYSYKSLAMA--LQRCVEV 276

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.3 bits (90), Expect = 0.001
 Identities = 27/222 (12%), Positives = 60/222 (27%), Gaps = 13/222 (5%)

Query: 515 NLIREIPENVRKLIHLKYLNLSELCI--ERLPKTLCELYNLQKLDIRWCEDLRELPAGIG 572
           + + +          +++++LS   I    L   L +   LQ L +        +   + 
Sbjct: 33  SFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLA 92

Query: 573 KLKKMRSLLNGGTPLLKY--MPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLL 630
           K   +  L   G        +   +S  + L  L         +      +  +      
Sbjct: 93  KNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQ 152

Query: 631 RE-CGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNV 689
               G       S L    R   + +   L  S+    +  +   +   L       L++
Sbjct: 153 LNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQH-----LSL 207

Query: 690 KELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGK 731
                +          L  +  L+ L++   V       L +
Sbjct: 208 SRCYDIIPET---LLELGEIPTLKTLQVFGIVPDGTLQLLKE 246

>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 = 38.9 bits (89), Expect = 0.002
 Identities = 23/209 (11%), Positives = 55/209 (26%), Gaps = 12/209 (5%)

Query: 459 PMSIHGLNRLRTL---------LIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFI 509
           P +   L +L  L         L      +   L          + + F  L       +
Sbjct: 72  PGAFAPLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVEL 131

Query: 510 FDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPA 569
                          + +  L Y+ +++  I  +P+ L    +L +L +   +  +   A
Sbjct: 132 GTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPP--SLTELHLDGNKITKVDAA 189

Query: 570 GIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQL 629
            +  L  +  L      +       ++    LR L                 + ++ +  
Sbjct: 190 SLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVY- 248

Query: 630 LRECGIEGLSNVSHLDEDERLGLHNMKNL 658
           L    I  + +             +   +
Sbjct: 249 LHNNNISAIGSNDFCPPGYNTKKASYSGV 277

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	876
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.82
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.77
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.76
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.75
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.74
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.67
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.66
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.64
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.61
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.57
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.52
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.49
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.43
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.4
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.4
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.35
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.35
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.34
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.29
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.26
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.25
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.23
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.23
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.2
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.15
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.13
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.09
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.07
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.01
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.97
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.95
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.82
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.68
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.63
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.58
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.58
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.43
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.97
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.96
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.86
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.83
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.82
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.71
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.67
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.61
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.55
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.52
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.51
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.41
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.4
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.31
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	97.23
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.09
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.06
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.01
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.46
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.18
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.16
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.09
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.06
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.05
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.03
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	95.98
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	95.85
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	95.85
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.77
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.75
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	95.71
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	95.56
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	95.51
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.5
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	95.48
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.45
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.42
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.41
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.39
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	95.37
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	95.27
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.27
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.22
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.21
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.16
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	95.1
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.05
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.03
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	94.98
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	94.91
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	94.9
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.88
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	94.75
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	94.7
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	94.34
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	94.31
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	94.19
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	94.1
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.04
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	93.98
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	93.91
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	93.72
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	93.72
d1ls1a2	207	GTPase domain of the signal sequence recognition p	93.64
d2qy9a2	211	GTPase domain of the signal recognition particle r	93.59
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	93.52
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	93.23
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	93.2
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	93.14
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	93.12
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	93.05
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	93.02
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	93.02
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	92.99
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	92.98
d1vmaa2	213	GTPase domain of the signal recognition particle r	92.82
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	92.81
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	92.76
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	92.75
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	92.75
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	92.7
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	92.67
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	92.6
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	92.58
d1okkd2	207	GTPase domain of the signal recognition particle r	92.28
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	92.2
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.19
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	92.12
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	91.96
d1j8yf2	211	GTPase domain of the signal sequence recognition p	91.93
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	91.61
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	91.52
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	91.49
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	91.47
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	91.44
d1g2912	240	Maltose transport protein MalK, N-terminal domain	91.42
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	91.39
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	91.26
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	91.23
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	91.09
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	91.08
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	91.05
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	90.94
d2awna2	232	Maltose transport protein MalK, N-terminal domain	90.83
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	90.79
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	90.78
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	90.74
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	90.74
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	90.67
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	90.56
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	90.46
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	90.44
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	90.44
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	90.37
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	90.35
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	90.29
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	90.07
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	90.05
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	89.64
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	89.58
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	89.49
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	89.47
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	89.35
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	89.34
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	89.28
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	89.24
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	89.18
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	89.07
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	89.07
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	89.04
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	89.03
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	88.89
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	88.87
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	88.84
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	88.81
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	88.8
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	88.75
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	88.74
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	88.69
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	88.66
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	88.66
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	88.65
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	88.57
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	88.39
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	88.33
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	88.32
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	88.22
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	88.18
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	88.12
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	88.12
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	87.87
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	87.85
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	87.72
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	87.68
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	87.63
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	87.53
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	87.44
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	87.42
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	87.31
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	87.3
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	87.18
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	87.16
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	87.05
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	87.05
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	86.96
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	86.91
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	86.91
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	86.9
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	86.77
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	86.68
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	86.67
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	86.63
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	86.52
d1nrjb_	209	Signal recognition particle receptor beta-subunit	86.47
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	86.4
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	86.36
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	86.15
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	86.13
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	86.11
d2fh5b1	207	Signal recognition particle receptor beta-subunit	85.96
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	85.64
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	85.57
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	85.55
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	85.48
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	85.32
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	85.26
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	85.25
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	85.25
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	85.18
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	85.1
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	85.06
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	85.05
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	85.02
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	84.98
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	84.75
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	84.66
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	84.65
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	84.57
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	84.48
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	84.24
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	84.14
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	84.08
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	84.07
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	83.91
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	83.14
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	83.14
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	82.72
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	82.56
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	82.25
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	82.21
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	81.9
d1xpua3	289	Transcription termination factor Rho, ATPase domai	81.6
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	81.58
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	81.5
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	81.49
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	80.32

>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=3.4e-36  Score=310.80  Aligned_cols=212  Identities=18%  Similarity=0.153  Sum_probs=168.0

Q ss_pred             cCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCcc--ccccCCeEEEEEeCCchhHHHHH
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDE--VKRNFEKVIWVCVSDTFEEIRVA  199 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~--~~~~F~~~~wv~vs~~~~~~~~~  199 (876)
                      .++.++||+.++++|+++|....   +.+.++|+|+||||+||||||++||++..  .+.+|++++||++++.++...+.
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~---~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~   94 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMC---DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFD   94 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHT---TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhcc---CCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHH
Confidence            45668999999999999998643   34678999999999999999999998643  67789999999999988766554


Q ss_pred             HHHHHh----------------------------------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc
Q 042981          200 NAIIEG----------------------------------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN  239 (876)
Q Consensus       200 ~~i~~~----------------------------------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~  239 (876)
                      ..+...                                        |||||+..  .|+.+.      ..|||||||||+
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~--~~~~~~------~~~srilvTTR~  166 (277)
T d2a5yb3          95 LFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEE--TIRWAQ------ELRLRCLVTTRD  166 (277)
T ss_dssp             HHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHH--HHHHHH------HTTCEEEEEESB
T ss_pred             HHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHh--hhhhhc------ccCceEEEEeeh
Confidence            433221                                        89999763  454432      248999999999


Q ss_pred             hHHHHhhCCc-ceEeCCCCCcccc--ccCC-C--cCCccchHHHHHHHHHHcCCCchHHHHhhhhhcCCccHHHHHHHhh
Q 042981          240 ESVARMMGST-NIIFIEQLTEEES--FSGR-S--FEDCEKLEPIGRKIARKCKGLPLAAKATGNLLRSKSILKEWQKTLD  313 (876)
Q Consensus       240 ~~v~~~~~~~-~~~~l~~L~~~~~--~f~~-~--~~~~~~l~~~~~~i~~~c~GlPlai~~~~~~L~~~~~~~~w~~~~~  313 (876)
                      ++|+..+... ..|+|++|+.+||  +|.. .  ....+..++++++|+++|+|+||||+++|+.|+.+. .++|.+..+
T Consensus       167 ~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~-~~~~~~~~~  245 (277)
T d2a5yb3         167 VEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT-FEKMAQLNN  245 (277)
T ss_dssp             GGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS-HHHHHHHHH
T ss_pred             HHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCC-HHHHHHHHH
Confidence            9999887654 7899999999999  4422 1  133456788999999999999999999999998775 678887665


Q ss_pred             hhhccccccCCcchhhHhhcccCCCCchhHHHHHhHh
Q 042981          314 SEMWKVEEIGQGLFAPLLLSYNDLPSNSMVKRCFSYC  350 (876)
Q Consensus       314 ~~~~~~~~~~~~~~~~l~~sy~~L~~~~~lk~cfly~  350 (876)
                      ....   ....++..++.+||++||+  ++|.||-++
T Consensus       246 ~L~~---~~~~~v~~il~~sY~~L~~--~lk~c~~~l  277 (277)
T d2a5yb3         246 KLES---RGLVGVECITPYSYKSLAM--ALQRCVEVL  277 (277)
T ss_dssp             HHHH---HCSSTTCCCSSSSSSSHHH--HHHHHHHTS
T ss_pred             HHhc---CcHHHHHHHHHHHHhcccH--HHHHHHHhC
Confidence            4421   2336799999999999999  999999764

>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=99.82  E-value=7.1e-20  Score=199.59  Aligned_cols=188  Identities=21%  Similarity=0.201  Sum_probs=121.3

Q ss_pred             CcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCc
Q 042981          652 LHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGK  731 (876)
Q Consensus       652 l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~  731 (876)
                      ...++++..+.++.|.+....         ....+++|+.|.+.++....+| .+..+++|+.|++++|.+.+ ++.++.
T Consensus       193 ~~~l~~~~~l~l~~n~i~~~~---------~~~~~~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~l~~n~l~~-~~~~~~  261 (384)
T d2omza2         193 LAKLTNLESLIATNNQISDIT---------PLGILTNLDELSLNGNQLKDIG-TLASLTNLTDLDLANNQISN-LAPLSG  261 (384)
T ss_dssp             GGGCTTCSEEECCSSCCCCCG---------GGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSCCCC-CGGGTT
T ss_pred             cccccccceeeccCCccCCCC---------cccccCCCCEEECCCCCCCCcc-hhhcccccchhccccCccCC-CCcccc
Confidence            445667777777766553211         1223456777777777666643 56677778888887777643 445667


Q ss_pred             cc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCC--CcccccCcccceeeccccccccccccccccccccCccccc
Q 042981          732 LP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSS--SSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRL  808 (876)
Q Consensus       732 Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L  808 (876)
                      ++ |+.|+++++......  .+.....+..+....+.+  ...+..+++++.|+++++ ++++.       ..+..+|+|
T Consensus       262 ~~~L~~L~l~~~~l~~~~--~~~~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n-~l~~l-------~~l~~l~~L  331 (384)
T d2omza2         262 LTKLTELKLGANQISNIS--PLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFN-NISDI-------SPVSSLTKL  331 (384)
T ss_dssp             CTTCSEEECCSSCCCCCG--GGTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSS-CCSCC-------GGGGGCTTC
T ss_pred             cccCCEeeccCcccCCCC--ccccccccccccccccccccccccchhcccCeEECCCC-CCCCC-------cccccCCCC
Confidence            77 777777766533221  122222222222222221  234567889999988876 45443       135689999


Q ss_pred             ceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccC
Q 042981          809 SSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYC  868 (876)
Q Consensus       809 ~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c  868 (876)
                      ++|++++| .++.+| .+.++++|++|++++|+.. .++     .+.++|+|+.|+|+++
T Consensus       332 ~~L~L~~n-~l~~l~-~l~~l~~L~~L~l~~N~l~-~l~-----~l~~l~~L~~L~L~~N  383 (384)
T d2omza2         332 QRLFFANN-KVSDVS-SLANLTNINWLSAGHNQIS-DLT-----PLANLTRITQLGLNDQ  383 (384)
T ss_dssp             CEEECCSS-CCCCCG-GGGGCTTCCEEECCSSCCC-BCG-----GGTTCTTCSEEECCCE
T ss_pred             CEEECCCC-CCCCCh-hHcCCCCCCEEECCCCcCC-CCh-----hhccCCCCCEeeCCCC
Confidence            99999999 567777 5888999999999999643 433     3578999999999874

>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=1.6e-19  Score=190.61  Aligned_cols=86  Identities=22%  Similarity=0.300  Sum_probs=48.3

Q ss_pred             ccccccccCcccCeeeccC-cccc-ccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCC
Q 042981          519 EIPENVRKLIHLKYLNLSE-LCIE-RLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGIS  596 (876)
Q Consensus       519 ~lp~~i~~L~~Lr~L~Ls~-~~i~-~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~  596 (876)
                      .+|..+++|++|++|+|++ |.+. .+|++|++|++|++|+|++|......|..+..+.+|++++++.|.....+|..++
T Consensus        67 ~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~  146 (313)
T d1ogqa_          67 PIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSIS  146 (313)
T ss_dssp             ECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGG
T ss_pred             CCChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcccccccccccccCchhhc
Confidence            3556666666666666654 4444 5666666666666666666644444455555666666666666655444554444


Q ss_pred             CCCCCCcc
Q 042981          597 KLTSLRTL  604 (876)
Q Consensus       597 ~l~~L~~L  604 (876)
                      +++.|+++
T Consensus       147 ~l~~L~~l  154 (313)
T d1ogqa_         147 SLPNLVGI  154 (313)
T ss_dssp             GCTTCCEE
T ss_pred             cCccccee
Confidence            44444433

>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=99.76  E-value=6.6e-18  Score=183.75  Aligned_cols=165  Identities=19%  Similarity=0.206  Sum_probs=101.9

Q ss_pred             cccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCcc
Q 042981          653 HNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKL  732 (876)
Q Consensus       653 ~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~L  732 (876)
                      ..+++|+.|++++|.+..         +..+..+++|+.|++.++....++. +..+++|+.|++++|.+.+ ++.+..+
T Consensus       216 ~~~~~L~~L~l~~n~l~~---------~~~l~~l~~L~~L~l~~n~l~~~~~-~~~~~~L~~L~l~~~~l~~-~~~~~~~  284 (384)
T d2omza2         216 GILTNLDELSLNGNQLKD---------IGTLASLTNLTDLDLANNQISNLAP-LSGLTKLTELKLGANQISN-ISPLAGL  284 (384)
T ss_dssp             GGCTTCCEEECCSSCCCC---------CGGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCSSCCCC-CGGGTTC
T ss_pred             cccCCCCEEECCCCCCCC---------cchhhcccccchhccccCccCCCCc-ccccccCCEeeccCcccCC-CCccccc
Confidence            345566666666665431         1123344566666666666555443 5556667777776666543 3334555


Q ss_pred             c-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCC--cccccCcccceeeccccccccccccccccccccCcccccc
Q 042981          733 P-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSS--SSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLS  809 (876)
Q Consensus       733 p-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~--~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~  809 (876)
                      + ++.+.+..+.....  ..+.....+..++++.+.+.  ..+..+|+|++|++++| .++..       +.+..+++|+
T Consensus       285 ~~l~~l~~~~n~l~~~--~~~~~~~~l~~L~ls~n~l~~l~~l~~l~~L~~L~L~~n-~l~~l-------~~l~~l~~L~  354 (384)
T d2omza2         285 TALTNLELNENQLEDI--SPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANN-KVSDV-------SSLANLTNIN  354 (384)
T ss_dssp             TTCSEEECCSSCCSCC--GGGGGCTTCSEEECCSSCCSCCGGGGGCTTCCEEECCSS-CCCCC-------GGGGGCTTCC
T ss_pred             cccccccccccccccc--cccchhcccCeEECCCCCCCCCcccccCCCCCEEECCCC-CCCCC-------hhHcCCCCCC
Confidence            5 66666655543221  12333333444444433322  23568999999999988 56543       2467899999


Q ss_pred             eeeeccCccCCCCCCCCCCCCCccEEEEecC
Q 042981          810 SLTIWYCPRLRVLPDYLFQSTTLQKLSISYC  840 (876)
Q Consensus       810 ~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~  840 (876)
                      +|++++| .++.+|. +.++++|+.|+|++|
T Consensus       355 ~L~l~~N-~l~~l~~-l~~l~~L~~L~L~~N  383 (384)
T d2omza2         355 WLSAGHN-QISDLTP-LANLTRITQLGLNDQ  383 (384)
T ss_dssp             EEECCSS-CCCBCGG-GTTCTTCSEEECCCE
T ss_pred             EEECCCC-cCCCChh-hccCCCCCEeeCCCC
Confidence            9999999 5666664 788999999999987

>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=99.75  E-value=3.7e-19  Score=187.65  Aligned_cols=208  Identities=19%  Similarity=0.254  Sum_probs=126.0

Q ss_pred             ccccccccCcccCeeeccCcccccc-chhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCC
Q 042981          519 EIPENVRKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISK  597 (876)
Q Consensus       519 ~lp~~i~~L~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~  597 (876)
                      .+|.+|++|++|++|+|++|.+..+ |..+..+.+|+++++++|.....+|..+.++++|+++++++|.+.+.+|..++.
T Consensus        92 ~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~  171 (313)
T d1ogqa_          92 PIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGS  171 (313)
T ss_dssp             CCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGC
T ss_pred             ccccccccccccchhhhccccccccccccccchhhhcccccccccccccCchhhccCcccceeecccccccccccccccc
Confidence            4566666666666666666665533 234555666666666665555555666666666666666666555555655555


Q ss_pred             CCCC-CccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchH
Q 042981          598 LTSL-RTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKN  676 (876)
Q Consensus       598 l~~L-~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~  676 (876)
                      +.++ +.+..   ...  .+.+.....+..+..+ .+++..    .......+..+..+++|+.++++.+.+..      
T Consensus       172 l~~l~~~l~~---~~n--~l~~~~~~~~~~l~~~-~l~l~~----~~~~~~~~~~~~~~~~l~~l~~~~~~l~~------  235 (313)
T d1ogqa_         172 FSKLFTSMTI---SRN--RLTGKIPPTFANLNLA-FVDLSR----NMLEGDASVLFGSDKNTQKIHLAKNSLAF------  235 (313)
T ss_dssp             CCTTCCEEEC---CSS--EEEEECCGGGGGCCCS-EEECCS----SEEEECCGGGCCTTSCCSEEECCSSEECC------
T ss_pred             cccccccccc---ccc--cccccccccccccccc-cccccc----ccccccccccccccccccccccccccccc------
Confidence            5444 22200   000  0111111122222211 233332    12223334455667778888877776531      


Q ss_pred             HHHHhhCCCCCCccEEEEeecCCC-CCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCCC
Q 042981          677 QQLLEALQPPLNVKELGIVSYGGN-IFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLYG  744 (876)
Q Consensus       677 ~~~~~~l~~~~~L~~L~l~~~~~~-~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~~  744 (876)
                        .+..+..+++|+.|++++|... .+|.+++.+++|++|+|++|++.+.+|.++.+. |+.+++.+|+.
T Consensus       236 --~~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP~~~~L~~L~~l~l~~N~~  303 (313)
T d1ogqa_         236 --DLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKC  303 (313)
T ss_dssp             --BGGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCCSTTGGGSCGGGTCSSSE
T ss_pred             --cccccccccccccccCccCeecccCChHHhCCCCCCEEECcCCcccccCCCcccCCCCCHHHhCCCcc
Confidence              1234556678888888888776 789999999999999999999998999999999 99999998864

>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=99.74  E-value=4.1e-17  Score=171.11  Aligned_cols=86  Identities=19%  Similarity=0.203  Sum_probs=68.3

Q ss_pred             cceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcC
Q 042981          497 CFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLK  575 (876)
Q Consensus       497 ~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~  575 (876)
                      .+++++-         ++..++++|..+.  .+|++|+|++|.|+++|+ +|.++++|++|++++|......|..|.+++
T Consensus        11 ~~~~~~C---------~~~~L~~lP~~l~--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~   79 (305)
T d1xkua_          11 HLRVVQC---------SDLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLV   79 (305)
T ss_dssp             ETTEEEC---------TTSCCCSCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCT
T ss_pred             cCCEEEe---------cCCCCCccCCCCC--CCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCC
Confidence            4456666         6667788888774  579999999999999986 688999999999999865555577789999


Q ss_pred             CCceEecCCCCCCccCCcc
Q 042981          576 KMRSLLNGGTPLLKYMPIG  594 (876)
Q Consensus       576 ~L~~L~l~~~~~~~~~p~~  594 (876)
                      +|++|++++|.+ ..+|..
T Consensus        80 ~L~~L~l~~n~l-~~l~~~   97 (305)
T d1xkua_          80 KLERLYLSKNQL-KELPEK   97 (305)
T ss_dssp             TCCEEECCSSCC-SBCCSS
T ss_pred             ccCEecccCCcc-CcCccc
Confidence            999999999865 456643

>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=7e-16  Score=161.53  Aligned_cols=219  Identities=18%  Similarity=0.153  Sum_probs=112.6

Q ss_pred             CcceEEecCccccccCCCCCccccccc-ccccCcccCeeeccCcccccc-chhhccCCcccEEeecCCCCCccccccccC
Q 042981          496 ACFRALVIGQRNFIFDPYPNLIREIPE-NVRKLIHLKYLNLSELCIERL-PKTLCELYNLQKLDIRWCEDLRELPAGIGK  573 (876)
Q Consensus       496 ~~Lr~L~L~~~~~~~~~~~~~i~~lp~-~i~~L~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~~i~~  573 (876)
                      +.+++|+|         ++|.+..+|+ +|.++++|++|++++|.+..+ |..|.++++|++|++++| .+..+|..+  
T Consensus        31 ~~l~~L~L---------s~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n-~l~~l~~~~--   98 (305)
T d1xkua_          31 PDTALLDL---------QNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKN-QLKELPEKM--   98 (305)
T ss_dssp             TTCCEEEC---------CSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS-CCSBCCSSC--
T ss_pred             CCCCEEEC---------cCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCC-ccCcCccch--
Confidence            34566666         5555555553 355666666666666666655 334566666666666665 345555432  


Q ss_pred             cCCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCc
Q 042981          574 LKKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLH  653 (876)
Q Consensus       574 L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~  653 (876)
                      ...|+.|++..|.+....+..+.....+..+.......   .........+..+++|+.+.+.++.. ..++      ..
T Consensus        99 ~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~---~~~~~~~~~~~~l~~L~~l~l~~n~l-~~l~------~~  168 (305)
T d1xkua_          99 PKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPL---KSSGIENGAFQGMKKLSYIRIADTNI-TTIP------QG  168 (305)
T ss_dssp             CTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCC---CGGGBCTTGGGGCTTCCEEECCSSCC-CSCC------SS
T ss_pred             hhhhhhhhccccchhhhhhhhhhccccccccccccccc---cccCCCccccccccccCccccccCCc-cccC------cc
Confidence            24555666655544322222222333333321111100   01111223344555566666555321 1111      11


Q ss_pred             ccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCC-CchhhcccCCcEEEEecCCCCCCCCCCCcc
Q 042981          654 NMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIF-PKWLTSLTNLRDLRLKSCVICEHFPPLGKL  732 (876)
Q Consensus       654 ~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l-p~~l~~l~~L~~L~L~~~~~~~~lp~l~~L  732 (876)
                      .+++|+.|++++|......       ...+...+.++.|.++++....+ |.++..+++|++|+|++|++....+.+..+
T Consensus       169 ~~~~L~~L~l~~n~~~~~~-------~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~~N~L~~lp~~l~~l  241 (305)
T d1xkua_         169 LPPSLTELHLDGNKITKVD-------AASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADH  241 (305)
T ss_dssp             CCTTCSEEECTTSCCCEEC-------TGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCSSCCTTTTTC
T ss_pred             cCCccCEEECCCCcCCCCC-------hhHhhccccccccccccccccccccccccccccceeeecccccccccccccccc
Confidence            2456777777666543111       12334455666666666655554 556667788888888888765433456677


Q ss_pred             c-CceEeecCCC
Q 042981          733 P-LEKLTLYGLY  743 (876)
Q Consensus       733 p-L~~L~L~~~~  743 (876)
                      + |+.|+|++|+
T Consensus       242 ~~L~~L~Ls~N~  253 (305)
T d1xkua_         242 KYIQVVYLHNNN  253 (305)
T ss_dssp             SSCCEEECCSSC
T ss_pred             cCCCEEECCCCc
Confidence            7 7777777765

>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=99.66  E-value=2.2e-15  Score=161.23  Aligned_cols=58  Identities=29%  Similarity=0.463  Sum_probs=29.0

Q ss_pred             ccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhccccccCCCCCCCcCEEEEccCCCCCCCC
Q 042981          805 MPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDHRTTDIPRLSSLEIEYCPKLNVLP  875 (876)
Q Consensus       805 l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~~~~~lp~L~~L~i~~c~~L~~lP  875 (876)
                      +++|++|+|++| .++.+|..   +++|+.|++++|. ++.++       ..+++|+.|++++|+ |+++|
T Consensus       283 ~~~L~~L~Ls~N-~l~~lp~~---~~~L~~L~L~~N~-L~~l~-------~~~~~L~~L~L~~N~-L~~lp  340 (353)
T d1jl5a_         283 PPSLEELNVSNN-KLIELPAL---PPRLERLIASFNH-LAEVP-------ELPQNLKQLHVEYNP-LREFP  340 (353)
T ss_dssp             CTTCCEEECCSS-CCSCCCCC---CTTCCEEECCSSC-CSCCC-------CCCTTCCEEECCSSC-CSSCC
T ss_pred             CCCCCEEECCCC-ccCccccc---cCCCCEEECCCCc-CCccc-------cccCCCCEEECcCCc-CCCCC
Confidence            455556666555 34455543   3455555555553 22221       123355555665553 55555

>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=99.64  E-value=2.5e-15  Score=160.79  Aligned_cols=72  Identities=24%  Similarity=0.398  Sum_probs=54.1

Q ss_pred             ccCcccceeeccccccccccccccccccccCcccccceeeeccCccCCCCCCCCCCCCCccEEEEecCCCchhhcccccc
Q 042981          773 IAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLRVLPDYLFQSTTLQKLSISYCPIMEELRILEDH  852 (876)
Q Consensus       773 ~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~l~~l~~L~~L~l~~~~~l~~l~~~~~~  852 (876)
                      ..+++|++|++++| .+..+      +   ..+++|+.|++++| .++.+|..   +++|++|++++|+ ++.+|.    
T Consensus       281 ~~~~~L~~L~Ls~N-~l~~l------p---~~~~~L~~L~L~~N-~L~~l~~~---~~~L~~L~L~~N~-L~~lp~----  341 (353)
T d1jl5a_         281 DLPPSLEELNVSNN-KLIEL------P---ALPPRLERLIASFN-HLAEVPEL---PQNLKQLHVEYNP-LREFPD----  341 (353)
T ss_dssp             CCCTTCCEEECCSS-CCSCC------C---CCCTTCCEEECCSS-CCSCCCCC---CTTCCEEECCSSC-CSSCCC----
T ss_pred             ccCCCCCEEECCCC-ccCcc------c---cccCCCCEEECCCC-cCCccccc---cCCCCEEECcCCc-CCCCCc----
Confidence            45789999999987 45543      2   25799999999999 57789864   5789999999997 555532    


Q ss_pred             CCCCCCCcCEEEEc
Q 042981          853 RTTDIPRLSSLEIE  866 (876)
Q Consensus       853 ~~~~lp~L~~L~i~  866 (876)
                         ..++|+.|.+.
T Consensus       342 ---~~~~L~~L~~~  352 (353)
T d1jl5a_         342 ---IPESVEDLRMN  352 (353)
T ss_dssp             ---CCTTCCEEECC
T ss_pred             ---cccccCeeECc
Confidence               12378888774

>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=99.61  E-value=2.4e-15  Score=153.67  Aligned_cols=35  Identities=17%  Similarity=-0.035  Sum_probs=19.9

Q ss_pred             CccEEEEeecCCCCCCchhhcccCCcEEEEecCCC
Q 042981          688 NVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVI  722 (876)
Q Consensus       688 ~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~  722 (876)
                      +|+.|++++|....+|..+..+++|+.|+|++|+.
T Consensus       173 ~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~~Np~  207 (266)
T d1p9ag_         173 NLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPW  207 (266)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCCCSEEECCSCCB
T ss_pred             ccceeecccCCCcccChhHCCCCCCCEEEecCCCC
Confidence            33333344444455666666667777777776654

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=8.6e-15  Score=149.48  Aligned_cols=186  Identities=23%  Similarity=0.212  Sum_probs=95.5

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYM  591 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~  591 (876)
                      +++.++.+|+.+.  ++|++|+|++|.|+.+|. .|.++++|++|+|++| .+..+|. ++.+++|++|++++|.+ ...
T Consensus        18 ~~~~L~~iP~~lp--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N-~l~~l~~-~~~l~~L~~L~Ls~N~l-~~~   92 (266)
T d1p9ag_          18 DKRNLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRA-ELTKLQV-DGTLPVLGTLDLSHNQL-QSL   92 (266)
T ss_dssp             TTSCCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTS-CCCEEEC-CSCCTTCCEEECCSSCC-SSC
T ss_pred             cCCCCCeeCcCcC--cCCCEEECcCCcCCCcCHHHhhccccccccccccc-ccccccc-ccccccccccccccccc-ccc
Confidence            4444555555443  345566666666655553 3555666666666655 3444443 35555666666665543 233


Q ss_pred             CccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCcc
Q 042981          592 PIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEE  671 (876)
Q Consensus       592 p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~  671 (876)
                      |..+..+++|+.|.          ++.+.+..+.                       ...+..+.+++.|+++.|.+...
T Consensus        93 ~~~~~~l~~L~~L~----------l~~~~~~~~~-----------------------~~~~~~l~~l~~L~l~~n~l~~l  139 (266)
T d1p9ag_          93 PLLGQTLPALTVLD----------VSFNRLTSLP-----------------------LGALRGLGELQELYLKGNELKTL  139 (266)
T ss_dssp             CCCTTTCTTCCEEE----------CCSSCCCCCC-----------------------SSTTTTCTTCCEEECTTSCCCCC
T ss_pred             cccccccccccccc----------ccccccceee-----------------------cccccccccccccccccccccee
Confidence            44444455554441          1111111100                       00112222333333333322100


Q ss_pred             ccchHHHHHhhCCCCCCccEEEEeecCCCCCC-chhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCC
Q 042981          672 GRRKNQQLLEALQPPLNVKELGIVSYGGNIFP-KWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLY  743 (876)
Q Consensus       672 ~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp-~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~  743 (876)
                      .       ...+...++++.|++.++....+| ..+..+++|++|+|++|++....+.+..++ |+.|+|++|+
T Consensus       140 ~-------~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         140 P-------PGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             C-------TTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSCC
T ss_pred             c-------cccccccccchhcccccccccccCccccccccccceeecccCCCcccChhHCCCCCCCEEEecCCC
Confidence            0       011222334555555555545554 457789999999999999874333567788 9999999876

>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=99.52  E-value=9.4e-14  Score=143.27  Aligned_cols=71  Identities=15%  Similarity=0.061  Sum_probs=42.4

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGT  585 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~  585 (876)
                      +++.+..+|..+.  ..+++|+|++|.|+.+|. +|.++++|++|++++|......+..+..+..++++....+
T Consensus        19 ~~~~L~~iP~~ip--~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~   90 (284)
T d1ozna_          19 PQQGLQAVPVGIP--AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDN   90 (284)
T ss_dssp             CSSCCSSCCTTCC--TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSC
T ss_pred             CCCCCCccCCCCC--CCCCEEECcCCcCCCCCHHHhhccccccccccccccccccccccccccccccccccccc
Confidence            4445566665553  456777777777777764 4667777777777766433333344455566666655433

>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=99.49  E-value=6.6e-14  Score=144.45  Aligned_cols=38  Identities=21%  Similarity=0.174  Sum_probs=22.9

Q ss_pred             CCCccEEEEeecCCCCCC-chhhcccCCcEEEEecCCCC
Q 042981          686 PLNVKELGIVSYGGNIFP-KWLTSLTNLRDLRLKSCVIC  723 (876)
Q Consensus       686 ~~~L~~L~l~~~~~~~lp-~~l~~l~~L~~L~L~~~~~~  723 (876)
                      +++|+.|+++++....+| .++..+++|++|+|++|++.
T Consensus       200 l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~l~  238 (284)
T d1ozna_         200 LGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWV  238 (284)
T ss_dssp             CTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEE
T ss_pred             hhhcccccccccccccccccccccccccCEEEecCCCCC
Confidence            344444444444444443 45667778888888887754

>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=99.43  E-value=2e-13  Score=135.56  Aligned_cols=79  Identities=25%  Similarity=0.218  Sum_probs=54.2

Q ss_pred             CcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCc
Q 042981          652 LHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGK  731 (876)
Q Consensus       652 l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~  731 (876)
                      +.++++|+.|++++|.....         ..+..+++|+.|+++++....+| .+..+++|++|+|++|++. .+++++.
T Consensus       147 ~~~~~~L~~L~l~~n~~~~~---------~~l~~l~~L~~L~Ls~n~l~~l~-~l~~l~~L~~L~Ls~N~lt-~i~~l~~  215 (227)
T d1h6ua2         147 LAGLTNLQYLSIGNAQVSDL---------TPLANLSKLTTLKADDNKISDIS-PLASLPNLIEVHLKNNQIS-DVSPLAN  215 (227)
T ss_dssp             GGGCTTCCEEECCSSCCCCC---------GGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECTTSCCC-BCGGGTT
T ss_pred             hccccccccccccccccccc---------hhhcccccceecccCCCccCCCh-hhcCCCCCCEEECcCCcCC-CCccccc
Confidence            34555666666666544211         12344567777777777666654 4778999999999999864 5677889


Q ss_pred             cc-CceEeecC
Q 042981          732 LP-LEKLTLYG  741 (876)
Q Consensus       732 Lp-L~~L~L~~  741 (876)
                      ++ |+.|++++
T Consensus       216 l~~L~~L~lsn  226 (227)
T d1h6ua2         216 TSNLFIVTLTN  226 (227)
T ss_dssp             CTTCCEEEEEE
T ss_pred             CCCCCEEEeeC
Confidence            99 99998864

>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=99.40  E-value=5e-13  Score=130.60  Aligned_cols=79  Identities=20%  Similarity=0.243  Sum_probs=43.0

Q ss_pred             CCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCc
Q 042981          495 LACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKL  574 (876)
Q Consensus       495 l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L  574 (876)
                      +..|+.|++         .++.+..++ .+..+++|++|+|++|.|+.++. ++++++|++|++++| .+..+| .+..+
T Consensus        45 L~~L~~L~l---------~~~~i~~l~-~l~~l~~L~~L~L~~n~i~~l~~-~~~l~~L~~L~l~~n-~i~~l~-~l~~l  111 (210)
T d1h6ta2          45 LNSIDQIIA---------NNSDIKSVQ-GIQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDEN-KVKDLS-SLKDL  111 (210)
T ss_dssp             HHTCCEEEC---------TTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCGG-GGTTC
T ss_pred             hcCccEEEC---------cCCCCCCch-hHhhCCCCCEEeCCCccccCccc-cccCccccccccccc-cccccc-ccccc
Confidence            344555555         444444443 24555666666666666655553 455666666666655 344444 25556


Q ss_pred             CCCceEecCCCC
Q 042981          575 KKMRSLLNGGTP  586 (876)
Q Consensus       575 ~~L~~L~l~~~~  586 (876)
                      ++|+.|++++|.
T Consensus       112 ~~L~~L~l~~~~  123 (210)
T d1h6ta2         112 KKLKSLSLEHNG  123 (210)
T ss_dssp             TTCCEEECTTSC
T ss_pred             cccccccccccc
Confidence            666666665553

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.40  E-value=6.6e-13  Score=128.58  Aligned_cols=31  Identities=39%  Similarity=0.523  Sum_probs=20.7

Q ss_pred             hhcccCCcEEEEecCCCCCCCCCCCccc-CceE
Q 042981          706 LTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKL  737 (876)
Q Consensus       706 l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L  737 (876)
                      ++.+++|++|++++|++. .++.++.++ |+.|
T Consensus       168 l~~l~~L~~L~ls~N~i~-~i~~l~~L~~L~~L  199 (199)
T d2omxa2         168 LANLTTLERLDISSNKVS-DISVLAKLTNLESL  199 (199)
T ss_dssp             GTTCTTCCEEECCSSCCC-CCGGGGGCTTCSEE
T ss_pred             ccCCCCCCEEECCCCCCC-CCccccCCCCCCcC
Confidence            566777778888777754 355566666 6654

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.35  E-value=1e-12  Score=130.32  Aligned_cols=169  Identities=23%  Similarity=0.309  Sum_probs=109.9

Q ss_pred             cccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCccCCCCCCCCc
Q 042981          524 VRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPIGISKLTSLRT  603 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~  603 (876)
                      +..|.+|++|++.+|.|+.++ .+.++++|++|++++|. +..++. +.++++|++|++++|.+ ..++ ++.++++|+.
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~~  111 (227)
T d1h6ua2          37 QADLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELKDNQ-ITDLAP-LKNLTKITELELSGNPL-KNVS-AIAGLQSIKT  111 (227)
T ss_dssp             HHHHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSC-CCCCGG-GTTCCSCCEEECCSCCC-SCCG-GGTTCTTCCE
T ss_pred             HHHcCCcCEEECCCCCCCcch-hHhcCCCCcEeecCCce-eecccc-ccccccccccccccccc-cccc-cccccccccc
Confidence            456777888888888888774 57888888888888874 444443 77888888888877754 2332 3445555554


Q ss_pred             cCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhC
Q 042981          604 LEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEAL  683 (876)
Q Consensus       604 L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l  683 (876)
                      +.          ++.+....+.                         .+.....+..+.++.+.....         ..+
T Consensus       112 l~----------l~~~~~~~~~-------------------------~~~~~~~~~~l~~~~~~~~~~---------~~~  147 (227)
T d1h6ua2         112 LD----------LTSTQITDVT-------------------------PLAGLSNLQVLYLDLNQITNI---------SPL  147 (227)
T ss_dssp             EE----------CTTSCCCCCG-------------------------GGTTCTTCCEEECCSSCCCCC---------GGG
T ss_pred             cc----------cccccccccc-------------------------hhccccchhhhhchhhhhchh---------hhh
Confidence            41          1111111110                         122334445555544433211         123


Q ss_pred             CCCCCccEEEEeecCCCCCCchhhcccCCcEEEEecCCCCCCCCCCCccc-CceEeecCCC
Q 042981          684 QPPLNVKELGIVSYGGNIFPKWLTSLTNLRDLRLKSCVICEHFPPLGKLP-LEKLTLYGLY  743 (876)
Q Consensus       684 ~~~~~L~~L~l~~~~~~~lp~~l~~l~~L~~L~L~~~~~~~~lp~l~~Lp-L~~L~L~~~~  743 (876)
                      ..+++|+.|.+.++.....+ .+..+++|+.|+|++|++. .++.++.+| |++|+|++|+
T Consensus       148 ~~~~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~Ls~n~l~-~l~~l~~l~~L~~L~Ls~N~  206 (227)
T d1h6ua2         148 AGLTNLQYLSIGNAQVSDLT-PLANLSKLTTLKADDNKIS-DISPLASLPNLIEVHLKNNQ  206 (227)
T ss_dssp             GGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSSCCC-CCGGGGGCTTCCEEECTTSC
T ss_pred             ccccccccccccccccccch-hhcccccceecccCCCccC-CChhhcCCCCCCEEECcCCc
Confidence            34578999999988776544 4788999999999999875 577789999 9999999985

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=1e-11  Score=124.34  Aligned_cols=57  Identities=14%  Similarity=0.187  Sum_probs=33.0

Q ss_pred             CeeeccCccccccchhhccCCcccEEeecCCCCCccccc-cccCcCCCceEecCCCCCCcc
Q 042981          531 KYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPA-GIGKLKKMRSLLNGGTPLLKY  590 (876)
Q Consensus       531 r~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~  590 (876)
                      +.++.+++.++.+|..+.  +++++|+|++| .+..+|. .|.++++|++|++++|.+...
T Consensus        11 ~~i~c~~~~l~~iP~~l~--~~l~~L~Ls~n-~i~~l~~~~f~~l~~L~~L~ls~n~~~~~   68 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDLP--RNAIELRFVLT-KLRVIQKGAFSGFGDLEKIEISQNDVLEV   68 (242)
T ss_dssp             SEEEEESCSCSSCCSCSC--SCCSEEEEESC-CCCEECTTTTTTCTTCCEEEEESCTTCCE
T ss_pred             CEEEEeCCCCCCcCCCCC--CCCCEEECcCC-cCCccChhHhhccchhhhhhhccccccce
Confidence            455666666666665442  45666666666 3444544 356666666666666654433

>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=99.34  E-value=8.5e-12  Score=124.98  Aligned_cols=71  Identities=15%  Similarity=0.199  Sum_probs=55.7

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCcccc-ccccCcCCCceEecCCC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELP-AGIGKLKKMRSLLNGGT  585 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp-~~i~~L~~L~~L~l~~~  585 (876)
                      ++..+..+|..+.  .++++|+|++|.|+.+|. .|.++++|++|++++|.....+| ..|..++++++|.+..+
T Consensus        16 ~~~~l~~iP~~l~--~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~   88 (242)
T d1xwdc1          16 QESKVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA   88 (242)
T ss_dssp             ESCSCSSCCSCSC--SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECC
T ss_pred             eCCCCCCcCCCCC--CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccccc
Confidence            5556778887653  478999999999999987 57899999999999996655554 35778888888887654

>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=99.29  E-value=8.5e-12  Score=121.64  Aligned_cols=122  Identities=18%  Similarity=0.240  Sum_probs=56.9

Q ss_pred             ceEEEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccc
Q 042981          444 KVRHLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPEN  523 (876)
Q Consensus       444 ~lr~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~  523 (876)
                      .++++.++.+.+..+. .+..+++|++|++.+|..      ..+. . +..+++|++|++         ++|.+..+| .
T Consensus        47 ~L~~L~l~~~~i~~l~-~l~~l~~L~~L~L~~n~i------~~l~-~-~~~l~~L~~L~l---------~~n~i~~l~-~  107 (210)
T d1h6ta2          47 SIDQIIANNSDIKSVQ-GIQYLPNVTKLFLNGNKL------TDIK-P-LANLKNLGWLFL---------DENKVKDLS-S  107 (210)
T ss_dssp             TCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCC------CCCG-G-GTTCTTCCEEEC---------CSSCCCCGG-G
T ss_pred             CccEEECcCCCCCCch-hHhhCCCCCEEeCCCccc------cCcc-c-cccCcccccccc---------ccccccccc-c
Confidence            3455555555544432 244455555555544431      1111 1 344555555555         444444443 2


Q ss_pred             cccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCC
Q 042981          524 VRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~  587 (876)
                      ++++++|++|++++|.+..++ .+..+++|+.+++++|. +...+ .+..+++|+++++++|.+
T Consensus       108 l~~l~~L~~L~l~~~~~~~~~-~l~~l~~l~~l~~~~n~-l~~~~-~~~~l~~L~~l~l~~n~l  168 (210)
T d1h6ta2         108 LKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGNNK-ITDIT-VLSRLTKLDTLSLEDNQI  168 (210)
T ss_dssp             GTTCTTCCEEECTTSCCCCCG-GGGGCTTCCEEECCSSC-CCCCG-GGGGCTTCSEEECCSSCC
T ss_pred             ccccccccccccccccccccc-ccccccccccccccccc-ccccc-cccccccccccccccccc
Confidence            445555555555555554443 24455555555555542 22222 244555555555555543

>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=99.26  E-value=1.4e-11  Score=119.10  Aligned_cols=97  Identities=20%  Similarity=0.279  Sum_probs=45.6

Q ss_pred             ccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccccccc
Q 042981          493 SKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIG  572 (876)
Q Consensus       493 ~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~  572 (876)
                      ..+++|++|++         ++|.+..+++ ++++++|++|++++|.+..+|. ++++++|++|++++|. ...++ .+.
T Consensus        59 ~~l~nL~~L~L---------s~N~l~~~~~-l~~l~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~l~~~~-~~~~~-~~~  125 (199)
T d2omxa2          59 EYLNNLTQINF---------SNNQLTDITP-LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLFNNQ-ITDID-PLK  125 (199)
T ss_dssp             GGCTTCCEEEC---------CSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEECCSSC-CCCCG-GGT
T ss_pred             ccCCCcCcCcc---------ccccccCccc-ccCCcccccccccccccccccc-cccccccccccccccc-ccccc-ccc
Confidence            44555555555         3444444432 4555555555555555555442 4555555555555442 22222 244


Q ss_pred             CcCCCceEecCCCCCCccCCccCCCCCCCCcc
Q 042981          573 KLKKMRSLLNGGTPLLKYMPIGISKLTSLRTL  604 (876)
Q Consensus       573 ~L~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L  604 (876)
                      .+++|+.|++++|.+ ..+| .+..+++|+.|
T Consensus       126 ~l~~L~~L~l~~n~l-~~~~-~l~~~~~L~~L  155 (199)
T d2omxa2         126 NLTNLNRLELSSNTI-SDIS-ALSGLTSLQQL  155 (199)
T ss_dssp             TCTTCSEEECCSSCC-CCCG-GGTTCTTCSEE
T ss_pred             hhhhhHHhhhhhhhh-cccc-ccccccccccc
Confidence            555555555555533 2222 34444444444

>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=99.25  E-value=2.3e-12  Score=132.18  Aligned_cols=62  Identities=19%  Similarity=0.160  Sum_probs=45.8

Q ss_pred             cccCcccCeeeccCcccc--ccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCC
Q 042981          524 VRKLIHLKYLNLSELCIE--RLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGT  585 (876)
Q Consensus       524 i~~L~~Lr~L~Ls~~~i~--~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~  585 (876)
                      ......|++|+|++|.++  .++..+..+++|++|++++|......+..+.++++|++|++++|
T Consensus        42 ~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c  105 (284)
T d2astb2          42 HFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGC  105 (284)
T ss_dssp             CCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTC
T ss_pred             hccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCcccccc
Confidence            345567888888888765  35556777888888888888544556666778888888888876

>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=99.23  E-value=1.2e-11  Score=108.63  Aligned_cols=88  Identities=19%  Similarity=0.217  Sum_probs=55.9

Q ss_pred             CCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCC
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMP  592 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p  592 (876)
                      ++|.+..++ .++++.+|++|++++|.|+.+|+.++.+++|++|++++| .+..+|. +.++++|++|++++|.+. .+|
T Consensus         6 s~n~l~~l~-~l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N-~i~~l~~-~~~l~~L~~L~l~~N~i~-~~~   81 (124)
T d1dcea3           6 AHKDLTVLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDN-ALENVDG-VANLPRLQELLLCNNRLQ-QSA   81 (124)
T ss_dssp             TTSCCSSCC-CGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSS-CCCCCGG-GTTCSSCCEEECCSSCCC-SSS
T ss_pred             CCCCCCCCc-ccccCCCCCEEECCCCccCcchhhhhhhhcccccccccc-cccccCc-cccccccCeEECCCCccC-CCC
Confidence            555666555 366777777777777777777767777777777777776 4555653 677777777777777542 222


Q ss_pred             --ccCCCCCCCCcc
Q 042981          593 --IGISKLTSLRTL  604 (876)
Q Consensus       593 --~~i~~l~~L~~L  604 (876)
                        ..++.+++|++|
T Consensus        82 ~~~~l~~~~~L~~L   95 (124)
T d1dcea3          82 AIQPLVSCPRLVLL   95 (124)
T ss_dssp             TTGGGGGCTTCCEE
T ss_pred             CchhhcCCCCCCEE
Confidence              234444555554

>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=99.23  E-value=1.3e-13  Score=152.89  Aligned_cols=198  Identities=18%  Similarity=0.097  Sum_probs=107.2

Q ss_pred             CcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCCC-----CchhhcccCCcEEEEecCCCCCC-
Q 042981          652 LHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNIF-----PKWLTSLTNLRDLRLKSCVICEH-  725 (876)
Q Consensus       652 l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l-----p~~l~~l~~L~~L~L~~~~~~~~-  725 (876)
                      +.....++.+.+..|.....  ...............++.+++.++.....     ..++...+.++.+++++|.+... 
T Consensus       222 l~~~~~~~~l~~~~n~~~~~--~~~~~~~~~~~~~~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~  299 (460)
T d1z7xw1         222 VASKASLRELALGSNKLGDV--GMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEG  299 (460)
T ss_dssp             HHHCTTCCEEECCSSBCHHH--HHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHH
T ss_pred             ccccccccccchhhcccccc--ccchhhcccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            44566777777777654211  01122233455567888888887764432     23344678888888888876321 


Q ss_pred             CCC----C-Cccc-CceEeecCCCCceEeCcccccCCCCCCCCCCCCCCCcccccCcccceeeccccccccccccccccc
Q 042981          726 FPP----L-GKLP-LEKLTLYGLYGVKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRK  799 (876)
Q Consensus       726 lp~----l-~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~  799 (876)
                      +..    + ...+ |+.+.+.+|.........+.                ......++|++|+|+++ .+.+-.... ..
T Consensus       300 ~~~l~~~l~~~~~~L~~l~l~~~~l~~~~~~~l~----------------~~~~~~~~L~~L~Ls~N-~i~~~g~~~-l~  361 (460)
T d1z7xw1         300 ARLLCETLLEPGCQLESLWVKSCSFTAACCSHFS----------------SVLAQNRFLLELQISNN-RLEDAGVRE-LC  361 (460)
T ss_dssp             HHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHH----------------HHHHHCSSCCEEECCSS-BCHHHHHHH-HH
T ss_pred             cchhhccccccccccccccccccchhhhhhhhcc----------------cccccccchhhhheeee-cccCcccch-hh
Confidence            110    1 1234 77777777642211000010                01224568999988876 343311100 01


Q ss_pred             ccc-CcccccceeeeccCccCC----CCCCCCCCCCCccEEEEecCCCchh-hccccccCCCCCCCcCEEEEccCC
Q 042981          800 ENI-SIMPRLSSLTIWYCPRLR----VLPDYLFQSTTLQKLSISYCPIMEE-LRILEDHRTTDIPRLSSLEIEYCP  869 (876)
Q Consensus       800 ~~~-~~l~~L~~L~l~~c~~l~----~lp~~l~~l~~L~~L~l~~~~~l~~-l~~~~~~~~~~lp~L~~L~i~~c~  869 (876)
                      ..+ ...+.|++|+|++|....    .++..+..+++|++|+|++|+.-.. +..+....-.....|+.|.+.++.
T Consensus       362 ~~l~~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~l~l~~~~  437 (460)
T d1z7xw1         362 QGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESVRQPGCLLEQLVLYDIY  437 (460)
T ss_dssp             HHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSCCHHHHHHHHHHHTSTTCCCCEEECTTCC
T ss_pred             hhhhcccCCCCEEECCCCCCChHHHHHHHHHHhcCCCCCEEECCCCcCCHHHHHHHHHHHHhCCCccCEEECCCCC
Confidence            112 245679999999995422    2444556678999999999964221 101100111233478889888774

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.20  E-value=9.1e-12  Score=115.36  Aligned_cols=127  Identities=24%  Similarity=0.161  Sum_probs=87.7

Q ss_pred             cccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccc
Q 042981          461 SIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCI  540 (876)
Q Consensus       461 ~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i  540 (876)
                      .+.++.+||.|++.+|.      +..+ +..+..+++|++|+|         ++|.+..++ .+..+++|++|++++|.+
T Consensus        13 ~~~n~~~lr~L~L~~n~------I~~i-~~~~~~l~~L~~L~L---------s~N~i~~l~-~~~~l~~L~~L~ls~N~i   75 (162)
T d1a9na_          13 QYTNAVRDRELDLRGYK------IPVI-ENLGATLDQFDAIDF---------SDNEIRKLD-GFPLLRRLKTLLVNNNRI   75 (162)
T ss_dssp             EEECTTSCEEEECTTSC------CCSC-CCGGGGTTCCSEEEC---------CSSCCCEEC-CCCCCSSCCEEECCSSCC
T ss_pred             hccCcCcCcEEECCCCC------CCcc-CccccccccCCEEEC---------CCCCCCccC-CcccCcchhhhhcccccc
Confidence            45566778888887765      2222 234567788888888         666677664 477788888888888888


Q ss_pred             cccchh-hccCCcccEEeecCCCCCccccc--cccCcCCCceEecCCCCCCccCCc----cCCCCCCCCccCc
Q 042981          541 ERLPKT-LCELYNLQKLDIRWCEDLRELPA--GIGKLKKMRSLLNGGTPLLKYMPI----GISKLTSLRTLEK  606 (876)
Q Consensus       541 ~~lp~~-i~~L~~L~~L~L~~~~~l~~lp~--~i~~L~~L~~L~l~~~~~~~~~p~----~i~~l~~L~~L~~  606 (876)
                      +.+|.. +..+++|++|++++| .+..++.  .+..+++|++|++++|.+ ...|.    .+..+++|+.|+.
T Consensus        76 ~~l~~~~~~~l~~L~~L~L~~N-~i~~~~~l~~l~~l~~L~~L~l~~N~i-~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          76 CRIGEGLDQALPDLTELILTNN-SLVELGDLDPLASLKSLTYLCILRNPV-TNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             CEECSCHHHHCTTCCEEECCSC-CCCCGGGGGGGGGCTTCCEEECCSSGG-GGSTTHHHHHHHHCTTCSEETT
T ss_pred             cCCCccccccccccccceeccc-cccccccccccccccccchhhcCCCcc-ccccchHHHHHHHCCCcCeeCC
Confidence            888765 456888888888888 4555543  467788888888888865 33442    2455666666643

>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=99.15  E-value=2.2e-11  Score=107.04  Aligned_cols=101  Identities=20%  Similarity=0.229  Sum_probs=79.5

Q ss_pred             eEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhc
Q 042981          469 RTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLC  548 (876)
Q Consensus       469 r~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~  548 (876)
                      |.|++.+|..      ..+ +. +..+++|++|++         ++|.+..+|+.++.+++|++|++++|.|+.+|. ++
T Consensus         1 R~L~Ls~n~l------~~l-~~-l~~l~~L~~L~l---------s~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~~-~~   62 (124)
T d1dcea3           1 RVLHLAHKDL------TVL-CH-LEQLLLVTHLDL---------SHNRLRALPPALAALRCLEVLQASDNALENVDG-VA   62 (124)
T ss_dssp             SEEECTTSCC------SSC-CC-GGGGTTCCEEEC---------CSSCCCCCCGGGGGCTTCCEEECCSSCCCCCGG-GT
T ss_pred             CEEEcCCCCC------CCC-cc-cccCCCCCEEEC---------CCCccCcchhhhhhhhcccccccccccccccCc-cc
Confidence            4666765542      122 22 677888999999         778888898889999999999999999998874 88


Q ss_pred             cCCcccEEeecCCCCCcccc--ccccCcCCCceEecCCCCCC
Q 042981          549 ELYNLQKLDIRWCEDLRELP--AGIGKLKKMRSLLNGGTPLL  588 (876)
Q Consensus       549 ~L~~L~~L~L~~~~~l~~lp--~~i~~L~~L~~L~l~~~~~~  588 (876)
                      ++++|++|++++| .+..+|  ..+..+++|++|++++|++.
T Consensus        63 ~l~~L~~L~l~~N-~i~~~~~~~~l~~~~~L~~L~l~~N~i~  103 (124)
T d1dcea3          63 NLPRLQELLLCNN-RLQQSAAIQPLVSCPRLVLLNLQGNSLC  103 (124)
T ss_dssp             TCSSCCEEECCSS-CCCSSSTTGGGGGCTTCCEEECTTSGGG
T ss_pred             cccccCeEECCCC-ccCCCCCchhhcCCCCCCEEECCCCcCC
Confidence            9999999999998 455554  45788999999999998663

>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=99.13  E-value=3.2e-11  Score=111.54  Aligned_cols=101  Identities=19%  Similarity=0.161  Sum_probs=79.5

Q ss_pred             hccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccccc-
Q 042981          492 FSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPAG-  570 (876)
Q Consensus       492 ~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~-  570 (876)
                      |.++..||.|+|         ++|.+..+|..+..+.+|++|+|++|.|+.++ .+..+++|++|++++| .+..+|.. 
T Consensus        14 ~~n~~~lr~L~L---------~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N-~i~~l~~~~   82 (162)
T d1a9na_          14 YTNAVRDRELDL---------RGYKIPVIENLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNN-RICRIGEGL   82 (162)
T ss_dssp             EECTTSCEEEEC---------TTSCCCSCCCGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSS-CCCEECSCH
T ss_pred             ccCcCcCcEEEC---------CCCCCCccCccccccccCCEEECCCCCCCccC-CcccCcchhhhhcccc-cccCCCccc
Confidence            567778999999         88888889876788999999999999999985 5889999999999999 46666655 


Q ss_pred             ccCcCCCceEecCCCCCCccCC--ccCCCCCCCCcc
Q 042981          571 IGKLKKMRSLLNGGTPLLKYMP--IGISKLTSLRTL  604 (876)
Q Consensus       571 i~~L~~L~~L~l~~~~~~~~~p--~~i~~l~~L~~L  604 (876)
                      +..+++|++|++++|.+. .++  ..+..+++|++|
T Consensus        83 ~~~l~~L~~L~L~~N~i~-~~~~l~~l~~l~~L~~L  117 (162)
T d1a9na_          83 DQALPDLTELILTNNSLV-ELGDLDPLASLKSLTYL  117 (162)
T ss_dssp             HHHCTTCCEEECCSCCCC-CGGGGGGGGGCTTCCEE
T ss_pred             cccccccccceecccccc-ccccccccccccccchh
Confidence            467999999999999653 333  233444455544

>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=99.09  E-value=1.1e-10  Score=111.83  Aligned_cols=124  Identities=20%  Similarity=0.254  Sum_probs=87.2

Q ss_pred             EEEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-cccc
Q 042981          447 HLGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVR  525 (876)
Q Consensus       447 ~L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~  525 (876)
                      .++.++++++.+|..+.  +++++|++.+|.     +...+....|..+++|+.|+|         ++|.+..++ ..+.
T Consensus        12 ~v~Cs~~~L~~iP~~lp--~~l~~L~Ls~N~-----i~~~~~~~~f~~l~~L~~L~L---------~~N~i~~~~~~~~~   75 (192)
T d1w8aa_          12 TVDCTGRGLKEIPRDIP--LHTTELLLNDNE-----LGRISSDGLFGRLPHLVKLEL---------KRNQLTGIEPNAFE   75 (192)
T ss_dssp             EEECTTSCCSSCCSCCC--TTCSEEECCSCC-----CCSBCCSCSGGGCTTCCEEEC---------CSSCCCCBCTTTTT
T ss_pred             EEEEeCCCcCccCCCCC--CCCCEEEeCCCC-----CcccccccccCCCceEeeeec---------cccccccccccccc
Confidence            45566666777776553  678888886665     222334455778888888888         666665544 5567


Q ss_pred             cCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccc-cccccCcCCCceEecCCCCC
Q 042981          526 KLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLREL-PAGIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       526 ~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~l-p~~i~~L~~L~~L~l~~~~~  587 (876)
                      .+++|++|+|++|.|+.+|+ .|.++++|++|+|++|. +..+ |..|..+++|++|++++|.+
T Consensus        76 ~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~L~~N~-l~~i~~~~f~~l~~L~~l~L~~N~~  138 (192)
T d1w8aa_          76 GASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQ-ISCVMPGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             TCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCSSC-CCEECTTSSTTCTTCCEEECTTCCB
T ss_pred             cccccceeeeccccccccCHHHHhCCCcccccccCCcc-ccccCHHHhcCCccccccccccccc
Confidence            78888888888888887765 47788888888888884 4444 44577888888888888755

>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=99.07  E-value=5.4e-12  Score=129.42  Aligned_cols=182  Identities=17%  Similarity=0.151  Sum_probs=117.1

Q ss_pred             cCCCCCCeeeeCcCCCCCcchhhhccCcccccCCceEEEeccCCccccchHHHHHhhCCCCCCccEEEEeecCCCC---C
Q 042981          626 NLQLLRECGIEGLSNVSHLDEDERLGLHNMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVKELGIVSYGGNI---F  702 (876)
Q Consensus       626 ~L~~L~~L~l~~~~~~~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~---l  702 (876)
                      ...+|+.|+++++.-   ........+..+++|++|+++++.+.       ...+..+...++|++|+++++....   +
T Consensus        44 ~~~~L~~LdLs~~~i---~~~~l~~l~~~c~~L~~L~L~~~~l~-------~~~~~~l~~~~~L~~L~Ls~c~~itd~~l  113 (284)
T d2astb2          44 SPFRVQHMDLSNSVI---EVSTLHGILSQCSKLQNLSLEGLRLS-------DPIVNTLAKNSNLVRLNLSGCSGFSEFAL  113 (284)
T ss_dssp             CCBCCCEEECTTCEE---CHHHHHHHHTTBCCCSEEECTTCBCC-------HHHHHHHTTCTTCSEEECTTCBSCCHHHH
T ss_pred             cCCCCCEEECCCCcc---CHHHHHHHHHhCCCcccccccccCCC-------cHHHHHHhcCCCCcCcccccccccccccc
Confidence            445788888876321   12334445778899999999887652       3444556667889999998764321   1


Q ss_pred             CchhhcccCCcEEEEecCCCCCC--CC-CCCc-cc-CceEeecCCCC-ceEeCcccccCCCCCCCCCCCCCCCcccccCc
Q 042981          703 PKWLTSLTNLRDLRLKSCVICEH--FP-PLGK-LP-LEKLTLYGLYG-VKRVGNEFLGIEGSSEDDPSSSSSSSSVIAFP  776 (876)
Q Consensus       703 p~~l~~l~~L~~L~L~~~~~~~~--lp-~l~~-Lp-L~~L~L~~~~~-l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  776 (876)
                      ..-...+++|++|+|++|.....  +. .+.. .+ |+.|+++++.. +..  ..+..                ....+|
T Consensus       114 ~~l~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~--~~l~~----------------l~~~~~  175 (284)
T d2astb2         114 QTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQK--SDLST----------------LVRRCP  175 (284)
T ss_dssp             HHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCH--HHHHH----------------HHHHCT
T ss_pred             chhhHHHHhccccccccccccccccchhhhcccccccchhhhccccccccc--ccccc----------------cccccc
Confidence            22234688999999998864331  11 1223 35 88888887532 111  11111                123578


Q ss_pred             ccceeeccccccccccccccccccccCcccccceeeeccCccCC-CCCCCCCCCCCccEEEEecC
Q 042981          777 KLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLR-VLPDYLFQSTTLQKLSISYC  840 (876)
Q Consensus       777 ~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~-~lp~~l~~l~~L~~L~l~~~  840 (876)
                      +|++|++++|..+++-.+     ..+..+|+|++|+|++|..++ .....+.++++|+.|++++|
T Consensus       176 ~L~~L~L~~~~~itd~~~-----~~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         176 NLVHLDLSDSVMLKNDCF-----QEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             TCSEEECTTCTTCCGGGG-----GGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             cccccccccccCCCchhh-----hhhcccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeCC
Confidence            999999988877765433     355678999999999987665 23344667889999999888

>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=99.01  E-value=1.2e-10  Score=111.55  Aligned_cols=136  Identities=19%  Similarity=0.026  Sum_probs=103.5

Q ss_pred             CCceEEEEeeecCCCC-C-cccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccc
Q 042981          442 GDKVRHLGLNFEGGAS-F-PMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIRE  519 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~-~-~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~  519 (876)
                      +..+++|.+++|.+.. + ...|.++++|+.|++.++.      ...++...|..++.|+.|+|         ++|.+..
T Consensus        28 p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~------i~~~~~~~~~~~~~L~~L~L---------s~N~l~~   92 (192)
T d1w8aa_          28 PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQ------LTGIEPNAFEGASHIQELQL---------GENKIKE   92 (192)
T ss_dssp             CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSC------CCCBCTTTTTTCTTCCEEEC---------CSCCCCE
T ss_pred             CCCCCEEEeCCCCCcccccccccCCCceEeeeeccccc------cccccccccccccccceeee---------ccccccc
Confidence            6789999999999965 3 5677899999999998776      34455666889999999999         8888888


Q ss_pred             ccc-ccccCcccCeeeccCccccccch-hhccCCcccEEeecCCCCCccccccccCcCCCceEecCCCCCCccCCc
Q 042981          520 IPE-NVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCEDLRELPAGIGKLKKMRSLLNGGTPLLKYMPI  593 (876)
Q Consensus       520 lp~-~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~  593 (876)
                      +|. .|.++++|++|+|++|.|+.+|+ .|..+++|++|+|++|..... +...+-...|+.+.+..+.+....|.
T Consensus        93 l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~~~-~~~~~~~~~l~~~~l~~~~~~c~~p~  167 (192)
T d1w8aa_          93 ISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCN-CHLAWFAEWLRKKSLNGGAARCGAPS  167 (192)
T ss_dssp             ECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCCS-GGGHHHHHHHHHHCCSGGGCBBCSST
T ss_pred             cCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccccccccccc-cchHHHhhhhhhhcccCCCeEeCCCh
Confidence            864 57999999999999999999876 578999999999999854332 22222223355555555544434454

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.97  E-value=4.1e-12  Score=140.57  Aligned_cols=373  Identities=16%  Similarity=0.062  Sum_probs=200.4

Q ss_pred             CcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccc---
Q 042981          466 NRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIER---  542 (876)
Q Consensus       466 ~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~---  542 (876)
                      .+|++|++.++.     +.......++..++++++|+|++|.+    ....+..++..+..+++|++|+|++|.|+.   
T Consensus         2 ~~l~~ld~~~~~-----i~~~~~~~l~~~l~~l~~L~L~~~~i----~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~   72 (460)
T d1z7xw1           2 LDIQSLDIQCEE-----LSDARWAELLPLLQQCQVVRLDDCGL----TEARCKDISSALRVNPALAELNLRSNELGDVGV   72 (460)
T ss_dssp             EEEEEEEEESCC-----CCHHHHHHHHHHHTTCSEEEEESSCC----CHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHH
T ss_pred             CCCCEEEeeCCc-----CChHHHHHHHHhCCCCCEEEeCCCCC----CHHHHHHHHHHHhcCCCCCEEECcCCcCChHHH
Confidence            478999997665     45555667788999999999955443    111233466677889999999999999862   


Q ss_pred             --cchhhc-cCCcccEEeecCCCCCc----cccccccCcCCCceEecCCCCCCccCCccCC-CCCCCCccCc-eeecCcc
Q 042981          543 --LPKTLC-ELYNLQKLDIRWCEDLR----ELPAGIGKLKKMRSLLNGGTPLLKYMPIGIS-KLTSLRTLEK-FAMGGGV  613 (876)
Q Consensus       543 --lp~~i~-~L~~L~~L~L~~~~~l~----~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~-~l~~L~~L~~-~~~~~~~  613 (876)
                        +...+. ...+|++|+|++|....    .++..+..+++|++|++++|.+...-...+. .+........ .......
T Consensus        73 ~~l~~~l~~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~~~~~~~l~~~l~~~~~~~~~~~~~~~~  152 (460)
T d1z7xw1          73 HCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCS  152 (460)
T ss_dssp             HHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSC
T ss_pred             HHHHHHHhcCCCCCCEEECCCCCccccccccccchhhccccccccccccccchhhhhhhhhhcccccccccccccccccc
Confidence              333332 23589999999995322    2566678899999999999976322111110 0111111100 0111000


Q ss_pred             CCCcc--ccccccccCCCCCCeeeeCcCCCCCcchhhhccCc-ccccCCceEEEeccCCccccchHHHHHhhCCCCCCcc
Q 042981          614 DDIST--CRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLH-NMKNLLRLSLEFDEEGEEGRRKNQQLLEALQPPLNVK  690 (876)
Q Consensus       614 ~~ls~--~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~-~l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~~~~~L~  690 (876)
                      .....  .....+.....++.+.+++..............+. .......+.+..+...   ..........+.....++
T Consensus       153 ~~~~~~~~~~~~l~~~~~~~~~~ls~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~---~~~~~~~~~~l~~~~~~~  229 (460)
T d1z7xw1         153 LSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVT---SDNCRDLCGIVASKASLR  229 (460)
T ss_dssp             CBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCB---TTHHHHHHHHHHHCTTCC
T ss_pred             cchhhhccccccccccccccccccccccccccccccccccccccccccccccccccccc---chhhhccccccccccccc
Confidence            00000  01122344555666666553211000001111111 1123344554444332   111223333344456778


Q ss_pred             EEEEeecCCCC------CCchhhcccCCcEEEEecCCCCCCC-----CCCCccc-CceEeecCCCCceEeCcccccCCCC
Q 042981          691 ELGIVSYGGNI------FPKWLTSLTNLRDLRLKSCVICEHF-----PPLGKLP-LEKLTLYGLYGVKRVGNEFLGIEGS  758 (876)
Q Consensus       691 ~L~l~~~~~~~------lp~~l~~l~~L~~L~L~~~~~~~~l-----p~l~~Lp-L~~L~L~~~~~l~~~~~~~~~~~~l  758 (876)
                      .+.+.++....      ++........|+.|++++|.+....     ..+...+ ++.++++++..-......+..    
T Consensus       230 ~l~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~~~~l~~----  305 (460)
T d1z7xw1         230 ELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCE----  305 (460)
T ss_dssp             EEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHH----
T ss_pred             ccchhhccccccccchhhcccccccccccccccccccccccccccccccccccccccccccccccccccccchhhc----
Confidence            88887665321      1112224678999999998764321     1134456 788888776532111001100    


Q ss_pred             CCCCCCCCCCCcccccCcccceeeccccccccccccccccccccCcccccceeeeccCccCC----CCCCCCC-CCCCcc
Q 042981          759 SEDDPSSSSSSSSVIAFPKLKSLHIGAMEELEEWNYRITRKENISIMPRLSSLTIWYCPRLR----VLPDYLF-QSTTLQ  833 (876)
Q Consensus       759 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~----~lp~~l~-~l~~L~  833 (876)
                                 ......+.|+.+.++++ .+....... ....+...++|++|+|++|+...    .++..+. ..+.|+
T Consensus       306 -----------~l~~~~~~L~~l~l~~~-~l~~~~~~~-l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~  372 (460)
T d1z7xw1         306 -----------TLLEPGCQLESLWVKSC-SFTAACCSH-FSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLR  372 (460)
T ss_dssp             -----------HHTSTTCCCCEEECTTS-CCBGGGHHH-HHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCC
T ss_pred             -----------ccccccccccccccccc-chhhhhhhh-cccccccccchhhhheeeecccCcccchhhhhhhcccCCCC
Confidence                       00113467899988877 343322100 01122356789999999995422    2333332 467899


Q ss_pred             EEEEecCCCchhhc--cccccCCCCCCCcCEEEEccCC
Q 042981          834 KLSISYCPIMEELR--ILEDHRTTDIPRLSSLEIEYCP  869 (876)
Q Consensus       834 ~L~l~~~~~l~~l~--~~~~~~~~~lp~L~~L~i~~c~  869 (876)
                      +|+|++|.. +...  .+. ..+...|+|++|++++++
T Consensus       373 ~L~Ls~n~i-~~~~~~~l~-~~l~~~~~L~~L~Ls~N~  408 (460)
T d1z7xw1         373 VLWLADCDV-SDSSCSSLA-ATLLANHSLRELDLSNNC  408 (460)
T ss_dssp             EEECTTSCC-CHHHHHHHH-HHHHHCCCCCEEECCSSS
T ss_pred             EEECCCCCC-ChHHHHHHH-HHHhcCCCCCEEECCCCc
Confidence            999999964 2211  110 123456899999999883

>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=98.95  E-value=6e-12  Score=121.00  Aligned_cols=126  Identities=22%  Similarity=0.215  Sum_probs=86.1

Q ss_pred             eEEEEeeec--CCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCccccccc
Q 042981          445 VRHLGLNFE--GGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIPE  522 (876)
Q Consensus       445 lr~L~l~~~--~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~  522 (876)
                      ...+++...  .+..++.++..+++|+.|++.+|.      +..+ + .+..+++|++|+|         ++|.+..+|.
T Consensus        25 ~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n~------I~~i-~-~l~~l~~L~~L~L---------s~N~i~~i~~   87 (198)
T d1m9la_          25 AEKVELHGMIPPIEKMDATLSTLKACKHLALSTNN------IEKI-S-SLSGMENLRILSL---------GRNLIKKIEN   87 (198)
T ss_dssp             CSCEECCBCCTTCCCCHHHHHHTTTCCEEECSEEE------ESCC-C-CHHHHTTCCEEEC---------CEEEECSCSS
T ss_pred             cceeeeecccCchhhhhhHHhcccccceeECcccC------CCCc-c-cccCCccccChhh---------cccccccccc
Confidence            344444432  244445667778888888887665      2222 1 2567788888888         6666677776


Q ss_pred             ccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCcccc--ccccCcCCCceEecCCCCCCc
Q 042981          523 NVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELP--AGIGKLKKMRSLLNGGTPLLK  589 (876)
Q Consensus       523 ~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp--~~i~~L~~L~~L~l~~~~~~~  589 (876)
                      .+..+++|++|++++|.|+.++ .+.++++|++|++++| .+..++  ..+..+++|++|++++|++..
T Consensus        88 ~~~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~L~~N-~i~~~~~~~~l~~l~~L~~L~L~~N~l~~  154 (198)
T d1m9la_          88 LDAVADTLEELWISYNQIASLS-GIEKLVNLRVLYMSNN-KITNWGEIDKLAALDKLEDLLLAGNPLYN  154 (198)
T ss_dssp             HHHHHHHCCEEECSEEECCCHH-HHHHHHHSSEEEESEE-ECCCHHHHHHHTTTTTCSEEEECSSHHHH
T ss_pred             cccccccccccccccccccccc-cccccccccccccccc-hhccccccccccCCCccceeecCCCcccc
Confidence            5566677888888888888775 4777888888888887 455554  357788888888888886543

>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=98.82  E-value=5.5e-11  Score=114.10  Aligned_cols=102  Identities=23%  Similarity=0.302  Sum_probs=81.2

Q ss_pred             HHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccccccchhhccCCcccEEeecCCCCCccccc
Q 042981          490 ELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCEDLRELPA  569 (876)
Q Consensus       490 ~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~  569 (876)
                      ..+..+++|+.|+|         ++|.+..++ .+.+|++|++|+|++|.|+.+|..+..+++|++|++++| .+..++ 
T Consensus        42 ~sl~~L~~L~~L~L---------s~n~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N-~i~~l~-  109 (198)
T d1m9la_          42 ATLSTLKACKHLAL---------STNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYN-QIASLS-  109 (198)
T ss_dssp             HHHHHTTTCCEEEC---------SEEEESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEE-ECCCHH-
T ss_pred             hHHhcccccceeEC---------cccCCCCcc-cccCCccccChhhcccccccccccccccccccccccccc-cccccc-
Confidence            44788999999999         667777775 588899999999999999999877777788999999998 566665 


Q ss_pred             cccCcCCCceEecCCCCCCccCC--ccCCCCCCCCcc
Q 042981          570 GIGKLKKMRSLLNGGTPLLKYMP--IGISKLTSLRTL  604 (876)
Q Consensus       570 ~i~~L~~L~~L~l~~~~~~~~~p--~~i~~l~~L~~L  604 (876)
                      .+..+++|++|++++|.+. .++  ..+..+++|+.|
T Consensus       110 ~~~~l~~L~~L~L~~N~i~-~~~~~~~l~~l~~L~~L  145 (198)
T d1m9la_         110 GIEKLVNLRVLYMSNNKIT-NWGEIDKLAALDKLEDL  145 (198)
T ss_dssp             HHHHHHHSSEEEESEEECC-CHHHHHHHTTTTTCSEE
T ss_pred             cccccccccccccccchhc-cccccccccCCCcccee
Confidence            4888999999999998653 333  345667777776

>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=98.68  E-value=1.9e-09  Score=113.62  Aligned_cols=37  Identities=22%  Similarity=0.126  Sum_probs=18.0

Q ss_pred             ccCcccCeeeccCccccc-----cchhhccCCcccEEeecCC
Q 042981          525 RKLIHLKYLNLSELCIER-----LPKTLCELYNLQKLDIRWC  561 (876)
Q Consensus       525 ~~L~~Lr~L~Ls~~~i~~-----lp~~i~~L~~L~~L~L~~~  561 (876)
                      ..+++|+.|+|++|.+..     +...+...++|+.|++++|
T Consensus        90 ~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n  131 (344)
T d2ca6a1          90 LKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNN  131 (344)
T ss_dssp             TTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSS
T ss_pred             hhCCCcccccccccccccccccchhhhhcccccchheecccc
Confidence            344555555555554432     3333444555555555554

>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=98.63  E-value=4e-08  Score=89.60  Aligned_cols=86  Identities=16%  Similarity=0.237  Sum_probs=46.7

Q ss_pred             hccCCcceEEecCccccccCCCCC-cccccc-cccccCcccCeeeccCccccccc-hhhccCCcccEEeecCCCCCcccc
Q 042981          492 FSKLACFRALVIGQRNFIFDPYPN-LIREIP-ENVRKLIHLKYLNLSELCIERLP-KTLCELYNLQKLDIRWCEDLRELP  568 (876)
Q Consensus       492 ~~~l~~Lr~L~L~~~~~~~~~~~~-~i~~lp-~~i~~L~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~lp  568 (876)
                      +..+++|+.|++         .++ .++.++ ..|.++++|+.|+|++|.|+.++ ..|..+++|++|+|++| .+..+|
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~   96 (156)
T d2ifga3          27 LPGAENLTELYI---------ENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN-ALESLS   96 (156)
T ss_dssp             SCSCSCCSEEEC---------CSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS-CCSCCC
T ss_pred             ccCccccCeeec---------CCCccccccCchhhccccccCcceeeccccCCcccccccccccccceeccCC-CCcccC
Confidence            344555555555         322 244444 33555666666666666666553 34556666666666665 344555


Q ss_pred             ccccCcCCCceEecCCCCC
Q 042981          569 AGIGKLKKMRSLLNGGTPL  587 (876)
Q Consensus       569 ~~i~~L~~L~~L~l~~~~~  587 (876)
                      ..+....+|++|++++|++
T Consensus        97 ~~~~~~~~l~~L~L~~Np~  115 (156)
T d2ifga3          97 WKTVQGLSLQELVLSGNPL  115 (156)
T ss_dssp             STTTCSCCCCEEECCSSCC
T ss_pred             hhhhccccccccccCCCcc
Confidence            5544444566666666543

>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=98.58  E-value=5.5e-08  Score=88.65  Aligned_cols=102  Identities=22%  Similarity=0.126  Sum_probs=84.8

Q ss_pred             EEeeecCCCCCcccccCCCcceEEeeecCCCCCCCCchhhhHHHhccCCcceEEecCccccccCCCCCcccccc-ccccc
Q 042981          448 LGLNFEGGASFPMSIHGLNRLRTLLIYFQSPSNPSLNSSILSELFSKLACFRALVIGQRNFIFDPYPNLIREIP-ENVRK  526 (876)
Q Consensus       448 L~l~~~~~~~~~~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp-~~i~~  526 (876)
                      ++...++....+..+..+++|+.|.+.++.     ....+....|..+++|+.|+|         ++|.+..++ ..|..
T Consensus        13 l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~-----~l~~i~~~~f~~l~~L~~L~L---------s~N~l~~i~~~~f~~   78 (156)
T d2ifga3          13 LRCTRDGALDSLHHLPGAENLTELYIENQQ-----HLQHLELRDLRGLGELRNLTI---------VKSGLRFVAPDAFHF   78 (156)
T ss_dssp             EECCSSCCCTTTTTSCSCSCCSEEECCSCS-----SCCEECGGGSCSCCCCSEEEC---------CSSCCCEECTTGGGS
T ss_pred             EEecCCCCccCcccccCccccCeeecCCCc-----cccccCchhhccccccCccee---------eccccCCcccccccc
Confidence            555666676778888899999999996542     244566677999999999999         888888885 56899


Q ss_pred             CcccCeeeccCccccccchhhccCCcccEEeecCCCC
Q 042981          527 LIHLKYLNLSELCIERLPKTLCELYNLQKLDIRWCED  563 (876)
Q Consensus       527 L~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L~~~~~  563 (876)
                      +++|++|+|++|.|+.+|..+....+|+.|+|++|..
T Consensus        79 l~~L~~L~Ls~N~l~~l~~~~~~~~~l~~L~L~~Np~  115 (156)
T d2ifga3          79 TPRLSRLNLSFNALESLSWKTVQGLSLQELVLSGNPL  115 (156)
T ss_dssp             CSCCCEEECCSSCCSCCCSTTTCSCCCCEEECCSSCC
T ss_pred             cccccceeccCCCCcccChhhhccccccccccCCCcc
Confidence            9999999999999999999877777899999999954

>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=98.58  E-value=5.5e-09  Score=110.00  Aligned_cols=252  Identities=13%  Similarity=0.081  Sum_probs=146.8

Q ss_pred             CCceEEEEeeecCCCC-----CcccccCCCcceEEeeecCCCCCCC-Cc---hhhhHHHhccCCcceEEecCccccccCC
Q 042981          442 GDKVRHLGLNFEGGAS-----FPMSIHGLNRLRTLLIYFQSPSNPS-LN---SSILSELFSKLACFRALVIGQRNFIFDP  512 (876)
Q Consensus       442 ~~~lr~L~l~~~~~~~-----~~~~~~~~~~Lr~L~l~~~~~~~~~-~~---~~~~~~~~~~l~~Lr~L~L~~~~~~~~~  512 (876)
                      ...++.|++++|.+..     +...+...++|+.|.+.++...... ..   ...+...+..+++|+.|+|++|.+    
T Consensus        30 ~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i----  105 (344)
T d2ca6a1          30 DDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAF----  105 (344)
T ss_dssp             CSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCC----
T ss_pred             CCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccccccccccc----
Confidence            3567888888876532     2445677899999999765411100 00   112334467789999999966554    


Q ss_pred             CCCcccccccccccCcccCeeeccCccccc-----cchh---------hccCCcccEEeecCCCCCc----cccccccCc
Q 042981          513 YPNLIREIPENVRKLIHLKYLNLSELCIER-----LPKT---------LCELYNLQKLDIRWCEDLR----ELPAGIGKL  574 (876)
Q Consensus       513 ~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~~-----lp~~---------i~~L~~L~~L~L~~~~~l~----~lp~~i~~L  574 (876)
                      ....+..+...+...++|++|++++|.+..     +...         ....+.|+.|++++|....    .+...+...
T Consensus       106 ~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~  185 (344)
T d2ca6a1         106 GPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSH  185 (344)
T ss_dssp             CTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHC
T ss_pred             ccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccccccccccchhhhh
Confidence            222334456666778999999999998651     1111         2356789999999874322    244445677


Q ss_pred             CCCceEecCCCCCCccCCccCCCCCCCCccCceeecCccCCCccccccccccCCCCCCeeeeCcCCCCCcchhhhccCcc
Q 042981          575 KKMRSLLNGGTPLLKYMPIGISKLTSLRTLEKFAMGGGVDDISTCRLESLKNLQLLRECGIEGLSNVSHLDEDERLGLHN  654 (876)
Q Consensus       575 ~~L~~L~l~~~~~~~~~p~~i~~l~~L~~L~~~~~~~~~~~ls~~~l~~L~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~  654 (876)
                      ++|+.|++++|.+...   ++.                     ......+..+++|+.|+++++.........+...+..
T Consensus       186 ~~L~~L~L~~n~i~~~---g~~---------------------~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~  241 (344)
T d2ca6a1         186 RLLHTVKMVQNGIRPE---GIE---------------------HLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKS  241 (344)
T ss_dssp             TTCCEEECCSSCCCHH---HHH---------------------HHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGG
T ss_pred             hhhccccccccccccc---ccc---------------------cchhhhhcchhhhcccccccccccccccccccccccc
Confidence            8899999988865321   000                     0001123344445555555421000001223344566


Q ss_pred             cccCCceEEEeccCCccccchHHHHHhhCC--CCCCccEEEEeecCCCC-----CCchhh-cccCCcEEEEecCCCCC
Q 042981          655 MKNLLRLSLEFDEEGEEGRRKNQQLLEALQ--PPLNVKELGIVSYGGNI-----FPKWLT-SLTNLRDLRLKSCVICE  724 (876)
Q Consensus       655 l~~L~~L~L~~~~~~~~~~~~~~~~~~~l~--~~~~L~~L~l~~~~~~~-----lp~~l~-~l~~L~~L~L~~~~~~~  724 (876)
                      +++|++|+|++|.+.+...   ..+.+.+.  +...|+.|++++|....     +...+. .+++|++|+|++|.+..
T Consensus       242 ~~~L~~L~Ls~n~i~~~g~---~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~~~  316 (344)
T d2ca6a1         242 WPNLRELGLNDCLLSARGA---AAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSE  316 (344)
T ss_dssp             CTTCCEEECTTCCCCHHHH---HHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCT
T ss_pred             cccchhhhhhcCccCchhh---HHHHHHhhhccCCCCCEEECCCCcCChHHHHHHHHHHHccCCCCCEEECCCCcCCC
Confidence            7778888888776642222   22233332  34678888888776432     223332 56789999999998754

>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=98.43  E-value=1.9e-07  Score=94.76  Aligned_cols=41  Identities=20%  Similarity=0.326  Sum_probs=34.7

Q ss_pred             CCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          123 EGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       123 ~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++||||+++++++.+.          .-++|.|+|++|+|||||++++.+
T Consensus        11 ~~~f~GR~~el~~l~~~----------~~~~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          11 RKDFFDREKEIEKLKGL----------RAPITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             GGGSCCCHHHHHHHHHT----------CSSEEEEEESTTSSHHHHHHHHHH
T ss_pred             hhhCCChHHHHHHHHhc----------cCCEEEEEcCCCCcHHHHHHHHHH
Confidence            46799999999998752          225788999999999999999886

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=97.97  E-value=2e-05  Score=78.89  Aligned_cols=73  Identities=14%  Similarity=-0.001  Sum_probs=49.3

Q ss_pred             cCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCC-eEEEEEeCCchhHH
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFE-KVIWVCVSDTFEEI  196 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~~~~  196 (876)
                      .+..++||+.++++|.++|...-.......+.+.|+|++|+||||+|+.+++  .+.+.+. ..+|+.........
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~--~l~~~~~~~~~~~~~~~~~~~~   87 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWE--LYKDKTTARFVYINGFIYRNFT   87 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHH--HHTTSCCCEEEEEETTTCCSHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHH--HHhcccCCcEEEecchhhhhhh
Confidence            3456899999999999988642100023567889999999999999999998  4444433 23455544433333

>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=97.96  E-value=4.2e-06  Score=81.42  Aligned_cols=131  Identities=15%  Similarity=0.115  Sum_probs=81.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc-cC-CeEEEEEeCCchhHHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR-NF-EKVIWVCVSDTFEEIRVANA  201 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~F-~~~~wv~vs~~~~~~~~~~~  201 (876)
                      .++||.++.++.+..++...      ....+-++|+.|+||||+|+.+.+.  +.. .+ ..+.=+..++..+.......
T Consensus        14 ~divg~~~~~~~L~~~i~~~------~~~~lLl~Gp~G~GKttl~~~la~~--l~~~~~~~~~~e~~~~~~~~~~~~~~~   85 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEG------KLPHLLFYGPPGTGKTSTIVALARE--IYGKNYSNMVLELNASDDRGIDVVRNQ   85 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT------CCCCEEEECSSSSSHHHHHHHHHHH--HHTTSHHHHEEEECTTSCCSHHHHHTH
T ss_pred             HHccCcHHHHHHHHHHHHcC------CCCeEEEECCCCCChhHHHHHHHHH--hhcCCCcceeEEecccccCCeeeeecc
Confidence            46999999999999998653      3334669999999999999999873  221 11 12222333443333222211


Q ss_pred             HHHh---------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHH-hhCCcceEeCCCCCcccc
Q 042981          202 IIEG---------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVAR-MMGSTNIIFIEQLTEEES  262 (876)
Q Consensus       202 i~~~---------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~-~~~~~~~~~l~~L~~~~~  262 (876)
                      ....               +|++.......-..++..+......++++++|... .+.. .......+++.+++.++-
T Consensus        86 ~~~~~~~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~~~~i  163 (227)
T d1sxjc2          86 IKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAI  163 (227)
T ss_dssp             HHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHH
T ss_pred             hhhccccccccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhcccccccccc
Confidence            1111               78876554444455777777777788888888753 2222 223456788888887775

>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=97.86  E-value=1.1e-05  Score=78.16  Aligned_cols=159  Identities=14%  Similarity=0.111  Sum_probs=94.5

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccC--CeEEEEEeCCchhHHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNF--EKVIWVCVSDTFEEIRVANA  201 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~~~~~  201 (876)
                      +++||.++.++++..++...      ...-+-++|+.|+||||+|+.+.+  .+...+  ..+.-+..++......+...
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~------~~~~~ll~Gp~G~GKTt~a~~la~--~l~~~~~~~~~~~~n~~~~~~~~~i~~~   86 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDG------NMPHMIISGMPGIGKTTSVHCLAH--ELLGRSYADGVLELNASDDRGIDVVRNQ   86 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSC------CCCCEEEECSTTSSHHHHHHHHHH--HHHGGGHHHHEEEECTTSCCSHHHHHTH
T ss_pred             HHhcCCHHHHHHHHHHHHcC------CCCeEEEECCCCCCchhhHHHHHH--HHhccccccccccccccccCCceehhhH
Confidence            57999999999999998753      334467999999999999998886  332222  12334445554443333322


Q ss_pred             ---HHHh-------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHH-hhCCcceEeCCCCCcccc-
Q 042981          202 ---IIEG-------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVAR-MMGSTNIIFIEQLTEEES-  262 (876)
Q Consensus       202 ---i~~~-------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~-~~~~~~~~~l~~L~~~~~-  262 (876)
                         ....             +|++..........++..+.......++++||.+. .+.. ..+....+++++++.++- 
T Consensus        87 ~~~~~~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~~~~~~i~  166 (224)
T d1sxjb2          87 IKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVL  166 (224)
T ss_dssp             HHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHH
T ss_pred             HHHHHHhhccCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhcccchhhhH
Confidence               2221             67776554444455666666666667777776653 3322 223456889999998876 


Q ss_pred             -ccCC-Cc-CCccchHHHHHHHHHHcCCCch
Q 042981          263 -FSGR-SF-EDCEKLEPIGRKIARKCKGLPL  290 (876)
Q Consensus       263 -~f~~-~~-~~~~~l~~~~~~i~~~c~GlPl  290 (876)
                       +... .. +...--.+....|++.|+|-+-
T Consensus       167 ~~l~~i~~~e~~~i~~~~l~~I~~~s~Gd~R  197 (224)
T d1sxjb2         167 KRLLQIIKLEDVKYTNDGLEAIIFTAEGDMR  197 (224)
T ss_dssp             HHHHHHHHHHTCCBCHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHhcccCCCHHHHHHHHHHcCCcHH
Confidence             1110 00 0011123455778888887653

>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=97.83  E-value=1.6e-05  Score=77.76  Aligned_cols=131  Identities=13%  Similarity=0.048  Sum_probs=79.2

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc---cCCeEEEEEeCCchhHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR---NFEKVIWVCVSDTFEEIRVAN  200 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~F~~~~wv~vs~~~~~~~~~~  200 (876)
                      ++++|.++.++.+..++...      ..+.+-++|+.|+||||+|+.+++.  +..   .......+..+..........
T Consensus        12 ~diig~~~~~~~l~~~i~~~------~~~~lll~Gp~G~GKTtl~~~i~~~--l~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSA------NLPHMLFYGPPGTGKTSTILALTKE--LYGPDLMKSRILELNASDERGISIVRE   83 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCT------TCCCEEEECSTTSSHHHHHHHHHHH--HHHHHHHTTSEEEECSSSCCCHHHHTT
T ss_pred             HHccCcHHHHHHHHHHHHcC------CCCeEEEECCCCCChHHHHHHHHHH--HcCCcccccchhheeccccccchHHHH
Confidence            45899999999999988643      3344779999999999999999873  211   122233344444433322221


Q ss_pred             HH---HHh----------------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCch-HHHHh-hCCcceEe
Q 042981          201 AI---IEG----------------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNE-SVARM-MGSTNIIF  253 (876)
Q Consensus       201 ~i---~~~----------------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~-~v~~~-~~~~~~~~  253 (876)
                      .+   ...                      +|++.......+..+...+.......++++||... .+... ......++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~  163 (237)
T d1sxjd2          84 KVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFR  163 (237)
T ss_dssp             HHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEE
T ss_pred             HHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhhc
Confidence            11   111                      67765544445555655555555666777776543 22221 12246788


Q ss_pred             CCCCCcccc
Q 042981          254 IEQLTEEES  262 (876)
Q Consensus       254 l~~L~~~~~  262 (876)
                      +++++.++.
T Consensus       164 f~~~~~~~~  172 (237)
T d1sxjd2         164 FKALDASNA  172 (237)
T ss_dssp             CCCCCHHHH
T ss_pred             ccccccccc
Confidence            888888875

>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=97.82  E-value=7.4e-06  Score=79.85  Aligned_cols=131  Identities=15%  Similarity=0.138  Sum_probs=80.0

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccc-cCC-eEEEEEeCCchhHHHHHHH
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKR-NFE-KVIWVCVSDTFEEIRVANA  201 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~F~-~~~wv~vs~~~~~~~~~~~  201 (876)
                      ++++|.++.++++..++...      ..+-+-++|+.|+||||+|+.+.+  .+.. .++ ..+-+..+...+...+...
T Consensus        24 ~diig~~~~~~~l~~~i~~~------~~~~lll~Gp~G~GKTtla~~iak--~l~~~~~~~~~~e~n~s~~~~~~~~~~~   95 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTG------SMPHLLFAGPPGVGKTTAALALAR--ELFGENWRHNFLELNASDERGINVIREK   95 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT------CCCEEEEESCTTSSHHHHHHHHHH--HHHGGGHHHHEEEEETTCHHHHHTTHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC------CCCeEEEECCCCCcHHHHHHHHHH--HHHhcccCCCeeEEecCcccchhHHHHH
Confidence            57999999999999998753      445577999999999999999987  3321 222 1222344443333222222


Q ss_pred             HHHh---------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCc-hHHHHh-hCCcceEeCCCCCcccc
Q 042981          202 IIEG---------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRN-ESVARM-MGSTNIIFIEQLTEEES  262 (876)
Q Consensus       202 i~~~---------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~-~~v~~~-~~~~~~~~l~~L~~~~~  262 (876)
                      +...               +|++.......+..++..+........+|.||.. ..+... ......+.+.+.+.++.
T Consensus        96 ~~~~~~~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~~~~~~~  173 (231)
T d1iqpa2          96 VKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDI  173 (231)
T ss_dssp             HHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHH
T ss_pred             HHHHHhhhhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccccccccchhhH
Confidence            2211               6777655555666677776655555566666544 333222 22345777887777665

>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=97.71  E-value=1.9e-06  Score=78.67  Aligned_cols=65  Identities=18%  Similarity=0.109  Sum_probs=32.8

Q ss_pred             HHHhccCCcceEEecCccccccCCCCCccccc---ccccccCcccCeeeccCccccccch-hhccCCcccEEeecCCC
Q 042981          489 SELFSKLACFRALVIGQRNFIFDPYPNLIREI---PENVRKLIHLKYLNLSELCIERLPK-TLCELYNLQKLDIRWCE  562 (876)
Q Consensus       489 ~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~l---p~~i~~L~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~L~~~~  562 (876)
                      ..++..++.|++|+|         ++|.++.+   +..+..+++|++|+|++|.|+.+++ ...+..+|+.|++++|.
T Consensus        58 ~~~~~~~~~L~~L~L---------s~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Np  126 (162)
T d1koha1          58 RIIEENIPELLSLNL---------SNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNS  126 (162)
T ss_dssp             HHHHHHCTTCCCCCC---------CSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTST
T ss_pred             HHHHHhCCCCCEeeC---------CCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCC
Confidence            333455666666666         44444433   2334455666666666666665544 12223345555555553

>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=97.67  E-value=1.8e-05  Score=78.11  Aligned_cols=161  Identities=12%  Similarity=0.067  Sum_probs=84.3

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCc----cccccCCeEEEEEeCC--------
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNND----EVKRNFEKVIWVCVSD--------  191 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~----~~~~~F~~~~wv~vs~--------  191 (876)
                      .+++|.++.++.+..++....     ...-+-|+|++|+||||+|+++++.-    .....++...|...+.        
T Consensus        11 ~diig~~~~~~~L~~~~~~~~-----~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPR-----DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   85 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT-----CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhc
Confidence            469999888888877665432     33346699999999999999987631    1111222222221110        


Q ss_pred             -----------------chhHHHHHHHHHHh--------------------ccccccCCccChhhHHhhhccCCCCCEEE
Q 042981          192 -----------------TFEEIRVANAIIEG--------------------LDDVWDGDYNKWEPFFHCLKHGLHGSKIL  234 (876)
Q Consensus       192 -----------------~~~~~~~~~~i~~~--------------------lDdvw~~~~~~~~~l~~~l~~~~~gs~ii  234 (876)
                                       ........+.....                    +|++.....+.+..+...+.......++|
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~I  165 (252)
T d1sxje2          86 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLI  165 (252)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEE
T ss_pred             cCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchhhhcccccccccccce
Confidence                             00111111111110                    56665544455666666666666677777


Q ss_pred             EEcCchH-HHH-hhCCcceEeCCCCCcccc--c----cCCCcCCccchHHHHHHHHHHcCCCch
Q 042981          235 LTTRNES-VAR-MMGSTNIIFIEQLTEEES--F----SGRSFEDCEKLEPIGRKIARKCKGLPL  290 (876)
Q Consensus       235 vTTR~~~-v~~-~~~~~~~~~l~~L~~~~~--~----f~~~~~~~~~l~~~~~~i~~~c~GlPl  290 (876)
                      +||.+.+ +.. ..+....+++.+++.++.  +    +... ...-.-+++.+.|++.+.|-+-
T Consensus       166 l~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e-~~~~~~~~~l~~i~~~s~Gd~R  228 (252)
T d1sxje2         166 MVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNE-RIQLETKDILKRIAQASNGNLR  228 (252)
T ss_dssp             EEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHH-TCEECCSHHHHHHHHHHTTCHH
T ss_pred             eeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHc-CCCCCcHHHHHHHHHHcCCcHH
Confidence            7776542 211 112235788899888876  1    1110 0111113455677777777653

>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=97.61  E-value=1.1e-05  Score=73.53  Aligned_cols=89  Identities=20%  Similarity=0.138  Sum_probs=66.7

Q ss_pred             cccccccCcccCeeeccCccccccc---hhhccCCcccEEeecCCCCCccccc-cccCcCCCceEecCCCCCCccCCc--
Q 042981          520 IPENVRKLIHLKYLNLSELCIERLP---KTLCELYNLQKLDIRWCEDLRELPA-GIGKLKKMRSLLNGGTPLLKYMPI--  593 (876)
Q Consensus       520 lp~~i~~L~~Lr~L~Ls~~~i~~lp---~~i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~L~l~~~~~~~~~p~--  593 (876)
                      ++.....+++|++|+|++|.|+.++   ..+..+++|++|+|++| .+..++. ...+..+|+.|++++|++......  
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 LRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERELDKIKGLKLEELWLDGNSLSDTFRDQS  135 (162)
T ss_dssp             HHHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTS-CCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHH
T ss_pred             hHHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccC-ccccchhhhhhhccccceeecCCCCcCcCcccch
Confidence            3333467899999999999998664   55788999999999999 5666654 233556799999999987654432  


Q ss_pred             -----cCCCCCCCCccCceee
Q 042981          594 -----GISKLTSLRTLEKFAM  609 (876)
Q Consensus       594 -----~i~~l~~L~~L~~~~~  609 (876)
                           -+..+++|+.|+...+
T Consensus       136 ~y~~~i~~~~P~L~~LDg~~v  156 (162)
T d1koha1         136 TYISAIRERFPKLLRLDGHEL  156 (162)
T ss_dssp             HHHHHHHTTSTTCCEETTEEC
T ss_pred             hHHHHHHHHCCCCCEECcCCC
Confidence                 2567899999965443

>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=97.55  E-value=0.00016  Score=70.38  Aligned_cols=160  Identities=17%  Similarity=0.185  Sum_probs=96.9

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCc----cc----------------cccCCe
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNND----EV----------------KRNFEK  183 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~----~~----------------~~~F~~  183 (876)
                      .+++|.++.++.+..++....     -.+.+-|+|..|+||||+|+.+.+.-    ..                ..+|+ 
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~-----~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~-   85 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVD-   85 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTC-----CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTT-
T ss_pred             HHccChHHHHHHHHHHHHcCC-----CCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCe-
Confidence            479999999999999887532     23557799999999999999876421    00                01122 


Q ss_pred             EEEEEeCCchhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH-HHHh-hC
Q 042981          184 VIWVCVSDTFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES-VARM-MG  247 (876)
Q Consensus       184 ~~wv~vs~~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~~~-~~  247 (876)
                      .+.+..+....... .+.+++.              +|++..-+.+.-..++..+.....++++|+||.+.+ +... -.
T Consensus        86 ~~~~~~~~~~~i~~-ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~S  164 (239)
T d1njfa_          86 LIEIDAASRTKVED-TRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILS  164 (239)
T ss_dssp             EEEEETTCSSSHHH-HHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHT
T ss_pred             EEEecchhcCCHHH-HHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHhh
Confidence            34555544443333 3345544              788766554455567777777667788888876642 2222 23


Q ss_pred             CcceEeCCCCCcccc--ccCC-C-cCCccchHHHHHHHHHHcCCCch
Q 042981          248 STNIIFIEQLTEEES--FSGR-S-FEDCEKLEPIGRKIARKCKGLPL  290 (876)
Q Consensus       248 ~~~~~~l~~L~~~~~--~f~~-~-~~~~~~l~~~~~~i~~~c~GlPl  290 (876)
                      ....+.+.+++.++-  .... . .+...--.+....|++.++|-+-
T Consensus       165 Rc~~i~~~~~~~~~i~~~l~~i~~~e~~~~~~~~l~~i~~~s~Gd~R  211 (239)
T d1njfa_         165 RCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLR  211 (239)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHTTTCHH
T ss_pred             hhcccccccCcHHHhhhHHHHHHhhhccCCCHHHHHHHHHHcCCCHH
Confidence            456888999887775  1000 0 00111123455677778877663

>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=97.52  E-value=0.00039  Score=63.61  Aligned_cols=130  Identities=15%  Similarity=0.172  Sum_probs=75.1

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC---ccc-cccCCeEEEE-EeC----Cch--
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN---DEV-KRNFEKVIWV-CVS----DTF--  193 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~---~~~-~~~F~~~~wv-~vs----~~~--  193 (876)
                      .++||++++++++..|....      -.-+.+||.+|+|||++++.+++.   .++ ...-+..+|. +++    ..-  
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~------k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~r   96 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYR   96 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSH
T ss_pred             CCcCcHHHHHHHHHHHhccC------CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCcc
Confidence            48899999999999998643      223569999999999998777652   111 2233455553 322    111  


Q ss_pred             -hHHHHHHHHHHh-----------ccccccC--------CccChhhHHhhhccCCCCCEEEEEcCchHHHHhhC------
Q 042981          194 -EEIRVANAIIEG-----------LDDVWDG--------DYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMG------  247 (876)
Q Consensus       194 -~~~~~~~~i~~~-----------lDdvw~~--------~~~~~~~l~~~l~~~~~gs~iivTTR~~~v~~~~~------  247 (876)
                       +.++-++.+++.           +|++..-        ..+.-+.++.++..+  .-++|.||..++..+...      
T Consensus        97 G~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg--~l~~IgatT~eey~~~~e~d~aL~  174 (195)
T d1jbka_          97 GEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--ELHCVGATTLDEYRQYIEKDAALE  174 (195)
T ss_dssp             HHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTT--SCCEEEEECHHHHHHHTTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCC--CceEEecCCHHHHHHHHHcCHHHH
Confidence             223333333332           6766431        111223344444432  356888888776665432      


Q ss_pred             -CcceEeCCCCCcccc
Q 042981          248 -STNIIFIEQLTEEES  262 (876)
Q Consensus       248 -~~~~~~l~~L~~~~~  262 (876)
                       ....+.|+..+.+++
T Consensus       175 rrF~~I~V~Ep~~e~t  190 (195)
T d1jbka_         175 RRFQKVFVAEPSVEDT  190 (195)
T ss_dssp             TTEEEEECCCCCHHHH
T ss_pred             hcCCEeecCCCCHHHH
Confidence             235777777776654

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.51  E-value=0.00027  Score=68.65  Aligned_cols=49  Identities=31%  Similarity=0.353  Sum_probs=37.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +++||.+..++++..++...... ...++-+-++|++|+||||+|+.+++
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~-~~~~~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKAR-KEPLEHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTS-SSCCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhc-CCCCCeEEEECCCCCCHHHHHHHHHH
Confidence            46899998888888887643221 22345567999999999999999987

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.41  E-value=0.00019  Score=69.85  Aligned_cols=49  Identities=31%  Similarity=0.351  Sum_probs=37.6

Q ss_pred             CceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +++||.+..++++..++...... ....+-+-++|++|+||||+|+.+.+
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~-~~~~~~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMR-GEVLDHVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHH-TCCCCCEEEESSTTSSHHHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhc-CCCCCeEEEECCCCCcHHHHHHHHHh
Confidence            56999999999998888542110 12344567999999999999999987

>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=97.40  E-value=0.00033  Score=68.12  Aligned_cols=131  Identities=17%  Similarity=0.147  Sum_probs=72.9

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC---ccccc-cCCeEEEE-EeCC-------c
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN---DEVKR-NFEKVIWV-CVSD-------T  192 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~---~~~~~-~F~~~~wv-~vs~-------~  192 (876)
                      .++||++++++++..|....     . .-+.+||.+|+|||++++.+++.   .++.. .....+|. +++.       .
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~-----k-~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~   92 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRR-----K-NNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYR   92 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS-----S-CEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCS
T ss_pred             cccChHHHHHHHHHHHhcCc-----c-CCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccc
Confidence            48999999999999997543     2 33459999999999988777752   11111 22345554 2211       1


Q ss_pred             hhHHHHHHHHHHh----------ccccccC-----Cc---cChhhHHhhhccCCCCCEEEEEcCchHHHHhhCC------
Q 042981          193 FEEIRVANAIIEG----------LDDVWDG-----DY---NKWEPFFHCLKHGLHGSKILLTTRNESVARMMGS------  248 (876)
Q Consensus       193 ~~~~~~~~~i~~~----------lDdvw~~-----~~---~~~~~l~~~l~~~~~gs~iivTTR~~~v~~~~~~------  248 (876)
                      -..++-++.++..          +|++..-     ..   .+...+..+.-. ...=++|.||..++.......      
T Consensus        93 g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~eey~~~~e~d~al~r  171 (268)
T d1r6bx2          93 GDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFSNIFEKDRALAR  171 (268)
T ss_dssp             SCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHHHCCCCCTTSSGG
T ss_pred             hhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh-CCCCeEEEeCCHHHHHHHHhhcHHHHh
Confidence            2334444555544          6766431     00   112222222222 224678888887777654321      


Q ss_pred             -cceEeCCCCCcccc
Q 042981          249 -TNIIFIEQLTEEES  262 (876)
Q Consensus       249 -~~~~~l~~L~~~~~  262 (876)
                       ...+.|++.+.+++
T Consensus       172 rF~~I~V~Eps~e~t  186 (268)
T d1r6bx2         172 RFQKIDITEPSIEET  186 (268)
T ss_dssp             GEEEEECCCCCHHHH
T ss_pred             hhcccccCCCCHHHH
Confidence             23555555554443

>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=97.31  E-value=0.0005  Score=64.98  Aligned_cols=134  Identities=24%  Similarity=0.250  Sum_probs=73.8

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHH--HH-------HHHHHHh-----ccccccCC-cc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEI--RV-------ANAIIEG-----LDDVWDGD-YN  215 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~--~~-------~~~i~~~-----lDdvw~~~-~~  215 (876)
                      ...+.|+|..|+|||.|++++++  +.......+++++..+-....  .+       ..+.++.     +||+.... ..
T Consensus        36 ~n~l~l~G~~G~GKTHLl~A~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dll~iDDi~~i~~~~  113 (213)
T d1l8qa2          36 YNPIFIYGSVGTGKTHLLQAAGN--EAKKRGYRVIYSSADDFAQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFLSGKE  113 (213)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHH--HHHHTTCCEEEEEHHHHHHHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGGTTCH
T ss_pred             CCcEEEECCCCCcHHHHHHHHHH--HhccCccceEEechHHHHHHHHHHHHccchhhHHHHHhhccchhhhhhhhhcCch
Confidence            34478999999999999999998  444555566677655422110  00       1111222     89885432 23


Q ss_pred             Chhh-HHhhhcc-CCCCCEEEEEcCch---------HHHHhhCCcceEeCCCCCccccccCCCcCCccchHHHHHHHHHH
Q 042981          216 KWEP-FFHCLKH-GLHGSKILLTTRNE---------SVARMMGSTNIIFIEQLTEEESFSGRSFEDCEKLEPIGRKIARK  284 (876)
Q Consensus       216 ~~~~-l~~~l~~-~~~gs~iivTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~f~~~~~~~~~l~~~~~~i~~~  284 (876)
                      .|+. +...+.. ...|.+||+||+..         ++...+....++++++ ++ +           ....+.++.++ 
T Consensus       114 ~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~p-~d-~-----------~~~~iL~~~a~-  179 (213)
T d1l8qa2         114 RTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DN-K-----------TRFKIIKEKLK-  179 (213)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CH-H-----------HHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEECC-Cc-H-----------HHHHHHHHHHH-
Confidence            5554 3333332 24577899999843         2333344455666642 32 1           23334444443 


Q ss_pred             cCCCchHHHHhhhhhc
Q 042981          285 CKGLPLAAKATGNLLR  300 (876)
Q Consensus       285 c~GlPlai~~~~~~L~  300 (876)
                      -.|+.+.-.++--+++
T Consensus       180 ~rgl~l~~~v~~yl~~  195 (213)
T d1l8qa2         180 EFNLELRKEVIDYLLE  195 (213)
T ss_dssp             HTTCCCCHHHHHHHHH
T ss_pred             HcCCCCCHHHHHHHHH
Confidence            3466666555555543

>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=97.23  E-value=0.00062  Score=64.13  Aligned_cols=154  Identities=14%  Similarity=0.118  Sum_probs=93.8

Q ss_pred             cchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCc------------------ccc-ccCCeEEEEEeC
Q 042981          130 VDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNND------------------EVK-RNFEKVIWVCVS  190 (876)
Q Consensus       130 ~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~------------------~~~-~~F~~~~wv~vs  190 (876)
                      +...+++.+.+....     -.+.+-++|..|+||||+|+.+.+.-                  .+. .......++...
T Consensus         8 ~~~~~~l~~~~~~~~-----l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   82 (207)
T d1a5ta2           8 RPDFEKLVASYQAGR-----GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPE   82 (207)
T ss_dssp             HHHHHHHHHHHHTTC-----CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCC
T ss_pred             HHHHHHHHHHHHcCC-----cCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhh
Confidence            445667777666432     34568899999999999999776510                  011 112233344332


Q ss_pred             C---chhHHHHHHHHHHh--------------ccccccCCccChhhHHhhhccCCCCCEEEEEcCchH-HHHhh-CCcce
Q 042981          191 D---TFEEIRVANAIIEG--------------LDDVWDGDYNKWEPFFHCLKHGLHGSKILLTTRNES-VARMM-GSTNI  251 (876)
Q Consensus       191 ~---~~~~~~~~~~i~~~--------------lDdvw~~~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~~~~-~~~~~  251 (876)
                      .   ...... .+++.+.              +|++...+.+....++..+-....+.++|+||++.+ +.... +....
T Consensus        83 ~~~~~i~~~~-ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~  161 (207)
T d1a5ta2          83 KGKNTLGVDA-VREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRL  161 (207)
T ss_dssp             TTCSSBCHHH-HHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             hcccccccch-hhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEE
Confidence            2   122222 2333332              788877666678888888888778889888887753 43322 44578


Q ss_pred             EeCCCCCcccc--ccCCCcCCccchHHHHHHHHHHcCCCchHH
Q 042981          252 IFIEQLTEEES--FSGRSFEDCEKLEPIGRKIARKCKGLPLAA  292 (876)
Q Consensus       252 ~~l~~L~~~~~--~f~~~~~~~~~l~~~~~~i~~~c~GlPlai  292 (876)
                      +.+.+++.++.  +......   --.+....|++.++|.|-.+
T Consensus       162 i~~~~~~~~~~~~~L~~~~~---~~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         162 HYLAPPPEQYAVTWLSREVT---MSQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             EECCCCCHHHHHHHHHHHCC---CCHHHHHHHHHHTTTCHHHH
T ss_pred             EecCCCCHHHHHHHHHHcCC---CCHHHHHHHHHHcCCCHHHH
Confidence            99999998887  2211111   11355677888888877544

>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=97.09  E-value=0.00055  Score=67.02  Aligned_cols=66  Identities=24%  Similarity=0.243  Sum_probs=45.9

Q ss_pred             CceeeccchHHHHHHHhhcc-----------CCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCc
Q 042981          124 GEVCGRVDEKNELLSKLLFE-----------SSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT  192 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~-----------~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~  192 (876)
                      .+++|.+..+++|.++|..-           ...+....+.+-++|++|+||||+|+++++.  ..   -..+++..+..
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~--~~---~~~~~~~~~~~   88 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQE--LG---YDILEQNASDV   88 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHH--TT---CEEEEECTTSC
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHH--HH---hhhhccccccc
Confidence            57999999999999988530           0001234568899999999999999999973  21   22445655554


Q ss_pred             hh
Q 042981          193 FE  194 (876)
Q Consensus       193 ~~  194 (876)
                      .+
T Consensus        89 ~~   90 (253)
T d1sxja2          89 RS   90 (253)
T ss_dssp             CC
T ss_pred             hh
Confidence            33

>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=97.06  E-value=0.00021  Score=71.46  Aligned_cols=52  Identities=25%  Similarity=0.218  Sum_probs=38.4

Q ss_pred             cCCceeeccchHHHHHHHhhcc----CCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          122 DEGEVCGRVDEKNELLSKLLFE----SSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~----~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .+..++||+.+.++|.+.+...    ... .....++.|+|++|+||||+|+++++.
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~-~~~~~~l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGL-SDVNMIYGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCB-CCEEEEEECTTCCSSSHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCC-CCcceEEEeECCCCCCHHHHHHHHHHH
Confidence            4567999999999998877432    110 122345677899999999999999973

>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=97.01  E-value=0.00021  Score=64.94  Aligned_cols=114  Identities=11%  Similarity=0.045  Sum_probs=58.1

Q ss_pred             CCCcceEEeeecCCCCCCCCchhh---hHHHhccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCccc
Q 042981          464 GLNRLRTLLIYFQSPSNPSLNSSI---LSELFSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCI  540 (876)
Q Consensus       464 ~~~~Lr~L~l~~~~~~~~~~~~~~---~~~~~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i  540 (876)
                      +.++|+.|++.++.    .+....   +...+...+.|+.|+|++|.+.    ......+.+.+...+.|++|+|++|.|
T Consensus        13 n~~~L~~L~L~~~~----~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~----~~~~~~la~~L~~n~~L~~L~L~~n~i   84 (167)
T d1pgva_          13 DDTDLKEVNINNMK----RVSKERIRSLIEAACNSKHIEKFSLANTAIS----DSEARGLIELIETSPSLRVLNVESNFL   84 (167)
T ss_dssp             TCSSCCEEECTTCC----SSCHHHHHHHHHHHTTCSCCCEEECTTSCCB----HHHHTTHHHHHHHCSSCCEEECCSSBC
T ss_pred             CCCCCcEEEeCCCC----CCCHHHHHHHHHHHhhCCccceeeccccccc----hhHHHHHhhhhhhcccccceeeehhhc
Confidence            34667777775322    122221   2223556666777777433321    111122334445556677777777776


Q ss_pred             c-----ccchhhccCCcccEEeecCCCCCc-------cccccccCcCCCceEecCCC
Q 042981          541 E-----RLPKTLCELYNLQKLDIRWCEDLR-------ELPAGIGKLKKMRSLLNGGT  585 (876)
Q Consensus       541 ~-----~lp~~i~~L~~L~~L~L~~~~~l~-------~lp~~i~~L~~L~~L~l~~~  585 (876)
                      +     .+-..+...+.|++|++++|....       .+...+..-++|+.|+++.+
T Consensus        85 ~~~g~~~l~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_          85 TPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             CHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             chHHHHHHHHHHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHHhCCCccEeeCcCC
Confidence            5     233445566667777776653111       12333444566666666544

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=96.46  E-value=0.00084  Score=60.79  Aligned_cols=96  Identities=14%  Similarity=0.080  Sum_probs=63.5

Q ss_pred             hhHHHhccCCcceEEecCccc-cccCCCCCcccccccccccCcccCeeeccCcccc-----ccchhhccCCcccEEeecC
Q 042981          487 ILSELFSKLACFRALVIGQRN-FIFDPYPNLIREIPENVRKLIHLKYLNLSELCIE-----RLPKTLCELYNLQKLDIRW  560 (876)
Q Consensus       487 ~~~~~~~~l~~Lr~L~L~~~~-~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~-----~lp~~i~~L~~L~~L~L~~  560 (876)
                      .+..+..+.+.|+.|+|++++ +    ....+..+-..+....+|++|+|++|.+.     .+...+...+.|++|+|++
T Consensus         6 ~l~~l~~n~~~L~~L~L~~~~~i----~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~   81 (167)
T d1pgva_           6 CINRLREDDTDLKEVNINNMKRV----SKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVES   81 (167)
T ss_dssp             HHHHHHTTCSSCCEEECTTCCSS----CHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCS
T ss_pred             HHHHHHhCCCCCcEEEeCCCCCC----CHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeeh
Confidence            345556678899999995321 2    11122234455667788999999999876     4445566778899999998


Q ss_pred             CCCCcc----ccccccCcCCCceEecCCCC
Q 042981          561 CEDLRE----LPAGIGKLKKMRSLLNGGTP  586 (876)
Q Consensus       561 ~~~l~~----lp~~i~~L~~L~~L~l~~~~  586 (876)
                      |.....    +-..+..-++|++|++++|.
T Consensus        82 n~i~~~g~~~l~~aL~~n~sL~~L~l~~n~  111 (167)
T d1pgva_          82 NFLTPELLARLLRSTLVTQSIVEFKADNQR  111 (167)
T ss_dssp             SBCCHHHHHHHHHHTTTTCCCSEEECCCCS
T ss_pred             hhcchHHHHHHHHHHHhCCcCCEEECCCCc
Confidence            843322    23345666788888888773

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.18  E-value=0.0017  Score=66.93  Aligned_cols=129  Identities=19%  Similarity=0.228  Sum_probs=67.6

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc----CccccccCCeEEEE-EeCCc-----h-
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN----NDEVKRNFEKVIWV-CVSDT-----F-  193 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~----~~~~~~~F~~~~wv-~vs~~-----~-  193 (876)
                      .+|||+++++++++.|.....      .-+.+||.+|||||+++..+++    ..-.....+.++|. +++.-     + 
T Consensus        23 ~~~gr~~ei~~~~~~L~r~~k------~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~   96 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRRTK------NNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYR   96 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCSSC------CCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC----------
T ss_pred             CCcCcHHHHHHHHHHHhcCCC------CCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcc
Confidence            488999999999999985432      2236789999999997755543    21112234555654 33221     1 


Q ss_pred             -hHHHHHHHHHHh-----------ccccccC--------CccChhhHHhhhccCCCCCEEEEEcCchHHHHhhC------
Q 042981          194 -EEIRVANAIIEG-----------LDDVWDG--------DYNKWEPFFHCLKHGLHGSKILLTTRNESVARMMG------  247 (876)
Q Consensus       194 -~~~~~~~~i~~~-----------lDdvw~~--------~~~~~~~l~~~l~~~~~gs~iivTTR~~~v~~~~~------  247 (876)
                       ....-++.|+..           +|++..-        ..+.-+-++.++..+  .-++|-+|..+.... +.      
T Consensus        97 g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg--~~~~I~~tT~~ey~~-~e~d~al~  173 (387)
T d1qvra2          97 GEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--ELRLIGATTLDEYRE-IEKDPALE  173 (387)
T ss_dssp             -CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTT--CCCEEEEECHHHHHH-HTTCTTTC
T ss_pred             hhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC--CcceeeecCHHHHHH-hcccHHHH
Confidence             222233334333           6666431        112223344444443  345777776665543 22      


Q ss_pred             -CcceEeCCCCCcccc
Q 042981          248 -STNIIFIEQLTEEES  262 (876)
Q Consensus       248 -~~~~~~l~~L~~~~~  262 (876)
                       ....+.|++.+.+++
T Consensus       174 rrF~~v~v~ep~~~~~  189 (387)
T d1qvra2         174 RRFQPVYVDEPTVEET  189 (387)
T ss_dssp             SCCCCEEECCCCHHHH
T ss_pred             HhcccccCCCCcHHHH
Confidence             134666777776665

>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=96.16  E-value=0.0011  Score=61.12  Aligned_cols=24  Identities=17%  Similarity=0.192  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -.+.|.|.|+.|+||||||+++.+
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH
Confidence            358899999999999999999986

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.09  E-value=0.0033  Score=58.34  Aligned_cols=37  Identities=30%  Similarity=0.287  Sum_probs=27.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEE
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVC  188 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~  188 (876)
                      +.-||+|.|..|+||||||+++..  ...........++
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~--~l~~~~~~~~~~~   57 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQ--TLREQGISVCVFH   57 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH--HHHHTTCCEEEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH--Hhccccccceecc
Confidence            567999999999999999999986  3444443443333

>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=96.06  E-value=0.00087  Score=60.43  Aligned_cols=22  Identities=36%  Similarity=0.425  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|+|++|+||||+|+.+..
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            4688889999999999999987

>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=96.05  E-value=0.0018  Score=58.48  Aligned_cols=90  Identities=18%  Similarity=0.063  Sum_probs=42.1

Q ss_pred             hccCCcceEEecCccccccCCCCCcccccccccccCcccCeeeccCcccc-----ccchhhccCCcccEEeecCCC-CCc
Q 042981          492 FSKLACFRALVIGQRNFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIE-----RLPKTLCELYNLQKLDIRWCE-DLR  565 (876)
Q Consensus       492 ~~~l~~Lr~L~L~~~~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~-----~lp~~i~~L~~L~~L~L~~~~-~l~  565 (876)
                      +...++|+.|+|++|.+.    .-....+-+.+.....|++|++++|.+.     .+...+...++|+.++|..+. .+.
T Consensus        42 l~~n~~L~~L~Ls~n~l~----~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~l~~n~i~  117 (166)
T d1io0a_          42 LKTNTYVKKFSIVGTRSN----DPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLG  117 (166)
T ss_dssp             HTTCCSCCEEECTTSCCC----HHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCC
T ss_pred             HhcCCccCeeeccCCccc----HHHHHHHHHHHhhcccchhhhhccccccchhHHHHHHHHHhCccccEEeeccCCCcCc
Confidence            445566666666333221    0111123333444556666666666544     233445555666655554321 111


Q ss_pred             -----cccccccCcCCCceEecCCC
Q 042981          566 -----ELPAGIGKLKKMRSLLNGGT  585 (876)
Q Consensus       566 -----~lp~~i~~L~~L~~L~l~~~  585 (876)
                           .+...+.+.++|++|++..+
T Consensus       118 ~~~~~~La~~L~~n~~L~~L~l~~~  142 (166)
T d1io0a_         118 NNVEMEIANMLEKNTTLLKFGYHFT  142 (166)
T ss_dssp             HHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             HHHHHHHHHHHHhCCCcCEEeCcCC
Confidence                 13333445566666665544

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=96.03  E-value=0.0017  Score=58.82  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|++|+|..|+|||||++++.+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46999999999999999999986

>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=95.98  E-value=0.0016  Score=57.80  Aligned_cols=22  Identities=32%  Similarity=0.410  Sum_probs=19.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|+|++|+||||+|+++..
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999998864

>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=95.85  E-value=0.0019  Score=58.69  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|.|++|+||||+|+++..
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            6899999999999999999875

>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=95.85  E-value=0.0018  Score=59.31  Aligned_cols=36  Identities=19%  Similarity=0.141  Sum_probs=27.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccc-cCCeEEEE
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKR-NFEKVIWV  187 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~F~~~~wv  187 (876)
                      +-.||.|+|+.|+||||+|+++..  ++.. .++...++
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~--~L~~~~~~~~~~~   41 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQV--TLNQQGGRSVSLL   41 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH--HHHHHCSSCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH--HHhhcCCCchhhh
Confidence            457899999999999999999987  5543 34555444

>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=95.77  E-value=0.0021  Score=59.70  Aligned_cols=36  Identities=22%  Similarity=0.113  Sum_probs=27.0

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEE
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWV  187 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  187 (876)
                      +-.||.++|++|+||||+|+++..  +....+....++
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~--~l~~~~~~~~~~   53 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEE--YLVCHGIPCYTL   53 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHH--HHHHTTCCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH--HHHhcCCCccch
Confidence            346888999999999999999986  454444444443

>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=95.75  E-value=0.0028  Score=62.41  Aligned_cols=43  Identities=23%  Similarity=0.299  Sum_probs=31.2

Q ss_pred             cchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          130 VDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       130 ~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++...+.++.+...... .+..+.|-++|++|+||||||+++++
T Consensus        12 ~~~~~~~~~~~~~~~~~-~~~P~~ilL~GpPGtGKT~la~~la~   54 (273)
T d1gvnb_          12 ENRLNDNLEELIQGKKA-VESPTAFLLGGQPGSGKTSLRSAIFE   54 (273)
T ss_dssp             HHHHHHHHHHHHTTCCC-CSSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccC-CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34455555556544322 34677888999999999999999997

>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=95.71  E-value=0.016  Score=53.46  Aligned_cols=104  Identities=12%  Similarity=0.004  Sum_probs=65.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCcc--ccccCCeEEEEEeC-CchhHHHHHHHHHHh--------------ccccccC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDE--VKRNFEKVIWVCVS-DTFEEIRVANAIIEG--------------LDDVWDG  212 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~--~~~~F~~~~wv~vs-~~~~~~~~~~~i~~~--------------lDdvw~~  212 (876)
                      ...-+-++|.+|+||||+|..+.+...  ...|-| ..++.-. ....+..+. ++.+.              +|++..-
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~IR-~i~~~~~~~~~~~~~KviIId~ad~l   91 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDIR-TIKDFLNYSPELYTRKYVIVHDCERM   91 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHHH-HHHHHHTSCCSSSSSEEEEETTGGGB
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHHH-HHHHHHhhCcccCCCEEEEEeCcccc
Confidence            567899999999999999998876321  112223 4444432 233343332 33333              8888877


Q ss_pred             CccChhhHHhhhccCCCCCEEEEEcCchH-HHHhh-CCcceEeCC
Q 042981          213 DYNKWEPFFHCLKHGLHGSKILLTTRNES-VARMM-GSTNIIFIE  255 (876)
Q Consensus       213 ~~~~~~~l~~~l~~~~~gs~iivTTR~~~-v~~~~-~~~~~~~l~  255 (876)
                      +.+.+..++..+-....++.+|+||.+.+ +.... +....+.+.
T Consensus        92 ~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~  136 (198)
T d2gnoa2          92 TQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVN  136 (198)
T ss_dssp             CHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             chhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCC
Confidence            77888889998888777888877777643 33222 233455554

>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=95.56  E-value=0.0025  Score=58.49  Aligned_cols=22  Identities=41%  Similarity=0.490  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|.|+|.+|+|||||++++..
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            5689999999999999999987

>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=95.51  E-value=0.0037  Score=57.93  Aligned_cols=25  Identities=24%  Similarity=0.219  Sum_probs=22.8

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+.||.|+|++|+||||+|+.+++
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3678999999999999999999986

>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=95.50  E-value=0.0025  Score=57.44  Aligned_cols=20  Identities=40%  Similarity=0.561  Sum_probs=17.6

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.++||+|+||||+|+.+++
T Consensus         4 IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            44669999999999999997

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.48  E-value=0.0035  Score=56.64  Aligned_cols=26  Identities=27%  Similarity=0.502  Sum_probs=23.5

Q ss_pred             CCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          148 QKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       148 ~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++..+++.|.|+.|+||||+|+.+..
T Consensus         3 ~~~~~iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           3 NHDHHIYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             CTTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            45679999999999999999999986

>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=95.45  E-value=0.004  Score=56.01  Aligned_cols=22  Identities=36%  Similarity=0.359  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +|++|+|..|+|||||+.++..
T Consensus         2 kii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            6999999999999999999876

>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=95.42  E-value=0.0094  Score=59.53  Aligned_cols=49  Identities=18%  Similarity=0.286  Sum_probs=35.1

Q ss_pred             ceeeccchHHHHHHHhhccC---CcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          125 EVCGRVDEKNELLSKLLFES---SEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++|.++.++.|...+....   ...+....++.++|+.|+|||.+|+.+.+
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHH
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHH
Confidence            47888888888877664321   11123345888999999999999998875

>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=95.41  E-value=0.0058  Score=58.83  Aligned_cols=48  Identities=23%  Similarity=0.162  Sum_probs=35.0

Q ss_pred             CceeeccchHHHHHHHhhc------cCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLF------ESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~------~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+||..+.++.+++.+..      ...  ....+-|-++|++|+|||++|+++++
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~--~~p~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSD--RTPLVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCS--SCSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccC--CCCCeEEEEECcCCCCHHHHHHHHhh
Confidence            4588887777776665541      111  22456688999999999999999998

>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=95.39  E-value=0.0026  Score=56.99  Aligned_cols=20  Identities=40%  Similarity=0.605  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|+||+|+||||+|+.++.
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            67889999999999999987

>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=95.37  E-value=0.0031  Score=57.06  Aligned_cols=22  Identities=41%  Similarity=0.456  Sum_probs=19.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..|.|.|++|+||||+|+.+.+
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            3467999999999999999986

>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=95.27  E-value=0.0047  Score=57.35  Aligned_cols=25  Identities=28%  Similarity=0.321  Sum_probs=23.1

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +..+||.|.|++|+||||+|+.+++
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            4689999999999999999999986

>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=95.27  E-value=0.0035  Score=57.58  Aligned_cols=22  Identities=41%  Similarity=0.678  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +||.|.|+.|+||||+++.+..
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            7999999999999999999986

>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=95.22  E-value=0.0022  Score=64.46  Aligned_cols=50  Identities=22%  Similarity=0.290  Sum_probs=34.8

Q ss_pred             CceeeccchHHHHHHHhhc----c--CC--cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLF----E--SS--EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~----~--~~--~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.++.++.+...+..    .  ..  ......+.+.++|++|+|||.||+++++
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            3578988888888765521    0  00  0011346677999999999999999997

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=95.21  E-value=0.0062  Score=54.72  Aligned_cols=96  Identities=10%  Similarity=0.040  Sum_probs=60.2

Q ss_pred             hhhhHHHhccCCcceEEecCcc-ccccCCCCCcccccccccccCcccCeeeccCcccc-----ccchhhccCCcccEEee
Q 042981          485 SSILSELFSKLACFRALVIGQR-NFIFDPYPNLIREIPENVRKLIHLKYLNLSELCIE-----RLPKTLCELYNLQKLDI  558 (876)
Q Consensus       485 ~~~~~~~~~~l~~Lr~L~L~~~-~~~~~~~~~~i~~lp~~i~~L~~Lr~L~Ls~~~i~-----~lp~~i~~L~~L~~L~L  558 (876)
                      ......+..+.+.|+.|+|+++ .+    ....+..+-..+...++|+.|+|++|.++     .+-..+...+.|+.|++
T Consensus         6 ~~~l~~~~~~~~~L~~L~L~~~~~i----~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l   81 (166)
T d1io0a_           6 EETLKRIQNNDPDLEEVNLNNIMNI----PVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNV   81 (166)
T ss_dssp             HHHHHHHHTTCTTCCEEECTTCTTC----CHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEEC
T ss_pred             HHHHHHHHhcCCCCcEEEcCCCCCC----CHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhh
Confidence            4445566677788888888432 11    11122234455667788999999998876     34455667788888888


Q ss_pred             cCCCCCc----cccccccCcCCCceEecCC
Q 042981          559 RWCEDLR----ELPAGIGKLKKMRSLLNGG  584 (876)
Q Consensus       559 ~~~~~l~----~lp~~i~~L~~L~~L~l~~  584 (876)
                      ++|....    .+-..+...++|+.++|..
T Consensus        82 ~~~~~~~~g~~~l~~~l~~~~~L~~l~L~l  111 (166)
T d1io0a_          82 ESNFISGSGILALVEALQSNTSLIELRIDN  111 (166)
T ss_dssp             CSSCCCHHHHHHHHHGGGGCSSCCEEECCC
T ss_pred             ccccccchhHHHHHHHHHhCccccEEeecc
Confidence            8874322    2334456667777766643

>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=95.16  E-value=0.0051  Score=55.75  Aligned_cols=23  Identities=35%  Similarity=0.462  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -++|.|.|+.|+||||+|+.+.+
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            47999999999999999999976

>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=95.10  E-value=0.0047  Score=58.05  Aligned_cols=23  Identities=30%  Similarity=0.394  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.+|.++|.+|+||||+|+++++
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            36899999999999999999986

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=95.05  E-value=0.0032  Score=56.96  Aligned_cols=21  Identities=33%  Similarity=0.379  Sum_probs=18.9

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|.++|++|+||||+|+.+++
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

>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=95.03  E-value=0.0046  Score=56.07  Aligned_cols=23  Identities=22%  Similarity=0.267  Sum_probs=21.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+||.|.|..|+||||+|+.+.+
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            47899999999999999999986

>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=94.98  E-value=0.0087  Score=55.01  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|.|+.|+||||+|+.+..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            7899999999999999999986

>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=94.91  E-value=0.0061  Score=55.08  Aligned_cols=25  Identities=32%  Similarity=0.406  Sum_probs=22.2

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +...+|-++|++|+||||+|++...
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999998875

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=94.90  E-value=0.0062  Score=55.04  Aligned_cols=24  Identities=29%  Similarity=0.344  Sum_probs=20.8

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..-.|.|.|++|+||||+|+.+.+
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            345688999999999999999986

>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=94.88  E-value=0.021  Score=54.74  Aligned_cols=45  Identities=24%  Similarity=0.276  Sum_probs=35.7

Q ss_pred             ceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          125 EVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       125 ~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++||....++++.+.+..-..   .+.+ |-|.|..|+|||++|+.++.
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~---~~~p-vlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISC---AECP-VLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTT---CCSC-EEEECSTTSSHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhC---CCCC-EEEECCCCcCHHHHHHHHHH
Confidence            478888889999888876432   1333 57899999999999999986

>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=94.75  E-value=0.009  Score=57.99  Aligned_cols=50  Identities=24%  Similarity=0.224  Sum_probs=36.6

Q ss_pred             CceeeccchHHHHHHHhhc----cC---CcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLF----ES---SEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~----~~---~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++++|.++.+++|.+.+..    .+   ..+-...+-|-++|++|+|||++|+++.+
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            4689999999888886431    10   00012346678999999999999999997

>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=94.70  E-value=0.011  Score=56.81  Aligned_cols=50  Identities=30%  Similarity=0.300  Sum_probs=34.5

Q ss_pred             CceeeccchHHHHHHHh---hccC---CcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKL---LFES---SEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L---~~~~---~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++++|.++.+++|.+.+   ....   .-+....+-|-++|+.|.|||++|+++.+
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHH
Confidence            47999988777665533   2110   00012345688999999999999999997

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=94.34  E-value=0.011  Score=56.88  Aligned_cols=50  Identities=28%  Similarity=0.234  Sum_probs=35.1

Q ss_pred             CceeeccchHHHHHHHh---hccCC---cCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKL---LFESS---EQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L---~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.++.+++|.+.+   .....   -+....+.+-++|++|+|||++|+++.+
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            57999998887776543   22110   0012346678999999999999999997

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.31  E-value=0.0091  Score=54.17  Aligned_cols=20  Identities=40%  Similarity=0.546  Sum_probs=19.0

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|+|..|+|||||++.+..
T Consensus         3 i~I~G~~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHh
Confidence            78999999999999999987

>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=94.19  E-value=0.011  Score=54.57  Aligned_cols=22  Identities=27%  Similarity=0.283  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+|.|.|++|+||||.|+.+++
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            5899999999999999999986

>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=94.10  E-value=0.012  Score=55.21  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=20.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +-||||.|..|+||||+|+.+.+
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            46899999999999999998876

>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=94.04  E-value=0.024  Score=56.56  Aligned_cols=98  Identities=12%  Similarity=0.190  Sum_probs=59.4

Q ss_pred             CceeeccchHHHHHHHhhccC---CcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCc--------
Q 042981          124 GEVCGRVDEKNELLSKLLFES---SEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDT--------  192 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~~~---~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~--------  192 (876)
                      ..++|.++.++.+...+....   ...+....++.++|+.|+|||.||+.+..  .+   +...+-+..+.-        
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~--~l---~~~~i~~d~s~~~~~~~~~~   96 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSK--AL---GIELLRFDMSEYMERHTVSR   96 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHH--HH---TCEEEEEEGGGCSSSSCCSS
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHh--hc---cCCeeEeccccccchhhhhh
Confidence            458899988988877664211   11133456889999999999999999986  22   222333332210        


Q ss_pred             -------h---hHHHHHHHHHHh-------ccccccCCccChhhHHhhhcc
Q 042981          193 -------F---EEIRVANAIIEG-------LDDVWDGDYNKWEPFFHCLKH  226 (876)
Q Consensus       193 -------~---~~~~~~~~i~~~-------lDdvw~~~~~~~~~l~~~l~~  226 (876)
                             +   +........+..       +|++.....+.|..+...+..
T Consensus        97 l~g~~~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa~~~V~~~lLqild~  147 (315)
T d1r6bx3          97 LIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDN  147 (315)
T ss_dssp             SCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHH
T ss_pred             hcccCCCccccccCChhhHHHHhCccchhhhcccccccchHhhhhHHhhcc
Confidence                   0   111222222232       888887777777777777653

>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=93.98  E-value=0.013  Score=57.24  Aligned_cols=22  Identities=32%  Similarity=0.543  Sum_probs=19.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|+|+|-||+||||+|-.+..
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~   23 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTS   23 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHHH
Confidence            7899999999999999977665

>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=93.91  E-value=0.014  Score=53.68  Aligned_cols=23  Identities=35%  Similarity=0.489  Sum_probs=20.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++++| |+|++|+||||+|+.+..
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            56777 789999999999999986

>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=93.72  E-value=0.013  Score=55.38  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+||+|.|++|+||||+|+.+.+
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            35999999999999999999987

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=93.72  E-value=0.041  Score=54.78  Aligned_cols=63  Identities=17%  Similarity=0.103  Sum_probs=32.6

Q ss_pred             HHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEE--eCCchhHHHHHHHH
Q 042981          134 NELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVC--VSDTFEEIRVANAI  202 (876)
Q Consensus       134 ~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~--vs~~~~~~~~~~~i  202 (876)
                      .++++.+...    ..+..+|+|.|.+|+|||||..++..  .....-..++-+.  .+..++-..++.+-
T Consensus        41 ~~ll~~~~~~----~~~~~~IgitG~pGaGKSTLi~~l~~--~~~~~g~~vavlavDpss~~~ggailgdr  105 (327)
T d2p67a1          41 TQLLDAIMPY----CGNTLRLGVTGTPGAGKSTFLEAFGM--LLIREGLKVAVIAVDPSSPVTGGSILGDK  105 (327)
T ss_dssp             HHHHHHHGGG----CSCSEEEEEEECTTSCHHHHHHHHHH--HHHHTTCCEEEEEECCC------------
T ss_pred             HHHHHHhhhc----cCCceEEEeeCCCCCCHHHHHHHHHH--HHHhcCCceeeecCCCceeeeccccccch
Confidence            4455555433    23679999999999999999988875  2333222333343  44445544454443

>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=93.64  E-value=0.027  Score=52.02  Aligned_cols=43  Identities=30%  Similarity=0.214  Sum_probs=27.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEE  195 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~  195 (876)
                      +.+||.++|+.|+||||.+-++..  ..+..-..++.++.. .+..
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~--~~~~~g~kV~lit~D-t~R~   51 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLAL--YYKGKGRRPLLVAAD-TQRP   51 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHH--HHHHTTCCEEEEECC-SSCH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH--HHHHCCCcEEEEecc-cccc
Confidence            568999999999999976655544  233333345655553 3443

>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=93.59  E-value=0.037  Score=51.01  Aligned_cols=46  Identities=30%  Similarity=0.413  Sum_probs=30.0

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHH
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  197 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  197 (876)
                      ....||.+||+.|+||||-+-++..  +.+ .....+.+...+++....
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~--~~~-~~g~kV~lit~Dt~R~gA   52 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLAR--QFE-QQGKSVMLAAGDTFRAAA   52 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHH--HHH-TTTCCEEEECCCTTCHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH--HHH-HCCCcEEEEecccccccc
Confidence            4578999999999999976555554  233 223345555556666543

>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=93.52  E-value=0.02  Score=52.53  Aligned_cols=23  Identities=35%  Similarity=0.400  Sum_probs=20.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~  172 (876)
                      ++-||||.|+.|+||||+|+.+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999999774

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=93.23  E-value=0.023  Score=52.85  Aligned_cols=25  Identities=36%  Similarity=0.298  Sum_probs=22.3

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++-.||-+.|++|+||||||+++..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3567999999999999999999986

>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=93.20  E-value=0.018  Score=52.32  Aligned_cols=20  Identities=40%  Similarity=0.529  Sum_probs=18.4

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|.|++|+||||+|+.+..
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            66999999999999999976

>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=93.14  E-value=0.021  Score=52.59  Aligned_cols=24  Identities=29%  Similarity=0.296  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|.|.|++|+||||+|+.+.+
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            458999999999999999999986

>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=93.12  E-value=0.06  Score=53.49  Aligned_cols=37  Identities=19%  Similarity=0.297  Sum_probs=28.0

Q ss_pred             HHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          133 KNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       133 ~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++++.+...    ..+..+|+|.|.+|+|||||..++..
T Consensus        37 ~~~~~~~~~~~----~~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          37 VRDLIDAVLPQ----TGRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             HHHHHHHHGGG----CCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHHHHHhhhc----cCCceEEeeeCCCCCCHHHHHHHHHH
Confidence            44455555443    24679999999999999999988875

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=93.05  E-value=0.044  Score=53.81  Aligned_cols=26  Identities=31%  Similarity=0.346  Sum_probs=23.2

Q ss_pred             CCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          148 QKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       148 ~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+-||||.|..|+||||+|+.+..
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            35678999999999999999999876

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=93.02  E-value=0.02  Score=53.94  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -+|+|-|++|+||||+|+.+..
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            3688999999999999999987

>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=93.02  E-value=0.02  Score=52.45  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=19.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -++ |.|.|++|+||||+|+.+..
T Consensus         6 ~mr-IiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           6 LLR-AAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             CCE-EEEECCTTSSHHHHHHHHHH
T ss_pred             cee-EEEECCCCCCHHHHHHHHHH
Confidence            344 45779999999999999986

>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=92.99  E-value=0.014  Score=56.81  Aligned_cols=50  Identities=26%  Similarity=0.260  Sum_probs=35.3

Q ss_pred             CceeeccchHHHHHHHhhc---cC----CcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLF---ES----SEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~---~~----~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|.++.+++|.+.+..   ..    ..+-...+-|-++|+.|.|||+||+++++
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~   63 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN   63 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHH
Confidence            4588888877777766531   10    00122346678999999999999999997

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.98  E-value=0.024  Score=51.37  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=18.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++| |.|++|+||||+|+.+..
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            4555 779999999999999986

>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=92.82  E-value=0.046  Score=50.49  Aligned_cols=41  Identities=24%  Similarity=0.252  Sum_probs=27.7

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCC
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  191 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  191 (876)
                      ....||.+||+.|+||||-+-+++.  +...+=..++.|+...
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa--~~~~~~~kV~lit~Dt   49 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAK--MFVDEGKSVVLAAADT   49 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHH--HHHHTTCCEEEEEECT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH--HHHHCCCceEEEeecc
Confidence            4678999999999999975544444  2222224577776654

>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=92.81  E-value=0.022  Score=51.70  Aligned_cols=20  Identities=35%  Similarity=0.356  Sum_probs=18.4

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|.|++|+||||+|+.+++
T Consensus         3 I~i~G~pGsGKsT~a~~La~   22 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAE   22 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67889999999999999986

>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=92.76  E-value=0.023  Score=52.34  Aligned_cols=25  Identities=24%  Similarity=0.150  Sum_probs=21.9

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHc
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...-+|+|-|.-|+||||+|+.+.+
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            4556999999999999999998875

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=92.75  E-value=0.023  Score=51.67  Aligned_cols=20  Identities=45%  Similarity=0.554  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|.|++|+||||+|+.++.
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            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=92.75  E-value=0.024  Score=51.56  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|+|+.|+|||||++++..
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            5788999999999999999875

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=92.70  E-value=0.022  Score=52.15  Aligned_cols=21  Identities=24%  Similarity=0.289  Sum_probs=18.9

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|.|.|++|+||||+|+.+.+
T Consensus         5 ~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999876

>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=92.67  E-value=0.028  Score=55.44  Aligned_cols=38  Identities=26%  Similarity=0.342  Sum_probs=24.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVS  190 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  190 (876)
                      .++|+|.|-||+||||+|-.+..  .....=..++-|...
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~--~LA~~G~rVLlID~D   39 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVA--ALAEMGKKVMIVGCD   39 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH--HHHHTTCCEEEEEEC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHH--HHHHCCCCEEEEecC
Confidence            46788999999999998876654  222221235555554

>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=92.60  E-value=0.02  Score=52.28  Aligned_cols=21  Identities=33%  Similarity=0.529  Sum_probs=19.0

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -|.|+|+.|+|||||++++.+
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~   23 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            477999999999999999876

>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=92.58  E-value=0.02  Score=52.56  Aligned_cols=20  Identities=35%  Similarity=0.606  Sum_probs=18.4

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|+|+.|+||||||+++..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67999999999999999876

>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=92.28  E-value=0.043  Score=50.50  Aligned_cols=40  Identities=25%  Similarity=0.251  Sum_probs=26.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  191 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  191 (876)
                      +.+||.++|+.|+||||.+-+++..  .+.+=..++.|+...
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~--~~~~g~kV~lit~Dt   44 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRY--YQNLGKKVMFCAGDT   44 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHH--HHTTTCCEEEECCCC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH--HHHCCCcEEEEEecc
Confidence            5689999999999999866555542  222213566666543

>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=92.20  E-value=0.053  Score=52.99  Aligned_cols=35  Identities=31%  Similarity=0.459  Sum_probs=25.6

Q ss_pred             HHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          133 KNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       133 ~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ...+.+.+.      .+..+||.+.|-||+||||+|-.+..
T Consensus         8 ~~~~~~~~~------~~~~~iii~sGKGGVGKTT~a~nLA~   42 (279)
T d1ihua2           8 LSALVDDIA------RNEHGLIMLMGKGGVGKTTMAAAIAV   42 (279)
T ss_dssp             HHHHHHHHH------TTSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhh------cCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            344555554      24679999999999999998766654

>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=92.19  E-value=0.047  Score=51.64  Aligned_cols=38  Identities=26%  Similarity=0.281  Sum_probs=28.6

Q ss_pred             eEEEEEE-ecCCchHHHHHHHHHcCccccccCCeEEEEEeC
Q 042981          151 LHVISLV-GLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVS  190 (876)
Q Consensus       151 ~~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  190 (876)
                      .|||+|+ |-||+||||+|..+..  ...+.=..++.|...
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            3899999 8899999999988776  344443467777754

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.12  E-value=0.03  Score=50.52  Aligned_cols=22  Identities=18%  Similarity=0.449  Sum_probs=20.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.|.|+|+.|+|||||++++..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999998885

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=91.96  E-value=0.035  Score=50.21  Aligned_cols=20  Identities=40%  Similarity=0.408  Sum_probs=18.2

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.|.|++|+||||+|+.+++
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            56899999999999999986

>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=91.93  E-value=0.055  Score=49.84  Aligned_cols=41  Identities=37%  Similarity=0.208  Sum_probs=22.8

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCC
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  191 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  191 (876)
                      ....||.+||+.|+||||.+-+++...+ +.. ..++.|+...
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g-~kV~lit~Dt   50 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK-KKG-FKVGLVGADV   50 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH-HTT-CCEEEEECCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC-CceEEEEeec
Confidence            4679999999999999975544443222 222 2466776653

>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=91.61  E-value=0.032  Score=51.34  Aligned_cols=22  Identities=36%  Similarity=0.576  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|+|||||.+.++.
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~g   49 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTIST   49 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            5899999999999999999986

>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=91.52  E-value=0.061  Score=51.41  Aligned_cols=33  Identities=33%  Similarity=0.461  Sum_probs=25.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEE
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWV  187 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  187 (876)
                      .+++|+|..|.|||||++.+..   +...-.+.+++
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~G---l~~p~~G~I~~   61 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINF---LEKPSEGAIIV   61 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT---SSCCSEEEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHHc---CccCCCCCEEE
Confidence            6899999999999999999985   33334455554

>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=91.49  E-value=0.072  Score=50.65  Aligned_cols=42  Identities=24%  Similarity=0.223  Sum_probs=33.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCch
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTF  193 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~  193 (876)
                      .-.++-|+|.+|+|||++|.++..  ...++...++|++.....
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~--~~~~~~~~~~~is~e~~~   66 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVE--NACANKERAILFAYEESR   66 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHH--HHHTTTCCEEEEESSSCH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHH--HHHHhccccceeeccCCH
Confidence            447899999999999999988877  355666778888876543

>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=91.47  E-value=0.041  Score=52.46  Aligned_cols=21  Identities=38%  Similarity=0.496  Sum_probs=19.3

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ||.|+|+.|+|||||.+++-+
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            799999999999999988864

>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=91.44  E-value=0.065  Score=50.05  Aligned_cols=33  Identities=21%  Similarity=0.458  Sum_probs=25.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEE
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWV  187 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  187 (876)
                      .+++|+|..|.|||||.+.+..   +...-.+.+++
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~g---l~~p~sG~I~~   64 (230)
T d1l2ta_          32 EFVSIMGPSGSGKSTMLNIIGC---LDKPTEGEVYI   64 (230)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT---SSCCSEEEEEE
T ss_pred             CEEEEECCCCCCcchhhHhccC---CCCCCcceeEE
Confidence            5899999999999999999886   22333455554

>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=91.42  E-value=0.046  Score=51.45  Aligned_cols=22  Identities=32%  Similarity=0.477  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.++.
T Consensus        30 e~~~liG~sGaGKSTll~~i~g   51 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAG   51 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            5899999999999999999986

>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=91.39  E-value=0.05  Score=51.82  Aligned_cols=23  Identities=26%  Similarity=0.327  Sum_probs=21.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++.|+|-|+-|+||||+++.+.+
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            58899999999999999999986

>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=91.26  E-value=0.057  Score=49.47  Aligned_cols=26  Identities=31%  Similarity=0.479  Sum_probs=22.7

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..++.|+|+|..|+|||||...+.+.
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            45678999999999999999999863

>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=91.23  E-value=0.048  Score=51.29  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.++-
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHcC
Confidence            6899999999999999999986

>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=91.09  E-value=0.071  Score=49.42  Aligned_cols=22  Identities=27%  Similarity=0.368  Sum_probs=20.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..|+|-|+.|+||||+|+.+.+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999999987

>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=91.08  E-value=0.035  Score=52.91  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=21.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+.|+|-|+-|+||||+|+.+.+
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            47899999999999999998776

>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=91.05  E-value=0.079  Score=52.16  Aligned_cols=40  Identities=20%  Similarity=0.272  Sum_probs=26.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSD  191 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~  191 (876)
                      ..++|.+.|-||+||||+|-.+..  ...+.=..+.-|+...
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~--~lA~~G~rVLlvD~Dp   46 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAI--RLAEQGKRVLLVSTDP   46 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHH--HHHHTTCCEEEEECCT
T ss_pred             CCeEEEEECCCcChHHHHHHHHHH--HHHHCCCCEEEEeCCC
Confidence            568889999999999998876654  2222212355555443

>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=90.94  E-value=0.084  Score=49.45  Aligned_cols=33  Identities=18%  Similarity=0.212  Sum_probs=25.2

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCccccccCCeEEEE
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWV  187 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv  187 (876)
                      .+++|+|+.|.|||||.+.++.-   -..-.+.+|+
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl---~~p~~G~I~~   57 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGI---VKPDRGEVRL   57 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS---SCCSEEEEEE
T ss_pred             EEEEEECCCCChHHHHHHHHHcC---CCCCceEEEE
Confidence            37889999999999999999963   2333455554

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=90.83  E-value=0.057  Score=50.48  Aligned_cols=22  Identities=32%  Similarity=0.557  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|+.|.|||||.+.++-
T Consensus        27 ei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            6899999999999999999986

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=90.79  E-value=0.055  Score=51.16  Aligned_cols=22  Identities=45%  Similarity=0.699  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|+|..|.|||||++.+..
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            5799999999999999999986

>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=90.78  E-value=0.08  Score=50.40  Aligned_cols=22  Identities=50%  Similarity=0.671  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        41 e~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          41 EVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            6899999999999999999986

>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=90.74  E-value=0.059  Score=54.50  Aligned_cols=24  Identities=29%  Similarity=0.151  Sum_probs=22.1

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+.+.++|++|+|||++|+.+.+
T Consensus       153 ~~~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         153 KKRYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcCeEEEECCCCCCHHHHHHHHHH
Confidence            557899999999999999999997

>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=90.74  E-value=0.056  Score=51.56  Aligned_cols=22  Identities=41%  Similarity=0.652  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        42 e~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            5899999999999999999975

>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=90.67  E-value=0.059  Score=51.03  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        29 e~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999985

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=90.56  E-value=0.062  Score=50.43  Aligned_cols=22  Identities=32%  Similarity=0.493  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|+.|.|||||.+.+..
T Consensus        33 e~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          33 EFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHHc
Confidence            5899999999999999999986

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=90.46  E-value=0.045  Score=55.20  Aligned_cols=45  Identities=24%  Similarity=0.257  Sum_probs=31.5

Q ss_pred             cCCceeeccchHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHH
Q 042981          122 DEGEVCGRVDEKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       122 ~~~~~vGr~~~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~  172 (876)
                      +-.+++|.+..++.+.-.+...      +..-|-|+|.+|+||||||+.+.
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~------~~h~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDP------GIGGVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCG------GGCCEEEECCGGGCTTHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhcc------CCCeEEEECCCCccHHHHHHHHH
Confidence            3457999987776554333211      11236799999999999999885

>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=90.44  E-value=0.061  Score=50.14  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        27 e~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          27 EYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            5899999999999999999986

>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=90.44  E-value=0.066  Score=51.98  Aligned_cols=22  Identities=32%  Similarity=0.554  Sum_probs=20.6

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+..
T Consensus        63 e~vaivG~nGsGKSTLl~~i~G   84 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILG   84 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhC
Confidence            6899999999999999999986

>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=90.37  E-value=0.062  Score=47.56  Aligned_cols=24  Identities=33%  Similarity=0.466  Sum_probs=20.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++ |+|+|.+|+|||||.+++.++
T Consensus         5 e~k-I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           5 EMR-ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             CEE-EEEECSTTSSHHHHHHHHHHS
T ss_pred             ceE-EEEECCCCCCHHHHHHHHhCC
Confidence            455 679999999999999988765

>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=90.35  E-value=0.062  Score=49.82  Aligned_cols=20  Identities=35%  Similarity=0.454  Sum_probs=18.2

Q ss_pred             EEEEEecCCchHHHHHHHHH
Q 042981          153 VISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~  172 (876)
                      +|||+|+.|+||||.|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998653

>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=90.29  E-value=0.055  Score=47.48  Aligned_cols=21  Identities=38%  Similarity=0.403  Sum_probs=18.2

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|.+|+|||||..++..+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            569999999999999988654

>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=90.07  E-value=0.068  Score=47.31  Aligned_cols=21  Identities=29%  Similarity=0.349  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|.+|+|||||+.++.++
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999888764

>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=90.05  E-value=0.066  Score=49.41  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|.|+|+.|+|||||++.+..
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            5788999999999999998876

>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=89.64  E-value=0.04  Score=53.30  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=18.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +..||+|.|..|+||||+|+++.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHH
Confidence            456999999999999999998765

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.58  E-value=0.12  Score=49.98  Aligned_cols=42  Identities=21%  Similarity=0.271  Sum_probs=29.0

Q ss_pred             CCCeEEEEEEecCCchHHHHHHHHHcCcccccc--C-CeEEEEEeCC
Q 042981          148 QKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRN--F-EKVIWVCVSD  191 (876)
Q Consensus       148 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~--F-~~~~wv~vs~  191 (876)
                      +..+-+|||-|..|+||||||..+..  .+...  + ..++-++..+
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~~--~L~~~~~~~~~v~~iS~Dd   68 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIYN--HLMEKYGGEKSIGYASIDD   68 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHH--HHHHHHGGGSCEEEEEGGG
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHHH--HHHHHhCCCcceEeeccCC
Confidence            34567999999999999999998875  33332  2 2355555544

>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=89.49  E-value=0.13  Score=48.83  Aligned_cols=48  Identities=19%  Similarity=0.227  Sum_probs=32.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCcccccc----CCeEEEEEeCCchhHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRN----FEKVIWVCVSDTFEEIR  197 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~  197 (876)
                      .-+++-|.|.+|+||||+|-++.........    -..++|++....++...
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   84 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVR   84 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHH
Confidence            3478999999999999999777653322222    24678888776665433

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.47  E-value=0.088  Score=46.52  Aligned_cols=21  Identities=29%  Similarity=0.521  Sum_probs=18.0

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|.+|+|||||+..+.++
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999877654

>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=89.35  E-value=0.084  Score=48.76  Aligned_cols=21  Identities=43%  Similarity=0.506  Sum_probs=18.8

Q ss_pred             EEEEEEecCCchHHHHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~  172 (876)
                      -+|||.|.-|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            589999999999999998663

>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=89.34  E-value=0.082  Score=49.91  Aligned_cols=22  Identities=32%  Similarity=0.552  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|+.|.|||||.+.+.-
T Consensus        33 ei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            6899999999999999999986

>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=89.28  E-value=0.19  Score=46.48  Aligned_cols=22  Identities=36%  Similarity=0.590  Sum_probs=20.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +.|+|-|+-|+||||+++.+.+
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHH
Confidence            6789999999999999999986

>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=89.24  E-value=0.085  Score=49.72  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|+.|.|||||.+.+..
T Consensus        29 ei~glvG~nGaGKSTLl~~l~G   50 (238)
T d1vpla_          29 EIFGLIGPNGAGKTTTLRIIST   50 (238)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            6899999999999999999986

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=89.18  E-value=0.087  Score=48.69  Aligned_cols=21  Identities=33%  Similarity=0.561  Sum_probs=19.1

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|+|-|+-|+||||+++.+.+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999998886

>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=89.07  E-value=0.13  Score=48.40  Aligned_cols=37  Identities=35%  Similarity=0.371  Sum_probs=26.8

Q ss_pred             EEEEEE-ecCCchHHHHHHHHHcCccccccCCeEEEEEeC
Q 042981          152 HVISLV-GLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVS  190 (876)
Q Consensus       152 ~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs  190 (876)
                      +||+|+ +-||+||||+|..+..  ...+.-..++-|...
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            799999 6799999999988775  333333456666643

>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=89.07  E-value=0.087  Score=50.27  Aligned_cols=22  Identities=32%  Similarity=0.518  Sum_probs=20.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||++.+.-
T Consensus        31 ei~~liG~nGaGKSTLl~~i~G   52 (254)
T d1g6ha_          31 DVTLIIGPNGSGKSTLINVITG   52 (254)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHHC
Confidence            5899999999999999999986

>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=89.04  E-value=0.097  Score=46.21  Aligned_cols=21  Identities=24%  Similarity=0.374  Sum_probs=18.4

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|.+|+|||||++++.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999987654

>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=89.03  E-value=0.089  Score=46.98  Aligned_cols=21  Identities=24%  Similarity=0.355  Sum_probs=18.3

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|.+|+|||||+.++.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            568999999999999887654

>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=88.89  E-value=0.095  Score=46.40  Aligned_cols=21  Identities=24%  Similarity=0.341  Sum_probs=18.2

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|.+|+|||||++++.++
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999887654

>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=88.87  E-value=0.095  Score=46.30  Aligned_cols=23  Identities=30%  Similarity=0.489  Sum_probs=19.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ++ |.|+|.+|+|||||..++.++
T Consensus         3 ~k-i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           3 LR-LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EE-EEEECSTTSSHHHHHHHHTTC
T ss_pred             EE-EEEECCCCCCHHHHHHHHcCC
Confidence            45 569999999999999987653

>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=88.84  E-value=0.11  Score=46.35  Aligned_cols=21  Identities=29%  Similarity=0.392  Sum_probs=19.3

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .|+|+|..|+|||||.+++..
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            589999999999999999875

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.81  E-value=0.1  Score=46.40  Aligned_cols=23  Identities=26%  Similarity=0.548  Sum_probs=19.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .+ |.++|.+|+|||||...+.++
T Consensus         3 ~K-i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           3 YR-VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EE-EEEECCTTSSHHHHHHHHHTC
T ss_pred             eE-EEEECCCCCCHHHHHHHHHhC
Confidence            44 468999999999999887764

>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=88.80  E-value=0.08  Score=49.73  Aligned_cols=22  Identities=27%  Similarity=0.498  Sum_probs=20.7

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        32 e~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHHc
Confidence            6899999999999999999986

>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=88.75  E-value=0.16  Score=45.29  Aligned_cols=26  Identities=35%  Similarity=0.488  Sum_probs=21.0

Q ss_pred             CCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          148 QKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       148 ~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      +..++ |.++|.+|+|||||..++...
T Consensus        14 ~~~~k-I~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          14 DQEVR-ILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             SSCEE-EEEEESTTSSHHHHHHHHCCS
T ss_pred             CCEEE-EEEECCCCCCHHHHHHHHhcC
Confidence            34566 569999999999999988663

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=88.74  E-value=0.28  Score=49.27  Aligned_cols=53  Identities=15%  Similarity=0.116  Sum_probs=32.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCc-cccccCCeEEEEEeCCchhHHHHHHHHHH
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNND-EVKRNFEKVIWVCVSDTFEEIRVANAIIE  204 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~i~~  204 (876)
                      ++..|.|.+|.||||++.++...- +....=...+.++....-....+.+.+..
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~~~  217 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESLGK  217 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHHTH
T ss_pred             CeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHHHH
Confidence            678899999999999875543310 11111124577777766666665555443

>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=88.69  E-value=0.16  Score=45.46  Aligned_cols=24  Identities=29%  Similarity=0.470  Sum_probs=19.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..+ |.++|.+|+|||||..++...
T Consensus        13 ~~k-I~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          13 TGK-LVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CEE-EEEEEETTSSHHHHHHHHSCC
T ss_pred             CCE-EEEECCCCCCHHHHHHHHhCC
Confidence            445 669999999999999887653

>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=88.66  E-value=0.11  Score=46.31  Aligned_cols=25  Identities=28%  Similarity=0.383  Sum_probs=20.8

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..++| .++|.+|+|||||..++.++
T Consensus        11 k~~kI-vlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          11 KEMRI-LMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             CCEEE-EEEEETTSSHHHHHHHTTCC
T ss_pred             CeEEE-EEECCCCCCHHHHHHHHhcC
Confidence            46775 58899999999999988764

>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=88.66  E-value=0.26  Score=45.42  Aligned_cols=35  Identities=23%  Similarity=0.419  Sum_probs=24.9

Q ss_pred             EEEEEEecCCchHHHHHHHHHcCcccccc-CCeEEEEE
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNNDEVKRN-FEKVIWVC  188 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-F~~~~wv~  188 (876)
                      +-|+|-|+.|+||||+++.+.+  ..... +..+.+..
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            4688999999999999999876  44332 34444443

>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=88.65  E-value=0.11  Score=46.35  Aligned_cols=21  Identities=38%  Similarity=0.548  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|.+|+|||||.+++.++
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999888764

>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=88.57  E-value=0.1  Score=46.34  Aligned_cols=21  Identities=24%  Similarity=0.376  Sum_probs=18.4

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|.+|+|||||...+.++
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            679999999999999887654

>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=88.39  E-value=0.11  Score=46.01  Aligned_cols=21  Identities=33%  Similarity=0.529  Sum_probs=18.4

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|..|+|||||++.+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999987653

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=88.33  E-value=0.31  Score=46.23  Aligned_cols=50  Identities=26%  Similarity=0.303  Sum_probs=34.0

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccc----cccCCeEEEEEeCCchhHHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEV----KRNFEKVIWVCVSDTFEEIRVA  199 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~----~~~F~~~~wv~vs~~~~~~~~~  199 (876)
                      .-+++-|.|.+|+||||+|.++..+...    .......+|+......+.....
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIR   88 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHHH
Confidence            4479999999999999999766542111    1223567888877766655443

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.32  E-value=0.12  Score=45.79  Aligned_cols=23  Identities=26%  Similarity=0.479  Sum_probs=19.2

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .+ |.|+|-+|+|||||...+.++
T Consensus         5 ~K-i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           5 LK-VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EE-EEEECCTTSSHHHHHHHHHHS
T ss_pred             eE-EEEECCCCcCHHHHHHHHHhC
Confidence            44 568899999999999888764

>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=88.22  E-value=0.082  Score=47.58  Aligned_cols=20  Identities=30%  Similarity=0.459  Sum_probs=18.7

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |+|+|.+|+|||||..++.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999875

>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=88.18  E-value=0.12  Score=45.73  Aligned_cols=21  Identities=33%  Similarity=0.474  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|.+|+|||||+.++.++
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=88.12  E-value=0.14  Score=45.85  Aligned_cols=25  Identities=24%  Similarity=0.258  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ....|+|+|..|+|||||..++.+.
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3467999999999999999999864

>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=88.12  E-value=0.12  Score=46.74  Aligned_cols=21  Identities=33%  Similarity=0.415  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|-+|+|||||+..+.++
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            668999999999999888764

>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=87.87  E-value=0.12  Score=45.78  Aligned_cols=21  Identities=38%  Similarity=0.540  Sum_probs=18.3

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|-+|+|||||+.++.++
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            579999999999999887653

>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=87.85  E-value=0.13  Score=45.93  Aligned_cols=21  Identities=24%  Similarity=0.411  Sum_probs=18.1

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|.+|+|||||+.++..+
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999876543

>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=87.72  E-value=0.13  Score=45.82  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=19.0

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ++ |.|+|.+|+|||||+..+.++
T Consensus         7 ~K-v~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HK-LVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EE-EEEEECTTSSHHHHHHHHHHS
T ss_pred             EE-EEEECCCCcCHHHHHHHHHhC
Confidence            44 569999999999999887654

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.68  E-value=0.14  Score=45.75  Aligned_cols=21  Identities=33%  Similarity=0.570  Sum_probs=18.3

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|.+|+|||||...+.++
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            679999999999999887653

>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=87.63  E-value=0.13  Score=45.73  Aligned_cols=21  Identities=24%  Similarity=0.395  Sum_probs=18.1

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|..|+|||||+..+.++
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            578999999999999887654

>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=87.53  E-value=0.16  Score=45.41  Aligned_cols=25  Identities=28%  Similarity=0.327  Sum_probs=21.9

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ....|+|+|..|+|||||..++.+.
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCC
Confidence            3567999999999999999999863

>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=87.44  E-value=0.13  Score=45.43  Aligned_cols=21  Identities=29%  Similarity=0.570  Sum_probs=18.3

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|-+|+|||||..++.++
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999888764

>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=87.42  E-value=0.15  Score=46.46  Aligned_cols=21  Identities=29%  Similarity=0.477  Sum_probs=18.6

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|.+|+|||||+..+.++
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            679999999999999887764

>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=87.31  E-value=0.14  Score=45.42  Aligned_cols=24  Identities=29%  Similarity=0.488  Sum_probs=19.6

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      +.+ |.|+|.+|+|||||...+.++
T Consensus         5 ~~K-i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           5 KYR-LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEE-EEEEECTTSSHHHHHHHHHHS
T ss_pred             ceE-EEEECCCCCCHHHHHHHHHhC
Confidence            455 678999999999999887654

>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=87.30  E-value=0.16  Score=44.93  Aligned_cols=23  Identities=22%  Similarity=0.407  Sum_probs=19.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .-|.|+|..|+|||||...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            34678999999999999887654

>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=87.18  E-value=0.16  Score=44.82  Aligned_cols=21  Identities=38%  Similarity=0.680  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|-+|+|||||..++.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999888764

>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=87.16  E-value=0.4  Score=45.42  Aligned_cols=49  Identities=20%  Similarity=0.205  Sum_probs=35.3

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCc----cccccCCeEEEEEeCCchhHHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNND----EVKRNFEKVIWVCVSDTFEEIRV  198 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~----~~~~~F~~~~wv~vs~~~~~~~~  198 (876)
                      .-+++-|+|.+|+|||++|.++....    .....+..+.|+.....++....
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRL   88 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHHH
Confidence            45799999999999999997775421    12334567888887777665443

>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=87.05  E-value=0.16  Score=45.03  Aligned_cols=24  Identities=21%  Similarity=0.457  Sum_probs=19.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++ |.++|.+|+|||+|.+...++
T Consensus         2 eiK-i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           2 EVK-LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             CEE-EEEECCTTSSHHHHHHHHHHS
T ss_pred             cEE-EEEECCCCCCHHHHHHHHHhC
Confidence            345 468899999999999887764

>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=87.05  E-value=0.11  Score=48.84  Aligned_cols=22  Identities=36%  Similarity=0.543  Sum_probs=20.5

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+++|+|..|.|||||.+.+..
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            5899999999999999999986

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=86.96  E-value=0.18  Score=49.42  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .++-++|.+|+|||.||+++..
T Consensus       124 g~~l~~G~pG~GKT~la~ala~  145 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGE  145 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHH
Confidence            4556689999999999999998

>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=86.91  E-value=0.16  Score=45.69  Aligned_cols=22  Identities=27%  Similarity=0.339  Sum_probs=19.6

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -|+|+|.+|+|||||..++.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999863

>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=86.91  E-value=0.15  Score=48.20  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=20.4

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|||.|..|+||||+|+.+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998865

>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=86.90  E-value=0.085  Score=50.23  Aligned_cols=22  Identities=36%  Similarity=0.622  Sum_probs=20.1

Q ss_pred             EEEEEEecCCchHHHHHHHHHc
Q 042981          152 HVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..++|+|..|.|||||++.+..
T Consensus        45 e~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTT
T ss_pred             CEEEEECCCCCcHHHHHHHHHh
Confidence            5889999999999999998875

>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=86.77  E-value=0.15  Score=45.56  Aligned_cols=21  Identities=33%  Similarity=0.523  Sum_probs=18.4

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|..|+|||||+.++.++
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999887654

>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=86.68  E-value=0.15  Score=44.98  Aligned_cols=21  Identities=29%  Similarity=0.569  Sum_probs=18.1

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|-.|+|||+|...+..+
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            568999999999999887654

>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=86.67  E-value=0.17  Score=45.03  Aligned_cols=24  Identities=33%  Similarity=0.367  Sum_probs=19.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..+ |.|+|.+|+|||||..++-.+
T Consensus        15 ~~k-I~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          15 EHK-VIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             CEE-EEEEESTTSSHHHHHHHHHTT
T ss_pred             eEE-EEEECCCCCCHHHHHHHHhcC
Confidence            455 569999999999999887653

>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=86.63  E-value=0.16  Score=51.17  Aligned_cols=24  Identities=38%  Similarity=0.394  Sum_probs=20.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ....+-.+|+.|+|||-||+.+..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            345688899999999999999875

>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=86.52  E-value=0.28  Score=42.34  Aligned_cols=24  Identities=33%  Similarity=0.310  Sum_probs=21.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      --||.+.|-=|+||||++|.+.+.
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            468999999999999999999864

>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=86.47  E-value=0.16  Score=46.74  Aligned_cols=23  Identities=30%  Similarity=0.371  Sum_probs=20.0

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..|.|+|.+|+|||||..++.+.
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            46899999999999999888753

>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=86.40  E-value=0.17  Score=45.18  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=18.4

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -|.|+|.+|+|||+|+..+.++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3568899999999999887664

>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=86.36  E-value=0.18  Score=46.93  Aligned_cols=25  Identities=40%  Similarity=0.485  Sum_probs=22.4

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++|..|.|.-|.|||||.+++.+.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            5789999999999999999998864

>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=86.15  E-value=0.18  Score=45.48  Aligned_cols=22  Identities=36%  Similarity=0.392  Sum_probs=18.8

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -|.|+|.+|+|||+|.+.+.++
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3689999999999999887664

>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=86.13  E-value=0.17  Score=44.79  Aligned_cols=21  Identities=24%  Similarity=0.433  Sum_probs=17.8

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|..|+|||||..++.++
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999876654

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.11  E-value=0.16  Score=44.28  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=18.7

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -|.++|.+|+|||||...+-+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999887653

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.96  E-value=0.18  Score=46.41  Aligned_cols=23  Identities=30%  Similarity=0.336  Sum_probs=19.8

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |-|.|+|.+|+|||||..++..+
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            35899999999999999888764

>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=85.64  E-value=0.22  Score=44.06  Aligned_cols=21  Identities=38%  Similarity=0.468  Sum_probs=18.3

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|-+|+|||+|+.+..++
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999877554

>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=85.57  E-value=0.21  Score=44.17  Aligned_cols=23  Identities=35%  Similarity=0.619  Sum_probs=19.3

Q ss_pred             EEEEEEecCCchHHHHHHHHHcC
Q 042981          152 HVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       152 ~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .-|.++|-+|+|||||++.+.++
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45679999999999999887654

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.55  E-value=0.19  Score=44.57  Aligned_cols=20  Identities=40%  Similarity=0.664  Sum_probs=17.7

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.++|.+|+|||||++.+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999988764

>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=85.48  E-value=0.14  Score=46.10  Aligned_cols=20  Identities=35%  Similarity=0.627  Sum_probs=18.5

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |+|+|.+++|||||..++.+
T Consensus         4 VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSEE
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999998865

>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=85.32  E-value=0.2  Score=44.03  Aligned_cols=21  Identities=38%  Similarity=0.534  Sum_probs=17.7

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|.+|+|||||..++..+
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            468899999999999877653

>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=85.26  E-value=0.22  Score=44.06  Aligned_cols=23  Identities=30%  Similarity=0.613  Sum_probs=19.1

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcC
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .+ |.++|-.|+|||||+..+.++
T Consensus         5 ~K-i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           5 YK-LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EE-EEEECCTTSSHHHHHHHHHHS
T ss_pred             EE-EEEECCCCcCHHHHHHHHHhC
Confidence            44 457899999999999988764

>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=85.25  E-value=0.19  Score=45.84  Aligned_cols=18  Identities=39%  Similarity=0.580  Sum_probs=16.2

Q ss_pred             EEEEecCCchHHHHHHHH
Q 042981          154 ISLVGLGGMGKTTLAQLA  171 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v  171 (876)
                      |.|+|.+|+|||||..+.
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            568999999999999877

>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=85.25  E-value=0.19  Score=45.53  Aligned_cols=20  Identities=30%  Similarity=0.456  Sum_probs=17.0

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.++|-+|+|||+|.++.-.
T Consensus         5 ivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhh
Confidence            46899999999999987654

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.18  E-value=0.2  Score=44.67  Aligned_cols=21  Identities=29%  Similarity=0.512  Sum_probs=18.3

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|.+|+|||||.+++-++
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999887654

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=85.10  E-value=0.26  Score=51.01  Aligned_cols=50  Identities=24%  Similarity=0.313  Sum_probs=32.7

Q ss_pred             CceeeccchHHHHHHHhhc--------cCCcCCCCeEEEEEEecCCchHHHHHHHHHc
Q 042981          124 GEVCGRVDEKNELLSKLLF--------ESSEQQKGLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       124 ~~~vGr~~~~~~i~~~L~~--------~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ..+||.++.++.+--.+-.        ......-..+=|-++|+.|+|||-||+.++.
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHH
Confidence            4578887777666554421        1110011234578899999999999999987

>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=85.06  E-value=0.21  Score=44.96  Aligned_cols=21  Identities=33%  Similarity=0.550  Sum_probs=18.4

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|..|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999887763

>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=85.05  E-value=0.14  Score=45.54  Aligned_cols=21  Identities=43%  Similarity=0.646  Sum_probs=16.9

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|..|+|||||..++.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999876653

>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=85.02  E-value=0.32  Score=44.80  Aligned_cols=34  Identities=26%  Similarity=0.356  Sum_probs=26.1

Q ss_pred             hHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          132 EKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       132 ~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++++.++|..         ++..++|..|+|||||..++..+
T Consensus        85 g~~~L~~~l~~---------kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          85 GIEELKEYLKG---------KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             THHHHHHHHSS---------SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             hHhhHHHHhcC---------CeEEEECCCCCCHHHHHHhhcch
Confidence            35667766631         46678999999999999999764

>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=84.98  E-value=0.24  Score=44.29  Aligned_cols=21  Identities=33%  Similarity=0.422  Sum_probs=18.1

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|..|+|||+|++.+.++
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            468999999999999887764

>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=84.75  E-value=0.24  Score=43.26  Aligned_cols=20  Identities=20%  Similarity=0.328  Sum_probs=17.9

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |+|+|.+|+|||||..++..
T Consensus         4 I~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            56999999999999988874

>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=84.66  E-value=0.17  Score=45.37  Aligned_cols=25  Identities=36%  Similarity=0.486  Sum_probs=20.3

Q ss_pred             CCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          149 KGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       149 ~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      ..++| .++|.+|+|||||..++...
T Consensus        16 k~~KI-~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          16 KELRI-LILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             SCEEE-EEEEETTSSHHHHHHHTCCS
T ss_pred             ceEEE-EEECCCCCCHHHHHHHHhcC
Confidence            46665 49999999999999987553

>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=84.65  E-value=0.44  Score=44.88  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=20.3

Q ss_pred             eEEEEEEecCCchHHHHHHHHHc
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -+++-|.|.+|+||||+|.++..
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~   56 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCV   56 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHH
Confidence            37999999999999999977764

>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=84.57  E-value=0.23  Score=44.68  Aligned_cols=24  Identities=29%  Similarity=0.527  Sum_probs=20.5

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcC
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .++ |+|+|..|+|||||..++.+.
T Consensus         8 ~~k-V~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           8 AIK-VAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             CEE-EEEECSTTSSHHHHHHHHHTS
T ss_pred             CCE-EEEECCCCCCHHHHHHHHHCC
Confidence            455 689999999999999988764

>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=84.48  E-value=0.28  Score=44.02  Aligned_cols=22  Identities=36%  Similarity=0.357  Sum_probs=18.6

Q ss_pred             EEEEEecCCchHHHHHHHHHcC
Q 042981          153 VISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      -|.|+|.+|+|||+|..++..+
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3679999999999999887654

>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=84.24  E-value=0.8  Score=41.98  Aligned_cols=48  Identities=17%  Similarity=0.173  Sum_probs=29.9

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccc----cCCeEEEEEeCCchhHHHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKR----NFEKVIWVCVSDTFEEIRV  198 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~~  198 (876)
                      -+++-|.|.+|+||||+|.++..+.....    .+....++..........+
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   74 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL   74 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHHH
Confidence            36899999999999999977764322111    2234555555554444333

>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=84.14  E-value=0.25  Score=43.90  Aligned_cols=21  Identities=38%  Similarity=0.637  Sum_probs=18.0

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|-+|+|||||+..+.++
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999776653

>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=84.08  E-value=0.19  Score=45.11  Aligned_cols=24  Identities=17%  Similarity=0.165  Sum_probs=20.7

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      +...|+|+|.+++|||||..++..
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhC
Confidence            456689999999999999988865

>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=84.07  E-value=0.25  Score=43.98  Aligned_cols=21  Identities=19%  Similarity=0.336  Sum_probs=18.0

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|.+|+|||||...+.++
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            578999999999999877653

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=83.91  E-value=0.26  Score=47.28  Aligned_cols=24  Identities=25%  Similarity=0.191  Sum_probs=21.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      ++|-|+|+|-+|.|||||+.++..
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHH
Confidence            678899999999999999987753

>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=83.14  E-value=0.32  Score=43.97  Aligned_cols=21  Identities=38%  Similarity=0.401  Sum_probs=17.6

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.++|-.|+|||+|+.++.++
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999776654

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=83.14  E-value=0.53  Score=46.39  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=21.1

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHc
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      .+-.|.|-|.-|+||||+++.+.+
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~   28 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMAS   28 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHS
T ss_pred             ceEEEEEECCccCCHHHHHHHHHH
Confidence            355678889999999999999998

>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=82.72  E-value=0.55  Score=44.65  Aligned_cols=45  Identities=18%  Similarity=0.263  Sum_probs=33.7

Q ss_pred             eEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  197 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  197 (876)
                      -+++-|+|..|+||||||-++.....  ..=..++|++....++...
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~q--~~g~~~vyidtE~~~~~~~   98 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAAQ--REGKTCAFIDAEHALDPIY   98 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHH--HTTCCEEEEESSCCCCHHH
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHH--cCCCEEEEEccccccCHHH
Confidence            36899999999999999977776432  2223578998888777643

>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=82.56  E-value=0.59  Score=44.49  Aligned_cols=46  Identities=22%  Similarity=0.167  Sum_probs=35.2

Q ss_pred             CeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEEeCCchhHHH
Q 042981          150 GLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEEIR  197 (876)
Q Consensus       150 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~  197 (876)
                      .-+++-|.|..|+||||+|-+++....  ..=..++|+..-..++.+.
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q--~~g~~~vyIDtE~~~~~e~  104 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQ--AAGGVAAFIDAEHALDPDY  104 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHH--HTTCEEEEEESSCCCCHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHh--cCCCEEEEEECCccCCHHH
Confidence            457899999999999999977765322  3334689999888887654

>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=82.25  E-value=0.31  Score=44.15  Aligned_cols=20  Identities=30%  Similarity=0.431  Sum_probs=17.2

Q ss_pred             EEEEecCCchHHHHHHHHHc
Q 042981          154 ISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~  173 (876)
                      |.++|-+|+|||+|..++..
T Consensus         5 iv~lG~~~vGKTsll~r~~~   24 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRI   24 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            46899999999999988754

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=82.21  E-value=0.37  Score=45.93  Aligned_cols=22  Identities=41%  Similarity=0.669  Sum_probs=19.5

Q ss_pred             eEEEEEEecCCchHHHHHHHHH
Q 042981          151 LHVISLVGLGGMGKTTLAQLAY  172 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v~  172 (876)
                      +|-|+|+|-.|.|||||+.++.
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll   23 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALL   23 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Confidence            4779999999999999998773

>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=81.90  E-value=0.21  Score=44.42  Aligned_cols=21  Identities=29%  Similarity=0.406  Sum_probs=8.2

Q ss_pred             EEEEecCCchHHHHHHHHHcC
Q 042981          154 ISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       154 i~I~G~gGiGKTtLa~~v~~~  174 (876)
                      |.|+|-+|+|||||..++.++
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999876653

>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=81.60  E-value=0.7  Score=44.18  Aligned_cols=48  Identities=19%  Similarity=-0.032  Sum_probs=32.7

Q ss_pred             HHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcCccccccCCeEEEEE
Q 042981          135 ELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNNDEVKRNFEKVIWVC  188 (876)
Q Consensus       135 ~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~F~~~~wv~  188 (876)
                      ++++.|..-.     .=+.++|+|..|+|||||+..+.++.. .++-++++.+.
T Consensus        32 r~ID~l~Pig-----rGQr~~I~g~~g~GKT~l~~~i~~~~~-~~~~~~v~~~~   79 (289)
T d1xpua3          32 RVLDLASPIG-----RGQRGLIVAPPKAGKTMLLQNIAQSIA-YNHPDCVLMVL   79 (289)
T ss_dssp             HHHHHHSCCB-----TTCEEEEEECSSSSHHHHHHHHHHHHH-HHCTTSEEEEE
T ss_pred             eeeeeccccc-----CCCeeeEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEE
Confidence            6788776432     235689999999999999999987432 23344444443

>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=81.58  E-value=0.53  Score=43.88  Aligned_cols=41  Identities=24%  Similarity=0.246  Sum_probs=26.9

Q ss_pred             eEEEEEEecCCchHHHHHHHH-HcCccccccCCeEEEEEeCCch
Q 042981          151 LHVISLVGLGGMGKTTLAQLA-YNNDEVKRNFEKVIWVCVSDTF  193 (876)
Q Consensus       151 ~~vi~I~G~gGiGKTtLa~~v-~~~~~~~~~F~~~~wv~vs~~~  193 (876)
                      -.++-|.|.+|+|||++|.++ ++.  ....=..++|++.....
T Consensus        26 G~~~~I~G~~G~GKT~la~~~~~~~--~~~~~~~~~~~s~e~~~   67 (242)
T d1tf7a1          26 GRSTLVSGTSGTGKTLFSIQFLYNG--IIEFDEPGVFVTFEETP   67 (242)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH--HHHHCCCEEEEESSSCH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH--HHhcCCCcccccccCCH
Confidence            368889999999999999654 431  22222346666665543

>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=81.50  E-value=0.4  Score=44.25  Aligned_cols=22  Identities=18%  Similarity=0.172  Sum_probs=18.5

Q ss_pred             EEEEEEecC-CchHHHHHHHHHc
Q 042981          152 HVISLVGLG-GMGKTTLAQLAYN  173 (876)
Q Consensus       152 ~vi~I~G~g-GiGKTtLa~~v~~  173 (876)
                      +.+-|.|-| ||||||++-.+..
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~   24 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQ   24 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHH
Confidence            568899998 9999998876665

>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=81.49  E-value=0.33  Score=45.12  Aligned_cols=21  Identities=29%  Similarity=0.408  Sum_probs=17.8

Q ss_pred             EEEEEecCCchHHHHHHHHHc
Q 042981          153 VISLVGLGGMGKTTLAQLAYN  173 (876)
Q Consensus       153 vi~I~G~gGiGKTtLa~~v~~  173 (876)
                      -|.++|.+|+|||||.++...
T Consensus         8 KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            457899999999999988754

>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=80.32  E-value=0.85  Score=43.23  Aligned_cols=39  Identities=28%  Similarity=0.357  Sum_probs=27.2

Q ss_pred             hHHHHHHHhhccCCcCCCCeEEEEEEecCCchHHHHHHHHHcC
Q 042981          132 EKNELLSKLLFESSEQQKGLHVISLVGLGGMGKTTLAQLAYNN  174 (876)
Q Consensus       132 ~~~~i~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  174 (876)
                      .+.++...+....    ..---|.++|..|+|||||...++..
T Consensus        17 ~l~e~~~~l~~~~----~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          17 KLLELLGNLKQED----VNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHTT----CCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHhhcC----CCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            4445555554432    23345679999999999999999874