Citrus Sinensis ID: 003457

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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-------82
Protein Sequence
MSLKCSSLRQPPLPIPPLSLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQSTESDDNSTCWPVIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAAIEIVSVSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFTVQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVLRASHGFKLQLRLEILIYALVLVAIL
Secondary Structure (PSIPRED)
ccccccccccccccccHHHHHHHHcccHHHHHHHHHHHHHHccccccccccHHHHcccccccccHHHHHHHHcccccccEEEHHHHHHHHHccccccHHHHHHHHHHHcccccccEEHHHHHHHHcccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHcccccHHHHHHHHHHHHcccccccEEHHHHHHHHHHHccHHHHHHHHHHHHHHccccccEEEHHHHHHHHccccHHHHHHHHcccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHHHHcccccccccccccHHHHHHHHcccccHHHHHHHHHcccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHccccccccccEEEcccHHHHHccccccHHHHHHHHHccccccccEEEEcccccccccHHHHHHHHHccccEEEccccccccccccccHHHHHHHHcccccccccccccHHHHHHHHHHccEEEcccEEEEEccEEEccccccccccEEEEccccccHHHHHcccEEEEEEEEEcccccEEcccccEEEEEEEEcccccccccccccccccccccccccccccccEEEEEEEccccccEEEEEEEccccEEEEEEEEEcccccccEEEEEEEcccccccccccccccHHHHHccccccHHHHHHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
cHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHccccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHcccccccccccEEEEEEcHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccccccEEHHHHHHHHHccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHHHHccccccHHHHHHHHccccccccHHHHHcHHHHHHHHcccHHHHccccHHHHHHHHHHHHHcccccccccEEEEEEEEcHHHHHHHHcccccccccccccccHHHHccccEEEEEEcccEEEEEEEEEcccccEEEEEEEEEcccccccEEEEEEEcccccccccccccHHHHEEEcccHHHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
mslkcsslrqpplpipplsllADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLfnsiqspnhFMWNTLIRAQASSLNPDKAIFLYMNmrrtgfapnqhTFTFVLKACsnvrslncckqihthvsksgldldLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMlmegfepnSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALfdsmperniATWNAMISGLASHGHAEEALDLFRKLekeqivpnditFVGVLSACCHAGFIDVGRQIFGSMkrvygiepkiehYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAadilqnpdfespptnltpnrstpfvllngnntipgwtfegTVQYVTasqtirlpdnghAIQLAQdgrinqtfaadgdDLIYILTLTlapggqncsananlvvsapdshgvyslkqhYGKETWKSYGHylgrwgqdepinlvirsqstesddnstcwpVIDMLLLKTSKTLVqgndnlllnggfefgpdflsnstegvllesapspiqsALQQWSVigtvkyidskhfyvpkgnAAIEIVSVSAGIQTATTMLtegsaynldftlgdakdACEGMFVVRVQAGSlvqnftvqslgtgsvikhsvtfkagsgstpisFISYninqtkdgvfcgplIDDVVLRASHGFKLQLRLEILIYALVLVAIL
Flexible Loop (DISEMBL)
mslkcsslrqpplpipPLSLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIalepnnhgVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSqstesddnstCWPVIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAAIEIVSVSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFTVQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVLRASHGFKLQLRLEILIYALVLVAIL
Low Complexity Region (SEG)
MSLKCsslrqpplpipplsllADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQSTESDDNSTCWPVIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAAIEIVSVSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFTVQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVLRASHGFKLQLRleiliyalvlvail
Disordered region (IsUnstruct)
*******************LLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQ****************TPFVLLNGNNTIPGWTFEGTVQYVTASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIR*********STCWPVIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAAIEIVSVSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFTVQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVLRASHGFKLQLRLEILIYALVLVAI*
Disordered Region (DISOPRED)
************LPIPPLSLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFA*************FESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQST**DDNSTCWPVIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAAIEIVSVSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFTVQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVLRASHGFKLQLRLEILIYALVLVAIL
Disordered Region (DISEMBL)
*********QPPLPIPPLSLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRS********STCWPVIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAAIEIVSVSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFTVQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVLRASHGFKLQLRLEILIYALVLVAIL
Disordered Region (DISPRO)
M****SSLRQPPLPIPPLSLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQSTESDDNSTCWPVIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAAIEIVSVSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFTVQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVLRASHGFKLQLRLEILIYALVLVAIL
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSLKCSSLRQPPLPIPPLSLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQSTESDDNSTCWPVIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAAIEIVSVSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFTVQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVLRASHGFKLQLRLEILIYALVLVAIL
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	818	2.2.26 [Sep-21-2011]
Q9FMA1	530	Pentatricopeptide repeat-	no	no	0.491	0.758	0.406	5e-93
Q9FJY7	620	Pentatricopeptide repeat-	no	no	0.497	0.656	0.384	9e-90
Q9FI80	646	Pentatricopeptide repeat-	no	no	0.509	0.645	0.381	5e-87
Q9ZQA1	501	Pentatricopeptide repeat-	no	no	0.497	0.812	0.406	1e-85
P93011	583	Pentatricopeptide repeat-	no	no	0.487	0.684	0.382	2e-85
Q0WQW5	638	Pentatricopeptide repeat-	no	no	0.5	0.641	0.406	2e-85
Q9FG16	622	Pentatricopeptide repeat-	no	no	0.508	0.668	0.386	2e-85
P0C8Q7	534	Pentatricopeptide repeat-	no	no	0.514	0.788	0.383	3e-84
Q9SIL5	534	Pentatricopeptide repeat-	no	no	0.581	0.891	0.335	4e-84
O49399	545	Pentatricopeptide repeat-	no	no	0.508	0.763	0.376	2e-83

>sp|Q9FMA1|PP433_ARATH Pentatricopeptide repeat-containing protein At5g56310 OS=Arabidopsis thaliana GN=PCMP-E13 PE=2 SV=1

 Score =  342 bits (878), Expect = 5e-93,   Method: Compositional matrix adjust.
 Identities = 179/440 (40%), Positives = 263/440 (59%), Gaps = 38/440 (8%)

Query: 27  SMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTL 86
           ++  LKQ H  MII+   +D+   ++ +  C  S++G L YA  +F     PN ++ NT+
Sbjct: 27  NLKTLKQSHCYMIITGLNRDNLNVAKFIEAC--SNAGHLRYAYSVFTHQPCPNTYLHNTM 84

Query: 87  IRAQASSLNPDK---AIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSK 143
           IRA +    P+    AI +Y  +      P+  TF FVLK    V  +   +QIH  V  
Sbjct: 85  IRALSLLDEPNAHSIAITVYRKLWALCAKPDTFTFPFVLKIAVRVSDVWFGRQIHGQVVV 144

Query: 144 SGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVW------------------- 184
            G D  +HVV  L++ Y     L +AR++FDE+  + +NVW                   
Sbjct: 145 FGFDSSVHVVTGLIQMYFSCGGLGDARKMFDEMLVKDVNVWNALLAGYGKVGEMDEARSL 204

Query: 185 --------------TTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSG 230
                         T +ISGYA+S RA+EA+ +F +MLME  EP+ VTL +VLSACA  G
Sbjct: 205 LEMMPCWVRNEVSWTCVISGYAKSGRASEAIEVFQRMLMENVEPDEVTLLAVLSACADLG 264

Query: 231 CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMIS 290
            LELGE++  +V  RG      L  A++ MY K+G + KA  +F+ + ERN+ TW  +I+
Sbjct: 265 SLELGERICSYVDHRGMNRAVSLNNAVIDMYAKSGNITKALDVFECVNERNVVTWTTIIA 324

Query: 291 GLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIE 350
           GLA+HGH  EAL +F ++ K  + PND+TF+ +LSAC H G++D+G+++F SM+  YGI 
Sbjct: 325 GLATHGHGAEALAMFNRMVKAGVRPNDVTFIAILSACSHVGWVDLGKRLFNSMRSKYGIH 384

Query: 351 PKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKE 410
           P IEHYGCM+DLLGR GK+ EA+E+IK M +K +  +WG+LLAA   H ++E+ ER + E
Sbjct: 385 PNIEHYGCMIDLLGRAGKLREADEVIKSMPFKANAAIWGSLLAASNVHHDLELGERALSE 444

Query: 411 IIALEPNNHGVYVVLSNMYA 430
           +I LEPNN G Y++L+N+Y+
Sbjct: 445 LIKLEPNNSGNYMLLANLYS 464

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJY7|PP449_ARATH Pentatricopeptide repeat-containing protein At5g66520 OS=Arabidopsis thaliana GN=PCMP-H61 PE=2 SV=1

 Score =  332 bits (850), Expect = 9e-90,   Method: Compositional matrix adjust.
 Identities = 169/439 (38%), Positives = 258/439 (58%), Gaps = 32/439 (7%)

Query: 24  KCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGD-LSYATRLFNSIQSPNHFM 82
           +C    +LKQIHA+M+ +  +QD +A ++ L+FC  S+S D L YA  +F+    P+ F+
Sbjct: 23  RCSKQEELKQIHARMLKTGLMQDSYAITKFLSFCISSTSSDFLPYAQIVFDGFDRPDTFL 82

Query: 83  WNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVS 142
           WN +IR  + S  P++++ LY  M  +    N +TF  +LKACSN+ +     QIH  ++
Sbjct: 83  WNLMIRGFSCSDEPERSLLLYQRMLCSSAPHNAYTFPSLLKACSNLSAFEETTQIHAQIT 142

Query: 143 KSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEI-------------------------- 176
           K G + D++ VN L+  Y+V+ +   A  +FD I                          
Sbjct: 143 KLGYENDVYAVNSLINSYAVTGNFKLAHLLFDRIPEPDDVSWNSVIKGYVKAGKMDIALT 202

Query: 177 -----RNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGC 231
                  +    WTTMISGY Q+    EAL LF +M     EP++V+LA+ LSACAQ G 
Sbjct: 203 LFRKMAEKNAISWTTMISGYVQADMNKEALQLFHEMQNSDVEPDNVSLANALSACAQLGA 262

Query: 232 LELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISG 291
           LE G+ +H ++      M ++LG  L+ MY K G + +A  +F ++ ++++  W A+ISG
Sbjct: 263 LEQGKWIHSYLNKTRIRMDSVLGCVLIDMYAKCGEMEEALEVFKNIKKKSVQAWTALISG 322

Query: 292 LASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP 351
            A HGH  EA+  F +++K  I PN ITF  VL+AC + G ++ G+ IF SM+R Y ++P
Sbjct: 323 YAYHGHGREAISKFMEMQKMGIKPNVITFTAVLTACSYTGLVEEGKLIFYSMERDYNLKP 382

Query: 352 KIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEI 411
            IEHYGC+VDLLGR G + EA+  I+ M  KP+ V+WGALL AC+ H NIE+ E + + +
Sbjct: 383 TIEHYGCIVDLLGRAGLLDEAKRFIQEMPLKPNAVIWGALLKACRIHKNIELGEEIGEIL 442

Query: 412 IALEPNNHGVYVVLSNMYA 430
           IA++P + G YV  +N++A
Sbjct: 443 IAIDPYHGGRYVHKANIHA 461

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FI80|PP425_ARATH Pentatricopeptide repeat-containing protein At5g48910 OS=Arabidopsis thaliana GN=PCMP-H38 PE=2 SV=1

 Score =  323 bits (827), Expect = 5e-87,   Method: Compositional matrix adjust.
 Identities = 181/475 (38%), Positives = 264/475 (55%), Gaps = 58/475 (12%)

Query: 23  DKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSS--SGDLSYATRLFNSIQSPNH 80
           + C+++  L QIHA  I S +++D  AA+ +L FCA S     DL YA ++FN +   N 
Sbjct: 31  NNCRTIRDLSQIHAVFIKSGQMRDTLAAAEILRFCATSDLHHRDLDYAHKIFNQMPQRNC 90

Query: 81  FMWNTLIRAQASSLNPDKA---IFLYMNMRRTGFA-PNQHTFTFVLKACSNVRSLNCCKQ 136
           F WNT+IR  + S + DKA   I L+  M    F  PN+ TF  VLKAC+    +   KQ
Sbjct: 91  FSWNTIIRGFSES-DEDKALIAITLFYEMMSDEFVEPNRFTFPSVLKACAKTGKIQEGKQ 149

Query: 137 IHTHVSKSGLDLDLHVVNCLVRCYSVS--------------------------------- 163
           IH    K G   D  V++ LVR Y +                                  
Sbjct: 150 IHGLALKYGFGGDEFVMSNLVRMYVMCGFMKDARVLFYKNIIEKDMVVMTDRRKRDGEIV 209

Query: 164 ------------SDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEG 211
                        D   AR +FD++R R++  W TMISGY+ +    +A+ +F +M    
Sbjct: 210 LWNVMIDGYMRLGDCKAARMLFDKMRQRSVVSWNTMISGYSLNGFFKDAVEVFREMKKGD 269

Query: 212 FEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAK 271
             PN VTL SVL A ++ G LELGE +H++ +  G  +  +LG+AL+ MY+K G + KA 
Sbjct: 270 IRPNYVTLVSVLPAISRLGSLELGEWLHLYAEDSGIRIDDVLGSALIDMYSKCGIIEKAI 329

Query: 272 ALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAG 331
            +F+ +P  N+ TW+AMI+G A HG A +A+D F K+ +  + P+D+ ++ +L+AC H G
Sbjct: 330 HVFERLPRENVITWSAMINGFAIHGQAGDAIDCFCKMRQAGVRPSDVAYINLLTACSHGG 389

Query: 332 FIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGAL 391
            ++ GR+ F  M  V G+EP+IEHYGCMVDLLGR G + EAEE I  M  KPD V+W AL
Sbjct: 390 LVEEGRRYFSQMVSVDGLEPRIEHYGCMVDLLGRSGLLDEAEEFILNMPIKPDDVIWKAL 449

Query: 392 LAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA------EAESMKMQLE 440
           L AC+  GN+E+ +RV   ++ + P++ G YV LSNMYA      E   M+++++
Sbjct: 450 LGACRMQGNVEMGKRVANILMDMVPHDSGAYVALSNMYASQGNWSEVSEMRLRMK 504

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZQA1|PP188_ARATH Pentatricopeptide repeat-containing protein At2g36730 OS=Arabidopsis thaliana GN=PCMP-E44 PE=3 SV=1

 Score =  318 bits (814), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 168/413 (40%), Positives = 250/413 (60%), Gaps = 6/413 (1%)

Query: 25  CKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWN 84
           C S+  L QIH Q+ +SS   D F  S L+   +LS + DL++A  L           WN
Sbjct: 23  CSSIKHLLQIHGQIHLSSLQNDSFIISELVRVSSLSLAKDLAFARTLLLHSSDSTPSTWN 82

Query: 85  TLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKS 144
            L R  +SS +P ++I++Y  M+R G  PN+ TF F+LKAC++   L   +QI   V K 
Sbjct: 83  MLSRGYSSSDSPVESIWVYSEMKRRGIKPNKLTFPFLLKACASFLGLTAGRQIQVEVLKH 142

Query: 145 GLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLF 204
           G D D++V N L+  Y      ++AR+VFDE+  R +  W ++++   ++ + N     F
Sbjct: 143 GFDFDVYVGNNLIHLYGTCKKTSDARKVFDEMTERNVVSWNSIMTALVENGKLNLVFECF 202

Query: 205 DQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKN 264
            +M+ + F P+  T+  +LSAC   G L LG+ VH  V +R  E+   LGTALV MY K+
Sbjct: 203 CEMIGKRFCPDETTMVVLLSACG--GNLSLGKLVHSQVMVRELELNCRLGTALVDMYAKS 260

Query: 265 GALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIV-PNDITFVGV 323
           G L  A+ +F+ M ++N+ TW+AMI GLA +G AEEAL LF K+ KE  V PN +TF+GV
Sbjct: 261 GGLEYARLVFERMVDKNVWTWSAMIVGLAQYGFAEEALQLFSKMMKESSVRPNYVTFLGV 320

Query: 324 LSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKP 383
           L AC H G +D G + F  M++++ I+P + HYG MVD+LGR G++ EA + IK+M ++P
Sbjct: 321 LCACSHTGLVDDGYKYFHEMEKIHKIKPMMIHYGAMVDILGRAGRLNEAYDFIKKMPFEP 380

Query: 384 DVVMWGALLAACKNHGNIE---VAERVVKEIIALEPNNHGVYVVLSNMYAEAE 433
           D V+W  LL+AC  H + +   + E+V K +I LEP   G  V+++N +AEA 
Sbjct: 381 DAVVWRTLLSACSIHHDEDDEGIGEKVKKRLIELEPKRSGNLVIVANRFAEAR 433

Arabidopsis thaliana (taxid: 3702)

>sp|P93011|PP182_ARATH Pentatricopeptide repeat-containing protein At2g33760 OS=Arabidopsis thaliana GN=PCMP-H6 PE=3 SV=1

 Score =  318 bits (814), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 155/405 (38%), Positives = 253/405 (62%), Gaps = 6/405 (1%)

Query: 30  QLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRA 89
           QL+Q+HA +I++   +     ++L+      S+  ++Y   LF S+  P+ F++N++I++
Sbjct: 24  QLQQVHAHLIVTGYGRSRSLLTKLITLAC--SARAIAYTHLLFLSVPLPDDFLFNSVIKS 81

Query: 90  QASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLD 149
            +    P   +  Y  M  +  +P+ +TFT V+K+C+++ +L   K +H H   SG  LD
Sbjct: 82  TSKLRLPLHCVAYYRRMLSSNVSPSNYTFTSVIKSCADLSALRIGKGVHCHAVVSGFGLD 141

Query: 150 LHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLM 209
            +V   LV  YS   D+  ARQVFD +  +++  W +++SG+ Q+  A+EA+ +F QM  
Sbjct: 142 TYVQAALVTFYSKCGDMEGARQVFDRMPEKSIVAWNSLVSGFEQNGLADEAIQVFYQMRE 201

Query: 210 EGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAK 269
            GFEP+S T  S+LSACAQ+G + LG  VH ++   G ++   LGTAL+++Y++ G + K
Sbjct: 202 SGFEPDSATFVSLLSACAQTGAVSLGSWVHQYIISEGLDLNVKLGTALINLYSRCGDVGK 261

Query: 270 AKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKE-QIVPNDITFVGVLSACC 328
           A+ +FD M E N+A W AMIS   +HG+ ++A++LF K+E +   +PN++TFV VLSAC 
Sbjct: 262 AREVFDKMKETNVAAWTAMISAYGTHGYGQQAVELFNKMEDDCGPIPNNVTFVAVLSACA 321

Query: 329 HAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVV-- 386
           HAG ++ GR ++  M + Y + P +EH+ CMVD+LGR G + EA + I ++         
Sbjct: 322 HAGLVEEGRSVYKRMTKSYRLIPGVEHHVCMVDMLGRAGFLDEAYKFIHQLDATGKATAP 381

Query: 387 -MWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA 430
            +W A+L ACK H N ++   + K +IALEP+N G +V+LSN+YA
Sbjct: 382 ALWTAMLGACKMHRNYDLGVEIAKRLIALEPDNPGHHVMLSNIYA 426

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WQW5|PPR85_ARATH Pentatricopeptide repeat-containing protein At1g59720, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H51 PE=2 SV=2

 Score =  317 bits (813), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 175/430 (40%), Positives = 260/430 (60%), Gaps = 21/430 (4%)

Query: 21  LADKCKSMHQLKQIHAQMIISSRIQDH---FAASRLLAFCALSSSGDLSYATRLFNSIQS 77
           LA+ C  M QLKQ+HA  + ++  ++    F   ++L     SS  D++YA R+F+SI++
Sbjct: 54  LAETCSDMSQLKQLHAFTLRTTYPEEPATLFLYGKILQLS--SSFSDVNYAFRVFDSIEN 111

Query: 78  PNHFMWNTLIRAQASSLN-PDKAIFLYMNMRRTG-FAPNQHTFTFVLKACSNVRSLNCCK 135
            + FMWNTLIRA A  ++  ++A  LY  M   G  +P++HTF FVLKAC+ +   +  K
Sbjct: 112 HSSFMWNTLIRACAHDVSRKEEAFMLYRKMLERGESSPDKHTFPFVLKACAYIFGFSEGK 171

Query: 136 QIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSF 195
           Q+H  + K G   D++V N L+  Y     L+ AR+VFDE+  R+L  W +MI    +  
Sbjct: 172 QVHCQIVKHGFGGDVYVNNGLIHLYGSCGCLDLARKVFDEMPERSLVSWNSMIDALVRFG 231

Query: 196 RANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMR---GFEMGAI 252
             + AL LF +M    FEP+  T+ SVLSACA  G L LG   H F+  +      M  +
Sbjct: 232 EYDSALQLFREM-QRSFEPDGYTMQSVLSACAGLGSLSLGTWAHAFLLRKCDVDVAMDVL 290

Query: 253 LGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKL--EK 310
           +  +L+ MY K G+L  A+ +F  M +R++A+WNAMI G A+HG AEEA++ F ++  ++
Sbjct: 291 VKNSLIEMYCKCGSLRMAEQVFQGMQKRDLASWNAMILGFATHGRAEEAMNFFDRMVDKR 350

Query: 311 EQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVL 370
           E + PN +TFVG+L AC H GF++ GRQ F  M R Y IEP +EHYGC+VDL+ R G + 
Sbjct: 351 ENVRPNSVTFVGLLIACNHRGFVNKGRQYFDMMVRDYCIEPALEHYGCIVDLIARAGYIT 410

Query: 371 EAEELIKRMVWKPDVVMWGALL-AACKNHGNIEVAERVVKEIIALEPNNH-------GVY 422
           EA +++  M  KPD V+W +LL A CK   ++E++E + + II  + +N        G Y
Sbjct: 411 EAIDMVMSMPMKPDAVIWRSLLDACCKKGASVELSEEIARNIIGTKEDNESSNGNCSGAY 470

Query: 423 VVLSNMYAEA 432
           V+LS +YA A
Sbjct: 471 VLLSRVYASA 480

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG16|PP367_ARATH Pentatricopeptide repeat-containing protein At5g06540 OS=Arabidopsis thaliana GN=PCMP-H88 PE=2 SV=1

 Score =  317 bits (812), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 175/453 (38%), Positives = 260/453 (57%), Gaps = 37/453 (8%)

Query: 16  PPLSLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGD-----LSYATR 70
           P L+LL   C S   LK IH  ++ +  I D F ASRLLA C   S+ +     L YA  
Sbjct: 14  PKLALL-QSCSSFSDLKIIHGFLLRTHLISDVFVASRLLALCVDDSTFNKPTNLLGYAYG 72

Query: 71  LFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRS 130
           +F+ IQ+PN F++N LIR  ++   P KA   Y  M ++   P+  TF F++KA S +  
Sbjct: 73  IFSQIQNPNLFVFNLLIRCFSTGAEPSKAFGFYTQMLKSRIWPDNITFPFLIKASSEMEC 132

Query: 131 LNCCKQIHTHVSKSGLDLDLHVVNCLVRCYS----------------------------- 161
           +   +Q H+ + + G   D++V N LV  Y+                             
Sbjct: 133 VLVGEQTHSQIVRFGFQNDVYVENSLVHMYANCGFIAAAGRIFGQMGFRDVVSWTSMVAG 192

Query: 162 --VSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTL 219
                 + NAR++FDE+ +R L  W+ MI+GYA++    +A+ LF+ M  EG   N   +
Sbjct: 193 YCKCGMVENAREMFDEMPHRNLFTWSIMINGYAKNNCFEKAIDLFEFMKREGVVANETVM 252

Query: 220 ASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE 279
            SV+S+CA  G LE GE+ + +V      +  ILGTALV M+ + G + KA  +F+ +PE
Sbjct: 253 VSVISSCAHLGALEFGERAYEYVVKSHMTVNLILGTALVDMFWRCGDIEKAIHVFEGLPE 312

Query: 280 RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQI 339
            +  +W+++I GLA HGHA +A+  F ++     +P D+TF  VLSAC H G ++ G +I
Sbjct: 313 TDSLSWSSIIKGLAVHGHAHKAMHYFSQMISLGFIPRDVTFTAVLSACSHGGLVEKGLEI 372

Query: 340 FGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHG 399
           + +MK+ +GIEP++EHYGC+VD+LGR GK+ EAE  I +M  KP+  + GALL ACK + 
Sbjct: 373 YENMKKDHGIEPRLEHYGCIVDMLGRAGKLAEAENFILKMHVKPNAPILGALLGACKIYK 432

Query: 400 NIEVAERVVKEIIALEPNNHGVYVVLSNMYAEA 432
           N EVAERV   +I ++P + G YV+LSN+YA A
Sbjct: 433 NTEVAERVGNMLIKVKPEHSGYYVLLSNIYACA 465

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8Q7|PP369_ARATH Pentatricopeptide repeat-containing protein At5g08305 OS=Arabidopsis thaliana GN=PCMP-E105 PE=2 SV=1

 Score =  313 bits (803), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 177/462 (38%), Positives = 261/462 (56%), Gaps = 41/462 (8%)

Query: 19  SLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSP 78
           S+L  +CKSM +L +IH  +I     ++    S+ L+F ALSSSGD+ YA +  + +  P
Sbjct: 12  SILRHQCKSMSELYKIHTLLITLGLSEEEPFVSQTLSFSALSSSGDVDYAYKFLSKLSDP 71

Query: 79  NHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIH 138
            ++ WN +IR  ++S NP+K+I +Y+ M R G  P+  T+ F++K+ S + +      +H
Sbjct: 72  PNYGWNFVIRGFSNSRNPEKSISVYIQMLRFGLLPDHMTYPFLMKSSSRLSNRKLGGSLH 131

Query: 139 THVSKSGLDLDLHVVNCLVR-------------------------------CYSVSSDLN 167
             V KSGL+ DL + N L+                                 Y+ S D+ 
Sbjct: 132 CSVVKSGLEWDLFICNTLIHMYGSFRDQASARKLFDEMPHKNLVTWNSILDAYAKSGDVV 191

Query: 168 NARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQML-MEGFEPNSVTLASVLSAC 226
           +AR VFDE+  R +  W++MI GY +    N+AL +FDQM+ M   + N VT+ SV+ AC
Sbjct: 192 SARLVFDEMSERDVVTWSSMIDGYVKRGEYNKALEIFDQMMRMGSSKANEVTMVSVICAC 251

Query: 227 AQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALF--DSMPERNIAT 284
           A  G L  G+ VH ++      +  IL T+L+ MY K G++  A ++F   S+ E +   
Sbjct: 252 AHLGALNRGKTVHRYILDVHLPLTVILQTSLIDMYAKCGSIGDAWSVFYRASVKETDALM 311

Query: 285 WNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMK 344
           WNA+I GLASHG   E+L LF K+ + +I P++ITF+ +L+AC H G +      F S+K
Sbjct: 312 WNAIIGGLASHGFIRESLQLFHKMRESKIDPDEITFLCLLAACSHGGLVKEAWHFFKSLK 371

Query: 345 RVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVA 404
              G EPK EHY CMVD+L R G V +A + I  M  KP   M GALL  C NHGN+E+A
Sbjct: 372 ES-GAEPKSEHYACMVDVLSRAGLVKDAHDFISEMPIKPTGSMLGALLNGCINHGNLELA 430

Query: 405 ERVVKEIIALEPNNHGVYVVLSNMYA------EAESMKMQLE 440
           E V K++I L+P+N G YV L+N+YA       A SM+  +E
Sbjct: 431 ETVGKKLIELQPHNDGRYVGLANVYAINKQFRAARSMREAME 472

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIL5|PP165_ARATH Pentatricopeptide repeat-containing protein At2g20540 OS=Arabidopsis thaliana GN=PCMP-E78 PE=2 SV=1

 Score =  313 bits (801), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 176/525 (33%), Positives = 288/525 (54%), Gaps = 49/525 (9%)

Query: 24  KCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMW 83
           + KS ++ K+I+A +II    Q  F  ++++ FC      D+ YATRLFN + +PN F++
Sbjct: 19  RVKSRNEWKKINASIIIHGLSQSSFMVTKMVDFC--DKIEDMDYATRLFNQVSNPNVFLY 76

Query: 84  NTLIRAQASSLNPDKAIFLYMNMRRTGFA-PNQHTFTFVLKACSNVRSLNCCKQIHTHVS 142
           N++IRA   +      I +Y  + R  F  P++ TF F+ K+C+++ S    KQ+H H+ 
Sbjct: 77  NSIIRAYTHNSLYCDVIRIYKQLLRKSFELPDRFTFPFMFKSCASLGSCYLGKQVHGHLC 136

Query: 143 KSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR----------------------- 179
           K G    +   N L+  Y    DL +A +VFDE+  R                       
Sbjct: 137 KFGPRFHVVTENALIDMYMKFDDLVDAHKVFDEMYERDVISWNSLLSGYARLGQMKKAKG 196

Query: 180 --------TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGC 231
                   T+  WT MISGY       EA+  F +M + G EP+ ++L SVL +CAQ G 
Sbjct: 197 LFHLMLDKTIVSWTAMISGYTGIGCYVEAMDFFREMQLAGIEPDEISLISVLPSCAQLGS 256

Query: 232 LELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISG 291
           LELG+ +H++ + RGF     +  AL+ MY+K G +++A  LF  M  +++ +W+ MISG
Sbjct: 257 LELGKWIHLYAERRGFLKQTGVCNALIEMYSKCGVISQAIQLFGQMEGKDVISWSTMISG 316

Query: 292 LASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP 351
            A HG+A  A++ F ++++ ++ PN ITF+G+LSAC H G    G + F  M++ Y IEP
Sbjct: 317 YAYHGNAHGAIETFNEMQRAKVKPNGITFLGLLSACSHVGMWQEGLRYFDMMRQDYQIEP 376

Query: 352 KIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEI 411
           KIEHYGC++D+L R GK+  A E+ K M  KPD  +WG+LL++C+  GN++VA   +  +
Sbjct: 377 KIEHYGCLIDVLARAGKLERAVEITKTMPMKPDSKIWGSLLSSCRTPGNLDVALVAMDHL 436

Query: 412 IALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDF-ESPPTNL 470
           + LEP + G YV+L+N+YA+                +  ++    +++N +  ++P  +L
Sbjct: 437 VELEPEDMGNYVLLANIYADLGK-------------WEDVSRLRKMIRNENMKKTPGGSL 483

Query: 471 TPNRSTPFVLLNGNNTIPGWT-FEGTVQYVTASQTIRLPDNGHAI 514
               +     ++G+N+ P WT     +Q  T+ Q   +  N +A+
Sbjct: 484 IEVNNIVQEFVSGDNSKPFWTEISIVLQLFTSHQDQDVITNNNAL 528

Arabidopsis thaliana (taxid: 3702)

>sp|O49399|PP321_ARATH Pentatricopeptide repeat-containing protein At4g18840 OS=Arabidopsis thaliana GN=PCMP-E101 PE=3 SV=2

 Score =  310 bits (795), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 181/481 (37%), Positives = 257/481 (53%), Gaps = 65/481 (13%)

Query: 14  PIPPLSLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSS-GDLSYATRLF 72
           P+P LS   ++ KS+ +++Q HA M+ +    D F+AS+L+AF A +     +SYA  + 
Sbjct: 39  PVPILSF-TERAKSLTEIQQAHAFMLKTGLFHDTFSASKLVAFAATNPEPKTVSYAHSIL 97

Query: 73  NSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLN 132
           N I SPN F  N++IRA A+S  P+ A+ ++  M      P++++FTFVLKAC+      
Sbjct: 98  NRIGSPNGFTHNSVIRAYANSSTPEVALTVFREMLLGPVFPDKYSFTFVLKACAAFCGFE 157

Query: 133 CCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQV-------------------- 172
             +QIH    KSGL  D+ V N LV  Y  S     AR+V                    
Sbjct: 158 EGRQIHGLFIKSGLVTDVFVENTLVNVYGRSGYFEIARKVLDRMPVRDAVSWNSLLSAYL 217

Query: 173 -----------FDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQM-------------- 207
                      FDE+  R +  W  MISGYA +    EA  +FD M              
Sbjct: 218 EKGLVDEARALFDEMEERNVESWNFMISGYAAAGLVKEAKEVFDSMPVRDVVSWNAMVTA 277

Query: 208 ---------LMEGF---------EPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEM 249
                    ++E F         +P+  TL SVLSACA  G L  GE VHV++   G E+
Sbjct: 278 YAHVGCYNEVLEVFNKMLDDSTEKPDGFTLVSVLSACASLGSLSQGEWVHVYIDKHGIEI 337

Query: 250 GAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLE 309
              L TALV MY+K G + KA  +F +  +R+++TWN++IS L+ HG  ++AL++F ++ 
Sbjct: 338 EGFLATALVDMYSKCGKIDKALEVFRATSKRDVSTWNSIISDLSVHGLGKDALEIFSEMV 397

Query: 310 KEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKV 369
            E   PN ITF+GVLSAC H G +D  R++F  M  VY +EP IEHYGCMVDLLGR GK+
Sbjct: 398 YEGFKPNGITFIGVLSACNHVGMLDQARKLFEMMSSVYRVEPTIEHYGCMVDLLGRMGKI 457

Query: 370 LEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMY 429
            EAEEL+  +      ++  +LL ACK  G +E AER+   ++ L   +   Y  +SN+Y
Sbjct: 458 EEAEELVNEIPADEASILLESLLGACKRFGQLEQAERIANRLLELNLRDSSGYAQMSNLY 517

Query: 430 A 430
           A
Sbjct: 518 A 518

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	818
225451435	474	PREDICTED: pentatricopeptide repeat-cont	0.507	0.875	0.746	0.0
147769957	476	hypothetical protein VITISV_013371 [Viti	0.506	0.869	0.748	0.0
356570151	465	PREDICTED: pentatricopeptide repeat-cont	0.524	0.922	0.611	1e-151
225451437	397	PREDICTED: uncharacterized protein LOC10	0.474	0.977	0.662	1e-145
255536905	383	conserved hypothetical protein [Ricinus	0.460	0.984	0.660	1e-143
296082350	391	unnamed protein product [Vitis vinifera]	0.453	0.948	0.672	1e-140
255536907	413	pentatricopeptide repeat-containing prot	0.432	0.857	0.630	1e-127
297811537	383	hypothetical protein ARALYDRAFT_488247 [	0.448	0.958	0.567	1e-114
413920848	478	pentatricopeptide repeat protein PPR986-	0.509	0.872	0.514	1e-114
253761503	489	hypothetical protein SORBIDRAFT_0019s004	0.509	0.852	0.511	1e-113

>gi|225451435|ref|XP_002273841.1| PREDICTED: pentatricopeptide repeat-containing protein At5g06540-like [Vitis vinifera]

 Score =  657 bits (1696), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 310/415 (74%), Positives = 357/415 (86%)

Query: 18  LSLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQS 77
            SLLADKC SMHQLKQIHAQMI+S+RI D++AASRLL+FCALS SGDLSYA RLFN+ Q 
Sbjct: 29  FSLLADKCTSMHQLKQIHAQMIVSARIHDNYAASRLLSFCALSESGDLSYALRLFNNTQE 88

Query: 78  PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQI 137
           PN FMWNTLIRA ASSLNP +A+ LY++MRR    P +HTF F+LKACSN +SL  C Q+
Sbjct: 89  PNSFMWNTLIRAHASSLNPSEALLLYVDMRRLDVIPGKHTFPFLLKACSNFQSLQSCIQV 148

Query: 138 HTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRA 197
           HTHV K GLDL+LHVVN LVR YSVS D+ NAR+VFDE+  R+L++WTTMISGYAQ++ +
Sbjct: 149 HTHVLKFGLDLNLHVVNGLVRAYSVSCDVRNARRVFDEVSERSLSIWTTMISGYAQNYCS 208

Query: 198 NEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTAL 257
           NEAL LFDQM++EG EPN  TLASVLSACAQSGCL+LGE++HVF++ +G E+G ILGTAL
Sbjct: 209 NEALELFDQMIVEGLEPNGATLASVLSACAQSGCLDLGERIHVFMEEKGIEVGVILGTAL 268

Query: 258 VHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPND 317
           VHMY KNGA+  A+ LFD++ ERN ATWNAMI GLA HGHA+EALD F KLEKEQIVPND
Sbjct: 269 VHMYAKNGAILMAQKLFDTISERNTATWNAMICGLAVHGHAKEALDRFWKLEKEQIVPND 328

Query: 318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIK 377
           ITFVGVLSACCHAG + VGR+IF  MKRVYGIEPKIEHYGCMVDLLGR G++LEAEELIK
Sbjct: 329 ITFVGVLSACCHAGLLSVGRKIFHLMKRVYGIEPKIEHYGCMVDLLGRGGELLEAEELIK 388

Query: 378 RMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEA 432
            M WK DVV+ GALL +CKNHGNIE+AERVVKEI+ LEP+NHGVYVVLSNMYAEA
Sbjct: 389 GMAWKADVVILGALLGSCKNHGNIEIAERVVKEILVLEPHNHGVYVVLSNMYAEA 443

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147769957|emb|CAN70049.1| hypothetical protein VITISV_013371 [Vitis vinifera]

 Score =  657 bits (1694), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 310/414 (74%), Positives = 356/414 (85%)

Query: 19  SLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSP 78
           SLLADKC SMHQLKQIHAQMI+S+RI D++AASRLL+FCALS SGDLSYA RLFN+ Q P
Sbjct: 32  SLLADKCTSMHQLKQIHAQMIVSARIHDNYAASRLLSFCALSESGDLSYALRLFNNTQEP 91

Query: 79  NHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIH 138
           N FMWNTLIRA ASSLNP +A+ LY++MRR    P +HTF F+LKACSN +SL  C Q+H
Sbjct: 92  NSFMWNTLIRAHASSLNPSEALLLYVDMRRLDVIPGKHTFPFLLKACSNFQSLQSCIQVH 151

Query: 139 THVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRAN 198
           THV K GLDL+LHVVN LVR YSVS D+ NAR+VFDE+  R+L++WTTMISGYAQ++ +N
Sbjct: 152 THVLKFGLDLNLHVVNGLVRAYSVSCDVRNARRVFDEVSERSLSIWTTMISGYAQNYCSN 211

Query: 199 EALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALV 258
           EAL LFDQM++EG EPN  TLASVLSACAQSGCL+LGE++HVF++ +G E+G ILGTALV
Sbjct: 212 EALELFDQMIVEGLEPNGATLASVLSACAQSGCLDLGERIHVFMEEKGIEVGVILGTALV 271

Query: 259 HMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDI 318
           HMY KNGA+  A+ LFD + ERN ATWNAMI GLA HGHA+EALD F KLEKEQIVPNDI
Sbjct: 272 HMYAKNGAILMAQKLFDXISERNTATWNAMICGLAVHGHAKEALDRFWKLEKEQIVPNDI 331

Query: 319 TFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKR 378
           TFVGVLSACCHAG + VGR+IF  MKRVYGIEPKIEHYGCMVDLLGR G++LEAEELIK 
Sbjct: 332 TFVGVLSACCHAGLLSVGRKIFHLMKRVYGIEPKIEHYGCMVDLLGRGGELLEAEELIKG 391

Query: 379 MVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEA 432
           M WK DVV+ GALL +CKNHGNIE+AERVVKEI+ LEP+NHGVYVVLSNMYAEA
Sbjct: 392 MAWKADVVILGALLGSCKNHGNIEIAERVVKEILVLEPHNHGVYVVLSNMYAEA 445

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356570151|ref|XP_003553254.1| PREDICTED: pentatricopeptide repeat-containing protein At4g21065-like [Glycine max]

 Score =  541 bits (1394), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 268/438 (61%), Positives = 331/438 (75%), Gaps = 9/438 (2%)

Query: 1   MSLKCSSLRQPPL--PIPPLSLLADKCKSMHQLKQIHAQMIISSRI-QDHFAASRLLAFC 57
           ++ K    + PPL   +  L+L++DKC ++ QLKQ+HAQMI+S+ +  D FAASRL   C
Sbjct: 2   LAPKLQPFKPPPLQRTLATLALISDKCTTLDQLKQVHAQMIVSAVVATDPFAASRLFFSC 61

Query: 58  ALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHT 117
           ALS  GDLS A R+F+S   PN FMWNTLIRAQ  +     A+ LY+ MRR+   P +HT
Sbjct: 62  ALSPFGDLSLAFRIFHSTPRPNSFMWNTLIRAQTHA---PHALSLYVAMRRSNVLPGKHT 118

Query: 118 FTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIR 177
           F F+LKAC+ VRS    +Q+H HV K GLD D HVV+ LVRCYSVS    +ARQVFDE  
Sbjct: 119 FPFLLKACARVRSFTASQQVHVHVIKFGLDFDSHVVDALVRCYSVSGHCVSARQVFDETP 178

Query: 178 NRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEK 237
            +  ++WTTM+ GYAQ+F +NEAL LF+ M+ EGFEP   TLASVLSACA+SGCLELGE+
Sbjct: 179 EKISSLWTTMVCGYAQNFCSNEALRLFEDMVGEGFEPGGATLASVLSACARSGCLELGER 238

Query: 238 VHVFVKMRGFEM--GAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASH 295
           +H F+K++G  +  G ILGTALV+MY KNG +A A+ LFD MPERN+ TWNAMI GL ++
Sbjct: 239 IHEFMKVKGVGLGEGVILGTALVYMYAKNGEIAMARRLFDEMPERNVVTWNAMICGLGAY 298

Query: 296 GHAEEALDLFRKLEKEQ-IVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIE 354
           G+ ++AL LF K++KE  +VPN +TFVGVLSACCHAG IDVGR+IF SMK VYGIEPKIE
Sbjct: 299 GYVDDALGLFEKMKKEGVVVPNGVTFVGVLSACCHAGLIDVGREIFRSMKSVYGIEPKIE 358

Query: 355 HYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIAL 414
           HYGC+VDLLGR G +LEA EL+K M WK DVV+ G LLAA +  GN EVAERVVK+I+AL
Sbjct: 359 HYGCLVDLLGRGGWLLEAVELVKGMPWKADVVILGTLLAASRISGNTEVAERVVKDILAL 418

Query: 415 EPNNHGVYVVLSNMYAEA 432
           EP NHGV+V LSNMYAEA
Sbjct: 419 EPQNHGVHVALSNMYAEA 436

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225451437|ref|XP_002273876.1| PREDICTED: uncharacterized protein LOC100241149 [Vitis vinifera] gi|147769956|emb|CAN70048.1| hypothetical protein VITISV_013370 [Vitis vinifera]

 Score =  523 bits (1346), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 259/391 (66%), Positives = 313/391 (80%), Gaps = 3/391 (0%)

Query: 430 AEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPG 489
           + +  ++MQL + L+ +LF  LAS A  LQNPDFESPP+NL  N + PF LL  NNTIPG
Sbjct: 4   SPSSEIRMQLGLCLLPILFIALASTAADLQNPDFESPPSNLPENSTAPFELLTANNTIPG 63

Query: 490 WTFEGTVQYVTASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCS 549
           WTF+GTVQYVTA  TI LP NGHAIQL QDG+INQTF A+ + + YILT TLA G QNCS
Sbjct: 64  WTFDGTVQYVTAGPTIALPGNGHAIQLGQDGKINQTFIANTNTMNYILTFTLALGDQNCS 123

Query: 550 ANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQSTESDDNSTC 609
           A A+++VSAPDS GV+SLKQHYGKETW+SYGHYLG W   E INLVI+SQ+TE + NSTC
Sbjct: 124 AIADILVSAPDSRGVFSLKQHYGKETWESYGHYLGGWRDGEHINLVIQSQTTEPNPNSTC 183

Query: 610 WPVIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSV 669
           WP++D LLLK   TL +GN NLL NGGFE GPDFLSNSTEG+LL+   SPIQSA+QQWSV
Sbjct: 184 WPIVDTLLLKGVATLDKGNGNLLPNGGFESGPDFLSNSTEGILLDPVSSPIQSAIQQWSV 243

Query: 670 IGTVKYIDSKHFYVPKGNAAIEIVS-VSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGM 728
           +GTVKYIDSK+++VP+GNAAIE +S +S GIQTA+T LTEGSAYNLDFTLGDA D+C G 
Sbjct: 244 LGTVKYIDSKNYFVPEGNAAIEFISGISTGIQTAST-LTEGSAYNLDFTLGDANDSCVGT 302

Query: 729 FVVRVQAGSLVQNFTVQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLI 788
           F++  QAGS VQNFT+QS GTGS    S+TFKA S  TPISF+SY+ +QTKDGVFCGP++
Sbjct: 303 FILGAQAGSTVQNFTLQSKGTGSAKNFSMTFKADSSVTPISFLSYSSSQTKDGVFCGPVV 362

Query: 789 DDVVLRASHGFKLQLRLEILIYALV-LVAIL 818
           D+V+L+AS+G K ++  ++    LV LVAIL
Sbjct: 363 DNVILQASYGLKPEIPSKVTFCWLVFLVAIL 393

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255536905|ref|XP_002509519.1| conserved hypothetical protein [Ricinus communis] gi|223549418|gb|EEF50906.1| conserved hypothetical protein [Ricinus communis]

 Score =  514 bits (1324), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 251/380 (66%), Positives = 306/380 (80%), Gaps = 3/380 (0%)

Query: 441 ILLVQVLFAGLA-SAADILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYV 499
           +LLV +LF G A +AAD+LQNPDFE+PP ++  N ++PF LLN N+TIPGWTFEGTV YV
Sbjct: 4   VLLVSLLFIGSAFAAADLLQNPDFETPPLHVPRNSTSPFQLLNENSTIPGWTFEGTVVYV 63

Query: 500 TASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAP 559
           TASQT+ LP +GHAIQL QDG+INQTF  +     Y+LT  LAPGGQNCS + ++ VS P
Sbjct: 64  TASQTVALPGDGHAIQLIQDGKINQTFHPNASYSHYLLTFVLAPGGQNCSNSGSIGVSVP 123

Query: 560 DSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQSTESDDNSTCWPVIDMLLLK 619
           D+H V+S KQHYGKE W++YG YLG W + EPINL+I SQ+TESD NSTCWPVID LL+K
Sbjct: 124 DNHAVFSFKQHYGKEGWETYGVYLGSWEEQEPINLIIESQATESDANSTCWPVIDKLLIK 183

Query: 620 TSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSK 679
           T++TL  GNDNLLLNGGFEFGP+FL NSTEG+LL+ APSP+ SAL+QWS+ GTVKYIDSK
Sbjct: 184 TTETLAPGNDNLLLNGGFEFGPEFLFNSTEGILLDPAPSPVLSALRQWSITGTVKYIDSK 243

Query: 680 HFYVPKGNAAIEIVS-VSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSL 738
           H++VP+GNAA+E+VS VSAGIQTA T+ TEGS+Y+L+FTLGDA D+C G F+V  QAG  
Sbjct: 244 HYFVPEGNAAVEMVSGVSAGIQTAMTV-TEGSSYSLEFTLGDANDSCVGSFIVGAQAGPA 302

Query: 739 VQNFTVQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVLRASHG 798
            QNFT+QS GTGS  K S+ FKA S +T ISF+SY   QTKDG+FCGP++D+VVLRASH 
Sbjct: 303 AQNFTLQSNGTGSAKKLSLAFKADSMTTSISFVSYTTTQTKDGLFCGPVVDNVVLRASHA 362

Query: 799 FKLQLRLEILIYALVLVAIL 818
            K  ++ E LI  L LVAIL
Sbjct: 363 IKSVMKWEGLIPLLFLVAIL 382

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296082350|emb|CBI21355.3| unnamed protein product [Vitis vinifera]

 Score =  504 bits (1299), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 253/376 (67%), Positives = 303/376 (80%), Gaps = 5/376 (1%)

Query: 445 QVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQT 504
           +V+F  L +A   LQNPDFESPP+NL  N + PF LL  NNTIPGWTF+GTVQYVTA  T
Sbjct: 15  EVIFGWLRTAD--LQNPDFESPPSNLPENSTAPFELLTANNTIPGWTFDGTVQYVTAGPT 72

Query: 505 IRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGV 564
           I LP NGHAIQL QDG+INQTF A+ + + YILT TLA G QNCSA A+++VSAPDS GV
Sbjct: 73  IALPGNGHAIQLGQDGKINQTFIANTNTMNYILTFTLALGDQNCSAIADILVSAPDSRGV 132

Query: 565 YSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQSTESDDNSTCWPVIDMLLLKTSKTL 624
           +SLKQHYGKETW+SYGHYLG W   E INLVI+SQ+TE + NSTCWP++D LLLK   TL
Sbjct: 133 FSLKQHYGKETWESYGHYLGGWRDGEHINLVIQSQTTEPNPNSTCWPIVDTLLLKGVATL 192

Query: 625 VQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVP 684
            +GN NLL NGGFE GPDFLSNSTEG+LL+   SPIQSA+QQWSV+GTVKYIDSK+++VP
Sbjct: 193 DKGNGNLLPNGGFESGPDFLSNSTEGILLDPVSSPIQSAIQQWSVLGTVKYIDSKNYFVP 252

Query: 685 KGNAAIEIVS-VSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFT 743
           +GNAAIE +S +S GIQTA+T LTEGSAYNLDFTLGDA D+C G F++  QAGS VQNFT
Sbjct: 253 EGNAAIEFISGISTGIQTAST-LTEGSAYNLDFTLGDANDSCVGTFILGAQAGSTVQNFT 311

Query: 744 VQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVLRASHGFKLQL 803
           +QS GTGS    S+TFKA S  TPISF+SY+ +QTKDGVFCGP++D+V+L+AS+G K ++
Sbjct: 312 LQSKGTGSAKNFSMTFKADSSVTPISFLSYSSSQTKDGVFCGPVVDNVILQASYGLKPEI 371

Query: 804 RLEILIYALV-LVAIL 818
             ++    LV LVAIL
Sbjct: 372 PSKVTFCWLVFLVAIL 387

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255536907|ref|XP_002509520.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223549419|gb|EEF50907.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  462 bits (1189), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 230/365 (63%), Positives = 279/365 (76%), Gaps = 11/365 (3%)

Query: 21  LADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNH 80
           + DKC SM QLKQIHAQMI++SRI DHFAASRLL+FCALS+S D++YA +LF SIQ PN 
Sbjct: 55  MVDKCTSMTQLKQIHAQMILTSRISDHFAASRLLSFCALSNSRDINYAIKLFKSIQDPNI 114

Query: 81  FMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTH 140
           FMWNT+IRA A+S NPD+A+F Y+ M R G  PN++TF F+LK CS   S+  CKQIHTH
Sbjct: 115 FMWNTIIRALANSSNPDQALFFYIQMLRLGVCPNKYTFPFLLKGCSFC-SIQSCKQIHTH 173

Query: 141 VSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEA 200
           V K G DLDLHVVN LVR YS+ SDL +A ++F E   R L++WTTMISGYAQ+F ANEA
Sbjct: 174 VLKFGSDLDLHVVNRLVRVYSIFSDLTDAWKLFGEFPERDLSIWTTMISGYAQNFCANEA 233

Query: 201 LMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHM 260
           L+LF++M+ EGFEPN  T+ASVLS CA+SG L+LGE++H F+  RG E+G ILGTALVHM
Sbjct: 234 LVLFERMVAEGFEPNGPTIASVLSVCARSGSLDLGERIHGFMIERGVEIGVILGTALVHM 293

Query: 261 YTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITF 320
           Y KNG +  A+ LFDSM E+N+ATWNAM+ GLASHGHAEEAL LF KLEKE IVP D TF
Sbjct: 294 YAKNGKILVARKLFDSMTEKNVATWNAMLCGLASHGHAEEALSLFWKLEKEHIVPIDATF 353

Query: 321 VGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV 380
           VGVLSACCHAG IDVGR+IF SMK  YG   +I+         G C  +  +++L  R +
Sbjct: 354 VGVLSACCHAGLIDVGRRIFYSMKESYG-SGRIK---------GTCIVICCSQDLFYRPI 403

Query: 381 WKPDV 385
            K +V
Sbjct: 404 LKDEV 408

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297811537|ref|XP_002873652.1| hypothetical protein ARALYDRAFT_488247 [Arabidopsis lyrata subsp. lyrata] gi|297319489|gb|EFH49911.1| hypothetical protein ARALYDRAFT_488247 [Arabidopsis lyrata subsp. lyrata]

 Score =  420 bits (1080), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 215/379 (56%), Positives = 276/379 (72%), Gaps = 12/379 (3%)

Query: 446 VLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQTI 505
           +L     +++D L+NPDFESPP NLT N +   V L+ N+T+PGWTF+GTV YV      
Sbjct: 11  LLLVSCCASSDFLENPDFESPPLNLTTNSNASSVSLDQNSTLPGWTFQGTVLYV------ 64

Query: 506 RLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGVY 565
            LPD GHA+QL++DG+INQTF A GDDL YILT  L   GQNCS++A L VS PDS+ V+
Sbjct: 65  ELPDTGHAVQLSEDGKINQTFIAKGDDLNYILTFALIHAGQNCSSSAGLSVSGPDSNAVF 124

Query: 566 SLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQS--TESDDNSTCWPVIDMLLLKT-SK 622
           S +Q+Y K +W+SY H LG WG  +PINLV+ SQ+  ++SD NSTCWP+ID LL+KT   
Sbjct: 125 SYRQNYSKVSWQSYSHNLGSWGNGQPINLVLESQAIDSDSDTNSTCWPIIDTLLIKTVGV 184

Query: 623 TLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFY 682
           TLVQ + NLL+NGGFE GP FL NST+GVL+++ PS IQS L+QWSVIGTV+YIDS+HF+
Sbjct: 185 TLVQDSGNLLINGGFESGPGFLPNSTDGVLIDAVPSLIQSPLRQWSVIGTVRYIDSEHFH 244

Query: 683 VPKGNAAIEIVSVSA--GIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQ 740
           VP+G AAIEI+S +A  GIQTAT   +EGS YNL FTLGDA DAC G FVV VQAGS  Q
Sbjct: 245 VPEGKAAIEILSYTAPSGIQTATKGTSEGSRYNLTFTLGDANDACRGHFVVGVQAGSATQ 304

Query: 741 NFTVQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVLRASHGF- 799
           NFT++S GTGS  K  + F+A   +  ISF SY+   TK+ V CGP++D+V++    G  
Sbjct: 305 NFTLESNGTGSGEKFGLVFEADKDAAQISFTSYSATMTKEDVVCGPVVDEVIVHPLGGTA 364

Query: 800 KLQLRLEILIYALVLVAIL 818
            ++    +LI+AL+ VA+L
Sbjct: 365 SVKPTWLLLIFALLYVAVL 383

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413920848|gb|AFW60780.1| pentatricopeptide repeat protein PPR986-12 [Zea mays]

 Score =  418 bits (1075), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 218/424 (51%), Positives = 286/424 (67%), Gaps = 7/424 (1%)

Query: 16  PPLSLLADKCKSMHQLKQIHAQMIISSRI-QDHFAASRLL-AFCALSSSGDLSYATRLFN 73
           P LSLLAD+C +   L ++HA M++S R+ +D FAASRLL A+ ALS     +    L +
Sbjct: 19  PNLSLLADRCATPCALARVHAAMLVSGRLAEDAFAASRLLDAYVALSPDPAAAALALLSS 78

Query: 74  SIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTG-FAPNQHTFTFVLKACSNVR-SL 131
              +PN FM+NT +R  ASS +P  A   +  +  TG   P +HTF F+LKA + +  SL
Sbjct: 79  LPCAPNSFMFNTTLRVLASSPDPATAFPFFSRIHGTGALVPGRHTFPFLLKAAARLPLSL 138

Query: 132 NCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGY 191
              +Q+H    + G+ LD +V N LVR YSV+  L  AR+VFDE+  R   V+TTM+S Y
Sbjct: 139 PVTEQLHALAVRHGVHLDAYVANGLVRAYSVAGLLRPARRVFDEVPERNAAVYTTMVSAY 198

Query: 192 AQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQS--GCLELGEKVHVFVKMRGFEM 249
           AQ+ R  +A+  F QM+  GFEP    LASVLSACA+S  G LE+G  VH  +  RG  +
Sbjct: 199 AQNGRHEDAMAAFVQMVRVGFEPCGAALASVLSACARSPSGGLEMGRHVHDLMVARGVAV 258

Query: 250 GAILGTALVHMYTKNGALAKAKALFDSMPERNI-ATWNAMISGLASHGHAEEALDLFRKL 308
           G ILGTALV MY KNGA+ +A A+FD +PER + A WN +ISGLA+ GH E ALD FR++
Sbjct: 259 GPILGTALVDMYVKNGAIEEALAVFDGLPERRVPAAWNPLISGLANLGHGERALDFFRRM 318

Query: 309 EKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGK 368
           ++E + PN  T VG LSAC H G +D  R++F SM++ +GI P I+HYGCMVDLLGR G 
Sbjct: 319 QREGVPPNATTLVGALSACSHPGLLDEARRLFRSMEKDFGIVPGIQHYGCMVDLLGRAGL 378

Query: 369 VLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNM 428
           + EAE++I+ M  K D V+WGALL ACKNHG IE+AER   E++ L P+NHGVYVVLSN+
Sbjct: 379 LSEAEDMIREMSCKADTVIWGALLTACKNHGVIEIAERAAVEMLKLNPSNHGVYVVLSNL 438

Query: 429 YAEA 432
           YAEA
Sbjct: 439 YAEA 442

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|253761503|ref|XP_002489130.1| hypothetical protein SORBIDRAFT_0019s004710 [Sorghum bicolor] gi|241947229|gb|EES20374.1| hypothetical protein SORBIDRAFT_0019s004710 [Sorghum bicolor]

 Score =  417 bits (1071), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 217/424 (51%), Positives = 287/424 (67%), Gaps = 7/424 (1%)

Query: 16  PPLSLLADKCKSMHQLKQIHAQMIISSRI-QDHFAASRLL-AFCALSSSGDLSYATRLFN 73
           P LSLLAD+C +   L ++HA MI+S R+ +D FAASRLL A+ ALS     +    L +
Sbjct: 19  PNLSLLADRCATPSALARVHAAMIVSGRLAEDAFAASRLLTAYAALSPDPAAAALALLSS 78

Query: 74  SIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTG-FAPNQHTFTFVLKACSNVR-SL 131
              +PN FM NT +R  ASS +P  A   +  +R TG  AP +HTF F+LKA + +   L
Sbjct: 79  LPCAPNSFMLNTTLRVLASSPDPAAAFPFFSRLRVTGALAPGRHTFPFLLKAAARLPLPL 138

Query: 132 NCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGY 191
              +Q+H    + G+ LD +V N LVR YSV+  L  AR+VFDE+  R   V+TTM+S Y
Sbjct: 139 PVTEQLHALAVRHGVLLDAYVANGLVRGYSVAGRLQAARRVFDELPERNPAVYTTMVSAY 198

Query: 192 AQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQS--GCLELGEKVHVFVKMRGFEM 249
           AQ+ R  +A+  FD+M+  GFEP   TLASVLSACA+S  G LE+G  VH  +   G  +
Sbjct: 199 AQNGRHEDAMAAFDEMVRVGFEPCGATLASVLSACARSASGGLEMGCHVHDLMTAWGVPV 258

Query: 250 GAILGTALVHMYTKNGALAKAKALFDSMPERNI-ATWNAMISGLASHGHAEEALDLFRKL 308
             ILGTAL+ MY KNGA+ +A A+ D +PER++   WNA+ISGLA HGH E AL+LFR++
Sbjct: 259 STILGTALIDMYVKNGAIKEAFAVLDGLPERHVTGAWNALISGLAHHGHRERALNLFRQM 318

Query: 309 EKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGK 368
           ++E + PN  T VG LSAC H G +D  R++F SM++ +GI P I+HYGCMVDLLGR G 
Sbjct: 319 QQEGVPPNATTLVGALSACSHPGLLDEARRLFSSMEKDFGITPAIQHYGCMVDLLGRAGL 378

Query: 369 VLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNM 428
           + EAE+LI+ M  + D V+WGALL ACKNH  IE+AER   E++ L+P+NHGVYVVLSN+
Sbjct: 379 LSEAEDLIRGMSCEADTVIWGALLTACKNHSGIEIAERAAVEMLKLDPSNHGVYVVLSNL 438

Query: 429 YAEA 432
           YAEA
Sbjct: 439 YAEA 442

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

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	818
TAIR|locus:2174713	383	AT5G14150 "AT5G14150" [Arabido	0.424	0.906	0.575	9.2e-107
TAIR|locus:2154389	646	LPA66 "LOW PSII ACCUMULATION 6	0.347	0.439	0.436	8.1e-87
TAIR|locus:2057574	583	AT2G33760 [Arabidopsis thalian	0.487	0.684	0.385	1.1e-82
TAIR|locus:2025946	638	CRR28 "CHLORORESPIRATORY REDUC	0.501	0.642	0.407	1.1e-82
TAIR|locus:2040565	501	AT2G36730 [Arabidopsis thalian	0.504	0.824	0.408	1.8e-80
TAIR|locus:4010713895	595	AT4G21065 "AT4G21065" [Arabido	0.518	0.712	0.393	2.3e-78
TAIR|locus:2205200	741	OTP82 "AT1G08070" [Arabidopsis	0.455	0.503	0.402	3.8e-78
TAIR|locus:2056740	603	OTP85 "ORGANELLE TRANSCRIPT PR	0.496	0.673	0.379	3.1e-76
TAIR|locus:2011892	596	AT1G50270 "AT1G50270" [Arabido	0.488	0.671	0.364	1.5e-74
TAIR|locus:2170877	460	AT5G43790 [Arabidopsis thalian	0.488	0.869	0.397	2.8e-73

TAIR|locus:2174713 AT5G14150 "AT5G14150" [Arabidopsis thaliana (taxid:3702)]

 Score = 1056 (376.8 bits), Expect = 9.2e-107, P = 9.2e-107
 Identities = 206/358 (57%), Positives = 262/358 (73%)

Query:   446 VLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQTI 505
             +L     +++D L+NPDFESPP NL  N +   V L+ N+T+PGWTF+GTV YV      
Sbjct:    11 LLLVSCCASSDFLENPDFESPPLNLPTNSNASSVSLDQNSTLPGWTFQGTVLYV------ 64

Query:   506 RLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGVY 565
              LPD GHA+QL +DG+INQTF A GD+L YILT  L   GQNC+++A L VS PDS+ V+
Sbjct:    65 ELPDTGHAVQLGEDGKINQTFIAKGDELNYILTFALIHAGQNCTSSAGLSVSGPDSNAVF 124

Query:   566 SLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQS--TESDDNSTCWPVIDMLLLKT-SK 622
             S +Q+Y K +W+SY H LG WG  EPINLV+ SQ+  ++SD NSTCWP+ID LL+KT   
Sbjct:   125 SYRQNYSKVSWQSYSHNLGSWGNGEPINLVLESQAIDSDSDTNSTCWPIIDTLLIKTVGV 184

Query:   623 TLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFY 682
             TLVQ + NLL+NGGFE GP FL NST+GVL+++ PS IQS L+QWSVIGTV+YIDS+HF+
Sbjct:   185 TLVQDSGNLLINGGFESGPGFLPNSTDGVLIDAVPSLIQSPLRQWSVIGTVRYIDSEHFH 244

Query:   683 VPKGNAAIEIVSVSA--GIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQ 740
             VP+G AAIEI+S +A  GIQTAT   +EGS YNL FTLGDA DAC G FVV  QAGS+ Q
Sbjct:   245 VPEGKAAIEILSNTAPSGIQTATKGTSEGSRYNLTFTLGDANDACRGHFVVGAQAGSVTQ 304

Query:   741 NFTVQSLGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVLRASHG 798
             NFT++S GTGS  K  + F+A   +  ISF SY++  TK+ V CGP+ID+V++    G
Sbjct:   305 NFTLESNGTGSGEKFGLVFEADKDAAQISFTSYSVTMTKENVVCGPVIDEVMVHPLGG 362

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0031225 "anchored to membrane" evidence=TAS

TAIR|locus:2154389 LPA66 "LOW PSII ACCUMULATION 66" [Arabidopsis thaliana (taxid:3702)]

 Score = 646 (232.5 bits), Expect = 8.1e-87, Sum P(2) = 8.1e-87
 Identities = 124/284 (43%), Positives = 185/284 (65%)

Query:   147 DLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQ 206
             D ++ + N ++  Y    D   AR +FD++R R++  W TMISGY+ +    +A+ +F +
Sbjct:   205 DGEIVLWNVMIDGYMRLGDCKAARMLFDKMRQRSVVSWNTMISGYSLNGFFKDAVEVFRE 264

Query:   207 MLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGA 266
             M      PN VTL SVL A ++ G LELGE +H++ +  G  +  +LG+AL+ MY+K G 
Sbjct:   265 MKKGDIRPNYVTLVSVLPAISRLGSLELGEWLHLYAEDSGIRIDDVLGSALIDMYSKCGI 324

Query:   267 LAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA 326
             + KA  +F+ +P  N+ TW+AMI+G A HG A +A+D F K+ +  + P+D+ ++ +L+A
Sbjct:   325 IEKAIHVFERLPRENVITWSAMINGFAIHGQAGDAIDCFCKMRQAGVRPSDVAYINLLTA 384

Query:   327 CCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVV 386
             C H G ++ GR+ F  M  V G+EP+IEHYGCMVDLLGR G + EAEE I  M  KPD V
Sbjct:   385 CSHGGLVEEGRRYFSQMVSVDGLEPRIEHYGCMVDLLGRSGLLDEAEEFILNMPIKPDDV 444

Query:   387 MWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA 430
             +W ALL AC+  GN+E+ +RV   ++ + P++ G YV LSNMYA
Sbjct:   445 IWKALLGACRMQGNVEMGKRVANILMDMVPHDSGAYVALSNMYA 488

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0007020 "microtubule nucleation" evidence=RCA

TAIR|locus:2057574 AT2G33760 [Arabidopsis thaliana (taxid:3702)]

 Score = 810 (290.2 bits), Expect = 1.1e-82, Sum P(2) = 1.1e-82
 Identities = 156/405 (38%), Positives = 254/405 (62%)

Query:    30 QLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRA 89
             QL+Q+HA +I++   +     ++L+      S+  ++Y   LF S+  P+ F++N++I++
Sbjct:    24 QLQQVHAHLIVTGYGRSRSLLTKLITLAC--SARAIAYTHLLFLSVPLPDDFLFNSVIKS 81

Query:    90 QASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLD 149
              +    P   +  Y  M  +  +P+ +TFT V+K+C+++ +L   K +H H   SG  LD
Sbjct:    82 TSKLRLPLHCVAYYRRMLSSNVSPSNYTFTSVIKSCADLSALRIGKGVHCHAVVSGFGLD 141

Query:   150 LHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLM 209
              +V   LV  YS   D+  ARQVFD +  +++  W +++SG+ Q+  A+EA+ +F QM  
Sbjct:   142 TYVQAALVTFYSKCGDMEGARQVFDRMPEKSIVAWNSLVSGFEQNGLADEAIQVFYQMRE 201

Query:   210 EGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAK 269
              GFEP+S T  S+LSACAQ+G + LG  VH ++   G ++   LGTAL+++Y++ G + K
Sbjct:   202 SGFEPDSATFVSLLSACAQTGAVSLGSWVHQYIISEGLDLNVKLGTALINLYSRCGDVGK 261

Query:   270 AKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKE-QIVPNDITFVGVLSACC 328
             A+ +FD M E N+A W AMIS   +HG+ ++A++LF K+E +   +PN++TFV VLSAC 
Sbjct:   262 AREVFDKMKETNVAAWTAMISAYGTHGYGQQAVELFNKMEDDCGPIPNNVTFVAVLSACA 321

Query:   329 HAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM--VWKPDV- 385
             HAG ++ GR ++  M + Y + P +EH+ CMVD+LGR G + EA + I ++    K    
Sbjct:   322 HAGLVEEGRSVYKRMTKSYRLIPGVEHHVCMVDMLGRAGFLDEAYKFIHQLDATGKATAP 381

Query:   386 VMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA 430
              +W A+L ACK H N ++   + K +IALEP+N G +V+LSN+YA
Sbjct:   382 ALWTAMLGACKMHRNYDLGVEIAKRLIALEPDNPGHHVMLSNIYA 426

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2025946 CRR28 "CHLORORESPIRATORY REDUCTION28" [Arabidopsis thaliana (taxid:3702)]

 Score = 802 (287.4 bits), Expect = 1.1e-82, Sum P(2) = 1.1e-82
 Identities = 174/427 (40%), Positives = 257/427 (60%)

Query:    22 ADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSS-GDLSYATRLFNSIQSPNH 80
             A+ C  M QLKQ+HA  + ++  ++            LSSS  D++YA R+F+SI++ + 
Sbjct:    55 AETCSDMSQLKQLHAFTLRTTYPEEPATLFLYGKILQLSSSFSDVNYAFRVFDSIENHSS 114

Query:    81 FMWNTLIRAQASSLN-PDKAIFLYMNMRRTG-FAPNQHTFTFVLKACSNVRSLNCCKQIH 138
             FMWNTLIRA A  ++  ++A  LY  M   G  +P++HTF FVLKAC+ +   +  KQ+H
Sbjct:   115 FMWNTLIRACAHDVSRKEEAFMLYRKMLERGESSPDKHTFPFVLKACAYIFGFSEGKQVH 174

Query:   139 THVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRAN 198
               + K G   D++V N L+  Y     L+ AR+VFDE+  R+L  W +MI    +    +
Sbjct:   175 CQIVKHGFGGDVYVNNGLIHLYGSCGCLDLARKVFDEMPERSLVSWNSMIDALVRFGEYD 234

Query:   199 EALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMR---GFEMGAILGT 255
              AL LF +M    FEP+  T+ SVLSACA  G L LG   H F+  +      M  ++  
Sbjct:   235 SALQLFREM-QRSFEPDGYTMQSVLSACAGLGSLSLGTWAHAFLLRKCDVDVAMDVLVKN 293

Query:   256 ALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKL--EKEQI 313
             +L+ MY K G+L  A+ +F  M +R++A+WNAMI G A+HG AEEA++ F ++  ++E +
Sbjct:   294 SLIEMYCKCGSLRMAEQVFQGMQKRDLASWNAMILGFATHGRAEEAMNFFDRMVDKRENV 353

Query:   314 VPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAE 373
              PN +TFVG+L AC H GF++ GRQ F  M R Y IEP +EHYGC+VDL+ R G + EA 
Sbjct:   354 RPNSVTFVGLLIACNHRGFVNKGRQYFDMMVRDYCIEPALEHYGCIVDLIARAGYITEAI 413

Query:   374 ELIKRMVWKPDVVMWGALL-AACKNHGNIEVAERVVKEIIALEPNNH-------GVYVVL 425
             +++  M  KPD V+W +LL A CK   ++E++E + + II  + +N        G YV+L
Sbjct:   414 DMVMSMPMKPDAVIWRSLLDACCKKGASVELSEEIARNIIGTKEDNESSNGNCSGAYVLL 473

Query:   426 SNMYAEA 432
             S +YA A
Sbjct:   474 SRVYASA 480

GO:0005739 "mitochondrion" evidence=ISM

GO:0004519 "endonuclease activity" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0016556 "mRNA modification" evidence=RCA;IMP

TAIR|locus:2040565 AT2G36730 [Arabidopsis thaliana (taxid:3702)]

 Score = 808 (289.5 bits), Expect = 1.8e-80, P = 1.8e-80
 Identities = 173/423 (40%), Positives = 258/423 (60%)

Query:    25 CKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYA-TRLFNSIQS-PNHFM 82
             C S+  L QIH Q+ +SS   D F  S L+   +LS + DL++A T L +S  S P+   
Sbjct:    23 CSSIKHLLQIHGQIHLSSLQNDSFIISELVRVSSLSLAKDLAFARTLLLHSSDSTPS--T 80

Query:    83 WNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVS 142
             WN L R  +SS +P ++I++Y  M+R G  PN+ TF F+LKAC++   L   +QI   V 
Sbjct:    81 WNMLSRGYSSSDSPVESIWVYSEMKRRGIKPNKLTFPFLLKACASFLGLTAGRQIQVEVL 140

Query:   143 KSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALM 202
             K G D D++V N L+  Y      ++AR+VFDE+  R +  W ++++   ++ + N    
Sbjct:   141 KHGFDFDVYVGNNLIHLYGTCKKTSDARKVFDEMTERNVVSWNSIMTALVENGKLNLVFE 200

Query:   203 LFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYT 262
              F +M+ + F P+  T+  +LSAC   G L LG+ VH  V +R  E+   LGTALV MY 
Sbjct:   201 CFCEMIGKRFCPDETTMVVLLSACG--GNLSLGKLVHSQVMVRELELNCRLGTALVDMYA 258

Query:   263 KNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIV-PNDITFV 321
             K+G L  A+ +F+ M ++N+ TW+AMI GLA +G AEEAL LF K+ KE  V PN +TF+
Sbjct:   259 KSGGLEYARLVFERMVDKNVWTWSAMIVGLAQYGFAEEALQLFSKMMKESSVRPNYVTFL 318

Query:   322 GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVW 381
             GVL AC H G +D G + F  M++++ I+P + HYG MVD+LGR G++ EA + IK+M +
Sbjct:   319 GVLCACSHTGLVDDGYKYFHEMEKIHKIKPMMIHYGAMVDILGRAGRLNEAYDFIKKMPF 378

Query:   382 KPDVVMWGALLAACKNHGNIE---VAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQ 438
             +PD V+W  LL+AC  H + +   + E+V K +I LEP   G  V+++N +AEA      
Sbjct:   379 EPDAVVWRTLLSACSIHHDEDDEGIGEKVKKRLIELEPKRSGNLVIVANRFAEARMWAEA 438

Query:   439 LEI 441
              E+
Sbjct:   439 AEV 441

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:4010713895 AT4G21065 "AT4G21065" [Arabidopsis thaliana (taxid:3702)]

 Score = 788 (282.4 bits), Expect = 2.3e-78, P = 2.3e-78
 Identities = 169/430 (39%), Positives = 264/430 (61%)

Query:    27 SMHQLKQIHAQMIISS-RIQDHFAASRLLAFC-ALSSSGDLSYATRLFNSIQSP-NHFMW 83
             S+ +L+QIHA  I     I D      L+ +  +L S   +SYA ++F+ I+ P N F+W
Sbjct:    29 SITKLRQIHAFSIRHGVSISDAELGKHLIFYLVSLPSPPPMSYAHKVFSKIEKPINVFIW 88

Query:    84 NTLIRAQASSLNPDKAIFLYMNMRRTGFA-PNQHTFTFVLKACSNVRSLNCCKQIHTHVS 142
             NTLIR  A   N   A  LY  MR +G   P+ HT+ F++KA + +  +   + IH+ V 
Sbjct:    89 NTLIRGYAEIGNSISAFSLYREMRVSGLVEPDTHTYPFLIKAVTTMADVRLGETIHSVVI 148

Query:   143 KSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALM 202
             +SG    ++V N L+  Y+   D+ +A +VFD++  + L  W ++I+G+A++ +  EAL 
Sbjct:   149 RSGFGSLIYVQNSLLHLYANCGDVASAYKVFDKMPEKDLVAWNSVINGFAENGKPEEALA 208

Query:   203 LFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYT 262
             L+ +M  +G +P+  T+ S+LSACA+ G L LG++VHV++   G          L+ +Y 
Sbjct:   209 LYTEMNSKGIKPDGFTIVSLLSACAKIGALTLGKRVHVYMIKVGLTRNLHSSNVLLDLYA 268

Query:   263 KNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEK-EQIVPNDITFV 321
             + G + +AK LFD M ++N  +W ++I GLA +G  +EA++LF+ +E  E ++P +ITFV
Sbjct:   269 RCGRVEEAKTLFDEMVDKNSVSWTSLIVGLAVNGFGKEAIELFKYMESTEGLLPCEITFV 328

Query:   322 GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVW 381
             G+L AC H G +  G + F  M+  Y IEP+IEH+GCMVDLL R G+V +A E IK M  
Sbjct:   329 GILYACSHCGMVKEGFEYFRRMREEYKIEPRIEHFGCMVDLLARAGQVKKAYEYIKSMPM 388

Query:   382 KPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEI 441
             +P+VV+W  LL AC  HG+ ++AE    +I+ LEPN+ G YV+LSNMYA +E     ++ 
Sbjct:   389 QPNVVIWRTLLGACTVHGDSDLAEFARIQILQLEPNHSGDYVLLSNMYA-SEQRWSDVQK 447

Query:   442 LLVQVLFAGL 451
             +  Q+L  G+
Sbjct:   448 IRKQMLRDGV 457

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2205200 OTP82 "AT1G08070" [Arabidopsis thaliana (taxid:3702)]

 Score = 786 (281.7 bits), Expect = 3.8e-78, P = 3.8e-78
 Identities = 151/375 (40%), Positives = 231/375 (61%)

Query:    60 SSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFT 119
             +S G +  A +LF+ I   +   WN +I   A + N  +A+ L+ +M +T   P++ T  
Sbjct:   211 ASRGYIENAQKLFDEIPVKDVVSWNAMISGYAETGNYKEALELFKDMMKTNVRPDESTMV 270

Query:   120 FVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR 179
              V+ AC+   S+   +Q+H  +   G   +L +VN L+  YS   +L  A  +F+ +  +
Sbjct:   271 TVVSACAQSGSIELGRQVHLWIDDHGFGSNLKIVNALIDLYSKCGELETACGLFERLPYK 330

Query:   180 TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVH 239
              +  W T+I GY       EAL+LF +ML  G  PN VT+ S+L ACA  G +++G  +H
Sbjct:   331 DVISWNTLIGGYTHMNLYKEALLLFQEMLRSGETPNDVTMLSILPACAHLGAIDIGRWIH 390

Query:   240 VFV--KMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGH 297
             V++  +++G    + L T+L+ MY K G +  A  +F+S+  +++++WNAMI G A HG 
Sbjct:   391 VYIDKRLKGVTNASSLRTSLIDMYAKCGDIEAAHQVFNSILHKSLSSWNAMIFGFAMHGR 450

Query:   298 AEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYG 357
             A+ + DLF ++ K  I P+DITFVG+LSAC H+G +D+GR IF +M + Y + PK+EHYG
Sbjct:   451 ADASFDLFSRMRKIGIQPDDITFVGLLSACSHSGMLDLGRHIFRTMTQDYKMTPKLEHYG 510

Query:   358 CMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPN 417
             CM+DLLG  G   EAEE+I  M  +PD V+W +LL ACK HGN+E+ E   + +I +EP 
Sbjct:   511 CMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSLLKACKMHGNVELGESFAENLIKIEPE 570

Query:   418 NHGVYVVLSNMYAEA 432
             N G YV+LSN+YA A
Sbjct:   571 NPGSYVLLSNIYASA 585

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2056740 OTP85 "ORGANELLE TRANSCRIPT PROCESSING 85" [Arabidopsis thaliana (taxid:3702)]

 Score = 768 (275.4 bits), Expect = 3.1e-76, P = 3.1e-76
 Identities = 155/408 (37%), Positives = 249/408 (61%)

Query:    24 KCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALS-SSGDLSYATRLFNSIQSPNHFM 82
             KC S+ +L QI A  I  S I+D    ++L+ FC  S +   +SYA  LF ++  P+  +
Sbjct:    38 KCNSLRELMQIQAYAI-KSHIEDVSFVAKLINFCTESPTESSMSYARHLFEAMSEPDIVI 96

Query:    83 WNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVS 142
             +N++ R  +   NP +   L++ +   G  P+ +TF  +LKAC+  ++L   +Q+H    
Sbjct:    97 FNSMARGYSRFTNPLEVFSLFVEILEDGILPDNYTFPSLLKACAVAKALEEGRQLHCLSM 156

Query:   143 KSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALM 202
             K GLD +++V   L+  Y+   D+++AR VFD I    +  +  MI+GYA+  R NEAL 
Sbjct:   157 KLGLDDNVYVCPTLINMYTECEDVDSARCVFDRIVEPCVVCYNAMITGYARRNRPNEALS 216

Query:   203 LFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYT 262
             LF +M  +  +PN +TL SVLS+CA  G L+LG+ +H + K   F     + TAL+ M+ 
Sbjct:   217 LFREMQGKYLKPNEITLLSVLSSCALLGSLDLGKWIHKYAKKHSFCKYVKVNTALIDMFA 276

Query:   263 KNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVG 322
             K G+L  A ++F+ M  ++   W+AMI   A+HG AE+++ +F ++  E + P++ITF+G
Sbjct:   277 KCGSLDDAVSIFEKMRYKDTQAWSAMIVAYANHGKAEKSMLMFERMRSENVQPDEITFLG 336

Query:   323 VLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWK 382
             +L+AC H G ++ GR+ F  M   +GI P I+HYG MVDLL R G + +A E I ++   
Sbjct:   337 LLNACSHTGRVEEGRKYFSQMVSKFGIVPSIKHYGSMVDLLSRAGNLEDAYEFIDKLPIS 396

Query:   383 PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA 430
             P  ++W  LLAAC +H N+++AE+V + I  L+ ++ G YV+LSN+YA
Sbjct:   397 PTPMLWRILLAACSSHNNLDLAEKVSERIFELDDSHGGDYVILSNLYA 444

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2011892 AT1G50270 "AT1G50270" [Arabidopsis thaliana (taxid:3702)]

 Score = 752 (269.8 bits), Expect = 1.5e-74, P = 1.5e-74
 Identities = 147/403 (36%), Positives = 241/403 (59%)

Query:    33 QIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQAS 92
             Q HA ++      D F  + L++    SSSG   +A+RLF+  +  +   W  +I     
Sbjct:   124 QFHAHIVKFGLDSDPFVRNSLIS--GYSSSGLFDFASRLFDGAEDKDVVTWTAMIDGFVR 181

Query:    93 SLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSG-LDLDLH 151
             + +  +A+  ++ M++TG A N+ T   VLKA   V  +   + +H    ++G +  D+ 
Sbjct:   182 NGSASEAMVYFVEMKKTGVAANEMTVVSVLKAAGKVEDVRFGRSVHGLYLETGRVKCDVF 241

Query:   152 VVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEG 211
             + + LV  Y   S  ++A++VFDE+ +R +  WT +I+GY QS   ++ +++F++ML   
Sbjct:   242 IGSSLVDMYGKCSCYDDAQKVFDEMPSRNVVTWTALIAGYVQSRCFDKGMLVFEEMLKSD 301

Query:   212 FEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAK 271
               PN  TL+SVLSACA  G L  G +VH ++     E+    GT L+ +Y K G L +A 
Sbjct:   302 VAPNEKTLSSVLSACAHVGALHRGRRVHCYMIKNSIEINTTAGTTLIDLYVKCGCLEEAI 361

Query:   272 ALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAG 331
              +F+ + E+N+ TW AMI+G A+HG+A +A DLF  +    + PN++TF+ VLSAC H G
Sbjct:   362 LVFERLHEKNVYTWTAMINGFAAHGYARDAFDLFYTMLSSHVSPNEVTFMAVLSACAHGG 421

Query:   332 FIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGAL 391
              ++ GR++F SMK  + +EPK +HY CMVDL GR G + EA+ LI+RM  +P  V+WGAL
Sbjct:   422 LVEEGRRLFLSMKGRFNMEPKADHYACMVDLFGRKGLLEEAKALIERMPMEPTNVVWGAL 481

Query:   392 LAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES 434
               +C  H + E+ +     +I L+P++ G Y +L+N+Y+E+++
Sbjct:   482 FGSCLLHKDYELGKYAASRVIKLQPSHSGRYTLLANLYSESQN 524

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0007059 "chromosome segregation" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007129 "synapsis" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0009887 "organ morphogenesis" evidence=RCA

GO:0009888 "tissue development" evidence=RCA

GO:0010638 "positive regulation of organelle organization" evidence=RCA

GO:0033044 "regulation of chromosome organization" evidence=RCA

GO:0042138 "meiotic DNA double-strand break formation" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

TAIR|locus:2170877 AT5G43790 [Arabidopsis thaliana (taxid:3702)]

 Score = 740 (265.6 bits), Expect = 2.8e-73, P = 2.8e-73
 Identities = 167/420 (39%), Positives = 250/420 (59%)

Query:    24 KCKSMHQLKQIHAQMIISSRIQDH-FAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFM 82
             KCKS+  LKQIHAQ II+  +  H +  S+LL    LSS+  LSYA  +   I +P+ F+
Sbjct:    18 KCKSLQNLKQIHAQ-IITIGLSHHTYPLSKLLH---LSSTVCLSYALSILRQIPNPSVFL 73

Query:    83 WNTLIRAQASSLNPDK---AIFLYMNM--RRTGFA-PNQHTFTFVLKACS-NVRSLNCCK 135
             +NTLI +  S+ N  +   A  LY  +   R+ F  PN+ T+  + KA   + +     +
Sbjct:    74 YNTLISSIVSNHNSTQTHLAFSLYDQILSSRSNFVRPNEFTYPSLFKASGFDAQWHRHGR 133

Query:   136 QIHTHVSK--SGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQ 193
              +H HV K    ++ D  V   LV  Y+    L  AR +F+ IR   L  W T+++ YA 
Sbjct:   134 ALHAHVLKFLEPVNHDRFVQAALVGFYANCGKLREARSLFERIREPDLATWNTLLAAYAN 193

Query:   194 SFRAN---EALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMG 250
             S   +   E L+LF +M +    PN ++L +++ +CA  G    G   HV+V      + 
Sbjct:   194 SEEIDSDEEVLLLFMRMQVR---PNELSLVALIKSCANLGEFVRGVWAHVYVLKNNLTLN 250

Query:   251 AILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEK 310
               +GT+L+ +Y+K G L+ A+ +FD M +R+++ +NAMI GLA HG  +E ++L++ L  
Sbjct:   251 QFVGTSLIDLYSKCGCLSFARKVFDEMSQRDVSCYNAMIRGLAVHGFGQEGIELYKSLIS 310

Query:   311 EQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVL 370
             + +VP+  TFV  +SAC H+G +D G QIF SMK VYGIEPK+EHYGC+VDLLGR G++ 
Sbjct:   311 QGLVPDSATFVVTISACSHSGLVDEGLQIFNSMKAVYGIEPKVEHYGCLVDLLGRSGRLE 370

Query:   371 EAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA 430
             EAEE IK+M  KP+  +W + L + + HG+ E  E  +K ++ LE  N G YV+LSN+YA
Sbjct:   371 EAEECIKKMPVKPNATLWRSFLGSSQTHGDFERGEIALKHLLGLEFENSGNYVLLSNIYA 430

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	818
PLN03089	373	PLN03089, PLN03089, hypothetical protein; Provisio	1e-134
pfam04862	323	pfam04862, DUF642, Protein of unknown function, DU	1e-123
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-84
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-81
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-53
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-44
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-40
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	7e-30
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-21
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-12
TIGR04362	157	TIGR04362, choice_anch_C, choice-of-anchor C domai	1e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	9e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001

>gnl|CDD|215569 PLN03089, PLN03089, hypothetical protein; Provisional

 Score =  403 bits (1037), Expect = e-134
 Identities = 128/380 (33%), Positives = 182/380 (47%), Gaps = 28/380 (7%)

Query: 434 SMKMQLEILLVQVLFAGLASAA-----DILQNPDFESPPTNLTPNRSTPFVLLNGNNTIP 488
              M   +LL+ +L    A++A      +L N DFE+PP     N +    ++ G N IP
Sbjct: 1   MALMHSLLLLLLLLLCAAAASAAPVTDGLLPNGDFETPPKKSQMNGT----VVIGKNAIP 56

Query: 489 GWTFEGTVQYVTASQT-----IRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTLAP 543
           GW   G V+Y+++ Q      + +P+  HA++L  +  I+QT         Y LT + A 
Sbjct: 57  GWEISGFVEYISSGQKQGGMLLVVPEGAHAVRLGNEASISQTLTV-TKGSYYSLTFSAA- 114

Query: 544 GGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQSTES 603
             + C+ + +L VS P   GV  L+  Y    W SY          + +NLV  +   E 
Sbjct: 115 --RTCAQDESLNVSVPPESGVLPLQTLYSSSGWDSYAWAFKAES--DVVNLVFHNPGVE- 169

Query: 604 DDNSTCWPVIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSA 663
            ++  C P+ID + +KT        DNLL NGGFE GP    NS+ GVLL        S 
Sbjct: 170 -EDPACGPLIDAVAIKTLFPPRPTKDNLLKNGGFEEGPYVFPNSSWGVLLPPNIEDDTSP 228

Query: 664 LQQWSV--IGTVKYIDSKHFYVPKGNAAIEIVS-VSAGIQTATTMLTEGSAYNLDFTLGD 720
           L  W +  +  VKYIDS HF VP+G  A+E+VS   + I         G +YNL FT+GD
Sbjct: 229 LPGWMIESLKAVKYIDSAHFSVPEGKRAVELVSGKESAIAQVVR-TVPGKSYNLSFTVGD 287

Query: 721 AKDACEGMFVVRVQAGSLVQNFTVQSLGTGSVIKHSVTFKAGSGSTPISFIS--YNINQT 778
           A + C G  +V   AG   Q    +S G G   + S+ FKA S  T I+F S  Y+    
Sbjct: 288 ANNGCHGSMMVEAFAGKDTQKVPYESQGKGGFKRASLRFKAVSNRTRITFYSSFYHTKSD 347

Query: 779 KDGVFCGPLIDDVVLRASHG 798
             G  CGP++DDV +     
Sbjct: 348 DFGSLCGPVVDDVRVVPVRA 367

Length = 373

>gnl|CDD|191115 pfam04862, DUF642, Protein of unknown function, DUF642

 Score =  372 bits (958), Expect = e-123
 Identities = 120/332 (36%), Positives = 162/332 (48%), Gaps = 21/332 (6%)

Query: 477 PFVLLNGNNTIPGWTFEGTVQYVTASQT-----IRLPDNGHAIQLAQDGRINQTFAADGD 531
              +++G   IPGW   G V+Y+++        + +P   HA++L  +  I+Q  +    
Sbjct: 2   NGTVVDGRYAIPGWEISGFVEYISSGPKQGDMLLAVPQGVHAVRLGNEASISQRLSV-TP 60

Query: 532 DLIYILTLTLAPGGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEP 591
            + Y LT +     + C+ +  L VS P   GV  ++  Y    W SY        + E 
Sbjct: 61  GMYYSLTFS---AARTCAQDEVLNVSVPPESGVLPIQTLYSSSGWDSYAWAFK--AKGEH 115

Query: 592 INLVIRSQSTESDDNSTCWPVIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGV 651
           +NLV  +   E D   TC P+ID + +KT     +   NLL NGGFE GP    NST GV
Sbjct: 116 VNLVFHNPGVEED--PTCGPLIDAVAIKTLYPPRKTKGNLLKNGGFEEGPYVFPNSTWGV 173

Query: 652 LLESAPSPIQSALQQWSV--IGTVKYIDSKHFYVPKGNAAIEIVS--VSAGIQTATTMLT 707
           LL        S L  W V  +  VKYIDS HF VP+G  AIE+V+   SA  Q   T   
Sbjct: 174 LLPPKIEDDHSPLPGWMVESLKAVKYIDSAHFSVPEGARAIELVAGKESAIAQEVRT--V 231

Query: 708 EGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFTVQSLGTGSVIKHSVTFKAGSGSTP 767
            G +YNL FT+GDA D C G  VV   AGS  Q    +S GTG   + S+ FKA S  T 
Sbjct: 232 PGKSYNLSFTVGDANDGCHGSMVVEAFAGSGTQKVPYESQGTGGFKRASLEFKAVSNRTR 291

Query: 768 ISFIS--YNINQTKDGVFCGPLIDDVVLRASH 797
           ++F S  Y+      G  CGP+IDDV +    
Sbjct: 292 VTFYSTFYHTKTDDFGSLCGPVIDDVSVVPVG 323

This family represents a conserved region found in a number of uncharacterized plant proteins. Length = 323

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  283 bits (726), Expect = 1e-84
 Identities = 127/367 (34%), Positives = 204/367 (55%)

Query: 63  GDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVL 122
           G L  A RLF+ +   N   W T+I     + N  +A  L+  M   G      TF  +L
Sbjct: 172 GMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVML 231

Query: 123 KACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLN 182
           +A + + S    +Q+H  V K+G+  D  V   L+  YS   D+ +AR VFD +  +T  
Sbjct: 232 RASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTV 291

Query: 183 VWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFV 242
            W +M++GYA    + EAL L+ +M   G   +  T + ++   ++   LE  ++ H  +
Sbjct: 292 AWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGL 351

Query: 243 KMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEAL 302
              GF +  +  TALV +Y+K G +  A+ +FD MP +N+ +WNA+I+G  +HG   +A+
Sbjct: 352 IRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAV 411

Query: 303 DLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDL 362
           ++F ++  E + PN +TF+ VLSAC ++G  + G +IF SM   + I+P+  HY CM++L
Sbjct: 412 EMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIEL 471

Query: 363 LGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVY 422
           LGR G + EA  +I+R  +KP V MW ALL AC+ H N+E+     +++  + P     Y
Sbjct: 472 LGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNY 531

Query: 423 VVLSNMY 429
           VVL N+Y
Sbjct: 532 VVLLNLY 538

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  278 bits (712), Expect = 3e-81
 Identities = 133/406 (32%), Positives = 225/406 (55%), Gaps = 14/406 (3%)

Query: 32  KQIHAQMIISSRIQDHFAASRLLAFC-----ALSSSGDLSYATRLFNSIQSPNHFMWNTL 86
           +++H  ++ +      FA    ++ C        S G    A ++F+ +++ +   W  +
Sbjct: 308 REMHGYVVKTG-----FAVD--VSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAM 360

Query: 87  IRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGL 146
           I     +  PDKA+  Y  M +   +P++ T   VL AC+ +  L+   ++H    + GL
Sbjct: 361 ISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGL 420

Query: 147 DLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQ 206
              + V N L+  YS    ++ A +VF  I  + +  WT++I+G   + R  EAL+ F Q
Sbjct: 421 ISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQ 480

Query: 207 MLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGA 266
           ML+   +PNSVTL + LSACA+ G L  G+++H  V   G      L  AL+ +Y + G 
Sbjct: 481 MLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGR 539

Query: 267 LAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA 326
           +  A   F+S  E+++ +WN +++G  +HG    A++LF ++ +  + P+++TF+ +L A
Sbjct: 540 MNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCA 598

Query: 327 CCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVV 386
           C  +G +  G + F SM+  Y I P ++HY C+VDLLGR GK+ EA   I +M   PD  
Sbjct: 599 CSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPA 658

Query: 387 MWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEA 432
           +WGALL AC+ H ++E+ E   + I  L+PN+ G Y++L N+YA+A
Sbjct: 659 VWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADA 704

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  200 bits (509), Expect = 1e-53
 Identities = 111/365 (30%), Positives = 192/365 (52%), Gaps = 3/365 (0%)

Query: 63  GDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVL 122
           G+L +A  +F  +   + F WN L+   A +   D+A+ LY  M   G  P+ +TF  VL
Sbjct: 135 GELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVL 194

Query: 123 KACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLN 182
           + C  +  L   +++H HV + G +LD+ VVN L+  Y    D+ +AR VFD +  R   
Sbjct: 195 RTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCI 254

Query: 183 VWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFV 242
            W  MISGY ++    E L LF  M     +P+ +T+ SV+SAC   G   LG ++H +V
Sbjct: 255 SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYV 314

Query: 243 KMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEAL 302
              GF +   +  +L+ MY   G+  +A+ +F  M  ++  +W AMISG   +G  ++AL
Sbjct: 315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKAL 374

Query: 303 DLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDL 362
           + +  +E++ + P++IT   VLSAC   G +DVG ++    +R  G+   +     ++++
Sbjct: 375 ETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERK-GLISYVVVANALIEM 433

Query: 363 LGRCGKVLEAEELIKRMVWKPDVVMWGALLAA-CKNHGNIEVAERVVKEIIALEPNNHGV 421
             +C  + +A E+   +  K DV+ W +++A    N+   E      + ++ L+PN+  +
Sbjct: 434 YSKCKCIDKALEVFHNIPEK-DVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTL 492

Query: 422 YVVLS 426
              LS
Sbjct: 493 IAALS 497

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  168 bits (428), Expect = 8e-44
 Identities = 94/314 (29%), Positives = 162/314 (51%), Gaps = 8/314 (2%)

Query: 117 TFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEI 176
           T+  +++AC  ++S+ C K ++ HV  SG + D +++N ++  +     L +AR++FDE+
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM 184

Query: 177 RNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGE 236
             R L  W T+I G   +    EA  LF +M  +G +    T   +L A A  G    G+
Sbjct: 185 PERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ 244

Query: 237 KVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHG 296
           ++H  V   G      +  AL+ MY+K G +  A+ +FD MPE+    WN+M++G A HG
Sbjct: 245 QLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHG 304

Query: 297 HAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHY 356
           ++EEAL L+ ++    +  +  TF  ++        ++  +Q    + R  G    I   
Sbjct: 305 YSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIR-TGFPLDIVAN 363

Query: 357 GCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGN----IEVAERVVKEII 412
             +VDL  + G++ +A  +  RM  K +++ W AL+A   NHG     +E+ ER++ E +
Sbjct: 364 TALVDLYSKWGRMEDARNVFDRMPRK-NLISWNALIAGYGNHGRGTKAVEMFERMIAEGV 422

Query: 413 ALEPNNHGVYVVLS 426
           A  PN+     VLS
Sbjct: 423 A--PNHVTFLAVLS 434

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  158 bits (401), Expect = 6e-40
 Identities = 98/356 (27%), Positives = 171/356 (48%), Gaps = 7/356 (1%)

Query: 74  SIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNC 133
           S  S  H   N+ +RA  S    ++A+ L  +M+      ++  +  + + C   R++  
Sbjct: 46  SSSSSTHDS-NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEE 104

Query: 134 CKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQ 193
             ++ +    S   L + + N ++  +    +L +A  VF ++  R L  W  ++ GYA+
Sbjct: 105 GSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAK 164

Query: 194 SFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAIL 253
           +   +EAL L+ +ML  G  P+  T   VL  C     L  G +VH  V   GFE+   +
Sbjct: 165 AGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDV 224

Query: 254 GTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQI 313
             AL+ MY K G +  A+ +FD MP R+  +WNAMISG   +G   E L+LF  + +  +
Sbjct: 225 VNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSV 284

Query: 314 VPNDITFVGVLSACCHAGFIDVGRQIFG-SMKRVYGIEPKIEHYGCMVDLLGRCGKVLEA 372
            P+ +T   V+SAC   G   +GR++ G  +K  + ++  +     ++ +    G   EA
Sbjct: 285 DPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVD--VSVCNSLIQMYLSLGSWGEA 342

Query: 373 EELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVK--EIIALEPNNHGVYVVLS 426
           E++  RM  K D V W A+++  + +G  + A       E   + P+   +  VLS
Sbjct: 343 EKVFSRMETK-DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLS 397

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  126 bits (317), Expect = 7e-30
 Identities = 91/352 (25%), Positives = 163/352 (46%), Gaps = 49/352 (13%)

Query: 32  KQIHAQMIISSRIQDHFAASRLLAFCAL----SSSGDLSYATRLFNSIQSPNHFMWNTLI 87
           +Q+H  ++ +  + D F +      CAL    S  GD+  A  +F+ +       WN+++
Sbjct: 244 QQLHCCVLKTGVVGDTFVS------CALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSML 297

Query: 88  RAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLD 147
              A     ++A+ LY  MR +G + +Q TF+ +++  S +  L   KQ H  + ++G  
Sbjct: 298 AGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFP 357

Query: 148 LDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQM 207
           LD+     LV  YS    + +AR VFD +  + L  W  +I+GY    R  +A+ +F++M
Sbjct: 358 LDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERM 417

Query: 208 LMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFE-MGAILGTALVHMYTKNGA 266
           + EG  PN VT  +VLSAC  SG  E G ++        F+ M                 
Sbjct: 418 IAEGVAPNHVTFLAVLSACRYSGLSEQGWEI--------FQSMSENHRI----------- 458

Query: 267 LAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA 326
             K +A+           +  MI  L   G  +EA  + R   +    P    +  +L+A
Sbjct: 459 --KPRAMH----------YACMIELLGREGLLDEAYAMIR---RAPFKPTVNMWAALLTA 503

Query: 327 CCHAGFIDVGRQIFGSMKRVYGIEP-KIEHYGCMVDLLGRCGKVLEAEELIK 377
           C     +++GR    + +++YG+ P K+ +Y  +++L    G+  EA ++++
Sbjct: 504 CRIHKNLELGRL---AAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVE 552

Length = 697

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =   99 bits (249), Expect = 1e-21
 Identities = 62/211 (29%), Positives = 100/211 (47%), Gaps = 5/211 (2%)

Query: 196 RANEALMLFDQMLMEG-FEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILG 254
           R  EAL LF+ +     F   + T  +++ AC     +   + V+  V+  GFE    + 
Sbjct: 102 RHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMM 161

Query: 255 TALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIV 314
             ++ M+ K G L  A+ LFD MPERN+A+W  +I GL   G+  EA  LFR++ ++   
Sbjct: 162 NRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSD 221

Query: 315 PNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGC-MVDLLGRCGKVLEAE 373
               TFV +L A    G    G+Q+   + +   +        C ++D+  +CG + +A 
Sbjct: 222 AEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDT--FVSCALIDMYSKCGDIEDAR 279

Query: 374 ELIKRMVWKPDVVMWGALLAACKNHGNIEVA 404
            +   M  K   V W ++LA    HG  E A
Sbjct: 280 CVFDGMPEK-TTVAWNSMLAGYALHGYSEEA 309

Length = 697

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 74.9 bits (184), Expect = 1e-13
 Identities = 69/313 (22%), Positives = 140/313 (44%), Gaps = 35/313 (11%)

Query: 154 NCLVRCYSVSSDLNNARQVFDEIRNRTLN----VWTTMISGYAQSFRANEALMLFDQMLM 209
           N L+   + S D++ A +V   ++   L     ++TT+IS  A+S + +    +F +M+ 
Sbjct: 441 NMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVN 500

Query: 210 EGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAK 269
            G E N  T  +++  CA++G +      +  ++ +  +   ++  AL+    ++GA+ +
Sbjct: 501 AGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDR 560

Query: 270 AKALFDSMPERNI---------ATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITF 320
           A   FD + E             T  A++   A+ G  + A ++++ + +  I      +
Sbjct: 561 A---FDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVY 617

Query: 321 VGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV 380
              +++C   G  D    I+  MK+  G++P    +  +VD+ G  G + +A E+++   
Sbjct: 618 TIAVNSCSQKGDWDFALSIYDDMKKK-GVKPDEVFFSALVDVAGHAGDLDKAFEILQDAR 676

Query: 381 ---WKPDVVMWGALLAACKNHGNIEVAERVVKEI--IALEPNNHGVYVVLSNMYA----- 430
               K   V + +L+ AC N  N + A  + ++I  I L P        +S M A     
Sbjct: 677 KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPT-------VSTMNALITAL 729

Query: 431 -EAESMKMQLEIL 442
            E   +   LE+L
Sbjct: 730 CEGNQLPKALEVL 742

Length = 1060

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 60.5 bits (148), Expect = 7e-12
 Identities = 17/49 (34%), Positives = 27/49 (55%)

Query: 281 NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCH 329
           ++ T+N +I G    G  EEAL LF +++K  I PN  T+  ++   C 
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|234562 TIGR04362, choice_anch_C, choice-of-anchor C domain

 Score = 63.2 bits (154), Expect = 1e-11
 Identities = 45/171 (26%), Positives = 71/171 (41%), Gaps = 21/171 (12%)

Query: 630 NLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVI-GTVKYIDSKHFYVPK-GN 687
           NL+ NG FE G D          L +      SA+  W+V  G+V  I+   ++    G+
Sbjct: 1   NLITNGSFESGSD---PGNGFSTLSAG----SSAITGWTVGSGSVDLING--YWQASEGS 51

Query: 688 AAIEIV-SVSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFTV-Q 745
            +I++  +   G  + T     G  Y + F L    D   G+  + V  G   Q+F+   
Sbjct: 52  RSIDLNGTTGPGGISQTFNTVAGQTYRVTFDLAGNPDGGPGLKDLTVSVGGASQDFSFDT 111

Query: 746 SLGTGSV---IKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVL 793
           +  T +       S  F A S ST +SF S       +G   GP +D+V +
Sbjct: 112 TGKTTANMGWTTKSFDFTATSTSTTLSFTS-----LDNGGAWGPALDNVSV 157

This family describes an extracellular bacterial domain that occurs on a number of proteins with PEP-CTERM (exosortase recognition site) sequences at the C-terminus, as well some with an apparent alternate anchor sequence. Note that related pfam04862 (DUF642), as of release 26, is double the length of this model because it has two tandem regions homologous to this domain. pfam04862, in turn, belongs to a Pfam clan called the galactose-binding domain-like superfamily. Length = 157

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 59.1 bits (143), Expect = 7e-09
 Identities = 46/198 (23%), Positives = 90/198 (45%), Gaps = 9/198 (4%)

Query: 220 ASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE 279
             +L       C++L E +    K    +M  I          K  A+ +A      +  
Sbjct: 378 NRLLRDGRIKDCIDLLEDME---KRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN 434

Query: 280 RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQI 339
             ++T+N ++S  AS    + AL + R +++  +  +   +  ++S C  +G +D   ++
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 340 FGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEA----EELIKRMVWKPDVVMWGALLAAC 395
           F  M    G+E  +  +G ++D   R G+V +A      +  + V KPD V++ AL++AC
Sbjct: 495 FHEMV-NAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNV-KPDRVVFNALISAC 552

Query: 396 KNHGNIEVAERVVKEIIA 413
              G ++ A  V+ E+ A
Sbjct: 553 GQSGAVDRAFDVLAEMKA 570

Length = 1060

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 59.1 bits (143), Expect = 9e-09
 Identities = 63/352 (17%), Positives = 157/352 (44%), Gaps = 18/352 (5%)

Query: 68  ATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSN 127
           A R    I++P    +N L+   ASS + D A+ +   ++  G   +   +T ++  C+ 
Sbjct: 425 AFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAK 484

Query: 128 VRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLN----V 183
              ++   ++   +  +G++ ++H    L+   + +  +  A   +  +R++ +     V
Sbjct: 485 SGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVV 544

Query: 184 WTTMISGYAQSFRANEALMLFDQMLMEG--FEPNSVTLASVLSACAQSGCLELGEKVHVF 241
           +  +IS   QS   + A  +  +M  E    +P+ +T+ +++ ACA +G  ++     V+
Sbjct: 545 FNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAG--QVDRAKEVY 602

Query: 242 VKMRGFEMGAILG--TALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGL---ASH- 295
             +  + +       T  V+  ++ G    A +++D M ++ +       S L   A H 
Sbjct: 603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHA 662

Query: 296 GHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEH 355
           G  ++A ++ +   K+ I    +++  ++ AC +A       +++  +K +  + P +  
Sbjct: 663 GDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSI-KLRPTVST 721

Query: 356 YGCMVDLLGRCGKVLEAEEL---IKRMVWKPDVVMWGALLAACKNHGNIEVA 404
              ++  L    ++ +A E+   +KR+   P+ + +  LL A +   + +V 
Sbjct: 722 MNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVG 773

Length = 1060

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 50.1 bits (121), Expect = 3e-08
 Identities = 14/45 (31%), Positives = 25/45 (55%)

Query: 184 WTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQ 228
           + T+I GY +  +  EAL LF++M   G +PN  T + ++    +
Sbjct: 6   YNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 54.9 bits (132), Expect = 1e-07
 Identities = 78/363 (21%), Positives = 153/363 (42%), Gaps = 60/363 (16%)

Query: 53  LLAFCALSSSGDLSYATRLFNSIQS----PNHFMWNTLIRAQASSLNPDKAIFLYMNMRR 108
           L++ CA  SS D+  A R+   +Q      +  ++ TLI   A S   D    ++  M  
Sbjct: 443 LMSVCA--SSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVN 500

Query: 109 TGFAPNQHTFTFVLKACS------------------NVRS--------LNCCKQI----- 137
            G   N HTF  ++  C+                  NV+         ++ C Q      
Sbjct: 501 AGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDR 560

Query: 138 ----------HTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR----TLNV 183
                      TH     +D D   V  L++  + +  ++ A++V+  I       T  V
Sbjct: 561 AFDVLAEMKAETH----PIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEV 616

Query: 184 WTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVK 243
           +T  ++  +Q    + AL ++D M  +G +P+ V  ++++     +G L+   ++    +
Sbjct: 617 YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDAR 676

Query: 244 MRGFEMGAILGTALVHMYTKNGALAKAKALFD---SMPER-NIATWNAMISGLASHGHAE 299
            +G ++G +  ++L+   +      KA  L++   S+  R  ++T NA+I+ L       
Sbjct: 677 KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLP 736

Query: 300 EALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCM 359
           +AL++  ++++  + PN IT+  +L A       DVG  +  S  +  GI+P +    C+
Sbjct: 737 KALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLL-SQAKEDGIKPNLVMCRCI 795

Query: 360 VDL 362
             L
Sbjct: 796 TGL 798

Length = 1060

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 47.4 bits (114), Expect = 3e-07
 Identities = 12/50 (24%), Positives = 25/50 (50%)

Query: 78  PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSN 127
           P+   +NTLI         ++A+ L+  M++ G  PN +T++ ++     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 42.4 bits (101), Expect = 1e-05
 Identities = 14/34 (41%), Positives = 23/34 (67%)

Query: 284 TWNAMISGLASHGHAEEALDLFRKLEKEQIVPND 317
           T+N +I GL   G  EEAL+LF+++++  I P+ 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 42.1 bits (100), Expect = 1e-05
 Identities = 12/30 (40%), Positives = 23/30 (76%)

Query: 284 TWNAMISGLASHGHAEEALDLFRKLEKEQI 313
           T+N++ISG    G  EEAL+LF++++++ +
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 41.7 bits (99), Expect = 2e-05
 Identities = 13/34 (38%), Positives = 19/34 (55%)

Query: 183 VWTTMISGYAQSFRANEALMLFDQMLMEGFEPNS 216
            + T+I G  ++ R  EAL LF +M   G EP+ 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 47.6 bits (113), Expect = 3e-05
 Identities = 41/201 (20%), Positives = 84/201 (41%), Gaps = 16/201 (7%)

Query: 54  LAFCALSSSGDLSYATRLFNSIQ----SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRT 109
           +A  + S  GD  +A  +++ ++     P+   ++ L+     + + DKA  +  + R+ 
Sbjct: 619 IAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ 678

Query: 110 GFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNA 169
           G      +++ ++ ACSN ++     +++  +    L   +  +N L+      + L  A
Sbjct: 679 GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKA 738

Query: 170 RQVFDEIRNRTLNVWTTMISGYAQSFRANE-------ALMLFDQMLMEGFEPNSVTLASV 222
            +V  E++   L +    I+ Y+    A+E        L L  Q   +G +PN V    +
Sbjct: 739 LEVLSEMKR--LGLCPNTIT-YSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCI 795

Query: 223 LSACAQ--SGCLELGEKVHVF 241
              C +       LGE V  F
Sbjct: 796 TGLCLRRFEKACALGEPVVSF 816

Length = 1060

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 39.7 bits (94), Expect = 1e-04
 Identities = 11/30 (36%), Positives = 19/30 (63%)

Query: 183 VWTTMISGYAQSFRANEALMLFDQMLMEGF 212
            + ++ISGY ++ +  EAL LF +M  +G 
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 37.8 bits (89), Expect = 7e-04
 Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 4/43 (9%)

Query: 255 TALVHMYTKNGALAKAKALFDSMPER----NIATWNAMISGLA 293
             L+  Y K G + +A  LF+ M +R    N+ T++ +I GL 
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.4 bits (85), Expect = 0.001
 Identities = 9/34 (26%), Positives = 19/34 (55%)

Query: 282 IATWNAMISGLASHGHAEEALDLFRKLEKEQIVP 315
           + T+NA++  LA  G  + AL +  +++   + P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	818
PLN03089	373	hypothetical protein; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03089	373	hypothetical protein; Provisional	100.0
PF04862	159	DUF642: Protein of unknown function (DUF642); Inte	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.95
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.9
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.88
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.87
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.83
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.82
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.82
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.81
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.81
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.81
PF04862	159	DUF642: Protein of unknown function (DUF642); Inte	99.79
PRK14574	822	hmsH outer membrane protein; Provisional	99.78
PRK14574	822	hmsH outer membrane protein; Provisional	99.76
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.72
KOG2003	840	consensus TPR repeat-containing protein [General f	99.67
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.64
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.6
KOG2076	895	consensus RNA polymerase III transcription factor	99.58
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.57
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.55
KOG1126	638	consensus DNA-binding cell division cycle control	99.54
KOG2003	840	consensus TPR repeat-containing protein [General f	99.54
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.54
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.53
KOG2076	895	consensus RNA polymerase III transcription factor	99.51
KOG1126	638	consensus DNA-binding cell division cycle control	99.5
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.5
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.49
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.49
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.47
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.47
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.45
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.44
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.43
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.4
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.38
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.37
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.36
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.35
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.33
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.33
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.3
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.26
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.26
KOG1129	478	consensus TPR repeat-containing protein [General f	99.25
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.25
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.25
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.24
PRK12370	553	invasion protein regulator; Provisional	99.22
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.18
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.17
PRK12370	553	invasion protein regulator; Provisional	99.15
PRK11189	296	lipoprotein NlpI; Provisional	99.13
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.1
PRK11189	296	lipoprotein NlpI; Provisional	99.09
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.07
KOG1125	579	consensus TPR repeat-containing protein [General f	99.02
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.0
KOG1129	478	consensus TPR repeat-containing protein [General f	99.0
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.99
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.99
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.98
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.98
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.97
PF13041	50	PPR_2: PPR repeat family	98.97
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.96
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.96
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.93
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.93
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.92
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.9
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.89
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.86
PF13041	50	PPR_2: PPR repeat family	98.85
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.84
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.83
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.81
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.8
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.79
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.79
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.78
PRK04841	903	transcriptional regulator MalT; Provisional	98.78
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.76
PRK04841	903	transcriptional regulator MalT; Provisional	98.74
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.74
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.73
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.72
KOG1125	579	consensus TPR repeat-containing protein [General f	98.69
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.69
PRK15359	144	type III secretion system chaperone protein SscB;	98.66
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.65
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.65
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.58
PRK15359	144	type III secretion system chaperone protein SscB;	98.57
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.57
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.56
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.55
PLN02789	320	farnesyltranstransferase	98.54
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.48
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.44
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.42
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.4
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.4
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.38
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.37
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.36
PLN02789	320	farnesyltranstransferase	98.35
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.35
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.3
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.3
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.3
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.29
PF02018	131	CBM_4_9: Carbohydrate binding domain; InterPro: IP	98.29
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.26
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.22
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.22
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.22
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.21
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.18
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.15
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.15
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.11
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.11
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.09
KOG0553	304	consensus TPR repeat-containing protein [General f	98.01
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.97
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.96
PF12854	34	PPR_1: PPR repeat	97.95
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.95
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.93
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.91
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.9
PF12854	34	PPR_1: PPR repeat	97.89
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.87
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.86
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.84
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.83
KOG0553	304	consensus TPR repeat-containing protein [General f	97.82
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.74
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.74
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.71
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.7
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.7
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.69
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.68
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.67
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.65
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.64
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.62
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.57
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.57
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.55
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.55
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.52
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.47
PF13371	73	TPR_9: Tetratricopeptide repeat	97.46
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.44
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.44
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.41
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.36
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.35
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.31
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.31
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.3
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.28
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.25
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.24
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.2
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.2
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.19
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.17
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.13
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.12
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.1
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.07
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.06
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.05
PF12688	120	TPR_5: Tetratrico peptide repeat	97.02
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.0
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.99
PRK10803	263	tol-pal system protein YbgF; Provisional	96.98
PF13431	34	TPR_17: Tetratricopeptide repeat	96.95
PRK15331	165	chaperone protein SicA; Provisional	96.94
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	96.94
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.91
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.88
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.85
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.84
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.82
PF12688	120	TPR_5: Tetratrico peptide repeat	96.78
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.77
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.75
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	96.74
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.71
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.68
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.67
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.64
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.59
PF13371	73	TPR_9: Tetratricopeptide repeat	96.59
PF13428	44	TPR_14: Tetratricopeptide repeat	96.58
PRK10803	263	tol-pal system protein YbgF; Provisional	96.57
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.57
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.5
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.49
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.47
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.4
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.39
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.34
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.31
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.27
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.26
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.24
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.16
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.95
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.91
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.79
PF13512	142	TPR_18: Tetratricopeptide repeat	95.65
PRK11906	458	transcriptional regulator; Provisional	95.59
PRK11906	458	transcriptional regulator; Provisional	95.56
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	95.48
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.37
PRK15331	165	chaperone protein SicA; Provisional	95.37
KOG1258	577	consensus mRNA processing protein [RNA processing	95.33
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.27
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.23
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.22
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.17
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.02
PF13428	44	TPR_14: Tetratricopeptide repeat	94.97
PF03704	146	BTAD: Bacterial transcriptional activator domain;	94.81
KOG1585	308	consensus Protein required for fusion of vesicles	94.81
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.78
PF03704	146	BTAD: Bacterial transcriptional activator domain;	94.76
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	94.69
KOG1585	308	consensus Protein required for fusion of vesicles	94.68
KOG1258	577	consensus mRNA processing protein [RNA processing	94.55
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.53
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.51
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.48
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.48
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	94.48
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.46
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.36
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.32
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.17
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	94.11
PRK11619	644	lytic murein transglycosylase; Provisional	94.08
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.07
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.04
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.86
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.86
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.85
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.8
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	93.78
KOG4234	271	consensus TPR repeat-containing protein [General f	93.74
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.73
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.69
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	93.68
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.6
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.58
PF13512	142	TPR_18: Tetratricopeptide repeat	93.57
KOG4555	175	consensus TPR repeat-containing protein [Function	93.43
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	93.26
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.24
KOG4234	271	consensus TPR repeat-containing protein [General f	93.15
KOG4555	175	consensus TPR repeat-containing protein [Function	92.98
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	92.72
KOG3941	406	consensus Intermediate in Toll signal transduction	92.63
KOG1586	288	consensus Protein required for fusion of vesicles	92.37
smart00299	140	CLH Clathrin heavy chain repeat homology.	92.31
smart00299	140	CLH Clathrin heavy chain repeat homology.	92.24
KOG4648	536	consensus Uncharacterized conserved protein, conta	92.17
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	91.83
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.64
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.4
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	91.23
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.11
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	90.72
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.55
KOG1550	552	consensus Extracellular protein SEL-1 and related	90.33
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	90.19
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	90.16
KOG3941	406	consensus Intermediate in Toll signal transduction	90.1
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	89.78
KOG1550	552	consensus Extracellular protein SEL-1 and related	89.76
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	89.68
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	89.65
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	89.62
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.15
PRK09687	280	putative lyase; Provisional	88.97
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	88.72
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	88.46
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.39
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	88.23
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	87.64
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	87.28
PRK09687	280	putative lyase; Provisional	87.18
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	87.18
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	86.48
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	86.36
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.59
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	85.46
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	85.29
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	85.25
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	84.77
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	83.75
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	83.53
PRK10941	269	hypothetical protein; Provisional	83.45
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	83.31
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	83.3
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	83.22
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	82.69
COG1747	711	Uncharacterized N-terminal domain of the transcrip	82.61
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	82.15
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	81.83
PRK11619	644	lytic murein transglycosylase; Provisional	81.47
KOG0403	645	consensus Neoplastic transformation suppressor Pdc	81.14
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	80.8
COG3629	280	DnrI DNA-binding transcriptional activator of the	80.64
PF13431	34	TPR_17: Tetratricopeptide repeat	80.2
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	80.14
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	80.02

>PLN03089 hypothetical protein; Provisional

Probab=100.00  E-value=1.1e-76  Score=618.31  Aligned_cols=333  Identities=38%  Similarity=0.637  Sum_probs=310.8

Q ss_pred             hhcccCCCCCCCCCCCCCCCCcceeeecCCCCCCCceeeceEEEEecCCe-----eecCCCCccccccccccchhhhhcc
Q 003457          455 ADILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQT-----IRLPDNGHAIQLAQDGRINQTFAAD  529 (818)
Q Consensus       455 ~~~~~~~~~~~~~lel~P~~~~~~v~l~~~~~~~~w~~~~~v~~~~~~~~-----~~~p~~~~~~~~~~~~~i~~~~~~~  529 (818)
                      +++..||.||+.+....|+..    +..+...+|+|...|.|+|+.++++     +..|+|+|++||+.++.|.|.+. .
T Consensus        27 ~nLL~NG~FE~gP~~~~~n~t----~~~g~s~LPgW~i~g~VeyI~s~~~~~~m~~~vP~G~~Av~LG~e~sI~Q~i~-t  101 (373)
T PLN03089         27 DGLLPNGDFETPPKKSQMNGT----VVIGKNAIPGWEISGFVEYISSGQKQGGMLLVVPEGAHAVRLGNEASISQTLT-V  101 (373)
T ss_pred             CCeecCCCccCCCCcCCCCcc----cccCCCCCCCCEecCcEEEEeCCCccCceeEECCCCchhhhcCCCceEEEEEE-c
Confidence            478999999999977777644    5567799999999999999999986     78999999999999999999995 8


Q ss_pred             cCCceeeeeeeccCCCcccccccceeeecCCCCceeeceeeccCCccchhhhccccccCCCceEEEEecCCCCCCCCCcc
Q 003457          530 GDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQSTESDDNSTC  609 (818)
Q Consensus       530 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  609 (818)
                      .+++.|.+||+++   |+|++.+.|+|+|+++++++|+||+|+++|||.|+|+|  +|+++.++|+|||||+++|  ++|
T Consensus       102 ~~G~~Y~LTFs~a---r~c~~~~~v~vsv~~~~~~~~~qt~~~~~gw~~~s~~F--~A~s~~t~l~F~~~~~~~D--~~C  174 (373)
T PLN03089        102 TKGSYYSLTFSAA---RTCAQDESLNVSVPPESGVLPLQTLYSSSGWDSYAWAF--KAESDVVNLVFHNPGVEED--PAC  174 (373)
T ss_pred             cCCCEEEEEEEec---CCCCCCceEEEEecCCCcEEeeEEeccCCCcEEEEEEE--EEecccEEEEEECcccCCC--Ccc
Confidence            9999999999987   99999999999999999999999999999999999887  7888999999999888654  699


Q ss_pred             hhHHHHhhhcccCCCCCCCCCcccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEE--eceeeeecCCceeccCCC
Q 003457          610 WPVIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSV--IGTVKYIDSKHFYVPKGN  687 (818)
Q Consensus       610 ~~~~~~~~~~~~~~~~~~~~~l~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~--~~~v~~i~~~~~~~~~g~  687 (818)
                      ||+||.+.++++.+|.+++||||+||+||+||++++|+++|+++||++++++++||||+|  .|+||||+++||.||+|+
T Consensus       175 GPviD~VaIk~l~~P~p~~~Nll~NG~FE~Gp~~~~n~~~gvllp~~~~~~~s~LpgW~i~s~~~V~yids~h~~vp~G~  254 (373)
T PLN03089        175 GPLIDAVAIKTLFPPRPTKDNLLKNGGFEEGPYVFPNSSWGVLLPPNIEDDTSPLPGWMIESLKAVKYIDSAHFSVPEGK  254 (373)
T ss_pred             cceeeeEEEeeccCCCccccceeecCCcccCCcccCCCCceEEeCCccccCCCCCCCcEEecCccEEEEecCcccCCCCc
Confidence            999999999999999999999999999999999988999999999999999999999999  589999999999999999


Q ss_pred             eeEEecC--CccceeeeeccccCCCeEEEEEecCcccCccccceEEEEeeCCcceeeEEEecccCCceeeeEEEEeccce
Q 003457          688 AAIEIVS--VSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFTVQSLGTGSVIKHSVTFKAGSGS  765 (818)
Q Consensus       688 ~~~~l~~--~~~~~q~~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~a~~~~  765 (818)
                      |||||.+  +++|.|.+.  |+||++|+|||+||+|+++|++++.|+++++..+++|+|++.++++|++++|.|+|++++
T Consensus       255 ~aveL~~g~e~aI~Q~v~--T~~G~~Y~LsFs~g~a~~~c~gs~~V~a~ag~~~~~v~~~s~g~gg~~~~s~~F~A~s~~  332 (373)
T PLN03089        255 RAVELVSGKESAIAQVVR--TVPGKSYNLSFTVGDANNGCHGSMMVEAFAGKDTQKVPYESQGKGGFKRASLRFKAVSNR  332 (373)
T ss_pred             eEEEeccCCcceEEEEEE--ccCCCEEEEEEEEccCCCCCCCcEEEEEEeecccceEEEecCCCcceEEEEEEEEeccCC
Confidence            9999966  566779999  999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeEEEEeCcccccCC--CCccccccceeeeeeccCccc
Q 003457          766 TPISFISYNINQTKD--GVFCGPLIDDVVLRASHGFKL  801 (818)
Q Consensus       766 ~~~~f~~~~~~~~~~--~~~~gp~~d~v~~~~~~~~~~  801 (818)
                      |||+|+|.+|++..+  +++|||+||||+|++++.+..
T Consensus       333 Trl~F~s~~y~~~~d~~~~~cGPvlDdV~v~~~~~~~~  370 (373)
T PLN03089        333 TRITFYSSFYHTKSDDFGSLCGPVVDDVRVVPVRAPRA  370 (373)
T ss_pred             EEEEEEEeecccccCcCCCcccceeeeEEEEEccCCcc
Confidence            999999988777544  899999999999999987754

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2e-64  Score=617.13  Aligned_cols=523  Identities=23%  Similarity=0.398  Sum_probs=484.6

Q ss_pred             CCCCChhHHHHHHHHhcCchHH---HHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCCCCHHHHHHH
Q 003457           10 QPPLPIPPLSLLADKCKSMHQL---KQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTL   86 (818)
Q Consensus        10 ~~~p~~~tl~~ll~~c~~~~~~---~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~yn~L   86 (818)
                      +.+||..||++++.+|+..+..   +++|..+++.|+.||..++|+|+.+|  +++|++++|.++|++|+++|..+||+|
T Consensus       182 g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y--~k~g~~~~A~~lf~~m~~~d~~s~n~l  259 (857)
T PLN03077        182 GVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMY--VKCGDVVSARLVFDRMPRRDCISWNAM  259 (857)
T ss_pred             CCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHH--hcCCCHHHHHHHHhcCCCCCcchhHHH
Confidence            6889999999999999876654   89999999999999999999999999  999999999999999999999999999


Q ss_pred             HHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCh
Q 003457           87 IRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDL  166 (818)
Q Consensus        87 i~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~  166 (818)
                      |.+|++.|++++|+++|++|.+.|+.||..||+.++.+|.+.|+.+.+.+++..+.+.|+.||..+|+.|+.+|+++|++
T Consensus       260 i~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~  339 (857)
T PLN03077        260 ISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSW  339 (857)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 003457          167 NNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRG  246 (818)
Q Consensus       167 ~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g  246 (818)
                      ++|.++|++|.++|..+||.|+.+|++.|++++|+++|++|.+.|+.||..||..++.+|++.|++++|.++++.+.+.|
T Consensus       340 ~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g  419 (857)
T PLN03077        340 GEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKG  419 (857)
T ss_pred             HHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457          247 FEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA  326 (818)
Q Consensus       247 ~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  326 (818)
                      +.++..+++.|+++|+++|++++|.++|++|.++|..+|+++|.+|++.|+.++|+++|++|.+ +++||..||+.++.+
T Consensus       420 ~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a  498 (857)
T PLN03077        420 LISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSA  498 (857)
T ss_pred             CCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999986 589999999999999


Q ss_pred             HHHcCCHHHHHHHHHHHHHHhCC------------------------------CCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 003457          327 CCHAGFIDVGRQIFGSMKRVYGI------------------------------EPKIEHYGCMVDLLGRCGKVLEAEELI  376 (818)
Q Consensus       327 ~~~~g~~~~A~~~~~~m~~~~g~------------------------------~p~~~~~~~Li~~~~~~g~~~~A~~~~  376 (818)
                      |++.|+++.+.+++..+.+. |+                              .+|..+|+.||.+|++.|+.++|+++|
T Consensus       499 ~~~~g~l~~~~~i~~~~~~~-g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf  577 (857)
T PLN03077        499 CARIGALMCGKEIHAHVLRT-GIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELF  577 (857)
T ss_pred             HhhhchHHHhHHHHHHHHHh-CCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHH
Confidence            88888888888888877665 54                              567778888888888889999999999


Q ss_pred             HHc---CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCCCcchHHHHHHHHHHhhchHHHHHHHHHH-----
Q 003457          377 KRM---VWKPDVVMWGALLAACKNHGNIEVAERVVKEIIA---LEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ-----  445 (818)
Q Consensus       377 ~~m---~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~---~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~-----  445 (818)
                      ++|   ..+||..||+.++.+|.+.|++++|.++|++|.+   +.|+ ..+|.+++++|.+.|+++||.++++.|     
T Consensus       578 ~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~-~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd  656 (857)
T PLN03077        578 NRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPN-LKHYACVVDLLGRAGKLTEAYNFINKMPITPD  656 (857)
T ss_pred             HHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCc-hHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCC
Confidence            988   3679999999999999999999999999999984   4566 789999999999999999999987664     


Q ss_pred             ----HHHHHHHhhhhcccCCCCC-CCCCCCCCCCCcceeeecCC-CCCCCceeeceEEEEecCCeeecCCCCcccccccc
Q 003457          446 ----VLFAGLASAADILQNPDFE-SPPTNLTPNRSTPFVLLNGN-NTIPGWTFEGTVQYVTASQTIRLPDNGHAIQLAQD  519 (818)
Q Consensus       446 ----~~ll~~~~~~~~~~~~~~~-~~~lel~P~~~~~~v~l~~~-~~~~~w~~~~~v~~~~~~~~~~~p~~~~~~~~~~~  519 (818)
                          .+++.+|+.++..+.++.. +.+++++|+++.+|++|+|+ ...++|+.+.+++..|++.++.+.| |+|| ++++
T Consensus       657 ~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~-g~s~-ie~~  734 (857)
T PLN03077        657 PAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDP-GCSW-VEVK  734 (857)
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCC-CccE-EEEC
Confidence                3788999877766666643 45689999999999999998 7889999999999999999977777 9999 9999


Q ss_pred             ccchhhhhcccCCceeeeeeeccCCCccccccccee
Q 003457          520 GRINQTFAADGDDLIYILTLTLAPGGQNCSANANLV  555 (818)
Q Consensus       520 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  555 (818)
                      +++|.|+.                ++++|++.+.+.
T Consensus       735 ~~~~~f~~----------------~d~~h~~~~~i~  754 (857)
T PLN03077        735 GKVHAFLT----------------DDESHPQIKEIN  754 (857)
T ss_pred             CEEEEEec----------------CCCCCcchHHHH
Confidence            99999986                557777766654

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=3e-62  Score=584.38  Aligned_cols=480  Identities=30%  Similarity=0.504  Sum_probs=460.5

Q ss_pred             CCCCChhHHHHHHHHhcCchHH---HHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCCCCHHHHHHH
Q 003457           10 QPPLPIPPLSLLADKCKSMHQL---KQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTL   86 (818)
Q Consensus        10 ~~~p~~~tl~~ll~~c~~~~~~---~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~yn~L   86 (818)
                      +..||..||++++.+|+..+..   +++|..|++.|+.||..+++.|+.+|  +++|++++|.++|++|.+||..+||+|
T Consensus       118 ~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y--~k~g~~~~A~~lf~~m~~~~~~t~n~l  195 (697)
T PLN03081        118 PFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMH--VKCGMLIDARRLFDEMPERNLASWGTI  195 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHH--hcCCCHHHHHHHHhcCCCCCeeeHHHH
Confidence            4679999999999999876544   89999999999999999999999999  999999999999999999999999999


Q ss_pred             HHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCh
Q 003457           87 IRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDL  166 (818)
Q Consensus        87 i~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~  166 (818)
                      |.+|++.|++++|+++|++|.+.|+.||..+|..++.+|++.|+.+.+.+++..+.+.|+.+|..++++|+++|+++|++
T Consensus       196 i~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~  275 (697)
T PLN03081        196 IGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDI  275 (697)
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 003457          167 NNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRG  246 (818)
Q Consensus       167 ~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g  246 (818)
                      ++|.++|++|.++|..+||.|+.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|
T Consensus       276 ~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g  355 (697)
T PLN03081        276 EDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTG  355 (697)
T ss_pred             HHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457          247 FEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA  326 (818)
Q Consensus       247 ~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  326 (818)
                      ++++..+++.|+++|+++|++++|.++|++|.++|..+||+||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+
T Consensus       356 ~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a  435 (697)
T PLN03081        356 FPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA  435 (697)
T ss_pred             CCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 003457          327 CCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAER  406 (818)
Q Consensus       327 ~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~  406 (818)
                      |.+.|++++|.++|+.|.+.+++.|+..+|+.++++|++.|++++|.+++++|+.+|+..+|++|+.+|..+|+++.|..
T Consensus       436 ~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~  515 (697)
T PLN03081        436 CRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRL  515 (697)
T ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHH
Confidence            99999999999999999987799999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeeecCCCC
Q 003457          407 VVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNNT  486 (818)
Q Consensus       407 ~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l~~~~~  486 (818)
                      ++++++++.|++...|..|+++|.+.|++++|.++++.|                                  .-.++.+
T Consensus       516 ~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m----------------------------------~~~g~~k  561 (697)
T PLN03081        516 AAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETL----------------------------------KRKGLSM  561 (697)
T ss_pred             HHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHH----------------------------------HHcCCcc
Confidence            999999999999999999999999999999999999999                                  3456778


Q ss_pred             CCCcee---eceEEEEecCCeeecCCCCccccccccccchhhhhcccCCcee
Q 003457          487 IPGWTF---EGTVQYVTASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIY  535 (818)
Q Consensus       487 ~~~w~~---~~~v~~~~~~~~~~~p~~~~~~~~~~~~~i~~~~~~~~~~~~~  535 (818)
                      .|||+|   .+.++.|.++++ .||         ...+|++.+..+...|+.
T Consensus       562 ~~g~s~i~~~~~~~~f~~~d~-~h~---------~~~~i~~~l~~l~~~~~~  603 (697)
T PLN03081        562 HPACTWIEVKKQDHSFFSGDR-LHP---------QSREIYQKLDELMKEISE  603 (697)
T ss_pred             CCCeeEEEECCeEEEEccCCC-CCc---------cHHHHHHHHHHHHHHHHH
Confidence            899988   678999999997 788         345788888777666654

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=6.3e-60  Score=577.47  Aligned_cols=480  Identities=30%  Similarity=0.553  Sum_probs=460.9

Q ss_pred             CCCCCChhHHHHHHHHhcCchH---HHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCCCCHHHHHH
Q 003457            9 RQPPLPIPPLSLLADKCKSMHQ---LKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNT   85 (818)
Q Consensus         9 ~~~~p~~~tl~~ll~~c~~~~~---~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~yn~   85 (818)
                      .+..||..||+.++.+|+..++   ++++|..+.+.|+.||..+||.|+.+|  +++|++++|.++|++|.+||..+||+
T Consensus       282 ~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y--~k~g~~~~A~~vf~~m~~~d~~s~n~  359 (857)
T PLN03077        282 LSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMY--LSLGSWGEAEKVFSRMETKDAVSWTA  359 (857)
T ss_pred             cCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHH--HhcCCHHHHHHHHhhCCCCCeeeHHH
Confidence            3578999999999999977654   489999999999999999999999999  99999999999999999999999999


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Q 003457           86 LIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSD  165 (818)
Q Consensus        86 Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~  165 (818)
                      ||.+|.+.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+++.|+.|+..+++.|+++|+++|+
T Consensus       360 li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~  439 (857)
T PLN03077        360 MISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKC  439 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003457          166 LNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMR  245 (818)
Q Consensus       166 ~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~  245 (818)
                      +++|.++|++|.++|..+|+.++.+|++.|+.++|+++|++|.+ +++||..||..++.+|++.|+++.+.+++..+.+.
T Consensus       440 ~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~  518 (857)
T PLN03077        440 IDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT  518 (857)
T ss_pred             HHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999986 58999999999999999999999999999999999


Q ss_pred             CCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003457          246 GFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLS  325 (818)
Q Consensus       246 g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  325 (818)
                      |+.++..++++|+++|+++|++++|.++|+.+ ++|..+||+||.+|++.|+.++|+++|++|.+.|+.||..||+.++.
T Consensus       519 g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~  597 (857)
T PLN03077        519 GIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLC  597 (857)
T ss_pred             CCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHH
Confidence            99999999999999999999999999999999 89999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 003457          326 ACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAE  405 (818)
Q Consensus       326 a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~  405 (818)
                      +|.+.|++++|.++|+.|.+.+++.|+..+|+.++++|.+.|++++|.+++++|+.+||..+|++|+.+|..+|+.+.++
T Consensus       598 a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e  677 (857)
T PLN03077        598 ACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGE  677 (857)
T ss_pred             HHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHH
Confidence            99999999999999999997779999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeeecCCC
Q 003457          406 RVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNN  485 (818)
Q Consensus       406 ~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l~~~~  485 (818)
                      ...++++++.|++...|..|+++|.+.|+|++|.++++.|                                  .-.++.
T Consensus       678 ~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M----------------------------------~~~g~~  723 (857)
T PLN03077        678 LAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTM----------------------------------RENGLT  723 (857)
T ss_pred             HHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHH----------------------------------HHcCCC
Confidence            9999999999999999999999999999999999999999                                  345678


Q ss_pred             CCCCcee---eceEEEEecCCeeecCCCCccccccccccchhhhhcccCCceee
Q 003457          486 TIPGWTF---EGTVQYVTASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIYI  536 (818)
Q Consensus       486 ~~~~w~~---~~~v~~~~~~~~~~~p~~~~~~~~~~~~~i~~~~~~~~~~~~~~  536 (818)
                      +.|||+|   .+.|+.|..+++ .||         ...+|+.++..+.+.|+..
T Consensus       724 k~~g~s~ie~~~~~~~f~~~d~-~h~---------~~~~i~~~l~~l~~~~~~~  767 (857)
T PLN03077        724 VDPGCSWVEVKGKVHAFLTDDE-SHP---------QIKEINTVLEGFYEKMKAS  767 (857)
T ss_pred             CCCCccEEEECCEEEEEecCCC-CCc---------chHHHHHHHHHHHHHHHhC
Confidence            9999988   688999999997 888         4558899888777777653

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.1e-50  Score=488.24  Aligned_cols=428  Identities=18%  Similarity=0.293  Sum_probs=396.2

Q ss_pred             CChhHHHHHHHHhcCchH---HHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcC----CCCHHHHHH
Q 003457           13 LPIPPLSLLADKCKSMHQ---LKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQ----SPNHFMWNT   85 (818)
Q Consensus        13 p~~~tl~~ll~~c~~~~~---~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~----~p~~~~yn~   85 (818)
                      ||..+|+.++.+|+..+.   +.++|+.|.+.|+.||..+|+.|+.+|  ++.|++++|.++|++|.    .||..+|+.
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y--~k~G~vd~A~~vf~eM~~~Gv~PdvvTyna  512 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTC--AKSGKVDAMFEVFHEMVNAGVEANVHTFGA  512 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH--HhCcCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            999999999999976654   489999999999999999999999999  99999999999999998    589999999


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHH--cCCCCCHHHHHHHHHHHHhC
Q 003457           86 LIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSK--SGLDLDLHVVNCLVRCYSVS  163 (818)
Q Consensus        86 Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~--~g~~p~~~~~~~Li~~y~~~  163 (818)
                      ||.+|++.|++++|+++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+  .++.||..+|++|+.+|++.
T Consensus       513 LI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~  592 (1060)
T PLN03218        513 LIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANA  592 (1060)
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHC
Confidence            9999999999999999999999999999999999999999999999999999999986  57899999999999999999


Q ss_pred             CChHHHHHHHHHhhcC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHH
Q 003457          164 SDLNNARQVFDEIRNR----TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVH  239 (818)
Q Consensus       164 g~~~~A~~l~~~m~~~----d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~  239 (818)
                      |++++|.++|++|.+.    +..+|+.+|.+|++.|++++|+++|++|.+.|+.||..+|+.++.+|++.|++++|.+++
T Consensus       593 G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~  672 (1060)
T PLN03218        593 GQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEIL  672 (1060)
T ss_pred             CCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            9999999999999875    568999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCC----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Q 003457          240 VFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMP----ERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVP  315 (818)
Q Consensus       240 ~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~----~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p  315 (818)
                      ++|.+.|+.|+..+|+.|+.+|+++|++++|.++|++|.    .||..+|+.||.+|++.|++++|+++|++|.+.|+.|
T Consensus       673 ~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~P  752 (1060)
T PLN03218        673 QDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP  752 (1060)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            999999999999999999999999999999999999995    5899999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH----c-------------------CCHHHH
Q 003457          316 NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR----C-------------------GKVLEA  372 (818)
Q Consensus       316 d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~----~-------------------g~~~~A  372 (818)
                      |..||+.++.+|++.|++++|.++|++|.+. |+.||..+|+.|+.+|.+    +                   +..++|
T Consensus       753 d~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~-Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~A  831 (1060)
T PLN03218        753 NTITYSILLVASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWA  831 (1060)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHH
Confidence            9999999999999999999999999999988 999999999999876432    2                   124679


Q ss_pred             HHHHHHc---CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          373 EELIKRM---VWKPDVVMWGALLAACKNHGNIEVAERVVKEIIAL-EPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       373 ~~~~~~m---~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~-~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +.+|++|   +..||..+|+.++.++...+..+.+..+++.+... .+.+...|+.|++.+.+.  .++|..+++.|
T Consensus       832 l~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em  906 (1060)
T PLN03218        832 LMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEA  906 (1060)
T ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHH
Confidence            9999999   47899999999998777888888888888776532 344577899999887432  36899988888

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=1.5e-52  Score=500.98  Aligned_cols=447  Identities=22%  Similarity=0.358  Sum_probs=392.8

Q ss_pred             CCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 003457           77 SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTG-FAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNC  155 (818)
Q Consensus        77 ~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g-~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  155 (818)
                      .++..+|+.+|..|.+.|++++|+++|+.|...+ ..||..+|+.++.+|.+.++++.+.+++..|++.|+.||..+|+.
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            4567799999999999999999999999998864 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHH
Q 003457          156 LVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELG  235 (818)
Q Consensus       156 Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A  235 (818)
                      |+.+|++.|++++|.++|++|.++|..+||.++.+|++.|++++|+++|++|.+.|+.||..||..++.+|.+.|+.+.+
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~  243 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG  243 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Q 003457          236 EKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVP  315 (818)
Q Consensus       236 ~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p  315 (818)
                      .+++..+.+.|+.+|..+++.|+++|+++|++++|.++|++|.++|+.+||+|+.+|++.|++++|+++|++|.+.|+.|
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~p  323 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI  323 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC---------------
Q 003457          316 NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV---------------  380 (818)
Q Consensus       316 d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~---------------  380 (818)
                      |..||+.++.+|++.|++++|.++++.|.+. |+.||..+|+.|+++|+++|++++|.++|++|.               
T Consensus       324 d~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~-g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~  402 (697)
T PLN03081        324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRT-GFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYG  402 (697)
T ss_pred             CHHHHHHHHHHHHhccchHHHHHHHHHHHHh-CCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHH
Confidence            9999999999999999999999999999887 888877777777777777777777777777664               


Q ss_pred             -------------------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCCCcchHHHHHHHHHHhhchHHH
Q 003457          381 -------------------WKPDVVMWGALLAACKNHGNIEVAERVVKEIIA---LEPNNHGVYVVLSNMYAEAESMKMQ  438 (818)
Q Consensus       381 -------------------~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~---~~P~~~~~y~~L~~~l~~~G~~~eA  438 (818)
                                         ..||..||+.++.+|.+.|++++|.++|++|.+   +.|+ ..+|.+++++|.+.|++++|
T Consensus       403 ~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~-~~~y~~li~~l~r~G~~~eA  481 (697)
T PLN03081        403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPR-AMHYACMIELLGREGLLDEA  481 (697)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-ccchHhHHHHHHhcCCHHHH
Confidence                               345555555555555555555555555555543   2344 67899999999999999999


Q ss_pred             HHHHHHH---------HHHHHHHhhhhcccCCCC-CCCCCCCCCCCCcceeeecCC-CCCCCceeeceEEEEecCCeeec
Q 003457          439 LEILLVQ---------VLFAGLASAADILQNPDF-ESPPTNLTPNRSTPFVLLNGN-NTIPGWTFEGTVQYVTASQTIRL  507 (818)
Q Consensus       439 ~~l~~~~---------~~ll~~~~~~~~~~~~~~-~~~~lel~P~~~~~~v~l~~~-~~~~~w~~~~~v~~~~~~~~~~~  507 (818)
                      .++++.+         .+++.+|+.++..+.++. .+..++++|++...|+.|.+. ...+.|+.+.+++..|.+.++.+
T Consensus       482 ~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k  561 (697)
T PLN03081        482 YAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSM  561 (697)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCcc
Confidence            9977543         377888876665554443 344578999999999999998 88899999999999999999777


Q ss_pred             CCCCccccccccccchhhhh
Q 003457          508 PDNGHAIQLAQDGRINQTFA  527 (818)
Q Consensus       508 p~~~~~~~~~~~~~i~~~~~  527 (818)
                      +| |+|| ++.++++|.|+.
T Consensus       562 ~~-g~s~-i~~~~~~~~f~~  579 (697)
T PLN03081        562 HP-ACTW-IEVKKQDHSFFS  579 (697)
T ss_pred             CC-CeeE-EEECCeEEEEcc
Confidence            77 7999 899999999986

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.2e-50  Score=481.83  Aligned_cols=416  Identities=15%  Similarity=0.294  Sum_probs=392.0

Q ss_pred             CCCChhHHHHHHHHh---cCchHHHHHHHHHHHhCCC-CChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCCCCHHHHHHH
Q 003457           11 PPLPIPPLSLLADKC---KSMHQLKQIHAQMIISSRI-QDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTL   86 (818)
Q Consensus        11 ~~p~~~tl~~ll~~c---~~~~~~~~~~~~~~~~g~~-~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~yn~L   86 (818)
                      ..++...|..++..|   ++..++.++++.|.+.|.. ++..+++.++..|  .+.|.+++|.++|+.|..||..+|+.|
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~--~~~g~~~eAl~lf~~M~~pd~~Tyn~L  443 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKAC--KKQRAVKEAFRFAKLIRNPTLSTFNML  443 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHH--HHCCCHHHHHHHHHHcCCCCHHHHHHH
Confidence            345566777777776   5667779999999999964 6788888899999  999999999999999999999999999


Q ss_pred             HHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCh
Q 003457           87 IRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDL  166 (818)
Q Consensus        87 i~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~  166 (818)
                      |.+|++.|++++|+++|++|++.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++
T Consensus       444 L~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~  523 (1060)
T PLN03218        444 MSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQV  523 (1060)
T ss_pred             HHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc----CCHHHHHHHHHHHHHcCChHHHHHHHHHHHH--cCCCCCHHHHHHHHHHHHhcCChhHHHHHHH
Q 003457          167 NNARQVFDEIRN----RTLNVWTTMISGYAQSFRANEALMLFDQMLM--EGFEPNSVTLASVLSACAQSGCLELGEKVHV  240 (818)
Q Consensus       167 ~~A~~l~~~m~~----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~--~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~  240 (818)
                      ++|.++|++|.+    +|..+|+.|+.+|++.|++++|.++|++|.+  .|+.||..+|+.++.+|++.|++++|.++|+
T Consensus       524 eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~  603 (1060)
T PLN03218        524 AKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQ  603 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            999999999975    6889999999999999999999999999986  5789999999999999999999999999999


Q ss_pred             HHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC----CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC
Q 003457          241 FVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE----RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPN  316 (818)
Q Consensus       241 ~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd  316 (818)
                      +|.+.++.|+..+|+.++.+|++.|++++|.++|++|.+    ||..+|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus       604 ~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd  683 (1060)
T PLN03218        604 MIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLG  683 (1060)
T ss_pred             HHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence            999999999999999999999999999999999999985    7999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc---CCCCCHHHHHHHHH
Q 003457          317 DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM---VWKPDVVMWGALLA  393 (818)
Q Consensus       317 ~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m---~~~pd~~~~~~Li~  393 (818)
                      ..+|+.++.+|++.|++++|.++|++|.+. ++.||..+|+.||.+|++.|++++|+++|++|   ...||..+|+.++.
T Consensus       684 ~~tynsLI~ay~k~G~~eeA~~lf~eM~~~-g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~  762 (1060)
T PLN03218        684 TVSYSSLMGACSNAKNWKKALELYEDIKSI-KLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV  762 (1060)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            999999999999999999999999999887 89999999999999999999999999999999   47799999999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcC--CCCcchHHHHHHHHH
Q 003457          394 ACKNHGNIEVAERVVKEIIALE--PNNHGVYVVLSNMYA  430 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~--P~~~~~y~~L~~~l~  430 (818)
                      +|.+.|++++|.+++++|.+.+  |+ ...|++++.++.
T Consensus       763 a~~k~G~le~A~~l~~~M~k~Gi~pd-~~tynsLIglc~  800 (1060)
T PLN03218        763 ASERKDDADVGLDLLSQAKEDGIKPN-LVMCRCITGLCL  800 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHH
Confidence            9999999999999999999854  55 778888876643

>PLN03089 hypothetical protein; Provisional

Probab=100.00  E-value=5.6e-45  Score=380.64  Aligned_cols=175  Identities=27%  Similarity=0.377  Sum_probs=153.3

Q ss_pred             HHHHhhhcccCCCCCCCCCcccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEeceeeeecCCc------eeccC
Q 003457          612 VIDMLLLKTSKTLVQGNDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKH------FYVPK  685 (818)
Q Consensus       612 ~~~~~~~~~~~~~~~~~~~l~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~v~~i~~~~------~~~~~  685 (818)
                      +++++++.+...+...+||||+|||||+||.+. +.+.+      +.++.++||||+|+|+||||++||      |.||+
T Consensus        10 ~~~~~~~~~~~~~~~~~~nLL~NG~FE~gP~~~-~~n~t------~~~g~s~LPgW~i~g~VeyI~s~~~~~~m~~~vP~   82 (373)
T PLN03089         10 LLLLLLCAAAASAAPVTDGLLPNGDFETPPKKS-QMNGT------VVIGKNAIPGWEISGFVEYISSGQKQGGMLLVVPE   82 (373)
T ss_pred             HHHHHHHhcccccccccCCeecCCCccCCCCcC-CCCcc------cccCCCCCCCCEecCcEEEEeCCCccCceeEECCC
Confidence            334444444444455599999999999999854 22223      445669999999999999999999      99999


Q ss_pred             CCeeEEecCCccceeeeeccccCCCeEEEEEecCcccCccccceEEEEeeCCcceeeEEEecc-cCCceeeeEEEEeccc
Q 003457          686 GNAAIEIVSVSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQNFTVQSLG-TGSVIKHSVTFKAGSG  764 (818)
Q Consensus       686 g~~~~~l~~~~~~~q~~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~f~a~~~  764 (818)
                      |+|||||+++++|.|++.  |++|++|+|||+   ++|+|+|++.|+|+|++++++||+||+| ++||++|+|+|+|+++
T Consensus        83 G~~Av~LG~e~sI~Q~i~--t~~G~~Y~LTFs---~ar~c~~~~~v~vsv~~~~~~~~~qt~~~~~gw~~~s~~F~A~s~  157 (373)
T PLN03089         83 GAHAVRLGNEASISQTLT--VTKGSYYSLTFS---AARTCAQDESLNVSVPPESGVLPLQTLYSSSGWDSYAWAFKAESD  157 (373)
T ss_pred             CchhhhcCCCceEEEEEE--ccCCCEEEEEEE---ecCCCCCCceEEEEecCCCcEEeeEEeccCCCcEEEEEEEEEecc
Confidence            999999988999999999  999999999999   5599999999999999999999999976 8899999999999999


Q ss_pred             eeeEEEEeCcccccCCCCccccccceeeeeeccCccc
Q 003457          765 STPISFISYNINQTKDGVFCGPLIDDVVLRASHGFKL  801 (818)
Q Consensus       765 ~~~~~f~~~~~~~~~~~~~~gp~~d~v~~~~~~~~~~  801 (818)
                      +|+|+||||+..+|+.   |||+||||+||+++.|.+
T Consensus       158 ~t~l~F~~~~~~~D~~---CGPviD~VaIk~l~~P~p  191 (373)
T PLN03089        158 VVNLVFHNPGVEEDPA---CGPLIDAVAIKTLFPPRP  191 (373)
T ss_pred             cEEEEEECcccCCCCc---ccceeeeEEEeeccCCCc
Confidence            9999999999987765   999999999999887765

>PF04862 DUF642: Protein of unknown function (DUF642); InterPro: IPR006946 This family contains a conserved region found in a number of uncharacterised plant proteins

Probab=100.00  E-value=8.9e-39  Score=304.04  Aligned_cols=151  Identities=36%  Similarity=0.523  Sum_probs=132.7

Q ss_pred             CcccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEeceeeeecCCcee------ccCCCeeEEecCCccceeeee
Q 003457          630 NLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFY------VPKGNAAIEIVSVSAGIQTAT  703 (818)
Q Consensus       630 ~l~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~v~~i~~~~~~------~~~g~~~~~l~~~~~~~q~~~  703 (818)
                      |||+||+||++|... +...+.     +.++.++||||++.|.||||+++|+.      ||+|.|||||+++++|.|+|.
T Consensus         1 nLl~NG~FE~~p~~~-~~~~~~-----~~~~~s~ipGWtv~g~Ve~i~~~~~~g~~~~~~p~G~~aveLg~~~~I~Q~~~   74 (159)
T PF04862_consen    1 NLLVNGSFEEGPYNS-NMNGTS-----LSDGSSSIPGWTVSGSVEYIDSGHFQGGMYFAVPEGKQAVELGNEGSISQTFT   74 (159)
T ss_pred             CCccCCCCCCCCccC-CCCcce-----EccCCCcCCCcEEcCEEEEEecCCccCceeeeCCCCceEEEcCCCceEEEEEE
Confidence            899999999999853 222222     33456999999999999999999976      999999999988899999999


Q ss_pred             ccccCCCeEEEEEecCcccCccccceEEEEeeCCc-ceeeEEEeccc-CCceeeeEEEEeccceeeEEEEeCcccccCCC
Q 003457          704 TMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSL-VQNFTVQSLGT-GSVIKHSVTFKAGSGSTPISFISYNINQTKDG  781 (818)
Q Consensus       704 ~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~-~~~~~~~~~f~a~~~~~~~~f~~~~~~~~~~~  781 (818)
                        |++|++|+|||++   +++|++.+.++|+|+++ +.++++++.++ ++|++|+|.|+|.+++++|.|++++.++|+. 
T Consensus        75 --t~~G~~Y~LtF~~---~~~~~~~~~l~V~v~~~~~~~~~~~~~~~~~~w~~~s~~F~A~~t~~~l~f~~~~~~~d~~-  148 (159)
T PF04862_consen   75 --TVPGSTYTLTFSL---ARNCAQSESLSVSVGGQFSFVVTIQTSYGSGGWDTYSFTFTASSTRITLTFHNPGMESDSA-  148 (159)
T ss_pred             --ccCCCEEEEEEEe---cCCCCCCccEEEEEecccceEEEeeccCCCCCcEEEEEEEEeCCCEEEEEEECCCccCCCC-
Confidence              9999999999995   49999999999999986 88999999985 4599999999998889999999998886665 


Q ss_pred             Cccccccceeeee
Q 003457          782 VFCGPLIDDVVLR  794 (818)
Q Consensus       782 ~~~gp~~d~v~~~  794 (818)
                        |||+||||+||
T Consensus       149 --cGp~iDnV~vk  159 (159)
T PF04862_consen  149 --CGPVIDNVSVK  159 (159)
T ss_pred             --ceeEEEEEEeC
Confidence              99999999997

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.95  E-value=3.1e-24  Score=265.22  Aligned_cols=404  Identities=14%  Similarity=0.071  Sum_probs=197.1

Q ss_pred             HHHHHHHHHhhhhcCCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457           48 FAASRLLAFCALSSSGDLSYATRLFNSIQ---SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKA  124 (818)
Q Consensus        48 ~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~---~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~  124 (818)
                      .++..+...|  .+.|++++|.+.|+++.   ..+...+..+...+...|++++|.+.|+++.+.... +..++..+...
T Consensus       466 ~~~~~l~~~~--~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~  542 (899)
T TIGR02917       466 SLHNLLGAIY--LGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPK-NLRAILALAGL  542 (899)
T ss_pred             HHHHHHHHHH--HhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH
Confidence            3344444333  44444444444444432   122333444444444444444444444444443211 33344444444


Q ss_pred             HHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhc---CCHHHHHHHHHHHHHcCChHHHH
Q 003457          125 CSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRN---RTLNVWTTMISGYAQSFRANEAL  201 (818)
Q Consensus       125 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~---~d~~~~~~Li~~~~~~g~~~~A~  201 (818)
                      +.+.|+.++|...++++.+.+. .+...+..++..|.+.|++++|.++++++.+   .+...|..+...+.+.|++++|+
T Consensus       543 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  621 (899)
T TIGR02917       543 YLRTGNEEEAVAWLEKAAELNP-QEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAV  621 (899)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCc-cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            4444444444444444444321 1333444444444445555555555444432   13334455555555555555555


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--
Q 003457          202 MLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--  279 (818)
Q Consensus       202 ~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--  279 (818)
                      ..|+++.+.. +.+...+..+..++.+.|++++|...++++.+.. +.+...+..++..+.+.|++++|.++++.+.+  
T Consensus       622 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  699 (899)
T TIGR02917       622 SSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH  699 (899)
T ss_pred             HHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            5555554432 2233444444444555555555555555554432 23344444455555555555555555554443  


Q ss_pred             -CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHH
Q 003457          280 -RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGC  358 (818)
Q Consensus       280 -~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~  358 (818)
                       .+...+..+...+.+.|++++|++.|+++.+..  |+..++..++.++.+.|++++|.+.++++.+.  .+.+...+..
T Consensus       700 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~~~~~~~~~~  775 (899)
T TIGR02917       700 PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKT--HPNDAVLRTA  775 (899)
T ss_pred             cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence             233344445555555555555555555555442  22234444555555555555555555555543  3344555555


Q ss_pred             HHHHHHHcCCHHHHHHHHHHcC-C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchH
Q 003457          359 MVDLLGRCGKVLEAEELIKRMV-W-KPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMK  436 (818)
Q Consensus       359 Li~~~~~~g~~~~A~~~~~~m~-~-~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~  436 (818)
                      +...|.+.|++++|.+.|+++. . .++...+..++..+.+.|+ ++|+..+++++++.|+++..+..++.++.+.|+++
T Consensus       776 la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  854 (899)
T TIGR02917       776 LAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEAD  854 (899)
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHH
Confidence            5555555555555555555551 1 2234555555555555555 55555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeeecCC
Q 003457          437 MQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGN  484 (818)
Q Consensus       437 eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l~~~  484 (818)
                      +|.++++.+                      ++++|+++..+..++..
T Consensus       855 ~A~~~~~~a----------------------~~~~~~~~~~~~~l~~~  880 (899)
T TIGR02917       855 RALPLLRKA----------------------VNIAPEAAAIRYHLALA  880 (899)
T ss_pred             HHHHHHHHH----------------------HhhCCCChHHHHHHHHH
Confidence            555544444                      37788888777666554

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.95  E-value=7.9e-24  Score=261.56  Aligned_cols=422  Identities=11%  Similarity=0.022  Sum_probs=362.9

Q ss_pred             CChhHHHHHHHHh---cCchHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcC---CCCHHHHHHH
Q 003457           13 LPIPPLSLLADKC---KSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQ---SPNHFMWNTL   86 (818)
Q Consensus        13 p~~~tl~~ll~~c---~~~~~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~---~p~~~~yn~L   86 (818)
                      ++..++..+...+   +....+.+.+..+++.. ..+...+..+..++  .+.|++++|.+.|+++.   ..+...+..+
T Consensus       463 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  539 (899)
T TIGR02917       463 DNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARID--IQEGNPDDAIQRFEKVLTIDPKNLRAILAL  539 (899)
T ss_pred             CCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHH--HHCCCHHHHHHHHHHHHHhCcCcHHHHHHH
Confidence            3444555444444   34445566666666543 23456677777777  89999999999999886   3567889999


Q ss_pred             HHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCh
Q 003457           87 IRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDL  166 (818)
Q Consensus        87 i~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~  166 (818)
                      ...+.+.|+.++|...|+++.+.+. .+...+..+...+.+.|++++|.++++.+.+.. +.+...+..+..+|.+.|++
T Consensus       540 ~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  617 (899)
T TIGR02917       540 AGLYLRTGNEEEAVAWLEKAAELNP-QEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDL  617 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCc-cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCH
Confidence            9999999999999999999988643 366788889999999999999999999998764 44778999999999999999


Q ss_pred             HHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHH
Q 003457          167 NNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVK  243 (818)
Q Consensus       167 ~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~  243 (818)
                      ++|.+.|+++.+.   +...+..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|++++|.++++.+.
T Consensus       618 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  696 (899)
T TIGR02917       618 NKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQ  696 (899)
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999998653   56689999999999999999999999998864 5567889999999999999999999999999


Q ss_pred             HcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 003457          244 MRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFV  321 (818)
Q Consensus       244 ~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~  321 (818)
                      +.. +.+...+..+...+.+.|++++|.+.|+++.+  ++...+..++..+.+.|++++|.+.++++.+.. +.+...+.
T Consensus       697 ~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~  774 (899)
T TIGR02917       697 KQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRT  774 (899)
T ss_pred             hhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            886 56777888899999999999999999999875  555778889999999999999999999999874 34678888


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcC
Q 003457          322 GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHG  399 (818)
Q Consensus       322 ~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g  399 (818)
                      .+...|.+.|++++|.+.|+++.+.  .+.+...++.+...+.+.|+ .+|++.++++ ...| +...+..+...+.+.|
T Consensus       775 ~la~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g  851 (899)
T TIGR02917       775 ALAELYLAQKDYDKAIKHYRTVVKK--APDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKG  851 (899)
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcC
Confidence            9999999999999999999999876  56778999999999999999 8899999988 3334 5677888999999999


Q ss_pred             CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          400 NIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       400 ~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ++++|++.++++++.+|.++.++..++.+|.+.|++++|.++++.+
T Consensus       852 ~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  897 (899)
T TIGR02917       852 EADRALPLLRKAVNIAPEAAAIRYHLALALLATGRKAEARKELDKL  897 (899)
T ss_pred             CHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999987766

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.95  E-value=8.8e-26  Score=240.89  Aligned_cols=383  Identities=13%  Similarity=0.105  Sum_probs=333.7

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHH-HHHHHHH
Q 003457           80 HFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLH-VVNCLVR  158 (818)
Q Consensus        80 ~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~Li~  158 (818)
                      ..+|..+...+-..|++++|+.+|+.|.+...+ ....|..+..++...|+.+.|.+.+.+.++.  .|+.. ....+..
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~-fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgn  192 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAIELKPK-FIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHhcCch-hhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhH
Confidence            468889999999999999999999999985333 5568999999999999999999999999885  44444 3445566


Q ss_pred             HHHhCCChHHHHHHHHHhhcCCH---HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHH
Q 003457          159 CYSVSSDLNNARQVFDEIRNRTL---NVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELG  235 (818)
Q Consensus       159 ~y~~~g~~~~A~~l~~~m~~~d~---~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A  235 (818)
                      .....|++++|...|.+..+.++   ++|..|...+-.+|+...|+..|++..+.. +--...|..|...|...+.++.|
T Consensus       193 Llka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~A  271 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRA  271 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHH
Confidence            66778999999999998876543   479999999999999999999999998763 33456899999999999999999


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--C-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Q 003457          236 EKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--R-NIATWNAMISGLASHGHAEEALDLFRKLEKEQ  312 (818)
Q Consensus       236 ~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~-d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g  312 (818)
                      ...|.++.... +....++..|...|...|++|.|+..|++..+  | -...|+.|..++-..|+..+|++.|.+.+...
T Consensus       272 vs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~  350 (966)
T KOG4626|consen  272 VSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC  350 (966)
T ss_pred             HHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC
Confidence            99999988764 45567788888999999999999999999886  3 45799999999999999999999999998863


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC-HHHHHH
Q 003457          313 IVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD-VVMWGA  390 (818)
Q Consensus       313 ~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~  390 (818)
                      .. .....+.|...|.+.|.+++|..+|.+..+.  .+.-...++.|...|-++|++++|+..|+++ .++|. ...|+.
T Consensus       351 p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~N  427 (966)
T KOG4626|consen  351 PN-HADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSN  427 (966)
T ss_pred             Cc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHh
Confidence            22 4678899999999999999999999998864  3334678899999999999999999999998 67887 789999


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCC
Q 003457          391 LLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNL  470 (818)
Q Consensus       391 Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel  470 (818)
                      +...|...|+.+.|++.+.+++.++|...+++.+|+.+|...|+..+|+.-++...                      ++
T Consensus       428 mGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aL----------------------kl  485 (966)
T KOG4626|consen  428 MGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTAL----------------------KL  485 (966)
T ss_pred             cchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHH----------------------cc
Confidence            99999999999999999999999999999999999999999999999999777763                      99


Q ss_pred             CCCCCcceeeecCC-CCCCCcee
Q 003457          471 TPNRSTPFVLLNGN-NTIPGWTF  492 (818)
Q Consensus       471 ~P~~~~~~v~l~~~-~~~~~w~~  492 (818)
                      +||.+.+|..+..+ .-+..|.+
T Consensus       486 kPDfpdA~cNllh~lq~vcdw~D  508 (966)
T KOG4626|consen  486 KPDFPDAYCNLLHCLQIVCDWTD  508 (966)
T ss_pred             CCCCchhhhHHHHHHHHHhcccc
Confidence            99999999998876 77888876

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.90  E-value=2.7e-21  Score=206.87  Aligned_cols=381  Identities=15%  Similarity=0.104  Sum_probs=327.9

Q ss_pred             CChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHH-H
Q 003457           45 QDHFAASRLLAFCALSSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFT-F  120 (818)
Q Consensus        45 ~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~-~  120 (818)
                      .-..+|.-+.+++  -..|++++|+.+++.+.+   ..+..|..+..++...|+.+.|.+.|.+..+  +.|+..... .
T Consensus       114 q~ae~ysn~aN~~--kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~  189 (966)
T KOG4626|consen  114 QGAEAYSNLANIL--KERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSD  189 (966)
T ss_pred             hHHHHHHHHHHHH--HHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcc
Confidence            3467788888888  889999999999998874   4577999999999999999999999999887  566666443 3


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCH---HHHHHHHHHHHHcCCh
Q 003457          121 VLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTL---NVWTTMISGYAQSFRA  197 (818)
Q Consensus       121 ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~---~~~~~Li~~~~~~g~~  197 (818)
                      +...+...|++++|..-+.+.++.... -...|..|...+...|++..|++.|++..+-|+   .+|..|...|-..+.+
T Consensus       190 lgnLlka~Grl~ea~~cYlkAi~~qp~-fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~  268 (966)
T KOG4626|consen  190 LGNLLKAEGRLEEAKACYLKAIETQPC-FAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIF  268 (966)
T ss_pred             hhHHHHhhcccchhHHHHHHHHhhCCc-eeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcc
Confidence            444555679999999999998886432 345788899999999999999999999987554   4899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhC
Q 003457          198 NEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSM  277 (818)
Q Consensus       198 ~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m  277 (818)
                      ++|+..|.+..... +-....+..+...|..+|.++.|+..|++.++.. +.-+..|+.|..++-..|++.+|.+.|++.
T Consensus       269 d~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnka  346 (966)
T KOG4626|consen  269 DRAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKA  346 (966)
T ss_pred             hHHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHH
Confidence            99999999988763 3345677888888999999999999999999875 444688999999999999999999999988


Q ss_pred             CC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC-
Q 003457          278 PE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPN-DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK-  352 (818)
Q Consensus       278 ~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~-  352 (818)
                      ..   ....+.+.|...|.+.|.+++|..+|+...+-  .|. ...++.|...|-++|++++|+..|++.++   +.|+ 
T Consensus       347 L~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr---I~P~f  421 (966)
T KOG4626|consen  347 LRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR---IKPTF  421 (966)
T ss_pred             HHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh---cCchH
Confidence            75   45678999999999999999999999998875  444 56788999999999999999999999885   6777 


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          353 IEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       353 ~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      ...|+.+...|-..|+.+.|++.+.++ ...|. ...++.|...|...|++.+|++.|+++++++||.+++|.++..++.
T Consensus       422 Ada~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq  501 (966)
T KOG4626|consen  422 ADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQ  501 (966)
T ss_pred             HHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHH
Confidence            678999999999999999999999998 46675 7889999999999999999999999999999999999999988876


Q ss_pred             HhhchHH
Q 003457          431 EAESMKM  437 (818)
Q Consensus       431 ~~G~~~e  437 (818)
                      --.+|.+
T Consensus       502 ~vcdw~D  508 (966)
T KOG4626|consen  502 IVCDWTD  508 (966)
T ss_pred             HHhcccc
Confidence            5555444

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.88  E-value=8.2e-19  Score=220.65  Aligned_cols=412  Identities=13%  Similarity=0.065  Sum_probs=278.4

Q ss_pred             HHHhcCchHHHHHHHHHHHhCCCCChHHHH-HHHHHhhhhcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChh
Q 003457           22 ADKCKSMHQLKQIHAQMIISSRIQDHFAAS-RLLAFCALSSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPD   97 (818)
Q Consensus        22 l~~c~~~~~~~~~~~~~~~~g~~~d~~~~~-~Ll~~~a~~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~   97 (818)
                      +..-+..+++.+.+..+++... ++..... .+..+.  ...|+.++|++.|+++.+   .+...+..+...+...|+++
T Consensus       122 l~~~g~~~eA~~~~~~~l~~~p-~~~~la~~y~~~~~--~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g~~~  198 (1157)
T PRK11447        122 LATTGRTEEALASYDKLFNGAP-PELDLAVEYWRLVA--KLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSGRRD  198 (1157)
T ss_pred             HHhCCCHHHHHHHHHHHccCCC-CChHHHHHHHHHHh--hCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCCHH
Confidence            3334556666677777665432 2222111 111222  346899999999998873   35667778888888899999


Q ss_pred             HHHHHHHHHHHcCC------------------C--------------CCHHHH---------------------HHHHHH
Q 003457           98 KAIFLYMNMRRTGF------------------A--------------PNQHTF---------------------TFVLKA  124 (818)
Q Consensus        98 ~Al~lf~~m~~~g~------------------~--------------pd~~ty---------------------~~ll~~  124 (818)
                      +|++.|+++.+...                  .              |+...+                     ......
T Consensus       199 eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~  278 (1157)
T PRK11447        199 EGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLA  278 (1157)
T ss_pred             HHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHH
Confidence            99999988754311                  0              111000                     011234


Q ss_pred             HHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCH-----HHHH------------HH
Q 003457          125 CSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTL-----NVWT------------TM  187 (818)
Q Consensus       125 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~-----~~~~------------~L  187 (818)
                      +...|++++|...++++++..+. +...+..|..+|.+.|++++|+..|++..+.++     ..|.            .+
T Consensus       279 ~~~~g~~~~A~~~l~~aL~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~  357 (1157)
T PRK11447        279 AVDSGQGGKAIPELQQAVRANPK-DSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQ  357 (1157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHH
Confidence            56678889999999988886533 677888888889999999999999988765321     1121            22


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCH
Q 003457          188 ISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGAL  267 (818)
Q Consensus       188 i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~  267 (818)
                      ...+.+.|++++|++.|+++++.. +.+...+..+..++...|++++|++.|+++++.. +.+...+..+...|. .++.
T Consensus       358 g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~~~~  434 (1157)
T PRK11447        358 GDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-QQSP  434 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-hcCH
Confidence            445678889999999999988764 4456677778888888999999999999988764 344555555666654 3456


Q ss_pred             HHHHHHHhhCCCCC------------hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 003457          268 AKAKALFDSMPERN------------IATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDV  335 (818)
Q Consensus       268 ~~A~~~f~~m~~~d------------~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~  335 (818)
                      ++|..+++.+....            ...+..+...+...|++++|++.|++.++..+. +...+..+...|.+.|++++
T Consensus       435 ~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~  513 (1157)
T PRK11447        435 EKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQ  513 (1157)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHH
Confidence            77776666554311            123444556666777777777777777765322 34555666677777777777


Q ss_pred             HHHHHHHHHHHhCCCCCHHHHHHH--------------------------------------------HHHHHHcCCHHH
Q 003457          336 GRQIFGSMKRVYGIEPKIEHYGCM--------------------------------------------VDLLGRCGKVLE  371 (818)
Q Consensus       336 A~~~~~~m~~~~g~~p~~~~~~~L--------------------------------------------i~~~~~~g~~~~  371 (818)
                      |...++++.+.  .+.+...+..+                                            ...+...|+.++
T Consensus       514 A~~~l~~al~~--~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~e  591 (1157)
T PRK11447        514 ADALMRRLAQQ--KPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAE  591 (1157)
T ss_pred             HHHHHHHHHHc--CCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHH
Confidence            77777776653  22233333322                                            334445555555


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          372 AEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       372 A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      |+++++.-  ..+...+..+...+.+.|++++|++.|+++++..|+++.++..++.+|...|++++|++.++..
T Consensus       592 A~~~l~~~--p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        592 AEALLRQQ--PPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             HHHHHHhC--CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            65555532  2345566778888999999999999999999999999999999999999999999999977655

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.87  E-value=9e-18  Score=211.27  Aligned_cols=376  Identities=12%  Similarity=0.033  Sum_probs=264.6

Q ss_pred             hcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCC-HHHH------------HHHHH
Q 003457           60 SSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPN-QHTF------------TFVLK  123 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd-~~ty------------~~ll~  123 (818)
                      .+.|++++|+..|++..+   .+...+..|...|.+.|++++|+..|++..+...... ...+            .....
T Consensus       280 ~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~  359 (1157)
T PRK11447        280 VDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGD  359 (1157)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHH
Confidence            677888888888877652   3667777788888888888888888888776433211 1111            12234


Q ss_pred             HHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC---CHHHHHH--------------
Q 003457          124 ACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR---TLNVWTT--------------  186 (818)
Q Consensus       124 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~---d~~~~~~--------------  186 (818)
                      .+.+.|++++|...++++++..+. +...+..+..+|...|++++|++.|+++.+.   +...+..              
T Consensus       360 ~~~~~g~~~eA~~~~~~Al~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~~~~~~~A~  438 (1157)
T PRK11447        360 AALKANNLAQAERLYQQARQVDNT-DSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYRQQSPEKAL  438 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCHHHHH
Confidence            566778888888888888776432 5566667777888888888888888777642   2223332              


Q ss_pred             ----------------------------HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 003457          187 ----------------------------MISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKV  238 (818)
Q Consensus       187 ----------------------------Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i  238 (818)
                                                  +...+...|++++|++.|++.++.. +-+...+..+...|.+.|++++|...
T Consensus       439 ~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~  517 (1157)
T PRK11447        439 AFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADAL  517 (1157)
T ss_pred             HHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence                                        3334455677777777777777653 33455566677777777777777777


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCC----Ch---------hhHHHHHHHHHHcCCHHHHHHHH
Q 003457          239 HVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPER----NI---------ATWNAMISGLASHGHAEEALDLF  305 (818)
Q Consensus       239 ~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~----d~---------~~~~~Li~~~~~~g~~~~A~~l~  305 (818)
                      ++++++.. +.+...+..+...+.+.++.++|...++.+...    +.         ..+..+...+...|+.++|++++
T Consensus       518 l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l  596 (1157)
T PRK11447        518 MRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALL  596 (1157)
T ss_pred             HHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHH
Confidence            77777653 334444555555666777777777777776531    11         11223455677788888888877


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-
Q 003457          306 RKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-  383 (818)
Q Consensus       306 ~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-  383 (818)
                      +.     .+.+...+..+...+.+.|++++|+..|+++.+.  .+.+...+..++..|...|++++|++.++++. ..| 
T Consensus       597 ~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~  669 (1157)
T PRK11447        597 RQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKLPATAND  669 (1157)
T ss_pred             Hh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCC
Confidence            62     2335556677888899999999999999998875  45568888899999999999999999999873 344 


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc------chHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          384 DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNH------GVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       384 d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~------~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +...+..+..++...|++++|.++++++++..|+++      ..+..++.++.+.|++++|++.++..
T Consensus       670 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~A  737 (1157)
T PRK11447        670 SLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDA  737 (1157)
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            456677788888899999999999999998776544      35667788999999999999977665

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.87  E-value=2.3e-18  Score=203.50  Aligned_cols=380  Identities=11%  Similarity=-0.004  Sum_probs=263.6

Q ss_pred             hcCCCHHHHHHHHhhcC--CCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHH
Q 003457           60 SSSGDLSYATRLFNSIQ--SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQI  137 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~--~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~  137 (818)
                      .+.|++++|++.|++..  .|+...|..+..+|.+.|++++|++.+++..+.... +...+..+..++...|++++|...
T Consensus       138 ~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~a~a~~~lg~~~eA~~~  216 (615)
T TIGR00990       138 YRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPD-YSKALNRRANAYDGLGKYADALLD  216 (615)
T ss_pred             HHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHcCCHHHHHHH
Confidence            56666666666666654  355556666666666666666666666666653221 344566666666666666666666


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC-----------------------------CH---HHHH
Q 003457          138 HTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR-----------------------------TL---NVWT  185 (818)
Q Consensus       138 ~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~-----------------------------d~---~~~~  185 (818)
                      +..+...+...+... ..++.-+......+.+...++.-...                             +.   ..+.
T Consensus       217 ~~~~~~~~~~~~~~~-~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  295 (615)
T TIGR00990       217 LTASCIIDGFRNEQS-AQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQL  295 (615)
T ss_pred             HHHHHHhCCCccHHH-HHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchH
Confidence            655444321111111 11111111111111111111111000                             00   0000


Q ss_pred             HHHHHH---HHcCChHHHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 003457          186 TMISGY---AQSFRANEALMLFDQMLMEG-FEP-NSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHM  260 (818)
Q Consensus       186 ~Li~~~---~~~g~~~~A~~l~~~m~~~g-~~p-d~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~  260 (818)
                      .+...+   ...+++++|++.|++.++.+ ..| +...+..+...+...|++++|...+++.++.. +.....+..+..+
T Consensus       296 ~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~  374 (615)
T TIGR00990       296 QLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASM  374 (615)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHH
Confidence            111000   12367899999999998764 223 44567777788889999999999999999874 4456688889999


Q ss_pred             HHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 003457          261 YTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGR  337 (818)
Q Consensus       261 ~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~  337 (818)
                      +...|++++|...|+++.+   .+...|..+...+...|++++|+..|++.++..+. +...+..+..++.+.|++++|+
T Consensus       375 ~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~  453 (615)
T TIGR00990       375 NLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FIFSHIQLGVTQYKEGSIASSM  453 (615)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CHHHHHHHHHHHHHCCCHHHHH
Confidence            9999999999999998765   46788999999999999999999999999987432 5667778889999999999999


Q ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCH-H-------HHHHHHHHHHHcCCHHHHHHHH
Q 003457          338 QIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDV-V-------MWGALLAACKNHGNIEVAERVV  408 (818)
Q Consensus       338 ~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~-~-------~~~~Li~a~~~~g~~~~A~~~~  408 (818)
                      ..|++..+.  .+.+...++.+..+|...|++++|++.|+++ ...|+. .       .++..+..+...|++++|++++
T Consensus       454 ~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~  531 (615)
T TIGR00990       454 ATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLC  531 (615)
T ss_pred             HHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            999998875  5556889999999999999999999999997 333321 1       1222222334579999999999


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          409 KEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       409 ~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +++++++|++..++..++.++.+.|++++|++.++..
T Consensus       532 ~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A  568 (615)
T TIGR00990       532 EKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERA  568 (615)
T ss_pred             HHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            9999999999999999999999999999999977665

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=2e-17  Score=199.19  Aligned_cols=388  Identities=10%  Similarity=0.005  Sum_probs=293.4

Q ss_pred             HHHHHHhhhhcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 003457           51 SRLLAFCALSSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSN  127 (818)
Q Consensus        51 ~~Ll~~~a~~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~  127 (818)
                      .-.+.+.  ...|+.++|++++.+...   .+...+..+...+...|++++|+++|++..+... .+...+..+...+..
T Consensus        19 ~d~~~ia--~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~l~~   95 (765)
T PRK10049         19 ADWLQIA--LWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEP-QNDDYQRGLILTLAD   95 (765)
T ss_pred             HHHHHHH--HHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHH
Confidence            3334445  678999999999998763   4555689999999999999999999999887522 245667788888899


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHH
Q 003457          128 VRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLF  204 (818)
Q Consensus       128 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~  204 (818)
                      .|++++|...++++++..+. +.. +..+..++...|+.++|+..++++.+.   +...+..+...+...+..++|++.+
T Consensus        96 ~g~~~eA~~~l~~~l~~~P~-~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l  173 (765)
T PRK10049         96 AGQYDEALVKAKQLVSGAPD-KAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAI  173 (765)
T ss_pred             CCCHHHHHHHHHHHHHhCCC-CHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHH
Confidence            99999999999999987433 555 888889999999999999999998763   5556777888888899999999988


Q ss_pred             HHHHHcCCCCCH------HHHHHHHHHHHh-----cCCh---hHHHHHHHHHHHc-CCCCcHH-H-H---HHHHHHHHhC
Q 003457          205 DQMLMEGFEPNS------VTLASVLSACAQ-----SGCL---ELGEKVHVFVKMR-GFEMGAI-L-G---TALVHMYTKN  264 (818)
Q Consensus       205 ~~m~~~g~~pd~------~t~~~ll~~~~~-----~g~~---~~A~~i~~~~~~~-g~~~~~~-~-~---~~Li~~~~~~  264 (818)
                      +++..   .|+.      .....++.....     .+++   ++|.+.++.+.+. ...|+.. . .   ...+.++...
T Consensus       174 ~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~  250 (765)
T PRK10049        174 DDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLAR  250 (765)
T ss_pred             HhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHh
Confidence            87653   2321      111222222221     1233   6788888888864 1122221 1 1   1113345677


Q ss_pred             CCHHHHHHHHhhCCCCC---hh-hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHHcCCHHHHH
Q 003457          265 GALAKAKALFDSMPERN---IA-TWNAMISGLASHGHAEEALDLFRKLEKEQIVP---NDITFVGVLSACCHAGFIDVGR  337 (818)
Q Consensus       265 g~~~~A~~~f~~m~~~d---~~-~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p---d~~t~~~ll~a~~~~g~~~~A~  337 (818)
                      |++++|++.|+++.+.+   +. ....+...|...|++++|+..|+++.+.....   .......+..++.+.+++++|.
T Consensus       251 g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~  330 (765)
T PRK10049        251 DRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGAL  330 (765)
T ss_pred             hhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHH
Confidence            99999999999998632   21 22335778999999999999999988753221   1244566677889999999999


Q ss_pred             HHHHHHHHHhC----------CCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHH
Q 003457          338 QIFGSMKRVYG----------IEPK---IEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIE  402 (818)
Q Consensus       338 ~~~~~m~~~~g----------~~p~---~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~  402 (818)
                      +.++.+.+...          -.|+   ...+..+...+...|++++|++.++++ ...| +...+..++..+...|+++
T Consensus       331 ~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~  410 (765)
T PRK10049        331 TVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPR  410 (765)
T ss_pred             HHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHH
Confidence            99999886410          0122   235667888899999999999999998 3345 5788899999999999999


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          403 VAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       403 ~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      +|++.++++++++|++...+..++..+.+.|++++|+++++.++
T Consensus       411 ~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll  454 (765)
T PRK10049        411 AAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVV  454 (765)
T ss_pred             HHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999887774

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=4e-17  Score=192.71  Aligned_cols=353  Identities=11%  Similarity=-0.034  Sum_probs=275.2

Q ss_pred             hcCCCHHHHHHHHhhcCC------CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHH
Q 003457           60 SSSGDLSYATRLFNSIQS------PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNC  133 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~~------p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~  133 (818)
                      .++.+++.---+|+..++      .+......++..+.+.|++++|+.+++........ +...+..++.++...|++++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHH
Confidence            466667666666666553      12233445677788899999999999998886444 44455566667778999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhc--C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 003457          134 CKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRN--R-TLNVWTTMISGYAQSFRANEALMLFDQMLME  210 (818)
Q Consensus       134 A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~--~-d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~  210 (818)
                      |.+.++++++..+. +...+..+...+.+.|++++|.+.|++..+  + +...+..+...+...|++++|...++++...
T Consensus        95 A~~~l~~~l~~~P~-~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~  173 (656)
T PRK15174         95 VLQVVNKLLAVNVC-QPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQE  173 (656)
T ss_pred             HHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh
Confidence            99999999887543 667788888999999999999999998875  2 5568888999999999999999999988766


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHH
Q 003457          211 GFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNA  287 (818)
Q Consensus       211 g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~  287 (818)
                      . +.+...+..+ ..+...|++++|...++.+++....++......+..++.+.|++++|...|+++.+   .+...+..
T Consensus       174 ~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~  251 (656)
T PRK15174        174 V-PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRS  251 (656)
T ss_pred             C-CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            4 2333333333 34778899999999999988765334444555667788899999999999998775   45678888


Q ss_pred             HHHHHHHcCCHHH----HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Q 003457          288 MISGLASHGHAEE----ALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLL  363 (818)
Q Consensus       288 Li~~~~~~g~~~~----A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~  363 (818)
                      +...|.+.|++++    |+..|+++.+..+. +...+..+...+.+.|++++|...++++.+.  .+.+...+..+..+|
T Consensus       252 Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l  328 (656)
T PRK15174        252 LGLAYYQSGRSREAKLQAAEHWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARAL  328 (656)
T ss_pred             HHHHHHHcCCchhhHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            8999999999886    89999999886432 5678888899999999999999999998875  344567788889999


Q ss_pred             HHcCCHHHHHHHHHHcC-CCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc
Q 003457          364 GRCGKVLEAEELIKRMV-WKPDVV-MWGALLAACKNHGNIEVAERVVKEIIALEPNNH  419 (818)
Q Consensus       364 ~~~g~~~~A~~~~~~m~-~~pd~~-~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~  419 (818)
                      .+.|++++|++.|+++. ..|+.. .+..+..++...|+.++|+..|+++++..|++.
T Consensus       329 ~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        329 RQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            99999999999999883 456643 344456778899999999999999999999854

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=5.6e-17  Score=191.50  Aligned_cols=349  Identities=11%  Similarity=-0.006  Sum_probs=278.2

Q ss_pred             HhCCChhHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHH
Q 003457           91 ASSLNPDKAIFLYMNMRRT--GFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNN  168 (818)
Q Consensus        91 ~~~g~~~~Al~lf~~m~~~--g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~  168 (818)
                      .+..+++.-.-+|....+.  .-.-+......++..+.+.|++++|..+++..+...+. +......++.++...|++++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHH
Confidence            3445555444444433221  01112334556677888999999999999999988655 44555566677778999999


Q ss_pred             HHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003457          169 ARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMR  245 (818)
Q Consensus       169 A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~  245 (818)
                      |...|+++.+.   +...|..+...+.+.|++++|+..|+++.+.. +.+...+..+...+...|++++|...++.+...
T Consensus        95 A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~  173 (656)
T PRK15174         95 VLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQE  173 (656)
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh
Confidence            99999999763   55688999999999999999999999999863 445677888889999999999999999988876


Q ss_pred             CCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCC----ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 003457          246 GFEMGAILGTALVHMYTKNGALAKAKALFDSMPER----NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFV  321 (818)
Q Consensus       246 g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~----d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~  321 (818)
                      .. .+...+..+ ..+.+.|++++|...++.+.+.    +...+..+...+.+.|++++|+..++++.+..+. +...+.
T Consensus       174 ~P-~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~  250 (656)
T PRK15174        174 VP-PRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRR  250 (656)
T ss_pred             CC-CCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHH
Confidence            53 333344333 3478899999999999987653    2334455677889999999999999999987533 567778


Q ss_pred             HHHHHHHHcCCHHH----HHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC-HHHHHHHHHHH
Q 003457          322 GVLSACCHAGFIDV----GRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD-VVMWGALLAAC  395 (818)
Q Consensus       322 ~ll~a~~~~g~~~~----A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a~  395 (818)
                      .+...+...|++++    |...|+++.+.  .+.+...+..+...+.+.|++++|+..++++ ...|+ ...+..+..++
T Consensus       251 ~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l  328 (656)
T PRK15174        251 SLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARAL  328 (656)
T ss_pred             HHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            88999999999986    89999998875  4556889999999999999999999999998 34554 66788888999


Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          396 KNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       396 ~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .+.|++++|++.|+++++.+|++...+..++.++.+.|++++|++.++...
T Consensus       329 ~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al  379 (656)
T PRK15174        329 RQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYI  379 (656)
T ss_pred             HHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999999999999999999988777778999999999999999777653

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.83  E-value=1.8e-17  Score=185.26  Aligned_cols=281  Identities=14%  Similarity=0.112  Sum_probs=150.8

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCC-------HHHHHHHHHHHHHcCChHHH
Q 003457          128 VRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRT-------LNVWTTMISGYAQSFRANEA  200 (818)
Q Consensus       128 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d-------~~~~~~Li~~~~~~g~~~~A  200 (818)
                      .|++++|...+.++++.++ .+..++..+...|.+.|++++|..+++.+....       ...+..++..|.+.|++++|
T Consensus        48 ~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A  126 (389)
T PRK11788         48 NEQPDKAIDLFIEMLKVDP-ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRA  126 (389)
T ss_pred             cCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            3344444444444443321 122333444444444444444444444433210       12344445555555555555


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc----HHHHHHHHHHHHhCCCHHHHHHHHhh
Q 003457          201 LMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMG----AILGTALVHMYTKNGALAKAKALFDS  276 (818)
Q Consensus       201 ~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~----~~~~~~Li~~~~~~g~~~~A~~~f~~  276 (818)
                      +.+|+++.+.. +.+..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..++..+.+.|++++|.+.|++
T Consensus       127 ~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  205 (389)
T PRK11788        127 EELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKK  205 (389)
T ss_pred             HHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            55555554432 33444555555555555555555555555554432111    11233445555566666666666665


Q ss_pred             CCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCH
Q 003457          277 MPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKI  353 (818)
Q Consensus       277 m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~  353 (818)
                      +.+   .+...+..++..|.+.|++++|+++|+++.+.+......++..++.+|.+.|++++|.+.++++.+.   .|+.
T Consensus       206 al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~  282 (389)
T PRK11788        206 ALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE---YPGA  282 (389)
T ss_pred             HHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCc
Confidence            543   2334556666677777777777777777766533222345566667777777777777777776653   4555


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCHHHHHHHHHHHHH---cCCHHHHHHHHHHHHh
Q 003457          354 EHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDVVMWGALLAACKN---HGNIEVAERVVKEIIA  413 (818)
Q Consensus       354 ~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~~~~~~Li~a~~~---~g~~~~A~~~~~~~~~  413 (818)
                      ..+..++..+.+.|++++|.++|+++ ...|+...++.++..+..   .|+.++++.+++++++
T Consensus       283 ~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        283 DLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             hHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHH
Confidence            55566677777777777777777665 345666666666665443   4466677766666654

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.82  E-value=3.2e-16  Score=185.30  Aligned_cols=378  Identities=10%  Similarity=0.005  Sum_probs=277.3

Q ss_pred             chHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHH
Q 003457           28 MHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYM  104 (818)
Q Consensus        28 ~~~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~  104 (818)
                      ...+...+...++  ..|+...|..+...|  .+.|++++|++.++...+   .+...|..+..+|...|++++|+.-|.
T Consensus       143 ~~~Ai~~y~~al~--~~p~~~~~~n~a~~~--~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~~~eA~~~~~  218 (615)
T TIGR00990       143 FNKAIKLYSKAIE--CKPDPVYYSNRAACH--NALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADALLDLT  218 (615)
T ss_pred             HHHHHHHHHHHHh--cCCchHHHHHHHHHH--HHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3344555666554  557777777777767  899999999999998763   456789999999999999999999998


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC--CCHH---------------------------HHHH
Q 003457          105 NMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLD--LDLH---------------------------VVNC  155 (818)
Q Consensus       105 ~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~--p~~~---------------------------~~~~  155 (818)
                      .....+...+.. ...++..+..    ..+.......++....  |...                           ....
T Consensus       219 ~~~~~~~~~~~~-~~~~~~~~l~----~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  293 (615)
T TIGR00990       219 ASCIIDGFRNEQ-SAQAVERLLK----KFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNG  293 (615)
T ss_pred             HHHHhCCCccHH-HHHHHHHHHH----HHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccc
Confidence            776543221222 2222222111    1111111122111110  0000                           0000


Q ss_pred             HHHHH------HhCCChHHHHHHHHHhhcC------CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 003457          156 LVRCY------SVSSDLNNARQVFDEIRNR------TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVL  223 (818)
Q Consensus       156 Li~~y------~~~g~~~~A~~l~~~m~~~------d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll  223 (818)
                      ++..+      ...+++++|.+.|++..+.      ....|+.+...+...|++++|+..|++.++.. +-+...|..+.
T Consensus       294 ~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la  372 (615)
T TIGR00990       294 QLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRA  372 (615)
T ss_pred             hHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHH
Confidence            11111      1236789999999988753      33478888999999999999999999998863 33466888888


Q ss_pred             HHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHH
Q 003457          224 SACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEE  300 (818)
Q Consensus       224 ~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~  300 (818)
                      ..+...|++++|...++++++.. +.+..++..+..+|...|++++|...|++..+   .+...+..+...+.+.|++++
T Consensus       373 ~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~e  451 (615)
T TIGR00990       373 SMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIAS  451 (615)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHH
Confidence            99999999999999999999875 55678899999999999999999999998875   356678889999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC-H-------HHHHHHHHHHHHcCCHHHH
Q 003457          301 ALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK-I-------EHYGCMVDLLGRCGKVLEA  372 (818)
Q Consensus       301 A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~-~-------~~~~~Li~~~~~~g~~~~A  372 (818)
                      |+..|++.++.. +-+...++.+..++...|++++|+..|++..+.   .|+ .       ..++.....+...|++++|
T Consensus       452 A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l---~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA  527 (615)
T TIGR00990       452 SMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL---EKETKPMYMNVLPLINKALALFQWKQDFIEA  527 (615)
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc---CCccccccccHHHHHHHHHHHHHHhhhHHHH
Confidence            999999998763 235678888999999999999999999998864   332 1       1122223334457999999


Q ss_pred             HHHHHHc-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc
Q 003457          373 EELIKRM-VWKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG  420 (818)
Q Consensus       373 ~~~~~~m-~~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~  420 (818)
                      +++++++ ...|+ ...+..++..+.+.|++++|++.|+++.++.+...+
T Consensus       528 ~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~e  577 (615)
T TIGR00990       528 ENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEGE  577 (615)
T ss_pred             HHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHHH
Confidence            9999987 44554 567889999999999999999999999999876444

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.82  E-value=2.1e-17  Score=184.82  Aligned_cols=281  Identities=14%  Similarity=0.130  Sum_probs=135.3

Q ss_pred             hCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhCCChHH
Q 003457           92 SSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLD---LHVVNCLVRCYSVSSDLNN  168 (818)
Q Consensus        92 ~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~Li~~y~~~g~~~~  168 (818)
                      ..|++++|+..|+++.+.+.. +..++..+...+.+.|++++|..+++.+++.+..++   ...+..++..|.+.|++++
T Consensus        47 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~  125 (389)
T PRK11788         47 LNEQPDKAIDLFIEMLKVDPE-TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDR  125 (389)
T ss_pred             hcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHH
Confidence            334444444444444443111 223444444444444444444444444443321111   1234444455555555555


Q ss_pred             HHHHHHHhhc---CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCChhHHHHHHHH
Q 003457          169 ARQVFDEIRN---RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNS----VTLASVLSACAQSGCLELGEKVHVF  241 (818)
Q Consensus       169 A~~l~~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~----~t~~~ll~~~~~~g~~~~A~~i~~~  241 (818)
                      |+++|+++.+   .+..+++.++..+.+.|++++|++.++++.+.+..+..    ..+..+...+.+.|++++|.+.+++
T Consensus       126 A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  205 (389)
T PRK11788        126 AEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKK  205 (389)
T ss_pred             HHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            5555555543   13334555555555555555555555555443311111    1223344444555555555555555


Q ss_pred             HHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CC--hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH
Q 003457          242 VKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--RN--IATWNAMISGLASHGHAEEALDLFRKLEKEQIVPND  317 (818)
Q Consensus       242 ~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d--~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~  317 (818)
                      +.+.. +.+...+..++..|.+.|++++|.+.|+++.+  ++  ...++.++.+|.+.|++++|...++++.+.  .|+.
T Consensus       206 al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~  282 (389)
T PRK11788        206 ALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGA  282 (389)
T ss_pred             HHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCc
Confidence            55443 22334444555555555555555555555543  11  223455555666666666666666665554  2333


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH---cCCHHHHHHHHHHc
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR---CGKVLEAEELIKRM  379 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~---~g~~~~A~~~~~~m  379 (818)
                      ..+..++..+.+.|++++|..+++++.+.   .|+...++.++..+..   .|+.++++.+++++
T Consensus       283 ~~~~~la~~~~~~g~~~~A~~~l~~~l~~---~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~  344 (389)
T PRK11788        283 DLLLALAQLLEEQEGPEAAQALLREQLRR---HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDL  344 (389)
T ss_pred             hHHHHHHHHHHHhCCHHHHHHHHHHHHHh---CcCHHHHHHHHHHhhhccCCccchhHHHHHHHH
Confidence            44455555666666666666666655543   4555555555554443   33555666555555

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.81  E-value=1.2e-15  Score=184.00  Aligned_cols=397  Identities=11%  Similarity=-0.007  Sum_probs=300.8

Q ss_pred             hHHHHHHHHhcCchHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHh
Q 003457           16 PPLSLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQ---SPNHFMWNTLIRAQAS   92 (818)
Q Consensus        16 ~tl~~ll~~c~~~~~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~---~p~~~~yn~Li~~~~~   92 (818)
                      .-|..+..-.+....+.+++...... -..+...+..+...+  .+.|++++|.++|++..   ..+...+..+...+..
T Consensus        19 ~d~~~ia~~~g~~~~A~~~~~~~~~~-~~~~a~~~~~lA~~~--~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~   95 (765)
T PRK10049         19 ADWLQIALWAGQDAEVITVYNRYRVH-MQLPARGYAAVAVAY--RNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLAD   95 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCHHHHHHHHHHH--HHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            34555555556666667777666652 233455677777777  89999999999999964   3457778889999999


Q ss_pred             CCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHH
Q 003457           93 SLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQV  172 (818)
Q Consensus        93 ~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l  172 (818)
                      .|++++|+..++++.+.... +.. +..+..++...|+.++|...++++++..+. +...+..+..++.+.++.++|.+.
T Consensus        96 ~g~~~eA~~~l~~~l~~~P~-~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~~  172 (765)
T PRK10049         96 AGQYDEALVKAKQLVSGAPD-KAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALGA  172 (765)
T ss_pred             CCCHHHHHHHHHHHHHhCCC-CHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHHH
Confidence            99999999999999886332 555 888888999999999999999999997644 666667788888899999999999


Q ss_pred             HHHhhcCCHH--------HHHHHHHHHH-----HcCCh---HHHHHHHHHHHHc-CCCCCHH-HHH----HHHHHHHhcC
Q 003457          173 FDEIRNRTLN--------VWTTMISGYA-----QSFRA---NEALMLFDQMLME-GFEPNSV-TLA----SVLSACAQSG  230 (818)
Q Consensus       173 ~~~m~~~d~~--------~~~~Li~~~~-----~~g~~---~~A~~l~~~m~~~-g~~pd~~-t~~----~ll~~~~~~g  230 (818)
                      +++... ++.        ....+++...     ..+++   ++|++.++.+.+. ...|+.. .+.    ..+..+...+
T Consensus       173 l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g  251 (765)
T PRK10049        173 IDDANL-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARD  251 (765)
T ss_pred             HHhCCC-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhh
Confidence            998776 211        2222333322     22234   7889999999864 1223221 111    1134456779


Q ss_pred             ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCC-------hhhHHHHHHHHHHcCCHHHHHH
Q 003457          231 CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERN-------IATWNAMISGLASHGHAEEALD  303 (818)
Q Consensus       231 ~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d-------~~~~~~Li~~~~~~g~~~~A~~  303 (818)
                      ++++|+..|+.+.+.+.+........+..+|...|++++|+..|+++.+.+       ...+..|..++.+.|++++|..
T Consensus       252 ~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~  331 (765)
T PRK10049        252 RYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALT  331 (765)
T ss_pred             hHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHH
Confidence            999999999999987632122233336789999999999999999886522       2345666778899999999999


Q ss_pred             HHHHHHHcCC-----------CCCH---HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCH
Q 003457          304 LFRKLEKEQI-----------VPND---ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKV  369 (818)
Q Consensus       304 l~~~m~~~g~-----------~pd~---~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~  369 (818)
                      +++++.+..+           .|+.   ..+..+...+...|++++|++.++++...  .+.+...+..++..+...|++
T Consensus       332 ~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~--~P~n~~l~~~lA~l~~~~g~~  409 (765)
T PRK10049        332 VTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN--APGNQGLRIDYASVLQARGWP  409 (765)
T ss_pred             HHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCH
Confidence            9999987532           1332   24456778889999999999999999875  667788999999999999999


Q ss_pred             HHHHHHHHHc-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcch
Q 003457          370 LEAEELIKRM-VWKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGV  421 (818)
Q Consensus       370 ~~A~~~~~~m-~~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~  421 (818)
                      ++|++.++++ ...|+ ...+..++..+...|++++|+.+++++++..|+++.+
T Consensus       410 ~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~  463 (765)
T PRK10049        410 RAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGV  463 (765)
T ss_pred             HHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHH
Confidence            9999999998 45575 6677777778899999999999999999999998743

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.81  E-value=7.2e-16  Score=186.19  Aligned_cols=176  Identities=7%  Similarity=-0.091  Sum_probs=107.1

Q ss_pred             cCchHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC--CCHHHHHHHHHHHHhCCChhHHHHHH
Q 003457           26 KSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQS--PNHFMWNTLIRAQASSLNPDKAIFLY  103 (818)
Q Consensus        26 ~~~~~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~--p~~~~yn~Li~~~~~~g~~~~Al~lf  103 (818)
                      ++...+...+..+++..... ..++..|...|  .+.|+.++|+..+++..+  |+-..|..++..+   +++++|..+|
T Consensus        58 Gd~~~A~~~l~~Al~~dP~n-~~~~~~LA~~y--l~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~~y  131 (987)
T PRK09782         58 NDEATAIREFEYIHQQVPDN-IPLTLYLAEAY--RHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVTTV  131 (987)
T ss_pred             CCHHHHHHHHHHHHHhCCCC-HHHHHHHHHHH--HHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHHHH
Confidence            33444455555555543333 67777777777  888888888888888763  3333333333222   6677777777


Q ss_pred             HHHHHcCC--------------------------------------CCCHHHHHHH-HHHHHccCChHHHHHHHHHHHHc
Q 003457          104 MNMRRTGF--------------------------------------APNQHTFTFV-LKACSNVRSLNCCKQIHTHVSKS  144 (818)
Q Consensus       104 ~~m~~~g~--------------------------------------~pd~~ty~~l-l~~~~~~g~~~~A~~~~~~m~~~  144 (818)
                      +++.+...                                      .|+....... .+.|.+.+++++|.+++.++++.
T Consensus       132 e~l~~~~P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~  211 (987)
T PRK09782        132 EELLAQQKACDAVPTLRCRSEVGQNALRLAQLPVARAQLNDATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQ  211 (987)
T ss_pred             HHHHHhCCCChhHHHHHHHHhhccchhhhhhHHHHHHHHHHhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhc
Confidence            77665322                                      1222222222 55566667777777777777776


Q ss_pred             CCCCCHHHHHHHHHHHHh-CCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 003457          145 GLDLDLHVVNCLVRCYSV-SSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLM  209 (818)
Q Consensus       145 g~~p~~~~~~~Li~~y~~-~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~  209 (818)
                      ++. +......|..+|.. .++ +++..+++...+.+...+..+...|.+.|+.++|.++++++..
T Consensus       212 ~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~  275 (987)
T PRK09782        212 NTL-SAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKP  275 (987)
T ss_pred             CCC-CHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcc
Confidence            533 34445555556665 345 6666665554445666777888888888888888888877643

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.81  E-value=3.3e-15  Score=180.44  Aligned_cols=210  Identities=11%  Similarity=0.051  Sum_probs=120.5

Q ss_pred             CChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CChhhHHHHHHHHHHcCCHHHHHHHHHH
Q 003457          230 GCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--RNIATWNAMISGLASHGHAEEALDLFRK  307 (818)
Q Consensus       230 g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d~~~~~~Li~~~~~~g~~~~A~~l~~~  307 (818)
                      ++.++|...+.+.....  |+......+...+.+.|++++|...|+++..  ++...+..+...+.+.|++++|..++++
T Consensus       490 ~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~q  567 (987)
T PRK09782        490 TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQ  567 (987)
T ss_pred             CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            34444555444444332  2322222333344566666666666665543  2333455555566666666666666666


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CH
Q 003457          308 LEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DV  385 (818)
Q Consensus       308 m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~  385 (818)
                      .++..+. +...+..+...+...|++++|...+++..+.   .|+...+..+..++.+.|++++|++.|+++ ...| +.
T Consensus       568 AL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l---~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~  643 (987)
T PRK09782        568 AEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNI---APSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNS  643 (987)
T ss_pred             HHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH
Confidence            6654311 2222222333334446677777666666643   455666666666677777777777777666 2334 35


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ..+..+..++...|++++|++.+++++++.|+++.++..++.++.+.|++++|++.++..
T Consensus       644 ~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~A  703 (987)
T PRK09782        644 NYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLV  703 (987)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            556666666666777777777777777777777777777777777777777777655554

>PF04862 DUF642: Protein of unknown function (DUF642); InterPro: IPR006946 This family contains a conserved region found in a number of uncharacterised plant proteins

Probab=99.79  E-value=1.8e-19  Score=171.78  Aligned_cols=152  Identities=33%  Similarity=0.623  Sum_probs=131.5

Q ss_pred             cccCCCCCCCCCCCCCCCCcceeeecCCCCCCCceeeceEEEEecCCe-----eecCCCCccccccccccchhhhhcccC
Q 003457          457 ILQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQT-----IRLPDNGHAIQLAQDGRINQTFAADGD  531 (818)
Q Consensus       457 ~~~~~~~~~~~lel~P~~~~~~v~l~~~~~~~~w~~~~~v~~~~~~~~-----~~~p~~~~~~~~~~~~~i~~~~~~~~~  531 (818)
                      +..||.||..+....++...   +..+-..+|||...|.|+++.++..     +..|.|+|+++|+.++.|.|.+. ...
T Consensus         2 Ll~NG~FE~~p~~~~~~~~~---~~~~~s~ipGWtv~g~Ve~i~~~~~~g~~~~~~p~G~~aveLg~~~~I~Q~~~-t~~   77 (159)
T PF04862_consen    2 LLVNGSFEEGPYNSNMNGTS---LSDGSSSIPGWTVSGSVEYIDSGHFQGGMYFAVPEGKQAVELGNEGSISQTFT-TVP   77 (159)
T ss_pred             CccCCCCCCCCccCCCCcce---EccCCCcCCCcEEcCEEEEEecCCccCceeeeCCCCceEEEcCCCceEEEEEE-ccC
Confidence            56899998888665555443   3336689999999888999998886     25899999999999999999996 889


Q ss_pred             CceeeeeeeccCCCcccccccceeeecCCC-CceeeceeeccCCccchhhhccccccCCCceEEEEecCCCCCCCCCcch
Q 003457          532 DLIYILTLTLAPGGQNCSANANLVVSAPDS-HGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRSQSTESDDNSTCW  610 (818)
Q Consensus       532 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  610 (818)
                      +..|.++|+++   |+|++.+.++|+|.++ ..++++++.|+..||++|.|.|  .|....++|+|||||++  +|++||
T Consensus        78 G~~Y~LtF~~~---~~~~~~~~l~V~v~~~~~~~~~~~~~~~~~~w~~~s~~F--~A~~t~~~l~f~~~~~~--~d~~cG  150 (159)
T PF04862_consen   78 GSTYTLTFSLA---RNCAQSESLSVSVGGQFSFVVTIQTSYGSGGWDTYSFTF--TASSTRITLTFHNPGME--SDSACG  150 (159)
T ss_pred             CCEEEEEEEec---CCCCCCccEEEEEecccceEEEeeccCCCCCcEEEEEEE--EeCCCEEEEEEECCCcc--CCCCce
Confidence            99999999988   9999999999999997 7899999999999999999888  55669999999998888  444999


Q ss_pred             hHHHHhhhc
Q 003457          611 PVIDMLLLK  619 (818)
Q Consensus       611 ~~~~~~~~~  619 (818)
                      |+||.+.+|
T Consensus       151 p~iDnV~vk  159 (159)
T PF04862_consen  151 PVIDNVSVK  159 (159)
T ss_pred             eEEEEEEeC
Confidence            999987664

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.78  E-value=1.1e-14  Score=172.76  Aligned_cols=388  Identities=12%  Similarity=0.010  Sum_probs=232.8

Q ss_pred             HHHHHhhhhcCCCHHHHHHHHhhcCCCCHHH-HHHH--HHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 003457           52 RLLAFCALSSSGDLSYATRLFNSIQSPNHFM-WNTL--IRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNV  128 (818)
Q Consensus        52 ~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~-yn~L--i~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~  128 (818)
                      .++.++  ...|+.++|+..+++...|+... +..+  ...|...|++++|+++|+++.+.... +...+..++..+...
T Consensus        73 dll~l~--~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~  149 (822)
T PRK14574         73 DWLQIA--GWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKDPT-NPDLISGMIMTQADA  149 (822)
T ss_pred             HHHHHH--HHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhc
Confidence            444444  45566666666666555442222 2222  33455556666666666666554333 334444555555555


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHH
Q 003457          129 RSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFD  205 (818)
Q Consensus       129 g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~  205 (818)
                      ++.++|++.++++.+.  .|+...+..++..+...++..+|++.++++.+.   +...+..+..+..+.|-...|+++.+
T Consensus       150 ~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~  227 (822)
T PRK14574        150 GRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPTSEEVLKNHLEILQRNRIVEPALRLAK  227 (822)
T ss_pred             CCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            6666666666555553  223333333333333344444456666555542   33445555555555555555555444


Q ss_pred             HHHHcCCCCCHHH------HHHHHHHHH-----hcCCh---hHHHHHHHHHHHc-CC-CCcHHH-HH---HHHHHHHhCC
Q 003457          206 QMLMEGFEPNSVT------LASVLSACA-----QSGCL---ELGEKVHVFVKMR-GF-EMGAIL-GT---ALVHMYTKNG  265 (818)
Q Consensus       206 ~m~~~g~~pd~~t------~~~ll~~~~-----~~g~~---~~A~~i~~~~~~~-g~-~~~~~~-~~---~Li~~~~~~g  265 (818)
                      +-... +.+...-      ...+++.-.     ...++   +.|..-++.+... +. ++.... ..   -.+-++.+.+
T Consensus       228 ~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~  306 (822)
T PRK14574        228 ENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRH  306 (822)
T ss_pred             hCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhh
Confidence            32111 1111100      001110000     01112   2233333443332 11 221111 12   2345677888


Q ss_pred             CHHHHHHHHhhCCCC----ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-----CCCHHHHHHHHHHHHHcCCHHHH
Q 003457          266 ALAKAKALFDSMPER----NIATWNAMISGLASHGHAEEALDLFRKLEKEQI-----VPNDITFVGVLSACCHAGFIDVG  336 (818)
Q Consensus       266 ~~~~A~~~f~~m~~~----d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~-----~pd~~t~~~ll~a~~~~g~~~~A  336 (818)
                      +++++++.|+.+...    -..+-..+..+|...+++++|+.+|+++.....     .++......|.-++...+++++|
T Consensus       307 r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A  386 (822)
T PRK14574        307 QTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKA  386 (822)
T ss_pred             hHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHH
Confidence            999999999999852    233556778899999999999999999876431     22333356788899999999999


Q ss_pred             HHHHHHHHHHhC----------CCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCH
Q 003457          337 RQIFGSMKRVYG----------IEPK---IEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNI  401 (818)
Q Consensus       337 ~~~~~~m~~~~g----------~~p~---~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~  401 (818)
                      .++++.+.+...          -.||   ...+..++..+...|++.+|++.++++ ...| |......+...+...|..
T Consensus       387 ~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p  466 (822)
T PRK14574        387 YQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLP  466 (822)
T ss_pred             HHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCH
Confidence            999999886311          0122   344556777788999999999999988 3345 788888999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          402 EVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       402 ~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .+|++.++.+..++|++......++..+.+.|+|++|.++.+..
T Consensus       467 ~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l  510 (822)
T PRK14574        467 RKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDV  510 (822)
T ss_pred             HHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            99999999999999999999999999999999999998866444

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.76  E-value=5.3e-15  Score=175.27  Aligned_cols=407  Identities=12%  Similarity=0.095  Sum_probs=298.9

Q ss_pred             hcCCCHHHHHHHHhhcCC--CCH--HHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHH
Q 003457           60 SSSGDLSYATRLFNSIQS--PNH--FMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCK  135 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~~--p~~--~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~  135 (818)
                      .+.|+++.|+..|++..+  |+.  ..+ .++..+...|+.++|+..+++.... -......+..+...+...|++++|.
T Consensus        45 ~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~Ai  122 (822)
T PRK14574         45 ARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQAL  122 (822)
T ss_pred             HhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            599999999999999874  442  234 8888889999999999999998821 1223344444566888899999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHH--cCChHHHHHHHHHHHHcCCC
Q 003457          136 QIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQ--SFRANEALMLFDQMLMEGFE  213 (818)
Q Consensus       136 ~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~--~g~~~~A~~l~~~m~~~g~~  213 (818)
                      ++++++++..+. +...+..++..|...++.++|++.++++...+......++.++..  .++..+|++.++++.+.. +
T Consensus       123 ely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P  200 (822)
T PRK14574        123 ALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-P  200 (822)
T ss_pred             HHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-C
Confidence            999999998655 567777889999999999999999999987655533334444444  566666999999999884 5


Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHH------HHHHHHHHH-----HhCCC---HHHHHHHHhhCCC
Q 003457          214 PNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAI------LGTALVHMY-----TKNGA---LAKAKALFDSMPE  279 (818)
Q Consensus       214 pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~------~~~~Li~~~-----~~~g~---~~~A~~~f~~m~~  279 (818)
                      -+...+..+..++.+.|-...|.++..+-...- .+...      ....++..-     ....+   .+.|+.-++.+..
T Consensus       201 ~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f-~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~  279 (822)
T PRK14574        201 TSEEVLKNHLEILQRNRIVEPALRLAKENPNLV-SAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLT  279 (822)
T ss_pred             CCHHHHHHHHHHHHHcCCcHHHHHHHHhCcccc-CHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHh
Confidence            567777888889999998888887665433211 11110      001111100     01122   2344444444442


Q ss_pred             -----CCh-hhHH----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC-
Q 003457          280 -----RNI-ATWN----AMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYG-  348 (818)
Q Consensus       280 -----~d~-~~~~----~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g-  348 (818)
                           |.. ..|.    =.+-++...+++.++++.|+.|...+.+....+-..+..+|...++.++|+.+|+.+....+ 
T Consensus       280 ~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~  359 (822)
T PRK14574        280 RWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGK  359 (822)
T ss_pred             hccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcccc
Confidence                 211 1221    23457788999999999999999988665566788899999999999999999999876521 


Q ss_pred             ---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCC--------------CC--C-HHHHHHHHHHHHHcCCHHHHHHHH
Q 003457          349 ---IEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVW--------------KP--D-VVMWGALLAACKNHGNIEVAERVV  408 (818)
Q Consensus       349 ---~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~--------------~p--d-~~~~~~Li~a~~~~g~~~~A~~~~  408 (818)
                         .+++......|.-+|...+++++|..+++++..              .|  | ......++..+...|+..+|++.+
T Consensus       360 ~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~l  439 (822)
T PRK14574        360 TFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKL  439 (822)
T ss_pred             ccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence               233455567899999999999999999998831              12  2 234455667788999999999999


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeeecCC-CCC
Q 003457          409 KEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGN-NTI  487 (818)
Q Consensus       409 ~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l~~~-~~~  487 (818)
                      +++....|.|......+++++...|+..+|++.++...                      .++|++..+++.+... ...
T Consensus       440 e~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~----------------------~l~P~~~~~~~~~~~~al~l  497 (822)
T PRK14574        440 EDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVE----------------------SLAPRSLILERAQAETAMAL  497 (822)
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh----------------------hhCCccHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999887774                      5677776666665544 455


Q ss_pred             CCceee
Q 003457          488 PGWTFE  493 (818)
Q Consensus       488 ~~w~~~  493 (818)
                      +.|...
T Consensus       498 ~e~~~A  503 (822)
T PRK14574        498 QEWHQM  503 (822)
T ss_pred             hhHHHH
Confidence            555543

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.72  E-value=3e-14  Score=161.51  Aligned_cols=405  Identities=14%  Similarity=0.075  Sum_probs=249.9

Q ss_pred             ChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCCCC------HHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCH--HH
Q 003457           46 DHFAASRLLAFCALSSSGDLSYATRLFNSIQSPN------HFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQ--HT  117 (818)
Q Consensus        46 d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~------~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~--~t  117 (818)
                      ++.+.+.|.+.|  --.|+++.+..+.+.+...+      ..+|..+.++|-..|++++|...|.+..+.  .+|.  ..
T Consensus       269 nP~~l~~LAn~f--yfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~  344 (1018)
T KOG2002|consen  269 NPVALNHLANHF--YFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLP  344 (1018)
T ss_pred             CcHHHHHHHHHH--hhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCcccc
Confidence            566666666666  55666666666666555321      234556666666666666666666655543  2232  23


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCC----ChHHHHHHHHHhhcC--------------
Q 003457          118 FTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSS----DLNNARQVFDEIRNR--------------  179 (818)
Q Consensus       118 y~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g----~~~~A~~l~~~m~~~--------------  179 (818)
                      +.-|...+.+.|+++.+...|+.+.+.. +.+..+...|...|+..+    ..++|..++.+..++              
T Consensus       345 ~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql  423 (1018)
T KOG2002|consen  345 LVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQL  423 (1018)
T ss_pred             ccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            3445556666666666666666666542 224445455555555443    334444444443332              


Q ss_pred             ---------------------------CHHHHHHHHHHHHHcCChHHHHHHHHHHHHc---CCCCCH------HHHHHHH
Q 003457          180 ---------------------------TLNVWTTMISGYAQSFRANEALMLFDQMLME---GFEPNS------VTLASVL  223 (818)
Q Consensus       180 ---------------------------d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~---g~~pd~------~t~~~ll  223 (818)
                                                 -+...|.+...+...|++.+|...|++....   ...+|.      .+-..+.
T Consensus       424 ~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNla  503 (1018)
T KOG2002|consen  424 LEQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLA  503 (1018)
T ss_pred             HHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHH
Confidence                                       2334455555555666666666666655433   111222      1122233


Q ss_pred             HHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHH
Q 003457          224 SACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEE  300 (818)
Q Consensus       224 ~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~  300 (818)
                      ..+-..++.+.|.+.|..+.+.. +.-+..|..|+.+....+...+|...++.+.+   .++..+..+...+.+...+..
T Consensus       504 rl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~  582 (1018)
T KOG2002|consen  504 RLLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKP  582 (1018)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcc
Confidence            44445556666666666666552 22223333333333333556666666666654   456666667777777777777


Q ss_pred             HHHHHHHHHHc-CCCCCHHHHHHHHHHHHH------------cCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC
Q 003457          301 ALDLFRKLEKE-QIVPNDITFVGVLSACCH------------AGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCG  367 (818)
Q Consensus       301 A~~l~~~m~~~-g~~pd~~t~~~ll~a~~~------------~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g  367 (818)
                      |.+-|+...+. ...+|..+...|.+.|..            .+..++|+++|.++++.  .+.|...-|.+.-.++..|
T Consensus       583 a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~--dpkN~yAANGIgiVLA~kg  660 (1018)
T KOG2002|consen  583 AKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRN--DPKNMYAANGIGIVLAEKG  660 (1018)
T ss_pred             cccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhc--Ccchhhhccchhhhhhhcc
Confidence            77766665543 223566777777776554            24577888888888764  5667888888888899999


Q ss_pred             CHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCcchHHHHHHHHHHhhchHHHHH-HH
Q 003457          368 KVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALE--PNNHGVYVVLSNMYAEAESMKMQLE-IL  442 (818)
Q Consensus       368 ~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~--P~~~~~y~~L~~~l~~~G~~~eA~~-l~  442 (818)
                      ++.+|..+|.+..  ...+..+|.++..+|...|++-.|+++|+..++..  -++++...+|+.++.++|++.+|.+ +.
T Consensus       661 ~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll  740 (1018)
T KOG2002|consen  661 RFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALL  740 (1018)
T ss_pred             CchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            9999999998874  22356778889999999999999999998888743  3467888999999999999999988 44


Q ss_pred             HHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeee
Q 003457          443 LVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLL  481 (818)
Q Consensus       443 ~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l  481 (818)
                      ..+                       .+.|.++...+.+
T Consensus       741 ~a~-----------------------~~~p~~~~v~FN~  756 (1018)
T KOG2002|consen  741 KAR-----------------------HLAPSNTSVKFNL  756 (1018)
T ss_pred             HHH-----------------------HhCCccchHHhHH
Confidence            444                       6778777765554

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.67  E-value=3.1e-14  Score=147.93  Aligned_cols=347  Identities=13%  Similarity=0.075  Sum_probs=238.5

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCC------------
Q 003457           82 MWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLD------------  149 (818)
Q Consensus        82 ~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~------------  149 (818)
                      ..|.+.-.+.+.|+++.|+..|+...+.  .|+..+-..|+-.+...|+.++.++.|.+|+.....+|            
T Consensus       278 il~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~  355 (840)
T KOG2003|consen  278 ILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPD  355 (840)
T ss_pred             HHhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcc
Confidence            3444445567889999999999887773  67777544455455567888999999999886533222            


Q ss_pred             HHHHHHHH-----HHHHhCC--ChHHHHHHHHHhhc----CCHH-------------HHH--------HHHHHHHHcCCh
Q 003457          150 LHVVNCLV-----RCYSVSS--DLNNARQVFDEIRN----RTLN-------------VWT--------TMISGYAQSFRA  197 (818)
Q Consensus       150 ~~~~~~Li-----~~y~~~g--~~~~A~~l~~~m~~----~d~~-------------~~~--------~Li~~~~~~g~~  197 (818)
                      ....+.-+     .-+-+.+  +.++++-.--++..    ++..             .|.        .-...+.++|++
T Consensus       356 ~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~  435 (840)
T KOG2003|consen  356 DNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDI  435 (840)
T ss_pred             hHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCH
Confidence            22222211     1111111  11222211112221    1111             010        122357888999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHH--HHHH----------------------------------HHHhcCChhHHHHHHHH
Q 003457          198 NEALMLFDQMLMEGFEPNSVTLA--SVLS----------------------------------ACAQSGCLELGEKVHVF  241 (818)
Q Consensus       198 ~~A~~l~~~m~~~g~~pd~~t~~--~ll~----------------------------------~~~~~g~~~~A~~i~~~  241 (818)
                      +.|+++++-+.+..-+.-...-+  .++.                                  .....|++++|...|++
T Consensus       436 ~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~yke  515 (840)
T KOG2003|consen  436 EGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKE  515 (840)
T ss_pred             HHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHH
Confidence            99999888775442111111100  0111                                  11123567888888888


Q ss_pred             HHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHH
Q 003457          242 VKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDI  318 (818)
Q Consensus       242 ~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~  318 (818)
                      .+...-......|| +.-.+-+.|++++|++.|-++..   .+......+...|-...+..+|++++.+.... ++.|+.
T Consensus       516 al~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~  593 (840)
T KOG2003|consen  516 ALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPA  593 (840)
T ss_pred             HHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHH
Confidence            77654322233333 44556778889999998887764   67777888888898889999999998777654 445677


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCHHHHHHHHHHH-H
Q 003457          319 TFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDVVMWGALLAAC-K  396 (818)
Q Consensus       319 t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~~~~~~Li~a~-~  396 (818)
                      .+..|...|-+.|+-..|.+++-.--+-  ++-|..+..-|...|....-+++|+.+|+++ ...|+..-|..++..| .
T Consensus       594 ilskl~dlydqegdksqafq~~ydsyry--fp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~r  671 (840)
T KOG2003|consen  594 ILSKLADLYDQEGDKSQAFQCHYDSYRY--FPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFR  671 (840)
T ss_pred             HHHHHHHHhhcccchhhhhhhhhhcccc--cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHH
Confidence            8888999999999999999988775543  7778899999999999999999999999998 5789999999998876 5


Q ss_pred             HcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          397 NHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       397 ~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      +.|++++|.++|+...+..|.+.+++..|+++....|.
T Consensus       672 rsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  672 RSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             hcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            79999999999999999999999999999999988884

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.64  E-value=1e-12  Score=149.18  Aligned_cols=314  Identities=12%  Similarity=0.074  Sum_probs=239.2

Q ss_pred             CHHHHHHHHHHHHccCChHHHHHHHHHHH----HcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC-------CH-
Q 003457          114 NQHTFTFVLKACSNVRSLNCCKQIHTHVS----KSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR-------TL-  181 (818)
Q Consensus       114 d~~ty~~ll~~~~~~g~~~~A~~~~~~m~----~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~-------d~-  181 (818)
                      |...|..+...+-.. +...+..++..++    ..+..+.....|.+...+...|++++|...|+.....       |. 
T Consensus       413 d~~a~l~laql~e~~-d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~  491 (1018)
T KOG2002|consen  413 DSEAWLELAQLLEQT-DPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEG  491 (1018)
T ss_pred             cHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCcccc
Confidence            444554444444332 3333344444433    3455577788899999999999999999999887542       11 


Q ss_pred             -----HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHH
Q 003457          182 -----NVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTA  256 (818)
Q Consensus       182 -----~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~  256 (818)
                           .+-..+.+.+-..++++.|.+.|+...+.. +--...|..++......++..+|...+....... ..++..+..
T Consensus       492 ~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl  569 (1018)
T KOG2002|consen  492 KSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSL  569 (1018)
T ss_pred             ccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHH
Confidence                 234456667777789999999999999873 3334455555544455688899999999998765 667778888


Q ss_pred             HHHHHHhCCCHHHHHHHHhhCCC-----CChhhHHHHHHHHHH------------cCCHHHHHHHHHHHHHcCCCCCHHH
Q 003457          257 LVHMYTKNGALAKAKALFDSMPE-----RNIATWNAMISGLAS------------HGHAEEALDLFRKLEKEQIVPNDIT  319 (818)
Q Consensus       257 Li~~~~~~g~~~~A~~~f~~m~~-----~d~~~~~~Li~~~~~------------~g~~~~A~~l~~~m~~~g~~pd~~t  319 (818)
                      +...|.+..++..|.+-|+.+.+     +|+.+.-+|...|.+            .+..++|+++|.+.++..++ |...
T Consensus       570 ~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpk-N~yA  648 (1018)
T KOG2002|consen  570 LGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPK-NMYA  648 (1018)
T ss_pred             HHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcc-hhhh
Confidence            88899999999999886665553     466666666665542            35678999999999987554 7788


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC----CCCCHHHHHHHHHHH
Q 003457          320 FVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV----WKPDVVMWGALLAAC  395 (818)
Q Consensus       320 ~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~----~~pd~~~~~~Li~a~  395 (818)
                      -+.+.-+++..|++.+|..+|.++.+.  ...+..+|-.+.++|..+|++..|+++|+...    .+.+......|..++
T Consensus       649 ANGIgiVLA~kg~~~~A~dIFsqVrEa--~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~  726 (1018)
T KOG2002|consen  649 ANGIGIVLAEKGRFSEARDIFSQVREA--TSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAW  726 (1018)
T ss_pred             ccchhhhhhhccCchHHHHHHHHHHHH--HhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHH
Confidence            888899999999999999999999886  44556788999999999999999999998772    345788999999999


Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh
Q 003457          396 KNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE  433 (818)
Q Consensus       396 ~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G  433 (818)
                      .+.|++.+|.+.+..++...|.++...++++.++.+.+
T Consensus       727 y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla  764 (1018)
T KOG2002|consen  727 YEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLA  764 (1018)
T ss_pred             HHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHH
Confidence            99999999999999999999999888888777665543

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.60  E-value=1.2e-10  Score=126.93  Aligned_cols=369  Identities=14%  Similarity=0.146  Sum_probs=271.8

Q ss_pred             hcCCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHhCCChhHHHHHHHH----HHHcCCCCCHHHHHHHHHHHHccCChH
Q 003457           60 SSSGDLSYATRLFNSIQ---SPNHFMWNTLIRAQASSLNPDKAIFLYMN----MRRTGFAPNQHTFTFVLKACSNVRSLN  132 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~---~p~~~~yn~Li~~~~~~g~~~~Al~lf~~----m~~~g~~pd~~ty~~ll~~~~~~g~~~  132 (818)
                      ++..-++.|.+++++..   ..+...|-+-...--.+|+.+....+..+    +...|+..+..-|..=...|-..|..-
T Consensus       417 arLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~  496 (913)
T KOG0495|consen  417 ARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVI  496 (913)
T ss_pred             HHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChh
Confidence            55666777888877665   35777777666666677877777776655    345678888888888888888888888


Q ss_pred             HHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhCCChHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 003457          133 CCKQIHTHVSKSGLDLD--LHVVNCLVRCYSVSSDLNNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFDQM  207 (818)
Q Consensus       133 ~A~~~~~~m~~~g~~p~--~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m  207 (818)
                      .+..+....+..|++..  ..+|+.-...|.+.+.++-|+.+|....+-   +...|......--..|..++-..+|+++
T Consensus       497 TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqka  576 (913)
T KOG0495|consen  497 TCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKA  576 (913)
T ss_pred             hHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            88888888877776532  347777778888888888888888877653   4456766666666678888888888888


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CChhhH
Q 003457          208 LMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--RNIATW  285 (818)
Q Consensus       208 ~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d~~~~  285 (818)
                      ... ++-....|....+.+-..|+...|..++..+.+.. +.+..++.+-+.......+++.|..+|.+...  +....|
T Consensus       577 v~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~  654 (913)
T KOG0495|consen  577 VEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVW  654 (913)
T ss_pred             HHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhh
Confidence            776 34444555555566667788888888888888775 44677787888888888888888888887764  566677


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Q 003457          286 NAMISGLASHGHAEEALDLFRKLEKEQIVPN-DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLG  364 (818)
Q Consensus       286 ~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~  364 (818)
                      .--+....-.++.++|++++++.++.  -|+ ...|..+.+.+.+.++++.|...|..=.+.  ++.....|-.|.+.=.
T Consensus       655 mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~--cP~~ipLWllLakleE  730 (913)
T KOG0495|consen  655 MKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK--CPNSIPLWLLLAKLEE  730 (913)
T ss_pred             HHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc--CCCCchHHHHHHHHHH
Confidence            66666666778888888888888775  445 345666778888888888888888775553  5556778888888888


Q ss_pred             HcCCHHHHHHHHHHcCC-CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          365 RCGKVLEAEELIKRMVW-KP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       365 ~~g~~~~A~~~~~~m~~-~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      +.|++-+|..+|++... .| +...|...+..-.+.|+.+.|..++.++++.-|.+...|..-+.+..+.++
T Consensus       731 k~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~r  802 (913)
T KOG0495|consen  731 KDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQR  802 (913)
T ss_pred             HhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCccc
Confidence            88888888888888842 34 678888888888888888888888888888777764444444444444443

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.58  E-value=6.4e-12  Score=142.10  Aligned_cols=326  Identities=13%  Similarity=0.150  Sum_probs=247.1

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhh---cCCHHHHHHHHHHHH
Q 003457          116 HTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIR---NRTLNVWTTMISGYA  192 (818)
Q Consensus       116 ~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~---~~d~~~~~~Li~~~~  192 (818)
                      .......+.+...|++++|.+++.++++..+. ....|-.|...|-..|+.+++...+-...   ..|...|..+.....
T Consensus       140 ~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~  218 (895)
T KOG2076|consen  140 RQLLGEANNLFARGDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSE  218 (895)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            33444444444559999999999999988644 66788889999999999999887765443   347778888888888


Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHH----HHHHHHHHhCCCHH
Q 003457          193 QSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILG----TALVHMYTKNGALA  268 (818)
Q Consensus       193 ~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~----~~Li~~~~~~g~~~  268 (818)
                      +.|++++|.-+|.+.++.. +++...+..-...|.+.|+...|...+.++.....+.+..-+    ...++.+...++-+
T Consensus       219 ~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e  297 (895)
T KOG2076|consen  219 QLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERE  297 (895)
T ss_pred             hcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHH
Confidence            9999999999999998875 666666666777888899999999999988887543333222    23456677777778


Q ss_pred             HHHHHHhhCCC-----CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH-----------------------
Q 003457          269 KAKALFDSMPE-----RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITF-----------------------  320 (818)
Q Consensus       269 ~A~~~f~~m~~-----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~-----------------------  320 (818)
                      .|.+.++....     -+...++.++..|.+...++.|.....++......+|...+                       
T Consensus       298 ~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~  377 (895)
T KOG2076|consen  298 RAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYD  377 (895)
T ss_pred             HHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCcc
Confidence            88888876654     24456788888899999999998888877662222221111                       


Q ss_pred             ---HHHHHHHHHcCCHHHHHHHHHHHHHHhC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCC---CCHHHHHHHH
Q 003457          321 ---VGVLSACCHAGFIDVGRQIFGSMKRVYG--IEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWK---PDVVMWGALL  392 (818)
Q Consensus       321 ---~~ll~a~~~~g~~~~A~~~~~~m~~~~g--~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~---pd~~~~~~Li  392 (818)
                         ..++-++...+..+....+...+.+. .  ...+...|.-+.++|...|++.+|+++|..+...   .+...|..+.
T Consensus       378 l~v~rl~icL~~L~~~e~~e~ll~~l~~~-n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a  456 (895)
T KOG2076|consen  378 LRVIRLMICLVHLKERELLEALLHFLVED-NVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLA  456 (895)
T ss_pred             chhHhHhhhhhcccccchHHHHHHHHHHh-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHH
Confidence               12233444555555555555555444 4  3345788999999999999999999999999433   2577999999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHH
Q 003457          393 AACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLV  444 (818)
Q Consensus       393 ~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~  444 (818)
                      ..|...|.+++|++.|++++...|++.++...|+.+|.+.|+.++|.+.+..
T Consensus       457 ~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~  508 (895)
T KOG2076|consen  457 RCYMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQ  508 (895)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999999997655

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.57  E-value=1e-14  Score=155.24  Aligned_cols=256  Identities=16%  Similarity=0.106  Sum_probs=113.7

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH-HHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhC
Q 003457          186 TMISGYAQSFRANEALMLFDQMLMEGFEPNSVTL-ASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKN  264 (818)
Q Consensus       186 ~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~-~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~  264 (818)
                      .+...+.+.|++++|++++++......+|+...| ..+...+...++++.|.+.++++...+ +.++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            3456667778888888888654443223444333 344455566778888888888888765 3355566667666 678


Q ss_pred             CCHHHHHHHHhhCCC--CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 003457          265 GALAKAKALFDSMPE--RNIATWNAMISGLASHGHAEEALDLFRKLEKEQ-IVPNDITFVGVLSACCHAGFIDVGRQIFG  341 (818)
Q Consensus       265 g~~~~A~~~f~~m~~--~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g-~~pd~~t~~~ll~a~~~~g~~~~A~~~~~  341 (818)
                      +++++|.+++...-+  ++...+..++..+.+.++++++.++++++.... .+.+...|..+...+.+.|+.++|++.++
T Consensus        91 ~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             ccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            888888888876644  456677778888999999999999999987543 34566778888899999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc
Q 003457          342 SMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNH  419 (818)
Q Consensus       342 ~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~  419 (818)
                      +..+.  .+.|......++..+...|+.+++.++++...  ...|...+..+..+|...|+.++|+.+|+++.+.+|+++
T Consensus       171 ~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~  248 (280)
T PF13429_consen  171 KALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDP  248 (280)
T ss_dssp             HHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccccc
Confidence            99986  44468888999999999999999888887762  234566788899999999999999999999999999999


Q ss_pred             chHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          420 GVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       420 ~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .....+++++...|+.++|.++++..
T Consensus       249 ~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  249 LWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHHHHT---------------
T ss_pred             cccccccccccccccccccccccccc
Confidence            99999999999999999999976654

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.55  E-value=5.9e-11  Score=125.05  Aligned_cols=255  Identities=13%  Similarity=0.089  Sum_probs=196.6

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCC--CcHHHHHHHHHHHHhC
Q 003457          187 MISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFE--MGAILGTALVHMYTKN  264 (818)
Q Consensus       187 Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~--~~~~~~~~Li~~~~~~  264 (818)
                      +..++......++++.-.+.....|++-+...-+....+.-...++++|+.+|+++.+...-  .|..+|..++-.--.+
T Consensus       233 ~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~  312 (559)
T KOG1155|consen  233 LKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhh
Confidence            44556666677777777777777776655554444555556778888888888888877311  1345555544332222


Q ss_pred             CCHH-HHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          265 GALA-KAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSM  343 (818)
Q Consensus       265 g~~~-~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m  343 (818)
                      .++. .|..++ .+.+=-+.|...+...|.-.++.++|+.+|++.++.+++ ....++.+.+-|...++...|.+.|+.+
T Consensus       313 skLs~LA~~v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrA  390 (559)
T KOG1155|consen  313 SKLSYLAQNVS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRA  390 (559)
T ss_pred             HHHHHHHHHHH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHH
Confidence            2222 122222 222334556777778888899999999999999987543 4567888889999999999999999999


Q ss_pred             HHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcch
Q 003457          344 KRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGV  421 (818)
Q Consensus       344 ~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~  421 (818)
                      ++.  .+.|-..|..|.++|.-.+.+.-|+-.|+++ ..+| |...|.+|...|.+.++.++|+..|++++..+-.+..+
T Consensus       391 vdi--~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~  468 (559)
T KOG1155|consen  391 VDI--NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSA  468 (559)
T ss_pred             Hhc--CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHH
Confidence            875  6678999999999999999999999999999 4566 78999999999999999999999999999988777899


Q ss_pred             HHHHHHHHHHhhchHHHHHHHHHH
Q 003457          422 YVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       422 y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      |..|+++|.+.++.++|.+.++.-
T Consensus       469 l~~LakLye~l~d~~eAa~~yek~  492 (559)
T KOG1155|consen  469 LVRLAKLYEELKDLNEAAQYYEKY  492 (559)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHH
Confidence            999999999999999999976554

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.54  E-value=8.9e-13  Score=144.90  Aligned_cols=274  Identities=11%  Similarity=0.068  Sum_probs=212.2

Q ss_pred             ChHHHHHHHHHhhcC--CHH-HHHHHHHHHHHcCChHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCChhHHHHHH
Q 003457          165 DLNNARQVFDEIRNR--TLN-VWTTMISGYAQSFRANEALMLFDQMLMEG--FEPNSVTLASVLSACAQSGCLELGEKVH  239 (818)
Q Consensus       165 ~~~~A~~l~~~m~~~--d~~-~~~~Li~~~~~~g~~~~A~~l~~~m~~~g--~~pd~~t~~~ll~~~~~~g~~~~A~~i~  239 (818)
                      +..+|...|.++.+.  |+. ....+.++|.+..++++|.++|+.+.+..  .--+...|.+.+-.+.+    +-+..++
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHH
Confidence            457788888886543  333 44567789999999999999999987652  11256677777755432    2233333


Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCC---ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC
Q 003457          240 VFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPER---NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPN  316 (818)
Q Consensus       240 ~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd  316 (818)
                      .+-+-.-.+..+.+|-++.++|.-+++.+.|++.|++..+-   ...+|+.+..-+.....+|+|...|+..+....+ +
T Consensus       410 aq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-h  488 (638)
T KOG1126|consen  410 AQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-H  488 (638)
T ss_pred             HHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-h
Confidence            33222223667889999999999999999999999988863   5578888888889999999999999988765322 3


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CC-CCHHHHHHHHH
Q 003457          317 DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP-KIEHYGCMVDLLGRCGKVLEAEELIKRMV-WK-PDVVMWGALLA  393 (818)
Q Consensus       317 ~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~-pd~~~~~~Li~  393 (818)
                      -..|..++..|.++++++.|+-.|+++.+   +.| +.+....+...+.+.|+.++|+++|+++. .. .|+..--..+.
T Consensus       489 YnAwYGlG~vy~Kqek~e~Ae~~fqkA~~---INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~  565 (638)
T KOG1126|consen  489 YNAWYGLGTVYLKQEKLEFAEFHFQKAVE---INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRAS  565 (638)
T ss_pred             hHHHHhhhhheeccchhhHHHHHHHhhhc---CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHH
Confidence            34566778899999999999999999885   444 56677778888999999999999999983 23 35655556677


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          394 ACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .+...+++++|++.++++.++.|++...|..++.+|.+.|+.+.|+.-+..+.
T Consensus       566 il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~  618 (638)
T KOG1126|consen  566 ILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWAL  618 (638)
T ss_pred             HHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHh
Confidence            78889999999999999999999999999999999999999999999666653

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.54  E-value=1.8e-11  Score=127.57  Aligned_cols=393  Identities=13%  Similarity=0.104  Sum_probs=264.4

Q ss_pred             ChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC----CCHHHH-HHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHH----
Q 003457           46 DHFAASRLLAFCALSSSGDLSYATRLFNSIQS----PNHFMW-NTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQH----  116 (818)
Q Consensus        46 d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~----p~~~~y-n~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~----  116 (818)
                      +..+..-|..-|  .......+|+..++-+.+    |+.-.. -.+...|.+...+.+|+.+|+.....-...+..    
T Consensus       200 tfsvl~nlaqqy--~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rik  277 (840)
T KOG2003|consen  200 TFSVLFNLAQQY--EANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIK  277 (840)
T ss_pred             hHHHHHHHHHHh--hhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHH
Confidence            334444455556  666677788888886653    332211 124456778888999999998776542222222    


Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhc----------------CC
Q 003457          117 TFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRN----------------RT  180 (818)
Q Consensus       117 ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~----------------~d  180 (818)
                      ..+.+.-.+.+.|+++.|..-|++..+.  .|+..+-..|+-++...|+-++..+.|.+|..                ++
T Consensus       278 il~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~  355 (840)
T KOG2003|consen  278 ILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPD  355 (840)
T ss_pred             HHhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcc
Confidence            3344444578999999999999999885  56777666677778889999999999999864                11


Q ss_pred             HHHH-----HHHHHHHHHcC--ChHHHHHHHHHHHHcCCCCCHH-------------HHH--------HHHHHHHhcCCh
Q 003457          181 LNVW-----TTMISGYAQSF--RANEALMLFDQMLMEGFEPNSV-------------TLA--------SVLSACAQSGCL  232 (818)
Q Consensus       181 ~~~~-----~~Li~~~~~~g--~~~~A~~l~~~m~~~g~~pd~~-------------t~~--------~ll~~~~~~g~~  232 (818)
                      ....     +-++.-.-+.+  +.++++-.--+++.--+.||-.             .+.        .-...+.+.|++
T Consensus       356 ~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~  435 (840)
T KOG2003|consen  356 DNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDI  435 (840)
T ss_pred             hHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCH
Confidence            1112     22222222222  1222222222222222223211             011        112246688999


Q ss_pred             hHHHHHHHHHHHcCCCCcHHHHHHHHHH------------------------------------HHhCCCHHHHHHHHhh
Q 003457          233 ELGEKVHVFVKMRGFEMGAILGTALVHM------------------------------------YTKNGALAKAKALFDS  276 (818)
Q Consensus       233 ~~A~~i~~~~~~~g~~~~~~~~~~Li~~------------------------------------~~~~g~~~~A~~~f~~  276 (818)
                      +.|.++++-..+..-.......+.|...                                    ....|++++|.+.|++
T Consensus       436 ~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~yke  515 (840)
T KOG2003|consen  436 EGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKE  515 (840)
T ss_pred             HHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHH
Confidence            9999999888775422222111111111                                    1235788899999988


Q ss_pred             CCCCChhhHHHHH---HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCH
Q 003457          277 MPERNIATWNAMI---SGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKI  353 (818)
Q Consensus       277 m~~~d~~~~~~Li---~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~  353 (818)
                      ....|...-.+|.   ..+-..|+.++|+++|-++... +..+...+..+.+.|....+...|++++.+....  ++.|+
T Consensus       516 al~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl--ip~dp  592 (840)
T KOG2003|consen  516 ALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL--IPNDP  592 (840)
T ss_pred             HHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc--CCCCH
Confidence            8887766544443   3567789999999999887653 2346677778888899999999999999887754  67788


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHc-CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHH
Q 003457          354 EHYGCMVDLLGRCGKVLEAEELIKRM-VW-KPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAE  431 (818)
Q Consensus       354 ~~~~~Li~~~~~~g~~~~A~~~~~~m-~~-~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~  431 (818)
                      .....|.+.|-+.|+-..|.+.+-.- .. .-+..+..=|..-|....-+++|+.+|+++.-+.|+.......++.++.|
T Consensus       593 ~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rr  672 (840)
T KOG2003|consen  593 AILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRR  672 (840)
T ss_pred             HHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHh
Confidence            99999999999999999998876444 32 33677777777778888889999999999999999966666777788889


Q ss_pred             hhchHHHHHHHHHH
Q 003457          432 AESMKMQLEILLVQ  445 (818)
Q Consensus       432 ~G~~~eA~~l~~~~  445 (818)
                      .|+|..|.++++..
T Consensus       673 sgnyqka~d~yk~~  686 (840)
T KOG2003|consen  673 SGNYQKAFDLYKDI  686 (840)
T ss_pred             cccHHHHHHHHHHH
Confidence            99999999988766

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.54  E-value=2.4e-10  Score=119.03  Aligned_cols=398  Identities=14%  Similarity=0.109  Sum_probs=210.3

Q ss_pred             hHHHHHHHHh--cCchHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHH-HHhhc-----------------
Q 003457           16 PPLSLLADKC--KSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATR-LFNSI-----------------   75 (818)
Q Consensus        16 ~tl~~ll~~c--~~~~~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~-lf~~~-----------------   75 (818)
                      .|=++++.--  +..++.--++..|...|..-+..+--.|+++.+|-...++--|+. -|-.|                 
T Consensus       117 ~~E~nL~kmIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vA  196 (625)
T KOG4422|consen  117 ETENNLLKMISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVA  196 (625)
T ss_pred             cchhHHHHHHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHH
Confidence            3444444432  445566778888888898888888877777665555555443321 12222                 


Q ss_pred             ------CCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCC
Q 003457           76 ------QSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLD  149 (818)
Q Consensus        76 ------~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~  149 (818)
                            ......+|..||+++++--..++|.++|++......+.+..+||.+|.+-+-..    .++++.+|+...+.||
T Consensus       197 dL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pn  272 (625)
T KOG4422|consen  197 DLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPN  272 (625)
T ss_pred             HHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCc
Confidence                  224556888888888888888888888888888778888888888887754332    2778888888888888


Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 003457          150 LHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQS  229 (818)
Q Consensus       150 ~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~  229 (818)
                      ..|+|+++++..+.|+++.|.+.+                           ++++.+|++.|+.|...+|..+|..+.+.
T Consensus       273 l~TfNalL~c~akfg~F~~ar~aa---------------------------lqil~EmKeiGVePsLsSyh~iik~f~re  325 (625)
T KOG4422|consen  273 LFTFNALLSCAAKFGKFEDARKAA---------------------------LQILGEMKEIGVEPSLSSYHLIIKNFKRE  325 (625)
T ss_pred             hHhHHHHHHHHHHhcchHHHHHHH---------------------------HHHHHHHHHhCCCcchhhHHHHHHHhccc
Confidence            888888888888888887765443                           33444444444444444444444444443


Q ss_pred             CChhH-HHHHHHHHHHc----CC----CCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--------C---ChhhHHHHH
Q 003457          230 GCLEL-GEKVHVFVKMR----GF----EMGAILGTALVHMYTKNGALAKAKALFDSMPE--------R---NIATWNAMI  289 (818)
Q Consensus       230 g~~~~-A~~i~~~~~~~----g~----~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--------~---d~~~~~~Li  289 (818)
                      ++..+ +..++..+...    .+    +.+...|..-+..|....+.+.|.++-.-+..        +   ...-|..+.
T Consensus       326 ~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~  405 (625)
T KOG4422|consen  326 SDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFF  405 (625)
T ss_pred             CCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHH
Confidence            33322 22222222211    11    11223333334444444444444444332221        0   111233344


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC--
Q 003457          290 SGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCG--  367 (818)
Q Consensus       290 ~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g--  367 (818)
                      ...++....+.-+..|+.|+-.-.-|+..+...++++....+.++-..+++..++.- |...+.....-+...+++.+  
T Consensus       406 ~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~-ght~r~~l~eeil~~L~~~k~h  484 (625)
T KOG4422|consen  406 DLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEY-GHTFRSDLREEILMLLARDKLH  484 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHh-hhhhhHHHHHHHHHHHhcCCCC
Confidence            444444555555555555544444444455555555555555554444444444432 22222222222222222211  


Q ss_pred             ------------------CHHHHHH-HHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---CCCcc--hH
Q 003457          368 ------------------KVLEAEE-LIKRM-VWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALE---PNNHG--VY  422 (818)
Q Consensus       368 ------------------~~~~A~~-~~~~m-~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~---P~~~~--~y  422 (818)
                                        ++.++.+ .-.++ ..+-.....+..+-.+.+.|+.++|.+++....+.+   |..+.  +.
T Consensus       485 p~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm  564 (625)
T KOG4422|consen  485 PLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAM  564 (625)
T ss_pred             CCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhH
Confidence                              0111110 01111 122334455555556677888888888777765432   33221  22


Q ss_pred             HHHHHHHHHhhchHHHHHHHHHH
Q 003457          423 VVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       423 ~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ..+.+.-.+....-.|..+++.+
T Consensus       565 ~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  565 AELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHH
Confidence            23344444555556666655554

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.53  E-value=4.9e-10  Score=122.27  Aligned_cols=354  Identities=10%  Similarity=0.028  Sum_probs=254.5

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 003457           82 MWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYS  161 (818)
Q Consensus        82 ~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~  161 (818)
                      +|+.-...|.+.+.++-|..+|....+. ..-+...|......=-..|..++...++++++..-++ ....|.....-+-
T Consensus       518 tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pk-ae~lwlM~ake~w  595 (913)
T KOG0495|consen  518 TWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPK-AEILWLMYAKEKW  595 (913)
T ss_pred             HHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCc-chhHHHHHHHHHH
Confidence            4555555555666666666666666653 2223445555544444557777777777777776433 4455666666677


Q ss_pred             hCCChHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 003457          162 VSSDLNNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKV  238 (818)
Q Consensus       162 ~~g~~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i  238 (818)
                      ..||+..|+.++.+..+.   +...|-+-+..-..+.+++.|..+|.+....  .|+...|.--+...--+++.++|.++
T Consensus       596 ~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rl  673 (913)
T KOG0495|consen  596 KAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRL  673 (913)
T ss_pred             hcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHH
Confidence            778888888887777653   4456777777777888888888888877654  56666665555555556777888888


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--C-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Q 003457          239 HVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--R-NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVP  315 (818)
Q Consensus       239 ~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~-d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p  315 (818)
                      +++.++. ++.-...|..+.+.+-+.++++.|.+.|..=.+  | .+..|-.|...=-+.|..-+|..++++.+.++++ 
T Consensus       674 lEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk-  751 (913)
T KOG0495|consen  674 LEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPK-  751 (913)
T ss_pred             HHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCC-
Confidence            8888776 344456777777888888888888887776554  3 4456777776667777888888888887776544 


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003457          316 NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAAC  395 (818)
Q Consensus       316 d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~  395 (818)
                      +...|...++.-.+.|+.+.|..+..+.++.  ++.+...|..-|.+..+.++-.++...+++..  .|......+...+
T Consensus       752 ~~~lwle~Ir~ElR~gn~~~a~~lmakALQe--cp~sg~LWaEaI~le~~~~rkTks~DALkkce--~dphVllaia~lf  827 (913)
T KOG0495|consen  752 NALLWLESIRMELRAGNKEQAELLMAKALQE--CPSSGLLWAEAIWLEPRPQRKTKSIDALKKCE--HDPHVLLAIAKLF  827 (913)
T ss_pred             cchhHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccchhHHHHHHhccCcccchHHHHHHHhcc--CCchhHHHHHHHH
Confidence            6667777788888888888888888887775  67777778777777777777667777776664  4556666777778


Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          396 KNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       396 ~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ....++++|.+.|.++++++|++-++|..+-..+.+.|.-++-.++++..
T Consensus       828 w~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c  877 (913)
T KOG0495|consen  828 WSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKC  877 (913)
T ss_pred             HHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            88889999999999999999999999999999999999888888877766

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.51  E-value=1.7e-10  Score=130.74  Aligned_cols=347  Identities=12%  Similarity=0.122  Sum_probs=249.0

Q ss_pred             cCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHH
Q 003457           61 SSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQI  137 (818)
Q Consensus        61 k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~  137 (818)
                      ..|++++|.+++.++++   .+...|.+|...|-+.|+.++++..+-..-..... |...|..+.....+.|++++|.-.
T Consensus       151 arg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~-d~e~W~~ladls~~~~~i~qA~~c  229 (895)
T KOG2076|consen  151 ARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK-DYELWKRLADLSEQLGNINQARYC  229 (895)
T ss_pred             HhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHhcccHHHHHHH
Confidence            44999999999999874   56779999999999999999999887665554333 667899999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCH----H----HHHHHHHHHHHcCChHHHHHHHHHHHH
Q 003457          138 HTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTL----N----VWTTMISGYAQSFRANEALMLFDQMLM  209 (818)
Q Consensus       138 ~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~----~----~~~~Li~~~~~~g~~~~A~~l~~~m~~  209 (818)
                      |.++++..+. +...+-.-+..|-+.|+...|.+.|.++.+.++    .    .-...+..+...++-+.|.+.++....
T Consensus       230 y~rAI~~~p~-n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s  308 (895)
T KOG2076|consen  230 YSRAIQANPS-NWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALS  308 (895)
T ss_pred             HHHHHhcCCc-chHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            9999998644 555555677889999999999999999876543    1    223345667777777899998888766


Q ss_pred             cC-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcC---------------------------CCCcHHH-HHHHHHH
Q 003457          210 EG-FEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRG---------------------------FEMGAIL-GTALVHM  260 (818)
Q Consensus       210 ~g-~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g---------------------------~~~~~~~-~~~Li~~  260 (818)
                      .+ -.-+...++.++..+.+..+++.+...........                           ..++..+ +..+...
T Consensus       309 ~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~  388 (895)
T KOG2076|consen  309 KEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLV  388 (895)
T ss_pred             hccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhh
Confidence            22 13344567777788888888888888777666511                           1222333 2222223


Q ss_pred             HHhCCCHHHHHHHHhhCCC----CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 003457          261 YTKNGALAKAKALFDSMPE----RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVG  336 (818)
Q Consensus       261 ~~~~g~~~~A~~~f~~m~~----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A  336 (818)
                      ..+.++..+++.-|-....    .+...|.-+..+|.+.|++.+|+.+|..+......-+...|..+..+|...+.+++|
T Consensus       389 ~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A  468 (895)
T KOG2076|consen  389 HLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEA  468 (895)
T ss_pred             cccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHH
Confidence            3344444444443332222    355677888888999999999999998888764444566788888888889999999


Q ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-----------CCCCHHHHHHHHHHHHHcCCHHHHH
Q 003457          337 RQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-----------WKPDVVMWGALLAACKNHGNIEVAE  405 (818)
Q Consensus       337 ~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-----------~~pd~~~~~~Li~a~~~~g~~~~A~  405 (818)
                      .+.|++++..  .+.+...--.|...|.+.|+.++|.+.++.+.           ..|+........+.+.+.|+.++-+
T Consensus       469 ~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi  546 (895)
T KOG2076|consen  469 IEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFI  546 (895)
T ss_pred             HHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHH
Confidence            9999988864  44456666778888888999999999888863           1133344444555667777777755


Q ss_pred             HHHHHH
Q 003457          406 RVVKEI  411 (818)
Q Consensus       406 ~~~~~~  411 (818)
                      .....+
T Consensus       547 ~t~~~L  552 (895)
T KOG2076|consen  547 NTASTL  552 (895)
T ss_pred             HHHHHH
Confidence            544333

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.50  E-value=3.4e-12  Score=140.44  Aligned_cols=279  Identities=14%  Similarity=0.063  Sum_probs=226.2

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC------CHHHHHHHHHHHHHcCChHHHHHH
Q 003457          130 SLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR------TLNVWTTMISGYAQSFRANEALML  203 (818)
Q Consensus       130 ~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~------d~~~~~~Li~~~~~~g~~~~A~~l  203 (818)
                      +.++|...|.++-++ +.-+..+...+..+|...+++++|+++|+.+.+.      +...|.+.+-.+.+.    -++..
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHH
Confidence            567888888885444 3435577888999999999999999999999864      566787776554332    22333


Q ss_pred             HH-HHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCCh
Q 003457          204 FD-QMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNI  282 (818)
Q Consensus       204 ~~-~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~  282 (818)
                      +. .+.+. -+-.+.+|..+.++|.-+++.+.|.+.|+++++.+ +.....|+.+..-+....++|+|...|+.....|+
T Consensus       409 Laq~Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~  486 (638)
T KOG1126|consen  409 LAQDLIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDP  486 (638)
T ss_pred             HHHHHHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc
Confidence            32 23333 25567899999999999999999999999999875 44778899999999999999999999999998666


Q ss_pred             hhHH---HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHH
Q 003457          283 ATWN---AMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCM  359 (818)
Q Consensus       283 ~~~~---~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~L  359 (818)
                      ..||   -|...|.++++++.|+-.|+++.+.++. +.+....++..+.+.|+.++|+++++++...  .+.|+..--..
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~l--d~kn~l~~~~~  563 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHL--DPKNPLCKYHR  563 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhc--CCCCchhHHHH
Confidence            6554   5677899999999999999999987544 5677778888999999999999999998875  44566666667


Q ss_pred             HHHHHHcCCHHHHHHHHHHcC-CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 003457          360 VDLLGRCGKVLEAEELIKRMV-WKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       360 i~~~~~~g~~~~A~~~~~~m~-~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                      +..+...+++++|++.+++++ ..|+ ...+..+...|.+.|+.+.|+.-|--|.+++|.-
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKG  624 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCcc
Confidence            777899999999999999994 4565 6778888899999999999999999999999983

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.50  E-value=3.7e-11  Score=134.11  Aligned_cols=248  Identities=13%  Similarity=0.026  Sum_probs=167.9

Q ss_pred             HhCCChHHHHHHHHHhhcCCHH--HH--HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHH
Q 003457          161 SVSSDLNNARQVFDEIRNRTLN--VW--TTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGE  236 (818)
Q Consensus       161 ~~~g~~~~A~~l~~~m~~~d~~--~~--~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~  236 (818)
                      .+.|+.+.|.+.|.++.+.+..  ..  -.....+...|++++|.+.++++.+.. +-+...+..+...|.+.|+++++.
T Consensus       129 ~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~  207 (398)
T PRK10747        129 QQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLL  207 (398)
T ss_pred             HHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHH
Confidence            4555555555555555442211  11  122445555566666666666655543 334445555555566666666666


Q ss_pred             HHHHHHHHcCCCCcH-------HHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHH
Q 003457          237 KVHVFVKMRGFEMGA-------ILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFR  306 (818)
Q Consensus       237 ~i~~~~~~~g~~~~~-------~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~  306 (818)
                      +++..+.+....++.       ..+..++....+..+.+...++++.+.+   .++.....+...+...|+.++|.+.++
T Consensus       208 ~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~  287 (398)
T PRK10747        208 DILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIIL  287 (398)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            666666655432111       1223334434444556667777777654   477788889999999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCH
Q 003457          307 KLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDV  385 (818)
Q Consensus       307 ~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~  385 (818)
                      +..+.  .||....  ++.+....++.+++.+..+...+.  .+.|...+..+...+.+.+++++|.+.|+++ ...|+.
T Consensus       288 ~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~  361 (398)
T PRK10747        288 DGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA  361 (398)
T ss_pred             HHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH
Confidence            98875  4454322  233444568999999999998875  5667778889999999999999999999998 567999


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIALE  415 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~  415 (818)
                      ..+..+...+.+.|+.++|.+++++.+.+-
T Consensus       362 ~~~~~La~~~~~~g~~~~A~~~~~~~l~~~  391 (398)
T PRK10747        362 YDYAWLADALDRLHKPEEAAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            998999999999999999999999987753

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.49  E-value=5.8e-11  Score=125.79  Aligned_cols=377  Identities=13%  Similarity=0.074  Sum_probs=249.4

Q ss_pred             hcCCCHHHHHHHHhhcC--CCC-HHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCChHHHH
Q 003457           60 SSSGDLSYATRLFNSIQ--SPN-HFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQH-TFTFVLKACSNVRSLNCCK  135 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~--~p~-~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~-ty~~ll~~~~~~g~~~~A~  135 (818)
                      -+.|++++|++.|.+.+  .|+ +.-|.....+|...|++++.++--.+..+  +.|+-. .+..-.+++-..|++++|+
T Consensus       126 f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALE--l~P~Y~KAl~RRA~A~E~lg~~~eal  203 (606)
T KOG0547|consen  126 FRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALE--LNPDYVKALLRRASAHEQLGKFDEAL  203 (606)
T ss_pred             hhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhh--cCcHHHHHHHHHHHHHHhhccHHHHH
Confidence            48889999999999887  477 77888888888999999988887777776  455543 5666666777777777765


Q ss_pred             HHHHHHH-HcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC---CHH-----------------------HHHHHH
Q 003457          136 QIHTHVS-KSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR---TLN-----------------------VWTTMI  188 (818)
Q Consensus       136 ~~~~~m~-~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~---d~~-----------------------~~~~Li  188 (818)
                      .=..-.. -.|+. +..+--.+=+.+-+.+ ...+.+-+.+=..+   ...                       +...+.
T Consensus       204 ~D~tv~ci~~~F~-n~s~~~~~eR~Lkk~a-~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~ksDa~l~  281 (606)
T KOG0547|consen  204 FDVTVLCILEGFQ-NASIEPMAERVLKKQA-MKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSDKSDAALA  281 (606)
T ss_pred             HhhhHHHHhhhcc-cchhHHHHHHHHHHHH-HHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCccchhhHH
Confidence            4222111 11111 1111000000110100 11111111100000   000                       111111


Q ss_pred             HHHH--HcC---ChHHHHHHHHHHHHc---CCCCC---------HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcH
Q 003457          189 SGYA--QSF---RANEALMLFDQMLME---GFEPN---------SVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGA  251 (818)
Q Consensus       189 ~~~~--~~g---~~~~A~~l~~~m~~~---g~~pd---------~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~  251 (818)
                      .++.  ..+   .+.+|...+.+-...   ...-+         ..+.......+.-.|+.-.+..-++..++... .+.
T Consensus       282 ~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~-~~~  360 (606)
T KOG0547|consen  282 EALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLDP-AFN  360 (606)
T ss_pred             HHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcCc-ccc
Confidence            1111  111   233343333332111   01111         11222222233456888999999999998763 334


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 003457          252 ILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACC  328 (818)
Q Consensus       252 ~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~  328 (818)
                      ..|-.+..+|...++.++..+.|++..+   .|+.+|..-.+.+.-.+++++|..-|++.+...+. +...|.-+.-+..
T Consensus       361 ~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe-~~~~~iQl~~a~Y  439 (606)
T KOG0547|consen  361 SLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPE-NAYAYIQLCCALY  439 (606)
T ss_pred             hHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChh-hhHHHHHHHHHHH
Confidence            4477788899999999999999998875   46778888888888889999999999999886432 5567777777777


Q ss_pred             HcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCC---------HHHHHHHHHHHHHc
Q 003457          329 HAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPD---------VVMWGALLAACKNH  398 (818)
Q Consensus       329 ~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd---------~~~~~~Li~a~~~~  398 (818)
                      +.+++++++..|+..+++  ++..+..|+.....+..++++++|.+.|+.+. ..|.         ......++. +.-.
T Consensus       440 r~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~-~qwk  516 (606)
T KOG0547|consen  440 RQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLV-LQWK  516 (606)
T ss_pred             HHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhh-hchh
Confidence            899999999999999987  77788999999999999999999999999873 3333         122222222 2245


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          399 GNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       399 g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +++..|+++++++++++|....+|..|+.+..+.|+.++|+++|+..
T Consensus       517 ~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEks  563 (606)
T KOG0547|consen  517 EDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKS  563 (606)
T ss_pred             hhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999988654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.49  E-value=6.5e-11  Score=132.11  Aligned_cols=274  Identities=9%  Similarity=0.033  Sum_probs=206.1

Q ss_pred             hCCChHHHHHHHHHhhcC--CHHHHHHH-HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH--HHHHHHHhcCChhHHH
Q 003457          162 VSSDLNNARQVFDEIRNR--TLNVWTTM-ISGYAQSFRANEALMLFDQMLMEGFEPNSVTLA--SVLSACAQSGCLELGE  236 (818)
Q Consensus       162 ~~g~~~~A~~l~~~m~~~--d~~~~~~L-i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~--~ll~~~~~~g~~~~A~  236 (818)
                      ..|++++|++.+....+.  ++..+..+ .....+.|+++.|.+.|.++.+.  .|+.....  .....+...|++++|.
T Consensus        96 ~eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            368999999888876553  23333333 45558889999999999999865  56654333  3356778899999999


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCC---Chh--------hHHHHHHHHHHcCCHHHHHHHH
Q 003457          237 KVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPER---NIA--------TWNAMISGLASHGHAEEALDLF  305 (818)
Q Consensus       237 ~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~---d~~--------~~~~Li~~~~~~g~~~~A~~l~  305 (818)
                      +.++++.+.. +.++.+...+...|.+.|++++|.+++..+.+.   +..        +|..++.......+.+...+++
T Consensus       174 ~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w  252 (398)
T PRK10747        174 HGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWW  252 (398)
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            9999999886 667788888999999999999999999888752   111        3334444444455566666677


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-
Q 003457          306 RKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-  383 (818)
Q Consensus       306 ~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-  383 (818)
                      +++-+. .+.+......+...+...|+.++|.+.+++..+.   +++....  ++.+....++.+++++..++. +..| 
T Consensus       253 ~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~  326 (398)
T PRK10747        253 KNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGD  326 (398)
T ss_pred             HhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCC
Confidence            666443 2346777788889999999999999999888753   5555332  233334569999999999887 3445 


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          384 DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       384 d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      |...+..+...|.+.+++++|.+.|+++++..|+ ...+..|+.++.+.|+.++|.++++..
T Consensus       327 ~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~-~~~~~~La~~~~~~g~~~~A~~~~~~~  387 (398)
T PRK10747        327 TPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPD-AYDYAWLADALDRLHKPEEAAAMRRDG  387 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4667888899999999999999999999999998 556778999999999999999977665

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.47  E-value=1.5e-10  Score=122.03  Aligned_cols=351  Identities=9%  Similarity=0.024  Sum_probs=236.9

Q ss_pred             CCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHH-HHHH
Q 003457           77 SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLH-VVNC  155 (818)
Q Consensus        77 ~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~  155 (818)
                      +.|..-+......+.+.|....|+..|...... .+-.=..|..|...+.   +.+    +...+.......+.. .--.
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~lit---~~e----~~~~l~~~l~~~~h~M~~~F  232 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSELIT---DIE----ILSILVVGLPSDMHWMKKFF  232 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHhhc---hHH----HHHHHHhcCcccchHHHHHH
Confidence            455555555556666777788888888776653 1212333433333322   222    222222211111111 1122


Q ss_pred             HHHHHHhCCChHHHHHHHHHhhcC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhc
Q 003457          156 LVRCYSVSSDLNNARQVFDEIRNR----TLNVWTTMISGYAQSFRANEALMLFDQMLMEGF--EPNSVTLASVLSACAQS  229 (818)
Q Consensus       156 Li~~y~~~g~~~~A~~l~~~m~~~----d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~--~pd~~t~~~ll~~~~~~  229 (818)
                      +..+|......+++..-.+.....    +...-+....+.....++|+|+.+|+++++...  --|..+|..++-.-...
T Consensus       233 ~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~  312 (559)
T KOG1155|consen  233 LKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhh
Confidence            344555555666666665555443    222223333445566788888888888877631  12556776665432221


Q ss_pred             CChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHH
Q 003457          230 GCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFR  306 (818)
Q Consensus       230 g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~  306 (818)
                      .    ...++.+-...--+-.+.+...+.+.|+-.++.++|...|++..+   .....|+.|..-|...++...|++.|+
T Consensus       313 s----kLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYR  388 (559)
T KOG1155|consen  313 S----KLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYR  388 (559)
T ss_pred             H----HHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHH
Confidence            1    112222222111123345666778888888899999999998876   345689999999999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCC--CC
Q 003457          307 KLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWK--PD  384 (818)
Q Consensus       307 ~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~--pd  384 (818)
                      ++++-.+. |-..|..|.++|.-.+...-|+-.|++..+-  -+-|...|.+|.++|.+.++.++|++.|+++..-  .+
T Consensus       389 rAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~--kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte  465 (559)
T KOG1155|consen  389 RAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALEL--KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTE  465 (559)
T ss_pred             HHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccc
Confidence            99987544 7788999999999999999999999998863  4557899999999999999999999999998422  34


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHh-------cCCCCcchHHHHHHHHHHhhchHHHHHHH
Q 003457          385 VVMWGALLAACKNHGNIEVAERVVKEIIA-------LEPNNHGVYVVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       385 ~~~~~~Li~a~~~~g~~~~A~~~~~~~~~-------~~P~~~~~y~~L~~~l~~~G~~~eA~~l~  442 (818)
                      ...+..|.+.|.+.++.++|.+.|++.++       +.|.-..+...|+.-+.+.+++++|..+-
T Consensus       466 ~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya  530 (559)
T KOG1155|consen  466 GSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYA  530 (559)
T ss_pred             hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            58899999999999999999999998887       45555667777999999999999998844

>TIGR00540 hemY_coli hemY protein

Probab=99.47  E-value=1.9e-10  Score=129.11  Aligned_cols=283  Identities=12%  Similarity=0.019  Sum_probs=145.1

Q ss_pred             ccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC--CH--HHHHHHHHHHHHcCChHHHHH
Q 003457          127 NVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR--TL--NVWTTMISGYAQSFRANEALM  202 (818)
Q Consensus       127 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~--d~--~~~~~Li~~~~~~g~~~~A~~  202 (818)
                      ..|+++.|.+.+.+..+.... ....+......+.+.|+.+.|.+.|.+..+.  +.  ...-.....+...|++++|.+
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~-~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAE-PVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            456666666666655554322 1222333445555666666666666665332  21  222234555666666666666


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHH-------HhCCCHHHHHHHHh
Q 003457          203 LFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMY-------TKNGALAKAKALFD  275 (818)
Q Consensus       203 l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~-------~~~g~~~~A~~~f~  275 (818)
                      .++++.+.. +-+...+..+...+.+.|+++++.+.+..+.+.+..........-..++       ......+...+.++
T Consensus       175 ~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~  253 (409)
T TIGR00540       175 GVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWK  253 (409)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            666666653 3344555566666666666666666666666664322221111111111       11122233344444


Q ss_pred             hCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH-HHHHHHHcCCHHHHHHHHHHHHHHhCCCC
Q 003457          276 SMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVG-VLSACCHAGFIDVGRQIFGSMKRVYGIEP  351 (818)
Q Consensus       276 ~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~-ll~a~~~~g~~~~A~~~~~~m~~~~g~~p  351 (818)
                      ...+   .+...+..+...+...|++++|.+.+++..+..+......+.. ........++.+.+.+.+++..+.  .+.
T Consensus       254 ~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~  331 (409)
T TIGR00540       254 NQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDD  331 (409)
T ss_pred             HCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCC
Confidence            4443   3566666677777777777777777777766532211111111 111122235555566666555543  222


Q ss_pred             CH--HHHHHHHHHHHHcCCHHHHHHHHHH--c-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 003457          352 KI--EHYGCMVDLLGRCGKVLEAEELIKR--M-VWKPDVVMWGALLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       352 ~~--~~~~~Li~~~~~~g~~~~A~~~~~~--m-~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                      |.  ....++...+.+.|++++|.+.|++  + ...|+...+..+...+.+.|+.++|.+++++.+.
T Consensus       332 ~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       332 KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            23  4445556666666666666666662  2 2345555555666666666666666666665543

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>TIGR00540 hemY_coli hemY protein

Probab=99.45  E-value=1.2e-10  Score=130.72  Aligned_cols=292  Identities=13%  Similarity=-0.002  Sum_probs=209.2

Q ss_pred             HHHHHHHHH--HhCCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003457           82 MWNTLIRAQ--ASSLNPDKAIFLYMNMRRTGFAPNQH-TFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVR  158 (818)
Q Consensus        82 ~yn~Li~~~--~~~g~~~~Al~lf~~m~~~g~~pd~~-ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~  158 (818)
                      .+..+.++.  ...|+++.|.+.+.+..+.  .|+.. .+.....+..+.|+.+.+.+.+.++.+....+...+......
T Consensus        84 ~~~~~~~glla~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~  161 (409)
T TIGR00540        84 AQKQTEEALLKLAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTR  161 (409)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHH
Confidence            344455544  3578999999999887664  34433 445556778888999999999999877654433345555678


Q ss_pred             HHHhCCChHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH-HHHHHH---HhcCC
Q 003457          159 CYSVSSDLNNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLA-SVLSAC---AQSGC  231 (818)
Q Consensus       159 ~y~~~g~~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~-~ll~~~---~~~g~  231 (818)
                      .+...|+++.|.+.++++.+.   +...+..+...+.+.|++++|.+.+.++.+.++. +...+. ....++   ...+.
T Consensus       162 l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~  240 (409)
T TIGR00540       162 ILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAM  240 (409)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence            888899999999999988763   6667888999999999999999999999988643 333332 111221   22222


Q ss_pred             hhHHHHHHHHHHHcCC---CCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CChhh---HHHHHHHHHHcCCHHHHHH
Q 003457          232 LELGEKVHVFVKMRGF---EMGAILGTALVHMYTKNGALAKAKALFDSMPE--RNIAT---WNAMISGLASHGHAEEALD  303 (818)
Q Consensus       232 ~~~A~~i~~~~~~~g~---~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d~~~---~~~Li~~~~~~g~~~~A~~  303 (818)
                      .+++...+..+.+...   +.+...+..++..+...|+.++|.+++++..+  ||...   ...........++.+++++
T Consensus       241 ~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~  320 (409)
T TIGR00540       241 ADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEK  320 (409)
T ss_pred             HhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHH
Confidence            3333345555554421   23778888899999999999999999998876  33321   1222223344578888999


Q ss_pred             HHHHHHHcCCCCC-H--HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc
Q 003457          304 LFRKLEKEQIVPN-D--ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       304 l~~~m~~~g~~pd-~--~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                      .+++..+.  .|+ .  .....+...|.+.|++++|.+.|+..... ...|+...+..+...+.+.|+.++|.+++++.
T Consensus       321 ~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~-~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       321 LIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAAC-KEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHh-hcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99888876  333 3  45668889999999999999999953332 45789888999999999999999999999875

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.44  E-value=2.2e-10  Score=115.83  Aligned_cols=285  Identities=12%  Similarity=0.110  Sum_probs=163.9

Q ss_pred             CCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhCCChHHH
Q 003457           93 SLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLD---LHVVNCLVRCYSVSSDLNNA  169 (818)
Q Consensus        93 ~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~Li~~y~~~g~~~~A  169 (818)
                      +++.++|+++|-+|.+.... +..+..+|.+.|.+.|..+.|+++++.+.+..--+.   ......|..-|.+.|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~-t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            46788999999999885333 455667788888899999999999998887532111   12445566777888888888


Q ss_pred             HHHHHHhhcCCH---HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH----HHHHHHHHHHhcCChhHHHHHHHHH
Q 003457          170 RQVFDEIRNRTL---NVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSV----TLASVLSACAQSGCLELGEKVHVFV  242 (818)
Q Consensus       170 ~~l~~~m~~~d~---~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~----t~~~ll~~~~~~g~~~~A~~i~~~~  242 (818)
                      +++|..+.+.+.   .+...|+..|...++|++|++.-+++.+.+-.+...    .|..+...+....+.+.|...+.+.
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            888888776432   356677788888888888888887777665333322    1222222333334444444444444


Q ss_pred             HHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 003457          243 KMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVG  322 (818)
Q Consensus       243 ~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~  322 (818)
                      .+.+ +..+.                               .--.+...+...|+++.|++.++...+.++.--..+...
T Consensus       207 lqa~-~~cvR-------------------------------Asi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~  254 (389)
T COG2956         207 LQAD-KKCVR-------------------------------ASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEM  254 (389)
T ss_pred             HhhC-cccee-------------------------------hhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHH
Confidence            4432 11222                               222334455555666666666666555533323344455


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHH-HHcCCCCCHHHHHHHHHHHH---Hc
Q 003457          323 VLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELI-KRMVWKPDVVMWGALLAACK---NH  398 (818)
Q Consensus       323 ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~-~~m~~~pd~~~~~~Li~a~~---~~  398 (818)
                      |..+|.+.|+.+++...+..+.+.   .+....-..+.+.-....-.+.|...+ +.+..+|+...+..|+..-.   ..
T Consensus       255 L~~~Y~~lg~~~~~~~fL~~~~~~---~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~daee  331 (389)
T COG2956         255 LYECYAQLGKPAEGLNFLRRAMET---NTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAEE  331 (389)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHc---cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhccccc
Confidence            556666666666666666655543   333334444444444444444444433 33455666666666665432   23


Q ss_pred             CCHHHHHHHHHHHHh
Q 003457          399 GNIEVAERVVKEIIA  413 (818)
Q Consensus       399 g~~~~A~~~~~~~~~  413 (818)
                      |...+.+..++.|+.
T Consensus       332 g~~k~sL~~lr~mvg  346 (389)
T COG2956         332 GRAKESLDLLRDMVG  346 (389)
T ss_pred             cchhhhHHHHHHHHH
Confidence            334555555555554

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.43  E-value=1.2e-09  Score=118.29  Aligned_cols=395  Identities=10%  Similarity=0.043  Sum_probs=280.7

Q ss_pred             CCCChHHHHHHHHHhhhhcCCCHHHHHHHHhh--cCCCCHHHHHHHHHHHHhCCChhHHHHHHH----HHHHc-------
Q 003457           43 RIQDHFAASRLLAFCALSSSGDLSYATRLFNS--IQSPNHFMWNTLIRAQASSLNPDKAIFLYM----NMRRT-------  109 (818)
Q Consensus        43 ~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~--~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~----~m~~~-------  109 (818)
                      +..|+.-.--+..++  .-.++++.|..+...  +.+.|..+.......+.+..++++|+.++.    .+...       
T Consensus        45 l~~dp~d~~~~aq~l--~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~  122 (611)
T KOG1173|consen   45 LTNDPADIYWLAQVL--YLGRQYERAAHLITTYKLEKRDIACRYLAAKCLVKLKEWDQALLVLGRGHVETNPFSYYEKDA  122 (611)
T ss_pred             ccCChHHHHHHHHHH--HhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhcccchhhcchhhcchhh
Confidence            334444434445555  567888888888764  457899999999999999999999999988    22110       


Q ss_pred             --CCCCCHHH----HHHHH-------HHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh--------------
Q 003457          110 --GFAPNQHT----FTFVL-------KACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSV--------------  162 (818)
Q Consensus       110 --g~~pd~~t----y~~ll-------~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~--------------  162 (818)
                        -+.+|..-    -+.-.       ..|....+.++|+..+.+.+...+. ....+..|+....-              
T Consensus       123 ~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~D~~-c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~  201 (611)
T KOG1173|consen  123 ANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLADAK-CFEAFEKLVSAHMLTAQEEFELLESLDL  201 (611)
T ss_pred             hceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhcchh-hHHHHHHHHHHHhcchhHHHHHHhcccH
Confidence              01111111    11111       2234455677788887777665433 11222222221111              


Q ss_pred             ---CC-ChHHHHHHHHHhh----c----------------CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH
Q 003457          163 ---SS-DLNNARQVFDEIR----N----------------RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVT  218 (818)
Q Consensus       163 ---~g-~~~~A~~l~~~m~----~----------------~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t  218 (818)
                         .+ +.+.-+.+|+-..    .                .++...-....-+....++.+..++++...+.. ++....
T Consensus       202 a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~  280 (611)
T KOG1173|consen  202 AMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPC  280 (611)
T ss_pred             HhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcch
Confidence               01 1111122222110    0                123334445566778899999999999998874 667777


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCC---hhhHHHHHHHHHHc
Q 003457          219 LASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERN---IATWNAMISGLASH  295 (818)
Q Consensus       219 ~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d---~~~~~~Li~~~~~~  295 (818)
                      +..-|.++...|+..+-..+-..+++.- |..+.+|-++.-.|.-.|+..+|.+.|.+...-|   ...|-.+...|+-.
T Consensus       281 ~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e  359 (611)
T KOG1173|consen  281 LPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGE  359 (611)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhc
Confidence            7777778888998888887777888763 6677888889998988999999999999877533   45899999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 003457          296 GHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEEL  375 (818)
Q Consensus       296 g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~  375 (818)
                      +..|+|+..|..+-+.= +-...-+.-+..-|.+.++.+.|.+.|.+....  .+-|+...+-+.-.....+.+.+|..+
T Consensus       360 ~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai--~P~Dplv~~Elgvvay~~~~y~~A~~~  436 (611)
T KOG1173|consen  360 GEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAI--APSDPLVLHELGVVAYTYEEYPEALKY  436 (611)
T ss_pred             chHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHHHHHHHHHhc--CCCcchhhhhhhheeehHhhhHHHHHH
Confidence            99999999998876641 111122333455688899999999999998864  555678888888888889999999999


Q ss_pred             HHHcC--------CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          376 IKRMV--------WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       376 ~~~m~--------~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      |+...        .++ =..+++.|+.+|.+.+++++|+..+++++.+.|.+.++|..++-+|...|+++.|.+.+...
T Consensus       437 f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKa  515 (611)
T KOG1173|consen  437 FQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKA  515 (611)
T ss_pred             HHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            98873        111 24578999999999999999999999999999999999999999999999999999966444

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.40  E-value=1.5e-12  Score=138.52  Aligned_cols=253  Identities=12%  Similarity=0.066  Sum_probs=65.8

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Q 003457           87 IRAQASSLNPDKAIFLYMNMRRTGFAPNQ-HTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSD  165 (818)
Q Consensus        87 i~~~~~~g~~~~Al~lf~~m~~~g~~pd~-~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~  165 (818)
                      ...+.+.|++++|++++++.......|+. ..+..+...+...++.+.|++.++++++.+.. +...+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccccc
Confidence            44445555555555555433322212222 23333333444455555555555555554322 33344444444 45555


Q ss_pred             hHHHHHHHHHhhc--CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 003457          166 LNNARQVFDEIRN--RTLNVWTTMISGYAQSFRANEALMLFDQMLMEG-FEPNSVTLASVLSACAQSGCLELGEKVHVFV  242 (818)
Q Consensus       166 ~~~A~~l~~~m~~--~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g-~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~  242 (818)
                      .++|.+++.+.-+  ++...+..++..+.+.++++++.++++++.+.. .+.+...|..+...+.+.|+.++|.+.++++
T Consensus        93 ~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~a  172 (280)
T PF13429_consen   93 PEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKA  172 (280)
T ss_dssp             -------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5555555544422  233344445555555555555555555544321 1234444455555555555555565555555


Q ss_pred             HHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH
Q 003457          243 KMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDIT  319 (818)
Q Consensus       243 ~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t  319 (818)
                      ++.. |.+..+...++..+...|+.+++.++++...+   .|...|..+..+|...|+.++|+..|++..+.. +.|...
T Consensus       173 l~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~  250 (280)
T PF13429_consen  173 LELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLW  250 (280)
T ss_dssp             HHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHH
T ss_pred             HHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccc-cccccc
Confidence            5553 33344555555555555555554444443332   344445555555555555555555555555432 124444


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          320 FVGVLSACCHAGFIDVGRQIFGSM  343 (818)
Q Consensus       320 ~~~ll~a~~~~g~~~~A~~~~~~m  343 (818)
                      ...+..++...|+.++|.++.+++
T Consensus       251 ~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  251 LLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHHT---------------
T ss_pred             cccccccccccccccccccccccc
Confidence            445555555555555555555443

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.38  E-value=4.3e-10  Score=113.76  Aligned_cols=286  Identities=12%  Similarity=0.074  Sum_probs=191.5

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC-CHH------HHHHHHHHHHHcCChHHH
Q 003457          128 VRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR-TLN------VWTTMISGYAQSFRANEA  200 (818)
Q Consensus       128 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~-d~~------~~~~Li~~~~~~g~~~~A  200 (818)
                      .++.++|...|-+|.+.... +..+..+|.+.|-+.|..|.|+++-+.+.++ |..      +...|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~-t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            35667777777777764322 4455666777777777777777777766543 322      344566667777777777


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCC
Q 003457          201 LMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPER  280 (818)
Q Consensus       201 ~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~  280 (818)
                      +.+|..+.+.+ .--......|+..|....++++|..+-+++.+.+..+...   .+..                     
T Consensus       127 E~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~---eIAq---------------------  181 (389)
T COG2956         127 EDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRV---EIAQ---------------------  181 (389)
T ss_pred             HHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchh---HHHH---------------------
Confidence            77777776544 2233455566666766777777776666666654322211   1223                     


Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Q 003457          281 NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMV  360 (818)
Q Consensus       281 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li  360 (818)
                         .|.-|...+....+.++|..++.+..+...+ ....-..+.+.....|+++.|.+.++.+.+. +..--..+...|.
T Consensus       182 ---fyCELAq~~~~~~~~d~A~~~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ-n~~yl~evl~~L~  256 (389)
T COG2956         182 ---FYCELAQQALASSDVDRARELLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQ-NPEYLSEVLEMLY  256 (389)
T ss_pred             ---HHHHHHHHHhhhhhHHHHHHHHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHh-ChHHHHHHHHHHH
Confidence               3444666677788999999999999886433 2333345668899999999999999998876 2222357788999


Q ss_pred             HHHHHcCCHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH-H--hhchH
Q 003457          361 DLLGRCGKVLEAEELIKRM-VWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA-E--AESMK  436 (818)
Q Consensus       361 ~~~~~~g~~~~A~~~~~~m-~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~-~--~G~~~  436 (818)
                      .+|...|+.++.+..+.++ ...+....-..+...-....-.+.|...+.+-+..+|+ ...+..|++... +  -|+.+
T Consensus       257 ~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt-~~gf~rl~~~~l~daeeg~~k  335 (389)
T COG2956         257 ECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPT-MRGFHRLMDYHLADAEEGRAK  335 (389)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCc-HHHHHHHHHhhhccccccchh
Confidence            9999999999999999887 44566666666666555566688888889888999998 555555555543 3  34456


Q ss_pred             HHHHHHHHH
Q 003457          437 MQLEILLVQ  445 (818)
Q Consensus       437 eA~~l~~~~  445 (818)
                      +-..+++.|
T Consensus       336 ~sL~~lr~m  344 (389)
T COG2956         336 ESLDLLRDM  344 (389)
T ss_pred             hhHHHHHHH
Confidence            555544443

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.37  E-value=1.7e-08  Score=106.82  Aligned_cols=411  Identities=10%  Similarity=0.098  Sum_probs=304.8

Q ss_pred             CChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 003457           45 QDHFAASRLLAFCALSSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFV  121 (818)
Q Consensus        45 ~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~l  121 (818)
                      .+...|-.....-  ..++++..|..+|++...   .+...|-.-+..=.++.....|..++++.+..=...|. .+--.
T Consensus        71 ~~~~~WikYaqwE--esq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdq-lWyKY  147 (677)
T KOG1915|consen   71 LNMQVWIKYAQWE--ESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQ-LWYKY  147 (677)
T ss_pred             HHHHHHHHHHHHH--HhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHH-HHHHH
Confidence            3444555555555  567889999999999874   56777878888888999999999999998874333333 33333


Q ss_pred             HHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhh--cCCHHHHHHHHHHHHHcCChHH
Q 003457          122 LKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIR--NRTLNVWTTMISGYAQSFRANE  199 (818)
Q Consensus       122 l~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~--~~d~~~~~~Li~~~~~~g~~~~  199 (818)
                      +..=-..|++..|.++|..-.+  ..|+...|++.|+.-.+-+.++.|..++++..  .|++.+|--..+.-.++|+...
T Consensus       148 ~ymEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~  225 (677)
T KOG1915|consen  148 IYMEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVAL  225 (677)
T ss_pred             HHHHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHH
Confidence            4444467999999999999877  68999999999999999999999999999865  5788889888888899999999


Q ss_pred             HHHHHHHHHHc-CC-CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc--HHHHHHHHHHHHhCCCHHHHHHHH-
Q 003457          200 ALMLFDQMLME-GF-EPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMG--AILGTALVHMYTKNGALAKAKALF-  274 (818)
Q Consensus       200 A~~l~~~m~~~-g~-~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~--~~~~~~Li~~~~~~g~~~~A~~~f-  274 (818)
                      |..+|....+. |- ..+...+.+...--.++..++.|.-+|..++.. ++.+  ...|..+...--+-|+........ 
T Consensus       226 aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv  304 (677)
T KOG1915|consen  226 ARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIV  304 (677)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHh
Confidence            99999988764 10 112223333444344677788999999988876 3333  456666666666667655444332 


Q ss_pred             -------hhCCCC---ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHH---HHcCCHH
Q 003457          275 -------DSMPER---NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPND-------ITFVGVLSAC---CHAGFID  334 (818)
Q Consensus       275 -------~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~-------~t~~~ll~a~---~~~g~~~  334 (818)
                             +.+.+.   |-.+|.-.+..--..|+.+...++|++.+.. ++|-.       ..|..+=-+|   ....+.+
T Consensus       305 ~KRk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~e  383 (677)
T KOG1915|consen  305 GKRKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVE  383 (677)
T ss_pred             hhhhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence                   222222   5567777777778889999999999999876 44422       1222221122   3468999


Q ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHH----HHHHHHcCCHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 003457          335 VGRQIFGSMKRVYGIEPKIEHYGCM----VDLLGRCGKVLEAEELIKRM-VWKPDVVMWGALLAACKNHGNIEVAERVVK  409 (818)
Q Consensus       335 ~A~~~~~~m~~~~g~~p~~~~~~~L----i~~~~~~g~~~~A~~~~~~m-~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~  409 (818)
                      .+.++|+..++.  ++....++.-+    ..-..++.+...|.+++-.+ +.-|-..+|...|..-.+.+++|....+|+
T Consensus       384 rtr~vyq~~l~l--IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYE  461 (677)
T KOG1915|consen  384 RTRQVYQACLDL--IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYE  461 (677)
T ss_pred             HHHHHHHHHHhh--cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHH
Confidence            999999998875  55555555544    34445889999999999887 566899999999998899999999999999


Q ss_pred             HHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH--------HHHHHHhhhhcccCCCCC
Q 003457          410 EIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV--------LFAGLASAADILQNPDFE  464 (818)
Q Consensus       410 ~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~--------~ll~~~~~~~~~~~~~~~  464 (818)
                      +.++-.|.+..+|...+.+-...|+.|.|..+++..+        -++|-.-++--.+.++++
T Consensus       462 kfle~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~e  524 (677)
T KOG1915|consen  462 KFLEFSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFE  524 (677)
T ss_pred             HHHhcChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHH
Confidence            9999999999999999999999999999999987764        355555544334444444

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.36  E-value=2.3e-09  Score=119.90  Aligned_cols=398  Identities=16%  Similarity=0.095  Sum_probs=272.4

Q ss_pred             hCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCC-CHH
Q 003457           41 SSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAP-NQH  116 (818)
Q Consensus        41 ~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~p-d~~  116 (818)
                      ..+.-|..+|.+|.-..  .++|+++.+-+.|++...   .....|+.+-..|...|.-..|+.+++.-....-.| |..
T Consensus       317 ~~~qnd~ai~d~Lt~al--~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s  394 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFAL--SRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDIS  394 (799)
T ss_pred             hhhcchHHHHHHHHHHH--HHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcch
Confidence            34557899999988666  999999999999998764   566789999999999999999999998876544334 444


Q ss_pred             HHHHHHHHHHc-cCChHHHHHHHHHHHHc--CC--CCCHHHHHHHHHHHHhC-----------CChHHHHHHHHHhhcC-
Q 003457          117 TFTFVLKACSN-VRSLNCCKQIHTHVSKS--GL--DLDLHVVNCLVRCYSVS-----------SDLNNARQVFDEIRNR-  179 (818)
Q Consensus       117 ty~~ll~~~~~-~g~~~~A~~~~~~m~~~--g~--~p~~~~~~~Li~~y~~~-----------g~~~~A~~l~~~m~~~-  179 (818)
                      .+...-+.|.+ .+..+++..+..+++..  +.  ......|..+.-+|...           ....++.+.+++..+. 
T Consensus       395 ~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d  474 (799)
T KOG4162|consen  395 VLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD  474 (799)
T ss_pred             HHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC
Confidence            55555566654 47778888877777762  11  11234455555555431           1245567777777553 


Q ss_pred             --CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHH
Q 003457          180 --TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTAL  257 (818)
Q Consensus       180 --d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~L  257 (818)
                        |+.+...+.--|+..++.+.|++..++.++.+-.-+...|..+...+...+++.+|+.+.+.....- +.|......-
T Consensus       475 ~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~-~~N~~l~~~~  553 (799)
T KOG4162|consen  475 PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF-GDNHVLMDGK  553 (799)
T ss_pred             CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh-hhhhhhchhh
Confidence              5555556667788889999999999999988657788888888888889999999999988877641 1111111111


Q ss_pred             HHHHHhCCCHHHHHHHHhhCCC--------------------------------CChhhHHHHHHHHHHcCCHHHHHHHH
Q 003457          258 VHMYTKNGALAKAKALFDSMPE--------------------------------RNIATWNAMISGLASHGHAEEALDLF  305 (818)
Q Consensus       258 i~~~~~~g~~~~A~~~f~~m~~--------------------------------~d~~~~~~Li~~~~~~g~~~~A~~l~  305 (818)
                      ++.-...++.++|......+..                                ..+.++..+.......+  +.+..-.
T Consensus       554 ~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~--~~~~se~  631 (799)
T KOG4162|consen  554 IHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQL--KSAGSEL  631 (799)
T ss_pred             hhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhh--hhccccc
Confidence            2222233444444333222210                                01122222222111110  0000000


Q ss_pred             HHHHHcCC--CCCH------HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 003457          306 RKLEKEQI--VPND------ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIK  377 (818)
Q Consensus       306 ~~m~~~g~--~pd~------~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~  377 (818)
                      . |.....  .|+.      ..+......+.+.+..++|..++.+..+.  .+.....|......+...|++++|.+.|.
T Consensus       632 ~-Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~--~~l~~~~~~~~G~~~~~~~~~~EA~~af~  708 (799)
T KOG4162|consen  632 K-LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI--DPLSASVYYLRGLLLEVKGQLEEAKEAFL  708 (799)
T ss_pred             c-cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc--chhhHHHHHHhhHHHHHHHhhHHHHHHHH
Confidence            0 111111  2232      12334456778888999999888887754  45567788888889999999999999998


Q ss_pred             Hc-CCCCC-HHHHHHHHHHHHHcCCHHHHHH--HHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          378 RM-VWKPD-VVMWGALLAACKNHGNIEVAER--VVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       378 ~m-~~~pd-~~~~~~Li~a~~~~g~~~~A~~--~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .+ ...|+ +....++...+.+.|+..-|..  +++.+++++|.++++|..++.++.+.|+.++|-+.|....
T Consensus       709 ~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~  781 (799)
T KOG4162|consen  709 VALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAAL  781 (799)
T ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHH
Confidence            87 46675 7888999999999998887777  9999999999999999999999999999999999888774

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.35  E-value=4.4e-08  Score=103.71  Aligned_cols=391  Identities=9%  Similarity=0.098  Sum_probs=270.6

Q ss_pred             chHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcC--CCCHHHHHHHHHHHHhCCChhHHHHHHHH
Q 003457           28 MHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQ--SPNHFMWNTLIRAQASSLNPDKAIFLYMN  105 (818)
Q Consensus        28 ~~~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~--~p~~~~yn~Li~~~~~~g~~~~Al~lf~~  105 (818)
                      ...++.+++..+..-..-|..-| ..+-|-  -..|++..|.++|++-.  +|+...|++.|+.=.+-+..+.|..+|++
T Consensus       123 vNhARNv~dRAvt~lPRVdqlWy-KY~ymE--E~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYer  199 (677)
T KOG1915|consen  123 VNHARNVWDRAVTILPRVDQLWY-KYIYME--EMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYER  199 (677)
T ss_pred             HhHHHHHHHHHHHhcchHHHHHH-HHHHHH--HHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            34456677766654433344333 333344  56688888888888754  68888899888888888888888888888


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHc-CC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC---C
Q 003457          106 MRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKS-GL-DLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR---T  180 (818)
Q Consensus       106 m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~-g~-~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~---d  180 (818)
                      .+-  ++|+..+|....+-=.+.|+...+..+|..+++. |- ..+...+.+....-.++..++.|.-+|+-..+.   +
T Consensus       200 fV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~  277 (677)
T KOG1915|consen  200 FVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKG  277 (677)
T ss_pred             Hhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcc
Confidence            876  5688888888888778888888888888887764 21 112334555555555677788888777655432   1


Q ss_pred             --HHHHHHHHHHHHHcCChHHHHH--------HHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc
Q 003457          181 --LNVWTTMISGYAQSFRANEALM--------LFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMG  250 (818)
Q Consensus       181 --~~~~~~Li~~~~~~g~~~~A~~--------l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~  250 (818)
                        ...|..+...--+-|+-.....        -|++++..+ +-|-.+|--.++.-...|+.+...++|++++..- +|-
T Consensus       278 raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanv-pp~  355 (677)
T KOG1915|consen  278 RAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANV-PPA  355 (677)
T ss_pred             cHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccC-Cch
Confidence              2234444333333344333222        234444443 5677778777887778899999999999998763 442


Q ss_pred             H-------HHHHHH---HHHHHhCCCHHHHHHHHhhCCC--C-Chh----hHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Q 003457          251 A-------ILGTAL---VHMYTKNGALAKAKALFDSMPE--R-NIA----TWNAMISGLASHGHAEEALDLFRKLEKEQI  313 (818)
Q Consensus       251 ~-------~~~~~L---i~~~~~~g~~~~A~~~f~~m~~--~-d~~----~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~  313 (818)
                      .       .+|.-+   +-.-....+.+.+.++|+...+  | ...    .|.....--.++.+...|.+++...+  |.
T Consensus       356 ~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~  433 (677)
T KOG1915|consen  356 SEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GK  433 (677)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--cc
Confidence            1       111111   1112356788888888887765  2 222    34444445567788999998888766  45


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCC----HHHHH
Q 003457          314 VPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPD----VVMWG  389 (818)
Q Consensus       314 ~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd----~~~~~  389 (818)
                      .|-..+|...|..-.+.++++.+..+|++.++-  -+-|..+|......=...|+.+.|..+|+-+...|.    ...|.
T Consensus       434 cPK~KlFk~YIelElqL~efDRcRkLYEkfle~--~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwk  511 (677)
T KOG1915|consen  434 CPKDKLFKGYIELELQLREFDRCRKLYEKFLEF--SPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWK  511 (677)
T ss_pred             CCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhc--ChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHH
Confidence            788888988898888999999999999998863  445678888888888889999999999998865553    45677


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          390 ALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       390 ~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      +.|+--...|.+++|..+|++.++..+. ...|...+..-.
T Consensus       512 aYIdFEi~~~E~ekaR~LYerlL~rt~h-~kvWisFA~fe~  551 (677)
T KOG1915|consen  512 AYIDFEIEEGEFEKARALYERLLDRTQH-VKVWISFAKFEA  551 (677)
T ss_pred             HhhhhhhhcchHHHHHHHHHHHHHhccc-chHHHhHHHHhc
Confidence            7777667889999999999999988776 447776665544

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.33  E-value=1.2e-08  Score=106.63  Aligned_cols=344  Identities=13%  Similarity=0.137  Sum_probs=194.8

Q ss_pred             hHHHHHHHHhcCc---hHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcC----CCCHHHHHHHHH
Q 003457           16 PPLSLLADKCKSM---HQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQ----SPNHFMWNTLIR   88 (818)
Q Consensus        16 ~tl~~ll~~c~~~---~~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~----~p~~~~yn~Li~   88 (818)
                      .|++.++.+.+..   +.++.++........+.+..++|.+|.+-.|.+-      .++..+|.    .||..++|++++
T Consensus       208 et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~------K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  208 ETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG------KKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             hhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc------HHHHHHHHHhhcCCchHhHHHHHH
Confidence            4666666664433   3345555555555566677777777766644332      33444443    577777888877


Q ss_pred             HHHhCCChhH----HHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHH-HHHHHHHHHHc----CCCC----CHHHHHH
Q 003457           89 AQASSLNPDK----AIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNC-CKQIHTHVSKS----GLDL----DLHVVNC  155 (818)
Q Consensus        89 ~~~~~g~~~~----Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~-A~~~~~~m~~~----g~~p----~~~~~~~  155 (818)
                      +..+.|+++.    |++++.+|++-|+.|...+|..+|..+.+.++..+ +..++.++...    .++|    |...+..
T Consensus       282 c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~  361 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQS  361 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHH
Confidence            7777776653    45666777777777777777777777777666543 33333333221    1211    3445666


Q ss_pred             HHHHHHhCCChHHHHHHHHHhhcC--------CH---HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003457          156 LVRCYSVSSDLNNARQVFDEIRNR--------TL---NVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLS  224 (818)
Q Consensus       156 Li~~y~~~g~~~~A~~l~~~m~~~--------d~---~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  224 (818)
                      .+..|.+..+.+-|.++-.-+...        +.   .-|..+....++....+.-+..|+.|.-.-+-|+..+...+++
T Consensus       362 AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lr  441 (625)
T KOG4422|consen  362 AMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLR  441 (625)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHH
Confidence            667777777777777765554431        11   1244555566666677777777777766656677777777777


Q ss_pred             HHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHH--cCCHHHHH
Q 003457          225 ACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLAS--HGHAEEAL  302 (818)
Q Consensus       225 ~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~--~g~~~~A~  302 (818)
                      +....++++-..+++..++..|.........-++..+++.+            ..|+...-..+-....+  ..-.+...
T Consensus       442 A~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k------------~hp~tp~r~Ql~~~~ak~aad~~e~~e  509 (625)
T KOG4422|consen  442 ALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK------------LHPLTPEREQLQVAFAKCAADIKEAYE  509 (625)
T ss_pred             HHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC------------CCCCChHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777777776653333332222222222221            01111111111111111  11111122


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHH---HHHHHHHHcCCHHHHHHHHHHc
Q 003457          303 DLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYG---CMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       303 ~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~---~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                      ..-.+|.+..  -.....+.++..+.+.|+.++|.+++..+.+...--|-....+   -+++.-.+.+....|..+++-|
T Consensus       510 ~~~~R~r~~~--~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  510 SQPIRQRAQD--WPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             hhHHHHHhcc--CChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            2233444443  3344566666677788888888888887755433333333344   4455556677788888888777

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.33  E-value=6.3e-09  Score=108.71  Aligned_cols=278  Identities=15%  Similarity=0.062  Sum_probs=156.3

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC----CHHHHHHHHHHHHHcCChHHHHHH
Q 003457          128 VRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR----TLNVWTTMISGYAQSFRANEALML  203 (818)
Q Consensus       128 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~----d~~~~~~Li~~~~~~g~~~~A~~l  203 (818)
                      .|++.+|++...+-.+++..| ...|..-+.+--+.||.+.|-+++.+..+.    +...+-+..+.....|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            356666666655555554332 223333444455556666666666555543    222344455555566666666666


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcH-------HHHHHHHHHHHhCCCHHHHHHHHhh
Q 003457          204 FDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGA-------ILGTALVHMYTKNGALAKAKALFDS  276 (818)
Q Consensus       204 ~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~-------~~~~~Li~~~~~~g~~~~A~~~f~~  276 (818)
                      +.++.+.+ +-+.........+|.+.|++.....++..+.+.+.-.+.       .++..+++=....+..+.-...++.
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            66655553 334444555556666666666666666666665543332       2333344433333444444445555


Q ss_pred             CCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCH
Q 003457          277 MPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKI  353 (818)
Q Consensus       277 m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~  353 (818)
                      ...   .++..-.+++.-+.+.|+.++|.++.++..+++..|.   . ...-.+.+.++.+.-++..++..+.  .+.++
T Consensus       255 ~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L-~~~~~~l~~~d~~~l~k~~e~~l~~--h~~~p  328 (400)
T COG3071         255 QPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---L-CRLIPRLRPGDPEPLIKAAEKWLKQ--HPEDP  328 (400)
T ss_pred             ccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---H-HHHHhhcCCCCchHHHHHHHHHHHh--CCCCh
Confidence            543   3555666666677777777777777777776655544   1 1122345556666666666665554  23333


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 003457          354 EHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDVVMWGALLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       354 ~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                      ..+..|...|.+.+.|.+|.+.|+.. ..+|+..+|+-+.+++.+.|+.++|.+++++.+.
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            56666666677777777777777655 4556667777777777777777777776666553

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.30  E-value=6.7e-10  Score=113.55  Aligned_cols=195  Identities=15%  Similarity=0.034  Sum_probs=156.7

Q ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457          250 GAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA  326 (818)
Q Consensus       250 ~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  326 (818)
                      ....+..+...|.+.|++++|.+.++++.+   .+...+..+...|...|++++|.+.+++..+.... +...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHH
Confidence            345666777788888888888888877654   34567777888888899999999999988876433 55677778888


Q ss_pred             HHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHH
Q 003457          327 CCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVA  404 (818)
Q Consensus       327 ~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A  404 (818)
                      +...|++++|.+.++++.+....+.....+..+...+...|++++|.+.|++. ...| +...+..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            88999999999999998764222334567777888899999999999999887 2334 467788888899999999999


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          405 ERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       405 ~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .+.++++++..|+++..+..++.++.+.|+.++|.++.+.+
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  229 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQL  229 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            99999999988888888889999999999999999876655

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.26  E-value=5.8e-09  Score=110.87  Aligned_cols=335  Identities=11%  Similarity=0.037  Sum_probs=214.0

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 003457           83 WNTLIRAQASSLNPDKAIFLYMNMRRTGFAPN-QHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYS  161 (818)
Q Consensus        83 yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd-~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~  161 (818)
                      +.....-|.++|++++|+++|.+.++  ..|| ...|......|...|+++++.+.-.+.++.++. -...+..-.+++-
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~--l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~-Y~KAl~RRA~A~E  194 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIE--LCPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPD-YVKALLRRASAHE  194 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHh--cCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcH-HHHHHHHHHHHHH
Confidence            44455667788899999999999887  5667 778888888888899999888887777765322 2335555666777


Q ss_pred             hCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCCh--------HHHHHHHHHHHH-cC--CCCCHHHHHHHHHHHHhc-
Q 003457          162 VSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRA--------NEALMLFDQMLM-EG--FEPNSVTLASVLSACAQS-  229 (818)
Q Consensus       162 ~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~--------~~A~~l~~~m~~-~g--~~pd~~t~~~ll~~~~~~-  229 (818)
                      ..|++++|+.-..-+         .+...+....-.        ..|..-.++-.+ .+  +-|+.....+....+... 
T Consensus       195 ~lg~~~eal~D~tv~---------ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~  265 (606)
T KOG0547|consen  195 QLGKFDEALFDVTVL---------CILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADP  265 (606)
T ss_pred             hhccHHHHHHhhhHH---------HHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccc
Confidence            777877775432211         111111111111        122222222222 12  234443333333322110 


Q ss_pred             -----CChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhC-CCHHHHHHHHhhCC-------C---CC------hhhHHH
Q 003457          230 -----GCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKN-GALAKAKALFDSMP-------E---RN------IATWNA  287 (818)
Q Consensus       230 -----g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~-g~~~~A~~~f~~m~-------~---~d------~~~~~~  287 (818)
                           ...+++...+              -..+=..+... ..+.+|...+.+-.       .   .|      ..+.+.
T Consensus       266 ~~~~~~~~~ksDa~l--------------~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~  331 (606)
T KOG0547|consen  266 KPLFDNKSDKSDAAL--------------AEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLL  331 (606)
T ss_pred             cccccCCCccchhhH--------------HHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHH
Confidence                 0011111111              11111111110 12333333322211       1   11      122222


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC
Q 003457          288 MISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCG  367 (818)
Q Consensus       288 Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g  367 (818)
                      -..-+.-.|+.-.|..-|+..++....++.. |.-+..+|....+.++..+.|.+..+.  .+-|..+|..-.+++.-.+
T Consensus       332 ~gtF~fL~g~~~~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~l--dp~n~dvYyHRgQm~flL~  408 (606)
T KOG0547|consen  332 RGTFHFLKGDSLGAQEDFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAEDL--DPENPDVYYHRGQMRFLLQ  408 (606)
T ss_pred             hhhhhhhcCCchhhhhhHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHhc--CCCCCchhHhHHHHHHHHH
Confidence            2223455689999999999999876655442 666777899999999999999998864  3446778888888899999


Q ss_pred             CHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          368 KVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       368 ~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ++++|..-|++. ...| +...|-.+.-+..+.+++++++..|+++.+..|+-++.|+..+.++..+++++.|.+.++..
T Consensus       409 q~e~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~a  488 (606)
T KOG0547|consen  409 QYEEAIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKA  488 (606)
T ss_pred             HHHHHHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHH
Confidence            999999999998 4556 46677777777778999999999999999999999999999999999999999999988777


Q ss_pred             H
Q 003457          446 V  446 (818)
Q Consensus       446 ~  446 (818)
                      +
T Consensus       489 i  489 (606)
T KOG0547|consen  489 I  489 (606)
T ss_pred             H
Confidence            4

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.26  E-value=1.4e-09  Score=121.23  Aligned_cols=229  Identities=18%  Similarity=0.176  Sum_probs=170.9

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHc-----C-CCCcH-HHHHHHHHHHHhCCCHHHHHHHHhhCCC-------C--
Q 003457          217 VTLASVLSACAQSGCLELGEKVHVFVKMR-----G-FEMGA-ILGTALVHMYTKNGALAKAKALFDSMPE-------R--  280 (818)
Q Consensus       217 ~t~~~ll~~~~~~g~~~~A~~i~~~~~~~-----g-~~~~~-~~~~~Li~~~~~~g~~~~A~~~f~~m~~-------~--  280 (818)
                      .+...+...|...|+++.|...+++.++.     | ..+.. ...+.+...|...+++++|..+|+++..       +  
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            45555777788888888888887777664     1 12222 2333477788888999888888887763       1  


Q ss_pred             --ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc-----CCC-CCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC--C
Q 003457          281 --NIATWNAMISGLASHGHAEEALDLFRKLEKE-----QIV-PND-ITFVGVLSACCHAGFIDVGRQIFGSMKRVYG--I  349 (818)
Q Consensus       281 --d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~-----g~~-pd~-~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g--~  349 (818)
                        -..+++.|..+|.+.|++++|..++++..+.     +.. |.. ..++.+...|...+++++|..+++...+.+.  +
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence              2347888888999999999998888876531     222 222 3456677889999999999999988766532  2


Q ss_pred             CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHcC-------C--CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-
Q 003457          350 EPK----IEHYGCMVDLLGRCGKVLEAEELIKRMV-------W--KPD-VVMWGALLAACKNHGNIEVAERVVKEIIAL-  414 (818)
Q Consensus       350 ~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m~-------~--~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~-  414 (818)
                      .++    ..+++.|...|.++|++++|+++|+++.       .  .+. ...++.|...|.+.+++++|.++|++...+ 
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    4678999999999999999999999882       1  122 456788899999999999999999887663 


Q ss_pred             ---CCCC---cchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          415 ---EPNN---HGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       415 ---~P~~---~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                         +|++   ...|.+|+.+|.+.|++++|+++....
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~  476 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKV  476 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence               4554   467889999999999999999987666

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.25  E-value=2.3e-10  Score=115.51  Aligned_cols=221  Identities=11%  Similarity=0.040  Sum_probs=138.7

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--C-ChhhHHHHHHHHHHcC
Q 003457          220 ASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--R-NIATWNAMISGLASHG  296 (818)
Q Consensus       220 ~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~-d~~~~~~Li~~~~~~g  296 (818)
                      ..+.++|.+.|.+.+|++.++..++.  .+-+.+|..|...|.+..+...|+.+|.+-.+  | |+....-+...+-..+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHH
Confidence            34445555555555555555544444  23334444455555555555555555554443  2 2222233444555556


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 003457          297 HAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELI  376 (818)
Q Consensus       297 ~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~  376 (818)
                      +.++|.++|++..+.. ..+......+...|.-.++.+.|+.+|+++.+. |. -++..|+.+.-+|...++++-++.-|
T Consensus       305 ~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqm-G~-~speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQM-GA-QSPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             hHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHh-cC-CChHHHhhHHHHHHhhcchhhhHHHH
Confidence            6666666666665542 224444445555555666666666666666654 33 34556666666666666666666666


Q ss_pred             HHcC---CCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          377 KRMV---WKPD--VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       377 ~~m~---~~pd--~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +++.   ..|+  ...|.++.......|++..|.+.|+-++..+|++.+++++|+.+-.+.|+.++|..++...
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A  455 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAA  455 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHh
Confidence            6652   2233  5678888888888999999999999999999999999999999999999999999888776

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.25  E-value=1.9e-08  Score=105.12  Aligned_cols=279  Identities=13%  Similarity=0.099  Sum_probs=211.3

Q ss_pred             CCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHH
Q 003457           93 SLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQV  172 (818)
Q Consensus        93 ~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l  172 (818)
                      .|++.+|..+..+-.+.+-. ....|..-..+.-+.|+.+.+-.++.++.+....++.....+........|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            68899999988887665444 33456666777888899999999999888875566777888888888899999999888


Q ss_pred             HHHhhc---CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-------HHHHHHHHHHhcCChhHHHHHHHHH
Q 003457          173 FDEIRN---RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSV-------TLASVLSACAQSGCLELGEKVHVFV  242 (818)
Q Consensus       173 ~~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~-------t~~~ll~~~~~~g~~~~A~~i~~~~  242 (818)
                      ++++.+   +++.......++|.+.|++.+...++.+|.+.+.--|..       +|..++.-+...+..+.-...++..
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            877654   477788889999999999999999999999888655543       4555555554444444444455544


Q ss_pred             HHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCC--ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 003457          243 KMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPER--NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITF  320 (818)
Q Consensus       243 ~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~--d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~  320 (818)
                      -+. ...++.+-..++.-+.++|+.++|.++..+..++  |..  -...-.+.+-++.+.-++..++-.+.. +-++..+
T Consensus       256 pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~--L~~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~  331 (400)
T COG3071         256 PRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR--LCRLIPRLRPGDPEPLIKAAEKWLKQH-PEDPLLL  331 (400)
T ss_pred             cHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh--HHHHHhhcCCCCchHHHHHHHHHHHhC-CCChhHH
Confidence            433 3455667778888899999999999988877763  333  222234556677777777777766542 2245677


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc
Q 003457          321 VGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       321 ~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                      ..|...|.+.+.+.+|...|+..++   ..|+..+|+.+.++|.+.|+.++|.+++++.
T Consensus       332 ~tLG~L~~k~~~w~kA~~~leaAl~---~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~  387 (400)
T COG3071         332 STLGRLALKNKLWGKASEALEAALK---LRPSASDYAELADALDQLGEPEEAEQVRREA  387 (400)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHh---cCCChhhHHHHHHHHHHcCChHHHHHHHHHH
Confidence            8889999999999999999998774   6899999999999999999999999998876

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.25  E-value=8.3e-09  Score=111.80  Aligned_cols=280  Identities=10%  Similarity=0.022  Sum_probs=221.2

Q ss_pred             CCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHH---HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 003457          146 LDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLN---VWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASV  222 (818)
Q Consensus       146 ~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~---~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~l  222 (818)
                      ..-+........+-+....++.+..++++.+.+.|+.   .+-.-|..+.+.|+..+-..+=.+|.+. .|-...+|-.+
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aV  318 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAV  318 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhH
Confidence            3445566666777788899999999999999886554   5666677888889988888888888876 36677899999


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHH
Q 003457          223 LSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAE  299 (818)
Q Consensus       223 l~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~  299 (818)
                      .--|...|+..+|+++|.+....+ +.-...|-.+...|+-.+.-|+|...|....+   .....+.-+..-|.+.++.+
T Consensus       319 g~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~k  397 (611)
T KOG1173|consen  319 GCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLK  397 (611)
T ss_pred             HHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHH
Confidence            988888999999999999988764 33346777889999999999999888876554   12223333556788899999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC-CC----CCHHHHHHHHHHHHHcCCHHHHHH
Q 003457          300 EALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYG-IE----PKIEHYGCMVDLLGRCGKVLEAEE  374 (818)
Q Consensus       300 ~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g-~~----p~~~~~~~Li~~~~~~g~~~~A~~  374 (818)
                      .|.+.|.+..... +.|+..++-+.-.....+.+.+|..+|+.....-. ..    -...+++.|..+|.+++++++|+.
T Consensus       398 LAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~  476 (611)
T KOG1173|consen  398 LAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAID  476 (611)
T ss_pred             HHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHH
Confidence            9999999988763 33677788887777788999999999998763210 11    135678999999999999999999


Q ss_pred             HHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 003457          375 LIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNM  428 (818)
Q Consensus       375 ~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~  428 (818)
                      .|++..  ...|..++.++.-.|...|+++.|++.|.+++.++|++..+-.+|..+
T Consensus       477 ~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  477 YYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLA  532 (611)
T ss_pred             HHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHH
Confidence            999983  345789999999999999999999999999999999976665555533

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.24  E-value=1.6e-07  Score=98.00  Aligned_cols=259  Identities=10%  Similarity=0.038  Sum_probs=174.2

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHH
Q 003457          180 TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSV-TLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALV  258 (818)
Q Consensus       180 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~-t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li  258 (818)
                      |......+...+...|+.++|+..|++.+..  .|+.. ....-.-.+.+.|+.+....+...+....- -....+..-+
T Consensus       231 NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~-~ta~~wfV~~  307 (564)
T KOG1174|consen  231 NEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVK-YTASHWFVHA  307 (564)
T ss_pred             cHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhh-cchhhhhhhh
Confidence            6667777888888888888888888887654  33322 122222233566777777776666655421 1111222223


Q ss_pred             HHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 003457          259 HMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDV  335 (818)
Q Consensus       259 ~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~  335 (818)
                      ......+++..|+.+-++..+   +++..+-.-...+.+.+++++|.-.|+..+... +-+...|..|+.+|...|++.+
T Consensus       308 ~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kE  386 (564)
T KOG1174|consen  308 QLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKE  386 (564)
T ss_pred             hhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHH
Confidence            334455677788777777665   345555555567788888888888888887652 1256788888888888888888


Q ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHH-HHHHH-cCCHHHHHHHHHHc-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          336 GRQIFGSMKRVYGIEPKIEHYGCMV-DLLGR-CGKVLEAEELIKRM-VWKPD-VVMWGALLAACKNHGNIEVAERVVKEI  411 (818)
Q Consensus       336 A~~~~~~m~~~~g~~p~~~~~~~Li-~~~~~-~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~  411 (818)
                      |...-+...+.  ++-+..+...+. ..+.. -.--++|.+++++. ..+|+ ....+.+...|...|+.+.++.++++.
T Consensus       387 A~~~An~~~~~--~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~  464 (564)
T KOG1174|consen  387 ANALANWTIRL--FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKH  464 (564)
T ss_pred             HHHHHHHHHHH--hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHH
Confidence            88777776654  445555555442 22222 22346788888876 56676 456677777788888888888888888


Q ss_pred             HhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          412 IALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       412 ~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +...|| ...++.|++++...+.+.+|++.+...
T Consensus       465 L~~~~D-~~LH~~Lgd~~~A~Ne~Q~am~~y~~A  497 (564)
T KOG1174|consen  465 LIIFPD-VNLHNHLGDIMRAQNEPQKAMEYYYKA  497 (564)
T ss_pred             Hhhccc-cHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            888888 677888888888888888888866655

>PRK12370 invasion protein regulator; Provisional

Probab=99.22  E-value=6.5e-09  Score=121.17  Aligned_cols=255  Identities=13%  Similarity=0.011  Sum_probs=174.5

Q ss_pred             CHHHHHHHHHHHHH-----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh---------cCChhHHHHHHHHHHHc
Q 003457          180 TLNVWTTMISGYAQ-----SFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQ---------SGCLELGEKVHVFVKMR  245 (818)
Q Consensus       180 d~~~~~~Li~~~~~-----~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~---------~g~~~~A~~i~~~~~~~  245 (818)
                      +...|...+++...     .+.+++|+++|++.++.. +-+...|..+..++..         .+++++|...++++++.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            45556666655322     134678999999988763 3344555555554432         23478899999998887


Q ss_pred             CCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 003457          246 GFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVG  322 (818)
Q Consensus       246 g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~  322 (818)
                      + +.+...+..+..++...|++++|...|+++.+   .+...|..+...+...|++++|+..++++.+..+. +...+..
T Consensus       334 d-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~  411 (553)
T PRK12370        334 D-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGIT  411 (553)
T ss_pred             C-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHH
Confidence            5 55677788888888899999999999988775   34567888888899999999999999998887443 2223333


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCCH-HHHHHHHHHHHHcC
Q 003457          323 VLSACCHAGFIDVGRQIFGSMKRVYGIEP-KIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPDV-VMWGALLAACKNHG  399 (818)
Q Consensus       323 ll~a~~~~g~~~~A~~~~~~m~~~~g~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd~-~~~~~Li~a~~~~g  399 (818)
                      ++..+...|++++|...++++.+.  .+| +...+..+..+|...|++++|.+.++++. ..|+. ...+.+...|...|
T Consensus       412 ~~~~~~~~g~~eeA~~~~~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  489 (553)
T PRK12370        412 KLWITYYHTGIDDAIRLGDELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS  489 (553)
T ss_pred             HHHHHHhccCHHHHHHHHHHHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH
Confidence            444566688899999998887764  234 45567778888889999999999998873 34443 34455555566666


Q ss_pred             CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHH
Q 003457          400 NIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEI  441 (818)
Q Consensus       400 ~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l  441 (818)
                        ++|...++++++..-........+..+|.-.|+-+.+...
T Consensus       490 --~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  529 (553)
T PRK12370        490 --ERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMW  529 (553)
T ss_pred             --HHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHH
Confidence              4777777776653322222233366667777777776665

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.18  E-value=9.4e-09  Score=104.99  Aligned_cols=199  Identities=15%  Similarity=0.107  Sum_probs=110.4

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 003457          182 NVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMY  261 (818)
Q Consensus       182 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~  261 (818)
                      ..+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.+++..+.. +.+..         
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~---------  100 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGD---------  100 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHH---------
Confidence            355666666666666666666666665542 3334455555555556666666666666555543 22333         


Q ss_pred             HhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHH
Q 003457          262 TKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVP-NDITFVGVLSACCHAGFIDVGRQIF  340 (818)
Q Consensus       262 ~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~A~~~~  340 (818)
                                            .+..+...+...|++++|...++++.+....+ ....+..+..++...|++++|.+.+
T Consensus       101 ----------------------~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (234)
T TIGR02521       101 ----------------------VLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYL  158 (234)
T ss_pred             ----------------------HHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence                                  34444445555555555555555554432111 2234444555666666666666666


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Q 003457          341 GSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-W-KPDVVMWGALLAACKNHGNIEVAERVVKEIIALE  415 (818)
Q Consensus       341 ~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~-~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~  415 (818)
                      ++..+.  .+.+...+..+...+...|++++|.+.++++. . ..+...+..++..+...|+.++|..+.+.+.+..
T Consensus       159 ~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  233 (234)
T TIGR02521       159 TRALQI--DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLF  233 (234)
T ss_pred             HHHHHh--CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            666553  23345556666666666667776666666652 1 2234555555566666677777776666655543

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.17  E-value=8e-08  Score=100.31  Aligned_cols=306  Identities=10%  Similarity=0.020  Sum_probs=225.9

Q ss_pred             CCHHHHHHHHHHHHcc--CChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHH---HH
Q 003457          113 PNQHTFTFVLKACSNV--RSLNCCKQIHTHVSKS-GLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVW---TT  186 (818)
Q Consensus       113 pd~~ty~~ll~~~~~~--g~~~~A~~~~~~m~~~-g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~---~~  186 (818)
                      |+..+....+.++++.  ++...+.+.+-.+.+. -++.|......+.+++...|+.++|+..|++...-|+.+.   ..
T Consensus       192 ~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~  271 (564)
T KOG1174|consen  192 DHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDL  271 (564)
T ss_pred             CCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHH
Confidence            3333444445544432  3334444444433333 3566788889999999999999999999999876655432   23


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCC
Q 003457          187 MISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGA  266 (818)
Q Consensus       187 Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~  266 (818)
                      ....+.+.|++++...+...+.... .-....|..-+......++++.|..+-++.++.+ +.+...+-.-..++...++
T Consensus       272 Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R  349 (564)
T KOG1174|consen  272 YAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALER  349 (564)
T ss_pred             HHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccc
Confidence            3344567889988888888876542 2233344444445556788999999998888775 4455556556678889999


Q ss_pred             HHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHHH-cCCHHHHHHHHH
Q 003457          267 LAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVL-SACCH-AGFIDVGRQIFG  341 (818)
Q Consensus       267 ~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll-~a~~~-~g~~~~A~~~~~  341 (818)
                      .++|.-.|+....   -+..+|.-|+.+|...|++.+|..+-+...+. +..+..++..+. ..|.. ..--++|..+++
T Consensus       350 ~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~e  428 (564)
T KOG1174|consen  350 HTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAE  428 (564)
T ss_pred             hHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHH
Confidence            9999999987664   47889999999999999999999888876654 344666766663 33433 334678999998


Q ss_pred             HHHHHhCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc
Q 003457          342 SMKRVYGIEPK-IEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNH  419 (818)
Q Consensus       342 ~m~~~~g~~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~  419 (818)
                      +..+   +.|+ ....+.+...+...|+.++++.++++. ...||....+.|.+.+.....+++|++.|..+++++|++.
T Consensus       429 k~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~  505 (564)
T KOG1174|consen  429 KSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSK  505 (564)
T ss_pred             hhhc---cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccch
Confidence            8774   4565 567788889999999999999999988 5679999999999999999999999999999999999966


Q ss_pred             chHHH
Q 003457          420 GVYVV  424 (818)
Q Consensus       420 ~~y~~  424 (818)
                      .+..-
T Consensus       506 ~sl~G  510 (564)
T KOG1174|consen  506 RTLRG  510 (564)
T ss_pred             HHHHH
Confidence            54443

>PRK12370 invasion protein regulator; Provisional

Probab=99.15  E-value=6.3e-09  Score=121.24  Aligned_cols=244  Identities=11%  Similarity=0.002  Sum_probs=173.9

Q ss_pred             CChHHHHHHHHHhhcCC---HHHHHHHHHHHHH---------cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 003457          164 SDLNNARQVFDEIRNRT---LNVWTTMISGYAQ---------SFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGC  231 (818)
Q Consensus       164 g~~~~A~~l~~~m~~~d---~~~~~~Li~~~~~---------~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~  231 (818)
                      +++++|.++|++..+.|   ...|..+..+|..         .+++++|...++++++.. +-+...+..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccC
Confidence            34678888898887653   3456666555442         244789999999998875 5567778788888888999


Q ss_pred             hhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CC-hhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          232 LELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--RN-IATWNAMISGLASHGHAEEALDLFRKL  308 (818)
Q Consensus       232 ~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d-~~~~~~Li~~~~~~g~~~~A~~l~~~m  308 (818)
                      +++|...++++++.+ +.+...+..+..+|...|++++|...+++..+  |+ ...+..++..+...|++++|+..++++
T Consensus       354 ~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~  432 (553)
T PRK12370        354 YIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDEL  432 (553)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHH
Confidence            999999999999886 55677788889999999999999999998876  32 223444555577789999999999998


Q ss_pred             HHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC----CCCC
Q 003457          309 EKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV----WKPD  384 (818)
Q Consensus       309 ~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~----~~pd  384 (818)
                      .+...+-+...+..+..++...|++++|.+.++++...  .+.+....+.+...|...|  ++|...++++.    ..+.
T Consensus       433 l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~  508 (553)
T PRK12370        433 RSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDN  508 (553)
T ss_pred             HHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhc
Confidence            87632224555677788888999999999999887653  2333455566666677777  47777666652    2333


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 003457          385 VVMWGALLAACKNHGNIEVAERVVKEIIALEP  416 (818)
Q Consensus       385 ~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P  416 (818)
                      ...+..+  .+.-.|+.+.+..+ +++.+.+.
T Consensus       509 ~~~~~~~--~~~~~g~~~~~~~~-~~~~~~~~  537 (553)
T PRK12370        509 NPGLLPL--VLVAHGEAIAEKMW-NKFKNEDN  537 (553)
T ss_pred             CchHHHH--HHHHHhhhHHHHHH-HHhhccch
Confidence            3333333  34567777777666 77766543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.13  E-value=2.7e-08  Score=106.43  Aligned_cols=233  Identities=15%  Similarity=-0.014  Sum_probs=149.2

Q ss_pred             ChHHHHHHHHHHHHcC-CCCC--HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHH
Q 003457          196 RANEALMLFDQMLMEG-FEPN--SVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKA  272 (818)
Q Consensus       196 ~~~~A~~l~~~m~~~g-~~pd--~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~  272 (818)
                      ..+.++..+.+++... ..|+  ...|..+...+...|+.++|...|+++++.. +.+...++.+...|...|++++|.+
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            4455555665655432 1111  2345555666677777777777777777664 4456777777777777788888877


Q ss_pred             HHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCC
Q 003457          273 LFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGI  349 (818)
Q Consensus       273 ~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~  349 (818)
                      .|++..+   .+..+|..+...+...|++++|++.|++..+..  |+..........+...++.++|...+++....  .
T Consensus       120 ~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~--~  195 (296)
T PRK11189        120 AFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK--L  195 (296)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh--C
Confidence            7777754   245677778888888888888888888888763  33322222222344567788888888765543  3


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHH--HHHHHHHc-CC----CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCcc
Q 003457          350 EPKIEHYGCMVDLLGRCGKVLE--AEELIKRM-VW----KP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEP-NNHG  420 (818)
Q Consensus       350 ~p~~~~~~~Li~~~~~~g~~~~--A~~~~~~m-~~----~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P-~~~~  420 (818)
                      +++...+ .+.  +...|+..+  +++.+.+. ..    .| ....|..+...+.+.|++++|+..|+++++.+| +..+
T Consensus       196 ~~~~~~~-~~~--~~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~e  272 (296)
T PRK11189        196 DKEQWGW-NIV--EFYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFVE  272 (296)
T ss_pred             CccccHH-HHH--HHHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHHH
Confidence            3332222 233  233444433  33333322 11    12 246789999999999999999999999999996 7778


Q ss_pred             hHHHHHHHHHHhhchH
Q 003457          421 VYVVLSNMYAEAESMK  436 (818)
Q Consensus       421 ~y~~L~~~l~~~G~~~  436 (818)
                      +...++.+....++.+
T Consensus       273 ~~~~~~e~~~~~~~~~  288 (296)
T PRK11189        273 HRYALLELALLGQDQD  288 (296)
T ss_pred             HHHHHHHHHHHHhhhh
Confidence            8777777766655543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.10  E-value=2.4e-08  Score=111.63  Aligned_cols=231  Identities=19%  Similarity=0.158  Sum_probs=167.4

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHc-----C-CCCCHHHH-HHHHHHHHhcCChhHHHHHHHHHHHc-----CC--C
Q 003457          183 VWTTMISGYAQSFRANEALMLFDQMLME-----G-FEPNSVTL-ASVLSACAQSGCLELGEKVHVFVKMR-----GF--E  248 (818)
Q Consensus       183 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~-----g-~~pd~~t~-~~ll~~~~~~g~~~~A~~i~~~~~~~-----g~--~  248 (818)
                      +...+...|...|+++.|..++++.++.     | ..|...+. ..+...|...+++++|..+|+++...     |-  +
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            3444777788888888888888776554     1 12333333 23556777888888888888887763     21  1


Q ss_pred             CcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC----------CCh-hhHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCC
Q 003457          249 MGAILGTALVHMYTKNGALAKAKALFDSMPE----------RNI-ATWNAMISGLASHGHAEEALDLFRKLEKE---QIV  314 (818)
Q Consensus       249 ~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~----------~d~-~~~~~Li~~~~~~g~~~~A~~l~~~m~~~---g~~  314 (818)
                      .-..+++.|..+|.+.|++++|...+++..+          +.+ ..++.++..+...+++++|..++++..+.   -+.
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence            1234666777788888888888777766543          222 24666777888999999999999876542   122


Q ss_pred             CC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh----C-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHcC----
Q 003457          315 PN----DITFVGVLSACCHAGFIDVGRQIFGSMKRVY----G-IEP-KIEHYGCMVDLLGRCGKVLEAEELIKRMV----  380 (818)
Q Consensus       315 pd----~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~----g-~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~----  380 (818)
                      ++    ..+++.|...|.+.|++++|.++|++++...    + ..+ ....++.|...|.+.+++.+|.++|.+..    
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~  440 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMK  440 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHH
Confidence            22    3578899999999999999999999987652    1 111 24567889999999999999999998762    


Q ss_pred             ----CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 003457          381 ----WKPD-VVMWGALLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       381 ----~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                          ..|+ ..+|..|...|...|++++|+++.+++..
T Consensus       441 ~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  441 LCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence                3355 46899999999999999999999988774

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.09  E-value=9.5e-09  Score=109.90  Aligned_cols=209  Identities=13%  Similarity=0.069  Sum_probs=152.4

Q ss_pred             CChhHHHHHHHHHHHcC-CC--CcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHH
Q 003457          230 GCLELGEKVHVFVKMRG-FE--MGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALD  303 (818)
Q Consensus       230 g~~~~A~~i~~~~~~~g-~~--~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~  303 (818)
                      ++.+.+...+.+++... ..  .....+..+...|.+.|++++|...|++..+   .+...|+.+...|...|++++|+.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            35566777777777542 11  2245677888899999999999999998875   467899999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC--C
Q 003457          304 LFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV--W  381 (818)
Q Consensus       304 l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~  381 (818)
                      .|++..+..+. +..++..+..++...|++++|.+.+++..+.   .|+..........+...+++++|.+.|++..  .
T Consensus       120 ~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        120 AFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            99999986433 4677888888999999999999999998875   4433222222223456788999999997652  2


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-------hcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          382 KPDVVMWGALLAACKNHGNIEVAERVVKEII-------ALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       382 ~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~-------~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .|+...+ .  ......|+..++ +.++.+.       ++.|+..++|..++.++.+.|++++|+..++...
T Consensus       196 ~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al  263 (296)
T PRK11189        196 DKEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLAL  263 (296)
T ss_pred             CccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3333222 2  223345555443 2333333       5567778899999999999999999999877663

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.07  E-value=1.7e-06  Score=95.68  Aligned_cols=376  Identities=14%  Similarity=0.076  Sum_probs=246.6

Q ss_pred             hhcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHH
Q 003457           59 LSSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCK  135 (818)
Q Consensus        59 ~~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~  135 (818)
                      +...|+.++|........+   .+.++|..+.-.+....++++|+.+|......+.. |...+.-+.-.=++.++++...
T Consensus        51 L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslLQ~QmRd~~~~~  129 (700)
T KOG1156|consen   51 LNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKD-NLQILRDLSLLQIQMRDYEGYL  129 (700)
T ss_pred             hhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHHHhhhhHH
Confidence            3578999999999887764   56789999988888899999999999999885333 5567777776777888888888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC-----CHHHHH------HHHHHHHHcCChHHHHHHH
Q 003457          136 QIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR-----TLNVWT------TMISGYAQSFRANEALMLF  204 (818)
Q Consensus       136 ~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~-----d~~~~~------~Li~~~~~~g~~~~A~~l~  204 (818)
                      ..-.++.+..+ .....|..++.++.-.|+...|..++++..+.     +...+.      -......+.|..++|++.+
T Consensus       130 ~tr~~LLql~~-~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L  208 (700)
T KOG1156|consen  130 ETRNQLLQLRP-SQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHL  208 (700)
T ss_pred             HHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            88877777532 24557788888888899999999998887642     222222      2234567788888888887


Q ss_pred             HHHHHcCCCCCHHHH-HHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHH-HHHhhCCC--C
Q 003457          205 DQMLMEGFEPNSVTL-ASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAK-ALFDSMPE--R  280 (818)
Q Consensus       205 ~~m~~~g~~pd~~t~-~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~-~~f~~m~~--~  280 (818)
                      ..-...  ..|...+ ..-...+.+.+++++|..++..++..+ +.+...|..+..++.+-.+.-++. .+|....+  +
T Consensus       209 ~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn-Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~  285 (700)
T KOG1156|consen  209 LDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN-PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYP  285 (700)
T ss_pred             HhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC-chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCc
Confidence            765432  2344443 234466778999999999999999884 334444445555554333434444 66666554  1


Q ss_pred             ChhhHHHHHHHHHHcCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-hC----------
Q 003457          281 NIATWNAMISGLASHGH-AEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRV-YG----------  348 (818)
Q Consensus       281 d~~~~~~Li~~~~~~g~-~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~-~g----------  348 (818)
                      -...-..+-.......+ .+..-.+++.+.+.|+++-   +..+...|-.....+--+++.-.+... .+          
T Consensus       286 r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~  362 (700)
T KOG1156|consen  286 RHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSV---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDG  362 (700)
T ss_pred             ccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCch---hhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCccccc
Confidence            11111111111112222 3334456677777877653   333333333222211111111111111 01          


Q ss_pred             --CCCCHHHH--HHHHHHHHHcCCHHHHHHHHHHcC-CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchH
Q 003457          349 --IEPKIEHY--GCMVDLLGRCGKVLEAEELIKRMV-WKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       349 --~~p~~~~~--~~Li~~~~~~g~~~~A~~~~~~m~-~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                        -+|....|  ..++..|-+.|+++.|+..++.+. ..|. +..|..-.+.+.+.|++++|..+++++.+++-.|.-.-
T Consensus       363 ~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~IN  442 (700)
T KOG1156|consen  363 KQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAIN  442 (700)
T ss_pred             ccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHH
Confidence              14554444  467788889999999999999884 4465 45666677888999999999999999999886545444


Q ss_pred             HHHHHHHHHhhchHHHHHHH
Q 003457          423 VVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       423 ~~L~~~l~~~G~~~eA~~l~  442 (818)
                      ..-+....++++.++|.++.
T Consensus       443 sKcAKYmLrAn~i~eA~~~~  462 (700)
T KOG1156|consen  443 SKCAKYMLRANEIEEAEEVL  462 (700)
T ss_pred             HHHHHHHHHccccHHHHHHH
Confidence            46778888999999998854

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.02  E-value=9e-09  Score=112.11  Aligned_cols=214  Identities=16%  Similarity=0.121  Sum_probs=173.9

Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHH
Q 003457          226 CAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEAL  302 (818)
Q Consensus       226 ~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~  302 (818)
                      +.+.|++.+|.-.|+..++.+ |-+...|..|.......++-..|+..+++..+   .|......|.-.|...|.-.+|+
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHH
Confidence            457888999999999999886 66788899999999999999999999988876   46678888888999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHH-----------HHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHH
Q 003457          303 DLFRKLEKEQIVPNDITFVGVL-----------SACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLE  371 (818)
Q Consensus       303 ~l~~~m~~~g~~pd~~t~~~ll-----------~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~  371 (818)
                      ++++.-++..++     |..+.           ..+.....+....++|-.+....+..+|..++..|.-.|.-.|++++
T Consensus       374 ~~L~~Wi~~~p~-----y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdr  448 (579)
T KOG1125|consen  374 KMLDKWIRNKPK-----YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDR  448 (579)
T ss_pred             HHHHHHHHhCcc-----chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHH
Confidence            999987664321     10010           01112223445566666666654655788888889888999999999


Q ss_pred             HHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHH-HHHH
Q 003457          372 AEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEI-LLVQ  445 (818)
Q Consensus       372 A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l-~~~~  445 (818)
                      |...|+.+ ..+| |..+||.|...++...+.++|+..|++++++.|...++.++|+-.|...|.|+||.+. +.++
T Consensus       449 aiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  449 AVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            99999998 5667 6889999999999999999999999999999999999999999999999999999994 4444

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.00  E-value=9.1e-07  Score=99.55  Aligned_cols=362  Identities=13%  Similarity=0.021  Sum_probs=233.1

Q ss_pred             CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC-CHHHHHHH
Q 003457           78 PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDL-DLHVVNCL  156 (818)
Q Consensus        78 p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~L  156 (818)
                      .|...|..|-=++...|+++.+.+.|++....-+. ..+.|..+...+...|.-..|..+++........| +...+...
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~-~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lma  399 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFG-EHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMA  399 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhh-hHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHH
Confidence            57778888888888899999999999988764333 66788888888888888889999988876654334 34444444


Q ss_pred             HHHHH-hCCChHHHHHHHHHhhc--------CCHHHHHHHHHHHHHc-----------CChHHHHHHHHHHHHcCCCCCH
Q 003457          157 VRCYS-VSSDLNNARQVFDEIRN--------RTLNVWTTMISGYAQS-----------FRANEALMLFDQMLMEGFEPNS  216 (818)
Q Consensus       157 i~~y~-~~g~~~~A~~l~~~m~~--------~d~~~~~~Li~~~~~~-----------g~~~~A~~l~~~m~~~g~~pd~  216 (818)
                      -..|. +.+..++++++-.++..        .....|..+.-+|...           ....++++.+++..+.+ +-|.
T Consensus       400 sklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d-~~dp  478 (799)
T KOG4162|consen  400 SKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD-PTDP  478 (799)
T ss_pred             HHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC-CCCc
Confidence            44444 35666666665555443        1333455555544332           22356778888887664 2333


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCC---ChhhHHHHHHHHH
Q 003457          217 VTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPER---NIATWNAMISGLA  293 (818)
Q Consensus       217 ~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~---d~~~~~~Li~~~~  293 (818)
                      .....+.--|+..++++.|.+..++..+.+...+...+..|+-.+...+++.+|+.+.+...+.   |......-+..-.
T Consensus       479 ~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~~  558 (799)
T KOG4162|consen  479 LVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIEL  558 (799)
T ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhhh
Confidence            3333344456677889999999999999866778888888888899999999999998876642   2221122222233


Q ss_pred             HcCCHHHHHHHHHHHHHc---------------------CC-----CC-C-HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 003457          294 SHGHAEEALDLFRKLEKE---------------------QI-----VP-N-DITFVGVLSACCHAGFIDVGRQIFGSMKR  345 (818)
Q Consensus       294 ~~g~~~~A~~l~~~m~~~---------------------g~-----~p-d-~~t~~~ll~a~~~~g~~~~A~~~~~~m~~  345 (818)
                      .-++.++++.....+...                     |.     .| + ..++..+.......+....-...+..   
T Consensus       559 ~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~---  635 (799)
T KOG4162|consen  559 TFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPS---  635 (799)
T ss_pred             hcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCc---
Confidence            356666666555544321                     00     00 0 11121111111100000000000000   


Q ss_pred             HhCCC--CC------HHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Q 003457          346 VYGIE--PK------IEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALE  415 (818)
Q Consensus       346 ~~g~~--p~------~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~  415 (818)
                       ....  |+      ...|......+.+.+..++|...+.++ +..| ....|......+...|+.++|.+.|..++.++
T Consensus       636 -s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld  714 (799)
T KOG4162|consen  636 -STVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD  714 (799)
T ss_pred             -ccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC
Confidence             0111  12      235666777888999999999888777 3333 56777777788889999999999999999999


Q ss_pred             CCCcchHHHHHHHHHHhhchHHHHH--HHHHH
Q 003457          416 PNNHGVYVVLSNMYAEAESMKMQLE--ILLVQ  445 (818)
Q Consensus       416 P~~~~~y~~L~~~l~~~G~~~eA~~--l~~~~  445 (818)
                      |+++.....++.++.+.|+-.-|..  +...+
T Consensus       715 P~hv~s~~Ala~~lle~G~~~la~~~~~L~da  746 (799)
T KOG4162|consen  715 PDHVPSMTALAELLLELGSPRLAEKRSLLSDA  746 (799)
T ss_pred             CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHH
Confidence            9999999999999999998777766  55554

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.00  E-value=3.1e-08  Score=100.35  Aligned_cols=236  Identities=14%  Similarity=0.064  Sum_probs=202.9

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhC
Q 003457          185 TTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKN  264 (818)
Q Consensus       185 ~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~  264 (818)
                      +.|..+|.+.|.+.+|.+.|+..++.  .|-..||..|-+.|.+..+.+.|..++.+-++. ++.++....-....+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            56889999999999999999998876  677788999999999999999999999998876 466777777788899999


Q ss_pred             CCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 003457          265 GALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFG  341 (818)
Q Consensus       265 g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~  341 (818)
                      ++.++|.++|+...+   .++++...+...|.-.++++-|+.+|++++..|.. +...|+.+.-+|...++++-++..|+
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            999999999998876   35666777778899999999999999999999987 78889999999999999999999999


Q ss_pred             HHHHHhCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          342 SMKRVYGIEPK--IEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       342 ~m~~~~g~~p~--~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      +.... ...|+  ..+|..+.......|++.-|.+.|+-.. ..+ +...+++|...-.+.|++++|..++..+....|+
T Consensus       383 RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~  461 (478)
T KOG1129|consen  383 RALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPD  461 (478)
T ss_pred             HHHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCcc
Confidence            98765 33344  5689999988899999999999999883 334 4788999998888999999999999999999998


Q ss_pred             CcchHHHH
Q 003457          418 NHGVYVVL  425 (818)
Q Consensus       418 ~~~~y~~L  425 (818)
                      -.+...++
T Consensus       462 m~E~~~Nl  469 (478)
T KOG1129|consen  462 MAEVTTNL  469 (478)
T ss_pred             ccccccce
Confidence            66554444

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.99  E-value=5.5e-06  Score=90.78  Aligned_cols=367  Identities=13%  Similarity=0.125  Sum_probs=193.2

Q ss_pred             hcCCCHHHHHHHHhhcCCCCHHHHHHH--HHHH--HhCCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCChHHH
Q 003457           60 SSSGDLSYATRLFNSIQSPNHFMWNTL--IRAQ--ASSLNPDKAIFLYMNMRRTGFAPN-QHTFTFVLKACSNVRSLNCC  134 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~~p~~~~yn~L--i~~~--~~~g~~~~Al~lf~~m~~~g~~pd-~~ty~~ll~~~~~~g~~~~A  134 (818)
                      .+.+++++|+.+.+.-..-  .+++..  =.+|  .+.+..++|+..++     |..++ ..+...-...|.+.+++++|
T Consensus        57 Iq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydea  129 (652)
T KOG2376|consen   57 IQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEA  129 (652)
T ss_pred             hhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHH
Confidence            6888888888766654321  122222  3333  36778888888877     22223 33555566677788888888


Q ss_pred             HHHHHHHHHcCCCC-CHHHHHHHHHHHHhCCChHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 003457          135 KQIHTHVSKSGLDL-DLHVVNCLVRCYSVSSDLNNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFDQMLME  210 (818)
Q Consensus       135 ~~~~~~m~~~g~~p-~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~  210 (818)
                      ..+|+++.+.+.+. +...-..++..-    -.-.+. +.+.....   +-..+......+...|++.+|+++++.....
T Consensus       130 ldiY~~L~kn~~dd~d~~~r~nl~a~~----a~l~~~-~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~  204 (652)
T KOG2376|consen  130 LDIYQHLAKNNSDDQDEERRANLLAVA----AALQVQ-LLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRI  204 (652)
T ss_pred             HHHHHHHHhcCCchHHHHHHHHHHHHH----HhhhHH-HHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            88888887765331 111111111111    111111 22222222   2223333445566667777777777666221


Q ss_pred             C-------------CCCCHHH-HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHH----HHHHHHHHH-----------
Q 003457          211 G-------------FEPNSVT-LASVLSACAQSGCLELGEKVHVFVKMRGFEMGAI----LGTALVHMY-----------  261 (818)
Q Consensus       211 g-------------~~pd~~t-~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~----~~~~Li~~~-----------  261 (818)
                      +             +.-+..+ -..+.-.+...|+.++|.++|...++... +|..    .-|.|+.+-           
T Consensus       205 ~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~-~D~~~~Av~~NNLva~~~d~~~~d~~~l  283 (652)
T KOG2376|consen  205 CREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRNP-ADEPSLAVAVNNLVALSKDQNYFDGDLL  283 (652)
T ss_pred             HHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcC-CCchHHHHHhcchhhhccccccCchHHH
Confidence            1             0000111 12233445566777777777776666542 2221    111111110           


Q ss_pred             ----------------------------------HhCCCHHHHHHHHhhCCCCC-hhhHHHHHHH-H-HHcCCHHHHHHH
Q 003457          262 ----------------------------------TKNGALAKAKALFDSMPERN-IATWNAMISG-L-ASHGHAEEALDL  304 (818)
Q Consensus       262 ----------------------------------~~~g~~~~A~~~f~~m~~~d-~~~~~~Li~~-~-~~~g~~~~A~~l  304 (818)
                                                        .-.+..+.+.++-..+.... ...+..++.. + ++...+.++.++
T Consensus       284 ~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~  363 (652)
T KOG2376|consen  284 KSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIEL  363 (652)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHH
Confidence                                              01112222333332222211 1122223222 2 222346677777


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH--------HHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 003457          305 FRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFG--------SMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELI  376 (818)
Q Consensus       305 ~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~--------~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~  376 (818)
                      +...-+....-........+......|+++.|.+++.        .+.+   +...+.+...+...|.+.++.+.|..++
T Consensus       364 L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~---~~~~P~~V~aiv~l~~~~~~~~~a~~vl  440 (652)
T KOG2376|consen  364 LLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILE---AKHLPGTVGAIVALYYKIKDNDSASAVL  440 (652)
T ss_pred             HHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhh---hccChhHHHHHHHHHHhccCCccHHHHH
Confidence            7766655322223444455667778899999998888        3332   2333455566777777777766666666


Q ss_pred             HHcC-----CCCCHH----HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHH
Q 003457          377 KRMV-----WKPDVV----MWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILL  443 (818)
Q Consensus       377 ~~m~-----~~pd~~----~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~  443 (818)
                      +++.     ..+...    ++.-+...-.+.|+.++|..+++++++.+|++.+....++.+|++.. .+.|..+-+
T Consensus       441 ~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~~d~~~l~~lV~a~~~~d-~eka~~l~k  515 (652)
T KOG2376|consen  441 DSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFNPNDTDLLVQLVTAYARLD-PEKAESLSK  515 (652)
T ss_pred             HHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCCchHHHHHHHHHHHHhcC-HHHHHHHhh
Confidence            6551     112222    23333333356799999999999999999998999999988887664 455555443

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.99  E-value=3.2e-08  Score=96.40  Aligned_cols=159  Identities=14%  Similarity=0.076  Sum_probs=120.4

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLL  363 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~  363 (818)
                      +...|.-.|.+.|++..|..-+++.++..+. +..++..+...|.+.|..+.|.+.|++....  -+.+..+.|....-+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHH
Confidence            4455667788888888888888888776322 4566777777788888888888888887754  344567777777778


Q ss_pred             HHcCCHHHHHHHHHHcCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHH
Q 003457          364 GRCGKVLEAEELIKRMVWKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQL  439 (818)
Q Consensus       364 ~~~g~~~~A~~~~~~m~~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~  439 (818)
                      +.+|++++|...|+++...|+    ..+|.++.-+..+.|+.+.|.+.|++.++++|+.+.....++....+.|++-+|.
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHH
Confidence            888888888888888754443    5677777777778888888888888888888888888888888888888888887


Q ss_pred             HHHHHH
Q 003457          440 EILLVQ  445 (818)
Q Consensus       440 ~l~~~~  445 (818)
                      .+++..
T Consensus       194 ~~~~~~  199 (250)
T COG3063         194 LYLERY  199 (250)
T ss_pred             HHHHHH
Confidence            766554

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=98.98  E-value=2.1e-07  Score=105.53  Aligned_cols=419  Identities=14%  Similarity=0.043  Sum_probs=207.8

Q ss_pred             CCCCCCChhHHHHHHHHhcCchHH--HHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCCCCHHHHHH
Q 003457            8 LRQPPLPIPPLSLLADKCKSMHQL--KQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNT   85 (818)
Q Consensus         8 ~~~~~p~~~tl~~ll~~c~~~~~~--~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~yn~   85 (818)
                      ..+..|+.+||..++..++.-++.  ..++..|.-........+++.++.-.  .+.++.+.+.       +|...+|..
T Consensus        18 ~~gi~PnRvtyqsLiarYc~~gdieaatif~fm~~ksLpv~e~vf~~lv~sh--~~And~Enpk-------ep~aDtyt~   88 (1088)
T KOG4318|consen   18 ISGILPNRVTYQSLIARYCTKGDIEAATIFPFMEIKSLPVREGVFRGLVASH--KEANDAENPK-------EPLADTYTN   88 (1088)
T ss_pred             HhcCCCchhhHHHHHHHHcccCCCccccchhhhhcccccccchhHHHHHhcc--cccccccCCC-------CCchhHHHH
Confidence            334455555555555555443332  12445554444444555555555444  4445544443       467778888


Q ss_pred             HHHHHHhCCChhHHHHHHHH-HH-------HcCCCCCHHHHHH--------------HHHHHHccCChHHHHHHHHHHHH
Q 003457           86 LIRAQASSLNPDKAIFLYMN-MR-------RTGFAPNQHTFTF--------------VLKACSNVRSLNCCKQIHTHVSK  143 (818)
Q Consensus        86 Li~~~~~~g~~~~Al~lf~~-m~-------~~g~~pd~~ty~~--------------ll~~~~~~g~~~~A~~~~~~m~~  143 (818)
                      |..+|.++|+... ++..++ |.       ..|+.--..-+-.              ++......|-++.+.+++..+-.
T Consensus        89 Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pv  167 (1088)
T KOG4318|consen   89 LLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPV  167 (1088)
T ss_pred             HHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCc
Confidence            8888888887654 222222 21       1122111111111              11111122233333333322111


Q ss_pred             cCCCCCHHHHHHHHHHHHh-CCChHHHHHHHHHhhc-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 003457          144 SGLDLDLHVVNCLVRCYSV-SSDLNNARQVFDEIRN-RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLAS  221 (818)
Q Consensus       144 ~g~~p~~~~~~~Li~~y~~-~g~~~~A~~l~~~m~~-~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~  221 (818)
                      .... .....  .++-+.. ...+++-........+ +++.+|.+.+..-...|+.+.|..++.+|++.|++.+.+-|-.
T Consensus       168 sa~~-~p~~v--fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwp  244 (1088)
T KOG4318|consen  168 SAWN-APFQV--FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWP  244 (1088)
T ss_pred             cccc-chHHH--HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchh
Confidence            0000 00000  1221111 1223333333333333 6778888888888888999999999999998888888887776


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHH-----------hhCCC-----------
Q 003457          222 VLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALF-----------DSMPE-----------  279 (818)
Q Consensus       222 ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f-----------~~m~~-----------  279 (818)
                      |+-+   .++...++.+++-|...|+.|+..++.-.+..+.++|+...+.+..           ..+..           
T Consensus       245 Ll~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l~~n  321 (1088)
T KOG4318|consen  245 LLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRLRQN  321 (1088)
T ss_pred             hhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHHHHH
Confidence            6654   6777778888888888888888877776655555544322221111           00000           


Q ss_pred             ------------------CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCC-CHHHHHHHHHHHHHcCC------
Q 003457          280 ------------------RNIATWNAMISGLASHGHAEEALDLFRKLEKE--QIVP-NDITFVGVLSACCHAGF------  332 (818)
Q Consensus       280 ------------------~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~--g~~p-d~~t~~~ll~a~~~~g~------  332 (818)
                                        .....|. +..-...+|+-++.+.+-..|..-  ...+ +...|..++.-|.+.-+      
T Consensus       322 l~~~v~~s~k~~fLlg~d~~~aiws-~c~~l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~~~~~~  400 (1088)
T KOG4318|consen  322 LRKSVIGSTKKLFLLGTDILEAIWS-MCEKLRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIERHICSR  400 (1088)
T ss_pred             HHHHHHHHhhHHHHhccccchHHHH-HHHHHHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHhhHHHH
Confidence                              0111222 222223356666666666666431  1222 22334444433332211      


Q ss_pred             HHHHHHHHHH------------HHHHhCCCCC----------------------------HHHHHHHHHHHHHcCCHHHH
Q 003457          333 IDVGRQIFGS------------MKRVYGIEPK----------------------------IEHYGCMVDLLGRCGKVLEA  372 (818)
Q Consensus       333 ~~~A~~~~~~------------m~~~~g~~p~----------------------------~~~~~~Li~~~~~~g~~~~A  372 (818)
                      +..+.+.++.            ...  ...||                            ...-+.++..+.+.-+..++
T Consensus       401 i~~~~qgls~~l~se~tp~vsell~--~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~lK~  478 (1088)
T KOG4318|consen  401 IYYAGQGLSLNLNSEDTPRVSELLE--NLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKLKI  478 (1088)
T ss_pred             HHHHHHHHHhhhchhhhHHHHHHHH--HhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            0000000000            000  01111                            11223444444444444555


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC---CcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          373 EELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPN---NHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       373 ~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~---~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +..-++.....=...|..|++-+..+++.+.|..+.++....+-.   +..-+..+.+++.|.+...+|..+.+.+
T Consensus       479 l~~~ekye~~lf~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~  554 (1088)
T KOG4318|consen  479 LCDEEKYEDLLFAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYED  554 (1088)
T ss_pred             HHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhh
Confidence            433333321111256777888888888888888888776543321   2345677888888888888888865443

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.98  E-value=3.8e-05  Score=84.86  Aligned_cols=395  Identities=15%  Similarity=0.147  Sum_probs=251.5

Q ss_pred             CCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHc------CCCCCH
Q 003457           42 SRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRT------GFAPNQ  115 (818)
Q Consensus        42 g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~------g~~pd~  115 (818)
                      -......+|...+.+.  ...+-.+-+.+++++-.+-++..-+--|..+++.+++++|-+.+......      ..+.+.
T Consensus       133 pvtqH~rIW~lyl~Fv--~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~  210 (835)
T KOG2047|consen  133 PVTQHDRIWDLYLKFV--ESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNH  210 (835)
T ss_pred             chHhhccchHHHHHHH--HhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchh
Confidence            3445566777777766  67777778888888877766666777788888888888888887776532      123344


Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHcCCC--CC--HHHHHHHHHHHHhCCChHHHHHHHHHhhcC-----CHH-HHH
Q 003457          116 HTFTFVLKACSNVRSLNCCKQIHTHVSKSGLD--LD--LHVVNCLVRCYSVSSDLNNARQVFDEIRNR-----TLN-VWT  185 (818)
Q Consensus       116 ~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~--p~--~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~-----d~~-~~~  185 (818)
                      ..|..+-...++.-+.-....+ +.+++.|+.  +|  ...|.+|.+.|.+.|++++|.++|++....     |-. .|+
T Consensus       211 qlw~elcdlis~~p~~~~slnv-daiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~ifd  289 (835)
T KOG2047|consen  211 QLWLELCDLISQNPDKVQSLNV-DAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIFD  289 (835)
T ss_pred             hHHHHHHHHHHhCcchhcccCH-HHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHHH
Confidence            5666666655554333222221 222333322  22  347899999999999999999999987653     211 121


Q ss_pred             -----------HHHHHHH--HcC------ChHHHHHHHHHHHHcC-----------CCCCHHHHHHHHHHHHhcCChhHH
Q 003457          186 -----------TMISGYA--QSF------RANEALMLFDQMLMEG-----------FEPNSVTLASVLSACAQSGCLELG  235 (818)
Q Consensus       186 -----------~Li~~~~--~~g------~~~~A~~l~~~m~~~g-----------~~pd~~t~~~ll~~~~~~g~~~~A  235 (818)
                                 ..+. ..  ..+      +.+-.+.-|+.+.+.+           -+-+..+|..-..  ...|+..+.
T Consensus       290 ~Ya~FEE~~~~~~me-~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~  366 (835)
T KOG2047|consen  290 AYAQFEESCVAAKME-LADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQ  366 (835)
T ss_pred             HHHHHHHHHHHHHHh-hhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHH
Confidence                       1122 11  111      2233444555554432           1223334433333  234567777


Q ss_pred             HHHHHHHHHcCCCC------cHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCC-------hhhHHHHHHHHHHcCCHHHHH
Q 003457          236 EKVHVFVKMRGFEM------GAILGTALVHMYTKNGALAKAKALFDSMPERN-------IATWNAMISGLASHGHAEEAL  302 (818)
Q Consensus       236 ~~i~~~~~~~g~~~------~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d-------~~~~~~Li~~~~~~g~~~~A~  302 (818)
                      ...|.++++.- .|      -...+..+.+.|-..|+++.|..+|++..+-+       ..+|..-...=.++.+++.|+
T Consensus       367 i~tyteAv~~v-dP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al  445 (835)
T KOG2047|consen  367 INTYTEAVKTV-DPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAAL  445 (835)
T ss_pred             HHHHHHHHHcc-CcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHH
Confidence            78888888751 22      23577889999999999999999999998732       246666666677889999999


Q ss_pred             HHHHHHHHcCCC----------C-CH------HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 003457          303 DLFRKLEKEQIV----------P-ND------ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR  365 (818)
Q Consensus       303 ~l~~~m~~~g~~----------p-d~------~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~  365 (818)
                      .++++.....-.          | ..      ..|...+..-...|-++....+|++++.. .+ -++.........+..
T Consensus       446 ~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidL-ri-aTPqii~NyAmfLEe  523 (835)
T KOG2047|consen  446 KLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDL-RI-ATPQIIINYAMFLEE  523 (835)
T ss_pred             HHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHH-hc-CCHHHHHHHHHHHHh
Confidence            999887542111          1 11      23334445555667888888999998875 22 234444444445677


Q ss_pred             cCCHHHHHHHHHHcC--CC-CC-HHHHHHHHHHHHH---cCCHHHHHHHHHHHHhcCCCC--cchHHHHHHHHHHhhchH
Q 003457          366 CGKVLEAEELIKRMV--WK-PD-VVMWGALLAACKN---HGNIEVAERVVKEIIALEPNN--HGVYVVLSNMYAEAESMK  436 (818)
Q Consensus       366 ~g~~~~A~~~~~~m~--~~-pd-~~~~~~Li~a~~~---~g~~~~A~~~~~~~~~~~P~~--~~~y~~L~~~l~~~G~~~  436 (818)
                      +.-++++.++|++-.  .+ |+ ...|+..+.-+.+   ..+.+.|..+|+++++.-|..  ...|...+.+-.+-|.-.
T Consensus       524 h~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~~Cpp~~aKtiyLlYA~lEEe~GLar  603 (835)
T KOG2047|consen  524 HKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALDGCPPEHAKTIYLLYAKLEEEHGLAR  603 (835)
T ss_pred             hHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhHHH
Confidence            888999999999873  33 55 3577777665543   236899999999999977642  234555566666778888


Q ss_pred             HHHHHHHHH
Q 003457          437 MQLEILLVQ  445 (818)
Q Consensus       437 eA~~l~~~~  445 (818)
                      .|+++++..
T Consensus       604 ~amsiyera  612 (835)
T KOG2047|consen  604 HAMSIYERA  612 (835)
T ss_pred             HHHHHHHHH
Confidence            888877554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.97  E-value=1.2e-06  Score=98.18  Aligned_cols=373  Identities=10%  Similarity=0.080  Sum_probs=229.0

Q ss_pred             CCCC-ChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHc-C-------CC
Q 003457           42 SRIQ-DHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRT-G-------FA  112 (818)
Q Consensus        42 g~~~-d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~-g-------~~  112 (818)
                      |.+. |..+-.+++.+-.|..-|+++.|.+-.+.+  .+...|..|.+.|++.++.+-|.-++-.|... |       .+
T Consensus       720 gle~Cd~~TRkaml~FSfyvtiG~MD~AfksI~~I--kS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q  797 (1416)
T KOG3617|consen  720 GLENCDESTRKAMLDFSFYVTIGSMDAAFKSIQFI--KSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQ  797 (1416)
T ss_pred             CccccCHHHHHhhhceeEEEEeccHHHHHHHHHHH--hhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHh
Confidence            4443 778888888665558999999999888777  56678999999999999999988888877642 1       11


Q ss_pred             CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCC-HHHHHHHHHHH
Q 003457          113 PNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRT-LNVWTTMISGY  191 (818)
Q Consensus       113 pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d-~~~~~~Li~~~  191 (818)
                      -+..+-..+.-.....|.+++|+.+|++.++.         ..|=..|-..|.+++|.++-+.-.+-. ..+|.....-+
T Consensus       798 ~~~e~eakvAvLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~L  868 (1416)
T KOG3617|consen  798 NGEEDEAKVAVLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYL  868 (1416)
T ss_pred             CCcchhhHHHHHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHH
Confidence            12133333444456778888888888887764         234456777888888888765433221 23666666667


Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHH
Q 003457          192 AQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAK  271 (818)
Q Consensus       192 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~  271 (818)
                      -..++.+.|++.|++...    |--..+. |+.-     ++...+++.+.+      .|...|.-....+-..|+++.|+
T Consensus       869 ear~Di~~AleyyEK~~~----hafev~r-mL~e-----~p~~~e~Yv~~~------~d~~L~~WWgqYlES~GemdaAl  932 (1416)
T KOG3617|consen  869 EARRDIEAALEYYEKAGV----HAFEVFR-MLKE-----YPKQIEQYVRRK------RDESLYSWWGQYLESVGEMDAAL  932 (1416)
T ss_pred             HhhccHHHHHHHHHhcCC----hHHHHHH-HHHh-----ChHHHHHHHHhc------cchHHHHHHHHHHhcccchHHHH
Confidence            777888888888876421    1111111 2211     112222222222      23455555666666778888888


Q ss_pred             HHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC-C-
Q 003457          272 ALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYG-I-  349 (818)
Q Consensus       272 ~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g-~-  349 (818)
                      .+|....     -|.++....|-+|+.++|-++-++-      -|......|.+.|...|++.+|..+|.+...-.+ + 
T Consensus       933 ~~Y~~A~-----D~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAIR 1001 (1416)
T KOG3617|consen  933 SFYSSAK-----DYFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQAFSNAIR 1001 (1416)
T ss_pred             HHHHHhh-----hhhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            8887654     3666777777778888887766542      2444555677788888888888877766432100 0 


Q ss_pred             -CCCHHHHHHHHHHH--HHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH----------HHhcCC
Q 003457          350 -EPKIEHYGCMVDLL--GRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKE----------IIALEP  416 (818)
Q Consensus       350 -~p~~~~~~~Li~~~--~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~----------~~~~~P  416 (818)
                       -.....-..|.+..  ....+.-.|-++|++.+..     +...+..|-+.|.+.+|+++.-+          +.+++|
T Consensus      1002 lcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~g~~-----~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~ 1076 (1416)
T KOG3617|consen 1002 LCKENDMKDRLANLALMSGGSDLVSAARYYEELGGY-----AHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDA 1076 (1416)
T ss_pred             HHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHcchh-----hhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCC
Confidence             00000001122222  2233444555666665421     12223346677777777765411          122455


Q ss_pred             C-CcchHHHHHHHHHHhhchHHHHHHHHHH---HHHHHHHhhhhc
Q 003457          417 N-NHGVYVVLSNMYAEAESMKMQLEILLVQ---VLFAGLASAADI  457 (818)
Q Consensus       417 ~-~~~~y~~L~~~l~~~G~~~eA~~l~~~~---~~ll~~~~~~~~  457 (818)
                      + ++...+.-++.+....+|++|..++-..   .-.+..|+..+.
T Consensus      1077 ~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv 1121 (1416)
T KOG3617|consen 1077 GSDPKLLRRCADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNV 1121 (1416)
T ss_pred             CCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            4 5788889999999999999999965443   356777875443

>PF13041 PPR_2: PPR repeat family

Probab=98.97  E-value=1.5e-09  Score=82.30  Aligned_cols=50  Identities=22%  Similarity=0.480  Sum_probs=46.3

Q ss_pred             CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 003457           78 PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSN  127 (818)
Q Consensus        78 p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~  127 (818)
                      ||+.+||+||++|++.|++++|+++|++|++.|++||..||+.++++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            78999999999999999999999999999999999999999999998864

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.96  E-value=1.8e-06  Score=93.81  Aligned_cols=364  Identities=17%  Similarity=0.133  Sum_probs=189.3

Q ss_pred             hcCCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccCChHHHH
Q 003457           60 SSSGDLSYATRLFNSIQ---SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQ-HTFTFVLKACSNVRSLNCCK  135 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~---~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~-~ty~~ll~~~~~~g~~~~A~  135 (818)
                      ...|+++.|...|-...   ++|.+-|..-..+|+..|++++|++=-.+-++  +.|+- ..|.....++.-.|++++|.
T Consensus        13 ~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~eA~   90 (539)
T KOG0548|consen   13 FSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYEEAI   90 (539)
T ss_pred             cccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHHHHH
Confidence            46788888888887654   45667777777788888888887765555554  45553 47777777777788888888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHH------HHhhc-C------CHHHHHHHHHHHHHc--------
Q 003457          136 QIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVF------DEIRN-R------TLNVWTTMISGYAQS--------  194 (818)
Q Consensus       136 ~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~------~~m~~-~------d~~~~~~Li~~~~~~--------  194 (818)
                      .-|.+-++... .+...++.|.+++....   .+.+.|      ..+.. +      ....|..++..+.+.        
T Consensus        91 ~ay~~GL~~d~-~n~~L~~gl~~a~~~~~---~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l  166 (539)
T KOG0548|consen   91 LAYSEGLEKDP-SNKQLKTGLAQAYLEDY---AADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYL  166 (539)
T ss_pred             HHHHHHhhcCC-chHHHHHhHHHhhhHHH---HhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhccc
Confidence            88877777542 25556666666651110   001111      00000 0      001122222221110        


Q ss_pred             --CChHHHHHHHHHH-----HHcC-------CCC----------------------CHHHHHHHHHHHHhcCChhHHHHH
Q 003457          195 --FRANEALMLFDQM-----LMEG-------FEP----------------------NSVTLASVLSACAQSGCLELGEKV  238 (818)
Q Consensus       195 --g~~~~A~~l~~~m-----~~~g-------~~p----------------------d~~t~~~ll~~~~~~g~~~~A~~i  238 (818)
                        .+...+...+...     ...+       ..|                      -..-...+.++..+..+++.+.+-
T Consensus       167 ~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~  246 (539)
T KOG0548|consen  167 NDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQH  246 (539)
T ss_pred             ccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHH
Confidence              0011111111000     0000       001                      112355677777777777777777


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCC---hhhH-------HHHHHHHHHcCCHHHHHHHHHHH
Q 003457          239 HVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERN---IATW-------NAMISGLASHGHAEEALDLFRKL  308 (818)
Q Consensus       239 ~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d---~~~~-------~~Li~~~~~~g~~~~A~~l~~~m  308 (818)
                      +...+...  .+...++....+|...|.+.+....-....+..   ..-|       ..+..+|.+.++++.|+..|.+.
T Consensus       247 y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~ka  324 (539)
T KOG0548|consen  247 YAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQKA  324 (539)
T ss_pred             HHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHH
Confidence            77777664  555666667777777777766665555444311   1112       22333566667777777777776


Q ss_pred             HHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CH
Q 003457          309 EKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKI-EHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DV  385 (818)
Q Consensus       309 ~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~-~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~  385 (818)
                      +.....|+..         .+....+++........   -+.|.. .-...-...+.+.|++.+|++.|.++ ...| |.
T Consensus       325 Lte~Rt~~~l---------s~lk~~Ek~~k~~e~~a---~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~Da  392 (539)
T KOG0548|consen  325 LTEHRTPDLL---------SKLKEAEKALKEAERKA---YINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRDPEDA  392 (539)
T ss_pred             hhhhcCHHHH---------HHHHHHHHHHHHHHHHH---hhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCchh
Confidence            6544343321         12222333333332221   122221 11112244455556666666655555 2223 35


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHH
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILL  443 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~  443 (818)
                      ..|.+..-+|.+.|.+.+|+.-.+..++++|+....|..-+.++.-..+|++|.+.+.
T Consensus       393 ~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~  450 (539)
T KOG0548|consen  393 RLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQ  450 (539)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555556666666665666666666555555555555555556666555443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.96  E-value=1.2e-06  Score=89.68  Aligned_cols=314  Identities=15%  Similarity=0.062  Sum_probs=149.4

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHH-HHHHHHHHHh
Q 003457           85 TLIRAQASSLNPDKAIFLYMNMRRTGFAPNQ-HTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHV-VNCLVRCYSV  162 (818)
Q Consensus        85 ~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~-~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~-~~~Li~~y~~  162 (818)
                      -|.+.+..+|++..|+.-|...++-  .|+. .++-.-...|...|+-..|..-+..+++.  +||... ...-...+.+
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~--dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK  118 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEG--DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLK  118 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcC--CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhh
Confidence            3455556666666666666665542  2222 12223333455566666666666666553  444321 1122334556


Q ss_pred             CCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 003457          163 SSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFV  242 (818)
Q Consensus       163 ~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~  242 (818)
                      .|.+++|+.-|+.+.+.++.           .+...+|.+-+....+      .......+..+...|+...++.....+
T Consensus       119 ~Gele~A~~DF~~vl~~~~s-----------~~~~~eaqskl~~~~e------~~~l~~ql~s~~~~GD~~~ai~~i~~l  181 (504)
T KOG0624|consen  119 QGELEQAEADFDQVLQHEPS-----------NGLVLEAQSKLALIQE------HWVLVQQLKSASGSGDCQNAIEMITHL  181 (504)
T ss_pred             cccHHHHHHHHHHHHhcCCC-----------cchhHHHHHHHHhHHH------HHHHHHHHHHHhcCCchhhHHHHHHHH
Confidence            66666666666666543321           0111111111110000      011222333344455566666666666


Q ss_pred             HHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCC---CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH
Q 003457          243 KMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMP---ERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDIT  319 (818)
Q Consensus       243 ~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~---~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t  319 (818)
                      ++.. +-+...+..-..+|...|+...|+.-++...   ..+...+.-+-..+...|+.+.++...++-++.  .||...
T Consensus       182 lEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~  258 (504)
T KOG0624|consen  182 LEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKL  258 (504)
T ss_pred             HhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--Ccchhh
Confidence            5543 3455555555666666666666655444333   345555555666666667777776666666654  444321


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC-----HHHHHHHHH
Q 003457          320 FVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD-----VVMWGALLA  393 (818)
Q Consensus       320 ~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd-----~~~~~~Li~  393 (818)
                      ...   .|-+   +.+..+.++.|.+                 ..+.++|.++++..++. ...|.     ...+..+-.
T Consensus       259 Cf~---~YKk---lkKv~K~les~e~-----------------~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~  315 (504)
T KOG0624|consen  259 CFP---FYKK---LKKVVKSLESAEQ-----------------AIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCT  315 (504)
T ss_pred             HHH---HHHH---HHHHHHHHHHHHH-----------------HHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeee
Confidence            100   0111   1111111111111                 22344444444444433 22232     112233333


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          394 ACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ++...+++-+|++...+++++.|++..++..-+.+|.-...||+|+.-++..
T Consensus       316 C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A  367 (504)
T KOG0624|consen  316 CYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKA  367 (504)
T ss_pred             cccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4445556666666666666666666666666666666666666666644433

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.93  E-value=9e-07  Score=96.06  Aligned_cols=340  Identities=14%  Similarity=0.057  Sum_probs=218.4

Q ss_pred             HHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChH
Q 003457           88 RAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLN  167 (818)
Q Consensus        88 ~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~  167 (818)
                      .+....|+++.|+.+|.+....... |...|..-..+++..|++++|.+=-.+.++..+. -..-|..+..++.-.|+++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~-nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~-w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPT-NHVLYSNRSAAYASLGSYEKALKDATKTRRLNPD-WAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCC-ccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCc-hhhHHHHhHHHHHhcccHH
Confidence            3456789999999999998886554 8888999999999999999998877777765322 3557888888888999999


Q ss_pred             HHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHH---HHHHHHHHc---CCCCCHHHHHHHHHHHHhc-------CC
Q 003457          168 NARQVFDEIRNR---TLNVWTTMISGYAQSFRANEAL---MLFDQMLME---GFEPNSVTLASVLSACAQS-------GC  231 (818)
Q Consensus       168 ~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~---~l~~~m~~~---g~~pd~~t~~~ll~~~~~~-------g~  231 (818)
                      +|+..|.+-.+.   +...++-+..++.......+..   .++..+...   ........|..++..+.+.       .+
T Consensus        88 eA~~ay~~GL~~d~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~  167 (539)
T KOG0548|consen   88 EAILAYSEGLEKDPSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLN  167 (539)
T ss_pred             HHHHHHHHHhhcCCchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccc
Confidence            999999987764   3445666666652211000000   000000000   0000111122222221110       01


Q ss_pred             hhHHHHHHHHHHH--------c-------CCCC----------------------cHHHHHHHHHHHHhCCCHHHHHHHH
Q 003457          232 LELGEKVHVFVKM--------R-------GFEM----------------------GAILGTALVHMYTKNGALAKAKALF  274 (818)
Q Consensus       232 ~~~A~~i~~~~~~--------~-------g~~~----------------------~~~~~~~Li~~~~~~g~~~~A~~~f  274 (818)
                      .+...+.+..+..        .       ...|                      -..-...+..+..+..+++.|.+-+
T Consensus       168 d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y  247 (539)
T KOG0548|consen  168 DPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHY  247 (539)
T ss_pred             cHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHH
Confidence            1111111111110        0       0011                      0122346788888889999999999


Q ss_pred             hhCCC--CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHH-------HHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 003457          275 DSMPE--RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDI-------TFVGVLSACCHAGFIDVGRQIFGSMKR  345 (818)
Q Consensus       275 ~~m~~--~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~-------t~~~ll~a~~~~g~~~~A~~~~~~m~~  345 (818)
                      ....+  .++.-++....+|...|.+.++...-...++.|-. ...       .+..+..+|.+.++++.++..|.+...
T Consensus       248 ~~a~el~~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLt  326 (539)
T KOG0548|consen  248 AKALELATDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALT  326 (539)
T ss_pred             HHHHhHhhhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhh
Confidence            87775  34445667777888888887777666655554422 112       233344577778899999999999776


Q ss_pred             HhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHH
Q 003457          346 VYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDV-VMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYV  423 (818)
Q Consensus       346 ~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~-~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~  423 (818)
                      .+ ..|+         ...+....+++++..+.. -..|.. .-...-...+.+.|++.+|+..|.+++..+|+++..|.
T Consensus       327 e~-Rt~~---------~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~Da~lYs  396 (539)
T KOG0548|consen  327 EH-RTPD---------LLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRDPEDARLYS  396 (539)
T ss_pred             hh-cCHH---------HHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCchhHHHH
Confidence            52 2222         244556667777766655 244543 23333467788999999999999999999999999999


Q ss_pred             HHHHHHHHhhchHHHHH
Q 003457          424 VLSNMYAEAESMKMQLE  440 (818)
Q Consensus       424 ~L~~~l~~~G~~~eA~~  440 (818)
                      +.+-+|.+.|.+.+|++
T Consensus       397 NRAac~~kL~~~~~aL~  413 (539)
T KOG0548|consen  397 NRAACYLKLGEYPEALK  413 (539)
T ss_pred             HHHHHHHHHhhHHHHHH
Confidence            99999999999999998

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.93  E-value=1.8e-06  Score=97.91  Aligned_cols=123  Identities=15%  Similarity=0.106  Sum_probs=64.5

Q ss_pred             HHHHHHHHhCCCHHHHHHHHhhCCC--C-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC
Q 003457          255 TALVHMYTKNGALAKAKALFDSMPE--R-NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAG  331 (818)
Q Consensus       255 ~~Li~~~~~~g~~~~A~~~f~~m~~--~-d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g  331 (818)
                      ..+...|-..|++++|++.+++..+  | .+..|......|-..|++++|.+.+++.+..... |...-+-....+.+.|
T Consensus       198 ~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~  276 (517)
T PF12569_consen  198 YFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAG  276 (517)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCC
Confidence            4445555566666666666665554  2 2345555556666666666666666666554322 3333344455556666


Q ss_pred             CHHHHHHHHHHHHHHhCCCCCH------HHH--HHHHHHHHHcCCHHHHHHHHHHc
Q 003457          332 FIDVGRQIFGSMKRVYGIEPKI------EHY--GCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       332 ~~~~A~~~~~~m~~~~g~~p~~------~~~--~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                      ++++|.+++....+. +..|-.      ..|  .....+|.+.|++..|++.|...
T Consensus       277 ~~e~A~~~~~~Ftr~-~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v  331 (517)
T PF12569_consen  277 RIEEAEKTASLFTRE-DVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAV  331 (517)
T ss_pred             CHHHHHHHHHhhcCC-CCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            666666666555443 222211      111  23345566666666666555443

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.92  E-value=1.5e-05  Score=90.57  Aligned_cols=401  Identities=13%  Similarity=0.103  Sum_probs=230.4

Q ss_pred             hHHHHHHHHHHHh-CCCCC-hHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC--CCHHHHHH-HHHHHHh-----CCChhH
Q 003457           29 HQLKQIHAQMIIS-SRIQD-HFAASRLLAFCALSSSGDLSYATRLFNSIQS--PNHFMWNT-LIRAQAS-----SLNPDK   98 (818)
Q Consensus        29 ~~~~~~~~~~~~~-g~~~d-~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~--p~~~~yn~-Li~~~~~-----~g~~~~   98 (818)
                      ++.++..+.+.+. ..-.| ..........+  .+.|+.++|..+|..+..  |+-..|.. +..+...     ..+.+.
T Consensus        18 g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll--~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~~~~~~~   95 (517)
T PF12569_consen   18 GDYEEALEHLEKNEKQILDKLAVLEKRAELL--LKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQLSDEDVEK   95 (517)
T ss_pred             CCHHHHHHHHHhhhhhCCCHHHHHHHHHHHH--HHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhcccccccHHH
Confidence            3334444444332 23344 34444444555  788888888888887763  44444443 3333311     124566


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCh-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhh
Q 003457           99 AIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSL-NCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIR  177 (818)
Q Consensus        99 Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~  177 (818)
                      ..++|+++...-  |.......+.-.+.....+ ..+..++..+++.|++   .+++.|-..|......+-..+++....
T Consensus        96 ~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~~~~~  170 (517)
T PF12569_consen   96 LLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLVEEYV  170 (517)
T ss_pred             HHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHHHHHH
Confidence            677777776542  3333333332222221122 2345556666666754   355666666665555555555555543


Q ss_pred             c------------------CCHH--HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChhHHH
Q 003457          178 N------------------RTLN--VWTTMISGYAQSFRANEALMLFDQMLMEGFEPN-SVTLASVLSACAQSGCLELGE  236 (818)
Q Consensus       178 ~------------------~d~~--~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd-~~t~~~ll~~~~~~g~~~~A~  236 (818)
                      .                  +...  ++..+...|-..|++++|++++++.++.  .|+ ...|..-.+.+-+.|++++|.
T Consensus       171 ~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa  248 (517)
T PF12569_consen  171 NSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAA  248 (517)
T ss_pred             HhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHH
Confidence            1                  1111  4567788888999999999999999987  455 667888889999999999999


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChh----------hHH--HHHHHHHHcCCHHHHHHH
Q 003457          237 KVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIA----------TWN--AMISGLASHGHAEEALDL  304 (818)
Q Consensus       237 ~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~----------~~~--~Li~~~~~~g~~~~A~~l  304 (818)
                      ..++.+...+ ..|..+-+..+..+.++|+.++|.+++....+++..          .|.  ....+|.+.|++..|+..
T Consensus       249 ~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~  327 (517)
T PF12569_consen  249 EAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKR  327 (517)
T ss_pred             HHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            9999999886 557777788889999999999999999888764421          232  235678899999999888


Q ss_pred             HHHHHHc--CC---CCCHHHH----------HHHHHHHHHcCC-------HHHHHHHHHHHHHHhCCCC-----------
Q 003457          305 FRKLEKE--QI---VPNDITF----------VGVLSACCHAGF-------IDVGRQIFGSMKRVYGIEP-----------  351 (818)
Q Consensus       305 ~~~m~~~--g~---~pd~~t~----------~~ll~a~~~~g~-------~~~A~~~~~~m~~~~g~~p-----------  351 (818)
                      |..+.+.  .+   .-|-++|          ..+++..-+...       ...|.++|-.+........           
T Consensus       328 ~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l~~~~~y~raa~~ai~iYl~l~d~~~~~~~~~~~~~~~~~  407 (517)
T PF12569_consen  328 FHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKLRSHPFYRRAAKGAIRIYLELHDKPEAKQGEEQEADNENM  407 (517)
T ss_pred             HHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHhcCcccccccccccccccC
Confidence            7766542  11   2233333          222222111111       1223333333322100000           


Q ss_pred             CHHHHHHHHHHH---HHcCCHHHHHHHH-HH----------c----CCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHH
Q 003457          352 KIEHYGCMVDLL---GRCGKVLEAEELI-KR----------M----VWKPDVVMWGALLAACKNHG-NIEVAERVVKEII  412 (818)
Q Consensus       352 ~~~~~~~Li~~~---~~~g~~~~A~~~~-~~----------m----~~~pd~~~~~~Li~a~~~~g-~~~~A~~~~~~~~  412 (818)
                      +..--..+..-.   .+...-+++.+.= ++          .    ..+.|...   +..-+.+.. =.++|.++++-+.
T Consensus       408 ~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~Dp---~GekL~~t~dPLe~A~kfl~pL~  484 (517)
T PF12569_consen  408 SAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKEKVEPKKKDDDP---LGEKLLKTEDPLEEAMKFLKPLL  484 (517)
T ss_pred             ChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccccccCCcCCCCc---cHHHHhcCCcHHHHHHHHHHHHH
Confidence            000000000000   0111111111100 00          0    01112111   122233334 4789999999999


Q ss_pred             hcCCCCcchHHHHHHHHHHhhchHHHHHHH
Q 003457          413 ALEPNNHGVYVVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       413 ~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~  442 (818)
                      +..|++.+.|..-.++|.|.|++--|++.+
T Consensus       485 ~~a~~~~et~~laFeVy~Rk~K~LLaLqaL  514 (517)
T PF12569_consen  485 ELAPDNIETHLLAFEVYLRKGKYLLALQAL  514 (517)
T ss_pred             HhCccchhhHHHHhHHHHhcCcHHHHHHHH
Confidence            999999999999999999999999888844

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.90  E-value=1.8e-06  Score=88.66  Aligned_cols=142  Identities=9%  Similarity=0.030  Sum_probs=88.3

Q ss_pred             hhcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHH
Q 003457           59 LSSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCK  135 (818)
Q Consensus        59 ~~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~  135 (818)
                      +-+.|++++|...+..+.+   ++...+-.|.-.+.-.|.+.+|..+-.+..+     +.-.-..|+....+.++-++-.
T Consensus        67 ~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~  141 (557)
T KOG3785|consen   67 YFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRIL  141 (557)
T ss_pred             HHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHH
Confidence            3577888888888776652   4555555555555555667777665443322     3344455556666777777766


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHH--HHHH-HHHHHHHcCChHHHHHHHHHHHHc
Q 003457          136 QIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLN--VWTT-MISGYAQSFRANEALMLFDQMLME  210 (818)
Q Consensus       136 ~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~--~~~~-Li~~~~~~g~~~~A~~l~~~m~~~  210 (818)
                      .+++.+-+.     ..--.+|..+.-..-.+.+|++++.++...+..  ..|. +.-+|.+..-++-+.++++-.+..
T Consensus       142 ~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q  214 (557)
T KOG3785|consen  142 TFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ  214 (557)
T ss_pred             HHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh
Confidence            666655432     233344555555556788888888888765443  4443 445667777788888888777665

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=98.89  E-value=1.9e-07  Score=105.86  Aligned_cols=325  Identities=15%  Similarity=0.153  Sum_probs=158.3

Q ss_pred             CCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 003457           77 SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCL  156 (818)
Q Consensus        77 ~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~L  156 (818)
                      .|+.++|..+|.-|+..|+.+.|- +|.-|+-+....+...|+.++....+.++.+.++           .|-..+|..|
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDtyt~L   89 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLADTYTNL   89 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchhHHHHH
Confidence            466777777777777777777766 6776666666666667777777766666666554           5566677777


Q ss_pred             HHHHHhCCChHH---HHHHHHHhhcC-------CHHHH---------------HHHHHHHHHcCChHHHHHHHHHHHHcC
Q 003457          157 VRCYSVSSDLNN---ARQVFDEIRNR-------TLNVW---------------TTMISGYAQSFRANEALMLFDQMLMEG  211 (818)
Q Consensus       157 i~~y~~~g~~~~---A~~l~~~m~~~-------d~~~~---------------~~Li~~~~~~g~~~~A~~l~~~m~~~g  211 (818)
                      ..+|.+.||+..   .++.+..+...       ...-|               ...+......|.++.+++++..+--..
T Consensus        90 l~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa  169 (1088)
T KOG4318|consen   90 LKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSA  169 (1088)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCccc
Confidence            777777777654   22211111110       00001               112222233344444444443331110


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCC----hhhHHH
Q 003457          212 FEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERN----IATWNA  287 (818)
Q Consensus       212 ~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d----~~~~~~  287 (818)
                        .+. ++..+++-+...  ..-.+++........-.++..++.++++.-...|+.+.|..++.+|.+..    ..-+-.
T Consensus       170 --~~~-p~~vfLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwp  244 (1088)
T KOG4318|consen  170 --WNA-PFQVFLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWP  244 (1088)
T ss_pred             --ccc-hHHHHHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchh
Confidence              000 111122222221  22222333322222114566666666666666666666666666666532    111222


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC
Q 003457          288 MISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCG  367 (818)
Q Consensus       288 Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g  367 (818)
                      |+.+   .++..-++.+++-|++.|+.|+..|+...+..+.+.|....+..         +. +....+++-...-.-.|
T Consensus       245 Ll~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e---------~s-q~~hg~tAavrsaa~rg  311 (1088)
T KOG4318|consen  245 LLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEE---------GS-QLAHGFTAAVRSAACRG  311 (1088)
T ss_pred             hhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhccc---------cc-chhhhhhHHHHHHHhcc
Confidence            2222   55555666666666666666666666655555555333221111         11 11111111111111111


Q ss_pred             CHHHHHHHHHHc---------C------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh----cCCCCcchHHHHHHH
Q 003457          368 KVLEAEELIKRM---------V------WKPDVVMWGALLAACKNHGNIEVAERVVKEIIA----LEPNNHGVYVVLSNM  428 (818)
Q Consensus       368 ~~~~A~~~~~~m---------~------~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~----~~P~~~~~y~~L~~~  428 (818)
                        ..|.+.+++-         +      ..-....| ++..-..++|+-++.+++...+..    +.|++...+..+..-
T Consensus       312 --~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiw-s~c~~l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrq  388 (1088)
T KOG4318|consen  312 --LLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIW-SMCEKLRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQ  388 (1088)
T ss_pred             --cHhHHHHHHHHHHHHHHHhhHHHHhccccchHHH-HHHHHHHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHH
Confidence              2222222211         0      11111233 333345568888888888877753    567777888777766


Q ss_pred             HHHhhc
Q 003457          429 YAEAES  434 (818)
Q Consensus       429 l~~~G~  434 (818)
                      |.+.-+
T Consensus       389 yFrr~e  394 (1088)
T KOG4318|consen  389 YFRRIE  394 (1088)
T ss_pred             HHHHHH
Confidence            665443

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.86  E-value=9.4e-07  Score=86.34  Aligned_cols=193  Identities=16%  Similarity=0.063  Sum_probs=99.1

Q ss_pred             HHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHH
Q 003457          224 SACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEE  300 (818)
Q Consensus       224 ~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~  300 (818)
                      ..|.+.|+...|++-++++++.. +.+..++..+...|.+.|+.+.|.+.|++...   .+-...|....-+|.+|++++
T Consensus        43 l~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~e  121 (250)
T COG3063          43 LGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEE  121 (250)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHH
Confidence            34444444444444444444443 23334444444444444444444444444332   233344444555555556666


Q ss_pred             HHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc
Q 003457          301 ALDLFRKLEKEQIVP-NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       301 A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                      |...|++....-.-+ -..+|..+.-+..+.|+.+.|...|++.++.  .+-.......+.+...+.|++..|..++++.
T Consensus       122 A~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~--dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~  199 (250)
T COG3063         122 AMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL--DPQFPPALLELARLHYKAGDYAPARLYLERY  199 (250)
T ss_pred             HHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh--CcCCChHHHHHHHHHHhcccchHHHHHHHHH
Confidence            666665555431111 1245555555555666666666666665543  2233445555666666666666666666655


Q ss_pred             C--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc
Q 003457          380 V--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNH  419 (818)
Q Consensus       380 ~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~  419 (818)
                      .  ..+....+...|..-...|+.+.+-++=.++.+..|...
T Consensus       200 ~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~  241 (250)
T COG3063         200 QQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSE  241 (250)
T ss_pred             HhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcH
Confidence            2  224555555555555666666666666666666666643

>PF13041 PPR_2: PPR repeat family

Probab=98.85  E-value=7.1e-09  Score=78.58  Aligned_cols=50  Identities=34%  Similarity=0.672  Sum_probs=45.3

Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 003457          280 RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCH  329 (818)
Q Consensus       280 ~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~  329 (818)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|++||..||+.++++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            68889999999999999999999999999999999999999999998864

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.84  E-value=8e-06  Score=90.01  Aligned_cols=191  Identities=10%  Similarity=0.001  Sum_probs=90.3

Q ss_pred             HHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CCH--HHHHHHHHHHHH
Q 003457          256 ALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIV-PND--ITFVGVLSACCH  329 (818)
Q Consensus       256 ~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~-pd~--~t~~~ll~a~~~  329 (818)
                      .+...+...|++++|.+.+++..+   .+...+..+...|...|++++|+.++++..+.... |+.  ..+..+...+..
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~  198 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLE  198 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHH
Confidence            344455555555555555555543   23344555555555666666666666555543211 121  123344555556


Q ss_pred             cCCHHHHHHHHHHHHHHhCCCCCHHHH-H--HHHHHHHHcCCHHHHHHH---HHHc----CCCCCHHHHHHHHHHHHHcC
Q 003457          330 AGFIDVGRQIFGSMKRVYGIEPKIEHY-G--CMVDLLGRCGKVLEAEEL---IKRM----VWKPDVVMWGALLAACKNHG  399 (818)
Q Consensus       330 ~g~~~~A~~~~~~m~~~~g~~p~~~~~-~--~Li~~~~~~g~~~~A~~~---~~~m----~~~pd~~~~~~Li~a~~~~g  399 (818)
                      .|++++|..+++++.......+..... +  .++..+...|....+.+.   ....    ..............++...|
T Consensus       199 ~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  278 (355)
T cd05804         199 RGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAG  278 (355)
T ss_pred             CCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCC
Confidence            666666666666543220101111111 1  122222223321111111   1110    00001111123444566777


Q ss_pred             CHHHHHHHHHHHHhcC-C--------CCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          400 NIEVAERVVKEIIALE-P--------NNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       400 ~~~~A~~~~~~~~~~~-P--------~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      +.++|...++.+.... .        .........+.++.+.|++++|.+.+...+
T Consensus       279 ~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al  334 (355)
T cd05804         279 DKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVR  334 (355)
T ss_pred             CHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7777777776665421 1        124555667777788888888888665553

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.83  E-value=7.7e-06  Score=90.56  Aligned_cols=65  Identities=18%  Similarity=0.183  Sum_probs=55.8

Q ss_pred             CCCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          382 KPDVV--MWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       382 ~pd~~--~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .|...  ++..++..+-+.|+++.|+.+.+.+++--|.-++.|..-++++..+|.+++|...++...
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~  432 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQ  432 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHH
Confidence            35544  445566778899999999999999999999999999999999999999999999876663

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.81  E-value=0.0002  Score=79.46  Aligned_cols=364  Identities=14%  Similarity=0.168  Sum_probs=205.0

Q ss_pred             HHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 003457           65 LSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRT-GFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSK  143 (818)
Q Consensus        65 ~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~-g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~  143 (818)
                      ++.++..+.+|+    ..|-.-+..+.++++.......|++.... -+.-....|...+.-....+-++-+..+++..++
T Consensus        91 ~er~lv~mHkmp----RIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk  166 (835)
T KOG2047|consen   91 FERCLVFMHKMP----RIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLK  166 (835)
T ss_pred             HHHHHHHHhcCC----HHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            344444444442    33444555555666666666666555442 1111223455555555555555666666666655


Q ss_pred             cCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCH----------HHHHHHHHHHHHcCCh---HHHHHHHHHHHHc
Q 003457          144 SGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTL----------NVWTTMISGYAQSFRA---NEALMLFDQMLME  210 (818)
Q Consensus       144 ~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~----------~~~~~Li~~~~~~g~~---~~A~~l~~~m~~~  210 (818)
                      ..    +..-.-.+..+++.+++++|.+.+..+...+.          ..|..+-....++.+.   -...++++.++..
T Consensus       167 ~~----P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r  242 (835)
T KOG2047|consen  167 VA----PEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR  242 (835)
T ss_pred             cC----HHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc
Confidence            32    22244455555666666666666655543221          1344333333332211   1222333333322


Q ss_pred             CCCCCH--HHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCC----------------------C
Q 003457          211 GFEPNS--VTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNG----------------------A  266 (818)
Q Consensus       211 g~~pd~--~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g----------------------~  266 (818)
                        -+|.  ..|.+|..-|.+.|++++|..+|++.++.-  ..+.-|..+.++|++-.                      +
T Consensus       243 --ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~d  318 (835)
T KOG2047|consen  243 --FTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVD  318 (835)
T ss_pred             --CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhh
Confidence              2232  345555666666666666666666655541  22222233333332211                      1


Q ss_pred             HHHHHHHHhhCCC---------------CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC------HHHHHHHHH
Q 003457          267 LAKAKALFDSMPE---------------RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPN------DITFVGVLS  325 (818)
Q Consensus       267 ~~~A~~~f~~m~~---------------~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd------~~t~~~ll~  325 (818)
                      ++-....|+.+..               .++..|..-..  +..|+..+-...|.++.+. +.|-      ...+..+..
T Consensus       319 l~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~fak  395 (835)
T KOG2047|consen  319 LELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAK  395 (835)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHH
Confidence            2222333333322               13333433222  3357788888888888764 2332      235677788


Q ss_pred             HHHHcCCHHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHcCCCC-------------------
Q 003457          326 ACCHAGFIDVGRQIFGSMKRVYGIEPK---IEHYGCMVDLLGRCGKVLEAEELIKRMVWKP-------------------  383 (818)
Q Consensus       326 a~~~~g~~~~A~~~~~~m~~~~g~~p~---~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~p-------------------  383 (818)
                      .|...|+++.|..+|++..+. ..+--   ..+|..-..+=.++.+++.|+++++++..-|                   
T Consensus       396 lYe~~~~l~~aRvifeka~~V-~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlh  474 (835)
T KOG2047|consen  396 LYENNGDLDDARVIFEKATKV-PYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLH  474 (835)
T ss_pred             HHHhcCcHHHHHHHHHHhhcC-CccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHH
Confidence            899999999999999997764 22111   4567777777788899999999998873111                   


Q ss_pred             -CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHH
Q 003457          384 -DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLV  444 (818)
Q Consensus       384 -d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~  444 (818)
                       +...|..+++.....|-++.-..+|++++++.--.|..-.+.+..+....-++++.++++.
T Consensus       475 rSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YEr  536 (835)
T KOG2047|consen  475 RSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYER  536 (835)
T ss_pred             HhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHc
Confidence             2345666666666778888888999999988766677888888888888889999887654

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.80  E-value=1.2e-05  Score=88.33  Aligned_cols=377  Identities=13%  Similarity=0.036  Sum_probs=216.5

Q ss_pred             HHHhhhhcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 003457           54 LAFCALSSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRS  130 (818)
Q Consensus        54 l~~~a~~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~  130 (818)
                      +.++  .+.+++++|.+..+++..   .+...+..=+-++.+.+++++|+.+.+.-..  ..-+...+..-.....+.+.
T Consensus        19 ln~~--~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~--~~~~~~~~fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   19 LNRH--GKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGA--LLVINSFFFEKAYCEYRLNK   94 (652)
T ss_pred             HHHh--ccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch--hhhcchhhHHHHHHHHHccc
Confidence            3555  899999999999998873   4566677777788899999999966543221  11111111122333458899


Q ss_pred             hHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 003457          131 LNCCKQIHTHVSKSGLDL-DLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLM  209 (818)
Q Consensus       131 ~~~A~~~~~~m~~~g~~p-~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~  209 (818)
                      .++|...++     |..+ +..+...-...+-+.+++++|.++|+.+.+.+...+...+++-+..--......+   |..
T Consensus        95 ~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~---~q~  166 (652)
T KOG2376|consen   95 LDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQL---LQS  166 (652)
T ss_pred             HHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHH---HHh
Confidence            999999887     2232 3446666778888999999999999999877666555444332221111111111   222


Q ss_pred             cCCCCCHHHHHHHH---HHHHhcCChhHHHHHHHHHHHc-------------CCCCcH-HHHHHHHHHHHhCCCHHHHHH
Q 003457          210 EGFEPNSVTLASVL---SACAQSGCLELGEKVHVFVKMR-------------GFEMGA-ILGTALVHMYTKNGALAKAKA  272 (818)
Q Consensus       210 ~g~~pd~~t~~~ll---~~~~~~g~~~~A~~i~~~~~~~-------------g~~~~~-~~~~~Li~~~~~~g~~~~A~~  272 (818)
                      ....| ..+|..+.   -.+...|++.+|+++++...+.             ++..+. .+...|.-.+...|+.++|..
T Consensus       167 v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~  245 (652)
T KOG2376|consen  167 VPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASS  245 (652)
T ss_pred             ccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence            22233 33555444   3446789999999999988321             112221 233456777889999999999


Q ss_pred             HHhhCCCC---Ch----hhHHHHHHHHHHc----------------CCHHHHHHH-------------------------
Q 003457          273 LFDSMPER---NI----ATWNAMISGLASH----------------GHAEEALDL-------------------------  304 (818)
Q Consensus       273 ~f~~m~~~---d~----~~~~~Li~~~~~~----------------g~~~~A~~l-------------------------  304 (818)
                      +|..+.+.   |.    ..-|.|+..-...                ...+.++.-                         
T Consensus       246 iy~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q  325 (652)
T KOG2376|consen  246 IYVDIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQ  325 (652)
T ss_pred             HHHHHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence            99887642   11    1111111110000                000000000                         


Q ss_pred             HHHHHHc--CCCCCHHHHHHHHHHHHH--cCCHHHHHHHHHHHHHHhCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHH--
Q 003457          305 FRKLEKE--QIVPNDITFVGVLSACCH--AGFIDVGRQIFGSMKRVYGIEPK-IEHYGCMVDLLGRCGKVLEAEELIK--  377 (818)
Q Consensus       305 ~~~m~~~--g~~pd~~t~~~ll~a~~~--~g~~~~A~~~~~~m~~~~g~~p~-~~~~~~Li~~~~~~g~~~~A~~~~~--  377 (818)
                      .++....  +..|. ..+..++..+.+  ...+.++..++....+.  .+-+ ..+...++......|+++.|++++.  
T Consensus       326 ~r~~~a~lp~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~  402 (652)
T KOG2376|consen  326 VRELSASLPGMSPE-SLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEILSLF  402 (652)
T ss_pred             HHHHHHhCCccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            0011111  11222 233344433322  22466677776665543  3333 4556677777888999999999888  


Q ss_pred             ------HcC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh----cCCC---CcchHHHHHHHHHHhhchHHHHHHHH
Q 003457          378 ------RMV-WKPDVVMWGALLAACKNHGNIEVAERVVKEIIA----LEPN---NHGVYVVLSNMYAEAESMKMQLEILL  443 (818)
Q Consensus       378 ------~m~-~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~----~~P~---~~~~y~~L~~~l~~~G~~~eA~~l~~  443 (818)
                            ... ..-.+.+...+...+.+.++.+.|..++.++++    ..+.   ....+..++..-.+.|+-++|..+++
T Consensus       403 ~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~le  482 (652)
T KOG2376|consen  403 LESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLE  482 (652)
T ss_pred             hhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHH
Confidence                  331 122234445555666777777777777776664    1222   22334455556668899999999776


Q ss_pred             HHH
Q 003457          444 VQV  446 (818)
Q Consensus       444 ~~~  446 (818)
                      .+.
T Consensus       483 el~  485 (652)
T KOG2376|consen  483 ELV  485 (652)
T ss_pred             HHH
Confidence            653

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.79  E-value=4e-06  Score=84.27  Aligned_cols=375  Identities=12%  Similarity=0.039  Sum_probs=238.1

Q ss_pred             hhcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHH-HHHHHccCChHHH
Q 003457           59 LSSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFV-LKACSNVRSLNCC  134 (818)
Q Consensus        59 ~~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~l-l~~~~~~g~~~~A  134 (818)
                      +.+..++++|++++..-.+   ++....+.|..+|....++..|-.+|+++-.  ..|...-|... ...+.+.+.+..|
T Consensus        20 lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~q--l~P~~~qYrlY~AQSLY~A~i~ADA   97 (459)
T KOG4340|consen   20 LIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQ--LHPELEQYRLYQAQSLYKACIYADA   97 (459)
T ss_pred             HHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hChHHHHHHHHHHHHHHHhcccHHH
Confidence            3678889999998876553   3667788888899999999999999999877  45566555443 3456678888899


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHH--HHHHhCCChHHHHHHHHHhhc-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 003457          135 KQIHTHVSKSGLDLDLHVVNCLV--RCYSVSSDLNNARQVFDEIRN-RTLNVWTTMISGYAQSFRANEALMLFDQMLMEG  211 (818)
Q Consensus       135 ~~~~~~m~~~g~~p~~~~~~~Li--~~y~~~g~~~~A~~l~~~m~~-~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g  211 (818)
                      .++...|.+.   ++...-..-+  ...-..+|+..+..+.++... .+..+.+.......+.|+++.|.+-|+...+-+
T Consensus        98 LrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvs  174 (459)
T KOG4340|consen   98 LRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVS  174 (459)
T ss_pred             HHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhc
Confidence            9888877543   1211111111  122357888889999999884 566677777778889999999999999987754


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC-------------cH---------------HHHHHHHHHHHh
Q 003457          212 FEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEM-------------GA---------------ILGTALVHMYTK  263 (818)
Q Consensus       212 ~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~-------------~~---------------~~~~~Li~~~~~  263 (818)
                      ---....|+..+ +..+.++.+.|.+...+++.+|+..             |+               ..+|.-...+.+
T Consensus       175 GyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq  253 (459)
T KOG4340|consen  175 GYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQ  253 (459)
T ss_pred             CCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhh
Confidence            333345666544 4556788999999999988876432             11               122333345678


Q ss_pred             CCCHHHHHHHHhhCCC-----CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 003457          264 NGALAKAKALFDSMPE-----RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQ  338 (818)
Q Consensus       264 ~g~~~~A~~~f~~m~~-----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~  338 (818)
                      .++++.|.+.+..|..     -|+++...+.-.- ..+++.+..+-+.-+....+- ...||..++-.||+..-++.|-.
T Consensus       254 ~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPf-P~ETFANlLllyCKNeyf~lAAD  331 (459)
T KOG4340|consen  254 LRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPF-PPETFANLLLLYCKNEYFDLAAD  331 (459)
T ss_pred             cccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCC-ChHHHHHHHHHHhhhHHHhHHHH
Confidence            8999999999999985     3667666554322 235566666666666666543 45788888889999998988888


Q ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHH-HcCCHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHcCC---HHHHHHHHHHHH
Q 003457          339 IFGSMKRVYGIEPKIEHYGCMVDLLG-RCGKVLEAEELIKRMVWKPD--VVMWGALLAACKNHGN---IEVAERVVKEII  412 (818)
Q Consensus       339 ~~~~m~~~~g~~p~~~~~~~Li~~~~-~~g~~~~A~~~~~~m~~~pd--~~~~~~Li~a~~~~g~---~~~A~~~~~~~~  412 (818)
                      ++.+-....-.-.+...|+ |++++. ..-..++|++-++.+...--  ......-+..-...++   ...|++-|++.+
T Consensus       332 vLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~vQe~r~~~dd~a~R~ai~~Yd~~L  410 (459)
T KOG4340|consen  332 VLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQEARHNRDDEAIRKAVNEYDETL  410 (459)
T ss_pred             HHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            7765211100012233343 344443 35567777776665521000  0111111111111221   223334445555


Q ss_pred             hcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          413 ALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       413 ~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ++.   .......+.+|.+..++..++++|+.-
T Consensus       411 E~Y---LPVlMa~AkiyW~~~Dy~~vEk~Fr~S  440 (459)
T KOG4340|consen  411 EKY---LPVLMAQAKIYWNLEDYPMVEKIFRKS  440 (459)
T ss_pred             HHH---HHHHHHHHHhhccccccHHHHHHHHHH
Confidence            442   234566778888888888888877654

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.79  E-value=1.5e-05  Score=87.79  Aligned_cols=190  Identities=14%  Similarity=0.078  Sum_probs=91.1

Q ss_pred             HHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCC-----Ch--hhHHHHHHHHHHcC
Q 003457          224 SACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPER-----NI--ATWNAMISGLASHG  296 (818)
Q Consensus       224 ~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~-----d~--~~~~~Li~~~~~~g  296 (818)
                      ..+...|++++|.+.+++..+.. +.+...+..+..+|...|++++|...+++..+.     +.  ..|..+...+...|
T Consensus       122 ~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G  200 (355)
T cd05804         122 FGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERG  200 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCC
Confidence            44445555555555555555543 333444445555555555555555555544431     11  12344556666667


Q ss_pred             CHHHHHHHHHHHHHcCC-CCCHHHH-H--HHHHHHHHcCCHHHHHHH--HHHHHHHhCCC--CCHHHHHHHHHHHHHcCC
Q 003457          297 HAEEALDLFRKLEKEQI-VPNDITF-V--GVLSACCHAGFIDVGRQI--FGSMKRVYGIE--PKIEHYGCMVDLLGRCGK  368 (818)
Q Consensus       297 ~~~~A~~l~~~m~~~g~-~pd~~t~-~--~ll~a~~~~g~~~~A~~~--~~~m~~~~g~~--p~~~~~~~Li~~~~~~g~  368 (818)
                      ++++|+.+++++..... .+..... +  .++.-+...|....+.+.  ....... ..+  ...........++...|+
T Consensus       201 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~  279 (355)
T cd05804         201 DYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAW-HFPDHGLAFNDLHAALALAGAGD  279 (355)
T ss_pred             CHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHh-hcCcccchHHHHHHHHHHhcCCC
Confidence            77777777666643322 1111111 1  122222233332222222  1111111 011  111222245566777888


Q ss_pred             HHHHHHHHHHcC--CCC---C------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Q 003457          369 VLEAEELIKRMV--WKP---D------VVMWGALLAACKNHGNIEVAERVVKEIIALE  415 (818)
Q Consensus       369 ~~~A~~~~~~m~--~~p---d------~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~  415 (818)
                      .++|.+.++.+.  ...   .      ........-++...|+.++|.+.+.+++.+.
T Consensus       280 ~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         280 KDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            888888887762  111   1      1112222234568899999999998887643

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.78  E-value=4.5e-07  Score=95.93  Aligned_cols=248  Identities=12%  Similarity=0.065  Sum_probs=162.3

Q ss_pred             HHhCCChHHHHHHHHHhhcC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHH
Q 003457          160 YSVSSDLNNARQVFDEIRNR----TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELG  235 (818)
Q Consensus       160 y~~~g~~~~A~~l~~~m~~~----d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A  235 (818)
                      +.-.|.+..++.-.+ ....    +......+.+++...|+++.++.   ++.+.. .|.......+...+....+.+.+
T Consensus        11 ~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei~~~~-~~~l~av~~la~y~~~~~~~e~~   85 (290)
T PF04733_consen   11 QFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVLS---EIKKSS-SPELQAVRLLAEYLSSPSDKESA   85 (290)
T ss_dssp             HHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHHH---HS-TTS-SCCCHHHHHHHHHHCTSTTHHCH
T ss_pred             HHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHHH---HhccCC-ChhHHHHHHHHHHHhCccchHHH
Confidence            334566666665444 2221    22245566778888888775543   333332 56666655555544433444444


Q ss_pred             HHHHHHHHHcCCC-CcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Q 003457          236 EKVHVFVKMRGFE-MGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIV  314 (818)
Q Consensus       236 ~~i~~~~~~~g~~-~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~  314 (818)
                      ..-++........ .+..+......++...|++++|++++.+.  .+.......+..|.+.++++.|.+.++.|.+.  .
T Consensus        86 l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~  161 (290)
T PF04733_consen   86 LEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--D  161 (290)
T ss_dssp             HHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--S
T ss_pred             HHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--C
Confidence            4444433333222 23344444456777889999999888776  56677777888999999999999999999875  3


Q ss_pred             CCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHH
Q 003457          315 PNDITFVGVLSACCH----AGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMW  388 (818)
Q Consensus       315 pd~~t~~~ll~a~~~----~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~  388 (818)
                      .| .+...+..++..    ...+.+|..+|+++..+  ..+++.+.+.+..++...|++++|.++++++ ...| |..++
T Consensus       162 eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~--~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~L  238 (290)
T PF04733_consen  162 ED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK--FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTL  238 (290)
T ss_dssp             CC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC--S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHH
T ss_pred             Cc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHH
Confidence            33 445555555443    34689999999998764  6788899999999999999999999999887 3334 57788


Q ss_pred             HHHHHHHHHcCCH-HHHHHHHHHHHhcCCCCc
Q 003457          389 GALLAACKNHGNI-EVAERVVKEIIALEPNNH  419 (818)
Q Consensus       389 ~~Li~a~~~~g~~-~~A~~~~~~~~~~~P~~~  419 (818)
                      .+++......|+. +.+.+++.++.+..|+++
T Consensus       239 aNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~  270 (290)
T PF04733_consen  239 ANLIVCSLHLGKPTEAAERYLSQLKQSNPNHP  270 (290)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHhCCCCh
Confidence            8888888888887 778888899888999843

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.78  E-value=1.1e-05  Score=100.68  Aligned_cols=321  Identities=12%  Similarity=-0.000  Sum_probs=205.4

Q ss_pred             HHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC----C---H-----HHHHHHHHHHH
Q 003457          125 CSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR----T---L-----NVWTTMISGYA  192 (818)
Q Consensus       125 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~----d---~-----~~~~~Li~~~~  192 (818)
                      ....|+++.+...++.+-......+..........+...|++++|...+....+.    +   .     .....+...+.
T Consensus       384 l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~  463 (903)
T PRK04841        384 LFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAI  463 (903)
T ss_pred             HHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHH
Confidence            4455677666666555421111112223334455566789999998888776421    1   1     12223445667


Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCChhHHHHHHHHHHHcCC---CC--cHHHHHHHHHHHHh
Q 003457          193 QSFRANEALMLFDQMLMEGFEPNS----VTLASVLSACAQSGCLELGEKVHVFVKMRGF---EM--GAILGTALVHMYTK  263 (818)
Q Consensus       193 ~~g~~~~A~~l~~~m~~~g~~pd~----~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~---~~--~~~~~~~Li~~~~~  263 (818)
                      ..|++++|...+++..+.-...+.    .....+...+...|++++|...+++......   .+  .......+...+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            889999999999998764212222    2334455667789999999999988875411   11  12344566778889


Q ss_pred             CCCHHHHHHHHhhCCC-------C----ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCC--HHHHHHHHHHHH
Q 003457          264 NGALAKAKALFDSMPE-------R----NIATWNAMISGLASHGHAEEALDLFRKLEKE--QIVPN--DITFVGVLSACC  328 (818)
Q Consensus       264 ~g~~~~A~~~f~~m~~-------~----d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~--g~~pd--~~t~~~ll~a~~  328 (818)
                      .|++++|...+++..+       +    ....+..+...+...|++++|...+++....  ...+.  ...+..+...+.
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            9999999988876543       1    1223445566777889999999999887653  11122  334445666788


Q ss_pred             HcCCHHHHHHHHHHHHHHhCCCCCHHHH-----HHHHHHHHHcCCHHHHHHHHHHcCCC--CCH----HHHHHHHHHHHH
Q 003457          329 HAGFIDVGRQIFGSMKRVYGIEPKIEHY-----GCMVDLLGRCGKVLEAEELIKRMVWK--PDV----VMWGALLAACKN  397 (818)
Q Consensus       329 ~~g~~~~A~~~~~~m~~~~g~~p~~~~~-----~~Li~~~~~~g~~~~A~~~~~~m~~~--pd~----~~~~~Li~a~~~  397 (818)
                      ..|++++|.+.++.+............+     ...+..+...|+.++|.+.+......  ...    ..+..+..++..
T Consensus       624 ~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~  703 (903)
T PRK04841        624 ARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQIL  703 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHH
Confidence            8999999999988875531111111111     11224456689999999998776321  111    123456667889


Q ss_pred             cCCHHHHHHHHHHHHhcC------CCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          398 HGNIEVAERVVKEIIALE------PNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       398 ~g~~~~A~~~~~~~~~~~------P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .|++++|...++++++..      ++....+..++.++.+.|+.++|.+.+...
T Consensus       704 ~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~A  757 (903)
T PRK04841        704 LGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEA  757 (903)
T ss_pred             cCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999999999987742      223457788899999999999999976555

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.76  E-value=3.9e-06  Score=96.57  Aligned_cols=147  Identities=13%  Similarity=0.025  Sum_probs=108.1

Q ss_pred             CHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 003457          332 FIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVK  409 (818)
Q Consensus       332 ~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~  409 (818)
                      +...|...+.+.++.  ...+...|+.|.-. ...|.+.-|...|-+..  .+....+|.++...|.+..+++-|.+.|.
T Consensus       798 ~~~~Ai~c~KkaV~L--~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l~n~d~E~A~~af~  874 (1238)
T KOG1127|consen  798 DACTAIRCCKKAVSL--CANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVLENQDFEHAEPAFS  874 (1238)
T ss_pred             hHHHHHHHHHHHHHH--hhccHHHHHHHHHh-hccchhhhhhhhhhhhhhccccchhheeccceeEEecccHHHhhHHHH
Confidence            445788888887765  45566777777655 66678888887776552  33468899999999999999999999999


Q ss_pred             HHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH-----------HHHHHHHhhhhcccCCCCCCCC-----------
Q 003457          410 EIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ-----------VLFAGLASAADILQNPDFESPP-----------  467 (818)
Q Consensus       410 ~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~-----------~~ll~~~~~~~~~~~~~~~~~~-----------  467 (818)
                      +...++|++...|...+.+....|+.-++..++.--           ..-.|.|-..-...||+.++.+           
T Consensus       875 ~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~  954 (1238)
T KOG1127|consen  875 SVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASL  954 (1238)
T ss_pred             hhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHH
Confidence            999999999999999999999999988888866431           1345556555555666654433           


Q ss_pred             -----CCCCCCCCcceeee
Q 003457          468 -----TNLTPNRSTPFVLL  481 (818)
Q Consensus       468 -----lel~P~~~~~~v~l  481 (818)
                           +.-.|+...+|...
T Consensus       955 al~~yf~~~p~~~fAy~~~  973 (1238)
T KOG1127|consen  955 ALSYYFLGHPQLCFAYAAN  973 (1238)
T ss_pred             HHHHHHhcCcchhHHHHHH
Confidence                 44567777666543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.74  E-value=2.9e-05  Score=96.83  Aligned_cols=357  Identities=10%  Similarity=-0.062  Sum_probs=226.1

Q ss_pred             hcCCCHHHHHHHHhhcCCCCHHH--HHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHH
Q 003457           60 SSSGDLSYATRLFNSIQSPNHFM--WNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQI  137 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~~p~~~~--yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~  137 (818)
                      ...|++.+|..............  .......+...|+++.+..+++.+.......+..........+...++++++...
T Consensus       352 ~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~  431 (903)
T PRK04841        352 LAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTL  431 (903)
T ss_pred             HHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHH
Confidence            56677776666665554332211  1112233455677777777766653221111222233444556678999999999


Q ss_pred             HHHHHHcCCC------CC--HHHHHHHHHHHHhCCChHHHHHHHHHhhc--C--CH----HHHHHHHHHHHHcCChHHHH
Q 003457          138 HTHVSKSGLD------LD--LHVVNCLVRCYSVSSDLNNARQVFDEIRN--R--TL----NVWTTMISGYAQSFRANEAL  201 (818)
Q Consensus       138 ~~~m~~~g~~------p~--~~~~~~Li~~y~~~g~~~~A~~l~~~m~~--~--d~----~~~~~Li~~~~~~g~~~~A~  201 (818)
                      +....+.-..      +.  ......+...+...|++++|...+++..+  +  +.    ...+.+...+...|++++|.
T Consensus       432 l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~  511 (903)
T PRK04841        432 LARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARAL  511 (903)
T ss_pred             HHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            8887653111      11  12223344556789999999999988654  1  21    24566777888899999999


Q ss_pred             HHHHHHHHcCC---CCC--HHHHHHHHHHHHhcCChhHHHHHHHHHHHc----CCC---CcHHHHHHHHHHHHhCCCHHH
Q 003457          202 MLFDQMLMEGF---EPN--SVTLASVLSACAQSGCLELGEKVHVFVKMR----GFE---MGAILGTALVHMYTKNGALAK  269 (818)
Q Consensus       202 ~l~~~m~~~g~---~pd--~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~----g~~---~~~~~~~~Li~~~~~~g~~~~  269 (818)
                      ..+++.....-   .+.  ...+..+...+...|++++|...+++....    +..   .....+..+...+...|++++
T Consensus       512 ~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~  591 (903)
T PRK04841        512 AMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDE  591 (903)
T ss_pred             HHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            99998865311   111  234445566778899999999998887663    211   122344556777888899999


Q ss_pred             HHHHHhhCCC------C--ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCC--CCCHH--H-H-HHHHHHHHHcCCHHH
Q 003457          270 AKALFDSMPE------R--NIATWNAMISGLASHGHAEEALDLFRKLEKEQI--VPNDI--T-F-VGVLSACCHAGFIDV  335 (818)
Q Consensus       270 A~~~f~~m~~------~--d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~--~pd~~--t-~-~~ll~a~~~~g~~~~  335 (818)
                      |...+++..+      +  ....+..+...+...|++++|.+.++++.....  .....  . . ...+..+...|+.+.
T Consensus       592 A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  671 (903)
T PRK04841        592 AEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEA  671 (903)
T ss_pred             HHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHH
Confidence            9998887643      1  123455566778899999999999988754211  11111  1 1 112244456789999


Q ss_pred             HHHHHHHHHHHhCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHcC-------CCCC-HHHHHHHHHHHHHcCCHHHH
Q 003457          336 GRQIFGSMKRVYGIEPK---IEHYGCMVDLLGRCGKVLEAEELIKRMV-------WKPD-VVMWGALLAACKNHGNIEVA  404 (818)
Q Consensus       336 A~~~~~~m~~~~g~~p~---~~~~~~Li~~~~~~g~~~~A~~~~~~m~-------~~pd-~~~~~~Li~a~~~~g~~~~A  404 (818)
                      |.+.+...... .....   ...+..+..++...|++++|...++++.       ...+ ..+...+..++...|+.++|
T Consensus       672 A~~~l~~~~~~-~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A  750 (903)
T PRK04841        672 AANWLRQAPKP-EFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEA  750 (903)
T ss_pred             HHHHHHhcCCC-CCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            99887764431 11111   1124567778899999999999998872       1111 34566677788999999999


Q ss_pred             HHHHHHHHhcCCC
Q 003457          405 ERVVKEIIALEPN  417 (818)
Q Consensus       405 ~~~~~~~~~~~P~  417 (818)
                      .+.+++++++...
T Consensus       751 ~~~L~~Al~la~~  763 (903)
T PRK04841        751 QRVLLEALKLANR  763 (903)
T ss_pred             HHHHHHHHHHhCc
Confidence            9999999987644

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.74  E-value=2e-05  Score=80.90  Aligned_cols=200  Identities=8%  Similarity=-0.027  Sum_probs=137.5

Q ss_pred             hhcCCCHHHHHHHHhhcCCCCHHHHHHHH---HHHHhCCChhHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHccCChHHH
Q 003457           59 LSSSGDLSYATRLFNSIQSPNHFMWNTLI---RAQASSLNPDKAIFLYMNMRRTGFAPNQHTFT-FVLKACSNVRSLNCC  134 (818)
Q Consensus        59 ~~k~g~~e~A~~lf~~~~~p~~~~yn~Li---~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~-~ll~~~~~~g~~~~A  134 (818)
                      +...|++.+|+.-|....+.|+..|.++.   ..|...|+..-|+.=|.+..+  .+||...-. .-...+.+.|.+++|
T Consensus        48 lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARiQRg~vllK~Gele~A  125 (504)
T KOG0624|consen   48 LLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARIQRGVVLLKQGELEQA  125 (504)
T ss_pred             HHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHHHhchhhhhcccHHHH
Confidence            35789999999999999998888888875   468899999999999998887  688876433 234567899999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC
Q 003457          135 KQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEP  214 (818)
Q Consensus       135 ~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p  214 (818)
                      ..-|+.++++......     ...++.+.-..++-..+.            ..+..+...|+...|++....+++.. +.
T Consensus       126 ~~DF~~vl~~~~s~~~-----~~eaqskl~~~~e~~~l~------------~ql~s~~~~GD~~~ai~~i~~llEi~-~W  187 (504)
T KOG0624|consen  126 EADFDQVLQHEPSNGL-----VLEAQSKLALIQEHWVLV------------QQLKSASGSGDCQNAIEMITHLLEIQ-PW  187 (504)
T ss_pred             HHHHHHHHhcCCCcch-----hHHHHHHHHhHHHHHHHH------------HHHHHHhcCCchhhHHHHHHHHHhcC-cc
Confidence            9999999987543211     112222222222222221            22333445677777777777777763 55


Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC
Q 003457          215 NSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE  279 (818)
Q Consensus       215 d~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~  279 (818)
                      |...|..-..+|...|+...|+.-++.+.+.. ..+...+..+-..+.+.|+.+.++...++..+
T Consensus       188 da~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK  251 (504)
T KOG0624|consen  188 DASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLK  251 (504)
T ss_pred             hhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc
Confidence            66677777777777777777777777766654 33444444566677777777777777776665

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.73  E-value=3e-07  Score=97.27  Aligned_cols=242  Identities=12%  Similarity=-0.002  Sum_probs=163.1

Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHH
Q 003457          189 SGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALA  268 (818)
Q Consensus       189 ~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~  268 (818)
                      +-+.-.|++..++.-.+ .....-..+......+.+++...|+.+.+   +.++.+.. .|.......+...+....+-+
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~v---l~ei~~~~-~~~l~av~~la~y~~~~~~~e   83 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSV---LSEIKKSS-SPELQAVRLLAEYLSSPSDKE   83 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHH---HHHS-TTS-SCCCHHHHHHHHHHCTSTTHH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHH---HHHhccCC-ChhHHHHHHHHHHHhCccchH
Confidence            34456789998887666 32222122334455677888888886654   34444433 666666666666555545666


Q ss_pred             HHHHHHhhCCC-C----ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          269 KAKALFDSMPE-R----NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSM  343 (818)
Q Consensus       269 ~A~~~f~~m~~-~----d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m  343 (818)
                      .+..-+++... +    +..........+...|++++|++++.+-      .+.......+.+|.+.++++.|.+.++.|
T Consensus        84 ~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~  157 (290)
T PF04733_consen   84 SALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNM  157 (290)
T ss_dssp             CHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77766665543 2    2222222234566779999999888753      35667777889999999999999999998


Q ss_pred             HHHhCCCCCHHHHHHHHHHHH----HcCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          344 KRVYGIEPKIEHYGCMVDLLG----RCGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       344 ~~~~g~~p~~~~~~~Li~~~~----~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      .+   +..|. +...|+.++.    -.+.+.+|..+|+++.  ..++..+.+.+..++...|++++|.++++++++.+|+
T Consensus       158 ~~---~~eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~  233 (290)
T PF04733_consen  158 QQ---IDEDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN  233 (290)
T ss_dssp             HC---CSCCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC
T ss_pred             Hh---cCCcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC
Confidence            74   44553 3333444443    2346999999999994  3467888999999999999999999999999999999


Q ss_pred             CcchHHHHHHHHHHhhch-HHHHHHHHHH
Q 003457          418 NHGVYVVLSNMYAEAESM-KMQLEILLVQ  445 (818)
Q Consensus       418 ~~~~y~~L~~~l~~~G~~-~eA~~l~~~~  445 (818)
                      ++++..+++.+..-.|+. +.+.+++..+
T Consensus       234 ~~d~LaNliv~~~~~gk~~~~~~~~l~qL  262 (290)
T PF04733_consen  234 DPDTLANLIVCSLHLGKPTEAAERYLSQL  262 (290)
T ss_dssp             HHHHHHHHHHHHHHTT-TCHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence            999999999999999998 4455566555

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.72  E-value=3.3e-05  Score=87.16  Aligned_cols=390  Identities=11%  Similarity=0.091  Sum_probs=227.9

Q ss_pred             CChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC-------------CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCC
Q 003457           45 QDHFAASRLLAFCALSSSGDLSYATRLFNSIQS-------------PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGF  111 (818)
Q Consensus        45 ~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~-------------p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~  111 (818)
                      .+..+|..+..||  .+..+++-|.-.+-.|..             ++ ..-....-.-.+.|..++|+.+|++-++   
T Consensus       755 kS~~vW~nmA~Mc--VkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR---  828 (1416)
T KOG3617|consen  755 KSDSVWDNMASMC--VKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR---  828 (1416)
T ss_pred             hhhHHHHHHHHHh--hhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH---
Confidence            4567888899999  888888888777766642             22 2212222233567889999999998876   


Q ss_pred             CCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHH
Q 003457          112 APNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGY  191 (818)
Q Consensus       112 ~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~  191 (818)
                            |..|=+.|-..|.+++|.++-+.--+..+   ..+|......+-..+|++.|++.|++...+-......|.   
T Consensus       829 ------~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~---  896 (1416)
T KOG3617|consen  829 ------YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLK---  896 (1416)
T ss_pred             ------HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHH---
Confidence                  34455667778999999998664322222   245666666677789999999999876443222222221   


Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHH
Q 003457          192 AQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAK  271 (818)
Q Consensus       192 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~  271 (818)
                         .++.....+.+++.      |...|..-..-+...|+++.|..+|..+..         |-.+++..|-.|+.++|.
T Consensus       897 ---e~p~~~e~Yv~~~~------d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa  958 (1416)
T KOG3617|consen  897 ---EYPKQIEQYVRRKR------DESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAA  958 (1416)
T ss_pred             ---hChHHHHHHHHhcc------chHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHH
Confidence               23333334444433      334555555556677888888888877664         234666677778888887


Q ss_pred             HHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC---------------CHHHH
Q 003457          272 ALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAG---------------FIDVG  336 (818)
Q Consensus       272 ~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g---------------~~~~A  336 (818)
                      ++-++-  .|..+...|...|-..|++.+|+..|.+.+.         |...|+.|-..+               +.-.|
T Consensus       959 ~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~L~nlal~s~~~d~v~a 1027 (1416)
T KOG3617|consen  959 RIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKDRLANLALMSGGSDLVSA 1027 (1416)
T ss_pred             HHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHHHHHHHHhhcCchhHHHH
Confidence            776543  3555666677888888888888888876642         233333332221               22233


Q ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-------------CCCCCHHHHHHHHHHHHHcCCHHH
Q 003457          337 RQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-------------VWKPDVVMWGALLAACKNHGNIEV  403 (818)
Q Consensus       337 ~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-------------~~~pd~~~~~~Li~a~~~~g~~~~  403 (818)
                      -++|++.    |..     ...-+..|-+.|.+.+|+++--+-             ....|+...+.-.+-+....++++
T Consensus      1028 ArYyEe~----g~~-----~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyek 1098 (1416)
T KOG3617|consen 1028 ARYYEEL----GGY-----AHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEK 1098 (1416)
T ss_pred             HHHHHHc----chh-----hhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHH
Confidence            3333331    110     112233466777777776642211             112356666666666667777777


Q ss_pred             HHHHHHHH------Hh----------------cCCCC---------cchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHH
Q 003457          404 AERVVKEI------IA----------------LEPNN---------HGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLA  452 (818)
Q Consensus       404 A~~~~~~~------~~----------------~~P~~---------~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~  452 (818)
                      |..++-.+      ++                +.|..         ...+..+++++.++|.|..|-+-+.....-+.+-
T Consensus      1099 AV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdKl~AM 1178 (1416)
T KOG3617|consen 1099 AVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQAGDKLSAM 1178 (1416)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhhhhhHHHHH
Confidence            76655222      22                12221         3567788999999999999888543332111111


Q ss_pred             hhhhcccCCCCCCCC-CCCCCCCCcceeeecCCCCCCCcee
Q 003457          453 SAADILQNPDFESPP-TNLTPNRSTPFVLLNGNNTIPGWTF  492 (818)
Q Consensus       453 ~~~~~~~~~~~~~~~-lel~P~~~~~~v~l~~~~~~~~w~~  492 (818)
                      +  .+.+-|+.++-. ..--..+-..|.+-+|..-.-.|..
T Consensus      1179 r--aLLKSGdt~KI~FFAn~sRqkEiYImAANyLQtlDWq~ 1217 (1416)
T KOG3617|consen 1179 R--ALLKSGDTQKIRFFANTSRQKEIYIMAANYLQTLDWQD 1217 (1416)
T ss_pred             H--HHHhcCCcceEEEEeeccccceeeeehhhhhhhccccc
Confidence            1  233444443221 2222334566777777766666654

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.69  E-value=7.1e-07  Score=97.59  Aligned_cols=249  Identities=13%  Similarity=0.075  Sum_probs=184.9

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCH
Q 003457          188 ISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGAL  267 (818)
Q Consensus       188 i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~  267 (818)
                      ..-+.+.|+..+|.-.|+..++.. +-+...|..|.......++-..|+..+++.++.. +.+..+...|.-.|...|.-
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhH
Confidence            344567888889999998888775 5567788888888888888888888888888875 56677888888888888888


Q ss_pred             HHHHHHHhhCCCCC-hhhHHHHH---------HHHHHcCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHcCCHHHH
Q 003457          268 AKAKALFDSMPERN-IATWNAMI---------SGLASHGHAEEALDLFRKLEK-EQIVPNDITFVGVLSACCHAGFIDVG  336 (818)
Q Consensus       268 ~~A~~~f~~m~~~d-~~~~~~Li---------~~~~~~g~~~~A~~l~~~m~~-~g~~pd~~t~~~ll~a~~~~g~~~~A  336 (818)
                      ..|.+.|++-.... ...|....         ..+.....+....++|-++.. .+..+|......|.-.|.-.|++++|
T Consensus       370 ~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            88888887653210 00000000         112222334456666666654 44457888888888889999999999


Q ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Q 003457          337 RQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD-VVMWGALLAACKNHGNIEVAERVVKEIIAL  414 (818)
Q Consensus       337 ~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~  414 (818)
                      ..+|+.++..  -+-|..+||.|.-.++...+.++|+..|+++ ..+|. +.....|.-.|...|.+++|.+.|-.++.+
T Consensus       450 iDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  450 VDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            9999999864  4446889999999999999999999999998 57887 678888999999999999999999999887


Q ss_pred             CCCC----------cchHHHHHHHHHHhhchHHHHH
Q 003457          415 EPNN----------HGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       415 ~P~~----------~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      .+.+          ..+|..|=.++.-.++.|-+.+
T Consensus       528 q~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  528 QRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             hhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            6552          1355555555555555553333

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.69  E-value=3.8e-05  Score=85.42  Aligned_cols=354  Identities=13%  Similarity=0.092  Sum_probs=216.1

Q ss_pred             HHHHHhhhhcCCCHHHHHHHHhhcCCCCHH-HHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 003457           52 RLLAFCALSSSGDLSYATRLFNSIQSPNHF-MWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRS  130 (818)
Q Consensus        52 ~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~-~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~  130 (818)
                      ..+.||  ....++++|+.+-+-...|... .-.+.++++...|+-++|-++-    ..    +-.+ ...|..|.+.|.
T Consensus       562 ~aigmy--~~lhkwde~i~lae~~~~p~~eklk~sy~q~l~dt~qd~ka~elk----~s----dgd~-laaiqlyika~~  630 (1636)
T KOG3616|consen  562 EAIGMY--QELHKWDEAIALAEAKGHPALEKLKRSYLQALMDTGQDEKAAELK----ES----DGDG-LAAIQLYIKAGK  630 (1636)
T ss_pred             HHHHHH--HHHHhHHHHHHHHHhcCChHHHHHHHHHHHHHHhcCchhhhhhhc----cc----cCcc-HHHHHHHHHcCC
Confidence            447788  8888999999888766655433 2223455555566666554431    11    1111 123455556665


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCC--------------------------HH-H
Q 003457          131 LNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRT--------------------------LN-V  183 (818)
Q Consensus       131 ~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d--------------------------~~-~  183 (818)
                      +..|.+....-  ..+..|......+...+.+..-+++|-++|+++...+                          ++ .
T Consensus       631 p~~a~~~a~n~--~~l~~de~il~~ia~alik~elydkagdlfeki~d~dkale~fkkgdaf~kaielarfafp~evv~l  708 (1636)
T KOG3616|consen  631 PAKAARAALND--EELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELARFAFPEEVVKL  708 (1636)
T ss_pred             chHHHHhhcCH--HHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHHhhCcHHHhhH
Confidence            55544332110  0111233333333333333333333333333332211                          11 1


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh
Q 003457          184 WTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTK  263 (818)
Q Consensus       184 ~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~  263 (818)
                      -......+...|+++.|+..|-+...         ..-.+.+....+++.+|..+++.+..+.  .....|-.+.+-|..
T Consensus       709 ee~wg~hl~~~~q~daainhfiea~~---------~~kaieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan  777 (1636)
T KOG3616|consen  709 EEAWGDHLEQIGQLDAAINHFIEANC---------LIKAIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYAN  777 (1636)
T ss_pred             HHHHhHHHHHHHhHHHHHHHHHHhhh---------HHHHHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhcc
Confidence            11223334455666666666544321         2233455566778899999998888764  334556678889999


Q ss_pred             CCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          264 NGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSM  343 (818)
Q Consensus       264 ~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m  343 (818)
                      .|+++.|+++|.+.-     .++--|..|.+.|+++.|.++-.+..  |.......|..-..-+-+.|++.+|+++|-.+
T Consensus       778 ~~dfe~ae~lf~e~~-----~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti  850 (1636)
T KOG3616|consen  778 KGDFEIAEELFTEAD-----LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITI  850 (1636)
T ss_pred             chhHHHHHHHHHhcc-----hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEc
Confidence            999999999997653     34456778999999999988766543  33434455555556677889999999887653


Q ss_pred             HHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHH
Q 003457          344 KRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYV  423 (818)
Q Consensus       344 ~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~  423 (818)
                      .     .|+     .-|.+|-+.|..++.+++.++-.-..-..|...+..-|...|+..+|++.|-++-        -+.
T Consensus       851 ~-----~p~-----~aiqmydk~~~~ddmirlv~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~flea~--------d~k  912 (1636)
T KOG3616|consen  851 G-----EPD-----KAIQMYDKHGLDDDMIRLVEKHHGDHLHDTHKHFAKELEAEGDLKAAEEHFLEAG--------DFK  912 (1636)
T ss_pred             c-----Cch-----HHHHHHHhhCcchHHHHHHHHhChhhhhHHHHHHHHHHHhccChhHHHHHHHhhh--------hHH
Confidence            2     344     3467899999999999998887422235677778888899999999998886543        356


Q ss_pred             HHHHHHHHhhchHHHHHHHHHH--------HHHHHHHhh
Q 003457          424 VLSNMYAEAESMKMQLEILLVQ--------VLFAGLASA  454 (818)
Q Consensus       424 ~L~~~l~~~G~~~eA~~l~~~~--------~~ll~~~~~  454 (818)
                      .-+++|...+.|++|.++-+.-        +.++|+-+.
T Consensus       913 aavnmyk~s~lw~dayriaktegg~n~~k~v~flwaksi  951 (1636)
T KOG3616|consen  913 AAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKSI  951 (1636)
T ss_pred             HHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHhh
Confidence            6778899999999999975432        356666653

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.66  E-value=2.5e-07  Score=87.57  Aligned_cols=90  Identities=9%  Similarity=-0.113  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh
Q 003457          356 YGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE  433 (818)
Q Consensus       356 ~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G  433 (818)
                      +..+...+...|++++|.+.|+++ ...| +...|..+..++...|++++|+..|+++++++|+++..+..++.++.+.|
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            334455555666666666666655 2223 45555666666666666666666666666666666666666666666666


Q ss_pred             chHHHHHHHHHH
Q 003457          434 SMKMQLEILLVQ  445 (818)
Q Consensus       434 ~~~eA~~l~~~~  445 (818)
                      ++++|++.++..
T Consensus       107 ~~~eAi~~~~~A  118 (144)
T PRK15359        107 EPGLAREAFQTA  118 (144)
T ss_pred             CHHHHHHHHHHH
Confidence            666666654444

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.65  E-value=7.1e-06  Score=94.48  Aligned_cols=371  Identities=14%  Similarity=0.074  Sum_probs=221.5

Q ss_pred             CCCHHHHHHHHhhcCCCC---HHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHH
Q 003457           62 SGDLSYATRLFNSIQSPN---HFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIH  138 (818)
Q Consensus        62 ~g~~e~A~~lf~~~~~p~---~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~  138 (818)
                      ..+...|...|=+..+.|   ...|..|...|...-+..+|..+|.+..+.+.. |..........|++..+++.|..+.
T Consensus       471 rK~~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~  549 (1238)
T KOG1127|consen  471 RKNSALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEIC  549 (1238)
T ss_pred             hhhHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHH
Confidence            345777777776665433   347888888888777888899999888775433 5667778888899999999988883


Q ss_pred             HHHHHcCCC-CCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC
Q 003457          139 THVSKSGLD-LDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEP  214 (818)
Q Consensus       139 ~~m~~~g~~-p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p  214 (818)
                      -..-+.... .-...|..+.-.|.+.++...|..-|+...+-   |...|..++.+|.++|++..|+++|.+....  .|
T Consensus       550 l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP  627 (1238)
T KOG1127|consen  550 LRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RP  627 (1238)
T ss_pred             HHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--Cc
Confidence            322221110 01122333555677888888888888887764   5557888999999999999999999888764  45


Q ss_pred             CHHHHHHH--HHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh-------CCCHHHHHHHHhhCCCCChhhH
Q 003457          215 NSVTLASV--LSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTK-------NGALAKAKALFDSMPERNIATW  285 (818)
Q Consensus       215 d~~t~~~l--l~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~-------~g~~~~A~~~f~~m~~~d~~~~  285 (818)
                      +.. |...  ....+..|.+.++...+...+... .......+.|...+.+       .|-..+|...|++-.+.   ..
T Consensus       628 ~s~-y~~fk~A~~ecd~GkYkeald~l~~ii~~~-s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~---f~  702 (1238)
T KOG1127|consen  628 LSK-YGRFKEAVMECDNGKYKEALDALGLIIYAF-SLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIES---FI  702 (1238)
T ss_pred             HhH-HHHHHHHHHHHHhhhHHHHHHHHHHHHHHH-HHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH---HH
Confidence            443 3222  223456788888888888777642 1112222233333332       22233333333322210   01


Q ss_pred             HHHHHHHHHcC----CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH---H---HHHHHHHHHHHHhCCCCCHHH
Q 003457          286 NAMISGLASHG----HAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFI---D---VGRQIFGSMKRVYGIEPKIEH  355 (818)
Q Consensus       286 ~~Li~~~~~~g----~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~---~---~A~~~~~~m~~~~g~~p~~~~  355 (818)
                      ++++...+...    -...|..+|.+.. .. .|+......+..-..+.+..   +   -|.+.+-.-.   .+..+...
T Consensus       703 ~~l~h~~~~~~~~Wi~asdac~~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hl---sl~~~~~~  777 (1238)
T KOG1127|consen  703 VSLIHSLQSDRLQWIVASDACYIFSQEE-PS-IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHL---SLAIHMYP  777 (1238)
T ss_pred             HHHHHhhhhhHHHHHHHhHHHHHHHHhc-cc-chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHH---HHhhccch
Confidence            11111111000    0112333333332 11 23332222222222223222   1   1222222212   12233556


Q ss_pred             HHHHHHHHHH--------cCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHH
Q 003457          356 YGCMVDLLGR--------CGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVL  425 (818)
Q Consensus       356 ~~~Li~~~~~--------~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L  425 (818)
                      |..|+.-|.+        ..+...|+..+++..  ...+..+|+.|... ...|++.-|.-.|-+.+...|.....|.++
T Consensus       778 WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~~~~~W~Nl  856 (1238)
T KOG1127|consen  778 WYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPTCHCQWLNL  856 (1238)
T ss_pred             HHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhccccchhheecc
Confidence            6666555543        223456778887772  33567888887765 667899999999999999999999999999


Q ss_pred             HHHHHHhhchHHHHHHHHHHH
Q 003457          426 SNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       426 ~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      +.++.+..+++.|.+.+....
T Consensus       857 gvL~l~n~d~E~A~~af~~~q  877 (1238)
T KOG1127|consen  857 GVLVLENQDFEHAEPAFSSVQ  877 (1238)
T ss_pred             ceeEEecccHHHhhHHHHhhh
Confidence            999999999999999888774

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.65  E-value=0.0001  Score=76.10  Aligned_cols=337  Identities=11%  Similarity=0.059  Sum_probs=171.6

Q ss_pred             CCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHH
Q 003457           62 SGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHV  141 (818)
Q Consensus        62 ~g~~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m  141 (818)
                      .|.+.+|..+-++.++. +-.-..|+..--+.++-++...+-+.+..     ..+--.+|.......-.+++|.+++..+
T Consensus       104 Lg~Y~eA~~~~~ka~k~-pL~~RLlfhlahklndEk~~~~fh~~LqD-----~~EdqLSLAsvhYmR~HYQeAIdvYkrv  177 (557)
T KOG3785|consen  104 LGQYIEAKSIAEKAPKT-PLCIRLLFHLAHKLNDEKRILTFHSSLQD-----TLEDQLSLASVHYMRMHYQEAIDVYKRV  177 (557)
T ss_pred             HHHHHHHHHHHhhCCCC-hHHHHHHHHHHHHhCcHHHHHHHHHHHhh-----hHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            68888888888776432 22222333444445555555544444432     1122233333333334567777777777


Q ss_pred             HHcCCCCCHHHHHH-HHHHHHhCCChHHHHHHHHHhhc--C-CHHHHHHHHHHHHHcCCh--------------------
Q 003457          142 SKSGLDLDLHVVNC-LVRCYSVSSDLNNARQVFDEIRN--R-TLNVWTTMISGYAQSFRA--------------------  197 (818)
Q Consensus       142 ~~~g~~p~~~~~~~-Li~~y~~~g~~~~A~~l~~~m~~--~-d~~~~~~Li~~~~~~g~~--------------------  197 (818)
                      +..+.  +-...|. +.-+|.+.+-++-+.++++--.+  + ++.+.|..+....+.-+-                    
T Consensus       178 L~dn~--ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f  255 (557)
T KOG3785|consen  178 LQDNP--EYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPF  255 (557)
T ss_pred             HhcCh--hhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchh
Confidence            66432  2222222 33456666666666666655443  1 233444444333332222                    


Q ss_pred             ---------------HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Q 003457          198 ---------------NEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYT  262 (818)
Q Consensus       198 ---------------~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~  262 (818)
                                     +.|++++-.+.+.  .|  ..-..|+--|.++++..+|..+.+.+.    +.++.-|-.-.-.++
T Consensus       256 ~~~l~rHNLVvFrngEgALqVLP~L~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl~----PttP~EyilKgvv~a  327 (557)
T KOG3785|consen  256 IEYLCRHNLVVFRNGEGALQVLPSLMKH--IP--EARLNLIIYYLNQNDVQEAISLCKDLD----PTTPYEYILKGVVFA  327 (557)
T ss_pred             HHHHHHcCeEEEeCCccHHHhchHHHhh--Ch--HhhhhheeeecccccHHHHHHHHhhcC----CCChHHHHHHHHHHH
Confidence                           2233332222211  11  112233334455666666655544332    222222211111122


Q ss_pred             hCC-------CHHHHHHHHhhCCC-----CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 003457          263 KNG-------ALAKAKALFDSMPE-----RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHA  330 (818)
Q Consensus       263 ~~g-------~~~~A~~~f~~m~~-----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~  330 (818)
                      ..|       .+.-|.+.|+-.-+     ..+.--.++.+.+.-..++++.+-+++.+..--.. |...-..+..+++..
T Consensus       328 alGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~N-dD~Fn~N~AQAk~at  406 (557)
T KOG3785|consen  328 ALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTN-DDDFNLNLAQAKLAT  406 (557)
T ss_pred             HhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-cchhhhHHHHHHHHh
Confidence            222       24445555554432     12233445566666666777777777766654223 322233466777778


Q ss_pred             CCHHHHHHHHHHHHHHhCCCCCHHHH-HHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHH-HHHHHHcCCHHHHHHHH
Q 003457          331 GFIDVGRQIFGSMKRVYGIEPKIEHY-GCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGAL-LAACKNHGNIEVAERVV  408 (818)
Q Consensus       331 g~~~~A~~~~~~m~~~~g~~p~~~~~-~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~L-i~a~~~~g~~~~A~~~~  408 (818)
                      |++.+|+++|-++... .+ .|..+| ..|.++|.++++++-|.+++-++....+..+...+ ..-|.+.+.+--|-+.|
T Consensus       407 gny~eaEelf~~is~~-~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAF  484 (557)
T KOG3785|consen  407 GNYVEAEELFIRISGP-EI-KNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAF  484 (557)
T ss_pred             cChHHHHHHHhhhcCh-hh-hhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            8888888887765432 22 334444 45567778888888888887777533344444333 34577777777777778


Q ss_pred             HHHHhcCCC
Q 003457          409 KEIIALEPN  417 (818)
Q Consensus       409 ~~~~~~~P~  417 (818)
                      ..+..++|.
T Consensus       485 d~lE~lDP~  493 (557)
T KOG3785|consen  485 DELEILDPT  493 (557)
T ss_pred             hHHHccCCC
Confidence            777777776

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.58  E-value=0.00027  Score=81.73  Aligned_cols=320  Identities=12%  Similarity=0.112  Sum_probs=195.1

Q ss_pred             CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcC----------
Q 003457           78 PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFA--PNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSG----------  145 (818)
Q Consensus        78 p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~--pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g----------  145 (818)
                      .|+..-+....++...+-+.+-++++++..-....  -+...-+.|+-...+. +.....++.+++-..+          
T Consensus       982 ~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rLdnyDa~~ia~iai~ 1060 (1666)
T KOG0985|consen  982 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRLDNYDAPDIAEIAIE 1060 (1666)
T ss_pred             CChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHhccCCchhHHHHHhh
Confidence            56666667777888888888888888877643211  1111222233222222 2233333333332211          


Q ss_pred             -------------CCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 003457          146 -------------LDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGF  212 (818)
Q Consensus       146 -------------~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~  212 (818)
                                   ...+....+.|++   ..+.++.|.++-+++.  .+..|..+..+-.+.+...+|++-|-+.     
T Consensus      1061 ~~LyEEAF~ifkkf~~n~~A~~VLie---~i~~ldRA~efAe~~n--~p~vWsqlakAQL~~~~v~dAieSyika----- 1130 (1666)
T KOG0985|consen 1061 NQLYEEAFAIFKKFDMNVSAIQVLIE---NIGSLDRAYEFAERCN--EPAVWSQLAKAQLQGGLVKDAIESYIKA----- 1130 (1666)
T ss_pred             hhHHHHHHHHHHHhcccHHHHHHHHH---HhhhHHHHHHHHHhhC--ChHHHHHHHHHHHhcCchHHHHHHHHhc-----
Confidence                         0112222222222   1233344443333332  3457999999999999999998877653     


Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHH
Q 003457          213 EPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGL  292 (818)
Q Consensus       213 ~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~  292 (818)
                       -|...|..++..+.+.|.+++-.+++..+++...+|..  -..|+-+|++.+++.+-++++   ..||..-......-|
T Consensus      1131 -dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~fi---~gpN~A~i~~vGdrc 1204 (1666)
T KOG0985|consen 1131 -DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTELEEFI---AGPNVANIQQVGDRC 1204 (1666)
T ss_pred             -CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHHh---cCCCchhHHHHhHHH
Confidence             36678999999999999999999999988887655554  457899999999988776654   346666667777778


Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHH
Q 003457          293 ASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEA  372 (818)
Q Consensus       293 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A  372 (818)
                      ...+.++.|.-+|...         ..|..|...+...|+++.|...-++.       .+..+|..+-.+|...+.+.-|
T Consensus      1205 f~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~aRKA-------ns~ktWK~VcfaCvd~~EFrlA 1268 (1666)
T KOG0985|consen 1205 FEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDAARKA-------NSTKTWKEVCFACVDKEEFRLA 1268 (1666)
T ss_pred             hhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHHhhhc-------cchhHHHHHHHHHhchhhhhHH
Confidence            8888888877777633         34566666677777777776654432       2445666666666555544433


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHh
Q 003457          373 EELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEA  432 (818)
Q Consensus       373 ~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~  432 (818)
                      .-.=-.  +--...-..-|+.-|...|-+++-+.+++..+.+.--+...+..|+-+|.+-
T Consensus      1269 QiCGL~--iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYsky 1326 (1666)
T KOG0985|consen 1269 QICGLN--IIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKY 1326 (1666)
T ss_pred             HhcCce--EEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhc
Confidence            211000  1122344455666667777777777777777666666666666666666543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.57  E-value=2.8e-06  Score=80.35  Aligned_cols=126  Identities=10%  Similarity=-0.051  Sum_probs=104.3

Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-C
Q 003457          302 LDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-V  380 (818)
Q Consensus       302 ~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~  380 (818)
                      ..+|++.++.  .|+  .+..+..++...|++++|...|+.+...  -+.+...|..+..++.+.|++++|+..|+++ .
T Consensus        13 ~~~~~~al~~--~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         13 EDILKQLLSV--DPE--TVYASGYASWQEGDYSRAVIDFSWLVMA--QPWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHHHc--CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            3456666654  343  3556778889999999999999998864  4557889999999999999999999999998 3


Q ss_pred             CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh
Q 003457          381 WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE  433 (818)
Q Consensus       381 ~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G  433 (818)
                      ..| +...+..+..++...|++++|+..|++++++.|+++..+...+.++...+
T Consensus        87 l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~l~  140 (144)
T PRK15359         87 LDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQIMVD  140 (144)
T ss_pred             cCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHH
Confidence            445 68899999999999999999999999999999999999988887765443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.57  E-value=3.9e-06  Score=86.72  Aligned_cols=179  Identities=9%  Similarity=-0.050  Sum_probs=116.5

Q ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CC-h---hhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH--HHHH
Q 003457          250 GAILGTALVHMYTKNGALAKAKALFDSMPE--RN-I---ATWNAMISGLASHGHAEEALDLFRKLEKEQIVPND--ITFV  321 (818)
Q Consensus       250 ~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d-~---~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~--~t~~  321 (818)
                      ....+..++..+.+.|++++|...|+++.+  |+ .   ..+..+..+|.+.|++++|+..++++.+..+....  .++.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            445566677777778888888887776654  21 1   35666777777888888888888887765332111  2344


Q ss_pred             HHHHHHHHc--------CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003457          322 GVLSACCHA--------GFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLA  393 (818)
Q Consensus       322 ~ll~a~~~~--------g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~  393 (818)
                      .+..++.+.        +++++|.+.++.+.+.  .+.+...+..+.....    .....           ......+..
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~~~~~-----------~~~~~~~a~  174 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----LRNRL-----------AGKELYVAR  174 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----HHHHH-----------HHHHHHHHH
Confidence            445555544        5677777777777654  2222223222221110    00000           011124566


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCC---cchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          394 ACKNHGNIEVAERVVKEIIALEPNN---HGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~P~~---~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .+.+.|++++|+..++++++..|++   ++.+..++.++.+.|++++|.++++.+
T Consensus       175 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l  229 (235)
T TIGR03302       175 FYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVL  229 (235)
T ss_pred             HHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            7889999999999999999987764   478999999999999999999987766

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.56  E-value=1.4e-05  Score=80.47  Aligned_cols=307  Identities=12%  Similarity=0.055  Sum_probs=146.0

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCH--HHHH-HHHHHHHH
Q 003457          117 TFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTL--NVWT-TMISGYAQ  193 (818)
Q Consensus       117 ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~--~~~~-~Li~~~~~  193 (818)
                      -+...+..+.+..++..+.+++..-.+...+ +......|..+|-+..++..|-+.++++...-+  .-|. .-...+.+
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~p~-~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~   90 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYK   90 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHH
Confidence            3455555556666666676666665554322 445556666666666677777777666654322  1221 12234455


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHH
Q 003457          194 SFRANEALMLFDQMLMEGFEPNSVTLASVLSA--CAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAK  271 (818)
Q Consensus       194 ~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~--~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~  271 (818)
                      .+.+.+|+++...|...   |+...-..-+.+  ..+.+++..+..+.++.-..   .+..+.+.......+.|+++.|.
T Consensus        91 A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e---n~Ad~~in~gCllykegqyEaAv  164 (459)
T KOG4340|consen   91 ACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE---NEADGQINLGCLLYKEGQYEAAV  164 (459)
T ss_pred             hcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC---CccchhccchheeeccccHHHHH
Confidence            56666666666665432   121111111111  12344555555555444322   12333333444445566666666


Q ss_pred             HHHhhCCC----CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHcCCHHHHHHHHHHHHHH
Q 003457          272 ALFDSMPE----RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSAC-CHAGFIDVGRQIFGSMKRV  346 (818)
Q Consensus       272 ~~f~~m~~----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~-~~~g~~~~A~~~~~~m~~~  346 (818)
                      +-|+...+    .....||.-+ +..+.++++.|+++..++++.|++-.+. ++.=+..- .....+..-..++...+  
T Consensus       165 qkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPE-lgIGm~tegiDvrsvgNt~~lh~Sal--  240 (459)
T KOG4340|consen  165 QKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPE-LGIGMTTEGIDVRSVGNTLVLHQSAL--  240 (459)
T ss_pred             HHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCc-cCccceeccCchhcccchHHHHHHHH--
Confidence            66665554    2233444332 3334456666666666666655542110 00000000 00000000000000000  


Q ss_pred             hCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchH
Q 003457          347 YGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV----WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       347 ~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~----~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                            ...+|.-...+.+.|+++.|.+.+-.|+    ...|++|...+.-. -..+++.+..+-++-.++++|--.+++
T Consensus       241 ------~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nPfP~ETF  313 (459)
T KOG4340|consen  241 ------VEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNPFPPETF  313 (459)
T ss_pred             ------HHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCCCChHHH
Confidence                  1122333333456667777777666664    22355665555422 234445555555666666666656666


Q ss_pred             HHHHHHHHHhhchHHHHHH
Q 003457          423 VVLSNMYAEAESMKMQLEI  441 (818)
Q Consensus       423 ~~L~~~l~~~G~~~eA~~l  441 (818)
                      .++.-+|++..-++-|-.+
T Consensus       314 ANlLllyCKNeyf~lAADv  332 (459)
T KOG4340|consen  314 ANLLLLYCKNEYFDLAADV  332 (459)
T ss_pred             HHHHHHHhhhHHHhHHHHH
Confidence            6666666666666666554

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.55  E-value=4.3e-06  Score=83.58  Aligned_cols=114  Identities=11%  Similarity=0.082  Sum_probs=68.7

Q ss_pred             cCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHH-HHcCC--HHHH
Q 003457          330 AGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAAC-KNHGN--IEVA  404 (818)
Q Consensus       330 ~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~-~~~g~--~~~A  404 (818)
                      .++.+++...++...+.  -+.|...|..|...|...|++++|...|+++ ...| +...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            34455555555555543  4455666666666666666666666666665 2334 455555555543 45555  3666


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          405 ERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       405 ~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .++++++++.+|+++.++..++..+.+.|++++|++.++.+
T Consensus       130 ~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370        130 REMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            66666666666666666666666666666666666655554

>PLN02789 farnesyltranstransferase

Probab=98.54  E-value=2.4e-05  Score=83.92  Aligned_cols=198  Identities=11%  Similarity=0.002  Sum_probs=114.6

Q ss_pred             ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCC-CHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCH--HHHHHH
Q 003457          231 CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNG-ALAKAKALFDSMPE---RNIATWNAMISGLASHGHA--EEALDL  304 (818)
Q Consensus       231 ~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g-~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~--~~A~~l  304 (818)
                      +.++|.....++++.. +.+..+++....++.+.+ +++++++.++++.+   ++..+|+.....+.+.++.  ++++.+
T Consensus        52 ~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~  130 (320)
T PLN02789         52 RSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEF  130 (320)
T ss_pred             CCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHH
Confidence            3344444444444432 222233333333333333 34555555554443   2334455444444444442  556666


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHc---CC----HHHHHHHHH
Q 003457          305 FRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRC---GK----VLEAEELIK  377 (818)
Q Consensus       305 ~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~---g~----~~~A~~~~~  377 (818)
                      ++++++...+ |..+|.....++.+.|+++++++.++++++.  .+.|...|+.....+.+.   |+    .+++++..+
T Consensus       131 ~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~--d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~  207 (320)
T PLN02789        131 TRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEE--DVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTI  207 (320)
T ss_pred             HHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--CCCchhHHHHHHHHHHhccccccccccHHHHHHHHH
Confidence            6666665443 5566666666666777777777777777764  344555666555544443   22    245566664


Q ss_pred             Hc-CCCC-CHHHHHHHHHHHHHc----CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHh
Q 003457          378 RM-VWKP-DVVMWGALLAACKNH----GNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEA  432 (818)
Q Consensus       378 ~m-~~~p-d~~~~~~Li~a~~~~----g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~  432 (818)
                      ++ ...| |...|+.+...+...    ++..+|.+.+.+.++.+|+++.++..|+++|...
T Consensus       208 ~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~  268 (320)
T PLN02789        208 DAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEG  268 (320)
T ss_pred             HHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhh
Confidence            44 3445 567788777777662    4556788888888888999899999999999864

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.48  E-value=8.4e-05  Score=82.76  Aligned_cols=253  Identities=16%  Similarity=0.146  Sum_probs=133.7

Q ss_pred             HHHhCCChHHHHHHHHHhhcCCHHH--HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHH
Q 003457          159 CYSVSSDLNNARQVFDEIRNRTLNV--WTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGE  236 (818)
Q Consensus       159 ~y~~~g~~~~A~~l~~~m~~~d~~~--~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~  236 (818)
                      +......+.+|+.+++.+..++..+  |-.+...|...|+++.|.++|.+.-         .+.-.|..|.+.|+++.|.
T Consensus       741 aai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  741 AAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             HHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHH
Confidence            3344555566666666555544332  4455556666666666666664431         2334455566666666666


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC
Q 003457          237 KVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPN  316 (818)
Q Consensus       237 ~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd  316 (818)
                      ++-++..  |.+.....|-+-..-+-+.|++.+|+++|-.+.+|+..     |..|-+.|..+..+++..+-.-.   .-
T Consensus       812 kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~a-----iqmydk~~~~ddmirlv~k~h~d---~l  881 (1636)
T KOG3616|consen  812 KLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDKA-----IQMYDKHGLDDDMIRLVEKHHGD---HL  881 (1636)
T ss_pred             HHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchHH-----HHHHHhhCcchHHHHHHHHhChh---hh
Confidence            5554443  22333444444455555666666666666666555532     44566666666665555443211   11


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCC----CCHHHHH---
Q 003457          317 DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWK----PDVVMWG---  389 (818)
Q Consensus       317 ~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~----pd~~~~~---  389 (818)
                      ..|...+..-+...|++..|+..|-+..          -|.+-+++|...+.|++|.++-+.-+-.    .-...|.   
T Consensus       882 ~dt~~~f~~e~e~~g~lkaae~~flea~----------d~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaksi  951 (1636)
T KOG3616|consen  882 HDTHKHFAKELEAEGDLKAAEEHFLEAG----------DFKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKSI  951 (1636)
T ss_pred             hHHHHHHHHHHHhccChhHHHHHHHhhh----------hHHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHhh
Confidence            2355566667777788888877665532          2455666677777777777666544210    0011111   


Q ss_pred             ---HHHHHHHHcCCHHHHHHHH------HHHHh-----cCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          390 ---ALLAACKNHGNIEVAERVV------KEIIA-----LEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       390 ---~Li~a~~~~g~~~~A~~~~------~~~~~-----~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                         ..+..+-++|..++|+...      +-+.+     ..-.-.+.+..++..+...|++++|-+
T Consensus       952 ggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k~k~~~vhlk~a~~ledegk~edask 1016 (1636)
T KOG3616|consen  952 GGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAKDKMGEVHLKLAMFLEDEGKFEDASK 1016 (1636)
T ss_pred             CcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhhccCccchhHHhhhhhhccchhhhhH
Confidence               1122233444444444321      11111     112235567777777778888888755

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.44  E-value=0.00058  Score=79.08  Aligned_cols=305  Identities=13%  Similarity=0.099  Sum_probs=190.9

Q ss_pred             hCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHH
Q 003457           92 SSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQ  171 (818)
Q Consensus        92 ~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~  171 (818)
                      .++-+++|+.+|++.-     .+......|+..   .+.++.|.++-++.      ....+|..+..+-.+.+.+.+|.+
T Consensus      1060 ~~~LyEEAF~ifkkf~-----~n~~A~~VLie~---i~~ldRA~efAe~~------n~p~vWsqlakAQL~~~~v~dAie 1125 (1666)
T KOG0985|consen 1060 ENQLYEEAFAIFKKFD-----MNVSAIQVLIEN---IGSLDRAYEFAERC------NEPAVWSQLAKAQLQGGLVKDAIE 1125 (1666)
T ss_pred             hhhHHHHHHHHHHHhc-----ccHHHHHHHHHH---hhhHHHHHHHHHhh------CChHHHHHHHHHHHhcCchHHHHH
Confidence            3444556666665432     234444444432   34455555554432      145789999999999999999998


Q ss_pred             HHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcH
Q 003457          172 VFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGA  251 (818)
Q Consensus       172 l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~  251 (818)
                      -|-+  ..|+..|...+....+.|.|++-.+++...++..-+|...  ..|+-+|++.+++.+.+..+       ..|+.
T Consensus      1126 Syik--adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi-------~gpN~ 1194 (1666)
T KOG0985|consen 1126 SYIK--ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI-------AGPNV 1194 (1666)
T ss_pred             HHHh--cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh-------cCCCc
Confidence            8744  4577889999999999999999999998888776677666  45788899998877765543       24666


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC
Q 003457          252 ILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAG  331 (818)
Q Consensus       252 ~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g  331 (818)
                      .....+.+-|...+.++.|.-+|.     ++.-|..|...+...|++..|.+.-++.-      +..||..+-.+|...+
T Consensus      1195 A~i~~vGdrcf~~~~y~aAkl~y~-----~vSN~a~La~TLV~LgeyQ~AVD~aRKAn------s~ktWK~VcfaCvd~~ 1263 (1666)
T KOG0985|consen 1195 ANIQQVGDRCFEEKMYEAAKLLYS-----NVSNFAKLASTLVYLGEYQGAVDAARKAN------STKTWKEVCFACVDKE 1263 (1666)
T ss_pred             hhHHHHhHHHhhhhhhHHHHHHHH-----HhhhHHHHHHHHHHHHHHHHHHHHhhhcc------chhHHHHHHHHHhchh
Confidence            666778888889999999988887     44568888888888888888887766532      4456776666776655


Q ss_pred             CHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-C-CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 003457          332 FIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-V-WKPDVVMWGALLAACKNHGNIEVAERVVK  409 (818)
Q Consensus       332 ~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~-~~pd~~~~~~Li~a~~~~g~~~~A~~~~~  409 (818)
                      .+..|.-     ... .+-....-...|+..|...|-+++-+.+++.. + .+.....|+-|.-.|.+-+ .++..+.++
T Consensus      1264 EFrlAQi-----CGL-~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYskyk-p~km~EHl~ 1336 (1666)
T KOG0985|consen 1264 EFRLAQI-----CGL-NIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKYK-PEKMMEHLK 1336 (1666)
T ss_pred             hhhHHHh-----cCc-eEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhcC-HHHHHHHHH
Confidence            5544331     110 12223344556666777777777777776655 2 1223334444444443322 333333332


Q ss_pred             HHHh-cC-------CCCcchHHHHHHHHHHhhchHHHH
Q 003457          410 EIIA-LE-------PNNHGVYVVLSNMYAEAESMKMQL  439 (818)
Q Consensus       410 ~~~~-~~-------P~~~~~y~~L~~~l~~~G~~~eA~  439 (818)
                      -... ++       -+....|..|+-+|.+-..||.|.
T Consensus      1337 LFwsRvNipKviRA~eqahlW~ElvfLY~~y~eyDNAa 1374 (1666)
T KOG0985|consen 1337 LFWSRVNIPKVIRAAEQAHLWSELVFLYDKYEEYDNAA 1374 (1666)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHHHHHHhhhhhhHHH
Confidence            2211 00       112445555555555555555443

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.42  E-value=1.9e-05  Score=88.82  Aligned_cols=207  Identities=11%  Similarity=0.025  Sum_probs=126.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CChhhHHHHHHHHHHcCCH
Q 003457          221 SVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--RNIATWNAMISGLASHGHA  298 (818)
Q Consensus       221 ~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d~~~~~~Li~~~~~~g~~  298 (818)
                      .+...+...|-...|..+++++..         +...+.+|+..|+..+|..+..+..+  +|+..|..+........-+
T Consensus       403 ~laell~slGitksAl~I~Erlem---------w~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~y  473 (777)
T KOG1128|consen  403 LLAELLLSLGITKSALVIFERLEM---------WDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLY  473 (777)
T ss_pred             HHHHHHHHcchHHHHHHHHHhHHH---------HHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHH
Confidence            344455555666666666655543         23455666666666666665554443  4555666666555555556


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 003457          299 EEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKR  378 (818)
Q Consensus       299 ~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~  378 (818)
                      ++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.  .+.-..+|-.+..+..+.++++.|.+.|..
T Consensus       474 EkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~--nplq~~~wf~~G~~ALqlek~q~av~aF~r  544 (777)
T KOG1128|consen  474 EKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEI--NPLQLGTWFGLGCAALQLEKEQAAVKAFHR  544 (777)
T ss_pred             HHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhc--CccchhHHHhccHHHHHHhhhHHHHHHHHH
Confidence            6666666543221       1112222223356677777766665543  233456677777777777777777777766


Q ss_pred             c-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          379 M-VWKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       379 m-~~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      . ...|| ...|+++-.+|.+.|+..+|...++++++-+-++...+-+..-+..+.|.+++|++.+..+
T Consensus       545 cvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  545 CVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             HhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            6 34554 5677777777777777777777777777777666777777777777777777777755444

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.40  E-value=4.3e-05  Score=76.39  Aligned_cols=154  Identities=12%  Similarity=0.129  Sum_probs=118.3

Q ss_pred             HHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 003457          258 VHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGR  337 (818)
Q Consensus       258 i~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~  337 (818)
                      +-.|...|+++......+.+..+.        ..+...++.++++..+++..+..+ .|...|..+...|...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~P-~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRANP-QNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHH
Confidence            456778888777655544333221        012235677888888888887643 37788899999999999999999


Q ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHH-HHcCC--HHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 003457          338 QIFGSMKRVYGIEPKIEHYGCMVDLL-GRCGK--VLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEII  412 (818)
Q Consensus       338 ~~~~~m~~~~g~~p~~~~~~~Li~~~-~~~g~--~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~  412 (818)
                      ..|++..+.  .+.+...+..+..++ ...|+  .++|.++++++ ...| +...+..+...+.+.|++++|+..|++++
T Consensus        94 ~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL  171 (198)
T PRK10370         94 LAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVL  171 (198)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999998875  455788888888864 67777  59999999998 3445 57888889999999999999999999999


Q ss_pred             hcCCCCcchH
Q 003457          413 ALEPNNHGVY  422 (818)
Q Consensus       413 ~~~P~~~~~y  422 (818)
                      ++.|.+..-+
T Consensus       172 ~l~~~~~~r~  181 (198)
T PRK10370        172 DLNSPRVNRT  181 (198)
T ss_pred             hhCCCCccHH
Confidence            9988765544

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.40  E-value=2.5e-05  Score=87.83  Aligned_cols=184  Identities=16%  Similarity=0.182  Sum_probs=153.7

Q ss_pred             CCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457          247 FEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA  326 (818)
Q Consensus       247 ~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  326 (818)
                      .+|-...-..+.+.+...|-...|..+|+++     ..|.-.+.+|...|+..+|..+.++..++  +||+..|..++..
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv  466 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDV  466 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhh
Confidence            3455566677899999999999999999976     56888899999999999999999988874  7888999888888


Q ss_pred             HHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHH
Q 003457          327 CCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVA  404 (818)
Q Consensus       327 ~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A  404 (818)
                      .....-+++|.++.++...+        .-..+.....+.++++++.+.|+.- ...| ...+|..+..+..+.++++.|
T Consensus       467 ~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~a  538 (777)
T KOG1128|consen  467 LHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAA  538 (777)
T ss_pred             ccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHH
Confidence            77777788888888774432        2233333345689999999999875 4455 578899999888999999999


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          405 ERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       405 ~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .+.|.+...++|++.+.|+++..+|.+.|+..+|...++..
T Consensus       539 v~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EA  579 (777)
T KOG1128|consen  539 VKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEA  579 (777)
T ss_pred             HHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHH
Confidence            99999999999999999999999999999999999977665

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.38  E-value=3.4e-05  Score=90.85  Aligned_cols=130  Identities=13%  Similarity=0.045  Sum_probs=98.1

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC-HHHHHHH
Q 003457          314 VPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD-VVMWGAL  391 (818)
Q Consensus       314 ~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~L  391 (818)
                      ..+...+..|..+..+.|.+++|..+++.+.+.  .+.+......++..+.+.+++++|+..+++. ...|+ ......+
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~  160 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLE  160 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHH
Confidence            335677777778888888888888888887764  3334666677777888888888888888777 34454 5566666


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          392 LAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       392 i~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ..++.+.|++++|..+|++++..+|+++.++..++.++.+.|+.++|...++..
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a  214 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAG  214 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            777778888888888888888888888888888888888888888888866555

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.37  E-value=2.7e-05  Score=80.38  Aligned_cols=183  Identities=17%  Similarity=0.081  Sum_probs=131.4

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcH---HHHHHHHHHHHhCCCHHHHHHHHhhCCC--C-Chh---
Q 003457          213 EPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGA---ILGTALVHMYTKNGALAKAKALFDSMPE--R-NIA---  283 (818)
Q Consensus       213 ~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~---~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~-d~~---  283 (818)
                      ......+..+...+.+.|++++|...++++.+.. +.+.   ..+..+..+|.+.|++++|...|+++.+  | +..   
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  108 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADY  108 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHH
Confidence            3456677888888999999999999999998874 2222   4667789999999999999999999875  2 222   


Q ss_pred             hHHHHHHHHHHc--------CCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHH
Q 003457          284 TWNAMISGLASH--------GHAEEALDLFRKLEKEQIVPND-ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIE  354 (818)
Q Consensus       284 ~~~~Li~~~~~~--------g~~~~A~~l~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~  354 (818)
                      ++..+..++.+.        |++++|.+.|+++.+..  |+. .....+.... .   .      .....         .
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~-~---~------~~~~~---------~  167 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMD-Y---L------RNRLA---------G  167 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHH-H---H------HHHHH---------H
Confidence            466666667655        78999999999998863  332 2222221110 0   0      00100         1


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHcC-CCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          355 HYGCMVDLLGRCGKVLEAEELIKRMV-WKP----DVVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       355 ~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p----d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      ....+...|.+.|++++|+..++++. ..|    ....+..++.++.+.|++++|..+++.+....|+
T Consensus       168 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~~  235 (235)
T TIGR03302       168 KELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYPD  235 (235)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            12356677899999999999998883 223    2578889999999999999999999888776664

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.36  E-value=3.6e-05  Score=91.67  Aligned_cols=191  Identities=15%  Similarity=0.194  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHhhCCC--------CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 003457          251 AILGTALVHMYTKNGALAKAKALFDSMPE--------RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVG  322 (818)
Q Consensus       251 ~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--------~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~  322 (818)
                      ...|-..|....+.++.++|++++++...        .-...|.+++..-..-|.-+...++|+++.+.  .-....|..
T Consensus      1458 Si~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~~ 1535 (1710)
T KOG1070|consen 1458 SILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHLK 1535 (1710)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHHH
Confidence            34444445555555555555555554442        12234555555444455555555555555543  111233445


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC---CHHHHHHHHHHHHHc
Q 003457          323 VLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP---DVVMWGALLAACKNH  398 (818)
Q Consensus       323 ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p---d~~~~~~Li~a~~~~  398 (818)
                      |...|.+.+..++|.++++.|.++++  -....|..++..+.++.+-++|..+++++. .-|   ........+..-.+.
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            55555555555666666666555533  344455555555555555555555555541 112   223333333344455


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          399 GNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       399 g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      |+.+.+..+|+..+...|...+.|+.+++.-.+.|..+.+..+|+..
T Consensus      1614 GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRv 1660 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERV 1660 (1710)
T ss_pred             CCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            55566555665555555555555555555555555555555555444

>PLN02789 farnesyltranstransferase

Probab=98.35  E-value=0.0002  Score=76.85  Aligned_cols=202  Identities=14%  Similarity=0.021  Sum_probs=117.7

Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCH--
Q 003457          191 YAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSG-CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGAL--  267 (818)
Q Consensus       191 ~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g-~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~--  267 (818)
                      +...++.++|+.++.++++.. +-+...|.....++...+ +++++...++++.+.. +.+..+++....++.+.++.  
T Consensus        47 l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~  124 (320)
T PLN02789         47 YASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAA  124 (320)
T ss_pred             HHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhh
Confidence            334456666666666666542 223334444444444455 4566666666666654 33444455444444444442  


Q ss_pred             HHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc---CC----HHHHH
Q 003457          268 AKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHA---GF----IDVGR  337 (818)
Q Consensus       268 ~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~---g~----~~~A~  337 (818)
                      +++..+++++.+   +|..+|+...-++...|+++++++.+.++++.++. |...|+....++.+.   +.    .++..
T Consensus       125 ~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el  203 (320)
T PLN02789        125 NKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSEL  203 (320)
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHH
Confidence            455666665554   45667777777777778888888888888776555 445555554444443   22    23555


Q ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHHHc----CCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHH
Q 003457          338 QIFGSMKRVYGIEPKIEHYGCMVDLLGRC----GKVLEAEELIKRM-VWKP-DVVMWGALLAACKN  397 (818)
Q Consensus       338 ~~~~~m~~~~g~~p~~~~~~~Li~~~~~~----g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~  397 (818)
                      .+..+++..  .+-|...|+.+...|...    ++..+|.+.+.+. ...| +...+..|++.|.+
T Consensus       204 ~y~~~aI~~--~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~  267 (320)
T PLN02789        204 KYTIDAILA--NPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHHHHh--CCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHh
Confidence            666566654  455667777777777663    3445677777665 2233 46667777777764

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.35  E-value=0.00015  Score=86.74  Aligned_cols=199  Identities=13%  Similarity=0.155  Sum_probs=119.2

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHc-CCCC---CHHHHHHHHHHHHhCCChHHHHHHHHHhhcC-CH-HHHHHHHH
Q 003457          116 HTFTFVLKACSNVRSLNCCKQIHTHVSKS-GLDL---DLHVVNCLVRCYSVSSDLNNARQVFDEIRNR-TL-NVWTTMIS  189 (818)
Q Consensus       116 ~ty~~ll~~~~~~g~~~~A~~~~~~m~~~-g~~p---~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~-d~-~~~~~Li~  189 (818)
                      ..|...|....+.++.++|+++.+++++. ++.-   -..+|.+++++-...|.-+...++|++..+- |. ..|..|..
T Consensus      1459 i~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~~ 1538 (1710)
T KOG1070|consen 1459 ILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLLG 1538 (1710)
T ss_pred             hHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            35555666666666677777766666543 1111   1235666666666666666666666666553 32 35666666


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC--cHHHHHHHHHHHHhCCCH
Q 003457          190 GYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEM--GAILGTALVHMYTKNGAL  267 (818)
Q Consensus       190 ~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~--~~~~~~~Li~~~~~~g~~  267 (818)
                      .|.+...+++|.++|+.|.+. +.-....|...+..+.+.++-++|..++.++++.- +.  ........+++-.++|+.
T Consensus      1539 iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~l-Pk~eHv~~IskfAqLEFk~GDa 1616 (1710)
T KOG1070|consen 1539 IYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSL-PKQEHVEFISKFAQLEFKYGDA 1616 (1710)
T ss_pred             HHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhc-chhhhHHHHHHHHHHHhhcCCc
Confidence            677777777777777777654 23344556666666666666666666666666542 21  334444555566666666


Q ss_pred             HHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC
Q 003457          268 AKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPN  316 (818)
Q Consensus       268 ~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd  316 (818)
                      +.+..+|+....   +-...|+..+..-.++|+.+.+..+|+++...++.|-
T Consensus      1617 eRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1617 ERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK 1668 (1710)
T ss_pred             hhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh
Confidence            666666666553   2345666666666666666767777777666655544

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.30  E-value=7.2e-06  Score=76.58  Aligned_cols=90  Identities=20%  Similarity=0.230  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh
Q 003457          356 YGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE  433 (818)
Q Consensus       356 ~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G  433 (818)
                      ...+...+.+.|++++|.+.|+++ ...| +...+..+...+.+.|++++|...++++++.+|+++..+..++.+|...|
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g   99 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALG   99 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcC
Confidence            334444444455555555555444 1122 34444444444555555555555555555555555555555555555555


Q ss_pred             chHHHHHHHHHH
Q 003457          434 SMKMQLEILLVQ  445 (818)
Q Consensus       434 ~~~eA~~l~~~~  445 (818)
                      ++++|.+.++..
T Consensus       100 ~~~~A~~~~~~a  111 (135)
T TIGR02552       100 EPESALKALDLA  111 (135)
T ss_pred             CHHHHHHHHHHH
Confidence            555555544333

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.30  E-value=0.00016  Score=72.36  Aligned_cols=247  Identities=13%  Similarity=0.045  Sum_probs=130.9

Q ss_pred             HHhCCChHHHHHHHHHhhc--CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhH-HH
Q 003457          160 YSVSSDLNNARQVFDEIRN--RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLEL-GE  236 (818)
Q Consensus       160 y~~~g~~~~A~~l~~~m~~--~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~-A~  236 (818)
                      |.-.|.+..++..-.....  .+...-..+.++|...|.+...+.-   ... +-.|....+..+......-++.+. ..
T Consensus        18 ~fY~Gnyq~~ine~~~~~~~~~~~e~d~y~~raylAlg~~~~~~~e---I~~-~~~~~lqAvr~~a~~~~~e~~~~~~~~   93 (299)
T KOG3081|consen   18 YFYLGNYQQCINEAEKFSSSKTDVELDVYMYRAYLALGQYQIVISE---IKE-GKATPLQAVRLLAEYLELESNKKSILA   93 (299)
T ss_pred             HHHhhHHHHHHHHHHhhccccchhHHHHHHHHHHHHcccccccccc---ccc-ccCChHHHHHHHHHHhhCcchhHHHHH
Confidence            3345555555544433322  2333444455666666665443322   221 113333344433333333333332 23


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC
Q 003457          237 KVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPN  316 (818)
Q Consensus       237 ~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd  316 (818)
                      .+.+.+.......+......-+..|+..+++++|++......  +....-.-...+.+..+.+-|...+++|++-   -+
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---de  168 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE--NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DE  168 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---ch
Confidence            444445444434443444444556777777777777776632  2333322334455666677777777777653   24


Q ss_pred             HHHHHHHHHHHHH----cCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC--CCCCHHHHHH
Q 003457          317 DITFVGVLSACCH----AGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV--WKPDVVMWGA  390 (818)
Q Consensus       317 ~~t~~~ll~a~~~----~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~~pd~~~~~~  390 (818)
                      ..|.+-|..++.+    .+.+..|.-+|+++.++  .+|+..+.+.+..++...|++++|..+++++.  ...++.+..+
T Consensus       169 d~tLtQLA~awv~la~ggek~qdAfyifeE~s~k--~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~N  246 (299)
T KOG3081|consen  169 DATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK--TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLAN  246 (299)
T ss_pred             HHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc--cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHH
Confidence            5566656665554    23566677777776653  56666666666666677777777777776662  2235566666


Q ss_pred             HHHHHHHcCCHHHH-HHHHHHHHhcCCC
Q 003457          391 LLAACKNHGNIEVA-ERVVKEIIALEPN  417 (818)
Q Consensus       391 Li~a~~~~g~~~~A-~~~~~~~~~~~P~  417 (818)
                      ++..-.+.|.-.++ .+...+.....|.
T Consensus       247 liv~a~~~Gkd~~~~~r~l~QLk~~~p~  274 (299)
T KOG3081|consen  247 LIVLALHLGKDAEVTERNLSQLKLSHPE  274 (299)
T ss_pred             HHHHHHHhCCChHHHHHHHHHHHhcCCc
Confidence            66555555554333 3444555555555

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.30  E-value=0.00035  Score=70.00  Aligned_cols=142  Identities=12%  Similarity=0.065  Sum_probs=89.8

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH---
Q 003457          289 ISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR---  365 (818)
Q Consensus       289 i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~---  365 (818)
                      ...|+..+++++|++......    ..+.  ...=...+.+..+.+.|++.+++|.+.    .+-.+.+.|..++.+   
T Consensus       115 a~i~~~~~~~deAl~~~~~~~----~lE~--~Al~VqI~lk~~r~d~A~~~lk~mq~i----ded~tLtQLA~awv~la~  184 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE----NLEA--AALNVQILLKMHRFDLAEKELKKMQQI----DEDATLTQLAQAWVKLAT  184 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc----hHHH--HHHHHHHHHHHHHHHHHHHHHHHHHcc----chHHHHHHHHHHHHHHhc
Confidence            345667777777777666521    1122  222233455666677777777777642    344555556665543   


Q ss_pred             -cCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          366 -CGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       366 -~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                       .+++.+|.-+|++|.  ..|...+.+....++...|++++|..++++++..++++++++.+++.+-...|+-.++.+
T Consensus       185 ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~  262 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTE  262 (299)
T ss_pred             cchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHH
Confidence             345677777777773  446677777777777777777777777777777777777777777776667776666555

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.29  E-value=5e-05  Score=90.23  Aligned_cols=214  Identities=14%  Similarity=0.123  Sum_probs=152.0

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHH
Q 003457          180 TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSV-TLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALV  258 (818)
Q Consensus       180 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~-t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li  258 (818)
                      +...|..|+..+...+++++|.++.+..++.  .|+.. .|..+...+.+.++...+..+  .               ++
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~---------------~l   90 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--N---------------LI   90 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--h---------------hh
Confidence            5568999999999999999999999977765  45544 333444456666665555444  2               23


Q ss_pred             HHHHhCCCHHHHHHHHhhCCC--CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 003457          259 HMYTKNGALAKAKALFDSMPE--RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVG  336 (818)
Q Consensus       259 ~~~~~~g~~~~A~~~f~~m~~--~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A  336 (818)
                      +......++.....+...|.+  .+-.++..|+.+|-+.|+.++|...|+++++.. +-|....|.+...|... ++++|
T Consensus        91 ~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA  168 (906)
T PRK14720         91 DSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKA  168 (906)
T ss_pred             hhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHH
Confidence            333333344333333334433  244577888999999999999999999999876 33778888888888888 99999


Q ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CC---------------------CCHHHHHHHHHH
Q 003457          337 RQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WK---------------------PDVVMWGALLAA  394 (818)
Q Consensus       337 ~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~---------------------pd~~~~~~Li~a  394 (818)
                      ++++.++...                |...+++.++.+++.++. ..                     .-+.++..+-..
T Consensus       169 ~~m~~KAV~~----------------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~  232 (906)
T PRK14720        169 ITYLKKAIYR----------------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEP  232 (906)
T ss_pred             HHHHHHHHHH----------------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHH
Confidence            9998887765                444445555555555541 11                     223445555567


Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          395 CKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       395 ~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      |...+++++++++++.+++.+|.|..+...++.+|.
T Consensus       233 y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        233 YKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            788889999999999999999999999999998887

>PF02018 CBM_4_9: Carbohydrate binding domain; InterPro: IPR003305 The 1,4-beta-glucanase CenC from Cellulomonas fimi contains two cellulose-binding domains, CBD(N1) and CBD(N2), arranged in tandem at its N terminus

Probab=98.29  E-value=1.6e-05  Score=73.73  Aligned_cols=111  Identities=32%  Similarity=0.361  Sum_probs=69.4

Q ss_pred             CcccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEece---eeeecCCceeccCCCeeEEecCCcc----ceeee
Q 003457          630 NLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGT---VKYIDSKHFYVPKGNAAIEIVSVSA----GIQTA  702 (818)
Q Consensus       630 ~l~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~---v~~i~~~~~~~~~g~~~~~l~~~~~----~~q~~  702 (818)
                      |||.||+||++                      .+.+|...|.   ...++     .+.|.+++.+.+.+.    +.|+.
T Consensus         2 nli~N~~Fe~~----------------------~~~~W~~~~~~~~~~~~~-----~~~g~~~l~v~~~~~~~~~~~~~~   54 (131)
T PF02018_consen    2 NLIKNGGFEDG----------------------GLSGWSFWGNSGASASVD-----NASGNYSLKVSNRSATWDGQSQQQ   54 (131)
T ss_dssp             BSSSSTTSTTT----------------------STTTEEEESSTTEEEEEE-----ECSSSEEEEEECCSSGCGEEEEEE
T ss_pred             CEEECCCccCC----------------------CCCCCEEccCCCEEEEEE-----cCCCeEEEEEECCCCCccccceec
Confidence            89999999992                      2456887443   23333     228999999877533    23443


Q ss_pred             eccccCCCeEEEEEecCcccCccccceEEEEeeCCcce----eeEE-EecccCCceeeeEEEEecc--ceeeEEEEe
Q 003457          703 TTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQ----NFTV-QSLGTGSVIKHSVTFKAGS--GSTPISFIS  772 (818)
Q Consensus       703 ~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~~~----~~~~-~~~~~~~~~~~~~~f~a~~--~~~~~~f~~  772 (818)
                      .....+|++|+++|.+-...   .  ..+++.+.....    .+.. ....+..|..++..|++..  +.++|.|+.
T Consensus        55 ~~~l~~G~~Y~~s~~vk~~~---~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~~s~~ft~~~~~~~~~l~~~~  126 (131)
T PF02018_consen   55 TISLKPGKTYTVSFWVKADS---G--GTVSVSLRDEDGSPYNWYTGQTVTITGEWTKYSGTFTAPSDDDTVRLYFEI  126 (131)
T ss_dssp             EEEE-TTSEEEEEEEEEESS---S--EEEEEEEEESSTTTEEEEEEEEEEETSSEEEEEEEEEEESSCEEEEEEEEE
T ss_pred             ceEecCCCEEEEEEEEEeCC---C--CEEEEEEEEcCCCCcEEEEEEEEECCCCcEEEEEEEEECCCCceEEEEEEe
Confidence            22399999999999963322   2  444454433222    2222 2333788999999999995  455666655

These homologous CBDs are distinct in their selectivity for binding amorphous and not crystalline cellulose []. Multidimensional heteronuclear nuclear magnetic resonance (NMR) spectroscopy was used to determine the tertiary structure of the 152 amino acid N-terminal cellulose-binding domain from C. fimi 1,4-beta-glucanase CenC (CBDN1) []. The tertiary structure of CBDN1 is strikingly similar to that of the bacterial 1,3-1,4-beta-glucanases, as well as other sugar-binding proteins with jelly-roll folds.; GO: 0016798 hydrolase activity, acting on glycosyl bonds; PDB: 3OEA_B 2ZEX_B 3OEB_A 2ZEY_A 2ZEW_A 1GUI_A 2W5F_A 2WZE_A 2WYS_A 2ZEZ_B ....

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.26  E-value=0.00023  Score=84.01  Aligned_cols=158  Identities=11%  Similarity=0.051  Sum_probs=116.4

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHH
Q 003457          212 FEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAM  288 (818)
Q Consensus       212 ~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~L  288 (818)
                      .+.+...+..|..+..+.|++++|...++.+.+.. +.+......++..+.+.+++++|...+++..+   .+....+.+
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~  160 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLE  160 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHH
Confidence            35567777888888888888888888888888774 44556667778888888888888888888775   345567777


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC
Q 003457          289 ISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGK  368 (818)
Q Consensus       289 i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~  368 (818)
                      ..++.+.|++++|+++|+++...+. -+..++..+..++.+.|+.++|...|++..+.  ..+...-|+.++      ++
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~--~~~~~~~~~~~~------~~  231 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGLDA--IGDGARKLTRRL------VD  231 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--hCcchHHHHHHH------HH
Confidence            8888888999999999998887432 24678888888888889999999999888875  445555555443      23


Q ss_pred             HHHHHHHHHHc
Q 003457          369 VLEAEELIKRM  379 (818)
Q Consensus       369 ~~~A~~~~~~m  379 (818)
                      ...-..++++.
T Consensus       232 ~~~~~~~~~~~  242 (694)
T PRK15179        232 LNADLAALRRL  242 (694)
T ss_pred             HHHHHHHHHHc
Confidence            33444555555

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.22  E-value=0.00046  Score=82.21  Aligned_cols=277  Identities=11%  Similarity=0.037  Sum_probs=134.0

Q ss_pred             CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 003457           78 PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQH-TFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCL  156 (818)
Q Consensus        78 p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~-ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~L  156 (818)
                      .+...|..|+..|...+++++|.++.+...+  ..|+.. .|-.+.-.+.+.++...+..+  .+               
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~--~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~---------------   89 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLK--EHKKSISALYISGILSLSRRPLNDSNLL--NL---------------   89 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--hCCcceehHHHHHHHHHhhcchhhhhhh--hh---------------
Confidence            3455566666666666666666666664444  233333 232333344444443333332  11               


Q ss_pred             HHHHHhCCChHHHHHHHHHhhc--CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhH
Q 003457          157 VRCYSVSSDLNNARQVFDEIRN--RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLEL  234 (818)
Q Consensus       157 i~~y~~~g~~~~A~~l~~~m~~--~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~  234 (818)
                      +.......++.-...+.+.|.+  .+..++..|+.+|-+.|+.++|..+|+++++.. +-|....+.+...|+.. ++++
T Consensus        90 l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~K  167 (906)
T PRK14720         90 IDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             hhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHH
Confidence            1111222222222222222222  122345556666666666666666666666554 44555555566555555 6666


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc-CC
Q 003457          235 GEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKE-QI  313 (818)
Q Consensus       235 A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~-g~  313 (818)
                      |.+++.+++..               |...+++.++.+++.++.+-++.-             .+.-..+.+.+... +.
T Consensus       168 A~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~d-------------~d~f~~i~~ki~~~~~~  219 (906)
T PRK14720        168 AITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSDD-------------FDFFLRIERKVLGHREF  219 (906)
T ss_pred             HHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCccc-------------chHHHHHHHHHHhhhcc
Confidence            66665555543               344445556666555555432221             11122222222221 11


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH-cCCHHHHHHHHHHcCCCCCHHHHHHHH
Q 003457          314 VPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR-CGKVLEAEELIKRMVWKPDVVMWGALL  392 (818)
Q Consensus       314 ~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~-~g~~~~A~~~~~~m~~~pd~~~~~~Li  392 (818)
                      .--..++..+-..|.+.++++++..+++.+++.  .+.|......++.+|.. -++.....+.++..             
T Consensus       220 ~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~--~~~n~~a~~~l~~~y~~kY~~~~~~ee~l~~s-------------  284 (906)
T PRK14720        220 TRLVGLLEDLYEPYKALEDWDEVIYILKKILEH--DNKNNKAREELIRFYKEKYKDHSLLEDYLKMS-------------  284 (906)
T ss_pred             chhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhc--CCcchhhHHHHHHHHHHHccCcchHHHHHHHh-------------
Confidence            112233444455667777788888888887764  44455666666666542 11111111111111             


Q ss_pred             HHHHHc-CCHHHHHHHHHHHHhcCCCCc
Q 003457          393 AACKNH-GNIEVAERVVKEIIALEPNNH  419 (818)
Q Consensus       393 ~a~~~~-g~~~~A~~~~~~~~~~~P~~~  419 (818)
                       ..... .++..++.-|++.+..+|.+-
T Consensus       285 -~l~~~~~~~~~~i~~fek~i~f~~G~y  311 (906)
T PRK14720        285 -DIGNNRKPVKDCIADFEKNIVFDTGNF  311 (906)
T ss_pred             -ccccCCccHHHHHHHHHHHeeecCCCE
Confidence             12222 456778888888877777653

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.22  E-value=0.00011  Score=73.58  Aligned_cols=117  Identities=14%  Similarity=0.107  Sum_probs=57.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCC
Q 003457          323 VLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGN  400 (818)
Q Consensus       323 ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~  400 (818)
                      .+....+.|++.+|...+++....  -++|...|+.+.-+|.+.|+.++|..-|.++ ...| +....++|...+.-.|+
T Consensus       106 ~gk~~~~~g~~~~A~~~~rkA~~l--~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd  183 (257)
T COG5010         106 QGKNQIRNGNFGEAVSVLRKAARL--APTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGD  183 (257)
T ss_pred             HHHHHHHhcchHHHHHHHHHHhcc--CCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCC
Confidence            444444445555555555444432  3444455555555555555555555444444 2222 24444555555555555


Q ss_pred             HHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHH
Q 003457          401 IEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEI  441 (818)
Q Consensus       401 ~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l  441 (818)
                      .+.|..++.++....+.+..+-.+|+.+....|++++|.++
T Consensus       184 ~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i  224 (257)
T COG5010         184 LEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDI  224 (257)
T ss_pred             HHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhh
Confidence            55555555555554444455555555555555555555553

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.22  E-value=0.0004  Score=69.14  Aligned_cols=167  Identities=13%  Similarity=0.150  Sum_probs=118.4

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHH---HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 003457          254 GTALVHMYTKNGALAKAKALFDSMPERNIATWNA---MISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHA  330 (818)
Q Consensus       254 ~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~---Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~  330 (818)
                      +..++-+...+++.+.|..+++.+..+-+.++..   -...+-..|++++|+++|+.+++.. +-|..++-.-+...-.+
T Consensus        55 ~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~  133 (289)
T KOG3060|consen   55 YEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQ  133 (289)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHc
Confidence            3344444555566666666666555422222111   1223455688999999999988875 33566666666666777


Q ss_pred             CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcC---CHHHHH
Q 003457          331 GFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHG---NIEVAE  405 (818)
Q Consensus       331 g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g---~~~~A~  405 (818)
                      |+--+|++-+....+.  +..|...|.-+...|...|++++|.-.++++ ...| +...+..+...+.-.|   +++-|.
T Consensus       134 GK~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~ar  211 (289)
T KOG3060|consen  134 GKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELAR  211 (289)
T ss_pred             CCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            8888888888888876  8889999999999999999999999999998 3556 5677777777654433   678899


Q ss_pred             HHHHHHHhcCCCCcchHH
Q 003457          406 RVVKEIIALEPNNHGVYV  423 (818)
Q Consensus       406 ~~~~~~~~~~P~~~~~y~  423 (818)
                      ++|.++++++|.+...+.
T Consensus       212 kyy~~alkl~~~~~ral~  229 (289)
T KOG3060|consen  212 KYYERALKLNPKNLRALF  229 (289)
T ss_pred             HHHHHHHHhChHhHHHHH
Confidence            999999999996554443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.21  E-value=1.4e-05  Score=74.70  Aligned_cols=97  Identities=10%  Similarity=0.103  Sum_probs=85.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 003457          352 KIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMY  429 (818)
Q Consensus       352 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l  429 (818)
                      +......+...+...|++++|.++|+-+ ...| +...|..|.-+|...|++++|+..|.++..++|++++.+..++.++
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            3455566777788999999999999988 3445 6788999999999999999999999999999999999999999999


Q ss_pred             HHhhchHHHHHHHHHHHHH
Q 003457          430 AEAESMKMQLEILLVQVLF  448 (818)
Q Consensus       430 ~~~G~~~eA~~l~~~~~~l  448 (818)
                      ...|+.++|.+.|+..+.+
T Consensus       114 L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            9999999999988877533

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.18  E-value=0.001  Score=72.32  Aligned_cols=177  Identities=13%  Similarity=0.088  Sum_probs=92.9

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHhhc-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHH
Q 003457          149 DLHVVNCLVRCYSVSSDLNNARQVFDEIRN-RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSV-TLASVLSAC  226 (818)
Q Consensus       149 ~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~-~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~-t~~~ll~~~  226 (818)
                      +...+...+........-..+..++.+..+ .....+.-..-.+...|++++|+..++.+++.  .|+.. ........+
T Consensus       273 ~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~  350 (484)
T COG4783         273 DFQLARARIRAKYEALPNQQAADLLAKRSKRGGLAAQYGRALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDIL  350 (484)
T ss_pred             cHHHHHHHHHHHhccccccchHHHHHHHhCccchHHHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            344444444433333333333333333333 23344444445555666666666666666654  33333 333344556


Q ss_pred             HhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHH
Q 003457          227 AQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALD  303 (818)
Q Consensus       227 ~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~  303 (818)
                      ...++.++|.+.++.++... +......-.+.++|.+.|+.++|+++++....   .|+..|..|..+|...|+..++..
T Consensus       351 ~~~nk~~~A~e~~~kal~l~-P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~  429 (484)
T COG4783         351 LEANKAKEAIERLKKALALD-PNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALL  429 (484)
T ss_pred             HHcCChHHHHHHHHHHHhcC-CCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHH
Confidence            66666666666666666653 22244445566666666666666666665543   355566666666666666655544


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Q 003457          304 LFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRV  346 (818)
Q Consensus       304 l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~  346 (818)
                      ...+                  .+...|+++.|+..+....+.
T Consensus       430 A~AE------------------~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         430 ARAE------------------GYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHH------------------HHHhCCCHHHHHHHHHHHHHh
Confidence            3332                  233445566666555555544

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.15  E-value=0.036  Score=64.58  Aligned_cols=196  Identities=12%  Similarity=0.022  Sum_probs=138.7

Q ss_pred             HHHHHHHHHhhhhcCCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457           48 FAASRLLAFCALSSSGDLSYATRLFNSIQ---SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKA  124 (818)
Q Consensus        48 ~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~---~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~  124 (818)
                      ..|...+..+.+.|.|+.++|..+++...   ..|..+...+-.+|...++.++|..+|++...  .-|+.+-...+..+
T Consensus        42 ~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~--~~P~eell~~lFma  119 (932)
T KOG2053|consen   42 ALYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHLYERANQ--KYPSEELLYHLFMA  119 (932)
T ss_pred             cHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hCCcHHHHHHHHHH
Confidence            34555666677789999999999998765   34788999999999999999999999999887  46678888888889


Q ss_pred             HHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC----------hHHHHHHHHHhhcCC-HH----HHHHHHH
Q 003457          125 CSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSD----------LNNARQVFDEIRNRT-LN----VWTTMIS  189 (818)
Q Consensus       125 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~----------~~~A~~l~~~m~~~d-~~----~~~~Li~  189 (818)
                      |.+.+++.+-.++--++-+. .+-+...+-++++.+...-.          +.-|.+.++.+.+.+ ..    -...-..
T Consensus       120 yvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~  198 (932)
T KOG2053|consen  120 YVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLL  198 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHH
Confidence            99999888777666666554 33355555566666654321          344667777776554 11    1222233


Q ss_pred             HHHHcCChHHHHHHHHH-HHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 003457          190 GYAQSFRANEALMLFDQ-MLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRG  246 (818)
Q Consensus       190 ~~~~~g~~~~A~~l~~~-m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g  246 (818)
                      .+-..+++++|++++.. ..+.-..-+...-+.-+..+...+++.+..++-.++...+
T Consensus       199 iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  199 ILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            44567889999999943 3333223333334456677788899999999999998886

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.15  E-value=0.00023  Score=71.39  Aligned_cols=153  Identities=15%  Similarity=0.095  Sum_probs=104.3

Q ss_pred             HHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC
Q 003457          255 TALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAG  331 (818)
Q Consensus       255 ~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g  331 (818)
                      ..+...+...|+-+....+......   .|......++....+.|++.+|+..+++..... ++|...++.+.-+|.+.|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHcc
Confidence            4455566666666666666655432   344455557777777788888888887777653 456777777777788888


Q ss_pred             CHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCC--CCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 003457          332 FIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWK--PDVVMWGALLAACKNHGNIEVAERVVK  409 (818)
Q Consensus       332 ~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~--pd~~~~~~Li~a~~~~g~~~~A~~~~~  409 (818)
                      +.+.|..-|.+..+.  ..-+...++.|.-.|.-.|+.+.|..++.+....  -|...-..|.......|++++|+.+..
T Consensus       149 r~~~Ar~ay~qAl~L--~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         149 RFDEARRAYRQALEL--APNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ChhHHHHHHHHHHHh--ccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            888888777777764  3334566677777777778888888877777322  256666777777777788887777664


Q ss_pred             H
Q 003457          410 E  410 (818)
Q Consensus       410 ~  410 (818)
                      +
T Consensus       227 ~  227 (257)
T COG5010         227 Q  227 (257)
T ss_pred             c
Confidence            4

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.11  E-value=0.0003  Score=76.32  Aligned_cols=117  Identities=19%  Similarity=0.158  Sum_probs=88.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC-HHHHHHHHHHHHHcCCHHH
Q 003457          326 ACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD-VVMWGALLAACKNHGNIEV  403 (818)
Q Consensus       326 a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a~~~~g~~~~  403 (818)
                      .+...|++++|+..++.+++.  .+.|+..+....+.+.+.++.++|.+.++++ ...|+ ...+..+..+|.+.|+..+
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHH
Confidence            345567788888888887764  5666677777777888888888888888877 34565 5666777778888888888


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHH
Q 003457          404 AERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLV  444 (818)
Q Consensus       404 A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~  444 (818)
                      |+..+++....+|+++..|..|+..|.+.|+..+|......
T Consensus       393 ai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE  433 (484)
T COG4783         393 AIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAE  433 (484)
T ss_pred             HHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHH
Confidence            88888888888888888888888888888887777775433

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.11  E-value=0.0001  Score=68.76  Aligned_cols=116  Identities=11%  Similarity=-0.027  Sum_probs=92.5

Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCC
Q 003457          304 LFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWK  382 (818)
Q Consensus       304 l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~  382 (818)
                      .|+++....+. +......+...+...|++++|.+.++.+...  .+.+...+..+...|.+.|++++|.+.|++. ...
T Consensus         5 ~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~   81 (135)
T TIGR02552         5 TLKDLLGLDSE-QLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD   81 (135)
T ss_pred             hHHHHHcCChh-hHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            45555554222 3345666778888999999999999998775  4557888899999999999999999999987 334


Q ss_pred             C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchH
Q 003457          383 P-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       383 p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                      | +...+..+...+...|++++|++.|+++++..|++....
T Consensus        82 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  122 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYS  122 (135)
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHH
Confidence            4 577888888899999999999999999999999866533

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.09  E-value=0.019  Score=63.14  Aligned_cols=393  Identities=11%  Similarity=0.109  Sum_probs=216.9

Q ss_pred             CCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 003457           44 IQDHFAASRLLAFCALSSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTF  120 (818)
Q Consensus        44 ~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~  120 (818)
                      ..|...|+.|++-+   .....+++++.++++..   .....|..-|+.-.+.++++....+|.+....-.  +...|..
T Consensus        17 P~di~sw~~lire~---qt~~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--nlDLW~l   91 (656)
T KOG1914|consen   17 PYDIDSWSQLIREA---QTQPIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVL--NLDLWKL   91 (656)
T ss_pred             CccHHHHHHHHHHH---ccCCHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--hHhHHHH
Confidence            34889999999877   44499999999999873   3567888889999999999999999998776533  4444544


Q ss_pred             HHHHHHc-cCChHH----HHHHHHHHH-HcCCCCC-HHHHHHHHHH---------HHhCCChHHHHHHHHHhhcC-----
Q 003457          121 VLKACSN-VRSLNC----CKQIHTHVS-KSGLDLD-LHVVNCLVRC---------YSVSSDLNNARQVFDEIRNR-----  179 (818)
Q Consensus       121 ll~~~~~-~g~~~~----A~~~~~~m~-~~g~~p~-~~~~~~Li~~---------y~~~g~~~~A~~l~~~m~~~-----  179 (818)
                      -+.--.+ .++...    ..+.|+-.+ +.|+.+- ...|+..+..         |....+++..+++++++...     
T Consensus        92 Yl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nl  171 (656)
T KOG1914|consen   92 YLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNL  171 (656)
T ss_pred             HHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccH
Confidence            4443222 233333    223333333 3344332 2345555543         33345677778888887652     


Q ss_pred             -----CHHHHHHHHHHHH-------HcCChHHHHHHHHHHHH--cCCCCCHHH---------------HHHHHHHHHhcC
Q 003457          180 -----TLNVWTTMISGYA-------QSFRANEALMLFDQMLM--EGFEPNSVT---------------LASVLSACAQSG  230 (818)
Q Consensus       180 -----d~~~~~~Li~~~~-------~~g~~~~A~~l~~~m~~--~g~~pd~~t---------------~~~ll~~~~~~g  230 (818)
                           |-..|..=|+...       +...+..|.++++++..  .|+.-+..+               |..+|.-- +.+
T Consensus       172 EkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wE-ksN  250 (656)
T KOG1914|consen  172 EKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWE-KSN  250 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHH-hcC
Confidence                 2223333232221       12345667777766643  233322222               22222211 111


Q ss_pred             Chh---------HHHHHHHHHHH-cCCCCcHHHHH-----HHHHHHHhCCCH-------HHHHHHHhhCCC----CChhh
Q 003457          231 CLE---------LGEKVHVFVKM-RGFEMGAILGT-----ALVHMYTKNGAL-------AKAKALFDSMPE----RNIAT  284 (818)
Q Consensus       231 ~~~---------~A~~i~~~~~~-~g~~~~~~~~~-----~Li~~~~~~g~~-------~~A~~~f~~m~~----~d~~~  284 (818)
                      -+.         ...-++++.+. .+..|+.....     ...+.+.+.|+.       +++..+++...+    .+...
T Consensus       251 pL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~L  330 (656)
T KOG1914|consen  251 PLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLL  330 (656)
T ss_pred             CcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            111         01111121111 12222221111     112233333433       333444443332    22223


Q ss_pred             HHHHHHHHHHc---CCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCC-CHHHHHHH
Q 003457          285 WNAMISGLASH---GHAEEALDLFRKLEKE-QIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP-KIEHYGCM  359 (818)
Q Consensus       285 ~~~Li~~~~~~---g~~~~A~~l~~~m~~~-g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p-~~~~~~~L  359 (818)
                      |..+...--..   +..+.....++++... ...| ..+|..+++...+..-++.|+.+|.++.+. +..+ ++.+++++
T Consensus       331 y~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~-tLv~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~  408 (656)
T KOG1914|consen  331 YFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDL-TLVYCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAAL  408 (656)
T ss_pred             HHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCC-ceehhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHH
Confidence            33222211111   1245555666666543 2233 345667777777777788888888887776 3334 67777777


Q ss_pred             HHHHHHcCCHHHHHHHHHHc-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCC-CcchHHHHHHHHHHhhc
Q 003457          360 VDLLGRCGKVLEAEELIKRM-VWKPD-VVMWGALLAACKNHGNIEVAERVVKEIIAL--EPN-NHGVYVVLSNMYAEAES  434 (818)
Q Consensus       360 i~~~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~--~P~-~~~~y~~L~~~l~~~G~  434 (818)
                      +..|+ +++.+-|.++|+-- +.-+| ...-...++-+.+.++-..+..+|++.+..  .|+ ..+.|..+.+.-..-|+
T Consensus       409 mEy~c-skD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGd  487 (656)
T KOG1914|consen  409 MEYYC-SKDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGD  487 (656)
T ss_pred             HHHHh-cCChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhccc
Confidence            76554 66778888888765 22244 444455666677888888888888888765  333 34778888888888888


Q ss_pred             hHHHHHHHHHH
Q 003457          435 MKMQLEILLVQ  445 (818)
Q Consensus       435 ~~eA~~l~~~~  445 (818)
                      +..++++-+..
T Consensus       488 L~si~~lekR~  498 (656)
T KOG1914|consen  488 LNSILKLEKRR  498 (656)
T ss_pred             HHHHHHHHHHH
Confidence            88888866555

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.01  E-value=1.4e-05  Score=81.47  Aligned_cols=83  Identities=18%  Similarity=0.190  Sum_probs=46.5

Q ss_pred             HHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          363 LGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       363 ~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      +.+.+++++|+..|.++ ...| |.+.|..-..+|.+.|.++.|++-.+.+++++|....+|..|+.+|...|++++|++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~~  170 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAIE  170 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHHH
Confidence            34455555555555555 2233 455555555556666666666666666666666656666666666666666666665


Q ss_pred             HHHHH
Q 003457          441 ILLVQ  445 (818)
Q Consensus       441 l~~~~  445 (818)
                      .++..
T Consensus       171 aykKa  175 (304)
T KOG0553|consen  171 AYKKA  175 (304)
T ss_pred             HHHhh
Confidence            54444

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.97  E-value=0.051  Score=59.92  Aligned_cols=425  Identities=13%  Similarity=0.153  Sum_probs=253.1

Q ss_pred             CCCCChhHHHHHHHHhcCc--hHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcC--CCCHHHHHH
Q 003457           10 QPPLPIPPLSLLADKCKSM--HQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQ--SPNHFMWNT   85 (818)
Q Consensus        10 ~~~p~~~tl~~ll~~c~~~--~~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~--~p~~~~yn~   85 (818)
                      ..|-|..+|..|+.-...-  ++.+..++.+.. -+...+..|..-+..-  .+.++++..+++|.+..  .-+...|..
T Consensus        15 ~nP~di~sw~~lire~qt~~~~~~R~~YEq~~~-~FP~s~r~W~~yi~~E--l~skdfe~VEkLF~RCLvkvLnlDLW~l   91 (656)
T KOG1914|consen   15 ENPYDIDSWSQLIREAQTQPIDKVRETYEQLVN-VFPSSPRAWKLYIERE--LASKDFESVEKLFSRCLVKVLNLDLWKL   91 (656)
T ss_pred             cCCccHHHHHHHHHHHccCCHHHHHHHHHHHhc-cCCCCcHHHHHHHHHH--HHhhhHHHHHHHHHHHHHHHhhHhHHHH
Confidence            4567888999999977543  344677776654 3556788888888888  89999999999999876  357778887


Q ss_pred             HHHHHHh-CCChhH----HHHHHHHHH-HcCCCCCHH-HHHHHHHH---------HHccCChHHHHHHHHHHHHcCCCCC
Q 003457           86 LIRAQAS-SLNPDK----AIFLYMNMR-RTGFAPNQH-TFTFVLKA---------CSNVRSLNCCKQIHTHVSKSGLDLD  149 (818)
Q Consensus        86 Li~~~~~-~g~~~~----Al~lf~~m~-~~g~~pd~~-ty~~ll~~---------~~~~g~~~~A~~~~~~m~~~g~~p~  149 (818)
                      -|+.-.+ +++...    ..+.|+-.. +.|+.+-+. .|...+.-         +....+++..++++++++...+..=
T Consensus        92 Yl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nl  171 (656)
T KOG1914|consen   92 YLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNL  171 (656)
T ss_pred             HHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccH
Confidence            7765443 233332    233343333 334443332 34433333         2334466778888888876533211


Q ss_pred             HHHHHH------HHHHH-------HhCCChHHHHHHHHHhhc------CCH---------------HHHHHHHHHHHHcC
Q 003457          150 LHVVNC------LVRCY-------SVSSDLNNARQVFDEIRN------RTL---------------NVWTTMISGYAQSF  195 (818)
Q Consensus       150 ~~~~~~------Li~~y-------~~~g~~~~A~~l~~~m~~------~d~---------------~~~~~Li~~~~~~g  195 (818)
                      ...|+-      =|+..       -+..++..|.++++++..      ++.               ..|-.+|.-=..++
T Consensus       172 EkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNp  251 (656)
T KOG1914|consen  172 EKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNP  251 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCC
Confidence            122221      11111       123445666666666542      110               12444443221111


Q ss_pred             Ch--------HHHHHHHHH-HHHcCCCCCHHHHH-H----HHHHHHhcCC-------hhHHHHHHHHHHHcCCCCcHHHH
Q 003457          196 RA--------NEALMLFDQ-MLMEGFEPNSVTLA-S----VLSACAQSGC-------LELGEKVHVFVKMRGFEMGAILG  254 (818)
Q Consensus       196 ~~--------~~A~~l~~~-m~~~g~~pd~~t~~-~----ll~~~~~~g~-------~~~A~~i~~~~~~~g~~~~~~~~  254 (818)
                      --        ....=.+++ |+-.+..|+..... .    .-..+...|+       .+++..+++..+..-...+..+|
T Consensus       252 L~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly  331 (656)
T KOG1914|consen  252 LRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLY  331 (656)
T ss_pred             cccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            10        011112222 12223344332111 1    1122333343       45566666666654323334444


Q ss_pred             HHHHHHHH---hCCCHHHHHHHHhhCCC----CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHH
Q 003457          255 TALVHMYT---KNGALAKAKALFDSMPE----RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVP-NDITFVGVLSA  326 (818)
Q Consensus       255 ~~Li~~~~---~~g~~~~A~~~f~~m~~----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a  326 (818)
                      ..+.+.--   +.+..+.....++++..    .-.-+|..+|..-.+..-.+.|..+|.++.+.+..+ +...++.++..
T Consensus       332 ~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy  411 (656)
T KOG1914|consen  332 FALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEY  411 (656)
T ss_pred             HHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHH
Confidence            44333211   11235555566665553    233478888888888899999999999999987777 55666777775


Q ss_pred             HHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC---CCCC--HHHHHHHHHHHHHcCCH
Q 003457          327 CCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV---WKPD--VVMWGALLAACKNHGNI  401 (818)
Q Consensus       327 ~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~---~~pd--~~~~~~Li~a~~~~g~~  401 (818)
                      +| .++.+.|.++|+.=.++  +..++.--...++-+...++-..|..+|++..   ..|+  ...|..++.--..-|+.
T Consensus       412 ~c-skD~~~AfrIFeLGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL  488 (656)
T KOG1914|consen  412 YC-SKDKETAFRIFELGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDL  488 (656)
T ss_pred             Hh-cCChhHHHHHHHHHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccH
Confidence            55 68899999999997776  44455566778888899999999999999983   2333  58999999988899999


Q ss_pred             HHHHHHHHHHHhcCCCCc----chHHHHHHHHHHhhchHHHHH
Q 003457          402 EVAERVVKEIIALEPNNH----GVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       402 ~~A~~~~~~~~~~~P~~~----~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      ..++++-++.....|.+.    ..-..+++-|.-.+.+..-..
T Consensus       489 ~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~  531 (656)
T KOG1914|consen  489 NSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLD  531 (656)
T ss_pred             HHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHH
Confidence            999999998888777321    233445556655555544333

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.96  E-value=0.0006  Score=67.89  Aligned_cols=158  Identities=14%  Similarity=0.142  Sum_probs=124.6

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH-HHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVG-VLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDL  362 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~-ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~  362 (818)
                      .|..++-+....++.+-|..+++++.+.-  |...-... -...+...|++++|+++|+.+.+.  .+.|..++-.-+-+
T Consensus        54 l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~d--dpt~~v~~KRKlAi  129 (289)
T KOG3060|consen   54 LYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYKEAIEYYESLLED--DPTDTVIRKRKLAI  129 (289)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchhhHHHHHHHHhcc--CcchhHHHHHHHHH
Confidence            45555666778899999999999998873  44332222 223456789999999999999975  46677888877777


Q ss_pred             HHHcCCHHHHHHHHHHc--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh---chHH
Q 003457          363 LGRCGKVLEAEELIKRM--VWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE---SMKM  437 (818)
Q Consensus       363 ~~~~g~~~~A~~~~~~m--~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G---~~~e  437 (818)
                      .-.+|+.-+|++.+.+.  ....|...|.-+...|...|++++|.-++++++=++|-++..+..+++++.-.|   +++-
T Consensus       130 lka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~  209 (289)
T KOG3060|consen  130 LKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLEL  209 (289)
T ss_pred             HHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHH
Confidence            88889988998877766  244689999999999999999999999999999999999999999999988666   3444


Q ss_pred             HHHHHHHH
Q 003457          438 QLEILLVQ  445 (818)
Q Consensus       438 A~~l~~~~  445 (818)
                      |.+++...
T Consensus       210 arkyy~~a  217 (289)
T KOG3060|consen  210 ARKYYERA  217 (289)
T ss_pred             HHHHHHHH
Confidence            55555443

>PF12854 PPR_1: PPR repeat

Probab=97.95  E-value=1.3e-05  Score=54.82  Aligned_cols=32  Identities=28%  Similarity=0.520  Sum_probs=23.0

Q ss_pred             CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHh
Q 003457          145 GLDLDLHVVNCLVRCYSVSSDLNNARQVFDEI  176 (818)
Q Consensus       145 g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m  176 (818)
                      |+.||..+|+.||++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            56677777777777777777777777777766

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.95  E-value=1.3e-05  Score=64.30  Aligned_cols=56  Identities=14%  Similarity=0.222  Sum_probs=46.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          391 LLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       391 Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      +...+.+.|++++|++.|+++++..|+++.++..++.++.+.|++++|.+.++..+
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45667888888888888888888888888888888888888888888888777664

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.93  E-value=0.00029  Score=77.18  Aligned_cols=127  Identities=12%  Similarity=0.040  Sum_probs=106.2

Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC
Q 003457          252 ILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAG  331 (818)
Q Consensus       252 ~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g  331 (818)
                      .....|+..+...++++.|.++|+++.+.++.....++..+...++..+|++++++.++... -+...+..-...|.+.+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~p-~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKENP-QDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcC
Confidence            44456777778889999999999999988777777888899889999999999999987632 25566666667788999


Q ss_pred             CHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCC
Q 003457          332 FIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVW  381 (818)
Q Consensus       332 ~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  381 (818)
                      +++.|+.+.+++.+.  .+.+..+|..|+.+|.+.|++++|+..++.++.
T Consensus       249 ~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  249 KYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             CHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            999999999998874  445577999999999999999999999998863

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.91  E-value=5.1e-05  Score=83.27  Aligned_cols=103  Identities=11%  Similarity=0.078  Sum_probs=70.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCH
Q 003457          324 LSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNI  401 (818)
Q Consensus       324 l~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~  401 (818)
                      ...+...|++++|++.|+++++.  .+.+...|..+..+|.+.|++++|+..++++ ...| +...|..+..+|.+.|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCH
Confidence            44556667777777777777764  3445666777777777777777777777776 2334 456677777777777777


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHH
Q 003457          402 EVAERVVKEIIALEPNNHGVYVVLSNM  428 (818)
Q Consensus       402 ~~A~~~~~~~~~~~P~~~~~y~~L~~~  428 (818)
                      ++|+..|+++++++|++..+...+..+
T Consensus        87 ~eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         87 QTAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            777777777777777766655554433

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.90  E-value=0.00018  Score=61.05  Aligned_cols=90  Identities=22%  Similarity=0.203  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh
Q 003457          356 YGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE  433 (818)
Q Consensus       356 ~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G  433 (818)
                      +..+...+...|++++|++.++++ ...| +...+..+...+...+++++|.+.++++++..|.+...+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            456677788888899998888877 3334 34677778888888899999999999999999988888899999999999


Q ss_pred             chHHHHHHHHHH
Q 003457          434 SMKMQLEILLVQ  445 (818)
Q Consensus       434 ~~~eA~~l~~~~  445 (818)
                      ++++|.+.++..
T Consensus        83 ~~~~a~~~~~~~   94 (100)
T cd00189          83 KYEEALEAYEKA   94 (100)
T ss_pred             hHHHHHHHHHHH
Confidence            999998876655

>PF12854 PPR_1: PPR repeat

Probab=97.89  E-value=2.2e-05  Score=53.80  Aligned_cols=32  Identities=38%  Similarity=0.603  Sum_probs=23.2

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc
Q 003457          348 GIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       348 g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                      |+.||..+|+.||++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            56677777777777777777777777777766

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.87  E-value=3.8e-05  Score=62.41  Aligned_cols=63  Identities=22%  Similarity=0.286  Sum_probs=57.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh-chHHHHHHHHHHH
Q 003457          384 DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE-SMKMQLEILLVQV  446 (818)
Q Consensus       384 d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G-~~~eA~~l~~~~~  446 (818)
                      +...|..+...+.+.|++++|+..|+++++++|+++..|..++.++.+.| ++++|++.++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            46788889999999999999999999999999999999999999999999 8999999766653

...

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.86  E-value=0.00054  Score=72.58  Aligned_cols=152  Identities=14%  Similarity=0.022  Sum_probs=112.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHH-------------HH
Q 003457          290 SGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIE-------------HY  356 (818)
Q Consensus       290 ~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~-------------~~  356 (818)
                      .++.-.+++++|...--..++.... +......-..++...++.+.+...|++.++   +.|+..             .+
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~~~~~k~le~~  252 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLDAT-NAEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSASMMPKKLEVK  252 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhcccc-hhHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhHhhhHHHHHHH
Confidence            3566778888888877766664221 222222223345566788888888888664   455432             22


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHcC------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          357 GCMVDLLGRCGKVLEAEELIKRMV------WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       357 ~~Li~~~~~~g~~~~A~~~~~~m~------~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      ..-.+...+.|++.+|.+.|.+..      .+|+...|.....+..+.|+.++|+...+++++++|....+|..-+.++.
T Consensus       253 k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l  332 (486)
T KOG0550|consen  253 KERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHL  332 (486)
T ss_pred             HhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHH
Confidence            223344568899999999999882      33556778878888889999999999999999999999999999999999


Q ss_pred             HhhchHHHHHHHHHH
Q 003457          431 EAESMKMQLEILLVQ  445 (818)
Q Consensus       431 ~~G~~~eA~~l~~~~  445 (818)
                      ..++|++|.+-++..
T Consensus       333 ~le~~e~AV~d~~~a  347 (486)
T KOG0550|consen  333 ALEKWEEAVEDYEKA  347 (486)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999965554

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.84  E-value=0.00017  Score=65.32  Aligned_cols=101  Identities=16%  Similarity=0.099  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCC----HHHHHHHHH
Q 003457          320 FVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP-KIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPD----VVMWGALLA  393 (818)
Q Consensus       320 ~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd----~~~~~~Li~  393 (818)
                      +..++..+.+.|++++|...+..+.+...-.+ ....+..+..++.+.|++++|++.|+++. ..|+    ...+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            34445555555666666666655554311101 12344445555555555555555555541 1222    234444555


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCcc
Q 003457          394 ACKNHGNIEVAERVVKEIIALEPNNHG  420 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~P~~~~  420 (818)
                      ++.+.|+.++|.+.++++++..|++..
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~p~~~~  111 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKRYPGSSA  111 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHHCcCChh
Confidence            555555555555555555555555443

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.83  E-value=0.00052  Score=75.21  Aligned_cols=126  Identities=18%  Similarity=0.173  Sum_probs=97.1

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 003457          151 HVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSG  230 (818)
Q Consensus       151 ~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g  230 (818)
                      .....|+..+...++++.|+.+|+++.+.++.....+++.+...++..+|.+++++.++.. +-+...+......|.+.+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            3445666677778888888888888888887777778888888888888888888888653 446566666667777888


Q ss_pred             ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCC
Q 003457          231 CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMP  278 (818)
Q Consensus       231 ~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~  278 (818)
                      +.+.|.++.+++.... +.+..+|..|+.+|.+.|+++.|+..++.+.
T Consensus       249 ~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  249 KYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            8888888888888764 4555678888888888888888888887766

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.82  E-value=0.00017  Score=73.63  Aligned_cols=108  Identities=14%  Similarity=0.081  Sum_probs=89.4

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC-HHHHHHHHHHHHHcCCHH
Q 003457          325 SACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD-VVMWGALLAACKNHGNIE  402 (818)
Q Consensus       325 ~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a~~~~g~~~  402 (818)
                      .-..+.+++++|+..|.+.++.  .+-|...|..-..+|.+.|.++.|++-.+.. .+.|. ..+|..|..+|...|+++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l--~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIEL--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHH
Confidence            3467789999999999999974  5567888889999999999999999998887 45565 689999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          403 VAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       403 ~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      +|++.|+++++++|++......|-.+-.+.+.
T Consensus       167 ~A~~aykKaLeldP~Ne~~K~nL~~Ae~~l~e  198 (304)
T KOG0553|consen  167 EAIEAYKKALELDPDNESYKSNLKIAEQKLNE  198 (304)
T ss_pred             HHHHHHHhhhccCCCcHHHHHHHHHHHHHhcC
Confidence            99999999999999988655555444444433

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.74  E-value=0.0016  Score=61.69  Aligned_cols=125  Identities=13%  Similarity=0.097  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC--HHHHHHHH
Q 003457          285 WNAMISGLASHGHAEEALDLFRKLEKEQIVPN--DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK--IEHYGCMV  360 (818)
Q Consensus       285 ~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd--~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~--~~~~~~Li  360 (818)
                      |..++..+ ..++..++...++++.+....-.  ......+...+...|++++|...|+.+... ...++  ......|.
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHHH
Confidence            33333333 35666666666666665432211  122223345566666666666666666654 21111  12334455


Q ss_pred             HHHHHcCCHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          361 DLLGRCGKVLEAEELIKRMVWK-PDVVMWGALLAACKNHGNIEVAERVVKEI  411 (818)
Q Consensus       361 ~~~~~~g~~~~A~~~~~~m~~~-pd~~~~~~Li~a~~~~g~~~~A~~~~~~~  411 (818)
                      ..+...|++++|+..++..... .....+..+.+.|...|++++|+..|+++
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            5666666666666666554321 22344555555666666666666666654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.74  E-value=0.00055  Score=61.85  Aligned_cols=95  Identities=13%  Similarity=0.073  Sum_probs=44.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCC-CHHHHHHHHH
Q 003457          285 WNAMISGLASHGHAEEALDLFRKLEKEQIV-P-NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP-KIEHYGCMVD  361 (818)
Q Consensus       285 ~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~-p-d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p-~~~~~~~Li~  361 (818)
                      +..++..+.+.|++++|.+.|+++.+.... + ....+..+..++.+.|+++.|...|+.+.....-.+ ....+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            344445555555555555555555543211 0 122333445555555555555555555544311111 1334445555


Q ss_pred             HHHHcCCHHHHHHHHHHc
Q 003457          362 LLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       362 ~~~~~g~~~~A~~~~~~m  379 (818)
                      ++.+.|++++|.+.++++
T Consensus        85 ~~~~~~~~~~A~~~~~~~  102 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQV  102 (119)
T ss_pred             HHHHhCChHHHHHHHHHH
Confidence            555555555555555554

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.71  E-value=0.001  Score=76.17  Aligned_cols=129  Identities=12%  Similarity=0.096  Sum_probs=82.8

Q ss_pred             CCCCHHHHHHHHHHHHHc--C---CHHHHHHHHHHHHHHhCCCCC-HHHHHHHHHHHHHc--------CCHHHHHHHHHH
Q 003457          313 IVPNDITFVGVLSACCHA--G---FIDVGRQIFGSMKRVYGIEPK-IEHYGCMVDLLGRC--------GKVLEAEELIKR  378 (818)
Q Consensus       313 ~~pd~~t~~~ll~a~~~~--g---~~~~A~~~~~~m~~~~g~~p~-~~~~~~Li~~~~~~--------g~~~~A~~~~~~  378 (818)
                      .+.+...|...+++....  +   +.+.|..+|+++++.   .|+ ...|..+..+|...        .+..++.+..++
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l---dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS---EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            445566666666554332  2   256777777777753   444 34444443333221        123444455544


Q ss_pred             cC----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          379 MV----WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       379 m~----~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ..    ...+...|..+.-.+...|++++|...++++++++|+ ...|..++.++...|+.++|.+.++..
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps-~~a~~~lG~~~~~~G~~~eA~~~~~~A  479 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMS-WLNYVLLGKVYELKGDNRLAADAYSTA  479 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            31    2234567777766667788999999999999999985 788889999999999999998866555

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.70  E-value=0.00034  Score=68.37  Aligned_cols=83  Identities=13%  Similarity=0.059  Sum_probs=65.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHH
Q 003457          353 IEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSN  427 (818)
Q Consensus       353 ~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~  427 (818)
                      ...+..+...|...|++++|...|+++. ..|+    ...+..+...+.+.|++++|+..++++++..|++...+..++.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~  114 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            4456677777778888888888887762 2222    3577888888899999999999999999999998888888898


Q ss_pred             HHHHhhch
Q 003457          428 MYAEAESM  435 (818)
Q Consensus       428 ~l~~~G~~  435 (818)
                      +|...|+.
T Consensus       115 ~~~~~g~~  122 (172)
T PRK02603        115 IYHKRGEK  122 (172)
T ss_pred             HHHHcCCh
Confidence            88887763

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.70  E-value=0.00072  Score=74.20  Aligned_cols=87  Identities=15%  Similarity=0.084  Sum_probs=73.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchH
Q 003457          359 MVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMK  436 (818)
Q Consensus       359 Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~  436 (818)
                      ....+...|++++|++.|+++ ...| +...|..+..+|.+.|++++|+..++++++++|+++.+|..++.+|.+.|+++
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHH
Confidence            345567889999999999888 3444 57788888888899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 003457          437 MQLEILLVQ  445 (818)
Q Consensus       437 eA~~l~~~~  445 (818)
                      +|++.++..
T Consensus        88 eA~~~~~~a   96 (356)
T PLN03088         88 TAKAALEKG   96 (356)
T ss_pred             HHHHHHHHH
Confidence            999976554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.69  E-value=0.00018  Score=75.74  Aligned_cols=128  Identities=10%  Similarity=-0.030  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH---HHhCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHcC-------C-CCCH
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMK---RVYGIEP-KIEHYGCMVDLLGRCGKVLEAEELIKRMV-------W-KPDV  385 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~---~~~g~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-------~-~pd~  385 (818)
                      ..|..|.+.|.-.|+++.|+..++.-.   +.+|..- ....+..|.+++.-.|+++.|.+.|+...       . ....
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            456777777777899999998877632   3333332 24678889999999999999999998751       1 1245


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC------CCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIALE------PNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~------P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ....+|..+|.-..++++|+.++.+-+.+.      -....++..|+..|...|..+.|+.+.+.-
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~h  341 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELH  341 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            677788999988899999999997766542      224678899999999999999999865443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.68  E-value=0.0018  Score=74.27  Aligned_cols=141  Identities=13%  Similarity=0.065  Sum_probs=102.1

Q ss_pred             CChhhHHHHHHHHHH--c---CCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHc--------CCHHHHHHHHHHHHH
Q 003457          280 RNIATWNAMISGLAS--H---GHAEEALDLFRKLEKEQIVPN-DITFVGVLSACCHA--------GFIDVGRQIFGSMKR  345 (818)
Q Consensus       280 ~d~~~~~~Li~~~~~--~---g~~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~~--------g~~~~A~~~~~~m~~  345 (818)
                      .+...|...+.+...  .   ++.++|..+|++.++.  .|+ ...+..+..++...        .++..+.+..++...
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            577788888776443  2   3377899999999986  454 44555444433322        123344444444333


Q ss_pred             HhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchH
Q 003457          346 VYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       346 ~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                      ....+.+...|..+...+...|++++|...|+++ ...|+...|..+...+...|+.++|.+.|+++++++|.++..|
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt~~  490 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENTLY  490 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCchHH
Confidence            2123445678888887788899999999999998 4678889999999999999999999999999999999977544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.67  E-value=0.00053  Score=66.71  Aligned_cols=94  Identities=10%  Similarity=-0.077  Sum_probs=76.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHH
Q 003457          352 KIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLS  426 (818)
Q Consensus       352 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~  426 (818)
                      ....+..+...+...|++++|+..|+++. ..|+    ..++..+...+.+.|++++|++.+++++++.|.....+..++
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la  113 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHH
Confidence            35566777888888999999999998872 2222    357888999999999999999999999999999999899999


Q ss_pred             HHHH-------HhhchHHHHHHHHHH
Q 003457          427 NMYA-------EAESMKMQLEILLVQ  445 (818)
Q Consensus       427 ~~l~-------~~G~~~eA~~l~~~~  445 (818)
                      .++.       +.|++++|...++..
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            8888       778888777655443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.65  E-value=8e-05  Score=63.22  Aligned_cols=77  Identities=16%  Similarity=0.253  Sum_probs=46.7

Q ss_pred             cCCHHHHHHHHHHcC-CCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHH
Q 003457          366 CGKVLEAEELIKRMV-WKP---DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEI  441 (818)
Q Consensus       366 ~g~~~~A~~~~~~m~-~~p---d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l  441 (818)
                      .|++++|+.+|+++. ..|   +...+..+..+|.+.|++++|++++++ .+.+|.+......++.++.+.|++++|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            456666666666662 122   334455566667777777777777766 556666556666667777777777777765


Q ss_pred             HH
Q 003457          442 LL  443 (818)
Q Consensus       442 ~~  443 (818)
                      ++
T Consensus        81 l~   82 (84)
T PF12895_consen   81 LE   82 (84)
T ss_dssp             HH
T ss_pred             Hh
Confidence            44

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.64  E-value=0.0016  Score=61.72  Aligned_cols=122  Identities=13%  Similarity=0.043  Sum_probs=92.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCCH----HHHHHH
Q 003457          320 FVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK---IEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPDV----VMWGAL  391 (818)
Q Consensus       320 ~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~---~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd~----~~~~~L  391 (818)
                      |..++..+ ..++...+...++.+.+.  .+.+   ......+...+...|++++|.+.|+.+. ..||.    .....|
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~--~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKD--YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            44444444 478899999999998886  3333   3445567788999999999999999984 22443    355667


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          392 LAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       392 i~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ...+...|++++|+..++... -.+-.+..+..++++|.+.|++++|.+.++..
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~-~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIP-DEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhcc-CcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            788899999999999997732 33334678889999999999999999977643

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.62  E-value=2.5e-05  Score=63.27  Aligned_cols=50  Identities=16%  Similarity=0.270  Sum_probs=41.0

Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          396 KNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       396 ~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ...|++++|++.|+++++..|++..++..++.+|.+.|++++|.++++.+
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            46788888888888888888888888888888888888888888876655

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.57  E-value=0.0018  Score=63.19  Aligned_cols=131  Identities=15%  Similarity=0.122  Sum_probs=92.6

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHH
Q 003457          281 NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPN--DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGC  358 (818)
Q Consensus       281 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd--~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~  358 (818)
                      ....+..+...+...|++++|+..|++..+....+.  ...+..+..++.+.|++++|...+++..+.  .+.+...+..
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~  111 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNN  111 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHH
Confidence            344667777788888899999998888876543332  356777788888889999999988888764  3345666777


Q ss_pred             HHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          359 MVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       359 Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      +..+|...|+...+..-++.+.                  ..+++|+++++++++.+|++   |..++..+...|+
T Consensus       112 lg~~~~~~g~~~~a~~~~~~A~------------------~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        112 IAVIYHKRGEKAEEAGDQDEAE------------------ALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHcCChHhHhhCHHHHH------------------HHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            7777888777776664444321                  23688899999999999885   5555555554443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.57  E-value=0.15  Score=54.12  Aligned_cols=269  Identities=16%  Similarity=0.154  Sum_probs=171.5

Q ss_pred             hCCChHHHHHHHHHhh---cCCHHHHHHHHH--HHHHcCChHHHHHHHHHHHHcCCCCCHHH--HHHHHHHHHhcCChhH
Q 003457          162 VSSDLNNARQVFDEIR---NRTLNVWTTMIS--GYAQSFRANEALMLFDQMLMEGFEPNSVT--LASVLSACAQSGCLEL  234 (818)
Q Consensus       162 ~~g~~~~A~~l~~~m~---~~d~~~~~~Li~--~~~~~g~~~~A~~l~~~m~~~g~~pd~~t--~~~ll~~~~~~g~~~~  234 (818)
                      -.||-..|.++-.+..   ..|....-.|+.  +-.-.|+++.|.+-|+.|...   |....  +..|.-...+.|+.+.
T Consensus        96 gAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~Garea  172 (531)
T COG3898          96 GAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREA  172 (531)
T ss_pred             ccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHH
Confidence            3566666666555433   234444444443  234458888888888888742   22211  2223333356788888


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC-----CChh--hHHHHHHHHH---HcCCHHHHHHH
Q 003457          235 GEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE-----RNIA--TWNAMISGLA---SHGHAEEALDL  304 (818)
Q Consensus       235 A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~-----~d~~--~~~~Li~~~~---~~g~~~~A~~l  304 (818)
                      |.++-+..-... +.-.....+.++..|..|+++.|+++++.-..     ++..  .--.|+.+-.   -.-+...|.+.
T Consensus       173 Ar~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~  251 (531)
T COG3898         173 ARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDD  251 (531)
T ss_pred             HHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHH
Confidence            888887777654 33345667788888899999999998886543     3432  1112222111   12346666666


Q ss_pred             HHHHHHcCCCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc----
Q 003457          305 FRKLEKEQIVPNDIT-FVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM----  379 (818)
Q Consensus       305 ~~~m~~~g~~pd~~t-~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m----  379 (818)
                      -.+..+.  .||..- -.....++.+.|+..++-.+++.+=+   ..|.+..+...+  +.+.|+..  +.-++++    
T Consensus       252 A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK---~ePHP~ia~lY~--~ar~gdta--~dRlkRa~~L~  322 (531)
T COG3898         252 ALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWK---AEPHPDIALLYV--RARSGDTA--LDRLKRAKKLE  322 (531)
T ss_pred             HHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHh---cCCChHHHHHHH--HhcCCCcH--HHHHHHHHHHH
Confidence            6666553  566433 23345788999999999999998765   467766665444  45666533  2222222    


Q ss_pred             CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHh-hchHHHHHHHHH
Q 003457          380 VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEA-ESMKMQLEILLV  444 (818)
Q Consensus       380 ~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~-G~~~eA~~l~~~  444 (818)
                      ..+| +......+..+-...|++..|..--+.+.++.|. ..+|..|+++-... |+-.++...+-.
T Consensus       323 slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pr-es~~lLlAdIeeAetGDqg~vR~wlAq  388 (531)
T COG3898         323 SLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPR-ESAYLLLADIEEAETGDQGKVRQWLAQ  388 (531)
T ss_pred             hcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCch-hhHHHHHHHHHhhccCchHHHHHHHHH
Confidence            2345 5677778888888999999999999999999998 78899999887654 888887774433

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.55  E-value=0.0011  Score=56.01  Aligned_cols=93  Identities=17%  Similarity=0.146  Sum_probs=51.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcC
Q 003457          322 GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHG  399 (818)
Q Consensus       322 ~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g  399 (818)
                      .+...+...|++++|...++.+.+.  .+.+...+..+...+...+++++|.+.|++. ...| +...+..+...+...|
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            3444445555555555555555442  2223344555555566666666666666554 1222 3345556666666666


Q ss_pred             CHHHHHHHHHHHHhcCC
Q 003457          400 NIEVAERVVKEIIALEP  416 (818)
Q Consensus       400 ~~~~A~~~~~~~~~~~P  416 (818)
                      ++++|...+++.++..|
T Consensus        83 ~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          83 KYEEALEAYEKALELDP   99 (100)
T ss_pred             hHHHHHHHHHHHHccCC
Confidence            66777766666666555

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.55  E-value=0.0081  Score=57.13  Aligned_cols=125  Identities=10%  Similarity=0.038  Sum_probs=105.1

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC---CHHHHH
Q 003457          314 VPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP---DVVMWG  389 (818)
Q Consensus       314 ~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p---d~~~~~  389 (818)
                      .|+...-..|..+..+.|++.+|...|++...- -+..|......+.++....+++.+|...++++. ..|   ...+..
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            566666677889999999999999999998764 456788888999999999999999999998873 222   233445


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          390 ALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       390 ~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      .+...+...|+++.|+..|+.+++-.|+ +......+..+.++|+.+||..
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHH
Confidence            6778889999999999999999999998 8888888999999999999887

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.52  E-value=0.00014  Score=49.83  Aligned_cols=33  Identities=27%  Similarity=0.463  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCC
Q 003457           82 MWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPN  114 (818)
Q Consensus        82 ~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd  114 (818)
                      +||++|++|++.|++++|.++|++|++.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            689999999999999999999999999999887

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.47  E-value=0.013  Score=62.54  Aligned_cols=297  Identities=12%  Similarity=-0.020  Sum_probs=144.8

Q ss_pred             HHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHH
Q 003457           89 AQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNN  168 (818)
Q Consensus        89 ~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~  168 (818)
                      .+.+..++..|+..+....+.... +..-|..-+..+...++++++.--.++-++.... ........-.++...++..+
T Consensus        58 ~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~-~~k~~~r~~~c~~a~~~~i~  135 (486)
T KOG0550|consen   58 AFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSVRLKDG-FSKGQLREGQCHLALSDLIE  135 (486)
T ss_pred             hHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhheecCCC-ccccccchhhhhhhhHHHHH
Confidence            344555566666666666654332 2333444444444445555544433333322111 11233333444445555555


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCCHHHHHHHH-HHHHhcCChhHHHHHHHHHHHcC
Q 003457          169 ARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGF-EPNSVTLASVL-SACAQSGCLELGEKVHVFVKMRG  246 (818)
Q Consensus       169 A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~-~pd~~t~~~ll-~~~~~~g~~~~A~~i~~~~~~~g  246 (818)
                      |.+.|+     +...+           ....++..++....... +|.-.++..+- .++...++.++|.++--..++..
T Consensus       136 A~~~~~-----~~~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld  199 (486)
T KOG0550|consen  136 AEEKLK-----SKQAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD  199 (486)
T ss_pred             HHHHhh-----hhhhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc
Confidence            555554     11111           11223333333322211 23334444333 34456777777777766666553


Q ss_pred             CCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457          247 FEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA  326 (818)
Q Consensus       247 ~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  326 (818)
                       ..+......-..++.-..+.+.|...|++...-|+....+-        ..-.-.+.++.+.+.            .+-
T Consensus       200 -~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk--------~~~~~~k~le~~k~~------------gN~  258 (486)
T KOG0550|consen  200 -ATNAEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSK--------SASMMPKKLEVKKER------------GND  258 (486)
T ss_pred             -cchhHHHHhcccccccccchHHHHHHHhhhhccChhhhhHH--------hHhhhHHHHHHHHhh------------hhh
Confidence             22222211112233334566666666666665333222110        000011112222222            222


Q ss_pred             HHHcCCHHHHHHHHHHHHHH--hCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHH---HHHHHHHHHHHcCCH
Q 003457          327 CCHAGFIDVGRQIFGSMKRV--YGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVV---MWGALLAACKNHGNI  401 (818)
Q Consensus       327 ~~~~g~~~~A~~~~~~m~~~--~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~---~~~~Li~a~~~~g~~  401 (818)
                      ..+.|++..|.++|.+.+..  ....++...|........+.|+.++|+.--+++. +-|..   .+..-..++...+++
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al-~iD~syikall~ra~c~l~le~~  337 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEAL-KIDSSYIKALLRRANCHLALEKW  337 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhh-hcCHHHHHHHHHHHHHHHHHHHH
Confidence            45677788888877776632  0123346667777777788888888888877763 22332   333333455667888


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHH
Q 003457          402 EVAERVVKEIIALEPNNHGVYVVLS  426 (818)
Q Consensus       402 ~~A~~~~~~~~~~~P~~~~~y~~L~  426 (818)
                      ++|.+.|+++.+..-+ .+....|.
T Consensus       338 e~AV~d~~~a~q~~~s-~e~r~~l~  361 (486)
T KOG0550|consen  338 EEAVEDYEKAMQLEKD-CEIRRTLR  361 (486)
T ss_pred             HHHHHHHHHHHhhccc-cchHHHHH
Confidence            8888888888887655 44444443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.46  E-value=0.00028  Score=57.89  Aligned_cols=55  Identities=15%  Similarity=0.180  Sum_probs=47.3

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          392 LAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       392 i~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      ...|.+.+++++|+++++++++++|+++..+..++.++.+.|++++|.+.++...
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3567888999999999999999999999999999999999999999999776663

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.44  E-value=0.00019  Score=49.04  Aligned_cols=33  Identities=36%  Similarity=0.642  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCC
Q 003457           81 FMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAP  113 (818)
Q Consensus        81 ~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~p  113 (818)
                      .+||.+|++|++.|+++.|+++|++|++.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            578888888888888888888888888888776

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.44  E-value=0.28  Score=55.69  Aligned_cols=68  Identities=7%  Similarity=0.085  Sum_probs=30.6

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC-----CHHHHHHHHHHHHHcCChHHHHHH
Q 003457          129 RSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR-----TLNVWTTMISGYAQSFRANEALML  203 (818)
Q Consensus       129 g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~-----d~~~~~~Li~~~~~~g~~~~A~~l  203 (818)
                      |++++|++++-++-+++         ..+.++.+.||+-...++++.-...     -..+|+.+...++....|++|.+.
T Consensus       748 g~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~y  818 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKY  818 (1189)
T ss_pred             cchhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555554443332         1244445555555555544432111     112445555555554455555444


Q ss_pred             HH
Q 003457          204 FD  205 (818)
Q Consensus       204 ~~  205 (818)
                      |.
T Consensus       819 Y~  820 (1189)
T KOG2041|consen  819 YS  820 (1189)
T ss_pred             HH
Confidence            43

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.41  E-value=0.00026  Score=48.48  Aligned_cols=33  Identities=42%  Similarity=0.805  Sum_probs=30.0

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQIVPN  316 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd  316 (818)
                      +||+++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            689999999999999999999999999998887

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.36  E-value=0.00088  Score=53.54  Aligned_cols=61  Identities=20%  Similarity=0.227  Sum_probs=51.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc
Q 003457          359 MVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNH  419 (818)
Q Consensus       359 Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~  419 (818)
                      +...+.+.|++++|++.|+++ ...| +...+..+..++.+.|++++|+..|+++++..|+++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            566788999999999999998 4456 478888899999999999999999999999999864

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.35  E-value=0.3  Score=52.05  Aligned_cols=312  Identities=14%  Similarity=0.105  Sum_probs=178.9

Q ss_pred             CHHHHHHHHhhcCCCCHHHHHHHHHHHHh--CCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHccCChHHHHHHHH
Q 003457           64 DLSYATRLFNSIQSPNHFMWNTLIRAQAS--SLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKA--CSNVRSLNCCKQIHT  139 (818)
Q Consensus        64 ~~e~A~~lf~~~~~p~~~~yn~Li~~~~~--~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~--~~~~g~~~~A~~~~~  139 (818)
                      ....+.+.|..-.  --..|.+|-.++..  .|+-..|.++-.+..+. +.-|......++.+  ..-.|+++.|++-|+
T Consensus        68 sP~t~~Ryfr~rK--RdrgyqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfe  144 (531)
T COG3898          68 SPYTARRYFRERK--RDRGYQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFE  144 (531)
T ss_pred             CcHHHHHHHHHHH--hhhHHHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHH
Confidence            3445555555432  22345566555544  45666666665554432 34455555555554  334578888888888


Q ss_pred             HHHHcCCCCCHH--HHHHHHHHHHhCCChHHHHHHHHHhhcCC---HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-CC
Q 003457          140 HVSKSGLDLDLH--VVNCLVRCYSVSSDLNNARQVFDEIRNRT---LNVWTTMISGYAQSFRANEALMLFDQMLMEG-FE  213 (818)
Q Consensus       140 ~m~~~g~~p~~~--~~~~Li~~y~~~g~~~~A~~l~~~m~~~d---~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g-~~  213 (818)
                      .|+..   |...  -...|.----+.|+.+.|.++-++....-   .-.+...+...+..|+|+.|+++++.-++.. +.
T Consensus       145 AMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie  221 (531)
T COG3898         145 AMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIE  221 (531)
T ss_pred             HHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhc
Confidence            87652   1111  11222222345777777777776665432   2256777778888888888888887765432 33


Q ss_pred             CCHHH--HHHHHHHH--Hh-cCChhHHHHHHHHHHHcCCCCcHH-HHHHHHHHHHhCCCHHHHHHHHhhCCC--CChhhH
Q 003457          214 PNSVT--LASVLSAC--AQ-SGCLELGEKVHVFVKMRGFEMGAI-LGTALVHMYTKNGALAKAKALFDSMPE--RNIATW  285 (818)
Q Consensus       214 pd~~t--~~~ll~~~--~~-~g~~~~A~~i~~~~~~~g~~~~~~-~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d~~~~  285 (818)
                      ++..-  -..|+.+-  .. ..+...|...-.+..+.  .|+.. .-..-..++.+.|++.++-.+++.+-+  |.+..+
T Consensus       222 ~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia  299 (531)
T COG3898         222 KDVAERSRAVLLTAKAMSLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIA  299 (531)
T ss_pred             hhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHH
Confidence            34321  12233221  11 22344555555555544  33321 222345677888888888888887765  444333


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH-cCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Q 003457          286 NAMISGLASHGHAEEALDLFRKLEK-EQIVPN-DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLL  363 (818)
Q Consensus       286 ~~Li~~~~~~g~~~~A~~l~~~m~~-~g~~pd-~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~  363 (818)
                          ..|....--+.+++-+++..+ ..++|| ......+..+-...|++..|..--+...+   ..|....|..|.+.-
T Consensus       300 ----~lY~~ar~gdta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r---~~pres~~lLlAdIe  372 (531)
T COG3898         300 ----LLYVRARSGDTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR---EAPRESAYLLLADIE  372 (531)
T ss_pred             ----HHHHHhcCCCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh---hCchhhHHHHHHHHH
Confidence                334443333444555554433 224554 45555667777888888888877666653   578888888888776


Q ss_pred             HH-cCCHHHHHHHHHHcCCCCCHHHHHH
Q 003457          364 GR-CGKVLEAEELIKRMVWKPDVVMWGA  390 (818)
Q Consensus       364 ~~-~g~~~~A~~~~~~m~~~pd~~~~~~  390 (818)
                      .. .|+-.++...+-+....|....|..
T Consensus       373 eAetGDqg~vR~wlAqav~APrdPaW~a  400 (531)
T COG3898         373 EAETGDQGKVRQWLAQAVKAPRDPAWTA  400 (531)
T ss_pred             hhccCchHHHHHHHHHHhcCCCCCcccc
Confidence            54 5999999999888754555445544

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.31  E-value=0.00086  Score=56.82  Aligned_cols=79  Identities=16%  Similarity=0.194  Sum_probs=31.5

Q ss_pred             CCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 003457          296 GHAEEALDLFRKLEKEQIV-PNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEE  374 (818)
Q Consensus       296 g~~~~A~~l~~~m~~~g~~-pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~  374 (818)
                      |++++|+.+++++.+.... ++...+..+..+|.+.|++++|..++++ .+.  .+.+......+..+|.+.|++++|++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~--~~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKL--DPSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTH--HHCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCC--CCCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            4455555555555443221 1222233344445555555555555444 111  01112233333444444555555544


Q ss_pred             HHH
Q 003457          375 LIK  377 (818)
Q Consensus       375 ~~~  377 (818)
                      .|+
T Consensus        80 ~l~   82 (84)
T PF12895_consen   80 ALE   82 (84)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.31  E-value=0.0067  Score=57.03  Aligned_cols=91  Identities=11%  Similarity=0.084  Sum_probs=62.9

Q ss_pred             HHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 003457          256 ALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGF  332 (818)
Q Consensus       256 ~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~  332 (818)
                      .+...+...|++++|.++|+.+..   .+..-|..|..++-..|++++|+..|.......+ -|+..+-.+..++...|+
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCC
Confidence            445556667777777777776654   3455667777777777777777777777776653 356667777777777777


Q ss_pred             HHHHHHHHHHHHHHh
Q 003457          333 IDVGRQIFGSMKRVY  347 (818)
Q Consensus       333 ~~~A~~~~~~m~~~~  347 (818)
                      .+.|++.|+..+...
T Consensus       119 ~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        119 VCYAIKALKAVVRIC  133 (157)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            777777777776653

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.30  E-value=0.016  Score=61.45  Aligned_cols=20  Identities=5%  Similarity=0.066  Sum_probs=10.6

Q ss_pred             HHHHHHcCChHHHHHHHHHH
Q 003457          188 ISGYAQSFRANEALMLFDQM  207 (818)
Q Consensus       188 i~~~~~~g~~~~A~~l~~~m  207 (818)
                      ...|-..+++++|.+.|.+.
T Consensus        42 a~~fk~~~~~~~A~~ay~kA   61 (282)
T PF14938_consen   42 ANCFKLAKDWEKAAEAYEKA   61 (282)
T ss_dssp             HHHHHHTT-CHHHHHHHHHH
T ss_pred             HHHHHHHhccchhHHHHHHH
Confidence            34555556666666655554

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.28  E-value=0.11  Score=58.86  Aligned_cols=187  Identities=13%  Similarity=0.171  Sum_probs=110.4

Q ss_pred             CCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhcCChhHHHHHHH
Q 003457          163 SSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGF--EPNSVTLASVLSACAQSGCLELGEKVHV  240 (818)
Q Consensus       163 ~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~--~pd~~t~~~ll~~~~~~g~~~~A~~i~~  240 (818)
                      -|++++|+++|-++.++|..     +..+.+.|+|-...++++.-- .+.  ..-...++.+...+.....+++|.++|.
T Consensus       747 ~g~feeaek~yld~drrDLA-----ielr~klgDwfrV~qL~r~g~-~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~  820 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRDLA-----IELRKKLGDWFRVYQLIRNGG-SDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYS  820 (1189)
T ss_pred             hcchhHhhhhhhccchhhhh-----HHHHHhhhhHHHHHHHHHccC-CCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            58899999999988888753     455666677766666654310 000  1113467777777777778888888776


Q ss_pred             HHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 003457          241 FVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITF  320 (818)
Q Consensus       241 ~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~  320 (818)
                      .-...         ...+++|.+..++++-+.+-+.+.+ |....-.|...+.+.|.-++|.+.|-+--    .|.    
T Consensus       821 ~~~~~---------e~~~ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~pk----  882 (1189)
T KOG2041|consen  821 YCGDT---------ENQIECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRRS----LPK----  882 (1189)
T ss_pred             hccch---------HhHHHHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhcc----CcH----
Confidence            65432         2356777777777776666666554 33445556677777777777776654321    111    


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHH--------------HHHHHHHHHHcCCHHHHHHHHHHc
Q 003457          321 VGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEH--------------YGCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       321 ~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~--------------~~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                       ..+..|...+++.+|.++-+...    + |.+.+              ..--|..+.+.|++-+|.+++.+|
T Consensus       883 -aAv~tCv~LnQW~~avelaq~~~----l-~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qm  949 (1189)
T KOG2041|consen  883 -AAVHTCVELNQWGEAVELAQRFQ----L-PQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQM  949 (1189)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHhcc----c-hhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHH
Confidence             23455666666666655443311    0 11100              112345567777777777777666

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.25  E-value=0.011  Score=62.66  Aligned_cols=132  Identities=17%  Similarity=0.229  Sum_probs=100.4

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Q 003457          283 ATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA-CCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVD  361 (818)
Q Consensus       283 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a-~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~  361 (818)
                      .+|-.++....+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|..+|+...+.  ++.+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            367788888888888999999999998543 2234445444443 33357777799999999987  6777888999999


Q ss_pred             HHHHcCCHHHHHHHHHHcC-CCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          362 LLGRCGKVLEAEELIKRMV-WKPDV----VMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       362 ~~~~~g~~~~A~~~~~~m~-~~pd~----~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      .+.+.++.+.|..+|++.. .-+..    ..|...+.--.+.|+.+....+.+++.+..|+
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~  139 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPE  139 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTT
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhh
Confidence            9999999999999999984 22333    58899998888999999999999999998887

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.24  E-value=0.45  Score=51.80  Aligned_cols=61  Identities=15%  Similarity=0.097  Sum_probs=51.9

Q ss_pred             CHHHHHHHHHH--HHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          384 DVVMWGALLAA--CKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       384 d~~~~~~Li~a--~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +...-|.|.++  +..+|++.++.-.-.-..++.| ++.+|..+|.++....+|+||..++..+
T Consensus       459 e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  459 EEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            45566777765  4679999999998888999999 6999999999999999999999977543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.20  E-value=0.0074  Score=58.62  Aligned_cols=63  Identities=14%  Similarity=0.043  Sum_probs=33.9

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 003457          283 ATWNAMISGLASHGHAEEALDLFRKLEKEQIVPN--DITFVGVLSACCHAGFIDVGRQIFGSMKR  345 (818)
Q Consensus       283 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd--~~t~~~ll~a~~~~g~~~~A~~~~~~m~~  345 (818)
                      ..|..+...+...|++++|+..|++.......+.  ..++..+..++...|++++|+..+++..+
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455555555566666666666666554422221  23455555555566666666666655554

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.20  E-value=0.00064  Score=46.34  Aligned_cols=33  Identities=30%  Similarity=0.629  Sum_probs=26.7

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Q 003457          283 ATWNAMISGLASHGHAEEALDLFRKLEKEQIVP  315 (818)
Q Consensus       283 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p  315 (818)
                      .+|+.++.+|.+.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            468888888888888888888888888887776

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.19  E-value=0.013  Score=62.09  Aligned_cols=152  Identities=9%  Similarity=-0.030  Sum_probs=88.5

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH----HcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH----hCCCCCHHH
Q 003457          285 WNAMISGLASHGHAEEALDLFRKLE----KEQIVP-NDITFVGVLSACCHAGFIDVGRQIFGSMKRV----YGIEPKIEH  355 (818)
Q Consensus       285 ~~~Li~~~~~~g~~~~A~~l~~~m~----~~g~~p-d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~----~g~~p~~~~  355 (818)
                      |..|...|.-.|+++.|+..-++-+    +-|-+. ....+..+.+++.-.|+++.|.+.|+.....    ..-......
T Consensus       198 ~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQs  277 (639)
T KOG1130|consen  198 YGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQS  277 (639)
T ss_pred             hcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHH
Confidence            3444444445566666655433211    122111 1245666777777777777777777663321    011223455


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHcC--------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-----CC-Ccch
Q 003457          356 YGCMVDLLGRCGKVLEAEELIKRMV--------WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALE-----PN-NHGV  421 (818)
Q Consensus       356 ~~~Li~~~~~~g~~~~A~~~~~~m~--------~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~-----P~-~~~~  421 (818)
                      ..+|.+.|.-..++++|+.++++-.        ..-....+.+|..++...|..++|+.+.++.+++.     |. ....
T Consensus       278 cYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~s~ev~D~sgelTa  357 (639)
T KOG1130|consen  278 CYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRSSLEVNDTSGELTA  357 (639)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCcchhhhh
Confidence            6677777777778888887776531        11235677888888888999999988887766532     21 2334


Q ss_pred             HHHHHHHHHHhhchH
Q 003457          422 YVVLSNMYAEAESMK  436 (818)
Q Consensus       422 y~~L~~~l~~~G~~~  436 (818)
                      ..+|.+.....|.-+
T Consensus       358 r~Nlsdl~~~lG~~d  372 (639)
T KOG1130|consen  358 RDNLSDLILELGQED  372 (639)
T ss_pred             hhhhHHHHHHhCCCc
Confidence            455555555555543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.17  E-value=0.86  Score=53.65  Aligned_cols=422  Identities=11%  Similarity=0.052  Sum_probs=221.5

Q ss_pred             CCCCCCCChhHHHHHHHHhc--CchHH---HHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC--CC
Q 003457            7 SLRQPPLPIPPLSLLADKCK--SMHQL---KQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQS--PN   79 (818)
Q Consensus         7 ~~~~~~p~~~tl~~ll~~c~--~~~~~---~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~--p~   79 (818)
                      .+.+-.|| ..|+.++.+..  +.+..   -.+.+.....+.. |..+...+...|  .+.++.++|..+|++..+  |+
T Consensus        34 kllkk~Pn-~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y--~d~~~~d~~~~~Ye~~~~~~P~  109 (932)
T KOG2053|consen   34 KLLKKHPN-ALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVY--RDLGKLDEAVHLYERANQKYPS  109 (932)
T ss_pred             HHHHHCCC-cHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHH--HHHhhhhHHHHHHHHHHhhCCc
Confidence            34455677 46777777763  22322   3333333333322 778888888888  999999999999999985  66


Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC----------ChHHHHHHHHHHHHcC-CCC
Q 003457           80 HFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVR----------SLNCCKQIHTHVSKSG-LDL  148 (818)
Q Consensus        80 ~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g----------~~~~A~~~~~~m~~~g-~~p  148 (818)
                      ..-...+..+|++.+.+.+-.+.--+|-+. ..-+...|=.+++...+..          -+.-|.+..+.+++.+ ..-
T Consensus       110 eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~  188 (932)
T KOG2053|consen  110 EELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIE  188 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccc
Confidence            666666777888888776544333333332 2223444444455443321          1234666666666654 221


Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHH-hhc----CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH-H
Q 003457          149 DLHVVNCLVRCYSVSSDLNNARQVFDE-IRN----RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLAS-V  222 (818)
Q Consensus       149 ~~~~~~~Li~~y~~~g~~~~A~~l~~~-m~~----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~-l  222 (818)
                      +..-.......+...++.++|.+++.. ..+    .+...-+.-+..+...++|++..++-.++...|. -|-.+|.- +
T Consensus       189 s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~-Ddy~~~~~sv  267 (932)
T KOG2053|consen  189 SEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGN-DDYKIYTDSV  267 (932)
T ss_pred             hHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCC-cchHHHHHHH
Confidence            222222233445578889999999832 222    2444555667777888899999888888888752 22112111 1


Q ss_pred             HHHHHhc------------CChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHH---hCCCHHHHHHHH-hhCCC-----CC
Q 003457          223 LSACAQS------------GCLELGEKVHVFVKMRGFEMGAILGTALVHMYT---KNGALAKAKALF-DSMPE-----RN  281 (818)
Q Consensus       223 l~~~~~~------------g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~---~~g~~~~A~~~f-~~m~~-----~d  281 (818)
                      -.++...            +..+...+...+.+... ..++  |-+-+.++.   .-|+.+++.-.| ++.-.     .|
T Consensus       268 ~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~-~Rgp--~LA~lel~kr~~~~gd~ee~~~~y~~kfg~kpcc~~D  344 (932)
T KOG2053|consen  268 FKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSK-SRGP--YLARLELDKRYKLIGDSEEMLSYYFKKFGDKPCCAID  344 (932)
T ss_pred             HHHHHhcccccchhhhhhhhhHHHHHHHHHHhhccc-ccCc--HHHHHHHHHHhcccCChHHHHHHHHHHhCCCcHhHhh
Confidence            1111111            11122222122211110 1111  222222222   335655543322 22211     01


Q ss_pred             h-------------------------hh--------HHHHHHHHHHcC-----CHHHHHHHHHHHH---HcC------CC
Q 003457          282 I-------------------------AT--------WNAMISGLASHG-----HAEEALDLFRKLE---KEQ------IV  314 (818)
Q Consensus       282 ~-------------------------~~--------~~~Li~~~~~~g-----~~~~A~~l~~~m~---~~g------~~  314 (818)
                      .                         .+        +...+....-.|     .-+.-..++++..   ++|      .-
T Consensus       345 l~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~a~~~kl~~~ye~gls~~K~ll  424 (932)
T KOG2053|consen  345 LNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSILAYVRKLKLTYEKGLSLSKDLL  424 (932)
T ss_pred             HHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHhcccccccccc
Confidence            1                         00        111111111112     1233344444332   223      22


Q ss_pred             CCHH---------HHHHHHHHHHHcCCHH---HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCC
Q 003457          315 PNDI---------TFVGVLSACCHAGFID---VGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWK  382 (818)
Q Consensus       315 pd~~---------t~~~ll~a~~~~g~~~---~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~  382 (818)
                      |+..         +.+.|+..|.+.++..   +|+-+++.....  -+.|..+-..+++.|.-.|-...|.++|+.+.++
T Consensus       425 ~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~--s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK  502 (932)
T KOG2053|consen  425 PTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTK--SPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIK  502 (932)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhc--CCccHHHHHHHHHHHHHhcCChhHHHHHHhcchH
Confidence            3332         2345677888888765   455555555443  3456667778899999999999999999999543


Q ss_pred             ---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          383 ---PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       383 ---pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                         -|..-|.. ..-+...|++..+...+...+...-++..=-..++..-.|.|.|..-.+
T Consensus       503 ~IQ~DTlgh~~-~~~~~t~g~~~~~s~~~~~~lkfy~~~~kE~~eyI~~AYr~g~ySkI~e  562 (932)
T KOG2053|consen  503 NIQTDTLGHLI-FRRAETSGRSSFASNTFNEHLKFYDSSLKETPEYIALAYRRGAYSKIPE  562 (932)
T ss_pred             HhhhccchHHH-HHHHHhcccchhHHHHHHHHHHHHhhhhhhhHHHHHHHHHcCchhhhHH
Confidence               33333322 2335567888888888877766543322212223333346676666555

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.13  E-value=0.011  Score=61.06  Aligned_cols=98  Identities=13%  Similarity=0.064  Sum_probs=73.9

Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCC-CCHHHHHHHHHHHHH-cC--CHHHHHHHHHHHHhcCCCCcchHH
Q 003457          349 IEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWK-PDVVMWGALLAACKN-HG--NIEVAERVVKEIIALEPNNHGVYV  423 (818)
Q Consensus       349 ~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~-pd~~~~~~Li~a~~~-~g--~~~~A~~~~~~~~~~~P~~~~~y~  423 (818)
                      .+-|...|-.|...|.+.|+...|..-|.++ ... ++...+..+..++.. .|  ...++.++++++++.+|++..+..
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            4567788888888888888888888888877 333 356666666666543 22  467778888888888888888888


Q ss_pred             HHHHHHHHhhchHHHHHHHHHHH
Q 003457          424 VLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       424 ~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .|+..+...|++++|....+++.
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL  254 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLL  254 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHH
Confidence            88888888888888888777774

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.12  E-value=0.021  Score=59.06  Aligned_cols=172  Identities=8%  Similarity=0.024  Sum_probs=100.6

Q ss_pred             HHHHHHhCCCHHHHHHHHhhCCC--CCh-h---hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-
Q 003457          257 LVHMYTKNGALAKAKALFDSMPE--RNI-A---TWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCH-  329 (818)
Q Consensus       257 Li~~~~~~g~~~~A~~~f~~m~~--~d~-~---~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~-  329 (818)
                      ....+.+.|++++|.+.|+++..  |+. .   ..-.++.+|.+.+++++|...+++.++..+.-...-+...+.+.+. 
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~  117 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNM  117 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhh
Confidence            34445566777777777776664  221 1   1234556677778888888888887775443223333333333221 


Q ss_pred             -cC---------------C---HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHH
Q 003457          330 -AG---------------F---IDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGA  390 (818)
Q Consensus       330 -~g---------------~---~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~  390 (818)
                       .+               |   ...|...|+.++++                |=...-..+|.+.+..+..+--.. -..
T Consensus       118 ~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~----------------yP~S~ya~~A~~rl~~l~~~la~~-e~~  180 (243)
T PRK10866        118 ALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG----------------YPNSQYTTDATKRLVFLKDRLAKY-ELS  180 (243)
T ss_pred             hcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH----------------CcCChhHHHHHHHHHHHHHHHHHH-HHH
Confidence             11               1   12344445555543                222222334443333332110001 113


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCC---cchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          391 LLAACKNHGNIEVAERVVKEIIALEPNN---HGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       391 Li~a~~~~g~~~~A~~~~~~~~~~~P~~---~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +..-|.+.|++..|+.-++.+++.-|+.   .+++..++..|.+.|..++|.+.....
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            4556889999999999999999988874   567888999999999999999876655

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.10  E-value=0.033  Score=59.15  Aligned_cols=34  Identities=18%  Similarity=0.123  Sum_probs=20.8

Q ss_pred             CHHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Q 003457           64 DLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRR  108 (818)
Q Consensus        64 ~~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~  108 (818)
                      ++++|..+|++           ....|...+++++|.+.|.+..+
T Consensus        30 ~~e~Aa~~y~~-----------Aa~~fk~~~~~~~A~~ay~kAa~   63 (282)
T PF14938_consen   30 DYEEAADLYEK-----------AANCFKLAKDWEKAAEAYEKAAD   63 (282)
T ss_dssp             HHHHHHHHHHH-----------HHHHHHHTT-CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHH-----------HHHHHHHHhccchhHHHHHHHHH
Confidence            55555555543           36667777777777777776543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.07  E-value=0.22  Score=51.53  Aligned_cols=65  Identities=9%  Similarity=-0.066  Sum_probs=37.3

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-HHH---HHHHHHHHhcCChhHHHHHHHHHHHcC
Q 003457          180 TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNS-VTL---ASVLSACAQSGCLELGEKVHVFVKMRG  246 (818)
Q Consensus       180 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~-~t~---~~ll~~~~~~g~~~~A~~i~~~~~~~g  246 (818)
                      +...+......+.+.|++++|.+.|+++...-  |+. ...   ..+..++.+.+++++|...+++.++..
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y--P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            33334444555566677777777777776642  222 221   234455666777777777777776653

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.06  E-value=0.0018  Score=52.32  Aligned_cols=65  Identities=20%  Similarity=0.211  Sum_probs=53.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcC-CHHHHHHHHHHHHhcCC
Q 003457          352 KIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHG-NIEVAERVVKEIIALEP  416 (818)
Q Consensus       352 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g-~~~~A~~~~~~~~~~~P  416 (818)
                      +...|..+...+.+.|++++|+..|+++ ...| +...|..+..++...| ++++|++.++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            4567788888888889999999888887 3345 4778888888888988 69999999999998887

...

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.05  E-value=0.12  Score=49.50  Aligned_cols=99  Identities=16%  Similarity=0.058  Sum_probs=47.3

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC-----CChhhHHH
Q 003457          213 EPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE-----RNIATWNA  287 (818)
Q Consensus       213 ~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~-----~d~~~~~~  287 (818)
                      .|+...-..|..++...|+..+|...|++...--+.-|..+...+.++....++...|...++++.+     +.+.....
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            3444444445555555555555555555555433333444444444555555555555555544433     12223333


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc
Q 003457          288 MISGLASHGHAEEALDLFRKLEKE  311 (818)
Q Consensus       288 Li~~~~~~g~~~~A~~l~~~m~~~  311 (818)
                      +...|...|++.+|+..|+.....
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~  189 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISY  189 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHh
Confidence            444455555555555555554443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.02  E-value=0.0089  Score=54.15  Aligned_cols=84  Identities=21%  Similarity=0.153  Sum_probs=64.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHcC---CCC-C-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC---CcchHHHHHHHH
Q 003457          358 CMVDLLGRCGKVLEAEELIKRMV---WKP-D-VVMWGALLAACKNHGNIEVAERVVKEIIALEPN---NHGVYVVLSNMY  429 (818)
Q Consensus       358 ~Li~~~~~~g~~~~A~~~~~~m~---~~p-d-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~---~~~~y~~L~~~l  429 (818)
                      .+..++-..|+.++|+.+|++..   ... + ...+-.+...+...|++++|+.++++.....|+   +......++.++
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHH
Confidence            45566777888888888888772   111 1 346667778888899999999999888888787   666677778888


Q ss_pred             HHhhchHHHHHH
Q 003457          430 AEAESMKMQLEI  441 (818)
Q Consensus       430 ~~~G~~~eA~~l  441 (818)
                      ...|+.+||++.
T Consensus        86 ~~~gr~~eAl~~   97 (120)
T PF12688_consen   86 YNLGRPKEALEW   97 (120)
T ss_pred             HHCCCHHHHHHH
Confidence            889999998883

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.00  E-value=0.15  Score=57.33  Aligned_cols=176  Identities=18%  Similarity=0.154  Sum_probs=85.0

Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH
Q 003457          137 IHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNS  216 (818)
Q Consensus       137 ~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~  216 (818)
                      -++++.+.|-.|+...   +...++-.|++.+|.++|.+-                  |.-..|+++|..|+--      
T Consensus       622 EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~------------------G~enRAlEmyTDlRMF------  674 (1081)
T KOG1538|consen  622 ELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRS------------------GHENRALEMYTDLRMF------  674 (1081)
T ss_pred             HHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHc------------------CchhhHHHHHHHHHHH------
Confidence            3456666776666543   445566778888888887654                  4444455555444311      


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHc--CC-CCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHH
Q 003457          217 VTLASVLSACAQSGCLELGEKVHVFVKMR--GF-EMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLA  293 (818)
Q Consensus       217 ~t~~~ll~~~~~~g~~~~A~~i~~~~~~~--g~-~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~  293 (818)
                          -...-+...|..++-..+.++-.+-  .+ +|     .+..+++...|+.++|..+                  +.
T Consensus       675 ----D~aQE~~~~g~~~eKKmL~RKRA~WAr~~keP-----kaAAEmLiSaGe~~KAi~i------------------~~  727 (1081)
T KOG1538|consen  675 ----DYAQEFLGSGDPKEKKMLIRKRADWARNIKEP-----KAAAEMLISAGEHVKAIEI------------------CG  727 (1081)
T ss_pred             ----HHHHHHhhcCChHHHHHHHHHHHHHhhhcCCc-----HHHHHHhhcccchhhhhhh------------------hh
Confidence                0111122223322222222211110  00 11     1233445555665555443                  23


Q ss_pred             HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 003457          294 SHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAE  373 (818)
Q Consensus       294 ~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~  373 (818)
                      .+|-.+-++++-+++...    +..+...+...+.+...+..|.++|.+|-..          .+++++....++|.+|.
T Consensus       728 d~gW~d~lidI~rkld~~----ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~----------ksiVqlHve~~~W~eAF  793 (1081)
T KOG1538|consen  728 DHGWVDMLIDIARKLDKA----EREPLLLCATYLKKLDSPGLAAEIFLKMGDL----------KSLVQLHVETQRWDEAF  793 (1081)
T ss_pred             cccHHHHHHHHHhhcchh----hhhHHHHHHHHHhhccccchHHHHHHHhccH----------HHHhhheeecccchHhH
Confidence            334444444444443322    3334444444445555666666666665321          24556666677777777


Q ss_pred             HHHHHcC
Q 003457          374 ELIKRMV  380 (818)
Q Consensus       374 ~~~~~m~  380 (818)
                      .+-++.+
T Consensus       794 alAe~hP  800 (1081)
T KOG1538|consen  794 ALAEKHP  800 (1081)
T ss_pred             hhhhhCc
Confidence            7766663

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.99  E-value=0.0012  Score=53.20  Aligned_cols=61  Identities=21%  Similarity=0.308  Sum_probs=32.6

Q ss_pred             HcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHH
Q 003457          365 RCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVL  425 (818)
Q Consensus       365 ~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L  425 (818)
                      +.|++++|++.|+++ ...| +...+..++.+|.+.|++++|.++++++...+|+++..+..+
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~   65 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLL   65 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            455556666666555 2223 445555555566666666666666666666666554444333

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.98  E-value=0.0043  Score=64.70  Aligned_cols=101  Identities=14%  Similarity=0.084  Sum_probs=53.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCC----HHHHHHHH
Q 003457          319 TFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP-KIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPD----VVMWGALL  392 (818)
Q Consensus       319 t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd----~~~~~~Li  392 (818)
                      .|...+....+.|++++|...|+.+++.+.-.+ ....+..+...|...|++++|...|+++. ..|+    ...+..++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            344433333455666666666666665421111 02345555666666666666666666652 1122    33444445


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCc
Q 003457          393 AACKNHGNIEVAERVVKEIIALEPNNH  419 (818)
Q Consensus       393 ~a~~~~g~~~~A~~~~~~~~~~~P~~~  419 (818)
                      ..+...|+.++|...|+++++..|++.
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            555566666666666666666666533

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.95  E-value=0.00051  Score=46.97  Aligned_cols=34  Identities=29%  Similarity=0.479  Sum_probs=31.6

Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          407 VVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       407 ~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      +|+++++++|+++.+|+.|+.+|.+.|++++|++
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            3789999999999999999999999999999963

>PRK15331 chaperone protein SicA; Provisional

Probab=96.94  E-value=0.01  Score=56.12  Aligned_cols=89  Identities=11%  Similarity=0.022  Sum_probs=75.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHcC-CC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhch
Q 003457          358 CMVDLLGRCGKVLEAEELIKRMV-WK-PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESM  435 (818)
Q Consensus       358 ~Li~~~~~~g~~~~A~~~~~~m~-~~-pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~  435 (818)
                      ....-+...|++++|..+|+-+. .. -+...|..|..+|-..+++++|+..|..+..+.++++..+...+.+|...|+.
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCH
Confidence            44445678999999999998873 22 36777888888888899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 003457          436 KMQLEILLVQV  446 (818)
Q Consensus       436 ~eA~~l~~~~~  446 (818)
                      ++|.+.+...+
T Consensus       122 ~~A~~~f~~a~  132 (165)
T PRK15331        122 AKARQCFELVN  132 (165)
T ss_pred             HHHHHHHHHHH
Confidence            99999877663

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=96.94  E-value=0.00081  Score=44.69  Aligned_cols=30  Identities=23%  Similarity=0.378  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHcCC
Q 003457           82 MWNTLIRAQASSLNPDKAIFLYMNMRRTGF  111 (818)
Q Consensus        82 ~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~  111 (818)
                      +||.||++|++.|++++|.++|++|++.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            688888888888888888888888887653

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.91  E-value=0.11  Score=56.46  Aligned_cols=159  Identities=17%  Similarity=0.095  Sum_probs=98.9

Q ss_pred             HHHHHHHhCCCHHHHHHHHhhCCCC-------ChhhHHHHHHHHHH---cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003457          256 ALVHMYTKNGALAKAKALFDSMPER-------NIATWNAMISGLAS---HGHAEEALDLFRKLEKEQIVPNDITFVGVLS  325 (818)
Q Consensus       256 ~Li~~~~~~g~~~~A~~~f~~m~~~-------d~~~~~~Li~~~~~---~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  325 (818)
                      .|+-.|....+++...++++.+...       ....-...+.++.+   .|+.++|++++..+......++..+|..+++
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            4455566677777777777766652       11222233445555   6788888888888665555667777777776


Q ss_pred             HHHHc---------CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHH----HHHHH---HHc-------CCC
Q 003457          326 ACCHA---------GFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLE----AEELI---KRM-------VWK  382 (818)
Q Consensus       326 a~~~~---------g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~----A~~~~---~~m-------~~~  382 (818)
                      .|-..         ...++|...|.+.-   .+.||...--.++..+...|...+    ..++-   ..+       ...
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            65431         23566777776644   345655444444444444443222    22222   111       122


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          383 PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       383 pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      .|.+.+.+++.++.-.|++++|.+.++++.++.|.
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~  337 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPP  337 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCc
Confidence            56778888999999999999999999999999877

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.88  E-value=0.029  Score=62.70  Aligned_cols=262  Identities=16%  Similarity=0.138  Sum_probs=138.4

Q ss_pred             CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHH
Q 003457          113 PNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYA  192 (818)
Q Consensus       113 pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~  192 (818)
                      |....+.+-+.-+...|.+++|.++-.      +-....-|.-|..-....=+++-|++.|.++..              
T Consensus       554 ~~evp~~~~m~q~Ieag~f~ea~~iac------lgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRd--------------  613 (1081)
T KOG1538|consen  554 AVEVPQSAPMYQYIERGLFKEAYQIAC------LGVTDTDWRELAMEALEALDFETARKAYIRVRD--------------  613 (1081)
T ss_pred             cccccccccchhhhhccchhhhhcccc------cceecchHHHHHHHHHhhhhhHHHHHHHHHHhc--------------
Confidence            334444455555666677766655421      111222344444444444555555555554432              


Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHH
Q 003457          193 QSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKA  272 (818)
Q Consensus       193 ~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~  272 (818)
                        -.+-+.+.-+++|++.|-.|+...   +...|+-.|++.+|.++|.+--..         +..+++|.....++.|.+
T Consensus       614 --l~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~e---------nRAlEmyTDlRMFD~aQE  679 (1081)
T KOG1538|consen  614 --LRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGHE---------NRALEMYTDLRMFDYAQE  679 (1081)
T ss_pred             --cHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCch---------hhHHHHHHHHHHHHHHHH
Confidence              233445556777888887677653   345566778888887777543221         223445555555555555


Q ss_pred             HHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHH--cCC-CCCHHHHHH---------HHHHHHHcCCHHHHHHHH
Q 003457          273 LFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEK--EQI-VPNDITFVG---------VLSACCHAGFIDVGRQIF  340 (818)
Q Consensus       273 ~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~--~g~-~pd~~t~~~---------ll~a~~~~g~~~~A~~~~  340 (818)
                      ++..-                   ..++-..+.++--+  ..+ .|-. .-..         .+..+...|=.+.+.++-
T Consensus       680 ~~~~g-------------------~~~eKKmL~RKRA~WAr~~kePka-AAEmLiSaGe~~KAi~i~~d~gW~d~lidI~  739 (1081)
T KOG1538|consen  680 FLGSG-------------------DPKEKKMLIRKRADWARNIKEPKA-AAEMLISAGEHVKAIEICGDHGWVDMLIDIA  739 (1081)
T ss_pred             HhhcC-------------------ChHHHHHHHHHHHHHhhhcCCcHH-HHHHhhcccchhhhhhhhhcccHHHHHHHHH
Confidence            44322                   22222222211100  000 1110 0000         111222223233333332


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc
Q 003457          341 GSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG  420 (818)
Q Consensus       341 ~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~  420 (818)
                      +++-     ..+..+...+...+.+...+.-|-++|++|...      ..+.+.....+++++|..+.++.-+..|+   
T Consensus       740 rkld-----~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~------ksiVqlHve~~~W~eAFalAe~hPe~~~d---  805 (1081)
T KOG1538|consen  740 RKLD-----KAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL------KSLVQLHVETQRWDEAFALAEKHPEFKDD---  805 (1081)
T ss_pred             hhcc-----hhhhhHHHHHHHHHhhccccchHHHHHHHhccH------HHHhhheeecccchHhHhhhhhCcccccc---
Confidence            2221     234456666666677788889999999999632      34566677899999999988877666665   


Q ss_pred             hHHHHHHHHHHhhchHHHHHHH
Q 003457          421 VYVVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       421 ~y~~L~~~l~~~G~~~eA~~l~  442 (818)
                      .|.-.+.-++...+++||.+.+
T Consensus       806 Vy~pyaqwLAE~DrFeEAqkAf  827 (1081)
T KOG1538|consen  806 VYMPYAQWLAENDRFEEAQKAF  827 (1081)
T ss_pred             ccchHHHHhhhhhhHHHHHHHH
Confidence            5666666666666666666644

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.85  E-value=0.019  Score=61.54  Aligned_cols=93  Identities=13%  Similarity=0.039  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHc-C-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          353 IEHYGCMVDLLGRCGKVLEAEELIKRM-V-WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       353 ~~~~~~Li~~~~~~g~~~~A~~~~~~m-~-~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      ..+++.|.-+|.+.+++.+|++.-++. . ..+|...+..-..+|...|+++.|+..|++++++.|+|..+...|..+-.
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~  336 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQ  336 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            457788999999999999999998887 2 34578888888999999999999999999999999999999999999999


Q ss_pred             HhhchHHHHH-HHHHH
Q 003457          431 EAESMKMQLE-ILLVQ  445 (818)
Q Consensus       431 ~~G~~~eA~~-l~~~~  445 (818)
                      +..++.+..+ ++..|
T Consensus       337 k~~~~~~kekk~y~~m  352 (397)
T KOG0543|consen  337 KIREYEEKEKKMYANM  352 (397)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9888888766 77777

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.84  E-value=0.94  Score=48.70  Aligned_cols=118  Identities=17%  Similarity=0.219  Sum_probs=81.4

Q ss_pred             HHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 003457          255 TALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFID  334 (818)
Q Consensus       255 ~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~  334 (818)
                      +..+.-+...|+...|.++-.+..=|+-.-|...+.+|+..++|++-..+...  ++    .+.-|-.++.+|.+.|+..
T Consensus       181 ~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s--kK----sPIGyepFv~~~~~~~~~~  254 (319)
T PF04840_consen  181 NDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS--KK----SPIGYEPFVEACLKYGNKK  254 (319)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC--CC----CCCChHHHHHHHHHCCCHH
Confidence            33455566778888888888888778888888888888888888876665432  11    2356777788888888888


Q ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHH
Q 003457          335 VGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALL  392 (818)
Q Consensus       335 ~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li  392 (818)
                      +|..+..++.           +..-+.+|.++|++.+|.+.--+.+   |...+..+.
T Consensus       255 eA~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~~k---d~~~L~~i~  298 (319)
T PF04840_consen  255 EASKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFKEK---DIDLLKQIL  298 (319)
T ss_pred             HHHHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHHcC---CHHHHHHHH
Confidence            8887766521           2456677888888888877655543   444444443

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.82  E-value=0.014  Score=51.14  Aligned_cols=81  Identities=15%  Similarity=0.136  Sum_probs=67.6

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHccC--------ChHHHHHHHHHHHHcCCCCCHHH
Q 003457           82 MWNTLIRAQASSLNPDKAIFLYMNMRRTGF-APNQHTFTFVLKACSNVR--------SLNCCKQIHTHVSKSGLDLDLHV  152 (818)
Q Consensus        82 ~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~-~pd~~ty~~ll~~~~~~g--------~~~~A~~~~~~m~~~g~~p~~~~  152 (818)
                      +-...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++-+.+.+|+.|+..+++|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            344556667777999999999999999999 899999999999877653        34567788999999999999999


Q ss_pred             HHHHHHHHHh
Q 003457          153 VNCLVRCYSV  162 (818)
Q Consensus       153 ~~~Li~~y~~  162 (818)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9999887654

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.78  E-value=0.046  Score=49.56  Aligned_cols=94  Identities=16%  Similarity=0.121  Sum_probs=66.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHH
Q 003457          286 NAMISGLASHGHAEEALDLFRKLEKEQIVPN--DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP-KIEHYGCMVDL  362 (818)
Q Consensus       286 ~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd--~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p-~~~~~~~Li~~  362 (818)
                      ..+..++-..|+.++|+.+|++....|+...  ...+..+...+...|++++|..++++....+.-.+ +......+..+
T Consensus         5 ~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    5 YELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHH
Confidence            3456677788999999999999988877654  34566677888889999999999988876521101 22333334456


Q ss_pred             HHHcCCHHHHHHHHHHc
Q 003457          363 LGRCGKVLEAEELIKRM  379 (818)
Q Consensus       363 ~~~~g~~~~A~~~~~~m  379 (818)
                      +...|+.++|++.+-..
T Consensus        85 L~~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEA  101 (120)
T ss_pred             HHHCCCHHHHHHHHHHH
Confidence            77888888888877554

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.77  E-value=0.62  Score=50.07  Aligned_cols=271  Identities=12%  Similarity=0.116  Sum_probs=150.6

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHH-HHHHHHHHHHHcC
Q 003457          117 TFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLN-VWTTMISGYAQSF  195 (818)
Q Consensus       117 ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~-~~~~Li~~~~~~g  195 (818)
                      +|..+.......|+.+.|..+++      .+|...   .-+..+.+.++.+.|+.  +.+...|+. +|..|+...-+..
T Consensus         2 S~a~IA~~A~~~GR~~LA~~LL~------~Ep~~~---~qVplLL~m~e~e~AL~--kAi~SgD~DLi~~vLl~L~~~l~   70 (319)
T PF04840_consen    2 SYAEIARKAYEEGRPKLATKLLE------LEPRAS---KQVPLLLKMGEDELALN--KAIESGDTDLIYLVLLHLKRKLS   70 (319)
T ss_pred             CHHHHHHHHHHcChHHHHHHHHH------cCCChH---HHHHHHhcCCchHHHHH--HHHHcCCccHHHHHHHHHHHhCC
Confidence            46677777888899888888764      244432   22556677888877743  233334444 4444444322221


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCH-------H
Q 003457          196 RANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGAL-------A  268 (818)
Q Consensus       196 ~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~-------~  268 (818)
                       ..   + |.+++..  .|..   ..+...|++..+.+.-..+|.+--+.    .......+-.++.. .+.       .
T Consensus        71 -~s---~-f~~il~~--~p~a---~~l~~~~~r~~~~~~L~~~y~q~d~~----~~~a~~~l~~~~~~-~~~~~~~~~L~  135 (319)
T PF04840_consen   71 -LS---Q-FFKILNQ--NPVA---SNLYKKYCREQDRELLKDFYYQEDRF----QELANLHLQEALSQ-KDVEEKISFLK  135 (319)
T ss_pred             -HH---H-HHHHHHh--Ccch---HHHHHHHHHhccHHHHHHHHHhcchH----HHHHHHHHHHHHhC-CChHHHHHHHH
Confidence             11   2 2233332  2332   22334455555555544444321111    11111112222222 232       2


Q ss_pred             HHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHH---HH-cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 003457          269 KAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKL---EK-EQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMK  344 (818)
Q Consensus       269 ~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m---~~-~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~  344 (818)
                      .|.+.|.+..+.+  ....+         .++..++++.-   .+ .+......+.+.-+.-|...|+...|.++-.+  
T Consensus       136 ~a~~~y~~~k~~~--f~~~~---------~e~q~~Ll~~Q~~Le~~~~~~f~~~Sl~~Ti~~li~~~~~k~A~kl~k~--  202 (319)
T PF04840_consen  136 QAQKLYSKSKNDA--FEAKL---------IEEQIKLLEYQKELEEKYNTNFVGLSLNDTIRKLIEMGQEKQAEKLKKE--  202 (319)
T ss_pred             HHHHHHHhcchhH--HHHHH---------HHHHHHHHHHHHHHHHHhccchhcCCHHHHHHHHHHCCCHHHHHHHHHH--
Confidence            3333333322211  11111         22222333221   11 11111223455556677788888887777444  


Q ss_pred             HHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHH
Q 003457          345 RVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVV  424 (818)
Q Consensus       345 ~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~  424 (818)
                        +.+ |+...|...+.+|+..++|++-.++.+.   +..+.-|..++.+|.+.|+..+|..+..++         .+..
T Consensus       203 --Fkv-~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~~~~~~~~eA~~yI~k~---------~~~~  267 (319)
T PF04840_consen  203 --FKV-PDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEACLKYGNKKEASKYIPKI---------PDEE  267 (319)
T ss_pred             --cCC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHHHHCCCHHHHHHHHHhC---------ChHH
Confidence              334 7888999999999999999998886653   335688899999999999999999988871         2256


Q ss_pred             HHHHHHHhhchHHHHHH
Q 003457          425 LSNMYAEAESMKMQLEI  441 (818)
Q Consensus       425 L~~~l~~~G~~~eA~~l  441 (818)
                      -+.+|.++|++.+|.+.
T Consensus       268 rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  268 RVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HHHHHHHCCCHHHHHHH
Confidence            77889999999999884

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.75  E-value=0.078  Score=54.94  Aligned_cols=114  Identities=12%  Similarity=0.077  Sum_probs=86.6

Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHc-
Q 003457          304 LFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCG---KVLEAEELIKRM-  379 (818)
Q Consensus       304 l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g---~~~~A~~~~~~m-  379 (818)
                      -++.-+..+ +-|...|..|..+|...++.+.|...|....+.  ..+|...+..+..++..+.   ...++.++|+++ 
T Consensus       144 ~Le~~L~~n-P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL--~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al  220 (287)
T COG4235         144 RLETHLQQN-PGDAEGWDLLGRAYMALGRASDALLAYRNALRL--AGDNPEILLGLAEALYYQAGQQMTAKARALLRQAL  220 (287)
T ss_pred             HHHHHHHhC-CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHH
Confidence            333333343 337788999999999999999999999998876  4556677777777665433   356888999998 


Q ss_pred             CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc
Q 003457          380 VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG  420 (818)
Q Consensus       380 ~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~  420 (818)
                      ...| |+.+...|...+...|++.+|...|+.|++..|.+..
T Consensus       221 ~~D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         221 ALDPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             hcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            3445 5777777888899999999999999999998887543

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=96.74  E-value=0.0018  Score=42.93  Aligned_cols=30  Identities=40%  Similarity=0.730  Sum_probs=23.6

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQI  313 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~  313 (818)
                      +|+.++++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            678888888888888888888888877653

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.71  E-value=1.2  Score=48.32  Aligned_cols=407  Identities=10%  Similarity=0.056  Sum_probs=218.6

Q ss_pred             HHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCCCCH---HHHHHHHHHHHhCCChhHHHHHHHHH
Q 003457           30 QLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNH---FMWNTLIRAQASSLNPDKAIFLYMNM  106 (818)
Q Consensus        30 ~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~---~~yn~Li~~~~~~g~~~~Al~lf~~m  106 (818)
                      +..++.+.+..  -..|...|-.|+..+  ..++.+++-+++++++..|-+   ..|..-|++-...++++....+|.+.
T Consensus        27 D~lrLRerIkd--NPtnI~S~fqLiq~~--~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rC  102 (660)
T COG5107          27 DELRLRERIKD--NPTNILSYFQLIQYL--ETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRC  102 (660)
T ss_pred             hHHHHHHHhhc--CchhHHHHHHHHHHH--hhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHH
Confidence            33444444432  234789999999999  999999999999999987653   47888888888888999999999998


Q ss_pred             HHcCCCCCHHHHHHHHHHHHccCCh------HHHHHHHHHHHH-cCCCCC-HHHHHHHHHHH---Hh------CCChHHH
Q 003457          107 RRTGFAPNQHTFTFVLKACSNVRSL------NCCKQIHTHVSK-SGLDLD-LHVVNCLVRCY---SV------SSDLNNA  169 (818)
Q Consensus       107 ~~~g~~pd~~ty~~ll~~~~~~g~~------~~A~~~~~~m~~-~g~~p~-~~~~~~Li~~y---~~------~g~~~~A  169 (818)
                      ......  ...|...+.-..+.+..      ....+.++..+. .+++|- ...|+..+...   -.      ..++|..
T Consensus       103 L~k~l~--ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~i  180 (660)
T COG5107         103 LKKSLN--LDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKI  180 (660)
T ss_pred             Hhhhcc--HhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHH
Confidence            876444  44444444333332211      112233333332 233332 23344433322   12      3345555


Q ss_pred             HHHHHHhhcC---C-------HHHHHHHHHHHHH-------cCChHHHHHHHHHHHH--cCC----CCCHHHHHH-----
Q 003457          170 RQVFDEIRNR---T-------LNVWTTMISGYAQ-------SFRANEALMLFDQMLM--EGF----EPNSVTLAS-----  221 (818)
Q Consensus       170 ~~l~~~m~~~---d-------~~~~~~Li~~~~~-------~g~~~~A~~l~~~m~~--~g~----~pd~~t~~~-----  221 (818)
                      ++.+.++..-   +       -..|..=+.-...       .--+-.|...++++..  .|+    +.+..+++-     
T Consensus       181 R~~Y~ral~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s  260 (660)
T COG5107         181 RNGYMRALQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTS  260 (660)
T ss_pred             HHHHHHHHcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccc
Confidence            6666666542   1       1122211111111       1123455555555532  222    112222222     


Q ss_pred             ------HHHHHHhc-----CC--hhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHH
Q 003457          222 ------VLSACAQS-----GC--LELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAM  288 (818)
Q Consensus       222 ------ll~~~~~~-----g~--~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~L  288 (818)
                            .|+--...     ++  .....-++++.+.- +.....+|----..+...++-+.|+...+.-.+-.+.....+
T Consensus       261 ~S~WlNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~spsL~~~l  339 (660)
T COG5107         261 DSNWLNWIKWEMENGLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEMSPSLTMFL  339 (660)
T ss_pred             cchhhhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccCCCchheeH
Confidence                  22111111     01  01111223333222 122333333333344555666677666654443111111111


Q ss_pred             HHHHHHcCCHHHHHHHHH-----------------------------HHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 003457          289 ISGLASHGHAEEALDLFR-----------------------------KLEKEQIVPNDITFVGVLSACCHAGFIDVGRQI  339 (818)
Q Consensus       289 i~~~~~~g~~~~A~~l~~-----------------------------~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~  339 (818)
                      ...|...++-++....|+                             ++.-+...--...|...+++..+..-++.|..+
T Consensus       340 se~yel~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~  419 (660)
T COG5107         340 SEYYELVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKL  419 (660)
T ss_pred             HHHHhhcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHH
Confidence            111111111111111111                             111000011234567778888888889999999


Q ss_pred             HHHHHHHhC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCHHHH-HHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 003457          340 FGSMKRVYG-IEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDVVMW-GALLAACKNHGNIEVAERVVKEIIALEP  416 (818)
Q Consensus       340 ~~~m~~~~g-~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~~~~-~~Li~a~~~~g~~~~A~~~~~~~~~~~P  416 (818)
                      |-++.+. + +.+++..+++++..+ ..|+..-|.++|+-- ..-||...| +..+.-+...++-+.|..+|++.+..--
T Consensus       420 F~k~rk~-~~~~h~vyi~~A~~E~~-~~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde~naraLFetsv~r~~  497 (660)
T COG5107         420 FIKLRKE-GIVGHHVYIYCAFIEYY-ATGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDEENARALFETSVERLE  497 (660)
T ss_pred             HHHHhcc-CCCCcceeeeHHHHHHH-hcCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHHHH
Confidence            9998876 5 667888888888755 578888999999865 334664443 4455566788899999999987665322


Q ss_pred             C--CcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          417 N--NHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       417 ~--~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +  -...|..+++.-..-|++..|..+-+.+
T Consensus       498 ~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf  528 (660)
T COG5107         498 KTQLKRIYDKMIEYESMVGSLNNVYSLEERF  528 (660)
T ss_pred             HhhhhHHHHHHHHHHHhhcchHHHHhHHHHH
Confidence            2  2567888888888889998888765544

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.68  E-value=0.042  Score=58.21  Aligned_cols=128  Identities=13%  Similarity=0.116  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457           81 FMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKA-CSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRC  159 (818)
Q Consensus        81 ~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~-~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~  159 (818)
                      .+|..+|+...+.+..+.|..+|++.++.+ ..+...|...... +...++.+.|..+|+..++. +..+...+...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            467778888888888888888888887542 2233444444444 22356666688888888876 45577788888888


Q ss_pred             HHhCCChHHHHHHHHHhhcC------CHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 003457          160 YSVSSDLNNARQVFDEIRNR------TLNVWTTMISGYAQSFRANEALMLFDQMLME  210 (818)
Q Consensus       160 y~~~g~~~~A~~l~~~m~~~------d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~  210 (818)
                      +.+.++.+.|+.+|++....      -...|...+..=.+.|+.+.+.++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            88888888888888888653      2347888888778888888888888887765

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.67  E-value=0.0065  Score=66.48  Aligned_cols=62  Identities=11%  Similarity=-0.012  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Q 003457          353 IEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDV----VMWGALLAACKNHGNIEVAERVVKEIIAL  414 (818)
Q Consensus       353 ~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~----~~~~~Li~a~~~~g~~~~A~~~~~~~~~~  414 (818)
                      ...++.+..+|.+.|++++|+..|++. ...|+.    .+|.++..+|.+.|+.++|++.+++++++
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            444455555555555555555555443 233432    23444555555555555555555555544

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.64  E-value=0.055  Score=54.34  Aligned_cols=166  Identities=11%  Similarity=0.042  Sum_probs=85.4

Q ss_pred             HHHHHhCCCHHHHHHHHhhCCC--C----ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--H
Q 003457          258 VHMYTKNGALAKAKALFDSMPE--R----NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACC--H  329 (818)
Q Consensus       258 i~~~~~~g~~~~A~~~f~~m~~--~----d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~--~  329 (818)
                      ...+.+.|++++|.+.|+.+..  |    -......++.++.+.|++++|...+++.++.-+.-....+...+.+.+  +
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~   91 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYK   91 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHH
Confidence            3344455556666555555543  1    112344456666667777777777777665432211122221111111  1


Q ss_pred             -----------cCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 003457          330 -----------AGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNH  398 (818)
Q Consensus       330 -----------~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~  398 (818)
                                 .+...+|...|+.+++                -|=......+|.+.+..+...- ..--..+..-|.+.
T Consensus        92 ~~~~~~~~~~D~~~~~~A~~~~~~li~----------------~yP~S~y~~~A~~~l~~l~~~l-a~~e~~ia~~Y~~~  154 (203)
T PF13525_consen   92 QIPGILRSDRDQTSTRKAIEEFEELIK----------------RYPNSEYAEEAKKRLAELRNRL-AEHELYIARFYYKR  154 (203)
T ss_dssp             HHHHHH-TT---HHHHHHHHHHHHHHH----------------H-TTSTTHHHHHHHHHHHHHHH-HHHHHHHHHHHHCT
T ss_pred             hCccchhcccChHHHHHHHHHHHHHHH----------------HCcCchHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHc
Confidence                       1112233333443333                3333444444444444332000 01112245668899


Q ss_pred             CCHHHHHHHHHHHHhcCCCCc---chHHHHHHHHHHhhchHHHHH
Q 003457          399 GNIEVAERVVKEIIALEPNNH---GVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       399 g~~~~A~~~~~~~~~~~P~~~---~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      |.+..|..-++.+++.-|+..   ++...++..|.+.|..+.|..
T Consensus       155 ~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  155 GKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             T-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            999999999999999999853   567788889999998885543

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.59  E-value=2.2  Score=49.48  Aligned_cols=317  Identities=15%  Similarity=0.121  Sum_probs=171.4

Q ss_pred             HcCCCCCHHHHHH-----HHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCC---ChHHHHHHHHHhhc-
Q 003457          108 RTGFAPNQHTFTF-----VLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSS---DLNNARQVFDEIRN-  178 (818)
Q Consensus       108 ~~g~~pd~~ty~~-----ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g---~~~~A~~l~~~m~~-  178 (818)
                      +-|+..+..-|..     ++.-+...+.+..|.++-..+-..-.. ...+|.....-+.+..   +-+-+..+-+++.. 
T Consensus       425 ~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~  503 (829)
T KOG2280|consen  425 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK  503 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhccc
Confidence            3466666665554     455667778888888886655322111 2466666777666653   23334444444444 


Q ss_pred             -CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC----CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcC-------
Q 003457          179 -RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGF----EPNSVTLASVLSACAQSGCLELGEKVHVFVKMRG-------  246 (818)
Q Consensus       179 -~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~----~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g-------  246 (818)
                       ....+|....+.....|+++.|..+++.=...+.    -.+..-+...+.-+...|+.+....++-.+.++-       
T Consensus       504 ~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~  583 (829)
T KOG2280|consen  504 LTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFM  583 (829)
T ss_pred             CCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHH
Confidence             3455788888888888999888877654211110    0011123334444555666666666555554421       


Q ss_pred             ----CCCcHHHHHHHHH---------HHHhCCCHHHHHHH-HhhCC-----CCChhhHHHHHHHHHHcCCHH---H----
Q 003457          247 ----FEMGAILGTALVH---------MYTKNGALAKAKAL-FDSMP-----ERNIATWNAMISGLASHGHAE---E----  300 (818)
Q Consensus       247 ----~~~~~~~~~~Li~---------~~~~~g~~~~A~~~-f~~m~-----~~d~~~~~~Li~~~~~~g~~~---~----  300 (818)
                          .+....+|.-+++         .|-...+...+-.+ ++...     +.-..........+.+.....   +    
T Consensus       584 ~l~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed  663 (829)
T KOG2280|consen  584 TLRNQPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALED  663 (829)
T ss_pred             HHHhchhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHH
Confidence                1111122211111         11111111111111 11100     011111222333344333211   1    


Q ss_pred             ---HHHHHHHHHH-cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 003457          301 ---ALDLFRKLEK-EQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELI  376 (818)
Q Consensus       301 ---A~~l~~~m~~-~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~  376 (818)
                         -+.+.+.+.. .|..-...+.+--+.-+...|+..+|.++-++.+     -||-..|-.-+.+++..+++++-+++-
T Consensus       664 ~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfA  738 (829)
T KOG2280|consen  664 QMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFA  738 (829)
T ss_pred             HHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHH
Confidence               1122222221 1222333445555666777788888888765532     377778888888889999998888777


Q ss_pred             HHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHH
Q 003457          377 KRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEI  441 (818)
Q Consensus       377 ~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l  441 (818)
                      +..+   .+.-|.-...+|.+.|+.+||.+++-+.-.+        ...+.+|.+.|++.||.++
T Consensus       739 kskk---sPIGy~PFVe~c~~~~n~~EA~KYiprv~~l--------~ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  739 KSKK---SPIGYLPFVEACLKQGNKDEAKKYIPRVGGL--------QEKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             hccC---CCCCchhHHHHHHhcccHHHHhhhhhccCCh--------HHHHHHHHHhccHHHHHHH
Confidence            7664   2556677788889999999998877654322        2677888899999998884

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.59  E-value=0.0082  Score=49.04  Aligned_cols=66  Identities=18%  Similarity=0.214  Sum_probs=54.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHH
Q 003457          360 VDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVL  425 (818)
Q Consensus       360 i~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L  425 (818)
                      -..|.+.+++++|+++++++ ...| +...|......+.+.|++++|.+.++++++..|+++......
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~~   69 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARALR   69 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHHH
Confidence            35688899999999999988 3445 567788888889999999999999999999999877655543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.58  E-value=0.0036  Score=45.66  Aligned_cols=42  Identities=29%  Similarity=0.548  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHH
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSN  427 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~  427 (818)
                      .++..+...|.+.|++++|+++|+++++..|+++..+..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            367788999999999999999999999999999999988875

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.57  E-value=0.053  Score=56.59  Aligned_cols=96  Identities=15%  Similarity=0.141  Sum_probs=55.6

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCC-CHHHHHHHH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQIVPN--DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP-KIEHYGCMV  360 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd--~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p-~~~~~~~Li  360 (818)
                      .|..-...+.+.|++++|+..|+.+++..+...  ...+..+..+|...|++++|...|+.+.+.+...| ....+..+.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            344444444556677777777777766532211  23555666667777777777777777665422211 234444555


Q ss_pred             HHHHHcCCHHHHHHHHHHc
Q 003457          361 DLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       361 ~~~~~~g~~~~A~~~~~~m  379 (818)
                      ..|...|+.++|.+.|+++
T Consensus       225 ~~~~~~g~~~~A~~~~~~v  243 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQV  243 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHH
Confidence            5666677777777777665

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.57  E-value=0.1  Score=52.62  Aligned_cols=131  Identities=15%  Similarity=0.080  Sum_probs=98.7

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcC-----CCCcHHHHHHH
Q 003457          183 VWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRG-----FEMGAILGTAL  257 (818)
Q Consensus       183 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g-----~~~~~~~~~~L  257 (818)
                      ..+.++..+.-.|.+.-.+..+++.++...+.+......|++...+.|+.+.|..+++...+..     ......+....
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            4567777778888888889999999887666677777788888888999999999998777653     23333344445


Q ss_pred             HHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Q 003457          258 VHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQI  313 (818)
Q Consensus       258 i~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~  313 (818)
                      ...|.-.+++..|...|.++..   .|+..-|.-.-+..-.|+..+|++.++.|.+.-+
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P  317 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDP  317 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence            5567777888888888888775   4566667766677777888889999988887633

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.50  E-value=0.0093  Score=63.81  Aligned_cols=75  Identities=13%  Similarity=0.119  Sum_probs=66.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCC
Q 003457          385 VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFE  464 (818)
Q Consensus       385 ~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~  464 (818)
                      ..++++|.-+|.+.+++.+|++...+.++++|+|..+++.-+.+|...|+++.|+..++.+.                  
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~------------------  318 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKAL------------------  318 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHH------------------
Confidence            45678888889999999999999999999999999999999999999999999999877774                  


Q ss_pred             CCCCCCCCCCCcceeee
Q 003457          465 SPPTNLTPNRSTPFVLL  481 (818)
Q Consensus       465 ~~~lel~P~~~~~~v~l  481 (818)
                          +++|+|-.+..-|
T Consensus       319 ----k~~P~Nka~~~el  331 (397)
T KOG0543|consen  319 ----KLEPSNKAARAEL  331 (397)
T ss_pred             ----HhCCCcHHHHHHH
Confidence                7778776665554

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.49  E-value=0.026  Score=62.38  Aligned_cols=117  Identities=11%  Similarity=0.086  Sum_probs=78.1

Q ss_pred             CChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC-C-----CHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHH
Q 003457           45 QDHFAASRLLAFCALSSSGDLSYATRLFNSIQS-P-----NHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTF  118 (818)
Q Consensus        45 ~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~-p-----~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty  118 (818)
                      -+......++..+  ....+++++..++.+... |     -..+.+++++.|.+.|..++++.+++.=...|+-||..++
T Consensus        64 vS~~dld~fvn~~--~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   64 VSSLDLDIFVNNV--ESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CcHHHHHHHHhhc--CCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            3444555555555  566667777777666542 1     1224457788888888888888888777777888888888


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC
Q 003457          119 TFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVS  163 (818)
Q Consensus       119 ~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~  163 (818)
                      +.||..+.+.|++..|.++...|...+...+..++..-+..|.+.
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            888888888888888888777777666555555555444444443

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.47  E-value=0.15  Score=51.45  Aligned_cols=136  Identities=14%  Similarity=0.121  Sum_probs=106.3

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh----CCCCCHHHHHH
Q 003457          283 ATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVY----GIEPKIEHYGC  358 (818)
Q Consensus       283 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~----g~~p~~~~~~~  358 (818)
                      ...+.++..+...+.+.-.+.++++.++...+.++.....|++.-.+.||.+.|...|+.+.+..    +..-+..+...
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            34566777788889999999999999998777788888899999999999999999999776552    22233344445


Q ss_pred             HHHHHHHcCCHHHHHHHHHHcCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 003457          359 MVDLLGRCGKVLEAEELIKRMVW--KPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       359 Li~~~~~~g~~~~A~~~~~~m~~--~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                      ....|.-++++.+|...|.+...  ..|+...|+-.-++.-.|+...|++..+.+.++.|..
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~  319 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRH  319 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence            55567778899999999998852  3356666666666677899999999999999999984

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.40  E-value=0.048  Score=53.83  Aligned_cols=99  Identities=12%  Similarity=0.167  Sum_probs=73.8

Q ss_pred             HHHHHHhhc--CCCCHHHHHHHHHHHHhC-----CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc-----------
Q 003457           67 YATRLFNSI--QSPNHFMWNTLIRAQASS-----LNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNV-----------  128 (818)
Q Consensus        67 ~A~~lf~~~--~~p~~~~yn~Li~~~~~~-----g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~-----------  128 (818)
                      .-...|+..  ...+..+|..+++.|.+.     |..+=....++.|.+.|+.-|..+|+.|++.+=+.           
T Consensus        32 ~~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~  111 (228)
T PF06239_consen   32 PHEELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAE  111 (228)
T ss_pred             chHHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHH
Confidence            345566665  457788888888887654     55666667778888888888888888888886432           


Q ss_pred             -----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Q 003457          129 -----RSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSD  165 (818)
Q Consensus       129 -----g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~  165 (818)
                           .+-+-|.+++++|...|+.||..++..|++.+.+.+.
T Consensus       112 F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  112 FMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             hccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                 2345688889999999999999998888888765543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.39  E-value=0.035  Score=61.42  Aligned_cols=116  Identities=13%  Similarity=0.117  Sum_probs=78.6

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHhhcC------CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 003457          149 DLHVVNCLVRCYSVSSDLNNARQVFDEIRNR------TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASV  222 (818)
Q Consensus       149 ~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~------d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~l  222 (818)
                      +......+++.+....+++++..++.+....      ...+..++++.|.+.|..++++.+++.=..-|+-||..+++.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            4445555666666666677777777666542      1124457777888888888888877777777888888888888


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhC
Q 003457          223 LSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKN  264 (818)
Q Consensus       223 l~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~  264 (818)
                      |..+.+.|++..|.++..+|..++.-.+..++...+.++.+.
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            888888888888888877777776555555555444444444

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.34  E-value=1.2  Score=43.82  Aligned_cols=221  Identities=18%  Similarity=0.061  Sum_probs=104.5

Q ss_pred             CChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHHHc-CCCCcHHHHHHHHHHHHhCCCHHHHHH
Q 003457          195 FRANEALMLFDQMLMEGFEP-NSVTLASVLSACAQSGCLELGEKVHVFVKMR-GFEMGAILGTALVHMYTKNGALAKAKA  272 (818)
Q Consensus       195 g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~-g~~~~~~~~~~Li~~~~~~g~~~~A~~  272 (818)
                      +....+...+..+....... ....+......+...+++..+...+...... ........+..+...+...+++..+.+
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            44555555555554432110 2344455555555666666666665555542 123333444445555555555666666


Q ss_pred             HHhhCCC--CCh-hhHHHHHH-HHHHcCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Q 003457          273 LFDSMPE--RNI-ATWNAMIS-GLASHGHAEEALDLFRKLEKEQI--VPNDITFVGVLSACCHAGFIDVGRQIFGSMKRV  346 (818)
Q Consensus       273 ~f~~m~~--~d~-~~~~~Li~-~~~~~g~~~~A~~l~~~m~~~g~--~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~  346 (818)
                      .+.....  ++. ........ .+...+++++|...+.+......  ......+......+...++.+.+...+....+.
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  196 (291)
T COG0457         117 LLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL  196 (291)
T ss_pred             HHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh
Confidence            6655543  111 12222222 45556666666666666543211  012222233333344555556666555555543


Q ss_pred             hCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          347 YGIEP-KIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       347 ~g~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                        .+. ....+..+...+...+++++|...+.... ..|+ ...+..+...+...++.+++...+++.++..|.
T Consensus       197 --~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         197 --NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             --CcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence              222 24445555555555555555555555542 2222 233333333333444555555555555555554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.31  E-value=0.42  Score=47.95  Aligned_cols=60  Identities=8%  Similarity=-0.122  Sum_probs=33.4

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 003457           86 LIRAQASSLNPDKAIFLYMNMRRTGFA--PNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSG  145 (818)
Q Consensus        86 Li~~~~~~g~~~~Al~lf~~m~~~g~~--pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g  145 (818)
                      ....+.+.|++.+|+..|+++...-..  --......++.++.+.|+++.|...++.+++.-
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~y   72 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLY   72 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            344455667777777777776654221  112344455666667777777777777766653

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.27  E-value=1.3  Score=43.51  Aligned_cols=187  Identities=21%  Similarity=0.164  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHhhCCC-----CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH-
Q 003457          252 ILGTALVHMYTKNGALAKAKALFDSMPE-----RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLS-  325 (818)
Q Consensus       252 ~~~~~Li~~~~~~g~~~~A~~~f~~m~~-----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~-  325 (818)
                      .........+...+++..+...+.....     .....+..+...+...+++.++...+.........+. ........ 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHHH
Confidence            3344444455555555555544444321     2233344444444445555555555555544322221 11111111 


Q ss_pred             HHHHcCCHHHHHHHHHHHHHHhCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCC--HHHHHHHHHHHHHcCC
Q 003457          326 ACCHAGFIDVGRQIFGSMKRVYGI--EPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPD--VVMWGALLAACKNHGN  400 (818)
Q Consensus       326 a~~~~g~~~~A~~~~~~m~~~~g~--~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd--~~~~~~Li~a~~~~g~  400 (818)
                      ++...++++.+...+.+.... ..  ......+......+...++.++|...+.++. ..++  ...+..+...+...++
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         139 ALYELGDYEEALELYEKALEL-DPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhc-CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHccc
Confidence            445555555555555554321 10  0122233333333445555555555555541 1122  3444444445555555


Q ss_pred             HHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          401 IEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       401 ~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      ++.|...+.++....|+....+..+...+...++++++..
T Consensus       218 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  257 (291)
T COG0457         218 YEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALE  257 (291)
T ss_pred             HHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHH
Confidence            5555555555555555433344444444444444555544

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.26  E-value=0.077  Score=46.67  Aligned_cols=81  Identities=15%  Similarity=0.172  Sum_probs=64.0

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHhCCCCCHH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQI-VPNDITFVGVLSACCHAG--------FIDVGRQIFGSMKRVYGIEPKIE  354 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~-~pd~~t~~~ll~a~~~~g--------~~~~A~~~~~~m~~~~g~~p~~~  354 (818)
                      +....|..+...+++.....+|+.+++.|+ .|+..+|+.++.+..+..        ++.+.+.+|+.|+.. +++|+..
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~e  105 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDE  105 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHH
Confidence            344456667777999999999999999999 899999999998877653        345667788888876 7888888


Q ss_pred             HHHHHHHHHHH
Q 003457          355 HYGCMVDLLGR  365 (818)
Q Consensus       355 ~~~~Li~~~~~  365 (818)
                      +|+.++..+.+
T Consensus       106 tYnivl~~Llk  116 (120)
T PF08579_consen  106 TYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHH
Confidence            88888877654

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.24  E-value=3  Score=48.40  Aligned_cols=333  Identities=12%  Similarity=0.050  Sum_probs=157.0

Q ss_pred             HhCCCCChHHHHHHH---HHhhhhcCCCHHHHHHHHhhcCCCC---HHHHHHHHHHHHhCCCh--hHHHHHHHHHHHcCC
Q 003457           40 ISSRIQDHFAASRLL---AFCALSSSGDLSYATRLFNSIQSPN---HFMWNTLIRAQASSLNP--DKAIFLYMNMRRTGF  111 (818)
Q Consensus        40 ~~g~~~d~~~~~~Ll---~~~a~~k~g~~e~A~~lf~~~~~p~---~~~yn~Li~~~~~~g~~--~~Al~lf~~m~~~g~  111 (818)
                      +.|+..+..-|.+|=   .+..+...+.+..|+++-+.+..|-   -..|.....-+.+..+.  +++++..++=.....
T Consensus       425 ~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~  504 (829)
T KOG2280|consen  425 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKL  504 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccC
Confidence            446666665555542   1222367788899999988887654   44555555556555322  334443333222212


Q ss_pred             CCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHH----------HHHHHHHHHhCCChHHHHHHHHHhhcC-C
Q 003457          112 APNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHV----------VNCLVRCYSVSSDLNNARQVFDEIRNR-T  180 (818)
Q Consensus       112 ~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~----------~~~Li~~y~~~g~~~~A~~l~~~m~~~-d  180 (818)
                       -....|..+.+.....|+.+.|..+++.      +|+...          +...+.-..+.||.+-...++-.+... .
T Consensus       505 -~~~iSy~~iA~~Ay~~GR~~LA~kLle~------E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~  577 (829)
T KOG2280|consen  505 -TPGISYAAIARRAYQEGRFELARKLLEL------EPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLN  577 (829)
T ss_pred             -CCceeHHHHHHHHHhcCcHHHHHHHHhc------CCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHH
Confidence             3456788888877888999888887653      222211          112222233344444444433333221 1


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHH-Hc-CCCCcHHHHHHHH
Q 003457          181 LNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVK-MR-GFEMGAILGTALV  258 (818)
Q Consensus       181 ~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~-~~-g~~~~~~~~~~Li  258 (818)
                      ...      .+....+...|..+|++..+..   |..+   +-..|-+..+......++-+-. .. .+..-........
T Consensus       578 ~s~------l~~~l~~~p~a~~lY~~~~r~~---~~~~---l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a  645 (829)
T KOG2280|consen  578 RSS------LFMTLRNQPLALSLYRQFMRHQ---DRAT---LYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAA  645 (829)
T ss_pred             HHH------HHHHHHhchhhhHHHHHHHHhh---chhh---hhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHH
Confidence            111      1112234445556665554321   1111   1111222222222111111110 00 0011111122233


Q ss_pred             HHHHhCCCHHHHH----------HHHhhCCCC-----ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 003457          259 HMYTKNGALAKAK----------ALFDSMPER-----NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGV  323 (818)
Q Consensus       259 ~~~~~~g~~~~A~----------~~f~~m~~~-----d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~l  323 (818)
                      ..+.+.....-..          ++.+.+...     .--+.+--+.-+...|+..+|.++-++.+    -||...|-.-
T Consensus       646 ~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk  721 (829)
T KOG2280|consen  646 NAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLK  721 (829)
T ss_pred             HHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHH
Confidence            3343333311111          111111110     01123333444555677777766655543    3566666666


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 003457          324 LSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEV  403 (818)
Q Consensus       324 l~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~  403 (818)
                      +.+++..+++++-+++-+..       ..+.-|.-.+.+|.+.|+.+||.+++-+....+      -...+|.+.|++.+
T Consensus       722 ~~aLa~~~kweeLekfAksk-------ksPIGy~PFVe~c~~~~n~~EA~KYiprv~~l~------ekv~ay~~~~~~~e  788 (829)
T KOG2280|consen  722 LTALADIKKWEELEKFAKSK-------KSPIGYLPFVEACLKQGNKDEAKKYIPRVGGLQ------EKVKAYLRVGDVKE  788 (829)
T ss_pred             HHHHHhhhhHHHHHHHHhcc-------CCCCCchhHHHHHHhcccHHHHhhhhhccCChH------HHHHHHHHhccHHH
Confidence            67777777776655543331       124455566677777777777777777764222      34556667777776


Q ss_pred             HHHHH
Q 003457          404 AERVV  408 (818)
Q Consensus       404 A~~~~  408 (818)
                      |.++.
T Consensus       789 Aad~A  793 (829)
T KOG2280|consen  789 AADLA  793 (829)
T ss_pred             HHHHH
Confidence            66544

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.16  E-value=0.01  Score=49.25  Aligned_cols=61  Identities=11%  Similarity=0.130  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc----CCC---CcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          385 VVMWGALLAACKNHGNIEVAERVVKEIIAL----EPN---NHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       385 ~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~----~P~---~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ..+++.+...|...|++++|+..|++++++    +++   -..++..++.++.+.|++++|++.++..
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            357788888999999999999999988864    222   2567889999999999999999977665

...

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.95  E-value=0.1  Score=54.74  Aligned_cols=157  Identities=8%  Similarity=0.044  Sum_probs=82.9

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHH-cCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCC----CHHH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEK-EQIVPN---DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP----KIEH  355 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~-~g~~pd---~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p----~~~~  355 (818)
                      +|..+..++.+..++.+++.+-+.-.. .|..|.   -.....+..++...+.++++++.|+...+...-..    ...+
T Consensus        85 a~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqv  164 (518)
T KOG1941|consen   85 AYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQV  164 (518)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeeh
Confidence            444444454444444444444333222 122221   12223345566666667777776666554311111    2356


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHcC-----CC-CC------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC------CC
Q 003457          356 YGCMVDLLGRCGKVLEAEELIKRMV-----WK-PD------VVMWGALLAACKNHGNIEVAERVVKEIIALE------PN  417 (818)
Q Consensus       356 ~~~Li~~~~~~g~~~~A~~~~~~m~-----~~-pd------~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~------P~  417 (818)
                      +-.|...|.+..++++|.-+..++.     .. .|      ......|..++...|..-.|.+..+++.++.      |-
T Consensus       165 cv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~  244 (518)
T KOG1941|consen  165 CVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL  244 (518)
T ss_pred             hhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH
Confidence            6667777777777777665554441     01 11      1223334456677777777777777665532      22


Q ss_pred             CcchHHHHHHHHHHhhchHHHHH
Q 003457          418 NHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       418 ~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      ......+++++|...|+.|.|++
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~  267 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFR  267 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHH
Confidence            34555677777777777777766

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.91  E-value=0.017  Score=47.90  Aligned_cols=61  Identities=16%  Similarity=0.226  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHcC-----CC---CC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Q 003457          354 EHYGCMVDLLGRCGKVLEAEELIKRMV-----WK---PD-VVMWGALLAACKNHGNIEVAERVVKEIIAL  414 (818)
Q Consensus       354 ~~~~~Li~~~~~~g~~~~A~~~~~~m~-----~~---pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~  414 (818)
                      .+++.+...|...|++++|++.|+++.     ..   |+ ..++..+...+...|++++|++++++++++
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            355666666666777666666666551     11   22 456777777788888888888888877764

...

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.79  E-value=4.4  Score=46.30  Aligned_cols=159  Identities=13%  Similarity=0.053  Sum_probs=107.5

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHcC-CCCCH-----HHHHHHHHHHHc----cCChHHHHHHHHHHHHcCCCCCHHH
Q 003457           83 WNTLIRAQASSLNPDKAIFLYMNMRRTG-FAPNQ-----HTFTFVLKACSN----VRSLNCCKQIHTHVSKSGLDLDLHV  152 (818)
Q Consensus        83 yn~Li~~~~~~g~~~~Al~lf~~m~~~g-~~pd~-----~ty~~ll~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~  152 (818)
                      ...+++...=.|+-+.+++++.+..+.+ ++-..     -.|..++..+..    ..+.+.|.++++.+.+.-  |+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~y--P~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRY--PNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhC--CCcHH
Confidence            4456666677889999999988866532 32111     234444443332    457788999999998863  34443


Q ss_pred             H-HHHHHHHHhCCChHHHHHHHHHhhcC-------CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003457          153 V-NCLVRCYSVSSDLNNARQVFDEIRNR-------TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLS  224 (818)
Q Consensus       153 ~-~~Li~~y~~~g~~~~A~~l~~~m~~~-------d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  224 (818)
                      | -.-.+.+...|++++|.+.|++....       ....+.-++-.+.-..+|++|.+.|.++.+.. ..+...|..+..
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHH
Confidence            3 34456778899999999999976542       22245566677888899999999999999875 455566665554


Q ss_pred             HH-HhcCCh-------hHHHHHHHHHHH
Q 003457          225 AC-AQSGCL-------ELGEKVHVFVKM  244 (818)
Q Consensus       225 ~~-~~~g~~-------~~A~~i~~~~~~  244 (818)
                      +| ...++.       ++|..++.++..
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            44 466777       777777776654

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.65  E-value=0.28  Score=45.44  Aligned_cols=77  Identities=19%  Similarity=0.151  Sum_probs=53.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHcCCC-C----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc---hHHHHHHHH
Q 003457          358 CMVDLLGRCGKVLEAEELIKRMVWK-P----DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG---VYVVLSNMY  429 (818)
Q Consensus       358 ~Li~~~~~~g~~~~A~~~~~~m~~~-p----d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~---~y~~L~~~l  429 (818)
                      .-.....+.|++++|.+.|+.+..+ |    ....-..|+.+|.+.+++++|...+++.++++|.++.   ++...+.++
T Consensus        15 ~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   15 QEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            3344456788888888888887311 2    2456677888899999999999999999999988764   344445445


Q ss_pred             HHhhc
Q 003457          430 AEAES  434 (818)
Q Consensus       430 ~~~G~  434 (818)
                      .++..
T Consensus        95 ~~~~~   99 (142)
T PF13512_consen   95 YEQDE   99 (142)
T ss_pred             HHHhh
Confidence            55444

>PRK11906 transcriptional regulator; Provisional

Probab=95.59  E-value=0.48  Score=52.36  Aligned_cols=143  Identities=13%  Similarity=0.173  Sum_probs=93.8

Q ss_pred             CHHHHHHHHHHHHH-cCCCCC-HHHHHHHHHHHHHc---------CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 003457          297 HAEEALDLFRKLEK-EQIVPN-DITFVGVLSACCHA---------GFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR  365 (818)
Q Consensus       297 ~~~~A~~l~~~m~~-~g~~pd-~~t~~~ll~a~~~~---------g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~  365 (818)
                      ..+.|+.+|.+... ....|+ ...|..+..++...         .+..+|.++-++..+.  -+.|......+..++..
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAvel--d~~Da~a~~~~g~~~~~  350 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDI--TTVDGKILAIMGLITGL  350 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHh
Confidence            35678888888872 223454 34444444333321         2345566666666654  44567777777777788


Q ss_pred             cCCHHHHHHHHHHc-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHH--HHHHHHHHhhchHHHHHH
Q 003457          366 CGKVLEAEELIKRM-VWKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYV--VLSNMYAEAESMKMQLEI  441 (818)
Q Consensus       366 ~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~--~L~~~l~~~G~~~eA~~l  441 (818)
                      .++++.|...|+++ ...|| ..+|......+...|+.++|.+.+++++++.|....+-.  ..++.|. ...+++|+++
T Consensus       351 ~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~-~~~~~~~~~~  429 (458)
T PRK11906        351 SGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYV-PNPLKNNIKL  429 (458)
T ss_pred             hcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHc-CCchhhhHHH
Confidence            88899999999888 45675 566666666778889999999999999999987544333  2233444 3457778874


Q ss_pred             H
Q 003457          442 L  442 (818)
Q Consensus       442 ~  442 (818)
                      +
T Consensus       430 ~  430 (458)
T PRK11906        430 Y  430 (458)
T ss_pred             H
Confidence            4

>PRK11906 transcriptional regulator; Provisional

Probab=95.56  E-value=0.19  Score=55.42  Aligned_cols=114  Identities=12%  Similarity=0.026  Sum_probs=86.7

Q ss_pred             CHHHHHHHHHHHHHHhCCCCC-HHHHHHHHHHHHH---------cCCHHHHHHHHHHc-C-CCCCHHHHHHHHHHHHHcC
Q 003457          332 FIDVGRQIFGSMKRVYGIEPK-IEHYGCMVDLLGR---------CGKVLEAEELIKRM-V-WKPDVVMWGALLAACKNHG  399 (818)
Q Consensus       332 ~~~~A~~~~~~m~~~~g~~p~-~~~~~~Li~~~~~---------~g~~~~A~~~~~~m-~-~~pd~~~~~~Li~a~~~~g  399 (818)
                      ..+.|..+|.+......++|+ ...|..+..++..         .....+|.++-+++ . ..-|......+..+....+
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhc
Confidence            466788888888743345665 4555555544432         22345666677666 2 3347888888888888899


Q ss_pred             CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          400 NIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       400 ~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +++.|...|+++..++|+.+..|...+.++.-+|+.++|.+..+..
T Consensus       353 ~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~a  398 (458)
T PRK11906        353 QAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKS  398 (458)
T ss_pred             chhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999966553

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=95.48  E-value=0.17  Score=49.98  Aligned_cols=95  Identities=9%  Similarity=0.115  Sum_probs=57.7

Q ss_pred             HHHHHh--hcCCHHHHHHHHHHHHHc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc--------------
Q 003457          171 QVFDEI--RNRTLNVWTTMISGYAQS-----FRANEALMLFDQMLMEGFEPNSVTLASVLSACAQS--------------  229 (818)
Q Consensus       171 ~l~~~m--~~~d~~~~~~Li~~~~~~-----g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~--------------  229 (818)
                      ..|++.  ..++..+|..++..|.+.     |..+=....+++|.+-|+.-|..+|+.|++.+=+.              
T Consensus        35 ~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~h  114 (228)
T PF06239_consen   35 ELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMH  114 (228)
T ss_pred             HHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhcc
Confidence            344443  334555555555555433     44555556666666667777777777777655331              


Q ss_pred             --CChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCC
Q 003457          230 --GCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNG  265 (818)
Q Consensus       230 --g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g  265 (818)
                        .+-+-|.+++++|...|+-||..++..|++.+.+.+
T Consensus       115 yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  115 YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence              134567777777777777777777777777775544

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.37  E-value=2.5  Score=51.44  Aligned_cols=137  Identities=18%  Similarity=0.148  Sum_probs=69.0

Q ss_pred             HHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 003457          257 LVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVG  336 (818)
Q Consensus       257 Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A  336 (818)
                      .++.--+.+.+++|..++.-=.+.--..|.+-...+.+..++++|.-.|+..-+         ..-.+.+|...|++.+|
T Consensus       914 ~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~  984 (1265)
T KOG1920|consen  914 CKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREA  984 (1265)
T ss_pred             HHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHH
Confidence            344444555555555544322222223344444444555666666666654321         11235566667777777


Q ss_pred             HHHHHHHHHHhCCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          337 RQIFGSMKRVYGIEPKI--EHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEI  411 (818)
Q Consensus       337 ~~~~~~m~~~~g~~p~~--~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~  411 (818)
                      ..+..++..    ..+.  .+-..|+.-+..++++-+|-++..+....|..     .+..|++...+++|+++....
T Consensus       985 l~~a~ql~~----~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd~~~-----av~ll~ka~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen  985 LSLAAQLSE----GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSDPEE-----AVALLCKAKEWEEALRVASKA 1052 (1265)
T ss_pred             HHHHHhhcC----CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcCHHH-----HHHHHhhHhHHHHHHHHHHhc
Confidence            766665432    1221  22255666666777777777777666433221     122344455566666555433

>PRK15331 chaperone protein SicA; Provisional

Probab=95.37  E-value=0.33  Score=46.12  Aligned_cols=83  Identities=13%  Similarity=0.093  Sum_probs=32.1

Q ss_pred             HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 003457          294 SHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAE  373 (818)
Q Consensus       294 ~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~  373 (818)
                      +.|++++|..+|+-+...++. +..-+..|..+|-..+++++|...|......  ...|+..+-....+|...|+.++|+
T Consensus        49 ~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l--~~~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         49 NQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTL--LKNDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc--ccCCCCccchHHHHHHHhCCHHHHH
Confidence            344444444444444332211 2222333333344444444444444443322  1122222223334444444444444


Q ss_pred             HHHHHc
Q 003457          374 ELIKRM  379 (818)
Q Consensus       374 ~~~~~m  379 (818)
                      +.|+..
T Consensus       126 ~~f~~a  131 (165)
T PRK15331        126 QCFELV  131 (165)
T ss_pred             HHHHHH
Confidence            444444

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.33  E-value=6.8  Score=44.59  Aligned_cols=184  Identities=15%  Similarity=0.111  Sum_probs=126.4

Q ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHhhCCCC---ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457          250 GAILGTALVHMYTKNGALAKAKALFDSMPER---NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA  326 (818)
Q Consensus       250 ~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  326 (818)
                      +...|...++.-.+.|+.+.+.-+|++..-+   =...|-..+.-....|+.+-|..++....+-..+-...+-..-...
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            4567777888888999999999999988754   2345655555556669999888888877665443333322222234


Q ss_pred             HHHcCCHHHHHHHHHHHHHHhCCCCC-HHHHHHHHHHHHHcCCHHHHH---HHHHHc-CCCCCHHHHHHHHH-----HHH
Q 003457          327 CCHAGFIDVGRQIFGSMKRVYGIEPK-IEHYGCMVDLLGRCGKVLEAE---ELIKRM-VWKPDVVMWGALLA-----ACK  396 (818)
Q Consensus       327 ~~~~g~~~~A~~~~~~m~~~~g~~p~-~~~~~~Li~~~~~~g~~~~A~---~~~~~m-~~~pd~~~~~~Li~-----a~~  396 (818)
                      +...|++..|..+++.+...  . |+ +..-..-+....+.|..+.+.   +++... ..+-+......+.-     -+.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            55678999999999999886  4 54 444445566677888888888   444444 12222222222222     234


Q ss_pred             HcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchH
Q 003457          397 NHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMK  436 (818)
Q Consensus       397 ~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~  436 (818)
                      -.++.+.|..++.++.+..|++...|..+.+.....+-..
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~~~~  492 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCKVLYLELIRFELIQPSGR  492 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCCcch
Confidence            5788999999999999999999999999988887665433

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.27  E-value=0.087  Score=53.94  Aligned_cols=90  Identities=19%  Similarity=0.159  Sum_probs=41.4

Q ss_pred             HcCCHHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHcC----CCC-CHHHHHHHHHHHHHcCCHH
Q 003457          329 HAGFIDVGRQIFGSMKRVYGIE-PKIEHYGCMVDLLGRCGKVLEAEELIKRMV----WKP-DVVMWGALLAACKNHGNIE  402 (818)
Q Consensus       329 ~~g~~~~A~~~~~~m~~~~g~~-p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~----~~p-d~~~~~~Li~a~~~~g~~~  402 (818)
                      +.|++..|.+.|...++.+.-. -....+.-|...+..+|++++|..+|..+.    ..| -+..+..|.....+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            4445555555555555431100 012233344555555555555555554441    111 1344444444455555555


Q ss_pred             HHHHHHHHHHhcCCCC
Q 003457          403 VAERVVKEIIALEPNN  418 (818)
Q Consensus       403 ~A~~~~~~~~~~~P~~  418 (818)
                      +|...|++.++..|+.
T Consensus       233 ~A~atl~qv~k~YP~t  248 (262)
T COG1729         233 EACATLQQVIKRYPGT  248 (262)
T ss_pred             HHHHHHHHHHHHCCCC
Confidence            5555555555555553

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.23  E-value=3.3  Score=45.11  Aligned_cols=154  Identities=10%  Similarity=0.002  Sum_probs=87.4

Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC--HH
Q 003457          280 RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVP---NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK--IE  354 (818)
Q Consensus       280 ~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p---d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~--~~  354 (818)
                      ....+|..++..+.+.|+++.|...+.++...+...   +......-....-..|+..+|...++..... .+..+  ..
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~~  222 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDSI  222 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhccccc
Confidence            455678888888888899998888888887643211   2233334456667778888888888877762 11111  11


Q ss_pred             HHHHHHHHHHHcCCHHHHHHH-HHHcCCCCCHHHHHHHHHHHHHc------CCHHHHHHHHHHHHhcCCCCcchHHHHHH
Q 003457          355 HYGCMVDLLGRCGKVLEAEEL-IKRMVWKPDVVMWGALLAACKNH------GNIEVAERVVKEIIALEPNNHGVYVVLSN  427 (818)
Q Consensus       355 ~~~~Li~~~~~~g~~~~A~~~-~~~m~~~pd~~~~~~Li~a~~~~------g~~~~A~~~~~~~~~~~P~~~~~y~~L~~  427 (818)
                      ....+...+..  ..+..... ......+.-...+..+..-+...      ++.+++.+.|+++.++.|+....|..++.
T Consensus       223 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~  300 (352)
T PF02259_consen  223 SNAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWAL  300 (352)
T ss_pred             cHHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHH
Confidence            11111111000  00000000 00000000123333344433444      78999999999999999998889998888


Q ss_pred             HHHHhhchH
Q 003457          428 MYAEAESMK  436 (818)
Q Consensus       428 ~l~~~G~~~  436 (818)
                      .+.+.=+.+
T Consensus       301 ~~~~~~~~~  309 (352)
T PF02259_consen  301 FNDKLLESD  309 (352)
T ss_pred             HHHHHHHhh
Confidence            877664433

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.22  E-value=0.63  Score=49.15  Aligned_cols=54  Identities=13%  Similarity=0.113  Sum_probs=25.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHHHh---CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHc
Q 003457          326 ACCHAGFIDVGRQIFGSMKRVY---GIEP-KIEHYGCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       326 a~~~~g~~~~A~~~~~~m~~~~---g~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                      ++...|.+-.|.+.-++..+..   |..+ .......+.+.|...|+.+.|..-|+.+
T Consensus       215 alR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  215 ALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            4444555555554444433221   1111 1233345556666666666666555543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.17  E-value=1.4  Score=44.84  Aligned_cols=55  Identities=13%  Similarity=0.084  Sum_probs=46.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCC---cchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          391 LLAACKNHGNIEVAERVVKEIIALEPNN---HGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       391 Li~a~~~~g~~~~A~~~~~~~~~~~P~~---~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +.+-|.+.|.+..|..-++++++.-|+.   .+.+..|..+|.+.|-.++|.+..+.+
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl  230 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVL  230 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            4556889999999999999999977664   467778889999999999999988887

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.02  E-value=1.8  Score=44.96  Aligned_cols=146  Identities=15%  Similarity=0.134  Sum_probs=76.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCH
Q 003457          290 SGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKV  369 (818)
Q Consensus       290 ~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~  369 (818)
                      ......|++.+|..+|+........ +......+..+|...|+.+.|..++..+-.. --.........-+..+.+....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~-~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQ-AQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCccc-chhhHHHHHHHHHHHHHHHhcC
Confidence            3445566777777777666654322 2334445566666777777777766664432 0011111111223333343333


Q ss_pred             HHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCcchHHHHHHHHHHhhchHH
Q 003457          370 LEAEELIKRMVWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALE--PNNHGVYVVLSNMYAEAESMKM  437 (818)
Q Consensus       370 ~~A~~~~~~m~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~--P~~~~~y~~L~~~l~~~G~~~e  437 (818)
                      .+...+-++....| |...-..+...+...|+.++|.+.+-.+++.+  -++...-..|..++.-.|.-+.
T Consensus       220 ~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp  290 (304)
T COG3118         220 PEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADP  290 (304)
T ss_pred             CCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCH
Confidence            33333333333334 45555666666677777777776665555532  3345566666666666664443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.97  E-value=0.015  Score=42.28  Aligned_cols=42  Identities=14%  Similarity=0.252  Sum_probs=36.1

Q ss_pred             cchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeeec
Q 003457          419 HGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLN  482 (818)
Q Consensus       419 ~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l~  482 (818)
                      +..+..++..|.+.|++++|+++++..+                      +.+|+|+.++..++
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l----------------------~~~P~~~~a~~~La   42 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRAL----------------------ALDPDDPEAWRALA   42 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHH----------------------HHCcCCHHHHHHhh
Confidence            3578899999999999999999887774                      89999998877654

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=94.81  E-value=0.62  Score=43.82  Aligned_cols=70  Identities=16%  Similarity=0.073  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH-----cCCCCcHHH
Q 003457          183 VWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKM-----RGFEMGAIL  253 (818)
Q Consensus       183 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~-----~g~~~~~~~  253 (818)
                      +...++..+...|++++|+++++++.... +-|...|..+|.++...|+..+|.+.|+.+.+     .|+.|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            44556666667777777777777777664 55666777777777777777777777766653     256665544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.81  E-value=1.6  Score=43.95  Aligned_cols=87  Identities=15%  Similarity=0.116  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHcC-------CCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhc----CCCCcchHH
Q 003457          356 YGCMVDLLGRCGKVLEAEELIKRMV-------WKPDV-VMWGALLAACKNHGNIEVAERVVKEIIAL----EPNNHGVYV  423 (818)
Q Consensus       356 ~~~Li~~~~~~g~~~~A~~~~~~m~-------~~pd~-~~~~~Li~a~~~~g~~~~A~~~~~~~~~~----~P~~~~~y~  423 (818)
                      +....+.|.+..++++|-..|.+-.       .-++. ..|...|-.+....++..|+..++...++    .|++.....
T Consensus       153 ~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~le  232 (308)
T KOG1585|consen  153 YGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLE  232 (308)
T ss_pred             HHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHH
Confidence            3444455666667766666555442       11221 23444454556666788888887776553    355556666


Q ss_pred             HHHHHHHHhhchHHHHHHHH
Q 003457          424 VLSNMYAEAESMKMQLEILL  443 (818)
Q Consensus       424 ~L~~~l~~~G~~~eA~~l~~  443 (818)
                      .|...| ..|+.+++.++..
T Consensus       233 nLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  233 NLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHh-ccCCHHHHHHHHc
Confidence            666555 4566666666543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.78  E-value=7.9  Score=42.44  Aligned_cols=369  Identities=11%  Similarity=0.082  Sum_probs=198.8

Q ss_pred             HHHhhcCC--CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC
Q 003457           70 RLFNSIQS--PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLD  147 (818)
Q Consensus        70 ~lf~~~~~--p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~  147 (818)
                      ++-+++.+  .|+.+|-.||.-|...+..++..+++++|..- .+--...+..-+..=...+++...+.+|.+.+...+.
T Consensus        30 rLRerIkdNPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~  108 (660)
T COG5107          30 RLRERIKDNPTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLN  108 (660)
T ss_pred             HHHHHhhcCchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhcc
Confidence            55566663  57889999999999999999999999999763 2223456777777766778999999999999887554


Q ss_pred             CCHHHHHHHHHHHHhCCC---------hHHHHHHHHHhh--cC-CHHHHHHHHHHH---------HHcCChHHHHHHHHH
Q 003457          148 LDLHVVNCLVRCYSVSSD---------LNNARQVFDEIR--NR-TLNVWTTMISGY---------AQSFRANEALMLFDQ  206 (818)
Q Consensus       148 p~~~~~~~Li~~y~~~g~---------~~~A~~l~~~m~--~~-d~~~~~~Li~~~---------~~~g~~~~A~~l~~~  206 (818)
                        ...|...++.-.+.+.         +-+|.++.-...  ++ ....|+..+..+         -++.+.|...+.|.+
T Consensus       109 --ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~r  186 (660)
T COG5107         109 --LDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMR  186 (660)
T ss_pred             --HhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHH
Confidence              5556666654444331         222222221111  11 222344433221         123344556666766


Q ss_pred             HHHcCCCC------CHHHHHHHHHHHHh---cC----ChhHHHHHHHHHHHc--CC----CCcHHHHHHH----------
Q 003457          207 MLMEGFEP------NSVTLASVLSACAQ---SG----CLELGEKVHVFVKMR--GF----EMGAILGTAL----------  257 (818)
Q Consensus       207 m~~~g~~p------d~~t~~~ll~~~~~---~g----~~~~A~~i~~~~~~~--g~----~~~~~~~~~L----------  257 (818)
                      |+.--+.-      |-..|..=++-...   .|    -+-.|.+.++++...  |.    +.+..+++..          
T Consensus       187 al~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlN  266 (660)
T COG5107         187 ALQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLN  266 (660)
T ss_pred             HHcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhh
Confidence            66431110      11111111111110   01    133455555555432  21    1122222221          


Q ss_pred             -HHHHHhCC-----C-H-HHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHH--------
Q 003457          258 -VHMYTKNG-----A-L-AKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDI--------  318 (818)
Q Consensus       258 -i~~~~~~g-----~-~-~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~--------  318 (818)
                       |+--...+     + . ....-++++...   -....|.---..+...++-++|+...++-.+.  .|...        
T Consensus       267 wIkwE~en~l~L~~~~~~qRi~y~~~q~~~y~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~--spsL~~~lse~ye  344 (660)
T COG5107         267 WIKWEMENGLKLGGRPHEQRIHYIHNQILDYFYYAEEVWFDYSEYLIGISDKQKALKTVERGIEM--SPSLTMFLSEYYE  344 (660)
T ss_pred             HhhHhhcCCcccCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccC--CCchheeHHHHHh
Confidence             11100000     0 0 011111121111   12233433344455667777787776654332  22210        


Q ss_pred             ----------HHHHHHHHHHH---cCCHHHHHHH------HHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc
Q 003457          319 ----------TFVGVLSACCH---AGFIDVGRQI------FGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       319 ----------t~~~ll~a~~~---~g~~~~A~~~------~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                                +|..+...+.+   .++-+.+...      ..++.-+ ....-..+|..+++...+..-.+.|..+|-++
T Consensus       345 l~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~k-r~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~  423 (660)
T COG5107         345 LVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLK-RINKLTFVFCVHLNYVLRKRGLEAARKLFIKL  423 (660)
T ss_pred             hcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHH-HHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence                      11112211111   1111111100      1111000 12234567888999888999999999999888


Q ss_pred             C----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          380 V----WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       380 ~----~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .    ..+++..+++++. +-..|+..-|-.+|+-.+...||++..-.-....+.+.++-+.|..+|+..
T Consensus       424 rk~~~~~h~vyi~~A~~E-~~~~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde~naraLFets  492 (660)
T COG5107         424 RKEGIVGHHVYIYCAFIE-YYATGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDEENARALFETS  492 (660)
T ss_pred             hccCCCCcceeeeHHHHH-HHhcCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcHHHHHHHHHHh
Confidence            4    3467888888887 446788999999999999999997766667777888888888888877643

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=94.76  E-value=0.16  Score=47.82  Aligned_cols=61  Identities=21%  Similarity=0.223  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .....++..+...|++++|++.+++++..+|-+...|..++.+|.+.|+..+|.+.++...
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~  123 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYR  123 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            3456667778889999999999999999999999999999999999999999999876663

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=94.69  E-value=8.4  Score=42.36  Aligned_cols=67  Identities=6%  Similarity=-0.038  Sum_probs=44.3

Q ss_pred             hcCCCHHHHHHHHhhcCC------------------CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcC----CCCCHHH
Q 003457           60 SSSGDLSYATRLFNSIQS------------------PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTG----FAPNQHT  117 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~~------------------p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g----~~pd~~t  117 (818)
                      -+.+++..|.+.+..-..                  +|-.-=+..+.++.+.|++.++..++++|...=    ..-+..+
T Consensus        90 Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~  169 (549)
T PF07079_consen   90 YKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDM  169 (549)
T ss_pred             HHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHH
Confidence            478888888887764321                  122233455677788899999988888877542    3367778


Q ss_pred             HHHHHHHHH
Q 003457          118 FTFVLKACS  126 (818)
Q Consensus       118 y~~ll~~~~  126 (818)
                      |+.++-.+.
T Consensus       170 yd~~vlmls  178 (549)
T PF07079_consen  170 YDRAVLMLS  178 (549)
T ss_pred             HHHHHHHHh
Confidence            877554443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.68  E-value=2.6  Score=42.41  Aligned_cols=199  Identities=10%  Similarity=0.126  Sum_probs=97.2

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 003457           83 WNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSV  162 (818)
Q Consensus        83 yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~  162 (818)
                      |..-..+|...+++++|-..+.+..+- .+-+...| .-      ...+++|..+.+++.+..  --...++.-..+|..
T Consensus        34 yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslf-hA------AKayEqaamLake~~kls--Evvdl~eKAs~lY~E  103 (308)
T KOG1585|consen   34 YEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLF-HA------AKAYEQAAMLAKELSKLS--EVVDLYEKASELYVE  103 (308)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHH-HH------HHHHHHHHHHHHHHHHhH--HHHHHHHHHHHHHHH
Confidence            333455666667777777766665531 12111111 11      122345555555554421  122345556667777


Q ss_pred             CCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC--CCCH---HHHHHHHHHHHhcCChhHHHH
Q 003457          163 SSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGF--EPNS---VTLASVLSACAQSGCLELGEK  237 (818)
Q Consensus       163 ~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~--~pd~---~t~~~ll~~~~~~g~~~~A~~  237 (818)
                      +|..+.|-..+++..+            ..+..++++|+++|++....-.  ..+.   ..+..+-+.+.+..++++|..
T Consensus       104 ~GspdtAAmaleKAak------------~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~  171 (308)
T KOG1585|consen  104 CGSPDTAAMALEKAAK------------ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAAT  171 (308)
T ss_pred             hCCcchHHHHHHHHHH------------HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHH
Confidence            7777777666665432            2345667777777776543210  1111   122333344555555555544


Q ss_pred             HHHHHHHc-----CCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC-------CChhhHHHHHHHHHHcCCHHHHHHH
Q 003457          238 VHVFVKMR-----GFEMGAILGTALVHMYTKNGALAKAKALFDSMPE-------RNIATWNAMISGLASHGHAEEALDL  304 (818)
Q Consensus       238 i~~~~~~~-----g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~-------~d~~~~~~Li~~~~~~g~~~~A~~l  304 (818)
                      .+.+-...     ....--..+...|-.|.-..++..|++.|+.-.+       .+..+...|+.+|-. |+.+++.++
T Consensus       172 a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd~-gD~E~~~kv  249 (308)
T KOG1585|consen  172 AFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDE-GDIEEIKKV  249 (308)
T ss_pred             HHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhcc-CCHHHHHHH
Confidence            33322211     0111112344445555556677777777766332       344556666665543 555554433

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=94.55  E-value=11  Score=43.02  Aligned_cols=118  Identities=14%  Similarity=0.047  Sum_probs=65.3

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-----CCCCHHHHHHHH
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-----WKPDVVMWGALL  392 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-----~~pd~~~~~~Li  392 (818)
                      .+|...+.--...|+.+...-+|++..--  +..-...|-..++-....|+.+-|..++....     ..|....+.+.+
T Consensus       298 ~nw~~yLdf~i~~g~~~~~~~l~ercli~--cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  298 KNWRYYLDFEITLGDFSRVFILFERCLIP--CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHhhhhhhcccHHHHHHHHHHHHhH--HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            45555555555666666666666664432  22233445555555555566666666655542     122333333222


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHH
Q 003457          393 AACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQL  439 (818)
Q Consensus       393 ~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~  439 (818)
                        +...|+++.|..++++..+.-|...+.-..-+....+.|+.+.+.
T Consensus       376 --~e~~~n~~~A~~~lq~i~~e~pg~v~~~l~~~~~e~r~~~~~~~~  420 (577)
T KOG1258|consen  376 --EESNGNFDDAKVILQRIESEYPGLVEVVLRKINWERRKGNLEDAN  420 (577)
T ss_pred             --HHhhccHHHHHHHHHHHHhhCCchhhhHHHHHhHHHHhcchhhhh
Confidence              345667777777777766655666555555666666666666666

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.53  E-value=0.14  Score=56.42  Aligned_cols=63  Identities=10%  Similarity=0.013  Sum_probs=55.5

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHcC
Q 003457          315 PNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKI----EHYGCMVDLLGRCGKVLEAEELIKRMV  380 (818)
Q Consensus       315 pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~----~~~~~Li~~~~~~g~~~~A~~~~~~m~  380 (818)
                      .+...++.+..+|.+.|++++|+..|++.++.   .|+.    .+|..+..+|.+.|+.++|++.|+++.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL---~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrAL  139 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALEL---NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTAL  139 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35678999999999999999999999998864   5663    459999999999999999999999984

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.51  E-value=13  Score=43.88  Aligned_cols=55  Identities=15%  Similarity=0.145  Sum_probs=37.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 003457          358 CMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       358 ~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                      -++..+.+..+++.+..+.+.... -++..|..++..+.+.+.++.-.+...+.++
T Consensus       710 dl~~~~~q~~d~E~~it~~~~~g~-~~p~l~~~~L~yF~~~~~i~~~~~~v~~vl~  764 (933)
T KOG2114|consen  710 DLMLYFQQISDPETVITLCERLGK-EDPSLWLHALKYFVSEESIEDCYEIVYKVLE  764 (933)
T ss_pred             HHHHHHHHhhChHHHHHHHHHhCc-cChHHHHHHHHHHhhhcchhhHHHHHHHHHH
Confidence            355566777778888877777753 2777888888888887766665555555443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.48  E-value=4.1  Score=44.43  Aligned_cols=75  Identities=19%  Similarity=0.044  Sum_probs=41.0

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHcC---CCCCHHHHHHHHHHHHc---cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457           86 LIRAQASSLNPDKAIFLYMNMRRTG---FAPNQHTFTFVLKACSN---VRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRC  159 (818)
Q Consensus        86 Li~~~~~~g~~~~Al~lf~~m~~~g---~~pd~~ty~~ll~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~  159 (818)
                      |+-+|....+++..+++.+.|...-   +.-....-....-++.+   .|+.++|++++..++.....++..++..+...
T Consensus       147 lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRI  226 (374)
T PF13281_consen  147 LLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRI  226 (374)
T ss_pred             HHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHH
Confidence            3334666677777777777776531   11011111122333444   66777777777775555555566666666655


Q ss_pred             H
Q 003457          160 Y  160 (818)
Q Consensus       160 y  160 (818)
                      |
T Consensus       227 y  227 (374)
T PF13281_consen  227 Y  227 (374)
T ss_pred             H
Confidence            5

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.48  E-value=0.81  Score=51.51  Aligned_cols=128  Identities=11%  Similarity=0.087  Sum_probs=68.4

Q ss_pred             cCCCHHHHHHHHh--hcC-CCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHH
Q 003457           61 SSGDLSYATRLFN--SIQ-SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQI  137 (818)
Q Consensus        61 k~g~~e~A~~lf~--~~~-~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~  137 (818)
                      -.++++++.++.+  ++. .-+....+.+++.+.+.|.++.|+++-+.-..            -.....+.|+++.|.++
T Consensus       273 ~~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~~A~~~  340 (443)
T PF04053_consen  273 LRGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDIALEI  340 (443)
T ss_dssp             HTT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHHHHHH
T ss_pred             HcCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHHHHHH
Confidence            4567777554444  111 12244566777777777777777776433221            24445567777777665


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 003457          138 HTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEG  211 (818)
Q Consensus       138 ~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g  211 (818)
                      .++      ..+...|..|.+...+.|+++-|++.|.+..+     |..|+-.|.-.|+.+.-.++.+...+.|
T Consensus       341 a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d-----~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  341 AKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAKD-----FSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             CCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC-----ccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            322      22556777777777777777777777766543     4455555666666665555555555444

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.48  E-value=13  Score=43.61  Aligned_cols=138  Identities=12%  Similarity=0.059  Sum_probs=80.0

Q ss_pred             hcCCCHHHHHHHHhhcCC--C---CHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHH
Q 003457           60 SSSGDLSYATRLFNSIQS--P---NHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCC  134 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~~--p---~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A  134 (818)
                      .+.+.+++|..+-+....  +   -...+...|..+...|++++|-...-.|...    +..-|...+..++..++....
T Consensus       367 l~~k~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~~~l~~I  442 (846)
T KOG2066|consen  367 LEKKKYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAELDQLTDI  442 (846)
T ss_pred             HHhhHHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhccccccchh
Confidence            677888888888876652  2   2346778888888888888888888777654    555666666666665554332


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC-----------------------CHHHHHHHHHHH
Q 003457          135 KQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR-----------------------TLNVWTTMISGY  191 (818)
Q Consensus       135 ~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~-----------------------d~~~~~~Li~~~  191 (818)
                      ..+   +-......+..+|..++..+.. .+..   .+++.+.+.                       +...-..|+..|
T Consensus       443 a~~---lPt~~~rL~p~vYemvLve~L~-~~~~---~F~e~i~~Wp~~Lys~l~iisa~~~q~~q~Se~~~L~e~La~LY  515 (846)
T KOG2066|consen  443 APY---LPTGPPRLKPLVYEMVLVEFLA-SDVK---GFLELIKEWPGHLYSVLTIISATEPQIKQNSESTALLEVLAHLY  515 (846)
T ss_pred             hcc---CCCCCcccCchHHHHHHHHHHH-HHHH---HHHHHHHhCChhhhhhhHHHhhcchHHHhhccchhHHHHHHHHH
Confidence            221   1111122344556655555544 2111   111111111                       112334477777


Q ss_pred             HHcCChHHHHHHHHHHH
Q 003457          192 AQSFRANEALMLFDQML  208 (818)
Q Consensus       192 ~~~g~~~~A~~l~~~m~  208 (818)
                      ...+++..|++++-+.+
T Consensus       516 l~d~~Y~~Al~~ylklk  532 (846)
T KOG2066|consen  516 LYDNKYEKALPIYLKLQ  532 (846)
T ss_pred             HHccChHHHHHHHHhcc
Confidence            77888888877776654

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.46  E-value=4.1  Score=41.65  Aligned_cols=58  Identities=17%  Similarity=0.156  Sum_probs=37.8

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 003457          186 TMISGYAQSFRANEALMLFDQMLMEGFEPNS---VTLASVLSACAQSGCLELGEKVHVFVKM  244 (818)
Q Consensus       186 ~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~---~t~~~ll~~~~~~g~~~~A~~i~~~~~~  244 (818)
                      .+.+-|.+.|.+-.|..-+++|++. .+-+.   ..+..+..+|...|-.++|.+.-.-+..
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            3456778888888888888888776 22222   3344556777777777777665554443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.36  E-value=17  Score=44.77  Aligned_cols=149  Identities=14%  Similarity=0.168  Sum_probs=85.1

Q ss_pred             CCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH----HHHHHcCCHHHHHHHH
Q 003457          265 GALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVL----SACCHAGFIDVGRQIF  340 (818)
Q Consensus       265 g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll----~a~~~~g~~~~A~~~~  340 (818)
                      +++++|+.-+.++.   ...|.-.+..--+++.+.+|+.++        +|+...+..+.    .-+.....+++|.-.|
T Consensus       894 ~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly--------~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Y  962 (1265)
T KOG1920|consen  894 KRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALY--------KPDSEKQKVIYEAYADHLREELMSDEAALMY  962 (1265)
T ss_pred             HHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhhee--------ccCHHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence            34555555444443   122333333334555555555554        34554444443    3344456666666666


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 003457          341 GSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVV--MWGALLAACKNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       341 ~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~--~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                      +..-+.          .--+.+|..+|+|.+|+.+-.++....|..  +-..|..-+...++.-+|-++..+..+ +|  
T Consensus       963 e~~Gkl----------ekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s-d~-- 1029 (1265)
T KOG1920|consen  963 ERCGKL----------EKALKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLEYLS-DP-- 1029 (1265)
T ss_pred             HHhccH----------HHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc-CH--
Confidence            553211          123556777888888888887775433433  236677788889998888888877654 22  


Q ss_pred             cchHHHHHHHHHHhhchHHHHHH
Q 003457          419 HGVYVVLSNMYAEAESMKMQLEI  441 (818)
Q Consensus       419 ~~~y~~L~~~l~~~G~~~eA~~l  441 (818)
                          ...+..|+++-.|++|.++
T Consensus      1030 ----~~av~ll~ka~~~~eAlrv 1048 (1265)
T KOG1920|consen 1030 ----EEAVALLCKAKEWEEALRV 1048 (1265)
T ss_pred             ----HHHHHHHhhHhHHHHHHHH
Confidence                2344566677777777773

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.32  E-value=0.086  Score=35.67  Aligned_cols=33  Identities=24%  Similarity=0.261  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                      .+|..++..|...|++++|++.|+++++++|++
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~   34 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPDN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcCC
Confidence            568888999999999999999999999999973

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.17  E-value=16  Score=43.33  Aligned_cols=172  Identities=14%  Similarity=0.073  Sum_probs=106.1

Q ss_pred             HHHhhhhcCCCHHHHHHHHhhcCCCCHH---HHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 003457           54 LAFCALSSSGDLSYATRLFNSIQSPNHF---MWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRS  130 (818)
Q Consensus        54 l~~~a~~k~g~~e~A~~lf~~~~~p~~~---~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~  130 (818)
                      +.+.  .+...++.|..+-+.-..+...   ....-.+.+.+.|++++|...|-+-... +.|.     .++.-|....+
T Consensus       341 L~iL--~kK~ly~~Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~  412 (933)
T KOG2114|consen  341 LDIL--FKKNLYKVAINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQR  412 (933)
T ss_pred             HHHH--HHhhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHH
Confidence            4444  6777788888877765432222   2222334456789999999888776543 3332     24455566666


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHH-HHHHHHHHHHHcCChHHHHHHHHHHHH
Q 003457          131 LNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLN-VWTTMISGYAQSFRANEALMLFDQMLM  209 (818)
Q Consensus       131 ~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~-~~~~Li~~~~~~g~~~~A~~l~~~m~~  209 (818)
                      ..+-..+++.+.+.|+. +...-..|+.+|.+.++.++-.++.+...+.... -....+..+.+.+-.++|..+-.+...
T Consensus       413 IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~  491 (933)
T KOG2114|consen  413 IKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLATKFKK  491 (933)
T ss_pred             HHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHHHhcc
Confidence            77777788888888876 5556678899999999999888888776621111 134455666666666666655544322


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 003457          210 EGFEPNSVTLASVLSACAQSGCLELGEKVHVFV  242 (818)
Q Consensus       210 ~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~  242 (818)
                           .......+   +...+++++|.+++..+
T Consensus       492 -----he~vl~il---le~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  492 -----HEWVLDIL---LEDLHNYEEALRYISSL  516 (933)
T ss_pred             -----CHHHHHHH---HHHhcCHHHHHHHHhcC
Confidence                 22222332   33556777777766544

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.11  E-value=7.7  Score=39.60  Aligned_cols=242  Identities=16%  Similarity=0.210  Sum_probs=125.5

Q ss_pred             CCChHHHHHHHHHhhcC-------CHHHHHHHHHHHHHcCChHHHHHHHHHHHHc---CC--CCCHHHHHHHHHHHHhcC
Q 003457          163 SSDLNNARQVFDEIRNR-------TLNVWTTMISGYAQSFRANEALMLFDQMLME---GF--EPNSVTLASVLSACAQSG  230 (818)
Q Consensus       163 ~g~~~~A~~l~~~m~~~-------d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~---g~--~pd~~t~~~ll~~~~~~g  230 (818)
                      ..+.++|+.-|+++.+-       ...+...++..+.+.+++++.++.|++|+.-   .+  .-+....+.++.......
T Consensus        40 e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~  119 (440)
T KOG1464|consen   40 EDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSK  119 (440)
T ss_pred             ccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhh
Confidence            33555555555555431       2224445666666667777766666666321   11  123344555555555555


Q ss_pred             ChhHHHHHHHHHHHc-----CCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--------C-------ChhhHHHHHH
Q 003457          231 CLELGEKVHVFVKMR-----GFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--------R-------NIATWNAMIS  290 (818)
Q Consensus       231 ~~~~A~~i~~~~~~~-----g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--------~-------d~~~~~~Li~  290 (818)
                      +.+.....|+.-++.     +-..--.+-..|...|...+++.+-.++++++..        .       -...|..=|.
T Consensus       120 ~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQ  199 (440)
T KOG1464|consen  120 NMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQ  199 (440)
T ss_pred             hhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhh
Confidence            555555554433321     0011112334566677777777777777766642        1       1346666677


Q ss_pred             HHHHcCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHH-----HHcCCHHHHHHHHHHHHHHhCCC--CC---HHHHHHH
Q 003457          291 GLASHGHAEEALDLFRKLEKE-QIVPNDITFVGVLSAC-----CHAGFIDVGRQIFGSMKRVYGIE--PK---IEHYGCM  359 (818)
Q Consensus       291 ~~~~~g~~~~A~~l~~~m~~~-g~~pd~~t~~~ll~a~-----~~~g~~~~A~~~~~~m~~~~g~~--p~---~~~~~~L  359 (818)
                      .|..+++-.+...+|++.+.. .--|.+.... +++-|     .+.|.+++|-.-|-++.+.+.-.  |.   -.-|..|
T Consensus       200 mYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVL  278 (440)
T KOG1464|consen  200 MYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVL  278 (440)
T ss_pred             hhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHH
Confidence            888888888888888876542 2234444333 33333     34567777765444434332222  21   1234556


Q ss_pred             HHHHHHcCC----HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 003457          360 VDLLGRCGK----VLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKE  410 (818)
Q Consensus       360 i~~~~~~g~----~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~  410 (818)
                      .+++.+.|-    -.+|.    -.+..|.......|+.+|- ..++.+-+++++.
T Consensus       279 ANMLmkS~iNPFDsQEAK----PyKNdPEIlAMTnlv~aYQ-~NdI~eFE~Il~~  328 (440)
T KOG1464|consen  279 ANMLMKSGINPFDSQEAK----PYKNDPEILAMTNLVAAYQ-NNDIIEFERILKS  328 (440)
T ss_pred             HHHHHHcCCCCCcccccC----CCCCCHHHHHHHHHHHHHh-cccHHHHHHHHHh
Confidence            666666552    11110    0113355677788888774 4455555555543

>PRK11619 lytic murein transglycosylase; Provisional

Probab=94.08  E-value=17  Score=43.30  Aligned_cols=16  Identities=6%  Similarity=0.324  Sum_probs=8.0

Q ss_pred             cCCCHHHHHHHHhhcC
Q 003457           61 SSGDLSYATRLFNSIQ   76 (818)
Q Consensus        61 k~g~~e~A~~lf~~~~   76 (818)
                      +.|++..+.++...+.
T Consensus        45 ~~g~~~~~~~~~~~l~   60 (644)
T PRK11619         45 DNRQMDVVEQLMPTLK   60 (644)
T ss_pred             HCCCHHHHHHHHHhcc
Confidence            4555555555554443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.07  E-value=0.14  Score=34.51  Aligned_cols=33  Identities=33%  Similarity=0.407  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                      ..|..+...+.+.|++++|++.|+++++++|++
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            457778888999999999999999999999974

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.04  E-value=5.8  Score=41.35  Aligned_cols=54  Identities=9%  Similarity=0.049  Sum_probs=35.8

Q ss_pred             HHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC
Q 003457          225 ACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE  279 (818)
Q Consensus       225 ~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~  279 (818)
                      .....+++.+|...++...... +-+......|+++|...|+.+.|..++..+..
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~  196 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPL  196 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcc
Confidence            3456677777777777777654 23344555677777777777777777777664

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.86  E-value=8.5  Score=42.98  Aligned_cols=142  Identities=13%  Similarity=0.071  Sum_probs=74.8

Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHH
Q 003457          189 SGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALA  268 (818)
Q Consensus       189 ~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~  268 (818)
                      .-.-+..+++.-+++-++.++.  .||-.+...++ +-.......++++++++.++.+-.       .+-...    ..+
T Consensus       176 q~AWRERnp~aRIkaA~eALei--~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkAgE~-------~lg~s~----~~~  241 (539)
T PF04184_consen  176 QKAWRERNPQARIKAAKEALEI--NPDCADAYILL-AEEEASTIVEAEELLRQAVKAGEA-------SLGKSQ----FLQ  241 (539)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHh--hhhhhHHHhhc-ccccccCHHHHHHHHHHHHHHHHH-------hhchhh----hhh
Confidence            3334455666666666666553  45443322222 222344567888888887776410       000000    000


Q ss_pred             HHHHHHhhCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          269 KAKALFDSMPERN----IATWNAMISGLASHGHAEEALDLFRKLEKEQIVP-NDITFVGVLSACCHAGFIDVGRQIFGSM  343 (818)
Q Consensus       269 ~A~~~f~~m~~~d----~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~A~~~~~~m  343 (818)
                      ..-..++.+..++    ..+-..|..+..+.|+.++|++.|++|.+....- +......|+.++...+.+.++..++.+.
T Consensus       242 ~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  242 HHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             cccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            0001111122222    3334456666777788888888888887653221 2334556777788888888888777775


Q ss_pred             H
Q 003457          344 K  344 (818)
Q Consensus       344 ~  344 (818)
                      .
T Consensus       322 d  322 (539)
T PF04184_consen  322 D  322 (539)
T ss_pred             c
Confidence            4

The molecular function of this protein is uncertain.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.86  E-value=2.9  Score=46.46  Aligned_cols=121  Identities=8%  Similarity=0.116  Sum_probs=81.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCC--CCC--HHHHHHHHHH
Q 003457          319 TFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVW--KPD--VVMWGALLAA  394 (818)
Q Consensus       319 t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~--~pd--~~~~~~Li~a  394 (818)
                      .-..+..++.+.|+.++|.+.++++.+.+....+......|+.+|...+++.++..++.+-..  -|.  ...|+..+-.
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLk  340 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLK  340 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHH
Confidence            334567778899999999999999988633333466788999999999999999999998742  133  4556665433


Q ss_pred             HHHcCC---------------HHHHHHHHHHHHhcCCCCcchHHHH------HHHHHHhhchHHHHH
Q 003457          395 CKNHGN---------------IEVAERVVKEIIALEPNNHGVYVVL------SNMYAEAESMKMQLE  440 (818)
Q Consensus       395 ~~~~g~---------------~~~A~~~~~~~~~~~P~~~~~y~~L------~~~l~~~G~~~eA~~  440 (818)
                      +...++               -..|.+...++.+.+|.-+..+..+      -.-+.+.|+ .||+.
T Consensus       341 aRav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp~YLLe~K~LilPPehilkrGD-SEAia  406 (539)
T PF04184_consen  341 ARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVPKYLLEMKSLILPPEHILKRGD-SEAIA  406 (539)
T ss_pred             HHhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCchhhhccCCCCCChHHhcCCCc-HHHHH
Confidence            333332               1346678899999888744322111      223456665 66666

The molecular function of this protein is uncertain.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.85  E-value=1.1  Score=46.94  Aligned_cols=149  Identities=15%  Similarity=0.016  Sum_probs=97.1

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHH----HHHHHHHHcCC
Q 003457          293 ASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYG----CMVDLLGRCGK  368 (818)
Q Consensus       293 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~----~Li~~~~~~g~  368 (818)
                      ..+|++.+|...++++++.- +-|...+...=.+|...|+...-+..+++++..  ..++...|.    .+.-++..+|-
T Consensus       114 ~~~g~~h~a~~~wdklL~d~-PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~  190 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDDY-PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             hccccccHHHHHHHHHHHhC-chhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhcc
Confidence            34577777777777777652 335556666667788888888877777777654  345544443    33344557888


Q ss_pred             HHHHHHHHHHc-CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC----CcchHHHHHHHHHHhhchHHHHHHH
Q 003457          369 VLEAEELIKRM-VWK-PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPN----NHGVYVVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       369 ~~~A~~~~~~m-~~~-pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~----~~~~y~~L~~~l~~~G~~~eA~~l~  442 (818)
                      +++|++.-++. .+. -|...-.++...+...|+..++.++..+-...=-+    ...-|-..+-.+...+.++.|++++
T Consensus       191 y~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  191 YDDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             chhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            88888888777 333 36677777777777888888888877654331111    1234555666677778888888876


Q ss_pred             HH
Q 003457          443 LV  444 (818)
Q Consensus       443 ~~  444 (818)
                      +.
T Consensus       271 D~  272 (491)
T KOG2610|consen  271 DR  272 (491)
T ss_pred             HH
Confidence            43

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.80  E-value=0.92  Score=46.60  Aligned_cols=100  Identities=20%  Similarity=0.192  Sum_probs=65.6

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC-HHHHHHHH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQIVP--NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK-IEHYGCMV  360 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p--d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~-~~~~~~Li  360 (818)
                      .|+.-+.. .+.|++.+|...|...++..+.-  ....+..|..++...|+++.|..+|..+.+.++-.|. +..+.-|.
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            35555443 34466888888887777753321  1345556777777888888888888777776544443 36667777


Q ss_pred             HHHHHcCCHHHHHHHHHHcC-CCCC
Q 003457          361 DLLGRCGKVLEAEELIKRMV-WKPD  384 (818)
Q Consensus       361 ~~~~~~g~~~~A~~~~~~m~-~~pd  384 (818)
                      ....+.|+.++|...|++.. .-|+
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~YP~  247 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRYPG  247 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHCCC
Confidence            77777888888887777773 3354

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=93.78  E-value=3  Score=47.66  Aligned_cols=156  Identities=14%  Similarity=0.070  Sum_probs=97.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc-CCCCCH-----HHHHHHHHHHH----HcCCHHHHHHHHHHHHHHhCCCCCHHHH
Q 003457          287 AMISGLASHGHAEEALDLFRKLEKE-QIVPND-----ITFVGVLSACC----HAGFIDVGRQIFGSMKRVYGIEPKIEHY  356 (818)
Q Consensus       287 ~Li~~~~~~g~~~~A~~l~~~m~~~-g~~pd~-----~t~~~ll~a~~----~~g~~~~A~~~~~~m~~~~g~~p~~~~~  356 (818)
                      .+++...-.|+-+.+++++.+..+. +++-..     ..|..++..++    ...+.+.+.++++.+.++   -|+...|
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~lf  269 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSALF  269 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcHHH
Confidence            3444444456666666666655442 122111     12223332222    245678888999988875   4555544


Q ss_pred             H-HHHHHHHHcCCHHHHHHHHHHcCC-C-----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHH-HHHHH
Q 003457          357 G-CMVDLLGRCGKVLEAEELIKRMVW-K-----PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYV-VLSNM  428 (818)
Q Consensus       357 ~-~Li~~~~~~g~~~~A~~~~~~m~~-~-----pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~-~L~~~  428 (818)
                      . .-.+.+...|+.++|++.|+++.. +     -....+--+...+....++++|.+.|.++.+.+.-+...|. ..+-+
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            3 445667788999999999997631 1     12345555666778889999999999999998776555554 44566


Q ss_pred             HHHhhch-------HHHHHHHHHH
Q 003457          429 YAEAESM-------KMQLEILLVQ  445 (818)
Q Consensus       429 l~~~G~~-------~eA~~l~~~~  445 (818)
                      +...|+.       ++|.++++.+
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~v  373 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKV  373 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHH
Confidence            6788888       7777755544

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=93.74  E-value=0.19  Score=48.67  Aligned_cols=105  Identities=12%  Similarity=0.042  Sum_probs=60.3

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHHhCCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC-HHHHHHHHHHHHH
Q 003457          325 SACCHAGFIDVGRQIFGSMKRVYGIEPK-----IEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD-VVMWGALLAACKN  397 (818)
Q Consensus       325 ~a~~~~g~~~~A~~~~~~m~~~~g~~p~-----~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a~~~  397 (818)
                      +-+.+.|++++|..-|...+..  +++.     ...|..-..++.+.+.++.|++-..++ .+.|. ...+..-..+|.+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~--cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALES--CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHh--CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHh
Confidence            3466677777777777777664  3332     234555555666677777776665555 23332 2333333445666


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHH
Q 003457          398 HGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAE  431 (818)
Q Consensus       398 ~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~  431 (818)
                      ..++++|++-|+++++++|...++....+++--.
T Consensus       181 ~ek~eealeDyKki~E~dPs~~ear~~i~rl~~~  214 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILESDPSRREAREAIARLPPK  214 (271)
T ss_pred             hhhHHHHHHHHHHHHHhCcchHHHHHHHHhcCHH
Confidence            6677777777777777777655444444443333

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.73  E-value=1.4  Score=49.64  Aligned_cols=157  Identities=15%  Similarity=0.123  Sum_probs=85.0

Q ss_pred             HHHcCChHHHHHHHH--HHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHH
Q 003457          191 YAQSFRANEALMLFD--QMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALA  268 (818)
Q Consensus       191 ~~~~g~~~~A~~l~~--~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~  268 (818)
                      ..-.++++++.+..+  ++.. .++  ......++.-+.+.|..+.|.++-..-.            .-.+...++|+++
T Consensus       271 av~~~d~~~v~~~i~~~~ll~-~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~  335 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLP-NIP--KDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLD  335 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HH
T ss_pred             HHHcCChhhhhhhhhhhhhcc-cCC--hhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHH
Confidence            344566666655554  1111 111  3345666666677777777665433221            1234556777777


Q ss_pred             HHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC
Q 003457          269 KAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYG  348 (818)
Q Consensus       269 ~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g  348 (818)
                      .|.++-+++.  +...|..|.....++|+++-|++.|.+..+         +..|+-.|...|+.+.-.++.+....+ |
T Consensus       336 ~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~-~  403 (443)
T PF04053_consen  336 IALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER-G  403 (443)
T ss_dssp             HHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT-T
T ss_pred             HHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc-c
Confidence            7777665554  555788888888888888888777776432         345555566677776666665554433 1


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC
Q 003457          349 IEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV  380 (818)
Q Consensus       349 ~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~  380 (818)
                            -++....++...|+.++..+++.+..
T Consensus       404 ------~~n~af~~~~~lgd~~~cv~lL~~~~  429 (443)
T PF04053_consen  404 ------DINIAFQAALLLGDVEECVDLLIETG  429 (443)
T ss_dssp             -------HHHHHHHHHHHT-HHHHHHHHHHTT
T ss_pred             ------CHHHHHHHHHHcCCHHHHHHHHHHcC
Confidence                  13444455556677777777776664

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.69  E-value=0.55  Score=49.04  Aligned_cols=114  Identities=10%  Similarity=0.079  Sum_probs=95.2

Q ss_pred             HHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC--CCCCHHHHHH----HHHHHHHcCCH
Q 003457          328 CHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV--WKPDVVMWGA----LLAACKNHGNI  401 (818)
Q Consensus       328 ~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~~pd~~~~~~----Li~a~~~~g~~  401 (818)
                      -..|++.+|...++++.+.  .+.|...+.-.-+++...|+.+.-...++++.  -.+|...|..    +.-++...|-+
T Consensus       114 ~~~g~~h~a~~~wdklL~d--~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD--YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hccccccHHHHHHHHHHHh--CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            3468888888899999886  78888888888899999999999999999883  2456543333    33356789999


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHH
Q 003457          402 EVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILL  443 (818)
Q Consensus       402 ~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~  443 (818)
                      ++|++..+++++++|.+.-+...++.++.-.|+.+|+.++..
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~  233 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMY  233 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHH
Confidence            999999999999999999999999999999999999999653

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=93.68  E-value=0.85  Score=41.75  Aligned_cols=53  Identities=13%  Similarity=0.178  Sum_probs=40.0

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Q 003457          312 QIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLG  364 (818)
Q Consensus       312 g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~  364 (818)
                      ...|+..++.+++.+|+..+++..|.++.+...+.++++-+...|..|++-..
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            34577778888888888888888888888888887777777777777775443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.60  E-value=1.8  Score=46.01  Aligned_cols=151  Identities=13%  Similarity=0.162  Sum_probs=91.0

Q ss_pred             cCCCCCCCCChhHHHHHHHHhcC-chHH----HHHHHHHHHhCCCCChHHHHHHHHHhhhhcC----CCHHHHHHHHhhc
Q 003457            5 CSSLRQPPLPIPPLSLLADKCKS-MHQL----KQIHAQMIISSRIQDHFAASRLLAFCALSSS----GDLSYATRLFNSI   75 (818)
Q Consensus         5 ~~~~~~~~p~~~tl~~ll~~c~~-~~~~----~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~----g~~e~A~~lf~~~   75 (818)
                      +|++|+.  ...+++++|..-.. ++..    ..+++.+.+.|+..+.+++-+...+......    -....|.++|+.|
T Consensus        52 fS~lr~~--~~~~la~~l~~~~~~p~~~~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~m  129 (297)
T PF13170_consen   52 FSPLRGN--HRFILAALLDISFEDPEEAFKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEM  129 (297)
T ss_pred             ccccccc--HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHH
Confidence            5666643  45677777777666 4333    6888999999999998777765555511112    2345677788877


Q ss_pred             CC-------CCHHHHHHHHHHHHhCCC----hhHHHHHHHHHHHcCCCCCHH--HHHHHHHHHHccCC--hHHHHHHHHH
Q 003457           76 QS-------PNHFMWNTLIRAQASSLN----PDKAIFLYMNMRRTGFAPNQH--TFTFVLKACSNVRS--LNCCKQIHTH  140 (818)
Q Consensus        76 ~~-------p~~~~yn~Li~~~~~~g~----~~~Al~lf~~m~~~g~~pd~~--ty~~ll~~~~~~g~--~~~A~~~~~~  140 (818)
                      .+       ++-.++..|+..  ..++    .+.+..+|+.+.+.|...+..  ....++..+....+  ...+.++++.
T Consensus       130 Kk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~  207 (297)
T PF13170_consen  130 KKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNA  207 (297)
T ss_pred             HHhCccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHH
Confidence            63       444556666554  3333    245667777777766654433  33344443332222  3366777777


Q ss_pred             HHHcCCCCCHHHHHHHHHH
Q 003457          141 VSKSGLDLDLHVVNCLVRC  159 (818)
Q Consensus       141 m~~~g~~p~~~~~~~Li~~  159 (818)
                      +.+.|++.....|..+.-.
T Consensus       208 l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  208 LKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHcCCccccccccHHHHH
Confidence            7777777666666554433

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.58  E-value=3.2  Score=41.10  Aligned_cols=159  Identities=15%  Similarity=0.135  Sum_probs=92.2

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Q 003457          281 NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMV  360 (818)
Q Consensus       281 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li  360 (818)
                      -+..||-|.-.+...|+++.|.+.|+...+..+.-+-...|.-+ ++.--|+++.|.+-+.+.-+...-+|-...|.-+.
T Consensus        98 m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~  176 (297)
T COG4785          98 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLN  176 (297)
T ss_pred             cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHHHHHHHHhcCCCChHHHHHHHHH
Confidence            34678888888888899999999998888765443322222222 33446788888776666554312223233333332


Q ss_pred             HHHHHcCCHHHHHHHH-HHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC-------cchHHHHHHHHHHh
Q 003457          361 DLLGRCGKVLEAEELI-KRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNN-------HGVYVVLSNMYAEA  432 (818)
Q Consensus       361 ~~~~~~g~~~~A~~~~-~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~-------~~~y~~L~~~l~~~  432 (818)
                         ...-++.+|..-+ ++.. +.|..-|...+..+. .|++.+ +.+++++.+-.-++       .++|..|+..+...
T Consensus       177 ---E~k~dP~~A~tnL~qR~~-~~d~e~WG~~iV~~y-LgkiS~-e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~  250 (297)
T COG4785         177 ---EQKLDPKQAKTNLKQRAE-KSDKEQWGWNIVEFY-LGKISE-ETLMERLKADATDNTSLAEHLTETYFYLGKYYLSL  250 (297)
T ss_pred             ---HhhCCHHHHHHHHHHHHH-hccHhhhhHHHHHHH-HhhccH-HHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhcc
Confidence               2344667776544 4442 344444444443332 222211 12334443322232       47899999999999


Q ss_pred             hchHHHHHHHHHHH
Q 003457          433 ESMKMQLEILLVQV  446 (818)
Q Consensus       433 G~~~eA~~l~~~~~  446 (818)
                      |+.++|..+++..+
T Consensus       251 G~~~~A~~LfKLai  264 (297)
T COG4785         251 GDLDEATALFKLAV  264 (297)
T ss_pred             ccHHHHHHHHHHHH
Confidence            99999999988764

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.57  E-value=2.5  Score=39.29  Aligned_cols=115  Identities=13%  Similarity=0.116  Sum_probs=52.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHc
Q 003457          289 ISGLASHGHAEEALDLFRKLEKEQIVP--NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRC  366 (818)
Q Consensus       289 i~~~~~~g~~~~A~~l~~~m~~~g~~p--d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~  366 (818)
                      .....+.|++++|.+.|+.+...-+..  ....-..++.+|.+.+++++|...+++.++.+.-.|+ .-|-..+.++...
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHHHHHHH
Confidence            334445556666666665555442111  1233344555555556666666555555554222222 1122222222222


Q ss_pred             CCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc
Q 003457          367 GKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNH  419 (818)
Q Consensus       367 g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~  419 (818)
                      ...+..+.-+-  ..+             ...+....|...|++.++..|++.
T Consensus        96 ~~~~~~~~~~~--~~d-------------rD~~~~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen   96 EQDEGSLQSFF--RSD-------------RDPTPARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HHhhhHHhhhc--ccc-------------cCcHHHHHHHHHHHHHHHHCcCCh
Confidence            11111111110  101             111235688888899999888854

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.43  E-value=0.9  Score=41.04  Aligned_cols=89  Identities=17%  Similarity=0.124  Sum_probs=53.8

Q ss_pred             HHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-C-CC-C---HHHHHHHHHHHHHcC
Q 003457          326 ACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-W-KP-D---VVMWGALLAACKNHG  399 (818)
Q Consensus       326 a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~-~p-d---~~~~~~Li~a~~~~g  399 (818)
                      +....|+++.|++.|.+.+..  .+.+...||.-..+|.-+|+.++|++-++++. . .+ .   -..|..-...|...|
T Consensus        52 alaE~g~Ld~AlE~F~qal~l--~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL--APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh--cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            455667777777777776654  44566677777777777777777777666651 1 11 1   122333333466677


Q ss_pred             CHHHHHHHHHHHHhcCC
Q 003457          400 NIEVAERVVKEIIALEP  416 (818)
Q Consensus       400 ~~~~A~~~~~~~~~~~P  416 (818)
                      +.+.|..-|+.+-+++.
T Consensus       130 ~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGS  146 (175)
T ss_pred             chHHHHHhHHHHHHhCC
Confidence            77777777766655543

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=93.26  E-value=23  Score=46.90  Aligned_cols=307  Identities=10%  Similarity=0.030  Sum_probs=162.0

Q ss_pred             HHHHHHHccCChHHHHHHHHHH----HHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHH-hhcCCHHHHHHHHHHHHHc
Q 003457          120 FVLKACSNVRSLNCCKQIHTHV----SKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDE-IRNRTLNVWTTMISGYAQS  194 (818)
Q Consensus       120 ~ll~~~~~~g~~~~A~~~~~~m----~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~-m~~~d~~~~~~Li~~~~~~  194 (818)
                      ++..+-.+.+.+..|...++.-    ++.  ......+..+...|...++.|...-+... ...++   ....+......
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~--~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s---l~~qil~~e~~ 1462 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEK--ETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS---LYQQILEHEAS 1462 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchh--HHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc---HHHHHHHHHhh
Confidence            4444555667777777777763    111  11223455555688888888887777663 22222   22344456677


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHH-HHHHHHHHHHhCCCHHHHHHH
Q 003457          195 FRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAI-LGTALVHMYTKNGALAKAKAL  273 (818)
Q Consensus       195 g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~-~~~~Li~~~~~~g~~~~A~~~  273 (818)
                      |+++.|...|+++.+.+ ++...++.-++......+.++...-..+-..... .+... .++.=+.+--+.++++.....
T Consensus      1463 g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~e~~ 1540 (2382)
T KOG0890|consen 1463 GNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLLESY 1540 (2382)
T ss_pred             ccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhhhhh
Confidence            99999999999998764 4446677777777777777777666555444332 22222 223334444677777777666


Q ss_pred             HhhCCCCChhhHHHH--HHHHHHcC--CHHHHHHHHHHHHHcCCCC---------CHHHHHHHHHHHHHcCCHHHHHHHH
Q 003457          274 FDSMPERNIATWNAM--ISGLASHG--HAEEALDLFRKLEKEQIVP---------NDITFVGVLSACCHAGFIDVGRQIF  340 (818)
Q Consensus       274 f~~m~~~d~~~~~~L--i~~~~~~g--~~~~A~~l~~~m~~~g~~p---------d~~t~~~ll~a~~~~g~~~~A~~~~  340 (818)
                      ..   ..+...|.+.  +..+.+..  +.-.-.++.+.+++.-+.|         -...|..++....-.       ++.
T Consensus      1541 l~---~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~-------el~ 1610 (2382)
T KOG0890|consen 1541 LS---DRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLL-------ELE 1610 (2382)
T ss_pred             hh---cccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHH-------HHH
Confidence            55   4445555544  22332222  2111122333333221111         011222222221111       010


Q ss_pred             HHHHHHhCCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHHc----CCCC-----CHHHHHHHHHHHHHcCCHHHHH
Q 003457          341 GSMKRVYGIEPK------IEHYGCMVDLLGRCGKVLEAEELIKRM----VWKP-----DVVMWGALLAACKNHGNIEVAE  405 (818)
Q Consensus       341 ~~m~~~~g~~p~------~~~~~~Li~~~~~~g~~~~A~~~~~~m----~~~p-----d~~~~~~Li~a~~~~g~~~~A~  405 (818)
                      .......+..++      ...|...+..-....+..+-+--+++.    ..+|     -..+|....+..+..|.++.|.
T Consensus      1611 ~~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~ 1690 (2382)
T KOG0890|consen 1611 NSIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQ 1690 (2382)
T ss_pred             HHHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHH
Confidence            111111122222      122222222211122222222222222    1122     2567888888888899999998


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          406 RVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       406 ~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ...-++.+..  -++.+...+..+...|+-..|+.+++..
T Consensus      1691 nall~A~e~r--~~~i~~E~AK~lW~~gd~~~Al~~Lq~~ 1728 (2382)
T KOG0890|consen 1691 NALLNAKESR--LPEIVLERAKLLWQTGDELNALSVLQEI 1728 (2382)
T ss_pred             HHHHhhhhcc--cchHHHHHHHHHHhhccHHHHHHHHHHH
Confidence            8887777665  3668888889999999988888865443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.24  E-value=0.2  Score=52.33  Aligned_cols=92  Identities=17%  Similarity=0.096  Sum_probs=57.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCC
Q 003457          324 LSACCHAGFIDVGRQIFGSMKRVYGIEP-KIEHYGCMVDLLGRCGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGN  400 (818)
Q Consensus       324 l~a~~~~g~~~~A~~~~~~m~~~~g~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~  400 (818)
                      .+-|.++|.+++|+.+|...+.   ..| |..++..-..+|.+.+++..|+.-...+.  .+.-...|..-+.+-...|+
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia---~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIA---VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc---cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence            4567777777777777776553   334 66666667777777777776666555542  11123445544555555667


Q ss_pred             HHHHHHHHHHHHhcCCCC
Q 003457          401 IEVAERVVKEIIALEPNN  418 (818)
Q Consensus       401 ~~~A~~~~~~~~~~~P~~  418 (818)
                      ..+|.+-++.++++.|++
T Consensus       181 ~~EAKkD~E~vL~LEP~~  198 (536)
T KOG4648|consen  181 NMEAKKDCETVLALEPKN  198 (536)
T ss_pred             HHHHHHhHHHHHhhCccc
Confidence            777777777777777763

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=93.15  E-value=4.1  Score=39.83  Aligned_cols=81  Identities=19%  Similarity=0.145  Sum_probs=55.3

Q ss_pred             HHHHcCCHHHHHHHHHHcC--CCC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          362 LLGRCGKVLEAEELIKRMV--WKP-----DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       362 ~~~~~g~~~~A~~~~~~m~--~~p-----d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      -+.+.|++++|..-|..+.  ..+     ....|..-..++.+.+.++.|+.-..++++++|.+..++..-+.+|.+..+
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEK  183 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhh
Confidence            3556777777777776652  111     134555555566777777888877777888887777777777777777777


Q ss_pred             hHHHHHHH
Q 003457          435 MKMQLEIL  442 (818)
Q Consensus       435 ~~eA~~l~  442 (818)
                      +++|++-+
T Consensus       184 ~eealeDy  191 (271)
T KOG4234|consen  184 YEEALEDY  191 (271)
T ss_pred             HHHHHHHH
Confidence            77777743

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=92.98  E-value=0.81  Score=41.34  Aligned_cols=85  Identities=14%  Similarity=0.086  Sum_probs=70.1

Q ss_pred             HHHHHcCCHHHHHHHHHHc-CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC----cchHHHHHHHHHHhhc
Q 003457          361 DLLGRCGKVLEAEELIKRM-VWK-PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNN----HGVYVVLSNMYAEAES  434 (818)
Q Consensus       361 ~~~~~~g~~~~A~~~~~~m-~~~-pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~----~~~y~~L~~~l~~~G~  434 (818)
                      -++...|+.+.|++.|.+. ..- .....||+-..++.-+|+.++|++-+++++++.-+.    -.+|..-+.+|...|+
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            4578999999999999887 333 468899999999999999999999999999975332    2466777888999999


Q ss_pred             hHHHHHHHHHH
Q 003457          435 MKMQLEILLVQ  445 (818)
Q Consensus       435 ~~eA~~l~~~~  445 (818)
                      .+.|..-|+..
T Consensus       131 dd~AR~DFe~A  141 (175)
T KOG4555|consen  131 DDAARADFEAA  141 (175)
T ss_pred             hHHHHHhHHHH
Confidence            99998866544

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.72  E-value=25  Score=41.35  Aligned_cols=31  Identities=19%  Similarity=0.425  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHhhCCCCCh
Q 003457          252 ILGTALVHMYTKNGALAKAKALFDSMPERNI  282 (818)
Q Consensus       252 ~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~  282 (818)
                      .+...|+..|...+++.+|.+++-.+.++++
T Consensus       506 ~L~e~La~LYl~d~~Y~~Al~~ylklk~~~v  536 (846)
T KOG2066|consen  506 ALLEVLAHLYLYDNKYEKALPIYLKLQDKDV  536 (846)
T ss_pred             hHHHHHHHHHHHccChHHHHHHHHhccChHH
Confidence            3444588999999999999999988887543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=92.63  E-value=0.91  Score=46.44  Aligned_cols=102  Identities=11%  Similarity=0.148  Sum_probs=75.8

Q ss_pred             CHHHHHHHHhhcC--CCCHHHHHHHHHHHHhC-----CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC-------
Q 003457           64 DLSYATRLFNSIQ--SPNHFMWNTLIRAQASS-----LNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVR-------  129 (818)
Q Consensus        64 ~~e~A~~lf~~~~--~p~~~~yn~Li~~~~~~-----g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g-------  129 (818)
                      .+-..+..|+.+.  ++|..+|-..+..+.+.     +..+-....++.|++.|+.-|..+|+.|++.+-+..       
T Consensus        49 ~Lv~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvf  128 (406)
T KOG3941|consen   49 SLVHVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVF  128 (406)
T ss_pred             cccchhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHH
Confidence            3344566677776  68888998888887654     556666777899999999999999999999875432       


Q ss_pred             ---------ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Q 003457          130 ---------SLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSD  165 (818)
Q Consensus       130 ---------~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~  165 (818)
                               +-+-+..++++|..+|+.||..+-..|++++.+.+-
T Consensus       129 Q~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  129 QKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                     223466777788888888888777777777766553

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.37  E-value=5.8  Score=39.78  Aligned_cols=52  Identities=6%  Similarity=-0.093  Sum_probs=28.4

Q ss_pred             CCHHHHHHHHHHcC-----CCCCH---HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 003457          367 GKVLEAEELIKRMV-----WKPDV---VMWGALLAACKNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       367 g~~~~A~~~~~~m~-----~~pd~---~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                      .++++|+..|+...     ...+.   ..+..+..--...+++.+|+.+|++.....-++
T Consensus       128 ~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n  187 (288)
T KOG1586|consen  128 QDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDN  187 (288)
T ss_pred             HHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            45566666665552     11122   222233333356778888888888877655444

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=92.31  E-value=5.7  Score=36.90  Aligned_cols=124  Identities=14%  Similarity=0.055  Sum_probs=65.3

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 003457          286 NAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR  365 (818)
Q Consensus       286 ~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~  365 (818)
                      ..++..+.+.+.......+++.+...+. .+...++.++..|++.+ .++....++.       ..+.......++.|.+
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~-------~~~~yd~~~~~~~c~~   81 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN-------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh-------ccccCCHHHHHHHHHH
Confidence            3455566666667777777777666553 45556666666666543 2233333331       1122223345566666


Q ss_pred             cCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 003457          366 CGKVLEAEELIKRMVWKPDVVMWGALLAACKNH-GNIEVAERVVKEIIALEPNNHGVYVVLSNMY  429 (818)
Q Consensus       366 ~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~-g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l  429 (818)
                      .+.++++..++.+++..      ...+..+.+. ++.+.|++++++     +.+++.|..++..+
T Consensus        82 ~~l~~~~~~l~~k~~~~------~~Al~~~l~~~~d~~~a~~~~~~-----~~~~~lw~~~~~~~  135 (140)
T smart00299       82 AKLYEEAVELYKKDGNF------KDAIVTLIEHLGNYEKAIEYFVK-----QNNPELWAEVLKAL  135 (140)
T ss_pred             cCcHHHHHHHHHhhcCH------HHHHHHHHHcccCHHHHHHHHHh-----CCCHHHHHHHHHHH
Confidence            67777777777766421      1122222333 667777776664     22344555555444

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=92.24  E-value=7.8  Score=35.97  Aligned_cols=43  Identities=19%  Similarity=0.093  Sum_probs=24.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhC
Q 003457          221 SVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKN  264 (818)
Q Consensus       221 ~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~  264 (818)
                      .++..+.+.+.......+++.+.+.+ ..+...++.++..|++.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            34444555555666666666666554 34555666666666554

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=92.17  E-value=0.4  Score=50.09  Aligned_cols=78  Identities=17%  Similarity=0.012  Sum_probs=43.7

Q ss_pred             HHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          363 LGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       363 ~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      |.++|.+++|+..|.+. ...| |.+++..-..+|.+.+++..|+.-...++.++-....+|..-+.+-...|+.+||.+
T Consensus       107 yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~EAKk  186 (536)
T KOG4648|consen  107 YFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNNMEAKK  186 (536)
T ss_pred             hhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            55566666666655543 2334 555555555555665555555555555555555555555555555555555555555

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=91.83  E-value=0.55  Score=45.14  Aligned_cols=35  Identities=29%  Similarity=0.367  Sum_probs=28.4

Q ss_pred             CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          400 NIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       400 ~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      .+++|+.-|++++.++|+..+++.+++.+|...+.
T Consensus        50 miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~   84 (186)
T PF06552_consen   50 MIEDAISKFEEALKINPNKHDALWCLGNAYTSLAF   84 (186)
T ss_dssp             HHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHh
Confidence            35777788888999999999999999999998775

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=91.64  E-value=20  Score=37.80  Aligned_cols=19  Identities=11%  Similarity=-0.071  Sum_probs=13.1

Q ss_pred             HHHHcCCHHHHHHHHHHHH
Q 003457          394 ACKNHGNIEVAERVVKEII  412 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~  412 (818)
                      .+.+.+++++|.++|+-.+
T Consensus       255 ~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  255 KHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHhhcCHHHHHHHHHHHH
Confidence            4556777888888777544

It is also involved in sporulation [].

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.40  E-value=0.22  Score=33.42  Aligned_cols=27  Identities=11%  Similarity=0.192  Sum_probs=22.7

Q ss_pred             chHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          420 GVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       420 ~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      +.+..++.++.+.|++++|++.++..+
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            578899999999999999999776664

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=91.23  E-value=8  Score=35.29  Aligned_cols=134  Identities=16%  Similarity=0.203  Sum_probs=79.1

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHH
Q 003457          293 ASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEA  372 (818)
Q Consensus       293 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A  372 (818)
                      .-.|..++..++..+....   .+..-+|.++--....-+-+...+.++.+-+.+.+              ..+|+....
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDi--------------s~C~NlKrV   75 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDI--------------SKCGNLKRV   75 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-G--------------GG-S-THHH
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------hhhcchHHH
Confidence            3457777888888777764   25566676665555555555555555554333211              234444444


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          373 EELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       373 ~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ...+-.+.  .+.......++.+..+|+-+.-.++++...+-+-.+++.+.-++.+|.+.|+..+|.++++..
T Consensus        76 i~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~A  146 (161)
T PF09205_consen   76 IECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEA  146 (161)
T ss_dssp             HHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            44444442  345556667778889999999888888887544445889999999999999999999977655

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=91.11  E-value=0.4  Score=32.23  Aligned_cols=32  Identities=19%  Similarity=0.241  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      .+|..+...|...|++++|.+.|+++++++|+
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            35677888888999999999999999998885

...

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=90.72  E-value=4.1  Score=37.30  Aligned_cols=50  Identities=6%  Similarity=0.093  Sum_probs=30.6

Q ss_pred             CCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHH
Q 003457          111 FAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKS-GLDLDLHVVNCLVRCY  160 (818)
Q Consensus       111 ~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~Li~~y  160 (818)
                      ..|+..+..+++.+|+..+++..|.++.+.+.+. +++.+..+|..|++-.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            4566666666666666666666666666665543 4454555666666543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.55  E-value=20  Score=35.74  Aligned_cols=171  Identities=11%  Similarity=-0.003  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHH-HHHHHHH--HHHHcCChHHHHHHHHHHH
Q 003457          132 NCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLN-VWTTMIS--GYAQSFRANEALMLFDQML  208 (818)
Q Consensus       132 ~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~-~~~~Li~--~~~~~g~~~~A~~l~~~m~  208 (818)
                      ..|+--|.+.+...++ -+.+||-|.-.+...|+++.|.+.|+...+-|+. -|..+-+  ++.--|++..|.+-|.+.-
T Consensus        82 ~LAR~DftQaLai~P~-m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fY  160 (297)
T COG4785          82 ALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFY  160 (297)
T ss_pred             HHHhhhhhhhhhcCCC-cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHHH
Confidence            3333334444443222 3467787777788888888888888888776554 2222222  2334578888877777665


Q ss_pred             HcCCCCCH--HHHHHHHHHHHhcCChhHHHH-HHHHHHHcCCCCcHHHH-HHHHHHHHhCCCHHHHHHHHhhCCCC----
Q 003457          209 MEGFEPNS--VTLASVLSACAQSGCLELGEK-VHVFVKMRGFEMGAILG-TALVHMYTKNGALAKAKALFDSMPER----  280 (818)
Q Consensus       209 ~~g~~pd~--~t~~~ll~~~~~~g~~~~A~~-i~~~~~~~g~~~~~~~~-~~Li~~~~~~g~~~~A~~~f~~m~~~----  280 (818)
                      +.. +-|+  ..|..+..   +.-+..+|.. +.++..+.    +..-| ..++..|.-.=..+.+.+-...-.+.    
T Consensus       161 Q~D-~~DPfR~LWLYl~E---~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~yLgkiS~e~l~~~~~a~a~~n~~~  232 (297)
T COG4785         161 QDD-PNDPFRSLWLYLNE---QKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFYLGKISEETLMERLKADATDNTSL  232 (297)
T ss_pred             hcC-CCChHHHHHHHHHH---hhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHHHhhccHHHHHHHHHhhccchHHH
Confidence            543 2222  22222221   2234444443 22333322    21111 22333333222222222221111111    


Q ss_pred             ---ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 003457          281 ---NIATWNAMISGLASHGHAEEALDLFRKLEKE  311 (818)
Q Consensus       281 ---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~  311 (818)
                         -..+|.-|...|...|+.++|..+|+-.+..
T Consensus       233 Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         233 AEHLTETYFYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence               2346777777777777777777777766654

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.33  E-value=37  Score=39.75  Aligned_cols=268  Identities=12%  Similarity=0.025  Sum_probs=146.8

Q ss_pred             hHHHHHHHHHhhcC-CHHHHHHHHHH-----HHHcCChHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHHHhcC--
Q 003457          166 LNNARQVFDEIRNR-TLNVWTTMISG-----YAQSFRANEALMLFDQMLM-------EGFEPNSVTLASVLSACAQSG--  230 (818)
Q Consensus       166 ~~~A~~l~~~m~~~-d~~~~~~Li~~-----~~~~g~~~~A~~l~~~m~~-------~g~~pd~~t~~~ll~~~~~~g--  230 (818)
                      ...|.+.++...+. +...-..+...     +....+.+.|+.+|+.+.+       .+   +.....-+..+|.+..  
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~  304 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGV  304 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCC
Confidence            45677777776654 34333333322     3345678888888888766       44   2224455566665532  


Q ss_pred             ---ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhC---CCHHHHHHHHhhCCCC-ChhhHHHHHHHHH----HcCCHH
Q 003457          231 ---CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKN---GALAKAKALFDSMPER-NIATWNAMISGLA----SHGHAE  299 (818)
Q Consensus       231 ---~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~---g~~~~A~~~f~~m~~~-d~~~~~~Li~~~~----~~g~~~  299 (818)
                         +.+.|..++....+.| .|+....  |..+|...   .+...|.++|...-+. .+.++-.+..+|.    -..+.+
T Consensus       305 ~~~d~~~A~~~~~~aA~~g-~~~a~~~--lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~  381 (552)
T KOG1550|consen  305 EKIDYEKALKLYTKAAELG-NPDAQYL--LGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLE  381 (552)
T ss_pred             ccccHHHHHHHHHHHHhcC-CchHHHH--HHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHH
Confidence               5567888888888776 3443333  33333322   3567888888777652 3333333333332    234678


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH---HHH----cCCHHHH
Q 003457          300 EALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDL---LGR----CGKVLEA  372 (818)
Q Consensus       300 ~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~---~~~----~g~~~~A  372 (818)
                      .|..++++.-+.| .|-.......+..+.. ++.+.+...+..+.+. +.+.-...-..+...   ...    ..+.+.+
T Consensus       382 ~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~-g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~  458 (552)
T KOG1550|consen  382 LAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAEL-GYEVAQSNAAYLLDQSEEDLFSRGVISTLERA  458 (552)
T ss_pred             HHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHh-hhhHHhhHHHHHHHhccccccccccccchhHH
Confidence            8888888888876 3332222223333333 6666666555555443 222111111111111   111    2256667


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHc----CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHh-h--chHHHHHHHHHH
Q 003457          373 EELIKRMVWKPDVVMWGALLAACKNH----GNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEA-E--SMKMQLEILLVQ  445 (818)
Q Consensus       373 ~~~~~~m~~~pd~~~~~~Li~a~~~~----g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~-G--~~~eA~~l~~~~  445 (818)
                      ...+.+...+-+......|.+.|..-    .+.+.|...|.++....   ......++.++... |  ++..|.++++..
T Consensus       459 ~~~~~~a~~~g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~~~~a~~~~~~~  535 (552)
T KOG1550|consen  459 FSLYSRAAAQGNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG---AQALFNLGYMHEHGEGIKVLHLAKRYYDQA  535 (552)
T ss_pred             HHHHHHHHhccCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh---hHHHhhhhhHHhcCcCcchhHHHHHHHHHH
Confidence            77777775555666666666655432    35788888887777665   56667777766532 1  156676665554

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=90.19  E-value=27  Score=36.80  Aligned_cols=62  Identities=19%  Similarity=0.075  Sum_probs=31.6

Q ss_pred             hHHHHHHHHHHcCCHH---HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Q 003457          284 TWNAMISGLASHGHAE---EALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRV  346 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~---~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~  346 (818)
                      +...++.+|...+..+   +|..+++.+...... ....+..-+..+.+.++.+++.+.+.+|+..
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            4445555555554433   344455555433211 1233334455555566666677777766664

It is also involved in sporulation [].

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=90.16  E-value=15  Score=33.66  Aligned_cols=60  Identities=10%  Similarity=0.108  Sum_probs=33.4

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCC
Q 003457          187 MISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGF  247 (818)
Q Consensus       187 Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~  247 (818)
                      -+.....+|+-|+-.++++.+.+.+ .+++....-+..+|.+.|+..++..++.++-+.|+
T Consensus        92 ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   92 ALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            3445556666666666666665432 55666666666777777777777777766666653

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=90.10  E-value=2.1  Score=43.86  Aligned_cols=98  Identities=11%  Similarity=0.126  Sum_probs=68.6

Q ss_pred             HHHHHHHhh--cCCHHHHHHHHHHHHHc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-----------
Q 003457          169 ARQVFDEIR--NRTLNVWTTMISGYAQS-----FRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSG-----------  230 (818)
Q Consensus       169 A~~l~~~m~--~~d~~~~~~Li~~~~~~-----g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g-----------  230 (818)
                      .++.|....  ++|-.+|-+.+..+...     +..+-....++.|.+-|+.-|..+|..|++.+-+..           
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            345555555  55666777777666543     445556667778888888888888888887654322           


Q ss_pred             -----ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCC
Q 003457          231 -----CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGA  266 (818)
Q Consensus       231 -----~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~  266 (818)
                           +-+-+.+++++|...|+.||..+-..|++++.+.+-
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                 345677888888888888888888888888876664

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.78  E-value=0.28  Score=33.07  Aligned_cols=27  Identities=22%  Similarity=0.257  Sum_probs=22.9

Q ss_pred             chHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          420 GVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       420 ~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      ..|..++.+|...|++++|++.++..+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al   28 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRAL   28 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHH
Confidence            578999999999999999999777664

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=89.76  E-value=47  Score=38.90  Aligned_cols=272  Identities=14%  Similarity=0.088  Sum_probs=164.5

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHH-----HHhCCChHHHHHHHHHhhc-------C-CHHHHHHHHHHHHHcC--
Q 003457          131 LNCCKQIHTHVSKSGLDLDLHVVNCLVRC-----YSVSSDLNNARQVFDEIRN-------R-TLNVWTTMISGYAQSF--  195 (818)
Q Consensus       131 ~~~A~~~~~~m~~~g~~p~~~~~~~Li~~-----y~~~g~~~~A~~l~~~m~~-------~-d~~~~~~Li~~~~~~g--  195 (818)
                      ...+.++++...+.|   +......+..+     +....|.+.|..+|+...+       . ...+.+-+..+|.+..  
T Consensus       228 ~~~a~~~~~~~a~~g---~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~~~~a~~~lg~~Y~~g~~~  304 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKGLPPAQYGLGRLYLQGLGV  304 (552)
T ss_pred             hhHHHHHHHHHHhhc---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhcCCccccHHHHHHhcCCCC
Confidence            567888888888876   33332233322     4456789999999988865       2 3445667788887743  


Q ss_pred             ---ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-cCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh----CCCH
Q 003457          196 ---RANEALMLFDQMLMEGFEPNSVTLASVLSACAQ-SGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTK----NGAL  267 (818)
Q Consensus       196 ---~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~-~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~----~g~~  267 (818)
                         +.+.|+.++.+.-+.| .|+...+...+..... ..+...|.++|..+.+.|..   ..+-.+..+|..    ..+.
T Consensus       305 ~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~---~A~~~la~~y~~G~gv~r~~  380 (552)
T KOG1550|consen  305 EKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI---LAIYRLALCYELGLGVERNL  380 (552)
T ss_pred             ccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCcCCCH
Confidence               6788999999998887 5566554433332222 24678999999999998842   222233333332    3478


Q ss_pred             HHHHHHHhhCCCCCh-hhHHHHHH--HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH-HHHHH---HH----cCCHHHH
Q 003457          268 AKAKALFDSMPERNI-ATWNAMIS--GLASHGHAEEALDLFRKLEKEQIVPNDITFVG-VLSAC---CH----AGFIDVG  336 (818)
Q Consensus       268 ~~A~~~f~~m~~~d~-~~~~~Li~--~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~-ll~a~---~~----~g~~~~A  336 (818)
                      ..|..++++.-+.+. .+...+..  .+.. ++++.+...+..+.+.|.. ...+-.. ++...   ..    ..+.+.+
T Consensus       381 ~~A~~~~k~aA~~g~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~-~~q~~a~~l~~~~~~~~~~~~~~~~~~~~  458 (552)
T KOG1550|consen  381 ELAFAYYKKAAEKGNPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYE-VAQSNAAYLLDQSEEDLFSRGVISTLERA  458 (552)
T ss_pred             HHHHHHHHHHHHccChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhh-HHhhHHHHHHHhccccccccccccchhHH
Confidence            899999988877552 32333322  2223 7777777777777766544 2211111 11111   11    1245555


Q ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHHc----CCHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHH
Q 003457          337 RQIFGSMKRVYGIEPKIEHYGCMVDLLGRC----GKVLEAEELIKRMVWKPDVVMWGALLAACKN----HGNIEVAERVV  408 (818)
Q Consensus       337 ~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~----g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~----~g~~~~A~~~~  408 (818)
                      ...+.+...    .-+......|.+.|..-    .+++.|...+.....+. ....-.+...+.+    .. +..|.+++
T Consensus       459 ~~~~~~a~~----~g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~-~~~~~nlg~~~e~g~g~~~-~~~a~~~~  532 (552)
T KOG1550|consen  459 FSLYSRAAA----QGNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG-AQALFNLGYMHEHGEGIKV-LHLAKRYY  532 (552)
T ss_pred             HHHHHHHHh----ccCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh-hHHHhhhhhHHhcCcCcch-hHHHHHHH
Confidence            556655443    35566666666666443    35888888888885555 5444445443322    23 68888888


Q ss_pred             HHHHhcCCC
Q 003457          409 KEIIALEPN  417 (818)
Q Consensus       409 ~~~~~~~P~  417 (818)
                      +++.+.+.+
T Consensus       533 ~~~~~~~~~  541 (552)
T KOG1550|consen  533 DQASEEDSR  541 (552)
T ss_pred             HHHHhcCch
Confidence            888776655

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=89.68  E-value=28  Score=37.73  Aligned_cols=55  Identities=9%  Similarity=-0.061  Sum_probs=33.1

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003457          187 MISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMR  245 (818)
Q Consensus       187 Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~  245 (818)
                      ...+..+.|+|+...+........  .++...+..+...  +.++.+++..+.+.+...
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~   58 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQL   58 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHH
Confidence            356677888888855555444322  2334444433332  778888888888777654

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.65  E-value=18  Score=35.55  Aligned_cols=115  Identities=7%  Similarity=-0.066  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHH--HHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHH
Q 003457          300 EALDLFRKLEKEQIVPNDITFV--GVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAE  373 (818)
Q Consensus       300 ~A~~l~~~m~~~g~~pd~~t~~--~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~  373 (818)
                      +.....+++.....+-....+.  .+...+...+++++|+..++.....   +.|    ...--.|.+.....|.+++|+
T Consensus        70 ~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL  146 (207)
T COG2976          70 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAAL  146 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            4455555555542221222222  2345677788999999888876632   222    223345677788999999999


Q ss_pred             HHHHHcCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          374 ELIKRMVWK-PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       374 ~~~~~m~~~-pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      ..++....+ -.......-.+.+...|+.++|+..|+++++..++
T Consensus       147 ~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         147 KTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESDAS  191 (207)
T ss_pred             HHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCC
Confidence            999887522 12334455567899999999999999999998755

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=89.62  E-value=4.6  Score=41.17  Aligned_cols=180  Identities=9%  Similarity=0.083  Sum_probs=103.7

Q ss_pred             CHHHHHHHHhhCCC-------CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc---CC--CCCHHHHHHHHHHHHHcCCH
Q 003457          266 ALAKAKALFDSMPE-------RNIATWNAMISGLASHGHAEEALDLFRKLEKE---QI--VPNDITFVGVLSACCHAGFI  333 (818)
Q Consensus       266 ~~~~A~~~f~~m~~-------~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~---g~--~pd~~t~~~ll~a~~~~g~~  333 (818)
                      +.++|+.-|++..+       -...+.-.++..+.+.+++++.++.|++|+..   .+  .-...+.+.++.......+.
T Consensus        42 ~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m  121 (440)
T KOG1464|consen   42 EPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNM  121 (440)
T ss_pred             CHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhh
Confidence            45555555554442       12234455667777777777777777776521   11  12345566666666555555


Q ss_pred             HHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHcC-----------CCC---CHHHHHHHHHHH
Q 003457          334 DVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAEELIKRMV-----------WKP---DVVMWGALLAAC  395 (818)
Q Consensus       334 ~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m~-----------~~p---d~~~~~~Li~a~  395 (818)
                      +.-..+|+..........|    ..+-.-|...|...+++.+..++++++.           .+.   -...|..-+..|
T Consensus       122 ~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmY  201 (440)
T KOG1464|consen  122 DLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMY  201 (440)
T ss_pred             HHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhh
Confidence            5555555443322111112    2233456677777777777777777662           001   134566667778


Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCC--cchH----HHHHHHHHHhhchHHHHH-HHHHH
Q 003457          396 KNHGNIEVAERVVKEIIALEPNN--HGVY----VVLSNMYAEAESMKMQLE-ILLVQ  445 (818)
Q Consensus       396 ~~~g~~~~A~~~~~~~~~~~P~~--~~~y----~~L~~~l~~~G~~~eA~~-l~~~~  445 (818)
                      ...++-.+-..+|++++.+...-  |...    .|=+.+..+.|+|++|.. +|+..
T Consensus       202 T~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTDFFEAF  258 (440)
T KOG1464|consen  202 TEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEAF  258 (440)
T ss_pred             hhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhHHHHHH
Confidence            88888888888888887765332  2222    233455678888888887 66554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=89.15  E-value=0.65  Score=31.95  Aligned_cols=27  Identities=19%  Similarity=0.202  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 003457          387 MWGALLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       387 ~~~~Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                      +|..|...|.+.|++++|+++|++++.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            356677777777777777777777544

>PRK09687 putative lyase; Provisional

Probab=88.97  E-value=34  Score=36.16  Aligned_cols=126  Identities=15%  Similarity=0.018  Sum_probs=67.4

Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHhCCCCCHHHHHH
Q 003457          280 RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAG-FIDVGRQIFGSMKRVYGIEPKIEHYGC  358 (818)
Q Consensus       280 ~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g-~~~~A~~~~~~m~~~~g~~p~~~~~~~  358 (818)
                      ++...-...+.++.+.++ ++++..+-.+.+.   +|...-...+.++.+.+ +...+...+..+..    .++..+...
T Consensus       140 ~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~----D~~~~VR~~  211 (280)
T PRK09687        140 KSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ----DKNEEIRIE  211 (280)
T ss_pred             CCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc----CCChHHHHH
Confidence            444444555555555554 3455655555542   34334344444444432 13345555554442    355566666


Q ss_pred             HHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          359 MVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       359 Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      -+.++.+.|+ .+|+..+-+....++  .....+.++...|.. +|+..+.++.+..||
T Consensus       212 A~~aLg~~~~-~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~~~d  266 (280)
T PRK09687        212 AIIGLALRKD-KRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYKFDD  266 (280)
T ss_pred             HHHHHHccCC-hhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhhCCC
Confidence            6677777776 345544444422333  233456666777764 677777777776664

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=88.72  E-value=12  Score=35.68  Aligned_cols=86  Identities=17%  Similarity=0.184  Sum_probs=45.8

Q ss_pred             HHHcCCHHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHcCCHH
Q 003457          327 CCHAGFIDVGRQIFGSMKRVYGIEPK---IEHYGCMVDLLGRCGKVLEAEELIKRMVW-KPDVVMWGALLAACKNHGNIE  402 (818)
Q Consensus       327 ~~~~g~~~~A~~~~~~m~~~~g~~p~---~~~~~~Li~~~~~~g~~~~A~~~~~~m~~-~pd~~~~~~Li~a~~~~g~~~  402 (818)
                      -.+.++.+.+..++..+..   +.|.   ..++..  ..+.+.|++.+|+.+|+++.. .|....-..|+..|....+-.
T Consensus        20 al~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~--~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~   94 (160)
T PF09613_consen   20 ALRLGDPDDAEALLDALRV---LRPEFPELDLFDG--WLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDP   94 (160)
T ss_pred             HHccCChHHHHHHHHHHHH---hCCCchHHHHHHH--HHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCCh
Confidence            3445677777777777654   3443   223333  336677777777777777742 244444445554444433333


Q ss_pred             HHHHHHHHHHhcCCC
Q 003457          403 VAERVVKEIIALEPN  417 (818)
Q Consensus       403 ~A~~~~~~~~~~~P~  417 (818)
                      .=..+-+++++..++
T Consensus        95 ~Wr~~A~evle~~~d  109 (160)
T PF09613_consen   95 SWRRYADEVLESGAD  109 (160)
T ss_pred             HHHHHHHHHHhcCCC
Confidence            333334555555544

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=88.46  E-value=65  Score=38.81  Aligned_cols=215  Identities=11%  Similarity=0.008  Sum_probs=105.7

Q ss_pred             HHccCChHHHHHHHHHHHHcCCCCCHH-------HHHHHHH-HHHhCCChHHHHHHHHHhhc--------CCHHHHHHHH
Q 003457          125 CSNVRSLNCCKQIHTHVSKSGLDLDLH-------VVNCLVR-CYSVSSDLNNARQVFDEIRN--------RTLNVWTTMI  188 (818)
Q Consensus       125 ~~~~g~~~~A~~~~~~m~~~g~~p~~~-------~~~~Li~-~y~~~g~~~~A~~l~~~m~~--------~d~~~~~~Li  188 (818)
                      .....++.+|..+..++...-..|+..       .++.|-. .....|++++|+++-+....        ..+..+..+.
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            345677888888888776542222211       2232222 22346778888777766543        2445677777


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH-----HHHHhcCChh--HHHHHHHHHHHc---CCC---CcHHHHH
Q 003457          189 SGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVL-----SACAQSGCLE--LGEKVHVFVKMR---GFE---MGAILGT  255 (818)
Q Consensus       189 ~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll-----~~~~~~g~~~--~A~~i~~~~~~~---g~~---~~~~~~~  255 (818)
                      .+..-.|++++|..+.++..+..-.-+...+....     ..+...|+..  +....+......   ..+   +-..++.
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            78888888888888877765542223333332222     2344555322  222222222211   001   1123334


Q ss_pred             HHHHHHHhCCCHHHHHHHHhhCCC------CC--hh--hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC----CCHHHHH
Q 003457          256 ALVHMYTKNGALAKAKALFDSMPE------RN--IA--TWNAMISGLASHGHAEEALDLFRKLEKEQIV----PNDITFV  321 (818)
Q Consensus       256 ~Li~~~~~~g~~~~A~~~f~~m~~------~d--~~--~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~----pd~~t~~  321 (818)
                      .+..++.+   ++.+..-...-.+      +.  ..  .+..|+..+...|+.++|...+.++......    ++..+-.
T Consensus       585 ~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~  661 (894)
T COG2909         585 QLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAA  661 (894)
T ss_pred             HHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHH
Confidence            44444444   3333322222211      11  11  2235667777788888888888777653222    2222222


Q ss_pred             HHHH--HHHHcCCHHHHHHHHHH
Q 003457          322 GVLS--ACCHAGFIDVGRQIFGS  342 (818)
Q Consensus       322 ~ll~--a~~~~g~~~~A~~~~~~  342 (818)
                      ..+.  .....|+.+.+.....+
T Consensus       662 ~~v~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         662 YKVKLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HHhhHHHhcccCCHHHHHHHHHh
Confidence            2222  22345666666555444

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.39  E-value=4.6  Score=45.75  Aligned_cols=104  Identities=17%  Similarity=0.035  Sum_probs=66.7

Q ss_pred             HHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 003457          159 CYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKV  238 (818)
Q Consensus       159 ~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i  238 (818)
                      ...+.|+++.|.++..+.  .+..-|..|..+....+++..|.+.|.+...         |..|+-.+...|+-+....+
T Consensus       646 lal~lgrl~iA~~la~e~--~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~l  714 (794)
T KOG0276|consen  646 LALKLGRLDIAFDLAVEA--NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVL  714 (794)
T ss_pred             hhhhcCcHHHHHHHHHhh--cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHH
Confidence            345677777777765443  3455677788888888888888877776543         44556666666776666666


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC
Q 003457          239 HVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE  279 (818)
Q Consensus       239 ~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~  279 (818)
                      -....+.|. .+     .-..+|...|+++++.+++.+-.+
T Consensus       715 a~~~~~~g~-~N-----~AF~~~~l~g~~~~C~~lLi~t~r  749 (794)
T KOG0276|consen  715 ASLAKKQGK-NN-----LAFLAYFLSGDYEECLELLISTQR  749 (794)
T ss_pred             HHHHHhhcc-cc-----hHHHHHHHcCCHHHHHHHHHhcCc
Confidence            666666652 22     223456677888888888766543

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=88.23  E-value=23  Score=34.11  Aligned_cols=134  Identities=16%  Similarity=0.067  Sum_probs=78.6

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHhCCChHHHHHHHHHhhcC
Q 003457          101 FLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVN-CLVRCYSVSSDLNNARQVFDEIRNR  179 (818)
Q Consensus       101 ~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~-~Li~~y~~~g~~~~A~~l~~~m~~~  179 (818)
                      +.++.+.+.++.|+...+..+++.+.+.|++....++    +..++-+|..... .|++.-   +....+.++=-.|.++
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~ql----lq~~Vi~DSk~lA~~LLs~~---~~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQL----LQYHVIPDSKPLACQLLSLG---NQYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH----HhhcccCCcHHHHHHHHHhH---ccChHHHHHHHHHHHH
Confidence            4555666778888888999999999988887655443    4445544544333 232221   2223333333333333


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003457          180 TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMR  245 (818)
Q Consensus       180 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~  245 (818)
                      =...+..++..+...|++-+|+++.++....    +......++.+..+.+|...-..+++...+.
T Consensus        88 L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   88 LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            2335667778888889998888888775322    1122234555656666655555555555543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=87.64  E-value=42  Score=35.72  Aligned_cols=49  Identities=12%  Similarity=0.232  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh--c----CChhHHHHHHHHHHHcC
Q 003457          198 NEALMLFDQMLMEGFEPNSVTLASVLSACAQ--S----GCLELGEKVHVFVKMRG  246 (818)
Q Consensus       198 ~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~--~----g~~~~A~~i~~~~~~~g  246 (818)
                      ++.+.+++.|.+.|+.-+..+|.........  .    ....++..+|+.|.+..
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H  133 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKH  133 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhC
Confidence            4556677778888877777666553333322  1    12456677777777663

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=87.28  E-value=2.8  Score=42.16  Aligned_cols=53  Identities=11%  Similarity=-0.035  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          388 WGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       388 ~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      +.++-.++...|++-++++.-.+.+...|++..+|+.-+.+....=+.+||.+
T Consensus       233 llNy~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~  285 (329)
T KOG0545|consen  233 LLNYCQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKA  285 (329)
T ss_pred             HHhHHHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHH
Confidence            33444455667777777777777777788877777777777776666677766

>PRK09687 putative lyase; Provisional

Probab=87.18  E-value=43  Score=35.34  Aligned_cols=231  Identities=9%  Similarity=0.002  Sum_probs=119.7

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCCh----HHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003457          149 DLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRA----NEALMLFDQMLMEGFEPNSVTLASVLS  224 (818)
Q Consensus       149 ~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~----~~A~~l~~~m~~~g~~pd~~t~~~ll~  224 (818)
                      |..+....+..+...|..+-...+..-+...|...-..-+.++.+.|+.    +++...+..+...  .++...-...+.
T Consensus        36 d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~~  113 (280)
T PRK09687         36 NSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAIN  113 (280)
T ss_pred             CHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHHH
Confidence            4444445555555555433333333333344555555555556666553    3566666665333  445555555555


Q ss_pred             HHHhcCCh-----hHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcC-CH
Q 003457          225 ACAQSGCL-----ELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHG-HA  298 (818)
Q Consensus       225 ~~~~~g~~-----~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g-~~  298 (818)
                      ++...+..     ..+...+..+.   ..++..+....+.++.+.++-+....+...+..+|...-..-+.++.+.+ +.
T Consensus       114 aLG~~~~~~~~~~~~a~~~l~~~~---~D~~~~VR~~a~~aLg~~~~~~ai~~L~~~L~d~~~~VR~~A~~aLg~~~~~~  190 (280)
T PRK09687        114 ATGHRCKKNPLYSPKIVEQSQITA---FDKSTNVRFAVAFALSVINDEAAIPLLINLLKDPNGDVRNWAAFALNSNKYDN  190 (280)
T ss_pred             HHhcccccccccchHHHHHHHHHh---hCCCHHHHHHHHHHHhccCCHHHHHHHHHHhcCCCHHHHHHHHHHHhcCCCCC
Confidence            55444321     12222222222   23455666666777777776443333344444455555444555555442 24


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 003457          299 EEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKR  378 (818)
Q Consensus       299 ~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~  378 (818)
                      .++...+..+..   .++...-...+.++.+.++. .+...+-...+.    ++  .....+.++.+.|.. +|+..+.+
T Consensus       191 ~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~----~~--~~~~a~~ALg~ig~~-~a~p~L~~  259 (280)
T PRK09687        191 PDIREAFVAMLQ---DKNEEIRIEAIIGLALRKDK-RVLSVLIKELKK----GT--VGDLIIEAAGELGDK-TLLPVLDT  259 (280)
T ss_pred             HHHHHHHHHHhc---CCChHHHHHHHHHHHccCCh-hHHHHHHHHHcC----Cc--hHHHHHHHHHhcCCH-hHHHHHHH
Confidence            456666666654   34556666667777777764 444444444432    22  234567777777774 57777777


Q ss_pred             cC-CCCCHHHHHHHHHHH
Q 003457          379 MV-WKPDVVMWGALLAAC  395 (818)
Q Consensus       379 m~-~~pd~~~~~~Li~a~  395 (818)
                      +. ..||...-...+.+|
T Consensus       260 l~~~~~d~~v~~~a~~a~  277 (280)
T PRK09687        260 LLYKFDDNEIITKAIDKL  277 (280)
T ss_pred             HHhhCCChhHHHHHHHHH
Confidence            63 356666555555544

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=87.18  E-value=4.2  Score=38.61  Aligned_cols=70  Identities=17%  Similarity=0.152  Sum_probs=32.7

Q ss_pred             HcCCHHHHHHHHHHcC-CCCCHHHHHHH-HHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          365 RCGKVLEAEELIKRMV-WKPDVVMWGAL-LAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       365 ~~g~~~~A~~~~~~m~-~~pd~~~~~~L-i~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      +.++.+++..+++.+. .+|.......+ ...+.+.|++.+|+++|+++.+..|..+.+-..++.++...|+
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGD   93 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCC
Confidence            4455555555555552 33332211111 1123455555666555555555555544444444444444443

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=86.48  E-value=16  Score=35.67  Aligned_cols=94  Identities=14%  Similarity=0.106  Sum_probs=44.1

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC------HHH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQIVPND--ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK------IEH  355 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~--~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~------~~~  355 (818)
                      .+..+...|.+.|+.++|++.|.++.+....+..  ..+..+++.+...+++..+.....++........|      ..+
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            3444555555555555555555555554333222  22334445555555555555555554432111111      112


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHc
Q 003457          356 YGCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       356 ~~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                      |..|.  +...+++.+|-+.|-..
T Consensus       118 ~~gL~--~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  118 YEGLA--NLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHH--HHHhchHHHHHHHHHcc
Confidence            22222  33466777776666555

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=86.36  E-value=79  Score=37.55  Aligned_cols=121  Identities=12%  Similarity=0.022  Sum_probs=62.8

Q ss_pred             HHcCCHHHHHHHHHHHHHcCC-CCC-------HHHHHHHHHHHHHcCCHHHHHHHHH-------HHHHHhCCCCCHHHHH
Q 003457          293 ASHGHAEEALDLFRKLEKEQI-VPN-------DITFVGVLSACCHAGFIDVGRQIFG-------SMKRVYGIEPKIEHYG  357 (818)
Q Consensus       293 ~~~g~~~~A~~l~~~m~~~g~-~pd-------~~t~~~ll~a~~~~g~~~~A~~~~~-------~m~~~~g~~p~~~~~~  357 (818)
                      +-.+++.+|...+++|.+... .|+       ...+....-.+...|+++.|+..|.       ......+...+..++.
T Consensus       372 ~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~~~~~~~~~~~~~~~~~El~ila  451 (608)
T PF10345_consen  372 FIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQKPRFLLCEAANRKSKFRELYILA  451 (608)
T ss_pred             HHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhhhHHhhhhhhccCCcchHHHHHH
Confidence            457899999999999876321 111       2222223334556799999999998       2222213333433333


Q ss_pred             H--HHHHHHH--cCCHHH--HHHHHHHcC----CCC--CHHHHHHHH-HHHHHc--CCHHHHHHHHHHHHh
Q 003457          358 C--MVDLLGR--CGKVLE--AEELIKRMV----WKP--DVVMWGALL-AACKNH--GNIEVAERVVKEIIA  413 (818)
Q Consensus       358 ~--Li~~~~~--~g~~~~--A~~~~~~m~----~~p--d~~~~~~Li-~a~~~~--g~~~~A~~~~~~~~~  413 (818)
                      .  ++-.+..  .....+  +.++++.+.    ..|  +..++..++ .++...  -...++...+.+.++
T Consensus       452 ~LNl~~I~~~~~~~~~~~~~~~~l~~~i~p~~~~~~~~~~~~a~~~~~~~~~~~~~~~~ne~k~~l~~~L~  522 (608)
T PF10345_consen  452 ALNLAIILQYESSRDDSESELNELLEQIEPLCSNSPNSYNRTAYCLVLATYNTFEPFSSNEAKRHLQEALK  522 (608)
T ss_pred             HHHHHHHhHhhcccchhhhHHHHHHHhcCccccCCccHHHHHHHHHHHHHHhhCCccccHHHHHHHHHHHH
Confidence            2  2222222  223333  778888773    122  334444443 333221  123467776665554

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.59  E-value=1.8  Score=30.33  Aligned_cols=28  Identities=21%  Similarity=0.287  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                      .+++.|...|...|++++|+++++++++
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            3556666666666666666666666654

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=85.46  E-value=1.6  Score=28.83  Aligned_cols=31  Identities=16%  Similarity=0.172  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 003457          388 WGALLAACKNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       388 ~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                      +..+..++.+.|++++|.+.|+++++..|++
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~s   33 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIKRYPDS   33 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence            3445666777888888888888888887763

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=85.29  E-value=5.7  Score=37.07  Aligned_cols=49  Identities=12%  Similarity=0.068  Sum_probs=33.6

Q ss_pred             HcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          397 NHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       397 ~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ..++.+++..++..+.-+.|+.++.-..-+.++.+.|+|+||+++++..
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l   70 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILREL   70 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhh
Confidence            4666777777777777777777777677777777777777777766544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=85.25  E-value=1.5e+02  Score=39.84  Aligned_cols=308  Identities=10%  Similarity=0.059  Sum_probs=157.2

Q ss_pred             HHHHHHHhCCChhHHHHHHHHH----HHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003457           85 TLIRAQASSLNPDKAIFLYMNM----RRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCY  160 (818)
Q Consensus        85 ~Li~~~~~~g~~~~Al~lf~~m----~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y  160 (818)
                      .|..+-.+.+.+.+|+..+++-    ++.  .-...-|..+...|...++++...-+......     +...+. .|...
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~--~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a-----~~sl~~-qil~~ 1459 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEK--ETEEALYFLLQNLYGSIHDPDGVEGVSARRFA-----DPSLYQ-QILEH 1459 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchh--HHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc-----CccHHH-HHHHH
Confidence            3444555678888999888873    221  11233444555589999999988777664211     222222 34445


Q ss_pred             HhCCChHHHHHHHHHhhcCCH---HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHHhcCChhHHH
Q 003457          161 SVSSDLNNARQVFDEIRNRTL---NVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVL-SACAQSGCLELGE  236 (818)
Q Consensus       161 ~~~g~~~~A~~l~~~m~~~d~---~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll-~~~~~~g~~~~A~  236 (818)
                      ...|+++.|...|+.+.+.+.   ..++-++......+.++.++...+-.... ..+....++.+- .+-=+.++++...
T Consensus      1460 e~~g~~~da~~Cye~~~q~~p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~~e 1538 (2382)
T KOG0890|consen 1460 EASGNWADAAACYERLIQKDPDKEKHHSGVLKSMLAIQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDLLE 1538 (2382)
T ss_pred             HhhccHHHHHHHHHHhhcCCCccccchhhHHHhhhcccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhhhh
Confidence            678999999999999987543   36777777777778887777766555443 233333333322 3334566777766


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHhCCC---HH--HHHHHHhhC-CC--------C-ChhhHHHHHHHHHHcCCHHHH
Q 003457          237 KVHVFVKMRGFEMGAILGTALVHMYTKNGA---LA--KAKALFDSM-PE--------R-NIATWNAMISGLASHGHAEEA  301 (818)
Q Consensus       237 ~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~---~~--~A~~~f~~m-~~--------~-d~~~~~~Li~~~~~~g~~~~A  301 (818)
                      ..+.   ..+.. +-.+. .++....+..+   +.  +.++..+.. .+        . -...|..++....-..-....
T Consensus      1539 ~~l~---~~n~e-~w~~~-~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~el~~~~ 1613 (2382)
T KOG0890|consen 1539 SYLS---DRNIE-YWSVE-SIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLELENSI 1613 (2382)
T ss_pred             hhhh---ccccc-chhHH-HHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHHHHHHH
Confidence            6655   11111 11111 12222221111   11  011111111 00        0 012344444333221111111


Q ss_pred             HHHHHHHHHcCCCCCHHH------HHHHH---HHHHHcCCHHHHHHHHHHHHHHhCCCC-----CHHHHHHHHHHHHHcC
Q 003457          302 LDLFRKLEKEQIVPNDIT------FVGVL---SACCHAGFIDVGRQIFGSMKRVYGIEP-----KIEHYGCMVDLLGRCG  367 (818)
Q Consensus       302 ~~l~~~m~~~g~~pd~~t------~~~ll---~a~~~~g~~~~A~~~~~~m~~~~g~~p-----~~~~~~~Li~~~~~~g  367 (818)
                      ..    .  .+..++..+      |..-+   ..+.+   ..+-+-.+++..-.....|     -..+|....+...+.|
T Consensus      1614 ~~----l--~~~s~~~~s~~~sd~W~~Rl~~tq~s~~---~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG 1684 (2382)
T KOG0890|consen 1614 EE----L--KKVSYDEDSANNSDNWKNRLERTQPSFR---IKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAG 1684 (2382)
T ss_pred             HH----h--hccCccccccccchhHHHHHHHhchhHH---HHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcc
Confidence            11    1  112222111      11111   11111   1111112222111101222     2578888888888899


Q ss_pred             CHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Q 003457          368 KVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALE  415 (818)
Q Consensus       368 ~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~  415 (818)
                      +++.|...+-++....-...+.-.+.-+.+.|+...|+.++++.++++
T Consensus      1685 ~~q~A~nall~A~e~r~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1685 HLQRAQNALLNAKESRLPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             cHHHHHHHHHhhhhcccchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            999999877666422234455556667789999999999999998643

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=84.77  E-value=8.6  Score=37.55  Aligned_cols=64  Identities=9%  Similarity=0.061  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 003457           81 FMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQ--HTFTFVLKACSNVRSLNCCKQIHTHVSKS  144 (818)
Q Consensus        81 ~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~--~ty~~ll~~~~~~g~~~~A~~~~~~m~~~  144 (818)
                      ..+..+...|.+.|+.++|++.|.++.+....+..  ..+..+++.+...+++..+.....++...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~  102 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESL  102 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            35667777778888888888888877775444333  35666777777777777777776665543

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=83.75  E-value=1  Score=30.11  Aligned_cols=27  Identities=19%  Similarity=0.301  Sum_probs=23.6

Q ss_pred             chHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          420 GVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       420 ~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      +.|..++.+|...|++++|.+.++..+
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~   28 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            468899999999999999999777664

...

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=83.53  E-value=1.1e+02  Score=36.91  Aligned_cols=211  Identities=13%  Similarity=0.042  Sum_probs=108.8

Q ss_pred             HhcCChhHHHHHHHHHHHcCCCCcH-------HHHHHH-HHHHHhCCCHHHHHHHHhhCCC--------CChhhHHHHHH
Q 003457          227 AQSGCLELGEKVHVFVKMRGFEMGA-------ILGTAL-VHMYTKNGALAKAKALFDSMPE--------RNIATWNAMIS  290 (818)
Q Consensus       227 ~~~g~~~~A~~i~~~~~~~g~~~~~-------~~~~~L-i~~~~~~g~~~~A~~~f~~m~~--------~d~~~~~~Li~  290 (818)
                      ....++.+|..+..++...-..|+.       ..+++| .......|+.++|.++-+...+        ..+..+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            4567788888888877765222221       122222 2233456777887776665443        35566777778


Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH---H--HHHHHHcCCH--HHHHHHHHHHHHHhCC--CC---CHHHHHH
Q 003457          291 GLASHGHAEEALDLFRKLEKEQIVPNDITFVG---V--LSACCHAGFI--DVGRQIFGSMKRVYGI--EP---KIEHYGC  358 (818)
Q Consensus       291 ~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~---l--l~a~~~~g~~--~~A~~~~~~m~~~~g~--~p---~~~~~~~  358 (818)
                      +..-.|++++|..+.++..+..-+-+...+..   +  ...+..+|..  ++.+..|......+..  +.   -..++..
T Consensus       506 a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~  585 (894)
T COG2909         506 AAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQ  585 (894)
T ss_pred             HHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHH
Confidence            88888999999888877665322223332222   2  1235556632  2333333333222111  11   1234444


Q ss_pred             HHHHHHHcCCHHHHHHHHHHc----C-CCCC--HHH--HHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCcchHH---H
Q 003457          359 MVDLLGRCGKVLEAEELIKRM----V-WKPD--VVM--WGALLAACKNHGNIEVAERVVKEIIALE--PNNHGVYV---V  424 (818)
Q Consensus       359 Li~~~~~~g~~~~A~~~~~~m----~-~~pd--~~~--~~~Li~a~~~~g~~~~A~~~~~~~~~~~--P~~~~~y~---~  424 (818)
                      +..++.+   ++.+..-....    . ..|.  ...  +..|+......|+.++|...++++..+-  ++....|.   +
T Consensus       586 ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~  662 (894)
T COG2909         586 LLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAY  662 (894)
T ss_pred             HHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHH
Confidence            4444444   44443333222    1 1122  122  2356667778899999988888877643  32111221   2


Q ss_pred             HHH--HHHHhhchHHHHH
Q 003457          425 LSN--MYAEAESMKMQLE  440 (818)
Q Consensus       425 L~~--~l~~~G~~~eA~~  440 (818)
                      .+.  .....|+.++|..
T Consensus       663 ~v~~~lwl~qg~~~~a~~  680 (894)
T COG2909         663 KVKLILWLAQGDKELAAE  680 (894)
T ss_pred             HhhHHHhcccCCHHHHHH
Confidence            222  2235677777666

>PRK10941 hypothetical protein; Provisional

Probab=83.45  E-value=3.9  Score=42.73  Aligned_cols=57  Identities=19%  Similarity=0.246  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHH
Q 003457          387 MWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILL  443 (818)
Q Consensus       387 ~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~  443 (818)
                      ..+++-.+|.+.++++.|+++.+.++.+.|+++.-+.--+.+|.+.|.+..|..=++
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~  239 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLS  239 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            345666678888888888888888888888888888888888888888888888433

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=83.31  E-value=0.99  Score=49.76  Aligned_cols=83  Identities=16%  Similarity=0.045  Sum_probs=47.3

Q ss_pred             HHHcCCHHHHHHHHHHc-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          363 LGRCGKVLEAEELIKRM-VWKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       363 ~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      +.+.++++.|..++.++ ...|| +..|..-..++.+.+++..|+.-+.++++.+|....+|..-+.++.+.+++.+|..
T Consensus        14 ~l~~~~fd~avdlysKaI~ldpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~~~~~A~~   93 (476)
T KOG0376|consen   14 ALKDKVFDVAVDLYSKAIELDPNCAIYFANRALAHLKVESFGGALHDALKAIELDPTYIKAYVRRGTAVMALGEFKKALL   93 (476)
T ss_pred             hcccchHHHHHHHHHHHHhcCCcceeeechhhhhheeechhhhHHHHHHhhhhcCchhhheeeeccHHHHhHHHHHHHHH
Confidence            33455556666666555 23443 23333333455666666666666666666666666666666666666666666666


Q ss_pred             HHHHH
Q 003457          441 ILLVQ  445 (818)
Q Consensus       441 l~~~~  445 (818)
                      .++.+
T Consensus        94 ~l~~~   98 (476)
T KOG0376|consen   94 DLEKV   98 (476)
T ss_pred             HHHHh
Confidence            44443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=83.30  E-value=1.1e+02  Score=36.47  Aligned_cols=395  Identities=11%  Similarity=0.038  Sum_probs=202.9

Q ss_pred             HHHHHHHHHhhhhcCCCHHHHHHHHhhcC----CCCHH-----HHHHHHHHHHhCCChhHHHHHHHHHHHcC----CCCC
Q 003457           48 FAASRLLAFCALSSSGDLSYATRLFNSIQ----SPNHF-----MWNTLIRAQASSLNPDKAIFLYMNMRRTG----FAPN  114 (818)
Q Consensus        48 ~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~----~p~~~-----~yn~Li~~~~~~g~~~~Al~lf~~m~~~g----~~pd  114 (818)
                      .++-.+..++ +....+++.|+..+++..    +++..     ....+++.+.+.+... |...+++..+.-    ..+-
T Consensus        60 ~~~l~la~iL-~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w  137 (608)
T PF10345_consen   60 RVRLRLASIL-LEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAW  137 (608)
T ss_pred             HHHHHHHHHH-HHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhH
Confidence            3444444555 357889999999999874    22222     2335566676666555 888888866531    2222


Q ss_pred             HHHHHHH-HHHHHccCChHHHHHHHHHHHHcC---CCCCHHHHHHHHHHHH--hCCChHHHHHHHHHhhc----------
Q 003457          115 QHTFTFV-LKACSNVRSLNCCKQIHTHVSKSG---LDLDLHVVNCLVRCYS--VSSDLNNARQVFDEIRN----------  178 (818)
Q Consensus       115 ~~ty~~l-l~~~~~~g~~~~A~~~~~~m~~~g---~~p~~~~~~~Li~~y~--~~g~~~~A~~l~~~m~~----------  178 (818)
                      ...|..+ +..+...++...|.+.++.+....   ..+...++-.++.+..  +.+..+++.+.++++..          
T Consensus       138 ~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~  217 (608)
T PF10345_consen  138 YYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPS  217 (608)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCC
Confidence            2344444 333334479999999998887653   2334444545554443  45555666666665521          


Q ss_pred             ---CCHHHHHHHHHH--HHHcCChHHHHHHHHHHHHc---C--CC-------------------------CCH-------
Q 003457          179 ---RTLNVWTTMISG--YAQSFRANEALMLFDQMLME---G--FE-------------------------PNS-------  216 (818)
Q Consensus       179 ---~d~~~~~~Li~~--~~~~g~~~~A~~l~~~m~~~---g--~~-------------------------pd~-------  216 (818)
                         +...+|..++..  +...|+++.+...++++.+.   .  ..                         +..       
T Consensus       218 ~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~~~~~~~~~~~w~~~~~d~~i~l~~~~~~~~~~~~~~~f~wl~~~  297 (608)
T PF10345_consen  218 VHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQFLDEIKKSPSWPSWDEDGSIPLNIGEGSSNSGGTPLVFSWLPKE  297 (608)
T ss_pred             CCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCccCCCcCCCeeEEeecccccccCCCceeEEeecCHH
Confidence               123466666654  45567777777766665321   0  00                         101       


Q ss_pred             --HHHHHHHHHH--HhcCChhHHHHHHHHHHHc--------CCCCcH--------HHHHH---------HHHHHHhCCCH
Q 003457          217 --VTLASVLSAC--AQSGCLELGEKVHVFVKMR--------GFEMGA--------ILGTA---------LVHMYTKNGAL  267 (818)
Q Consensus       217 --~t~~~ll~~~--~~~g~~~~A~~i~~~~~~~--------g~~~~~--------~~~~~---------Li~~~~~~g~~  267 (818)
                        ..+..++.+.  ...+..+++.+++++..+.        ...+..        ..+..         .+-..+-.+++
T Consensus       298 ~l~~L~y~lS~l~~~~~~~~~ks~k~~~k~l~~i~~~~~~~~~~~~~sl~~~~~~~~~~~~l~~~~~~y~~~~~~~~~~~  377 (608)
T PF10345_consen  298 ELYALVYFLSGLHNLYKGSMDKSEKFLEKALKQIEKLKIKSPSAPSESLSEASERIQWLRYLQCYLLFYQIWCNFIRGDW  377 (608)
T ss_pred             HHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHHhhccCCCCCCcCHHHHHHhHHHHHHHHHHHHHHHHHHHHHCcCH
Confidence              1122222222  3344455666666555432        001110        11111         12223456788


Q ss_pred             HHHHHHHhhCCC-----CC-------hhhHHHHHHHHHHcCCHHHHHHHHH--------HHHHcCCCCCHHHHHHH--HH
Q 003457          268 AKAKALFDSMPE-----RN-------IATWNAMISGLASHGHAEEALDLFR--------KLEKEQIVPNDITFVGV--LS  325 (818)
Q Consensus       268 ~~A~~~f~~m~~-----~d-------~~~~~~Li~~~~~~g~~~~A~~l~~--------~m~~~g~~pd~~t~~~l--l~  325 (818)
                      ..|...++.+.+     ++       +..+....-.+...|+.+.|+..|.        .....+...+...+..+  +.
T Consensus       378 ~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~~~~~~~~~~~~~~~~~El~ila~LNl~~  457 (608)
T PF10345_consen  378 SKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQKPRFLLCEAANRKSKFRELYILAALNLAI  457 (608)
T ss_pred             HHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhhhHHhhhhhhccCCcchHHHHHHHHHHHH
Confidence            888888887763     11       1223333334556799999999998        34444444443333221  11


Q ss_pred             HHHH--cCCHHH--HHHHHHHHHHHhCCCCC--HHHHHHH-HHHHHHc---------CCHHHHHHHH-HHcCCCCC-HHH
Q 003457          326 ACCH--AGFIDV--GRQIFGSMKRVYGIEPK--IEHYGCM-VDLLGRC---------GKVLEAEELI-KRMVWKPD-VVM  387 (818)
Q Consensus       326 a~~~--~g~~~~--A~~~~~~m~~~~g~~p~--~~~~~~L-i~~~~~~---------g~~~~A~~~~-~~m~~~pd-~~~  387 (818)
                      .+..  ..+.++  ..++++.+.......++  ..++..+ +.++...         ..+.++++.+ ++....-- ..+
T Consensus       458 I~~~~~~~~~~~~~~~~l~~~i~p~~~~~~~~~~~~a~~~~~~~~~~~~~~~~ne~k~~l~~~L~~~~~~~~n~~l~~~~  537 (608)
T PF10345_consen  458 ILQYESSRDDSESELNELLEQIEPLCSNSPNSYNRTAYCLVLATYNTFEPFSSNEAKRHLQEALKMANNKLGNSQLLAIL  537 (608)
T ss_pred             HhHhhcccchhhhHHHHHHHhcCccccCCccHHHHHHHHHHHHHHhhCCccccHHHHHHHHHHHHHHHHhhccchHHHHH
Confidence            2222  222333  66666665443222332  3333333 3333211         1233444444 33321111 122


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCCcc-hH-----HHHHHHHHHhhchHHHHHHHHHH
Q 003457          388 WGALLAACKNHGNIEVAERVVKEIIAL---EPNNHG-VY-----VVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       388 ~~~Li~a~~~~g~~~~A~~~~~~~~~~---~P~~~~-~y-----~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ++.+...+. .|+..+..+....+.++   .||... .|     ..+.+.|...|+.++|.+.....
T Consensus       538 L~lm~~~lf-~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~  603 (608)
T PF10345_consen  538 LNLMGHRLF-EGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQL  603 (608)
T ss_pred             HHHHHHHHH-cCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHH
Confidence            333333333 78888877776655543   244333 22     35566788999999999877655

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=83.22  E-value=2.5  Score=29.00  Aligned_cols=25  Identities=16%  Similarity=0.238  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Q 003457          285 WNAMISGLASHGHAEEALDLFRKLE  309 (818)
Q Consensus       285 ~~~Li~~~~~~g~~~~A~~l~~~m~  309 (818)
                      |..|...|.+.|++++|+++|++..
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556666666666666666666633

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=82.69  E-value=47  Score=31.96  Aligned_cols=125  Identities=10%  Similarity=0.040  Sum_probs=72.1

Q ss_pred             hhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHc-CCCCCHH
Q 003457           73 NSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKS-GLDLDLH  151 (818)
Q Consensus        73 ~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~  151 (818)
                      +.-..++...|..+++.+.+.|++..    +.++...++-+|.......+-.+.  +....+.++--+|.++ +     .
T Consensus        22 ~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkRL~-----~   90 (167)
T PF07035_consen   22 QHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKRLG-----T   90 (167)
T ss_pred             HcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHHhh-----h
Confidence            33345677778888888888877544    344455566667766655553332  2334444444444443 1     1


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 003457          152 VVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQML  208 (818)
Q Consensus       152 ~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~  208 (818)
                      .+..+++.+...|++-+|.++.++....+......++.+..+.+|...=..+|+-..
T Consensus        91 ~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~  147 (167)
T PF07035_consen   91 AYEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFRFFE  147 (167)
T ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            245566777888888888888877644433344455555555555554444444443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=82.61  E-value=91  Score=35.20  Aligned_cols=175  Identities=11%  Similarity=0.063  Sum_probs=108.0

Q ss_pred             CcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457          249 MGAILGTALVHMYTKNGALAKAKALFDSMPE--RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA  326 (818)
Q Consensus       249 ~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  326 (818)
                      .|.....+++..+..+..+.-.+.+-.+|.+  .+-..|..++++|.++ ..++-..+++++.+..+. |.+.-..|...
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~~  141 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELADK  141 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHHH
Confidence            3444455666777766666666666666664  4556677778888877 556677788877776332 33333344444


Q ss_pred             HHHcCCHHHHHHHHHHHHHHhCCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHHcC----CCCCHHHHHHHHHHHH
Q 003457          327 CCHAGFIDVGRQIFGSMKRVYGIEPK------IEHYGCMVDLLGRCGKVLEAEELIKRMV----WKPDVVMWGALLAACK  396 (818)
Q Consensus       327 ~~~~g~~~~A~~~~~~m~~~~g~~p~------~~~~~~Li~~~~~~g~~~~A~~~~~~m~----~~pd~~~~~~Li~a~~  396 (818)
                      |.+ .+.+.+..+|.++..+  +-|.      ...|..|...  -..+.+.-+.+..++.    ...-...+..+-.-|.
T Consensus       142 yEk-ik~sk~a~~f~Ka~yr--fI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         142 YEK-IKKSKAAEFFGKALYR--FIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHH-hchhhHHHHHHHHHHH--hcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            444 7777777888777655  3331      2344444421  1345555666555552    2233555666666777


Q ss_pred             HcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          397 NHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       397 ~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      ...++++|++++..+++.+-.+..+.-.++.-+.
T Consensus       217 ~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~lR  250 (711)
T COG1747         217 ENENWTEAIRILKHILEHDEKDVWARKEIIENLR  250 (711)
T ss_pred             cccCHHHHHHHHHHHhhhcchhhhHHHHHHHHHH
Confidence            8888999999998888887766666666655443

>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]

Probab=82.15  E-value=33  Score=37.69  Aligned_cols=62  Identities=15%  Similarity=0.227  Sum_probs=49.4

Q ss_pred             CHHHHHHH---HHHHHHcCCHHHHHHHHHHHHhcCCC-CcchHHHHHHHHH-HhhchHHHHHHHHHH
Q 003457          384 DVVMWGAL---LAACKNHGNIEVAERVVKEIIALEPN-NHGVYVVLSNMYA-EAESMKMQLEILLVQ  445 (818)
Q Consensus       384 d~~~~~~L---i~a~~~~g~~~~A~~~~~~~~~~~P~-~~~~y~~L~~~l~-~~G~~~eA~~l~~~~  445 (818)
                      |...|.++   +..+.+.|-+..|.++.+-++.++|+ |+-.-..+++.|+ ++++++--+++.+.+
T Consensus        99 NR~fflal~r~i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~~~~~  165 (360)
T PF04910_consen   99 NRQFFLALFRYIQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDFSESP  165 (360)
T ss_pred             chHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHHHHhH
Confidence            44444444   45678999999999999999999999 8888888888886 888888777766654

Human Nulp1 (Q2MK75 from SWISSPROT) is a basic helix-loop-helix protein expressed broadly during early embryonic organogenesis. Over expression of human Nulp1 in COS-7 cells inhibits the transcriptional activity of serum response factor (SRF), suggesting that Nulp1 may act as a novel bHLH transcriptional repressor in the SRF signalling pathway to mediate cellular functions [].

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=81.83  E-value=56  Score=32.19  Aligned_cols=56  Identities=13%  Similarity=-0.019  Sum_probs=24.9

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003457          188 ISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMR  245 (818)
Q Consensus       188 i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~  245 (818)
                      .+.....|.+|+|+..++...+.+.  .......-..++...|+.++|+.-|+..+..
T Consensus       133 Arvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~  188 (207)
T COG2976         133 ARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALES  188 (207)
T ss_pred             HHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHc
Confidence            3444455555555555544433211  1111222234455555555555555555544

>PRK11619 lytic murein transglycosylase; Provisional

Probab=81.47  E-value=1.3e+02  Score=36.04  Aligned_cols=269  Identities=9%  Similarity=-0.038  Sum_probs=136.4

Q ss_pred             CCHHHHHHHHhhcCC-CCHHH-HHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHH
Q 003457           63 GDLSYATRLFNSIQS-PNHFM-WNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTH  140 (818)
Q Consensus        63 g~~e~A~~lf~~~~~-p~~~~-yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~  140 (818)
                      ...++...++++-+. |-... -..-+..+.+.+++...+.++..     ...+...-...+.+....|+.++|......
T Consensus        80 ~~~~ev~~Fl~~~~~~P~~~~Lr~~~l~~La~~~~w~~~~~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~  154 (644)
T PRK11619         80 QPAVQVTNFIRANPTLPPARSLQSRFVNELARREDWRGLLAFSPE-----KPKPVEARCNYYYAKWATGQQQEAWQGAKE  154 (644)
T ss_pred             CCHHHHHHHHHHCCCCchHHHHHHHHHHHHHHccCHHHHHHhcCC-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            357777777776653 32222 22334455567777766663311     233555556667777777887766665555


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHh----hcCCHHHHHHHHHHH-----------HH-cCChHHHHHHH
Q 003457          141 VSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEI----RNRTLNVWTTMISGY-----------AQ-SFRANEALMLF  204 (818)
Q Consensus       141 m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m----~~~d~~~~~~Li~~~-----------~~-~g~~~~A~~l~  204 (818)
                      +=..|. .....+..+++.+.+.|.+.... +..+|    ...+...-..|....           .. ..+...+...+
T Consensus       155 lW~~g~-~~p~~cd~l~~~~~~~g~lt~~d-~w~R~~~al~~~~~~lA~~l~~~l~~~~~~~a~a~~al~~~p~~~~~~~  232 (644)
T PRK11619        155 LWLTGK-SLPNACDKLFSVWQQSGKQDPLA-YLERIRLAMKAGNTGLVTYLAKQLPADYQTIASALIKLQNDPNTVETFA  232 (644)
T ss_pred             HhccCC-CCChHHHHHHHHHHHcCCCCHHH-HHHHHHHHHHCCCHHHHHHHHHhcChhHHHHHHHHHHHHHCHHHHHHHh
Confidence            544442 24455666666666555443321 11111    112222212221111           00 01122222211


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHH--HhcCChhHHHHHHHHHHHcC-CCCc--HHHHHHHHHHHHhCCCHHHHHHHHhhCCC
Q 003457          205 DQMLMEGFEPNSVTLASVLSAC--AQSGCLELGEKVHVFVKMRG-FEMG--AILGTALVHMYTKNGALAKAKALFDSMPE  279 (818)
Q Consensus       205 ~~m~~~g~~pd~~t~~~ll~~~--~~~g~~~~A~~i~~~~~~~g-~~~~--~~~~~~Li~~~~~~g~~~~A~~~f~~m~~  279 (818)
                      ..     ++|+...-..++-++  ....+.+.|...+....... ..+.  ..+...++......+..++|...++....
T Consensus       233 ~~-----~~~~~~~~~~~~~~l~Rlar~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~  307 (644)
T PRK11619        233 RT-----TGPTDFTRQMAAVAFASVARQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIM  307 (644)
T ss_pred             hc-----cCCChhhHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccc
Confidence            11     223321111111122  13445677888887764442 2222  12333444333343335667777776543


Q ss_pred             C--ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 003457          280 R--NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMK  344 (818)
Q Consensus       280 ~--d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~  344 (818)
                      .  +.....-.+..-...++++.+...+..|-... .-...-...+.+++...|+.++|...|+.+.
T Consensus       308 ~~~~~~~~e~r~r~Al~~~dw~~~~~~i~~L~~~~-~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        308 RSQSTSLLERRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             ccCCcHHHHHHHHHHHHccCHHHHHHHHHhcCHhh-ccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            2  44444444455557888888888888875432 2244556678888888899999999888864

>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]

Probab=81.14  E-value=87  Score=34.68  Aligned_cols=26  Identities=8%  Similarity=-0.157  Sum_probs=19.1

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHH
Q 003457           83 WNTLIRAQASSLNPDKAIFLYMNMRR  108 (818)
Q Consensus        83 yn~Li~~~~~~g~~~~Al~lf~~m~~  108 (818)
                      -|-++..|...|+..+|.++.+++..
T Consensus       217 In~~l~eyv~~getrea~rciR~L~v  242 (645)
T KOG0403|consen  217 INGNLIEYVEIGETREACRCIRELGV  242 (645)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHhCC
Confidence            34566778888888888888777654

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=80.80  E-value=56  Score=31.53  Aligned_cols=131  Identities=7%  Similarity=0.026  Sum_probs=69.1

Q ss_pred             CHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHH-HHHHH
Q 003457           79 NHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQH-TFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLH-VVNCL  156 (818)
Q Consensus        79 ~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~-ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~L  156 (818)
                      +-..|..-++. ++.+..++|+.-|..+.+.|..--.. ..........+.|+...|...|+++-+....|-.. -...|
T Consensus        58 sgd~flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            34445444443 45667777777777777766542111 12222334556677777777777766554333322 11111


Q ss_pred             --HHHHHhCCChHHHHHHHHHhhcC-CH---HHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 003457          157 --VRCYSVSSDLNNARQVFDEIRNR-TL---NVWTTMISGYAQSFRANEALMLFDQMLME  210 (818)
Q Consensus       157 --i~~y~~~g~~~~A~~l~~~m~~~-d~---~~~~~Li~~~~~~g~~~~A~~l~~~m~~~  210 (818)
                        .-.+...|.++......+-+... ++   ..-.+|.-+-.+.|++.+|...|.++...
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence              11233456666655555544332 21   23455666666667777777777666543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=80.64  E-value=15  Score=38.45  Aligned_cols=77  Identities=10%  Similarity=0.088  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH-----cCCCCcHHHHHH
Q 003457          182 NVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKM-----RGFEMGAILGTA  256 (818)
Q Consensus       182 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~-----~g~~~~~~~~~~  256 (818)
                      .++..++..+...++++.+.+.++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            356667777777777777777777777664 55667777777777777777777777776665     356666555544


Q ss_pred             HHH
Q 003457          257 LVH  259 (818)
Q Consensus       257 Li~  259 (818)
                      ..+
T Consensus       233 y~~  235 (280)
T COG3629         233 YEE  235 (280)
T ss_pred             HHH
Confidence            333

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=80.20  E-value=2.6  Score=28.60  Aligned_cols=24  Identities=25%  Similarity=0.236  Sum_probs=13.9

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHH
Q 003457          350 EPKIEHYGCMVDLLGRCGKVLEAE  373 (818)
Q Consensus       350 ~p~~~~~~~Li~~~~~~g~~~~A~  373 (818)
                      +-|...|+.|...|...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            334556666666666666666554

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=80.14  E-value=2.1  Score=28.19  Aligned_cols=26  Identities=12%  Similarity=0.137  Sum_probs=22.9

Q ss_pred             hHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          421 VYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       421 ~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      ++..++.++.+.|++++|.+.++.++
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~   27 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLI   27 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            57789999999999999999887774

>smart00028 TPR Tetratricopeptide repeats

Probab=80.02  E-value=3.6  Score=25.87  Aligned_cols=31  Identities=23%  Similarity=0.233  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          387 MWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       387 ~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      .|..+...+...+++++|...+++.+++.|+
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~   33 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALELDPN   33 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            4566677777788888888888888877765

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

---

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	818
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	9e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04
2zex_A	147	S-layer associated multidomain endoglucanase; fami	5e-06
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	1e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 66.0 bits (159), Expect = 4e-11
 Identities = 29/215 (13%), Positives = 72/215 (33%), Gaps = 8/215 (3%)

Query: 106 MRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSD 165
            R+   +P +     +L+      SL+  +      S++ L      +    +C  ++  
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 166 LNNARQVFDEIRNR-------TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVT 218
           L  A  +      +       TL+++  ++ G+A+     E + +   +   G  P+ ++
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 219 LASVLSACAQSG-CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSM 277
            A+ L    +        E+    +   G ++ A+    L+    +   L     +  + 
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF 262

Query: 278 PERNIATWNAMISGLASHGHAEEALDLFRKLEKEQ 312
                       S L    +A++    + KL    
Sbjct: 263 SLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPL 297

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 59.4 bits (142), Expect = 4e-09
 Identities = 17/125 (13%), Positives = 36/125 (28%), Gaps = 7/125 (5%)

Query: 214 PNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKAL 273
           P    LA +L        L++ +                   A          L  A  L
Sbjct: 90  PWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHL 149

Query: 274 FDSMPER-------NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA 326
                 +        +  +NA++ G A  G  +E + +   ++   + P+ +++   L  
Sbjct: 150 LVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC 209

Query: 327 CCHAG 331
                
Sbjct: 210 MGRQD 214

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 53.3 bits (126), Expect = 3e-07
 Identities = 19/184 (10%), Positives = 55/184 (29%), Gaps = 10/184 (5%)

Query: 270 AKALFDSMPERNIATWNAMISGLASHGHAEEALDL----FRKLEKEQIVPNDITFVGVLS 325
           A  L D   +   + W   ++ L      + +LD+      +  + Q+       +    
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 326 ACCHAGFIDVGRQIFGSMKR--VYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVW-- 381
            C     + +   +               ++ Y  ++    R G   E   ++  +    
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 382 -KPDVVMWGALLAACKNHGN-IEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQL 439
             PD++ + A L             ER ++++         ++  +     +  ++   +
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV 255

Query: 440 EILL 443
             + 
Sbjct: 256 HKVK 259

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.1 bits (97), Expect = 9e-04
 Identities = 25/181 (13%), Positives = 55/181 (30%), Gaps = 11/181 (6%)

Query: 6   SSLRQPPLPIPPLSLLADKCKSMHQLKQIHAQMIISSRIQDHFAASRLLAFC-ALSSSGD 64
            +   P        L     K    ++Q  +     +++       RLLAF      +  
Sbjct: 85  QAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQ--QQRLLAFFKCCLLTDQ 142

Query: 65  LSYATRLFNSIQS-------PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHT 117
           L  A  L                 M+N ++   A      + +++   ++  G  P+  +
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 118 FTFVLKACSNV-RSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEI 176
           +   L+      +     ++    +S+ GL L       L+     ++ L    +V    
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF 262

Query: 177 R 177
            
Sbjct: 263 S 263

>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 = 62.2 bits (150), Expect = 6e-10
 Identities = 98/687 (14%), Positives = 193/687 (28%), Gaps = 216/687 (31%)

Query: 39  IISSRIQDHF-------AASRLLAFCALSSSGDLSYATRLFNSIQSPNH-FMWNTLIRAQ 90
           I+S    DH        + +  L F  L S  +     +    +   N+ F+ + +   +
Sbjct: 45  ILSKEEIDHIIMSKDAVSGTLRL-FWTLLSKQEEMVQ-KFVEEVLRINYKFLMSPI---K 99

Query: 91  ASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVS--KSGLDL 148
                P     +Y+  R   +  NQ  F    K   NV  L    ++   +   +   ++
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQ-VFA---K--YNVSRLQPYLKLRQALLELRPAKNV 153

Query: 149 DLH---------VVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANE 199
            +          V   +   Y V   ++   ++F          W  +      S    E
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDF--KIF----------WLNL--KNCNS---PE 196

Query: 200 ALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALV- 258
            ++   Q L+   +PN  + +   S         +  ++   +K + +E        L+ 
Sbjct: 197 TVLEMLQKLLYQIDPNWTSRSDHSSNIKLR-IHSIQAELRRLLKSKPYE------NCLLV 249

Query: 259 --HMYTKNGALAKA-----KALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKE 311
             ++         A     K L  +   R     + + +   +H   +         E +
Sbjct: 250 LLNVQNAK--AWNAFNLSCKILLTT---RFKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304

Query: 312 QIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLE 371
            +          L         D+ R+       V    P+       + ++        
Sbjct: 305 SL----------LLKYLDCRPQDLPRE-------VLTTNPRR------LSIIA------- 334

Query: 372 AEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEII-ALEPNNHGVYVVLSNM 428
             E I+  +  W      W         H N +    +++  +  LEP           M
Sbjct: 335 --ESIRDGLATWDN----W--------KHVNCDKLTTIIESSLNVLEPAE------YRKM 374

Query: 429 YAEAESMKMQLEILL------VQVLFAGLASAADIL-QNPDFESPP--TNLTPNRSTPFV 479
           +        +L +          +L         ++  +          N     S    
Sbjct: 375 F-------DRLSVFPPSAHIPTILL--------SLIWFDVIKSDVMVVVNKLHKYS---- 415

Query: 480 LLNGNNTIPGWTFEGTVQYVTASQTIRLPDNG----HAIQLAQDGRINQTFAADGDDLI- 534
           L+           E T+   +    +++        H   +     I +TF  D DDLI 
Sbjct: 416 LVEKQP------KESTISIPSIYLELKVKLENEYALHRSIVDHY-NIPKTF--DSDDLIP 466

Query: 535 -----YILTLTLAPGGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGH-YLG-RWG 587
                Y                         SH  + LK     E    +   +L  R+ 
Sbjct: 467 PYLDQYFY-----------------------SHIGHHLKNIEHPERMTLFRMVFLDFRFL 503

Query: 588 QDEPINLVIRSQSTESDDNSTCWPVIDMLL-LKTSKTLVQGND-------NLLLNGGFEF 639
           + +     IR  ST  + +     +++ L  LK  K  +  ND       N +L      
Sbjct: 504 EQK-----IRHDSTAWNASG---SILNTLQQLKFYKPYICDNDPKYERLVNAIL------ 549

Query: 640 GPDFLSNSTEGVLLESAPSPIQSALQQ 666
             DFL    E ++       ++ AL  
Sbjct: 550 --DFLPKIEENLICSKYTDLLRIALMA 574

>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 = 55.6 bits (133), Expect = 7e-08
 Identities = 68/545 (12%), Positives = 140/545 (25%), Gaps = 172/545 (31%)

Query: 18  LSLLADKCKSMHQLKQIHAQMIISSRIQDH--FAASRLLAFCALSSSGDLSYAT---RLF 72
              L  K + M        Q  +   ++ +  F  S +       S     Y     RL+
Sbjct: 68  FWTLLSKQEEM-------VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120

Query: 73  NSIQS-PNHFMWN----TLIRAQASSLNPDKAIFLY-MNMRRTGFAPNQHTFTFVLKACS 126
           N  Q    + +        +R     L P K + +  +     G           L  C 
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGV----LGSGKT----WVALDVCL 172

Query: 127 NVR------------SLNCCK----------QIHTHVSKSGLDLDLHVVNCLVRCYSVSS 164
           + +            +L  C           ++   +  +      H  N  +R +S+ +
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232

Query: 165 DLNNARQVFDEIRNRTL----NVW----------------TTMISGYAQSFRANEALMLF 204
           +L   R +  +     L    NV                 TT          A     + 
Sbjct: 233 ELR--RLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290

Query: 205 DQMLMEGFEP-NSVTLASVLSACAQSGCLELGE---KVHVFVKMRGFEMGAILGTALVHM 260
                    P    +L   L         +L       +           +I+  ++   
Sbjct: 291 LDHHSMTLTPDEVKSL---LLKYLDCRPQDLPREVLTTNPRRL-------SIIAESIRDG 340

Query: 261 --------YTKNGALAKA-------------KALFDSM---PER-NIAT------WNAMI 289
                   +     L                + +FD +   P   +I T      W  +I
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI 400

Query: 290 S-------------GLAS----------HG---------------HAE--EALDLFRKLE 309
                          L                             H    +  ++ +  +
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFD 460

Query: 310 KEQIVPNDI-----TFVGV-LSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLL 363
            + ++P  +     + +G  L    H   + + R +F   +    +E KI H     +  
Sbjct: 461 SDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF---LEQKIRHDSTAWNAS 517

Query: 364 GRCGKVLEAEELIKRMVWKPDVV---MWGALLAACKNHG-NIEVAE--RVVKEIIALEPN 417
           G     L+  +  K  +   D     +  A+L        N+  ++   +++  IAL   
Sbjct: 518 GSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLR--IALMAE 575

Query: 418 NHGVY 422
           +  ++
Sbjct: 576 DEAIF 580

>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 = 43.7 bits (102), Expect = 3e-04
 Identities = 67/417 (16%), Positives = 128/417 (30%), Gaps = 116/417 (27%)

Query: 233 ELGEK-------VHVFVK--MRGFE-------MGAILGTALV-HMYTKNGALAKAKALFD 275
           E GE        + VF    +  F+         +IL    + H+     A++    LF 
Sbjct: 10  ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW 69

Query: 276 SMPERNIATWNAMISGLASHGHAEEALD-----LFRKLEKEQIVPNDIT--FVGVLSACC 328
           ++  +        +         EE L      L   ++ EQ  P+ +T  ++       
Sbjct: 70  TLLSKQEEMVQKFV---------EEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120

Query: 329 HAG--FI--DVGR-QIFGSMKR-VYGIEP--KIEHYGCMVDLLGRCGK------VLEAEE 374
           +    F   +V R Q +  +++ +  + P   +   G +   LG  GK      V  + +
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG-V---LG-SGKTWVALDVCLSYK 175

Query: 375 LIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIAL----EPNNHGVYVVLSNMYA 430
           +  +M      + W   L    N  N    E V++ +  L    +PN        SN+  
Sbjct: 176 VQCKM---DFKIFW---L----NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKL 225

Query: 431 EAESMKMQLEILLVQVLFAGLASAADIL---QNP------DFESPPTNLTPNRSTPFVLL 481
              S++ +L  LL         +   +L   QN       +        T  +     L 
Sbjct: 226 RIHSIQAELRRLLKS---KPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLS 282

Query: 482 NGNNTIPGWTFEGTVQYVTASQTIRLPDNGHAIQLAQDGRINQTFAADGDDLIYILTLTL 541
               T    + +     +T  +   L        L +   ++        DL        
Sbjct: 283 AATTTHI--SLDHHSMTLTPDEVKSL--------LLK--YLDCRP----QDL-------- 318

Query: 542 APGGQNCSANANLVVSAPDSHGVYSLKQHYGKETWKSYGHYLGRWGQDEPINLVIRS 598
            P  +  + N       P    + +     G  TW ++ H        + +  +I S
Sbjct: 319 -PR-EVLTTN-------PRRLSIIAESIRDGLATWDNWKHV-----NCDKLTTIIES 361

>2zex_A S-layer associated multidomain endoglucanase; family 16 CBM-1 cellopentaose complex, glycosidase, hydrolase; HET: BGC; 1.20A {Thermoanaerobacteriumpolysaccharolyticum} PDB: 2zew_A 2zey_A* 3oea_A* 3oeb_A* Length = 147

 Score = 46.3 bits (109), Expect = 5e-06
 Identities = 20/167 (11%), Positives = 38/167 (22%), Gaps = 31/167 (18%)

Query: 630 NLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAA 689
           N++ N GFE G                       L  W           +  +   G   
Sbjct: 6   NMVSNPGFEDG-----------------------LDSWQDWQQDMSAVPEAAH--NGALG 40

Query: 690 IEIVSVSAGIQTATTMLTEGSAYNLDF---TLGDAKDACEGMFVVRVQAGSLVQNFTVQS 746
           ++I    A        L   + Y L              + +    ++  +      + +
Sbjct: 41  LKIGGGKAAGGGQDIPLKPNTTYILGAWAKFDSKPAGTFDVVVQYHLKDANNTYVQHILN 100

Query: 747 LGTGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVFCGPLIDDVVL 793
                     + F           ++     T         +DDV L
Sbjct: 101 FNETDWTYKQLLFTTPDVFGSTPQLALWKGDTSKANL---YVDDVYL 144

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 44.0 bits (103), Expect = 1e-04
 Identities = 24/182 (13%), Positives = 56/182 (30%), Gaps = 9/182 (4%)

Query: 253 LGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMI-SGLASHGHAEEALDLFRKLEKE 311
               L     ++  +A+         +    T+  M  S      + + AL    + +  
Sbjct: 71  FAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQGDSL 130

Query: 312 QIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLE 371
           + +   +              +D+ R+    M+         +     V L     K+ +
Sbjct: 131 ECMAMTV------QILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQD 184

Query: 372 AEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMY 429
           A  + + M     P +++     A     G  E AE V++E +  +  +    + L  + 
Sbjct: 185 AYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLS 244

Query: 430 AE 431
             
Sbjct: 245 QH 246

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	818
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.91
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.91
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.89
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.89
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.86
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.86
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.86
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.83
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.81
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.81
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.8
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.78
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.77
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.76
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.74
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.74
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.73
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.72
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.72
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.71
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.7
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.69
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.69
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.68
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.68
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.66
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.66
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.63
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.62
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.62
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.59
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.58
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.57
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.56
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.55
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.54
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.54
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.54
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.53
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.53
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.53
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.53
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.52
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.52
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.5
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.5
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.5
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.49
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.49
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.48
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.48
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.45
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.44
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.44
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.43
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.43
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.39
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.38
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.37
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.36
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.35
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.35
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.34
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.34
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.31
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.31
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.3
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.29
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.28
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.28
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.26
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.25
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.25
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.24
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.24
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.15
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.14
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.09
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.09
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.06
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.05
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.02
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.01
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.0
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.99
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.99
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.99
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.98
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.98
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.98
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.96
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.95
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.95
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.89
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.88
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.86
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.86
2zex_A	147	S-layer associated multidomain endoglucanase; fami	98.86
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.84
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.84
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.82
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.82
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.81
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.8
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.8
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.8
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.77
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.76
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.76
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.75
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.72
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.72
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.71
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.69
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.68
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.67
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.66
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.64
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.64
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.62
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.61
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.6
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.6
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.6
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.59
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.57
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.57
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.54
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.54
1gu3_A	149	Endoglucanase C; carbohydrate-binding module, carb	98.52
1gui_A	155	Laminarinase 16A; carbohydrate binding module, CBM	98.52
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.5
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.5
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.49
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.49
2zez_A	144	Family 16 CBM-2, S-layer associated multidomain en	98.48
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.48
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.47
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.47
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.46
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.45
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.45
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.45
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.44
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.44
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.44
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.44
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.44
1cx1_A	153	Endoglucanase C; cellulose-binding domain, cellool	98.43
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.43
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.42
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.41
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.41
2xom_A	152	Arabinogalactan endo-1,4-beta-galactosidase; hydro	98.41
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.4
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.38
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.38
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.38
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.37
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.36
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.33
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.32
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.31
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.3
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.29
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.28
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.27
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.27
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.27
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.27
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.26
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.26
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.22
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.19
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.18
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.18
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.18
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.17
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.16
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.14
1dyo_A	160	Endo-1,4-beta-xylanase Y; carbohydrate-binding mod	98.09
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.09
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.08
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.08
3p6b_A	205	Cellulose 1,4-beta-cellobiosidase; beta-sandwich,	98.07
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.07
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.07
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.06
3k4z_A	289	Glycoside hydrolase family 9; cellulase, CBHA, CBM	98.03
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.01
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.01
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.01
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.0
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.96
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.94
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.93
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.92
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.9
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.87
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.84
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.67
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.63
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.63
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.58
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.58
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.54
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.48
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.37
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.37
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.33
2w5f_A	540	Endo-1,4-beta-xylanase Y; cellulosome, glycosidase	97.29
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.19
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.18
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.11
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.06
2y6h_A	167	Xylanase, CBM4-2; hydrolase; 1.08A {Rhodothermus m	97.05
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.88
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.83
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.75
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.72
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.71
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.68
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.65
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.33
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.2
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.19
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.04
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.91
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.85
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.75
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	95.53
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.93
2w47_A	144	Lipolytic enzyme, G-D-S-L; hydrolase; HET: UNF; 1.	94.75
2w3j_A	145	Carbohydrate binding module; sugar-binding protein	94.75
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.57
2wz8_A	156	Cellulosome protein dockerin type I; sugar binding	94.42
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.4
3ecq_A	1531	Protein SPR0328, endo-alpha-N-acetylgalactosaminid	94.21
2zxq_A	1376	Endo-alpha-N-acetylgalactosaminidase; broken TIM b	93.85
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.63
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	93.47
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.24
2w87_A	139	Esterase D, XYL-CBM35; plant cell WALL degradation	92.83
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	92.62
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.23
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	91.81
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.69
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.55
2vzp_A	127	Aocbm35, EXO-beta-D-glucosaminidase; family 35, CS	91.47
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	90.42
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	89.42
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	89.4
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	89.17
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	89.17
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	89.12
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	88.34
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	87.66
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	87.32
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	86.89
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	85.85
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	85.28
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	83.65
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	83.46
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	83.39
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	83.18
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	82.8
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	81.74
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	81.03
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	80.71

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3.9e-36  Score=352.63  Aligned_cols=441  Identities=12%  Similarity=0.054  Sum_probs=388.0

Q ss_pred             CChhHHHHHHHHhcCch---HHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcC--CCCHHHHHHHH
Q 003457           13 LPIPPLSLLADKCKSMH---QLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQ--SPNHFMWNTLI   87 (818)
Q Consensus        13 p~~~tl~~ll~~c~~~~---~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~--~p~~~~yn~Li   87 (818)
                      ++...|..++..|...+   .+..++..+++  ..|+..++..+...|  .+.|++++|+++|+++.  .++..+|+.++
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~  157 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVY--CCTGDYARAKCLLTKEDLYNRSSACRYLAA  157 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHH--HHTTCHHHHHHHHHHTCGGGTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHH--HHcCcHHHHHHHHHHHhccccchhHHHHHH
Confidence            67778888888875444   45677777774  457888888899988  99999999999999994  68999999999


Q ss_pred             HHHHhCCChhHHHHHHHHHHHc---------------CCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHH
Q 003457           88 RAQASSLNPDKAIFLYMNMRRT---------------GFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHV  152 (818)
Q Consensus        88 ~~~~~~g~~~~Al~lf~~m~~~---------------g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  152 (818)
                      ..|.+.|++++|+++|+++...               +..++..+|..++..|.+.|++++|.+.|+++++.++. +...
T Consensus       158 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~  236 (597)
T 2xpi_A          158 FCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEA  236 (597)
T ss_dssp             HHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             HHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhHH
Confidence            9999999999999999853322               22345789999999999999999999999999987643 3333


Q ss_pred             HHHH--------------------------------------HHHHHhCCChHHHHHHHHHhhc--CCHHHHHHHHHHHH
Q 003457          153 VNCL--------------------------------------VRCYSVSSDLNNARQVFDEIRN--RTLNVWTTMISGYA  192 (818)
Q Consensus       153 ~~~L--------------------------------------i~~y~~~g~~~~A~~l~~~m~~--~d~~~~~~Li~~~~  192 (818)
                      +..+                                      +..|.+.|++++|.++|+++.+  ++..+|+.++..|.
T Consensus       237 ~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~  316 (597)
T 2xpi_A          237 FDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLF  316 (597)
T ss_dssp             HHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHH
Confidence            3332                                      5566788999999999999987  78999999999999


Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHH
Q 003457          193 QSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKA  272 (818)
Q Consensus       193 ~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~  272 (818)
                      +.|++++|+++|+++.+.+ +.+..++..++.++.+.|++++|.++++++.+.. +.+..+++.++.+|.+.|++++|.+
T Consensus       317 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  394 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARR  394 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHH
Confidence            9999999999999999876 4577889999999999999999999999999765 6678899999999999999999999


Q ss_pred             HHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCC
Q 003457          273 LFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGI  349 (818)
Q Consensus       273 ~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~  349 (818)
                      +|+++.+   .+..+|+.++.+|.+.|++++|+++|+++.+.+. .+..++..++.+|.+.|++++|.++|+++.+.  .
T Consensus       395 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~  471 (597)
T 2xpi_A          395 YFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQ-GTHLPYLFLGMQHMQLGNILLANEYLQSSYAL--F  471 (597)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--C
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--C
Confidence            9998764   5688999999999999999999999999998743 47789999999999999999999999999986  5


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-------CCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc
Q 003457          350 EPKIEHYGCMVDLLGRCGKVLEAEELIKRM-------VWKPD--VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG  420 (818)
Q Consensus       350 ~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-------~~~pd--~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~  420 (818)
                      +.+..+|+.++.+|.+.|++++|+++|+++       +..|+  ..+|..++.+|.+.|++++|++.++++++++|+++.
T Consensus       472 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  551 (597)
T 2xpi_A          472 QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDAN  551 (597)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHH
T ss_pred             CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChH
Confidence            567899999999999999999999999998       23676  789999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeeecCCC
Q 003457          421 VYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGNN  485 (818)
Q Consensus       421 ~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l~~~~  485 (818)
                      .|..++.+|.+.|++++|.+.++.+.                      +++|+++.++..+++++
T Consensus       552 ~~~~l~~~~~~~g~~~~A~~~~~~~l----------------------~~~p~~~~~~~~l~~~~  594 (597)
T 2xpi_A          552 VHTAIALVYLHKKIPGLAITHLHESL----------------------AISPNEIMASDLLKRAL  594 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH----------------------HHCTTCHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHH----------------------hcCCCChHHHHHHHHHH
Confidence            99999999999999999999887774                      88999999998887764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.6e-31  Score=313.36  Aligned_cols=410  Identities=10%  Similarity=-0.001  Sum_probs=355.2

Q ss_pred             CCCChhHHHHHHHHhcCchH---HHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCCC---------
Q 003457           11 PPLPIPPLSLLADKCKSMHQ---LKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSP---------   78 (818)
Q Consensus        11 ~~p~~~tl~~ll~~c~~~~~---~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p---------   78 (818)
                      ..|+..++..+..+|...++   +..++..+..  ..++..+++.++.+|  .++|++++|+++|+++...         
T Consensus       113 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~l~~~~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~  188 (597)
T 2xpi_A          113 ITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDL--YNRSSACRYLAAFCL--VKLYDWQGALNLLGETNPFRKDEKNANK  188 (597)
T ss_dssp             HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCG--GGTCHHHHHHHHHHH--HHTTCHHHHHHHHCSSCTTC--------
T ss_pred             hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhc--cccchhHHHHHHHHH--HHHhhHHHHHHHHhccCCcccccccccc
Confidence            34677788777777755544   4555555432  467899999999999  9999999999999965433         


Q ss_pred             ----------CHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHH---------------------------
Q 003457           79 ----------NHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFV---------------------------  121 (818)
Q Consensus        79 ----------~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~l---------------------------  121 (818)
                                +..+|+.++.+|.+.|++++|+++|++|.+.+.. +...+..+                           
T Consensus       189 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~  267 (597)
T 2xpi_A          189 LLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKED  267 (597)
T ss_dssp             --CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGG
T ss_pred             ccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhHHHHHHHHhhcccchhHHHHHHhcCCcccccch
Confidence                      4889999999999999999999999999986433 33333333                           


Q ss_pred             -----------HHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhc---CCHHHHHHH
Q 003457          122 -----------LKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRN---RTLNVWTTM  187 (818)
Q Consensus       122 -----------l~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~---~d~~~~~~L  187 (818)
                                 +..|.+.|++++|.++++++.+.  +++..+++.++.+|.+.|++++|.++|+++.+   .+..+|+.+
T Consensus       268 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  345 (597)
T 2xpi_A          268 AAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLH  345 (597)
T ss_dssp             HHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHH
T ss_pred             HHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHH
Confidence                       44566788999999999998876  47899999999999999999999999999975   356789999


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCH
Q 003457          188 ISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGAL  267 (818)
Q Consensus       188 i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~  267 (818)
                      +.++.+.|++++|.++++++.+.. +.+..++..++..|.+.|++++|.++|+++.+.. +.+..+++.++.+|.+.|++
T Consensus       346 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  423 (597)
T 2xpi_A          346 LASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEH  423 (597)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            999999999999999999998764 6678899999999999999999999999999875 55788999999999999999


Q ss_pred             HHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 003457          268 AKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMK  344 (818)
Q Consensus       268 ~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~  344 (818)
                      ++|.++|+++.+   .+..+|+.++.+|.+.|++++|+++|+++.+... .+..+|..++..|.+.|++++|.++|+++.
T Consensus       424 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  502 (597)
T 2xpi_A          424 DQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQ-YDPLLLNELGVVAFNKSDMQTAINHFQNAL  502 (597)
T ss_dssp             HHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            999999998764   4788999999999999999999999999998743 378899999999999999999999999988


Q ss_pred             HHh---CCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          345 RVY---GIEPK--IEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       345 ~~~---g~~p~--~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      +..   +..|+  ..+|..++.+|.+.|++++|++.|+++. ..| +..+|..++.+|.+.|++++|.+.|+++++++|+
T Consensus       503 ~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~  582 (597)
T 2xpi_A          503 LLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPN  582 (597)
T ss_dssp             HHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC
Confidence            753   45677  7899999999999999999999999983 334 7899999999999999999999999999999999


Q ss_pred             CcchHHHHHHHHH
Q 003457          418 NHGVYVVLSNMYA  430 (818)
Q Consensus       418 ~~~~y~~L~~~l~  430 (818)
                      ++..+..++.+|.
T Consensus       583 ~~~~~~~l~~~~~  595 (597)
T 2xpi_A          583 EIMASDLLKRALE  595 (597)
T ss_dssp             CHHHHHHHHHTTC
T ss_pred             ChHHHHHHHHHHh
Confidence            9999999988774

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.96  E-value=5.8e-26  Score=251.38  Aligned_cols=368  Identities=13%  Similarity=0.073  Sum_probs=325.0

Q ss_pred             hcCCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHH
Q 003457           60 SSSGDLSYATRLFNSIQ---SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQ  136 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~---~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~  136 (818)
                      .+.|++++|++.++++.   ..+...+..+...+.+.|++++|...++...+.. +.+..+|..+...+.+.|++++|.+
T Consensus        10 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~   88 (388)
T 1w3b_A           10 YQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIE   88 (388)
T ss_dssp             HHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHH
Confidence            67899999999998875   3456677788888999999999999999988763 3478899999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCC
Q 003457          137 IHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFE  213 (818)
Q Consensus       137 ~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~  213 (818)
                      .++++++..+. +...+..+..+|.+.|++++|.+.|+++.+.   +...+..+...+...|++++|++.|+++.+.. +
T Consensus        89 ~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p  166 (388)
T 1w3b_A           89 HYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-P  166 (388)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHcCcc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-C
Confidence            99999987533 6678999999999999999999999998753   45578889999999999999999999998874 5


Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHH
Q 003457          214 PNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMIS  290 (818)
Q Consensus       214 pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~  290 (818)
                      -+..++..+...+...|++++|...++++++.. +.+...+..+...+...|++++|...|++..+   .+..++..+..
T Consensus       167 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~  245 (388)
T 1w3b_A          167 NFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLAC  245 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHH
Confidence            567889999999999999999999999999886 55678888999999999999999999997764   46788999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHH
Q 003457          291 GLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVL  370 (818)
Q Consensus       291 ~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~  370 (818)
                      .|.+.|++++|++.|+++.+..+. +..++..+..++.+.|++++|...|+++.+.  .+.+..++..+...+.+.|+++
T Consensus       246 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~  322 (388)
T 1w3b_A          246 VYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIE  322 (388)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHH
Confidence            999999999999999999987433 5778899999999999999999999999986  5678899999999999999999


Q ss_pred             HHHHHHHHcC-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          371 EAEELIKRMV-WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       371 ~A~~~~~~m~-~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      +|++.|+++. ..| +..++..++..+.+.|++++|++.|++++++.|+++.+|..++.++.+.|+
T Consensus       323 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          323 EAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            9999999983 445 578999999999999999999999999999999999999999999887764

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.96  E-value=2.3e-26  Score=254.67  Aligned_cols=369  Identities=13%  Similarity=0.106  Sum_probs=324.0

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Q 003457           86 LIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSD  165 (818)
Q Consensus        86 Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~  165 (818)
                      +...+.+.|++++|++.|+++.+.... +...+..+...+.+.|++++|...++..++.. +.+...+..+...|.+.|+
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            345677899999999999999886332 55677777888999999999999999999875 4478899999999999999


Q ss_pred             hHHHHHHHHHhhc--C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 003457          166 LNNARQVFDEIRN--R-TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFV  242 (818)
Q Consensus       166 ~~~A~~l~~~m~~--~-d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~  242 (818)
                      +++|.+.|+++.+  | +..+|..+..++.+.|++++|++.|+++.+.. +.+...+..+...+...|++++|.+.++++
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  161 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            9999999999875  3 55689999999999999999999999999874 344566777888899999999999999999


Q ss_pred             HHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH
Q 003457          243 KMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDIT  319 (818)
Q Consensus       243 ~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t  319 (818)
                      .+.. +.+...+..+...|.+.|++++|.+.|+++.+   .+...|..+...+...|++++|+..|+++.+..+. +..+
T Consensus       162 l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~  239 (388)
T 1w3b_A          162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVV  239 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHH
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-CHHH
Confidence            9875 55678899999999999999999999998874   45678999999999999999999999999886432 5788


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHH
Q 003457          320 FVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV--WKPDVVMWGALLAACKN  397 (818)
Q Consensus       320 ~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~  397 (818)
                      +..+..++.+.|++++|.+.|+++.+.  .+.+..++..+...|.+.|++++|++.|+++.  .+.+..++..+...+.+
T Consensus       240 ~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  317 (388)
T 1w3b_A          240 HGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHH
Confidence            899999999999999999999999875  44568899999999999999999999999983  34578899999999999


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcc
Q 003457          398 HGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTP  477 (818)
Q Consensus       398 ~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~  477 (818)
                      .|++++|++.+++++++.|++...+..++.+|.+.|++++|++.++.+.                      +++|+++.+
T Consensus       318 ~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~----------------------~~~p~~~~a  375 (388)
T 1w3b_A          318 QGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAI----------------------RISPTFADA  375 (388)
T ss_dssp             TTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHH----------------------TTCTTCHHH
T ss_pred             cCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH----------------------hhCCCCHHH
Confidence            9999999999999999999999999999999999999999999887774                      888998887


Q ss_pred             eeeecC
Q 003457          478 FVLLNG  483 (818)
Q Consensus       478 ~v~l~~  483 (818)
                      |..++.
T Consensus       376 ~~~lg~  381 (388)
T 1w3b_A          376 YSNMGN  381 (388)
T ss_dssp             HHHHHH
T ss_pred             HHhHHH
Confidence            766543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=7.9e-23  Score=234.05  Aligned_cols=388  Identities=9%  Similarity=-0.038  Sum_probs=300.2

Q ss_pred             HHHHHHHhhhhcCCCHHHHHHHHhhcC--CCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 003457           50 ASRLLAFCALSSSGDLSYATRLFNSIQ--SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSN  127 (818)
Q Consensus        50 ~~~Ll~~~a~~k~g~~e~A~~lf~~~~--~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~  127 (818)
                      +..+-..+  .+.|++++|++.|+++.  .|+...|..+..+|.+.|++++|+..|+++.+.+.. +...+..+..++.+
T Consensus         9 ~~~~g~~~--~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~   85 (514)
T 2gw1_A            9 LKDKGNQF--FRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPD-YSKVLLRRASANEG   85 (514)
T ss_dssp             HHHHHHHH--HHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHH--HHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChH-HHHHHHHHHHHHHH
Confidence            33444445  78999999999999887  589999999999999999999999999999986433 66789999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHh-------------------------------
Q 003457          128 VRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEI-------------------------------  176 (818)
Q Consensus       128 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m-------------------------------  176 (818)
                      .|++++|...++++.+.+.. +......++..+.+......+.+.+..+                               
T Consensus        86 ~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           86 LGKFADAMFDLSVLSLNGDF-NDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             TTCHHHHHHHHHHHHHSSSC-CGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HhhHHHHHHHHHHHHhcCCC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            99999999999999987643 3333333333333322222222211100                               


Q ss_pred             -------h----------cCCHHHHHHHHHHHHH---cCChHHHHHHHHHHHH-----cCC--------CCCHHHHHHHH
Q 003457          177 -------R----------NRTLNVWTTMISGYAQ---SFRANEALMLFDQMLM-----EGF--------EPNSVTLASVL  223 (818)
Q Consensus       177 -------~----------~~d~~~~~~Li~~~~~---~g~~~~A~~l~~~m~~-----~g~--------~pd~~t~~~ll  223 (818)
                             .          ..+...+..+...+..   .|++++|+..|+++.+     ..-        +.+...+..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence                   0          0013445555555554   7899999999999887     311        22345677778


Q ss_pred             HHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHH
Q 003457          224 SACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEE  300 (818)
Q Consensus       224 ~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~  300 (818)
                      ..+...|++++|...++++.+....  ...+..+..+|.+.|++++|.+.|+++.+   .+...|..+...|...|++++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  322 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQ  322 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHH
Confidence            8888999999999999999887633  77888889999999999999999988765   466788888999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC
Q 003457          301 ALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV  380 (818)
Q Consensus       301 A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~  380 (818)
                      |+..|+++.+.... +...+..+...+...|++++|...++++.+.  .+.+...+..+...|.+.|++++|++.|+++.
T Consensus       323 A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  399 (514)
T 2gw1_A          323 AGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYDLAI  399 (514)
T ss_dssp             HHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999999886443 5667888888899999999999999998876  45567888889999999999999999998872


Q ss_pred             ----CCCC----HHHHHHHHHHHHH---cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          381 ----WKPD----VVMWGALLAACKN---HGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       381 ----~~pd----~~~~~~Li~a~~~---~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                          ..++    ...+..+...+..   .|++++|++.++++++..|++..++..++.+|.+.|++++|.+.++...
T Consensus       400 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  476 (514)
T 2gw1_A          400 ELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESA  476 (514)
T ss_dssp             HHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence                1222    3488888888888   8999999999999999999999999999999999999999999776653

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.91  E-value=2e-23  Score=238.05  Aligned_cols=183  Identities=14%  Similarity=0.116  Sum_probs=159.3

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC---------hHHHHHHHHHHHHcCCCCCHH
Q 003457           81 FMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRS---------LNCCKQIHTHVSKSGLDLDLH  151 (818)
Q Consensus        81 ~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~---------~~~A~~~~~~m~~~g~~p~~~  151 (818)
                      ..++.+|++|++.|++++|+++|++|++.|++||..||+.||.+|++.+.         ++.|.++|++|.+.|+.||..
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~  106 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHH
Confidence            45788888888888888888888888888888888888888888876654         678888888888888888888


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHhhc----CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 003457          152 VVNCLVRCYSVSSDLNNARQVFDEIRN----RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACA  227 (818)
Q Consensus       152 ~~~~Li~~y~~~g~~~~A~~l~~~m~~----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~  227 (818)
                      +|++||.+|++.|++++|.++|++|.+    +|..+|+.||.+|++.|+.++|.++|++|.+.|+.||..||+.||.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            888888888888888888888888875    4888888999999999999999999999998899999999999999999


Q ss_pred             hcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh
Q 003457          228 QSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTK  263 (818)
Q Consensus       228 ~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~  263 (818)
                      +.|+.++|.+++++|.+.+..|+..+|+.++..|+.
T Consensus       187 ~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             hCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            999999999999999988888999999888888765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.91  E-value=1.7e-21  Score=223.04  Aligned_cols=393  Identities=11%  Similarity=-0.046  Sum_probs=312.4

Q ss_pred             hcCchHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHhCCChhHHHH
Q 003457           25 CKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQ---SPNHFMWNTLIRAQASSLNPDKAIF  101 (818)
Q Consensus        25 c~~~~~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~---~p~~~~yn~Li~~~~~~g~~~~Al~  101 (818)
                      .+....+...+..+++..  |+...+..+...|  .+.|++++|++.|+++.   ..+...|..+..+|.+.|++++|+.
T Consensus        19 ~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~--~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   94 (514)
T 2gw1_A           19 NKKYDDAIKYYNWALELK--EDPVFYSNLSACY--VSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEGLGKFADAMF   94 (514)
T ss_dssp             TSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHH--HHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hccHHHHHHHHHHHHhcC--ccHHHHHhHHHHH--HHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            456667788888888876  7888999888888  99999999999999876   3567899999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH-----------------------------------HcCC
Q 003457          102 LYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVS-----------------------------------KSGL  146 (818)
Q Consensus       102 lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~-----------------------------------~~g~  146 (818)
                      .|+++.+.+. ++......++..+........+.+.+..+.                                   ....
T Consensus        95 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  173 (514)
T 2gw1_A           95 DLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKP  173 (514)
T ss_dssp             HHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCC
T ss_pred             HHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCH
Confidence            9999998753 243333344443333222222222221110                                   0000


Q ss_pred             ---------CCCHHHHHHHHHHHHh---CCChHHHHHHHHHhhc-----C------------CHHHHHHHHHHHHHcCCh
Q 003457          147 ---------DLDLHVVNCLVRCYSV---SSDLNNARQVFDEIRN-----R------------TLNVWTTMISGYAQSFRA  197 (818)
Q Consensus       147 ---------~p~~~~~~~Li~~y~~---~g~~~~A~~l~~~m~~-----~------------d~~~~~~Li~~~~~~g~~  197 (818)
                               +.+...+..+...+..   .|++++|.+.|+++.+     .            +...|..+...+...|++
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  253 (514)
T 2gw1_A          174 ELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDP  253 (514)
T ss_dssp             CCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCH
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCH
Confidence                     1114444555555554   8999999999998876     2            344788899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhC
Q 003457          198 NEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSM  277 (818)
Q Consensus       198 ~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m  277 (818)
                      ++|+..|+++.+..  |+...+..+..++...|++++|...++++.+.. +.+...+..+..+|.+.|++++|...|+++
T Consensus       254 ~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  330 (514)
T 2gw1_A          254 LGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKA  330 (514)
T ss_dssp             HHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            99999999999875  447888889999999999999999999999875 556788899999999999999999999987


Q ss_pred             CC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC--
Q 003457          278 PE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK--  352 (818)
Q Consensus       278 ~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~--  352 (818)
                      .+   .+...+..+...|...|++++|+..++++.+.... +...+..+..++.+.|++++|...++++.+.....++  
T Consensus       331 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~  409 (514)
T 2gw1_A          331 KELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPE-APEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIY  409 (514)
T ss_dssp             HHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCS
T ss_pred             HHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHccc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHH
Confidence            53   46778999999999999999999999999886432 5678888999999999999999999998875323333  


Q ss_pred             --HHHHHHHHHHHHH---cCCHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHH
Q 003457          353 --IEHYGCMVDLLGR---CGKVLEAEELIKRMV-WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVL  425 (818)
Q Consensus       353 --~~~~~~Li~~~~~---~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L  425 (818)
                        ...+..+...|.+   .|++++|.+.|+++. ..| +..++..+...|.+.|++++|.+.|++++++.|++...+..+
T Consensus       410 ~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  489 (514)
T 2gw1_A          410 VGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAI  489 (514)
T ss_dssp             SCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHHHH
Confidence              4489999999999   999999999999982 334 678899999999999999999999999999999988777666


Q ss_pred             H
Q 003457          426 S  426 (818)
Q Consensus       426 ~  426 (818)
                      .
T Consensus       490 ~  490 (514)
T 2gw1_A          490 T  490 (514)
T ss_dssp             H
T ss_pred             H
Confidence            3

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.91  E-value=8.8e-24  Score=240.96  Aligned_cols=210  Identities=13%  Similarity=0.119  Sum_probs=160.9

Q ss_pred             HHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHh
Q 003457           98 KAIFLYMNMRRTGFAPNQH-TFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEI  176 (818)
Q Consensus        98 ~Al~lf~~m~~~g~~pd~~-ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m  176 (818)
                      .+..+.+++++.+..+... .++.+|.+|++.|++++|.++|++|.+.|++||..+|+.||.+|++.+...++       
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~-------   80 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES-------   80 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS-------
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh-------
Confidence            4556667777777765544 58889999999999999999999999999999999999999999887765432       


Q ss_pred             hcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHH
Q 003457          177 RNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTA  256 (818)
Q Consensus       177 ~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~  256 (818)
                                     .+.+..++|.++|++|.+.|+.||..||+.||.+|++.|++++|.+++++|.+.|+.|+..+|+.
T Consensus        81 ---------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~  145 (501)
T 4g26_A           81 ---------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGP  145 (501)
T ss_dssp             ---------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             ---------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehH
Confidence                           12344677888888998889999999999999999999999999999999998888888888888


Q ss_pred             HHHHHHhCCCHHHHHHHHhhCCC----CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 003457          257 LVHMYTKNGALAKAKALFDSMPE----RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCH  329 (818)
Q Consensus       257 Li~~~~~~g~~~~A~~~f~~m~~----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~  329 (818)
                      ||.+|++.|++++|.++|++|.+    ||..+|++||.+|++.|+.++|.++|++|++.|..|+..||+.++..|+.
T Consensus       146 lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          146 ALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            88888888777777777777753    67777888888888888888888888888888888888888887777664

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.90  E-value=8.9e-21  Score=213.49  Aligned_cols=334  Identities=8%  Similarity=-0.058  Sum_probs=229.7

Q ss_pred             CHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003457           79 NHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVR  158 (818)
Q Consensus        79 ~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~  158 (818)
                      +...|..+...+.+.|++++|+.+|+++.+... .+...+..+...+...|++++|...++++++.++. +...+..+..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~  102 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD-FTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHHHH
Confidence            445566666667777777777777777665422 25666666666777777777777777777665432 4566666677


Q ss_pred             HHHhCCChHHHHHHHHHhhcCC---H---HHHHHH------------HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 003457          159 CYSVSSDLNNARQVFDEIRNRT---L---NVWTTM------------ISGYAQSFRANEALMLFDQMLMEGFEPNSVTLA  220 (818)
Q Consensus       159 ~y~~~g~~~~A~~l~~~m~~~d---~---~~~~~L------------i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~  220 (818)
                      +|.+.|++++|.+.|+++.+.+   .   ..+..+            ...+.+.|++++|+..|+++.+.. +.+...+.
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  181 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRE  181 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHH
Confidence            7777777777777777665432   2   344433            444777888888888888887764 45677777


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHH---------
Q 003457          221 SVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAM---------  288 (818)
Q Consensus       221 ~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~L---------  288 (818)
                      .+..++.+.|++++|...++++.+.. +.+..++..++.+|.+.|++++|.+.|+++.+   .+...+..+         
T Consensus       182 ~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  260 (450)
T 2y4t_A          182 LRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKL  260 (450)
T ss_dssp             HHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHH
Confidence            78888888888888888888887764 45667777788888888888888888877653   233344433         


Q ss_pred             ---HHHHHHcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Q 003457          289 ---ISGLASHGHAEEALDLFRKLEKEQIVPN----DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVD  361 (818)
Q Consensus       289 ---i~~~~~~g~~~~A~~l~~~m~~~g~~pd----~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~  361 (818)
                         +..|.+.|++++|+.+|+++.+..+. +    ...+..+..++.+.|++++|...++++.+.  .+.+...|..+..
T Consensus       261 ~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~  337 (450)
T 2y4t_A          261 IESAEELIRDGRYTDATSKYESVMKTEPS-IAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQM--EPDNVNALKDRAE  337 (450)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHH
Confidence               67788888888888888888775322 2    346677778888888888888888887765  3456788888888


Q ss_pred             HHHHcCCHHHHHHHHHHc-CCCCC-HHHHHHHHHH------------HHHcC-----CHHHHHHHHHH-HHhcCCCCc
Q 003457          362 LLGRCGKVLEAEELIKRM-VWKPD-VVMWGALLAA------------CKNHG-----NIEVAERVVKE-IIALEPNNH  419 (818)
Q Consensus       362 ~~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a------------~~~~g-----~~~~A~~~~~~-~~~~~P~~~  419 (818)
                      +|.+.|++++|.+.|+++ ...|+ ...+..+..+            |...|     +.+++.+.|++ +++..|++.
T Consensus       338 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~  415 (450)
T 2y4t_A          338 AYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHPDNF  415 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGGC
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCCCCC
Confidence            888888888888888887 44453 5555555533            22233     55677777775 677777743

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.89  E-value=1.9e-20  Score=210.81  Aligned_cols=325  Identities=11%  Similarity=-0.015  Sum_probs=268.3

Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhc
Q 003457           99 AIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRN  178 (818)
Q Consensus        99 Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~  178 (818)
                      +...+.+.... -+.+...+..+...+.+.|++++|..+|+++++..+ .+...+..+..+|.+.|++++|.+.|+++.+
T Consensus        11 ~~~~~~~~~~~-~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   88 (450)
T 2y4t_A           11 VDLGTENLYFQ-SMADVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIQ   88 (450)
T ss_dssp             -------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccccc-cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            33444444443 223567888999999999999999999999998753 3788999999999999999999999999875


Q ss_pred             C---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH---HHHHHH------------HHHHHhcCChhHHHHHHH
Q 003457          179 R---TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNS---VTLASV------------LSACAQSGCLELGEKVHV  240 (818)
Q Consensus       179 ~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~---~t~~~l------------l~~~~~~g~~~~A~~i~~  240 (818)
                      .   +..+|..++..|.+.|++++|++.|+++.+.. +.+.   ..+..+            ...+...|++++|...++
T Consensus        89 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~  167 (450)
T 2y4t_A           89 LKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLD  167 (450)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3   56789999999999999999999999998763 2233   444444            444889999999999999


Q ss_pred             HHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH
Q 003457          241 FVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPND  317 (818)
Q Consensus       241 ~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~  317 (818)
                      ++.+.. +.+...+..++.+|.+.|++++|.+.|+++.+   .+..+|..++..|...|++++|+..|+++.+.... +.
T Consensus       168 ~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~  245 (450)
T 2y4t_A          168 KILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HK  245 (450)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CH
T ss_pred             HHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hH
Confidence            999875 56788899999999999999999999998874   57889999999999999999999999999876332 34


Q ss_pred             HHHHHH------------HHHHHHcCCHHHHHHHHHHHHHHhCCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHc-
Q 003457          318 ITFVGV------------LSACCHAGFIDVGRQIFGSMKRVYGIEPK-----IEHYGCMVDLLGRCGKVLEAEELIKRM-  379 (818)
Q Consensus       318 ~t~~~l------------l~a~~~~g~~~~A~~~~~~m~~~~g~~p~-----~~~~~~Li~~~~~~g~~~~A~~~~~~m-  379 (818)
                      ..+..+            +..|.+.|++++|...|+++.+.   .|+     ...+..+..++.+.|++++|++.++++ 
T Consensus       246 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  322 (450)
T 2y4t_A          246 RCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVL  322 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            444444            78899999999999999999875   343     457889999999999999999999998 


Q ss_pred             CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHH
Q 003457          380 VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAE  431 (818)
Q Consensus       380 ~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~  431 (818)
                      ...| +...|..++.+|...|++++|++.+++++++.|+++..+..++.+...
T Consensus       323 ~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  375 (450)
T 2y4t_A          323 QMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRL  375 (450)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHH
Confidence            3344 689999999999999999999999999999999999999998855443

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.89  E-value=8.8e-21  Score=218.60  Aligned_cols=385  Identities=9%  Similarity=0.001  Sum_probs=295.5

Q ss_pred             HHHHHHHHHhhhhcCCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457           48 FAASRLLAFCALSSSGDLSYATRLFNSIQ---SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKA  124 (818)
Q Consensus        48 ~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~---~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~  124 (818)
                      ..+..+-..+  .+.|++++|++.|+++.   ..+...|..+..+|.+.|++++|++.|+++.+.+.. +...+..+...
T Consensus        26 ~~~~~~g~~~--~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~  102 (537)
T 3fp2_A           26 VQLKNRGNHF--FTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPD-HSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHH--HHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHH--HHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-hHHHHHHHHHH
Confidence            3444444555  78999999999999876   357788888999999999999999999998886433 67788888888


Q ss_pred             HHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCC----------HH------------
Q 003457          125 CSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRT----------LN------------  182 (818)
Q Consensus       125 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d----------~~------------  182 (818)
                      +...|++++|...++ .+.......    ...+..+...+..++|...++++...+          ..            
T Consensus       103 ~~~~g~~~~A~~~~~-~~~~~~~~~----~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  177 (537)
T 3fp2_A          103 NESLGNFTDAMFDLS-VLSLNGDFD----GASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSH  177 (537)
T ss_dssp             HHHHTCHHHHHHHHH-HHC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHH
T ss_pred             HHHcCCHHHHHHHHH-HHhcCCCCC----hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChH
Confidence            999999999999886 433322211    222334445555667777777764421          00            


Q ss_pred             ------------------HHHHHHHHHH--------HcCChHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHhc
Q 003457          183 ------------------VWTTMISGYA--------QSFRANEALMLFDQMLMEGFEPNS-------VTLASVLSACAQS  229 (818)
Q Consensus       183 ------------------~~~~Li~~~~--------~~g~~~~A~~l~~~m~~~g~~pd~-------~t~~~ll~~~~~~  229 (818)
                                        ....+...+.        ..+++++|+.+|+++.+.. +.+.       .++..+...+...
T Consensus       178 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~g~~~~~~  256 (537)
T 3fp2_A          178 LEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN-TVDDPLRENAALALCYTGIFHFLK  256 (537)
T ss_dssp             HHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC-CCcchhhHHHHHHHHHHHHHHHhc
Confidence                              1122222211        2257899999999998763 2232       3466677788899


Q ss_pred             CChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHH
Q 003457          230 GCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFR  306 (818)
Q Consensus       230 g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~  306 (818)
                      |++++|...++++.+..  |+...+..+...|.+.|++++|.+.|+++.+   .+..+|..+...|...|++++|+..|+
T Consensus       257 ~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  334 (537)
T 3fp2_A          257 NNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQ  334 (537)
T ss_dssp             TCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            99999999999999875  4478888899999999999999999998764   467889999999999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC----CC
Q 003457          307 KLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV----WK  382 (818)
Q Consensus       307 ~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~----~~  382 (818)
                      ++.+.... +...+..+..++...|++++|...++++.+.  .+.+...+..+...|.+.|++++|++.|+++.    ..
T Consensus       335 ~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~  411 (537)
T 3fp2_A          335 KAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQ  411 (537)
T ss_dssp             HHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcc
Confidence            99987433 4678888999999999999999999999886  45667899999999999999999999999872    11


Q ss_pred             ----CCHHHHHHHHHHHHHc----------CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          383 ----PDVVMWGALLAACKNH----------GNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       383 ----pd~~~~~~Li~a~~~~----------g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                          .....+..+...+.+.          |++++|+..|+++++..|++..++..++.+|.+.|++++|.+.++...
T Consensus       412 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  489 (537)
T 3fp2_A          412 EKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSA  489 (537)
T ss_dssp             SSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence                1233455566677777          999999999999999999999999999999999999999999776653

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.86  E-value=3.6e-19  Score=205.10  Aligned_cols=387  Identities=12%  Similarity=0.001  Sum_probs=295.0

Q ss_pred             hcCchHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHhCCChhHHHH
Q 003457           25 CKSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQ---SPNHFMWNTLIRAQASSLNPDKAIF  101 (818)
Q Consensus        25 c~~~~~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~---~p~~~~yn~Li~~~~~~g~~~~Al~  101 (818)
                      .++...+...+..+++.. ..+...+..+...|  .+.|++++|++.|+++.   ..+...|..+...+.+.|++++|+.
T Consensus        38 ~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~--~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~  114 (537)
T 3fp2_A           38 AKNFNEAIKYYQYAIELD-PNEPVFYSNISACY--ISTGDLEKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMF  114 (537)
T ss_dssp             TTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHH--HHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             hccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHH--HHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHH
Confidence            355566678888888764 34677888888877  89999999999999876   3568899999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcC------CCCCHH------------------------
Q 003457          102 LYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSG------LDLDLH------------------------  151 (818)
Q Consensus       102 lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g------~~p~~~------------------------  151 (818)
                      .|+.+..   .|+...  ..+..+...+....+...++.+++..      ..|+..                        
T Consensus       115 ~~~~~~~---~~~~~~--~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (537)
T 3fp2_A          115 DLSVLSL---NGDFDG--ASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNY  189 (537)
T ss_dssp             HHHHHC----------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSS
T ss_pred             HHHHHhc---CCCCCh--HHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhcccc
Confidence            9974422   233221  12333444445567777777775431      111111                        


Q ss_pred             ------HHHHHHHHHHh--------CCChHHHHHHHHHhhcCC----------HHHHHHHHHHHHHcCChHHHHHHHHHH
Q 003457          152 ------VVNCLVRCYSV--------SSDLNNARQVFDEIRNRT----------LNVWTTMISGYAQSFRANEALMLFDQM  207 (818)
Q Consensus       152 ------~~~~Li~~y~~--------~g~~~~A~~l~~~m~~~d----------~~~~~~Li~~~~~~g~~~~A~~l~~~m  207 (818)
                            ....+...+..        .+++++|.++|+++.+.+          ..++..+...+...|++++|+..|+++
T Consensus       190 ~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~  269 (537)
T 3fp2_A          190 DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQES  269 (537)
T ss_dssp             CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence                  22223322222        247899999999987642          225777888899999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhh
Q 003457          208 LMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIAT  284 (818)
Q Consensus       208 ~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~  284 (818)
                      .+.  .|+...+..+...+...|++++|...++++.+.. +.+..++..+...|.+.|++++|.+.|+++.+   .+...
T Consensus       270 ~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~  346 (537)
T 3fp2_A          270 INL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYP  346 (537)
T ss_dssp             HHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHH
T ss_pred             Hhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHH
Confidence            986  4668888889999999999999999999999886 55788899999999999999999999998864   45678


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCC----CHHHHHHHH
Q 003457          285 WNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP----KIEHYGCMV  360 (818)
Q Consensus       285 ~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p----~~~~~~~Li  360 (818)
                      |..+...|...|++++|+..++++.+... .+...+..+..++...|++++|...|+++.+.....+    ....+..+.
T Consensus       347 ~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a  425 (537)
T 3fp2_A          347 YIQLACLLYKQGKFTESEAFFNETKLKFP-TLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKA  425 (537)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHH
Confidence            99999999999999999999999998743 3567888899999999999999999999876521111    233355666


Q ss_pred             HHHHHc----------CCHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHH
Q 003457          361 DLLGRC----------GKVLEAEELIKRMV-WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYV  423 (818)
Q Consensus       361 ~~~~~~----------g~~~~A~~~~~~m~-~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~  423 (818)
                      ..|.+.          |++++|++.|+++. ..| +...+..+...|.+.|++++|++.|++++++.|++.....
T Consensus       426 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  500 (537)
T 3fp2_A          426 TILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEKLQ  500 (537)
T ss_dssp             HHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHHHH
T ss_pred             HHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHH
Confidence            778888          99999999999983 334 5788999999999999999999999999999999766544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.86  E-value=4.3e-19  Score=192.25  Aligned_cols=311  Identities=11%  Similarity=-0.009  Sum_probs=183.7

Q ss_pred             CHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhc---CCHHHHHHHHHH
Q 003457          114 NQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRN---RTLNVWTTMISG  190 (818)
Q Consensus       114 d~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~---~d~~~~~~Li~~  190 (818)
                      |...+..+...+...|++++|...++++++..+. +...+..+..+|...|++++|.+.|+++.+   .+...|..+...
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~   80 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHL   80 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            4556777888888888999999988888887543 677888888888888888888888888765   255678888888


Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCC----CHHHHHHH------------HHHHHhcCChhHHHHHHHHHHHcCCCCcHHHH
Q 003457          191 YAQSFRANEALMLFDQMLMEGFEP----NSVTLASV------------LSACAQSGCLELGEKVHVFVKMRGFEMGAILG  254 (818)
Q Consensus       191 ~~~~g~~~~A~~l~~~m~~~g~~p----d~~t~~~l------------l~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~  254 (818)
                      +...|++++|+..|+++.+.  .|    +...+..+            ...+...|++++|...++++.+.. +.+...+
T Consensus        81 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  157 (359)
T 3ieg_A           81 LLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELR  157 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHH
Confidence            88888888888888888765  34    33333333            345555666666666666666553 3445555


Q ss_pred             HHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH---------
Q 003457          255 TALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVG---------  322 (818)
Q Consensus       255 ~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~---------  322 (818)
                      ..+..+|.+.|++++|.+.|+++.+   .+...|..+...|...|++++|...|+++.+.... +...+..         
T Consensus       158 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~  236 (359)
T 3ieg_A          158 ELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNK  236 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHHH
Confidence            5556666666666666666655443   24455555555666666666666666665554221 2222211         


Q ss_pred             ---HHHHHHHcCCHHHHHHHHHHHHHHhCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-CHHHHHHHHH
Q 003457          323 ---VLSACCHAGFIDVGRQIFGSMKRVYGIEPKI----EHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-DVVMWGALLA  393 (818)
Q Consensus       323 ---ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~----~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~  393 (818)
                         +...+.+.|++++|...++++.+.  .+.+.    ..+..+..+|.+.|++++|++.|+++. ..| +...+..+..
T Consensus       237 ~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~  314 (359)
T 3ieg_A          237 LIESAEELIRDGRYTDATSKYESVMKT--EPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAE  314 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence               133344555555555555555443  11121    123334445555555555555555441 122 3445555555


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHH
Q 003457          394 ACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAE  431 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~  431 (818)
                      .+...|++++|++.|+++++++|++...+..+..++..
T Consensus       315 ~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~  352 (359)
T 3ieg_A          315 AYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRL  352 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            55555555555555555555555555554444444433

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.86  E-value=2.2e-18  Score=186.60  Aligned_cols=292  Identities=8%  Similarity=-0.087  Sum_probs=142.2

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003457           81 FMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCY  160 (818)
Q Consensus        81 ~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y  160 (818)
                      ..+..+...+.+.|++++|+..|+++.+.... +...+..+...+...|++++|...++++++..+. +...+..+..+|
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~   81 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHHHH
Confidence            34444555555555555555555555543222 3445555555555555555555555555554321 344555555555


Q ss_pred             HhCCChHHHHHHHHHhhcCCH---H---HHHHH------------HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 003457          161 SVSSDLNNARQVFDEIRNRTL---N---VWTTM------------ISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASV  222 (818)
Q Consensus       161 ~~~g~~~~A~~l~~~m~~~d~---~---~~~~L------------i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~l  222 (818)
                      .+.|++++|.+.|+++.+.++   .   .+..+            ...+...|++++|++.++++.+.. +.+...+..+
T Consensus        82 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~  160 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELR  160 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            555555555555555544222   1   22222            344555555555555555555442 3344445555


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHH------------H
Q 003457          223 LSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWN------------A  287 (818)
Q Consensus       223 l~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~------------~  287 (818)
                      ...+...|++++|...++++.+.. +.+...+..+...|.+.|++++|.+.|+++.+   .+...+.            .
T Consensus       161 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  239 (359)
T 3ieg_A          161 AECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIE  239 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHHHHHH
Confidence            555555555555555555555443 33444555555555555555555555554432   1222221            1


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Q 003457          288 MISGLASHGHAEEALDLFRKLEKEQIVPND----ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLL  363 (818)
Q Consensus       288 Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~----~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~  363 (818)
                      +...+.+.|++++|+..++++.+.... +.    ..+..+..++.+.|++++|...++++.+.  .+.+...+..+...|
T Consensus       240 ~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~  316 (359)
T 3ieg_A          240 SAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQM--EPDNVNALKDRAEAY  316 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHH
Confidence            133455555555555555555543221 11    11223444555555555555555555543  233445555555555


Q ss_pred             HHcCCHHHHHHHHHHc
Q 003457          364 GRCGKVLEAEELIKRM  379 (818)
Q Consensus       364 ~~~g~~~~A~~~~~~m  379 (818)
                      .+.|++++|.+.|+++
T Consensus       317 ~~~g~~~~A~~~~~~a  332 (359)
T 3ieg_A          317 LIEEMYDEAIQDYEAA  332 (359)
T ss_dssp             HHTTCHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHH
Confidence            5555555555555554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.83  E-value=8.5e-17  Score=183.96  Aligned_cols=367  Identities=10%  Similarity=-0.027  Sum_probs=312.9

Q ss_pred             CChHHHHHHHHHhhhhc----CCCHHHHHHHHhhcC-CCCHHHHHHHHHHHHh----CCChhHHHHHHHHHHHcCCCCCH
Q 003457           45 QDHFAASRLLAFCALSS----SGDLSYATRLFNSIQ-SPNHFMWNTLIRAQAS----SLNPDKAIFLYMNMRRTGFAPNQ  115 (818)
Q Consensus        45 ~d~~~~~~Ll~~~a~~k----~g~~e~A~~lf~~~~-~p~~~~yn~Li~~~~~----~g~~~~Al~lf~~m~~~g~~pd~  115 (818)
                      -+......|-.+|  ..    .+++++|.+.|++.. ..+...+..|...|..    .+++++|+..|++..+.|   +.
T Consensus        37 g~~~a~~~lg~~y--~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           37 GEAKAQLELGYRY--FQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             TCHHHHHHHHHHH--HHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CCHHHHHHHHHHH--HcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            4667777777667  55    899999999999876 4678889999999998    899999999999998864   66


Q ss_pred             HHHHHHHHHHHc----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----CCChHHHHHHHHHhhcC-CHHHHHH
Q 003457          116 HTFTFVLKACSN----VRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSV----SSDLNNARQVFDEIRNR-TLNVWTT  186 (818)
Q Consensus       116 ~ty~~ll~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~----~g~~~~A~~l~~~m~~~-d~~~~~~  186 (818)
                      ..+..|...+..    .+++++|.+.+++..+.+   +...+..|..+|..    .++.++|.+.|++..+. +..++..
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~  188 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQ  188 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            777788888887    789999999999999876   66778888888987    88999999999988764 7778999


Q ss_pred             HHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCcHHHHHHHH
Q 003457          187 MISGYAQ----SFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQ----SGCLELGEKVHVFVKMRGFEMGAILGTALV  258 (818)
Q Consensus       187 Li~~~~~----~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~----~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li  258 (818)
                      |...|..    .+++++|++.|++..+.+   +...+..+...|..    .++.++|...+++..+.+   +...+..|.
T Consensus       189 Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg  262 (490)
T 2xm6_A          189 LGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLG  262 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHH
T ss_pred             HHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            9999998    899999999999998875   56777778888876    789999999999998865   456677788


Q ss_pred             HHHHh----CCCHHHHHHHHhhCCC-CChhhHHHHHHHHHHc-----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 003457          259 HMYTK----NGALAKAKALFDSMPE-RNIATWNAMISGLASH-----GHAEEALDLFRKLEKEQIVPNDITFVGVLSACC  328 (818)
Q Consensus       259 ~~~~~----~g~~~~A~~~f~~m~~-~d~~~~~~Li~~~~~~-----g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~  328 (818)
                      .+|..    .++.++|.+.|++..+ .+...+..|...|...     +++++|+..|++..+.+   +...+..+...|.
T Consensus       263 ~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~  339 (490)
T 2xm6_A          263 YILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYF  339 (490)
T ss_dssp             HHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHH
Confidence            88888    8999999999998876 4677888888889887     89999999999999875   5567778888888


Q ss_pred             HcC---CHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----
Q 003457          329 HAG---FIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR----CGKVLEAEELIKRMVWKPDVVMWGALLAACKN----  397 (818)
Q Consensus       329 ~~g---~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~----~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~----  397 (818)
                      +.|   ++++|.+.|++..+.    .+...+..|..+|..    .+++++|++.|+++....+...+..|...|.+    
T Consensus       340 ~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~  415 (490)
T 2xm6_A          340 RLGSEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGV  415 (490)
T ss_dssp             HSCCHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSS
T ss_pred             hCCCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCC
Confidence            766   789999999998864    568899999999999    89999999999998545578889999999988    


Q ss_pred             cCCHHHHHHHHHHHHhcCCC---CcchHHHHHHHHHHh
Q 003457          398 HGNIEVAERVVKEIIALEPN---NHGVYVVLSNMYAEA  432 (818)
Q Consensus       398 ~g~~~~A~~~~~~~~~~~P~---~~~~y~~L~~~l~~~  432 (818)
                      .++.++|...|+++.+.+|+   ++.+...++.++.+.
T Consensus       416 ~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~~  453 (490)
T 2xm6_A          416 ERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAKQ  453 (490)
T ss_dssp             CCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHhH
Confidence            89999999999999999954   788888888776643

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.81  E-value=2.8e-18  Score=183.89  Aligned_cols=278  Identities=13%  Similarity=0.038  Sum_probs=131.9

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457          149 DLHVVNCLVRCYSVSSDLNNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSA  225 (818)
Q Consensus       149 ~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~  225 (818)
                      +...+..++..+...|++++|.++|+++.+.   +...+..++..+...|++++|+.+++++.+.. +.+...+..+...
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~   99 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCY   99 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHH
Confidence            3344445555555556666666666555432   22344445555555556666666555555542 3334445555555


Q ss_pred             HHhcC-ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHH
Q 003457          226 CAQSG-CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEA  301 (818)
Q Consensus       226 ~~~~g-~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A  301 (818)
                      +...| ++++|...++++.+.. +.+...+..+..+|...|++++|.+.|+++.+   .+...+..+...|...|++++|
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLA  178 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHH
Confidence            55555 5555555555555443 22334444455555555555555555544432   2233444444445555555555


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCC-------CCCHHHHHHHHHHHHHcCCHHHHHH
Q 003457          302 LDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGI-------EPKIEHYGCMVDLLGRCGKVLEAEE  374 (818)
Q Consensus       302 ~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~-------~p~~~~~~~Li~~~~~~g~~~~A~~  374 (818)
                      +..++++.+... .+...+..+...+...|++++|...++++.+...-       +.+...+..+...|.+.|++++|++
T Consensus       179 ~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  257 (330)
T 3hym_B          179 ERFFSQALSIAP-EDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALD  257 (330)
T ss_dssp             HHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhCC-CChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            555555444321 13344444444455555555555555444433100       2223344444444444444444444


Q ss_pred             HHHHcC-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 003457          375 LIKRMV-WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMY  429 (818)
Q Consensus       375 ~~~~m~-~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l  429 (818)
                      .|+++. ..| +...+..+...+.+.|++++|.+.+++++++.|+++..+..++.++
T Consensus       258 ~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  314 (330)
T 3hym_B          258 YHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCI  314 (330)
T ss_dssp             HHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHH
T ss_pred             HHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHH
Confidence            444441 111 2344444444444444444444444444444444444444444444

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.81  E-value=4.3e-18  Score=182.35  Aligned_cols=261  Identities=9%  Similarity=0.006  Sum_probs=173.3

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 003457          180 TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVH  259 (818)
Q Consensus       180 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~  259 (818)
                      +...+..++..+...|++++|+++|+++.+.. +.+...+..++.++...|++++|...++++.+.. +.+...+..+..
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHH
Confidence            44455666666777777777777777776653 3344455556666667777777777777777654 445566666777


Q ss_pred             HHHhCC-CHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 003457          260 MYTKNG-ALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDV  335 (818)
Q Consensus       260 ~~~~~g-~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~  335 (818)
                      .+...| ++++|.+.|+++.+   .+...|..+...|...|++++|+..|+++.+.... +...+..+...+...|++++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~  177 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKL  177 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHH
Confidence            777777 77777777776554   34556777777777777777777777777665322 34455556667777777777


Q ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCC-----------CCCHHHHHHHHHHHHHcCCHHHH
Q 003457          336 GRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVW-----------KPDVVMWGALLAACKNHGNIEVA  404 (818)
Q Consensus       336 A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~-----------~pd~~~~~~Li~a~~~~g~~~~A  404 (818)
                      |...++++.+.  .+.+...+..+...|.+.|++++|++.|+++..           ..+..++..+...+...|++++|
T Consensus       178 A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          178 AERFFSQALSI--APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHh--CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            77777776653  344566677777777777777777777766520           22345666777777777777777


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          405 ERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       405 ~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ++.+++++++.|++...+..++.+|.+.|++++|.+.++..
T Consensus       256 ~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  296 (330)
T 3hym_B          256 LDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTA  296 (330)
T ss_dssp             HHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTT
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            77777777777777777777777777777777777755443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.80  E-value=1.8e-15  Score=172.91  Aligned_cols=357  Identities=11%  Similarity=-0.013  Sum_probs=305.9

Q ss_pred             HHHHhhc-CCCCHHHHHHHHHHHHh----CCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----cCChHHHHHHHH
Q 003457           69 TRLFNSI-QSPNHFMWNTLIRAQAS----SLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSN----VRSLNCCKQIHT  139 (818)
Q Consensus        69 ~~lf~~~-~~p~~~~yn~Li~~~~~----~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~----~g~~~~A~~~~~  139 (818)
                      .+.+++. ...+...+..|...|..    .+++++|+..|++..+.|   +...+..|...|..    .++.++|.+.++
T Consensus        27 ~~~~~~~a~~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~  103 (490)
T 2xm6_A           27 LEQLKQKAESGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYK  103 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            3444433 35688888889999988    899999999999998863   66788888888888    899999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHh----CCChHHHHHHHHHhhcC-CHHHHHHHHHHHHH----cCChHHHHHHHHHHHHc
Q 003457          140 HVSKSGLDLDLHVVNCLVRCYSV----SSDLNNARQVFDEIRNR-TLNVWTTMISGYAQ----SFRANEALMLFDQMLME  210 (818)
Q Consensus       140 ~m~~~g~~p~~~~~~~Li~~y~~----~g~~~~A~~l~~~m~~~-d~~~~~~Li~~~~~----~g~~~~A~~l~~~m~~~  210 (818)
                      +..+.+   +...+..|..+|..    .+++++|.+.|++..+. +..++..|...|..    .+++++|++.|++..+.
T Consensus       104 ~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~  180 (490)
T 2xm6_A          104 KAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ  180 (490)
T ss_dssp             HHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            999876   66777888899988    88999999999998765 67788999999988    78999999999999987


Q ss_pred             CCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh----CCCHHHHHHHHhhCCC-CC
Q 003457          211 GFEPNSVTLASVLSACAQ----SGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTK----NGALAKAKALFDSMPE-RN  281 (818)
Q Consensus       211 g~~pd~~t~~~ll~~~~~----~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~----~g~~~~A~~~f~~m~~-~d  281 (818)
                      +   +...+..+...|..    .++.++|.+.+++..+.+   +...+..|..+|..    .+++++|.+.|++..+ .+
T Consensus       181 ~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~  254 (490)
T 2xm6_A          181 G---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGN  254 (490)
T ss_dssp             T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTC
T ss_pred             C---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            5   67788888888887    899999999999999875   45677788888886    8899999999998775 56


Q ss_pred             hhhHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc-----CCHHHHHHHHHHHHHHhCCCCC
Q 003457          282 IATWNAMISGLAS----HGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHA-----GFIDVGRQIFGSMKRVYGIEPK  352 (818)
Q Consensus       282 ~~~~~~Li~~~~~----~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~-----g~~~~A~~~~~~m~~~~g~~p~  352 (818)
                      ...+..+...|..    .+++++|+..|++..+.|   +...+..+...|...     +++++|...|++..+.    .+
T Consensus       255 ~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~----~~  327 (490)
T 2xm6_A          255 SIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ----GD  327 (490)
T ss_dssp             HHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT----TC
T ss_pred             HHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc----CC
Confidence            7788888888888    899999999999998764   566777888888887     8999999999998874    35


Q ss_pred             HHHHHHHHHHHHHcC---CHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhcCCCCcchHHHH
Q 003457          353 IEHYGCMVDLLGRCG---KVLEAEELIKRMVWKPDVVMWGALLAACKN----HGNIEVAERVVKEIIALEPNNHGVYVVL  425 (818)
Q Consensus       353 ~~~~~~Li~~~~~~g---~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~----~g~~~~A~~~~~~~~~~~P~~~~~y~~L  425 (818)
                      ...+..|..+|.+.|   ++++|++.|+++....+...+..|...|..    .+++++|+++|+++.+.+  ++.++..|
T Consensus       328 ~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~L  405 (490)
T 2xm6_A          328 ATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQL  405 (490)
T ss_dssp             HHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHH
Confidence            678888988898866   889999999998545678899999999998    899999999999998864  58899999


Q ss_pred             HHHHHH----hhchHHHHHHHHHHH
Q 003457          426 SNMYAE----AESMKMQLEILLVQV  446 (818)
Q Consensus       426 ~~~l~~----~G~~~eA~~l~~~~~  446 (818)
                      +.+|.+    .+++++|.+.++...
T Consensus       406 g~~y~~g~g~~~d~~~A~~~~~~A~  430 (490)
T 2xm6_A          406 GEIYYYGLGVERDYVQAWAWFDTAS  430 (490)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            999998    899999999777664

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.78  E-value=1.8e-17  Score=180.97  Aligned_cols=257  Identities=13%  Similarity=-0.015  Sum_probs=186.1

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Q 003457          183 VWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYT  262 (818)
Q Consensus       183 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~  262 (818)
                      .+..+...+.+.|++++|+..|+++++.. +.+...+..+..++...|++++|...++++.+.. +.+...+..++.+|.
T Consensus        66 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~  143 (368)
T 1fch_A           66 QPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFT  143 (368)
T ss_dssp             SHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            34455555555555555555555555442 3344455555555555555555555555555543 334455555555555


Q ss_pred             hCCCHHHHHHHHhhCCC--C-ChhhH----------------HHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHH
Q 003457          263 KNGALAKAKALFDSMPE--R-NIATW----------------NAMISGLASHGHAEEALDLFRKLEKEQIVP-NDITFVG  322 (818)
Q Consensus       263 ~~g~~~~A~~~f~~m~~--~-d~~~~----------------~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~  322 (818)
                      +.|++++|.+.|+++.+  | +...+                ..+.. +...|++++|+..|+++.+..+.. +...+..
T Consensus       144 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~  222 (368)
T 1fch_A          144 NESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGS-LLSDSLFLEVKELFLAAVRLDPTSIDPDVQCG  222 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHH-HHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHH-HhhcccHHHHHHHHHHHHHhCcCcccHHHHHH
Confidence            55555555555554432  1 11111                12333 348899999999999999864332 5788899


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCC
Q 003457          323 VLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGN  400 (818)
Q Consensus       323 ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~  400 (818)
                      +..++.+.|++++|...++++.+.  .+.+...+..+...|.+.|++++|++.|+++ ...| +...+..+...|.+.|+
T Consensus       223 l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~  300 (368)
T 1fch_A          223 LGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGA  300 (368)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCC
Confidence            999999999999999999999876  4556889999999999999999999999998 3334 58899999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCC-----------cchHHHHHHHHHHhhchHHHHHHHHH
Q 003457          401 IEVAERVVKEIIALEPNN-----------HGVYVVLSNMYAEAESMKMQLEILLV  444 (818)
Q Consensus       401 ~~~A~~~~~~~~~~~P~~-----------~~~y~~L~~~l~~~G~~~eA~~l~~~  444 (818)
                      +++|++.|++++++.|++           ...|..++.+|.+.|++++|.++.+.
T Consensus       301 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          301 HREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             HHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence            999999999999999887           78999999999999999999997653

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.77  E-value=1.3e-15  Score=172.61  Aligned_cols=365  Identities=10%  Similarity=-0.093  Sum_probs=211.6

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHHc-------CCCC-CHHHHHHHHHHHHccCChHHHHHHHHHHHHcC------
Q 003457           80 HFMWNTLIRAQASSLNPDKAIFLYMNMRRT-------GFAP-NQHTFTFVLKACSNVRSLNCCKQIHTHVSKSG------  145 (818)
Q Consensus        80 ~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~-------g~~p-d~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g------  145 (818)
                      ...||.|...+...|++++|++.|++..+.       ...| ...+|..+..+|...|++++|...++++++..      
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            445666666666667777776666665431       0122 23466666666777777777776666655421      


Q ss_pred             CC-CCHHHHHHHHHHHHh--CCChHHHHHHHHHhhc---CCHHHHHHHHHH---HHHcCChHHHHHHHHHHHHcCCCCCH
Q 003457          146 LD-LDLHVVNCLVRCYSV--SSDLNNARQVFDEIRN---RTLNVWTTMISG---YAQSFRANEALMLFDQMLMEGFEPNS  216 (818)
Q Consensus       146 ~~-p~~~~~~~Li~~y~~--~g~~~~A~~l~~~m~~---~d~~~~~~Li~~---~~~~g~~~~A~~l~~~m~~~g~~pd~  216 (818)
                      .. ....++..+..++.+  .+++++|.+.|++..+   .+...+..+..+   +...++.++|++.|++.++.. +.+.
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~  209 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQ  209 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCH
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Ccch
Confidence            01 123344444444433  3456677777776653   234444444433   233456666777777766653 3344


Q ss_pred             HHHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHH
Q 003457          217 VTLASVLSACAQ----SGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMI  289 (818)
Q Consensus       217 ~t~~~ll~~~~~----~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li  289 (818)
                      ..+..+...+..    .++.++|.+.+++..... +.+..++..+...|.+.|++++|.+.|++..+   .+..++..+.
T Consensus       210 ~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg  288 (472)
T 4g1t_A          210 YLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIG  288 (472)
T ss_dssp             HHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHH
Confidence            455444444433    345666777777766654 44556666677777777777777777766653   2344555555


Q ss_pred             HHHHH-------------------cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCC
Q 003457          290 SGLAS-------------------HGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIE  350 (818)
Q Consensus       290 ~~~~~-------------------~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~  350 (818)
                      ..|..                   .+.+++|...+++..+..+. +...+..+...+...|++++|+..|+++.+.   .
T Consensus       289 ~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~---~  364 (472)
T 4g1t_A          289 CCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLHALADQYEEAEYYFQKEFSK---E  364 (472)
T ss_dssp             HHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS---C
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHHhccHHHHHHHHHHHHhc---C
Confidence            44432                   23467788888888776432 4456778889999999999999999998864   3


Q ss_pred             CCHH----HHHHHHHH-HHHcCCHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHH
Q 003457          351 PKIE----HYGCMVDL-LGRCGKVLEAEELIKRM-VWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVV  424 (818)
Q Consensus       351 p~~~----~~~~Li~~-~~~~g~~~~A~~~~~~m-~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~  424 (818)
                      ++..    .+..+... +...|++++|++.|+++ ...|+......         ..+.+.+++++.++.+|+++.+|..
T Consensus       365 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~---------~~~~l~~~~~~~l~~~p~~~~~~~~  435 (472)
T 4g1t_A          365 LTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEK---------MKDKLQKIAKMRLSKNGADSEALHV  435 (472)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHH---------HHHHHHHHHHHHHHHCC-CTTHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHH---------HHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            3322    23333332 34689999999999887 45565433222         2345667788899999999999999


Q ss_pred             HHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeee
Q 003457          425 LSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLL  481 (818)
Q Consensus       425 L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l  481 (818)
                      |+.+|...|++++|++.++..+                      ++.|.+|.+...+
T Consensus       436 LG~~~~~~g~~~~A~~~y~kAL----------------------e~~~~~p~a~~~~  470 (472)
T 4g1t_A          436 LAFLQELNEKMQQADEDSERGL----------------------ESGSLIPSASSWN  470 (472)
T ss_dssp             HHHHHHHHHHCC---------------------------------------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH----------------------hcCCCCCcHhhcC
Confidence            9999999999999999877763                      8888888776544

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.76  E-value=2.2e-17  Score=180.47  Aligned_cols=258  Identities=11%  Similarity=-0.008  Sum_probs=198.5

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 003457          182 NVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMY  261 (818)
Q Consensus       182 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~  261 (818)
                      ..|..+...+.+.|++++|++.|+++++.. +.+...+..+..++...|++++|...++++++.. +.+...+..++.+|
T Consensus        66 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  143 (365)
T 4eqf_A           66 PGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSY  143 (365)
T ss_dssp             TTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            346667777777777777777777777654 4466677777777777777777777777777664 44566677777777


Q ss_pred             HhCCCHHHHHHHHhhCCCCC-------------hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHH
Q 003457          262 TKNGALAKAKALFDSMPERN-------------IATWNAMISGLASHGHAEEALDLFRKLEKEQIV-PNDITFVGVLSAC  327 (818)
Q Consensus       262 ~~~g~~~~A~~~f~~m~~~d-------------~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~-pd~~t~~~ll~a~  327 (818)
                      .+.|++++|.+.|+++.+.+             ...+..+...+.+.|++++|+.+|+++.+..+. ++...+..+...+
T Consensus       144 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~  223 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLF  223 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHH
T ss_pred             HccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHH
Confidence            77777777777777665411             223445578899999999999999999987433 2678899999999


Q ss_pred             HHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHH
Q 003457          328 CHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAE  405 (818)
Q Consensus       328 ~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~  405 (818)
                      ...|++++|...|+++.+.  .+.+..++..+..+|.+.|++++|++.|+++ ...| +..++..+..+|.+.|++++|+
T Consensus       224 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~  301 (365)
T 4eqf_A          224 HLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREAV  301 (365)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHH
Confidence            9999999999999999886  5567899999999999999999999999998 3345 5889999999999999999999


Q ss_pred             HHHHHHHhcCCC------------CcchHHHHHHHHHHhhchHHHHHHHH
Q 003457          406 RVVKEIIALEPN------------NHGVYVVLSNMYAEAESMKMQLEILL  443 (818)
Q Consensus       406 ~~~~~~~~~~P~------------~~~~y~~L~~~l~~~G~~~eA~~l~~  443 (818)
                      +.|++++++.|+            +...+..++.++...|+.+.|.++.+
T Consensus       302 ~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  351 (365)
T 4eqf_A          302 SNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANL  351 (365)
T ss_dssp             HHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHT
T ss_pred             HHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            999999998877            36789999999999999998887543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.74  E-value=7e-15  Score=169.75  Aligned_cols=392  Identities=10%  Similarity=0.038  Sum_probs=288.6

Q ss_pred             CChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 003457           45 QDHFAASRLLAFCALSSSGDLSYATRLFNSIQS---PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFV  121 (818)
Q Consensus        45 ~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~---p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~l  121 (818)
                      .+...|..++. +  .+.|+++.|..+|+++.+   .+...|..++..+.+.|++++|..+|+++.+.  .|+...|...
T Consensus        11 ~~~~~w~~l~~-~--~~~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p~~~lw~~~   85 (530)
T 2ooe_A           11 YDLDAWSILIR-E--AQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VLHIDLWKCY   85 (530)
T ss_dssp             TCHHHHHHHHH-H--HHSSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CCCHHHHHHH
T ss_pred             CCHHHHHHHHH-H--HHhCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCChHHHHHH
Confidence            36778888887 4  578999999999999863   46778999999999999999999999999875  4677777766


Q ss_pred             HHHH-HccCChHHHHH----HHHHHHHc-CCCC-CHHHHHHHHHHHHh---------CCChHHHHHHHHHhhcC-C---H
Q 003457          122 LKAC-SNVRSLNCCKQ----IHTHVSKS-GLDL-DLHVVNCLVRCYSV---------SSDLNNARQVFDEIRNR-T---L  181 (818)
Q Consensus       122 l~~~-~~~g~~~~A~~----~~~~m~~~-g~~p-~~~~~~~Li~~y~~---------~g~~~~A~~l~~~m~~~-d---~  181 (818)
                      +... ...|+.+.|.+    +|+..++. |..| +...|...+....+         .|++++|.++|++..+. .   .
T Consensus        86 ~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~  165 (530)
T 2ooe_A           86 LSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIE  165 (530)
T ss_dssp             HHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHH
T ss_pred             HHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHH
Confidence            6533 34566666654    67766654 4433 46677777776655         68899999999998752 1   1


Q ss_pred             HHHHHHHHHH-------------HHcCChHHHHHHHHHHH------HcC---CCCCH--------HHHHHHHHHHHhc--
Q 003457          182 NVWTTMISGY-------------AQSFRANEALMLFDQML------MEG---FEPNS--------VTLASVLSACAQS--  229 (818)
Q Consensus       182 ~~~~~Li~~~-------------~~~g~~~~A~~l~~~m~------~~g---~~pd~--------~t~~~ll~~~~~~--  229 (818)
                      ..|.......             .+.+++++|..+++++.      +..   ++|+.        ..|...+......  
T Consensus       166 ~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~  245 (530)
T 2ooe_A          166 QLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPL  245 (530)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCc
Confidence            2333222211             12356777877776632      111   34442        3444444332221  


Q ss_pred             --CCh----hHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh-------CCCHH-------HHHHHHhhCCC---C-ChhhH
Q 003457          230 --GCL----ELGEKVHVFVKMRGFEMGAILGTALVHMYTK-------NGALA-------KAKALFDSMPE---R-NIATW  285 (818)
Q Consensus       230 --g~~----~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~-------~g~~~-------~A~~~f~~m~~---~-d~~~~  285 (818)
                        ++.    +.+..+|+++++.. +.+..++..++..+.+       .|+++       +|..+|++..+   | +...|
T Consensus       246 ~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~  324 (530)
T 2ooe_A          246 RTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLY  324 (530)
T ss_dssp             CCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHH
T ss_pred             cCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHH
Confidence              222    36778899998874 5678888888888875       78877       89999998874   3 57789


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-H-HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH-
Q 003457          286 NAMISGLASHGHAEEALDLFRKLEKEQIVPN-D-ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDL-  362 (818)
Q Consensus       286 ~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd-~-~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~-  362 (818)
                      ..++..+.+.|++++|..+|+++++.  .|+ . ..|..++..+.+.|++++|.++|++..+.  .+.+...|...+.. 
T Consensus       325 ~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~  400 (530)
T 2ooe_A          325 FAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALME  400 (530)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHH
Confidence            99999999999999999999999986  443 3 57888888888999999999999998864  22234444433333 


Q ss_pred             HHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc----hHHHHHHHHHHhhchH
Q 003457          363 LGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG----VYVVLSNMYAEAESMK  436 (818)
Q Consensus       363 ~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~----~y~~L~~~l~~~G~~~  436 (818)
                      +...|++++|.++|+++ ...| +...|..++..+.+.|+.++|..+|+++++..|.+++    .|..++....+.|+.+
T Consensus       401 ~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~  480 (530)
T 2ooe_A          401 YYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLA  480 (530)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHH
T ss_pred             HHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            34699999999999987 3335 5889999999999999999999999999998877665    7888888888999999


Q ss_pred             HHHHHHHHHH
Q 003457          437 MQLEILLVQV  446 (818)
Q Consensus       437 eA~~l~~~~~  446 (818)
                      ++.++.+...
T Consensus       481 ~~~~~~~r~~  490 (530)
T 2ooe_A          481 SILKVEKRRF  490 (530)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999776663

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.74  E-value=3.3e-16  Score=167.39  Aligned_cols=270  Identities=9%  Similarity=0.018  Sum_probs=188.7

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHhhc---CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 003457          153 VNCLVRCYSVSSDLNNARQVFDEIRN---RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQS  229 (818)
Q Consensus       153 ~~~Li~~y~~~g~~~~A~~l~~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~  229 (818)
                      +..+...+.+.|++++|.++|+++.+   .+...|..+...+.+.|++++|.+.|+++.+.. +.+...+..+...+...
T Consensus        24 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~  102 (327)
T 3cv0_A           24 PMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE  102 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHc
Confidence            34455556666666666666666543   234455566666666666666666666665543 33455555555566666


Q ss_pred             CChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHH-HH-HHHHcCCHHHHHHHHHH
Q 003457          230 GCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAM-IS-GLASHGHAEEALDLFRK  307 (818)
Q Consensus       230 g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~L-i~-~~~~~g~~~~A~~l~~~  307 (818)
                      |++++|.+.++++.+.. +.+...+..+....                  ++......+ .. .+...|++++|+..+++
T Consensus       103 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  163 (327)
T 3cv0_A          103 HNANAALASLRAWLLSQ-PQYEQLGSVNLQAD------------------VDIDDLNVQSEDFFFAAPNEYRECRTLLHA  163 (327)
T ss_dssp             TCHHHHHHHHHHHHHTS-TTTTTC--------------------------------------CCTTSHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CccHHHHHHHhHHH------------------HHHHHHHHHHHhHHHHHcccHHHHHHHHHH
Confidence            66666666666655542 11111111110000                  000111112 22 36778899999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CH
Q 003457          308 LEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DV  385 (818)
Q Consensus       308 m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~  385 (818)
                      +.+.... +...+..+...+.+.|++++|...++++.+.  .+.+...+..+...|.+.|++++|++.|+++ ...| +.
T Consensus       164 ~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~  240 (327)
T 3cv0_A          164 ALEMNPN-DAQLHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYV  240 (327)
T ss_dssp             HHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHhhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCH
Confidence            9887433 6788889999999999999999999999876  4566889999999999999999999999987 2334 58


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC------------CcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIALEPN------------NHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~------------~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ..+..+...+.+.|++++|++.+++++++.|+            +...+..++.++.+.|++++|.++++..
T Consensus       241 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          241 RVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            88999999999999999999999999999999            7889999999999999999999976543

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.73  E-value=2.6e-16  Score=171.66  Aligned_cols=296  Identities=8%  Similarity=-0.044  Sum_probs=158.9

Q ss_pred             CCChhHHHH-HHHHHHHcCC---CCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHH
Q 003457           93 SLNPDKAIF-LYMNMRRTGF---APNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNN  168 (818)
Q Consensus        93 ~g~~~~Al~-lf~~m~~~g~---~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~  168 (818)
                      .|++++|++ .|++..+...   ..+...+..+...+.+.|++++|...++++++..+ .+...+..+..+|.+.|++++
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCcCHHH
Confidence            355666665 5554433211   11233455566666666666666666666666532 245566666666666666666


Q ss_pred             HHHHHHHhhc---CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003457          169 ARQVFDEIRN---RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMR  245 (818)
Q Consensus       169 A~~l~~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~  245 (818)
                      |.+.|+++.+   .+..++..+...|...|++++|++.|+++.+.. +.+...+..+...       ..       ..  
T Consensus       117 A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~-------~~-------~~--  179 (368)
T 1fch_A          117 AISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEG-------AG-------GA--  179 (368)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC-------------------------
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHH-------hh-------hh--
Confidence            6666665543   244566666666666666666766666666543 1111111110000       00       00  


Q ss_pred             CCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--C---ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 003457          246 GFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--R---NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITF  320 (818)
Q Consensus       246 g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~  320 (818)
                        .+ ......+...+ ..|++++|.+.|+++.+  |   +...+..+...|.+.|++++|+..|+++.+.. +.+...+
T Consensus       180 --~~-~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~  254 (368)
T 1fch_A          180 --GL-GPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLW  254 (368)
T ss_dssp             ---------CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             --cc-cHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHH
Confidence              00 00001122222 55555566555555542  1   34556666666666666666766666666542 2245566


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC------------CHHH
Q 003457          321 VGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP------------DVVM  387 (818)
Q Consensus       321 ~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p------------d~~~  387 (818)
                      ..+..++.+.|++++|...++++.+.  .+.+...+..+..+|.+.|++++|.+.|+++. ..|            ...+
T Consensus       255 ~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  332 (368)
T 1fch_A          255 NKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENI  332 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHH
Confidence            66666677777777777777776654  34456666677777777777777777776651 111            1566


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh
Q 003457          388 WGALLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       388 ~~~Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                      |..+..+|...|++++|..++++.++
T Consensus       333 ~~~l~~~~~~~g~~~~A~~~~~~~l~  358 (368)
T 1fch_A          333 WSTLRLALSMLGQSDAYGAADARDLS  358 (368)
T ss_dssp             HHHHHHHHHHHTCGGGHHHHHTTCHH
T ss_pred             HHHHHHHHHHhCChHhHHHhHHHHHH
Confidence            77777777777777777777655443

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.72  E-value=9.1e-17  Score=175.52  Aligned_cols=287  Identities=11%  Similarity=0.063  Sum_probs=137.7

Q ss_pred             hcCCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHH
Q 003457           60 SSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHT  139 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~  139 (818)
                      .+.|++++|.++++++..|  ..|..|+.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|..+++
T Consensus        14 ~~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~   85 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQ   85 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            5679999999999999665  48999999999999999999999653      578899999999999999999999888


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 003457          140 HVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTL  219 (818)
Q Consensus       140 ~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~  219 (818)
                      ..++.  .++..+.+.|+.+|.+.|++++++++++   .++..+|+.++..|...|++++|..+|.++         ..|
T Consensus        86 ~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~---~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~  151 (449)
T 1b89_A           86 MARKK--ARESYVETELIFALAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNF  151 (449)
T ss_dssp             -------------------------CHHHHTTTTT---CC----------------CTTTHHHHHHHT---------TCH
T ss_pred             HHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhH
Confidence            87774  4457788999999999999999998885   467779999999999999999999999987         368


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHH
Q 003457          220 ASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAE  299 (818)
Q Consensus       220 ~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~  299 (818)
                      ..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......+. .++.-...++..|.+.|+++
T Consensus       152 ~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~e  224 (449)
T 1b89_A          152 GRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFE  224 (449)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHH
Confidence            89999999999999999999988      267899999999999999999988777765 44444557889999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHHhCCCC------CHHHHHHHHHHHHHcCCHHH
Q 003457          300 EALDLFRKLEKEQIVPNDITFVGVLSACCHA--GFIDVGRQIFGSMKRVYGIEP------KIEHYGCMVDLLGRCGKVLE  371 (818)
Q Consensus       300 ~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~--g~~~~A~~~~~~m~~~~g~~p------~~~~~~~Li~~~~~~g~~~~  371 (818)
                      +|+.+++...... +-....|+.+..+|++-  +++.+.++.|..   +-+++|      +...|..++-.|...++++.
T Consensus       225 Eai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~---~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~  300 (449)
T 1b89_A          225 ELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS---RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDN  300 (449)
T ss_dssp             HHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHST---TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---HhcCcHHHHHHHHHHHHHHHHHHHHhhchHHH
Confidence            9999999987654 44566777776666654  344444444432   213333      46678899999999999999


Q ss_pred             HHHHHHHc
Q 003457          372 AEELIKRM  379 (818)
Q Consensus       372 A~~~~~~m  379 (818)
                      |....-+-
T Consensus       301 A~~tm~~h  308 (449)
T 1b89_A          301 AIITMMNH  308 (449)
T ss_dssp             HHHHHHHS
T ss_pred             HHHHHHhC
Confidence            88765544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.72  E-value=6e-15  Score=156.45  Aligned_cols=269  Identities=8%  Similarity=-0.009  Sum_probs=220.1

Q ss_pred             HHHHhCCChHHHHHHHHHhhcCCHH----HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChh
Q 003457          158 RCYSVSSDLNNARQVFDEIRNRTLN----VWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLE  233 (818)
Q Consensus       158 ~~y~~~g~~~~A~~l~~~m~~~d~~----~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~  233 (818)
                      +-....|++..|++.+++....++.    ....+.++|...|++++|+..++..    -+|+..++..+...+...++.+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcHH
Confidence            3445688999999998887665433    4566788999999999999877552    3667778888888999999999


Q ss_pred             HHHHHHHHHHHcCC-CCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Q 003457          234 LGEKVHVFVKMRGF-EMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQ  312 (818)
Q Consensus       234 ~A~~i~~~~~~~g~-~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g  312 (818)
                      +|.+.++++...+. +.+...+..+..+|.+.|++++|++.|++  ..+...+..++..|.+.|++++|++.|+++.+..
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  160 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD  160 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC
Confidence            99999999988764 44667778888999999999999999998  5678899999999999999999999999999874


Q ss_pred             CCCCHHHH---HHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHH
Q 003457          313 IVPNDITF---VGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVM  387 (818)
Q Consensus       313 ~~pd~~t~---~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~  387 (818)
                        |+....   ...+..+...|++++|..+|+++.+.  .+.+...++.+..+|.+.|++++|++.|+++ ...| +..+
T Consensus       161 --p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~  236 (291)
T 3mkr_A          161 --EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPET  236 (291)
T ss_dssp             --TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             --cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHH
Confidence              443211   12233444558999999999999987  6778999999999999999999999999997 3445 6889


Q ss_pred             HHHHHHHHHHcCCHHH-HHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          388 WGALLAACKNHGNIEV-AERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       388 ~~~Li~a~~~~g~~~~-A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      +..++..+...|+.++ +.++++++++++|+++.+.    ++..+.+.+++|..
T Consensus       237 l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~----d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          237 LINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIK----EYRAKENDFDRLVL  286 (291)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHH----HHHHHHHHHHHHHH
Confidence            9999999999999876 6789999999999977544    46677778887765

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.71  E-value=5.4e-16  Score=164.53  Aligned_cols=244  Identities=11%  Similarity=-0.002  Sum_probs=199.9

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCC
Q 003457          188 ISGYAQSFRANEALMLFDQMLMEGFEPNS--VTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNG  265 (818)
Q Consensus       188 i~~~~~~g~~~~A~~l~~~m~~~g~~pd~--~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g  265 (818)
                      ++-....|++++|+..+++....  .|+.  .....+.++|...|+++.|...++.   . -+|+...+..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCC
Confidence            34556789999999999886543  3443  3556678999999999999876644   2 3667788889999999999


Q ss_pred             CHHHHHHHHhhCCC----C-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 003457          266 ALAKAKALFDSMPE----R-NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIF  340 (818)
Q Consensus       266 ~~~~A~~~f~~m~~----~-d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~  340 (818)
                      +.++|.+.++++..    | +...+..+...|.+.|++++|++.+++      ..+...+..++..+.+.|++++|.+.+
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999999998642    3 566788888999999999999999987      457788889999999999999999999


Q ss_pred             HHHHHHhCCCCCHH-H--HHHHHHHHHHcCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Q 003457          341 GSMKRVYGIEPKIE-H--YGCMVDLLGRCGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALE  415 (818)
Q Consensus       341 ~~m~~~~g~~p~~~-~--~~~Li~~~~~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~  415 (818)
                      +++.+.   .|+.. .  ...++..+...|++++|+++|+++.  ...+...++.+..++.+.|++++|++.|+++++++
T Consensus       154 ~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999876   35432 1  1233344555699999999999983  33478899999999999999999999999999999


Q ss_pred             CCCcchHHHHHHHHHHhhchHHH-HHHHHHHH
Q 003457          416 PNNHGVYVVLSNMYAEAESMKMQ-LEILLVQV  446 (818)
Q Consensus       416 P~~~~~y~~L~~~l~~~G~~~eA-~~l~~~~~  446 (818)
                      |+++.++..++.++...|+.+++ .++++.+.
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~  262 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLK  262 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            99999999999999999999875 56776664

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.70  E-value=1e-14  Score=165.05  Aligned_cols=365  Identities=10%  Similarity=-0.051  Sum_probs=245.8

Q ss_pred             CChHHHHHHHHHhhhhcCCCHHHHHHHHhhcC-----------C-CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHc---
Q 003457           45 QDHFAASRLLAFCALSSSGDLSYATRLFNSIQ-----------S-PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRT---  109 (818)
Q Consensus        45 ~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~-----------~-p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~---  109 (818)
                      .....||.|-.+|  ...|++++|++.|++..           . ....+|+.+...|...|++++|+..|++..+.   
T Consensus        49 ~~a~~yn~Lg~~~--~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~  126 (472)
T 4g1t_A           49 FKATMCNLLAYLK--HLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEK  126 (472)
T ss_dssp             -CCHHHHHHHHHH--HHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHH--HHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHh
Confidence            3456788887777  89999999999998753           1 34678999999999999999999999887652   


Q ss_pred             --C-CCC-CHHHHHHHHHHHHc--cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH---HHhCCChHHHHHHHHHhhc--
Q 003457          110 --G-FAP-NQHTFTFVLKACSN--VRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRC---YSVSSDLNNARQVFDEIRN--  178 (818)
Q Consensus       110 --g-~~p-d~~ty~~ll~~~~~--~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~---y~~~g~~~~A~~l~~~m~~--  178 (818)
                        + ..+ ...++..+..++..  .+++++|...|++.++..+. +...+..+..+   +...++.++|++.|++..+  
T Consensus       127 ~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~  205 (472)
T 4g1t_A          127 FSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN  205 (472)
T ss_dssp             SCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC
T ss_pred             cccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC
Confidence              1 111 34566666555544  45789999999999987543 55555555554   3456778889888887654  


Q ss_pred             -CCHHHHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHH
Q 003457          179 -RTLNVWTTMISGYAQ----SFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAIL  253 (818)
Q Consensus       179 -~d~~~~~~Li~~~~~----~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~  253 (818)
                       .+...+..+...+..    .+++++|.+.+++..+.. +.+...+..+...+...|++++|...++++.+.. +.+..+
T Consensus       206 p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~  283 (472)
T 4g1t_A          206 PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYL  283 (472)
T ss_dssp             SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHH
Confidence             355666666655544    467889999999998875 5677888899999999999999999999999885 556677


Q ss_pred             HHHHHHHHHhC-------------------CCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 003457          254 GTALVHMYTKN-------------------GALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKE  311 (818)
Q Consensus       254 ~~~Li~~~~~~-------------------g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~  311 (818)
                      +..+..+|...                   +.++.|...|++..+   .+...+..+...|...|++++|+..|++..+.
T Consensus       284 ~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~  363 (472)
T 4g1t_A          284 HCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSK  363 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhc
Confidence            77777666432                   235667777776653   45668899999999999999999999999987


Q ss_pred             CCCCCHH--HHHHHHH-HHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHH
Q 003457          312 QIVPNDI--TFVGVLS-ACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVV  386 (818)
Q Consensus       312 g~~pd~~--t~~~ll~-a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~  386 (818)
                      ...+...  .+..+.. .....|++++|+..|++..+   +.|+.......         ...+.+++++. ...| +..
T Consensus       364 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~---------~~~l~~~~~~~l~~~p~~~~  431 (472)
T 4g1t_A          364 ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKM---------KDKLQKIAKMRLSKNGADSE  431 (472)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHH---------HHHHHHHHHHHHHHCC-CTT
T ss_pred             CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHH---------HHHHHHHHHHHHHhCCCCHH
Confidence            5443321  2233332 34568999999999999886   45654332222         23334444444 2234 678


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHH
Q 003457          387 MWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLS  426 (818)
Q Consensus       387 ~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~  426 (818)
                      +|..|...|...|++++|++.|+++++++|.++.+..-+|
T Consensus       432 ~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          432 ALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             HHHHHHHHHHHHHHCC------------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            9999999999999999999999999999999888776655

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.69  E-value=1.9e-13  Score=164.88  Aligned_cols=344  Identities=14%  Similarity=0.127  Sum_probs=265.1

Q ss_pred             HHHHHHhhhhcCCCHHHHHHHHhhcC-CC-----CHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457           51 SRLLAFCALSSSGDLSYATRLFNSIQ-SP-----NHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKA  124 (818)
Q Consensus        51 ~~Ll~~~a~~k~g~~e~A~~lf~~~~-~p-----~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~  124 (818)
                      ...+..|  ...|...+|+++++++. ++     +...-+.|+....+. +..+..+..++....    +   ..-+...
T Consensus       989 s~~vKaf--~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~eIA~I 1058 (1630)
T 1xi4_A          989 SVTVKAF--MTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APDIANI 1058 (1630)
T ss_pred             HHHHHHH--HhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHHHHHH
Confidence            4445555  56777777777777765 22     234555566655555 445555555544321    1   2336677


Q ss_pred             HHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHH
Q 003457          125 CSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLF  204 (818)
Q Consensus       125 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~  204 (818)
                      |...|.+++|..+|++..     ......+.++   -..+++++|.++.+++  .+..+|..+..++.+.|++++|++.|
T Consensus      1059 ai~lglyEEAf~IYkKa~-----~~~~A~~VLi---e~i~nldrAiE~Aerv--n~p~vWsqLAKAql~~G~~kEAIdsY 1128 (1630)
T 1xi4_A         1059 AISNELFEEAFAIFRKFD-----VNTSAVQVLI---EHIGNLDRAYEFAERC--NEPAVWSQLAKAQLQKGMVKEAIDSY 1128 (1630)
T ss_pred             HHhCCCHHHHHHHHHHcC-----CHHHHHHHHH---HHHhhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            788889999999888752     1222223332   2778899999988877  34678999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhh
Q 003457          205 DQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIAT  284 (818)
Q Consensus       205 ~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~  284 (818)
                      .+.      -|...|..++.+|.+.|++++|.+++...++..  ++..+.+.++.+|++.+++++...+.   ..++...
T Consensus      1129 iKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad 1197 (1630)
T 1xi4_A         1129 IKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNNAH 1197 (1630)
T ss_pred             Hhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHH
Confidence            764      477888999999999999999999999988764  34444456999999999998655443   4556777


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Q 003457          285 WNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLG  364 (818)
Q Consensus       285 ~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~  364 (818)
                      |..+...|...|++++|..+|...         ..|..+..++.+.|++++|.+.+++.       .+..+|..+..+|.
T Consensus      1198 ~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA-------~n~~aWkev~~acv 1261 (1630)
T 1xi4_A         1198 IQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFACV 1261 (1630)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh-------CCHHHHHHHHHHHh
Confidence            888999999999999999999985         37889999999999999999999875       35689999999999


Q ss_pred             HcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH--HhhchHHHHHHH
Q 003457          365 RCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA--EAESMKMQLEIL  442 (818)
Q Consensus       365 ~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~--~~G~~~eA~~l~  442 (818)
                      ..|++..|........  .+...+..++..|.+.|.+++|+.+++++++++|.+...+..|+.+|.  +-++..|+.+++
T Consensus      1262 e~~Ef~LA~~cgl~Ii--v~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f 1339 (1630)
T 1xi4_A         1262 DGKEFRLAQMCGLHIV--VHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELF 1339 (1630)
T ss_pred             hhhHHHHHHHHHHhhh--cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            9999999999887643  456667789999999999999999999999999999999988888887  457888888865


Q ss_pred             H
Q 003457          443 L  443 (818)
Q Consensus       443 ~  443 (818)
                      .
T Consensus      1340 ~ 1340 (1630)
T 1xi4_A         1340 W 1340 (1630)
T ss_pred             H
Confidence            3

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.69  E-value=1.3e-15  Score=166.41  Aligned_cols=255  Identities=10%  Similarity=-0.038  Sum_probs=165.8

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHhhc---CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 003457          153 VNCLVRCYSVSSDLNNARQVFDEIRN---RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQS  229 (818)
Q Consensus       153 ~~~Li~~y~~~g~~~~A~~l~~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~  229 (818)
                      +..+...+.+.|++++|.+.|+++.+   .+..+|..+...|.+.|++++|++.|+++++.. +.+...+..+..++...
T Consensus        68 ~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  146 (365)
T 4eqf_A           68 AFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNT  146 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHcc
Confidence            44444555555555555555555443   234455555555555555555555555555542 33445555555555555


Q ss_pred             CChhHHHHHHHHHHHcCCC---------CcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--C---ChhhHHHHHHHHHHc
Q 003457          230 GCLELGEKVHVFVKMRGFE---------MGAILGTALVHMYTKNGALAKAKALFDSMPE--R---NIATWNAMISGLASH  295 (818)
Q Consensus       230 g~~~~A~~i~~~~~~~g~~---------~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~---d~~~~~~Li~~~~~~  295 (818)
                      |++++|...++++.+....         .....+..+...|.+.|++++|.+.|+++.+  |   +...|..+...|.+.
T Consensus       147 g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~  226 (365)
T 4eqf_A          147 SHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLS  226 (365)
T ss_dssp             TCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHC
Confidence            5555555555555543210         0112233456777788888888888877764  2   567888888888888


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 003457          296 GHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEEL  375 (818)
Q Consensus       296 g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~  375 (818)
                      |++++|+..|+++.+..+ .+..++..+..+|.+.|++++|+..|+++.+.  .+.+...+..+..+|.+.|++++|.+.
T Consensus       227 g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~  303 (365)
T 4eqf_A          227 GEFNRAIDAFNAALTVRP-EDYSLWNRLGATLANGDRSEEAVEAYTRALEI--QPGFIRSRYNLGISCINLGAYREAVSN  303 (365)
T ss_dssp             TCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999988887643 36778888888899999999999999988875  445588888889999999999999998


Q ss_pred             HHHcC-CCC-------------CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          376 IKRMV-WKP-------------DVVMWGALLAACKNHGNIEVAERVVKEI  411 (818)
Q Consensus       376 ~~~m~-~~p-------------d~~~~~~Li~a~~~~g~~~~A~~~~~~~  411 (818)
                      |+++. ..|             +...|..+..++...|+.+.+..+.++.
T Consensus       304 ~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  353 (365)
T 4eqf_A          304 FLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLGD  353 (365)
T ss_dssp             HHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTTC
T ss_pred             HHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHhh
Confidence            88872 111             2578899999999999999888877653

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.68  E-value=2.1e-13  Score=157.35  Aligned_cols=399  Identities=11%  Similarity=0.082  Sum_probs=291.7

Q ss_pred             CCChhHHHHHHHHh--cCchHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC--CCHHHHHHHH
Q 003457           12 PLPIPPLSLLADKC--KSMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQS--PNHFMWNTLI   87 (818)
Q Consensus        12 ~p~~~tl~~ll~~c--~~~~~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~--p~~~~yn~Li   87 (818)
                      |-|...+..++..+  +....++.+++.+++. +..+...|..++.++  .+.|++++|+++|+++..  |+...|...+
T Consensus        10 P~~~~~w~~l~~~~~~~~~~~a~~~~e~al~~-~P~~~~~w~~~~~~~--~~~~~~~~a~~~~~ral~~~p~~~lw~~~~   86 (530)
T 2ooe_A           10 PYDLDAWSILIREAQNQPIDKARKTYERLVAQ-FPSSGRFWKLYIEAE--IKAKNYDKVEKLFQRCLMKVLHIDLWKCYL   86 (530)
T ss_dssp             TTCHHHHHHHHHHHHSSCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHH--HHTTCHHHHHHHHHHHTTTCCCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH--HhcCCHHHHHHHHHHHHhcCCChHHHHHHH
Confidence            33556666666642  4455667888887764 445778899999999  899999999999999874  7888888887


Q ss_pred             HHH-HhCCChhHHHH----HHHHHHHc-CCCC-CHHHHHHHHHHHHc---------cCChHHHHHHHHHHHHcCCCCCHH
Q 003457           88 RAQ-ASSLNPDKAIF----LYMNMRRT-GFAP-NQHTFTFVLKACSN---------VRSLNCCKQIHTHVSKSGLDLDLH  151 (818)
Q Consensus        88 ~~~-~~~g~~~~Al~----lf~~m~~~-g~~p-d~~ty~~ll~~~~~---------~g~~~~A~~~~~~m~~~g~~p~~~  151 (818)
                      ... ...|+.++|.+    +|++.... |..| +...|...+....+         .|+++.|..+|++.++........
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~  166 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQ  166 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHH
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHH
Confidence            644 35677777765    77776653 5444 45567776666544         688999999999998842121123


Q ss_pred             HHHHHHHHH-------------HhCCChHHHHHHHHHh------hc-------CC--------HHHHHHHHHHHHHc---
Q 003457          152 VVNCLVRCY-------------SVSSDLNNARQVFDEI------RN-------RT--------LNVWTTMISGYAQS---  194 (818)
Q Consensus       152 ~~~~Li~~y-------------~~~g~~~~A~~l~~~m------~~-------~d--------~~~~~~Li~~~~~~---  194 (818)
                      .|.......             .+.++++.|..++.++      .+       ++        ...|...+......   
T Consensus       167 ~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~  246 (530)
T 2ooe_A          167 LWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLR  246 (530)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCcc
Confidence            444332211             1345677787777652      11       11        23566555433332   


Q ss_pred             -CCh----HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-------cCChh-------HHHHHHHHHHHcCCCCcHHHHH
Q 003457          195 -FRA----NEALMLFDQMLMEGFEPNSVTLASVLSACAQ-------SGCLE-------LGEKVHVFVKMRGFEMGAILGT  255 (818)
Q Consensus       195 -g~~----~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~-------~g~~~-------~A~~i~~~~~~~g~~~~~~~~~  255 (818)
                       ++.    +++..+|++++... +-+...|...+..+.+       .|+++       +|..++++.++.-.+.+...+.
T Consensus       247 ~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~  325 (530)
T 2ooe_A          247 TEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYF  325 (530)
T ss_dssp             CSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHH
T ss_pred             CCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHH
Confidence             222    47888999998763 5577788888877765       78987       8999999999732356788999


Q ss_pred             HHHHHHHhCCCHHHHHHHHhhCCC--C-Ch-hhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH-HHHHc
Q 003457          256 ALVHMYTKNGALAKAKALFDSMPE--R-NI-ATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLS-ACCHA  330 (818)
Q Consensus       256 ~Li~~~~~~g~~~~A~~~f~~m~~--~-d~-~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~-a~~~~  330 (818)
                      .++..+.+.|++++|..+|+++.+  | +. ..|..++..+.+.|++++|.++|++..+.... +...+..... .+...
T Consensus       326 ~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~  404 (530)
T 2ooe_A          326 AYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCS  404 (530)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHc
Confidence            999999999999999999998874  3 33 48999999999999999999999999886322 3333333222 23468


Q ss_pred             CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-C---CCC--HHHHHHHHHHHHHcCCHHHH
Q 003457          331 GFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-W---KPD--VVMWGALLAACKNHGNIEVA  404 (818)
Q Consensus       331 g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~---~pd--~~~~~~Li~a~~~~g~~~~A  404 (818)
                      |+.++|..+|++..+.  .+.+...|..++..+.+.|+.++|..+|+++. .   .|+  ...|...+......|+.+.+
T Consensus       405 ~~~~~A~~~~e~al~~--~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~  482 (530)
T 2ooe_A          405 KDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASI  482 (530)
T ss_dssp             CCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHH
T ss_pred             CChhHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999886  45568999999999999999999999999983 1   232  45888888888899999999


Q ss_pred             HHHHHHHHhcCCC
Q 003457          405 ERVVKEIIALEPN  417 (818)
Q Consensus       405 ~~~~~~~~~~~P~  417 (818)
                      ..+++++.+..|+
T Consensus       483 ~~~~~r~~~~~p~  495 (530)
T 2ooe_A          483 LKVEKRRFTAFRE  495 (530)
T ss_dssp             HHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHCch
Confidence            9999999999885

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.68  E-value=1.9e-15  Score=161.35  Aligned_cols=276  Identities=8%  Similarity=-0.009  Sum_probs=178.8

Q ss_pred             CHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhc---CCHHHHHHHHHH
Q 003457          114 NQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRN---RTLNVWTTMISG  190 (818)
Q Consensus       114 d~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~---~d~~~~~~Li~~  190 (818)
                      +...+..+...+...|++++|..+++++++..+. +...+..+..+|.+.|++++|.+.|+++.+   .+...+..+...
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   98 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVS   98 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHH
Confidence            3345677788899999999999999999987644 778889999999999999999999999875   366789999999


Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHH--HHHhCCCHH
Q 003457          191 YAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVH--MYTKNGALA  268 (818)
Q Consensus       191 ~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~--~~~~~g~~~  268 (818)
                      +...|++++|++.++++.+.. +.+...+..+...+                      ++......+..  .+...|+++
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~  155 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQAD----------------------VDIDDLNVQSEDFFFAAPNEYR  155 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTS-TTTTTC------------------------------------------CCTTSHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHH----------------------HHHHHHHHHHHhHHHHHcccHH
Confidence            999999999999999998864 22222232221000                      00000011111  133444555


Q ss_pred             HHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 003457          269 KAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKR  345 (818)
Q Consensus       269 ~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~  345 (818)
                      +|.+.++++.+   .+...+..+...|...|++++|+..++++.+... .+...+..+...+...|++++|...++++.+
T Consensus       156 ~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  234 (327)
T 3cv0_A          156 ECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRP-DDAQLWNKLGATLANGNRPQEALDAYNRALD  234 (327)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555554432   2445556666666666666666666666665432 2455666666666667777777777766665


Q ss_pred             HhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-------------CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          346 VYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-------------DVVMWGALLAACKNHGNIEVAERVVKEI  411 (818)
Q Consensus       346 ~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-------------d~~~~~~Li~a~~~~g~~~~A~~~~~~~  411 (818)
                      .  .+.+...+..+...|.+.|++++|.+.|+++. ..|             +...|..+..++.+.|++++|..+++++
T Consensus       235 ~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          235 I--NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             H--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             c--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            4  33456666666777777777777777776651 122             2556666777777777777777777665


Q ss_pred             HhcCC
Q 003457          412 IALEP  416 (818)
Q Consensus       412 ~~~~P  416 (818)
                      ++..|
T Consensus       313 l~~~~  317 (327)
T 3cv0_A          313 VEPFA  317 (327)
T ss_dssp             SHHHH
T ss_pred             HHhcc
Confidence            55433

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.66  E-value=1.4e-16  Score=174.09  Aligned_cols=250  Identities=16%  Similarity=0.170  Sum_probs=121.9

Q ss_pred             hCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHH
Q 003457          162 VSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVF  241 (818)
Q Consensus       162 ~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~  241 (818)
                      +.|++++|.++++++..+  .+|..|+.++.+.|++++|++.|.+.      +|..+|..++.++...|++++|.++++.
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            678899999999999554  49999999999999999999999763      5777999999999999999999998888


Q ss_pred             HHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 003457          242 VKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFV  321 (818)
Q Consensus       242 ~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~  321 (818)
                      .++.  .+++.+.+.|+.+|.+.|+++++.++++   .|+..+|+.++..|...|++++|..+|..+         ..|.
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~---~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~  152 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFG  152 (449)
T ss_dssp             ------------------------CHHHHTTTTT---CC----------------CTTTHHHHHHHT---------TCHH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHH
Confidence            8775  4557788899999999999999888876   377789999999999999999999999977         2688


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Q 003457          322 GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNI  401 (818)
Q Consensus       322 ~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~  401 (818)
                      .++.++.+.|++++|.+.++++       .++.+|..++.+|...|+++.|......+...|+.  ...++..|.+.|++
T Consensus       153 ~LA~~L~~Lg~yq~AVea~~KA-------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~~ad~--l~~lv~~Yek~G~~  223 (449)
T 1b89_A          153 RLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADE--LEELINYYQDRGYF  223 (449)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHH-------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHH--HHHHHHHHHHTTCH
T ss_pred             HHHHHHHHhccHHHHHHHHHHc-------CCchhHHHHHHHHHHcCcHHHHHHHHHHHHhCHhh--HHHHHHHHHHCCCH
Confidence            9999999999999999999986       37899999999999999999998877766544443  45688899999999


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHHHH--HhhchHHHHHHH
Q 003457          402 EVAERVVKEIIALEPNNHGVYVVLSNMYA--EAESMKMQLEIL  442 (818)
Q Consensus       402 ~~A~~~~~~~~~~~P~~~~~y~~L~~~l~--~~G~~~eA~~l~  442 (818)
                      ++|+.++++++.+++.+...+..|+.+|.  +-+++.|+++++
T Consensus       224 eEai~lLe~aL~le~ah~~~ftel~il~~ky~p~k~~ehl~~~  266 (449)
T 1b89_A          224 EELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELF  266 (449)
T ss_dssp             HHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            99999999999999999999999999998  567888888865

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.66  E-value=6.9e-13  Score=160.01  Aligned_cols=365  Identities=11%  Similarity=0.094  Sum_probs=279.1

Q ss_pred             chHHHHHHHHHHHhC--CCCChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHH
Q 003457           28 MHQLKQIHAQMIISS--RIQDHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMN  105 (818)
Q Consensus        28 ~~~~~~~~~~~~~~g--~~~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~  105 (818)
                      ..++..+++.++..+  +.-+....+.|+...  .+. +..+..++.++...-+   ...+...+...|.+++|..+|++
T Consensus      1001 p~EaieLLEKivl~~s~fs~n~~LqnlLi~tA--Ika-D~~Rv~eyI~kLd~~d---~~eIA~Iai~lglyEEAf~IYkK 1074 (1630)
T 1xi4_A         1001 PNELIELLEKIVLDNSVFSEHRNLQNLLILTA--IKA-DRTRVMEYINRLDNYD---APDIANIAISNELFEEAFAIFRK 1074 (1630)
T ss_pred             HHHHHHHHHHHHcCCCcccccHHHHHHHHHHH--HHh-ChhhHHHHHHHhhhcc---HHHHHHHHHhCCCHHHHHHHHHH
Confidence            334455555555221  123456677766555  333 4455555554444333   34477888899999999999998


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHH
Q 003457          106 MRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWT  185 (818)
Q Consensus       106 m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~  185 (818)
                      ...     .......++.   ..+++++|.++.+++      -+..+|..+..++.+.|++++|.+.|.+.  .|...|.
T Consensus      1075 a~~-----~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD~say~ 1138 (1630)
T 1xi4_A         1075 FDV-----NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYM 1138 (1630)
T ss_pred             cCC-----HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc--CChHHHH
Confidence            631     2223333333   678899999988765      25778999999999999999999999664  7888999


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCC
Q 003457          186 TMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNG  265 (818)
Q Consensus       186 ~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g  265 (818)
                      .++..+.+.|++++|.+.|...++..  ++......++.+|++.+++++...+.    +   .++...+..+.+.|...|
T Consensus      1139 eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg 1209 (1630)
T 1xi4_A         1139 EVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEK 1209 (1630)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcC
Confidence            99999999999999999999888764  33333335888999999888644442    2   345566667999999999


Q ss_pred             CHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 003457          266 ALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKR  345 (818)
Q Consensus       266 ~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~  345 (818)
                      ++++|..+|..+     ..|..+...|.+.|++++|++.+++.      .+..+|..+..+|...|++..|..+...   
T Consensus      1210 ~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~--- 1275 (1630)
T 1xi4_A         1210 MYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH--- 1275 (1630)
T ss_pred             CHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHh---
Confidence            999999999986     58999999999999999999999977      2568899999999999999999987654   


Q ss_pred             HhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHH--cCCHHHHHHHHHHHHhcCC-----
Q 003457          346 VYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKN--HGNIEVAERVVKEIIALEP-----  416 (818)
Q Consensus       346 ~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~--~g~~~~A~~~~~~~~~~~P-----  416 (818)
                         +..+...+..++..|.+.|.+++|+++++.. ...+ ....|.-|...|.+  -++..++++.|..-..+.|     
T Consensus      1276 ---Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~~ 1352 (1630)
T 1xi4_A         1276 ---IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAA 1352 (1630)
T ss_pred             ---hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHHH
Confidence               3346677789999999999999999999887 3333 35567667766665  5577888888887777766     


Q ss_pred             CCcchHHHHHHHHHHhhchHHHHH
Q 003457          417 NNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       417 ~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      ++...|..++.+|.+.|+++.|..
T Consensus      1353 e~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1353 EQAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHH
Confidence            678899999999999999999985

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.63  E-value=9.7e-15  Score=150.12  Aligned_cols=225  Identities=12%  Similarity=0.006  Sum_probs=146.6

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Q 003457          183 VWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYT  262 (818)
Q Consensus       183 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~  262 (818)
                      .|..+...+...|++++|+..|+++++..  .+...+..+..++...|++++|...++++.+......            
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~------------   72 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMR------------   72 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT------------
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccc------------
Confidence            45556666666666666666666666554  4555555555666666666666666655554321000            


Q ss_pred             hCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 003457          263 KNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGS  342 (818)
Q Consensus       263 ~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~  342 (818)
                        .+..           .....|..+...|...|++++|+..|+++.+.  .|+.       ..+.+.|++++|...+++
T Consensus        73 --~~~~-----------~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~  130 (258)
T 3uq3_A           73 --ADYK-----------VISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEA  130 (258)
T ss_dssp             --CCHH-----------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHH
T ss_pred             --cchH-----------HHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHH
Confidence              0000           00345666677777777777777777777664  2332       335556677777777777


Q ss_pred             HHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc
Q 003457          343 MKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-W-KPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG  420 (818)
Q Consensus       343 m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~-~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~  420 (818)
                      +.+.  .+.+...+..+...|...|++++|++.|+++. . ..+...+..+...+.+.|++++|++.++++++..|+++.
T Consensus       131 ~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~  208 (258)
T 3uq3_A          131 EAYV--NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVR  208 (258)
T ss_dssp             HHHC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHc--CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHH
Confidence            6653  33345667777777788888888888887772 2 235677777888888888888888888888888888888


Q ss_pred             hHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          421 VYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       421 ~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .+..++.+|.+.|++++|.+.++..
T Consensus       209 ~~~~l~~~~~~~g~~~~A~~~~~~a  233 (258)
T 3uq3_A          209 AYIRKATAQIAVKEYASALETLDAA  233 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            8888888888888888888866555

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.62  E-value=2.6e-14  Score=146.84  Aligned_cols=235  Identities=9%  Similarity=-0.024  Sum_probs=175.4

Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHhhc--CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC--CCC----HHHHHH
Q 003457          150 LHVVNCLVRCYSVSSDLNNARQVFDEIRN--RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGF--EPN----SVTLAS  221 (818)
Q Consensus       150 ~~~~~~Li~~y~~~g~~~~A~~l~~~m~~--~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~--~pd----~~t~~~  221 (818)
                      ...+..+...+...|++++|.+.|++..+  .+...|..+...+...|++++|++.++++.+...  .++    ...+..
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            45788899999999999999999998765  5677899999999999999999999999887531  112    466777


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHH
Q 003457          222 VLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEA  301 (818)
Q Consensus       222 ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A  301 (818)
                      +...+...|++++|...++++.+..  ++.                                      ..+.+.|++++|
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~--~~~--------------------------------------~~~~~~~~~~~a  124 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEH--RTA--------------------------------------DILTKLRNAEKE  124 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CCH--------------------------------------HHHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC--chh--------------------------------------HHHHHHhHHHHH
Confidence            7777788888888888888777653  221                                      224444566667


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-
Q 003457          302 LDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-  380 (818)
Q Consensus       302 ~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-  380 (818)
                      +..++++.+... .+...+..+...+...|++++|...++++.+.  .+.+...+..+...|.+.|++++|++.|+++. 
T Consensus       125 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  201 (258)
T 3uq3_A          125 LKKAEAEAYVNP-EKAEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIE  201 (258)
T ss_dssp             HHHHHHHHHCCH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCc-chHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            777766665421 13455666677777777788887777777765  44567777788888888888888888887772 


Q ss_pred             CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC------CCCcchHHHHHH
Q 003457          381 WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALE------PNNHGVYVVLSN  427 (818)
Q Consensus       381 ~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~------P~~~~~y~~L~~  427 (818)
                      ..| +...+..+...+.+.|++++|.+.+++++++.      |++...+..+..
T Consensus       202 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~  255 (258)
T 3uq3_A          202 KDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYK  255 (258)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHH
Confidence            233 47788888888889999999999999998888      776666665554

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.62  E-value=2.2e-14  Score=144.99  Aligned_cols=195  Identities=12%  Similarity=0.035  Sum_probs=155.1

Q ss_pred             CCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 003457          248 EMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVL  324 (818)
Q Consensus       248 ~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll  324 (818)
                      +++...+..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..|++..+..+. +...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHH
Confidence            45566777788888888888888888887664   35678888888899999999999999998887433 567788888


Q ss_pred             HHHHHc-----------CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCCHHHHHHHH
Q 003457          325 SACCHA-----------GFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPDVVMWGALL  392 (818)
Q Consensus       325 ~a~~~~-----------g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd~~~~~~Li  392 (818)
                      .++...           |++++|+..+++..+.  .+.+...+..+..+|...|++++|++.|+++. ...+...+..+.
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la  158 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHH
Confidence            888888           9999999999999876  45568889999999999999999999999882 227788999999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          393 AACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       393 ~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .+|...|++++|+..|+++++++|+++..+..++.++.+.|++++|++.++..
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999977655

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.59  E-value=1.3e-13  Score=143.29  Aligned_cols=240  Identities=14%  Similarity=-0.027  Sum_probs=172.6

Q ss_pred             cCChHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHH
Q 003457          194 SFRANEALMLFDQMLMEGF---EPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKA  270 (818)
Q Consensus       194 ~g~~~~A~~l~~~m~~~g~---~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A  270 (818)
                      .+++++|+..|+++.+...   +.+...+..+...+...|++++|...++++.+.. +.+...+..+..+|.+.|++++|
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHH
Confidence            3556666666666665421   1123455566666666777777777777666654 34566666777777777777777


Q ss_pred             HHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Q 003457          271 KALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVY  347 (818)
Q Consensus       271 ~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~  347 (818)
                      .+.|+++.+   .+...|..+...|.+.|++++|+..|+++.+..  |+.......+..+...|++++|...+++.... 
T Consensus        97 ~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-  173 (275)
T 1xnf_A           97 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK-  173 (275)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc-
Confidence            777776653   356788888889999999999999999998863  44444444555567779999999999888776 


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCC-CCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcch
Q 003457          348 GIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVW-KPD-----VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGV  421 (818)
Q Consensus       348 g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~-~pd-----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~  421 (818)
                       .+++...+ .++..+...++.++|++.++++.. .|+     ...+..+...|.+.|++++|+..|+++++++|++.. 
T Consensus       174 -~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~-  250 (275)
T 1xnf_A          174 -SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV-  250 (275)
T ss_dssp             -SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH-
T ss_pred             -CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHH-
Confidence             44444444 367778888889999999998842 222     578889999999999999999999999999997644 


Q ss_pred             HHHHHHHHHHhhchHHHHHHH
Q 003457          422 YVVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       422 y~~L~~~l~~~G~~~eA~~l~  442 (818)
                        ..+.++.+.|++++|++.+
T Consensus       251 --~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          251 --EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             --HHHHHHHHHHHHHHC----
T ss_pred             --HHHHHHHHHHHHHhhHHHH
Confidence              4467888999999998743

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.58  E-value=9.2e-14  Score=144.53  Aligned_cols=245  Identities=10%  Similarity=-0.006  Sum_probs=130.9

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHh
Q 003457          154 NCLVRCYSVSSDLNNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPN--SVTLASVLSACAQ  228 (818)
Q Consensus       154 ~~Li~~y~~~g~~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd--~~t~~~ll~~~~~  228 (818)
                      ......+...|++++|++.|+++.+.   +...+..+...|...|++++|++.++++.+....++  ...|..+...+..
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~   86 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMK   86 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHH
Confidence            34445555666666666666655432   233555555566666666666666666554221111  2234455555555


Q ss_pred             cCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          229 SGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKL  308 (818)
Q Consensus       229 ~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m  308 (818)
                      .|++++|...++++.+.. +.+...+..+..+|.+.|++++|.+.|++..                              
T Consensus        87 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al------------------------------  135 (272)
T 3u4t_A           87 KGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQI------------------------------  135 (272)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGC------------------------------
T ss_pred             cccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHh------------------------------
Confidence            555555555555555543 2233444444555555555555555554444                              


Q ss_pred             HHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHcC----C
Q 003457          309 EKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGK---VLEAEELIKRMV----W  381 (818)
Q Consensus       309 ~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~---~~~A~~~~~~m~----~  381 (818)
                       +.. +.+...+..+...+...+++++|...|+++.+.  .+.+...+..+..++...|+   +++|...|+++.    .
T Consensus       136 -~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~  211 (272)
T 3u4t_A          136 -RPT-TTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAP  211 (272)
T ss_dssp             -CSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGG
T ss_pred             -hcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhc
Confidence             331 112333333331222233555555555555543  22334455555555555555   444555554441    1


Q ss_pred             CCC------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh
Q 003457          382 KPD------VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE  433 (818)
Q Consensus       382 ~pd------~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G  433 (818)
                      .|+      ...|..+...|.+.|++++|++.++++++++|+++.++..+..+....+
T Consensus       212 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          212 GGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             GGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             ccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence            122      2567778888999999999999999999999999998888877766544

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.57  E-value=9.4e-14  Score=156.88  Aligned_cols=368  Identities=9%  Similarity=-0.003  Sum_probs=251.3

Q ss_pred             hcCCCHHHHHHHHhhcCC-CCHHHHHHHHHHHHhCCCh---hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC-----C
Q 003457           60 SSSGDLSYATRLFNSIQS-PNHFMWNTLIRAQASSLNP---DKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVR-----S  130 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~~-p~~~~yn~Li~~~~~~g~~---~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g-----~  130 (818)
                      .+.|++++|++.|++..+ .+...+..|...|...|+.   ++|+..|++..+.    +...+..+...+...+     +
T Consensus        14 ~~~g~~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~~~~~~~   89 (452)
T 3e4b_A           14 LKRGDTVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKPGATEAE   89 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCCTGGGTCC--------------------------------CHHHHHHHHHTC--CCHHH
T ss_pred             HhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCCCCCCcC
Confidence            678999999999998763 3555666677777777888   8999999988754    5555666666454444     7


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHH---HHHHHHHhhc-CCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 003457          131 LNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNN---ARQVFDEIRN-RTLNVWTTMISGYAQSFRANEALMLFDQ  206 (818)
Q Consensus       131 ~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~---A~~l~~~m~~-~d~~~~~~Li~~~~~~g~~~~A~~l~~~  206 (818)
                      .++|...+++..+.|..   ..+..|..+|...+..++   +.+.+....+ .+...+..|...|...+.++++......
T Consensus        90 ~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~~~a~~  166 (452)
T 3e4b_A           90 HHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHLDDVER  166 (452)
T ss_dssp             HHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCHHHHHH
Confidence            88999999999987743   256667777877665444   4444444432 3667888899999988866665555433


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcC---ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhC----CCHHHHHHHHhhCCC
Q 003457          207 MLMEGFEPNSVTLASVLSACAQSG---CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKN----GALAKAKALFDSMPE  279 (818)
Q Consensus       207 m~~~g~~pd~~t~~~ll~~~~~~g---~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~----g~~~~A~~~f~~m~~  279 (818)
                      +.+.-...+...+..+...|...|   +.++|.+.|++..+.| +++...+..|..+|...    +++++|.+.|++...
T Consensus       167 ~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~  245 (452)
T 3e4b_A          167 ICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIAP  245 (452)
T ss_dssp             HHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHGG
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcC
Confidence            332212223337778888888899   8999999999999987 55666556788888665    799999999998884


Q ss_pred             CChhhHHHHHHH-H--HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-----CHHHHHHHHHHHHHHhCCCC
Q 003457          280 RNIATWNAMISG-L--ASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAG-----FIDVGRQIFGSMKRVYGIEP  351 (818)
Q Consensus       280 ~d~~~~~~Li~~-~--~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g-----~~~~A~~~~~~m~~~~g~~p  351 (818)
                      .+...+..|... |  ...+++++|+..|++..+.|   +...+..|...|. .|     ++++|...|++..     +.
T Consensus       246 g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g  316 (452)
T 3e4b_A          246 GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GR  316 (452)
T ss_dssp             GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TT
T ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CC
Confidence            467788888887 4  46899999999999999876   6777888888777 55     9999999999865     45


Q ss_pred             CHHHHHHHHHHHHH----cCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhcCCCCcchHH
Q 003457          352 KIEHYGCMVDLLGR----CGKVLEAEELIKRMVWKPDVVMWGALLAACKN----HGNIEVAERVVKEIIALEPNNHGVYV  423 (818)
Q Consensus       352 ~~~~~~~Li~~~~~----~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~----~g~~~~A~~~~~~~~~~~P~~~~~y~  423 (818)
                      +...+..|..+|..    ..++++|.+.|++....-+......|...|..    ..+.++|..+|+++.+.++..  +..
T Consensus       317 ~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~--a~~  394 (452)
T 3e4b_A          317 EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPE--AND  394 (452)
T ss_dssp             CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHH--HHH
T ss_pred             CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHH--HHH
Confidence            67888888888876    44999999999998544556667777777764    458999999999999877543  334


Q ss_pred             HHHHHH--HHhhchHHHHHHHHHHH
Q 003457          424 VLSNMY--AEAESMKMQLEILLVQV  446 (818)
Q Consensus       424 ~L~~~l--~~~G~~~eA~~l~~~~~  446 (818)
                      .+..+.  ...++.++|.++.+.+.
T Consensus       395 ~l~~l~~~~~~~~~~~a~~~~~~~~  419 (452)
T 3e4b_A          395 LATQLEAPLTPAQRAEGQRLVQQEL  419 (452)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHH
Confidence            444433  34567777877776663

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.56  E-value=2.2e-13  Score=149.73  Aligned_cols=246  Identities=9%  Similarity=0.020  Sum_probs=195.1

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC-hhHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 003457          182 NVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGC-LELGEKVHVFVKMRGFEMGAILGTALVHM  260 (818)
Q Consensus       182 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~-~~~A~~i~~~~~~~g~~~~~~~~~~Li~~  260 (818)
                      .+|+.+...+.+.|++++|++.|+++++.. +-+...|..+..++...|+ +++|...++++++.. +.+...+..+..+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~  175 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            467777777888888888888888887764 4456677777778888886 888888888888775 5567777778888


Q ss_pred             HHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-cCCHHHH
Q 003457          261 YTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCH-AGFIDVG  336 (818)
Q Consensus       261 ~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~-~g~~~~A  336 (818)
                      |.+.|++++|+..|+++.+   .+...|..+..++.+.|++++|+..|+++++..+. +...|+.+..++.+ .|..++|
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~eA  254 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRA  254 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchHH
Confidence            8888888888888887764   46778888888999999999999999999987544 67888888888888 5554777


Q ss_pred             -----HHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcC---------
Q 003457          337 -----RQIFGSMKRVYGIEPKIEHYGCMVDLLGRCG--KVLEAEELIKRMVWKP-DVVMWGALLAACKNHG---------  399 (818)
Q Consensus       337 -----~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g--~~~~A~~~~~~m~~~p-d~~~~~~Li~a~~~~g---------  399 (818)
                           +..+++.++.  .+.+...|..+..+|.+.|  ++++|++.++++...| +...+..++..|.+.|         
T Consensus       255 ~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~~~  332 (382)
T 2h6f_A          255 VLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  332 (382)
T ss_dssp             HHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             HHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccchHH
Confidence                 4788888875  4556788888888888888  6899999998885445 4778888888888764         


Q ss_pred             CHHHHHHHHHHH-HhcCCCCcchHHHHHHHHHHh
Q 003457          400 NIEVAERVVKEI-IALEPNNHGVYVVLSNMYAEA  432 (818)
Q Consensus       400 ~~~~A~~~~~~~-~~~~P~~~~~y~~L~~~l~~~  432 (818)
                      .+++|+++|+++ .+++|.....|..++..+...
T Consensus       333 ~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          333 ILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence            358999999999 899999999998888777654

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.55  E-value=5.5e-14  Score=143.31  Aligned_cols=192  Identities=16%  Similarity=0.144  Sum_probs=121.2

Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 003457          252 ILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACC  328 (818)
Q Consensus       252 ~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~  328 (818)
                      ..+..+...+.+.|++++|...|+++.+   .+...+..+...|...|++++|+..++++.+... .+...+..+...+.
T Consensus        24 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~  102 (243)
T 2q7f_A           24 MTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGNVYV  102 (243)
T ss_dssp             ------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHHHHH
Confidence            3444555566666666666666665543   3455666667777777777777777777766532 25566666777777


Q ss_pred             HcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-C-CCCHHHHHHHHHHHHHcCCHHHHHH
Q 003457          329 HAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-W-KPDVVMWGALLAACKNHGNIEVAER  406 (818)
Q Consensus       329 ~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~-~pd~~~~~~Li~a~~~~g~~~~A~~  406 (818)
                      ..|++++|.+.++++.+.  .+.+...+..+...|.+.|++++|++.++++. . ..+...+..+...+...|++++|++
T Consensus       103 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  180 (243)
T 2q7f_A          103 VKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEALS  180 (243)
T ss_dssp             HTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHH
T ss_pred             HhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHHHH
Confidence            777777777777777665  34456677777777777777777777777762 2 2356677777777777777777777


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          407 VVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       407 ~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .++++++..|++...+..++.+|.+.|++++|.+.++...
T Consensus       181 ~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  220 (243)
T 2q7f_A          181 QFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAI  220 (243)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            7777777777777777777777777777777777666553

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.54  E-value=1.1e-13  Score=143.95  Aligned_cols=240  Identities=9%  Similarity=-0.028  Sum_probs=181.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CC----hhhHHHHHHHH
Q 003457          219 LASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--RN----IATWNAMISGL  292 (818)
Q Consensus       219 ~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d----~~~~~~Li~~~  292 (818)
                      +......+...|++++|...++++++.. +.+...+..+..+|.+.|++++|.+.|+++.+  ++    ...|..+...|
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            3344555566666666666666666653 33444556666677777777777777766554  22    23478888999


Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHH
Q 003457          293 ASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEA  372 (818)
Q Consensus       293 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A  372 (818)
                      ...|++++|+..|+++.+.... +...+..+..+|...|++++|...++++.+.  .+.+...+..+...+...+++++|
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999886433 5678889999999999999999999998764  445677888888344455699999


Q ss_pred             HHHHHHc-CCCC-CHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhcC---CCC-----cchHHHHHHHHHHhhchHHHH
Q 003457          373 EELIKRM-VWKP-DVVMWGALLAACKNHGN---IEVAERVVKEIIALE---PNN-----HGVYVVLSNMYAEAESMKMQL  439 (818)
Q Consensus       373 ~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~---~~~A~~~~~~~~~~~---P~~-----~~~y~~L~~~l~~~G~~~eA~  439 (818)
                      ++.|+++ ...| +...+..+...+...|+   +++|+..+++++++.   |+.     ..+|..++.+|.+.|++++|.
T Consensus       162 ~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  241 (272)
T 3u4t_A          162 DSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKAD  241 (272)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            9999998 3344 47888888888888888   888999999998865   542     268889999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeeecCC
Q 003457          440 EILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGN  484 (818)
Q Consensus       440 ~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l~~~  484 (818)
                      +.++...                      +++|+++.++-.+..+
T Consensus       242 ~~~~~al----------------------~~~p~~~~a~~~l~~~  264 (272)
T 3u4t_A          242 AAWKNIL----------------------ALDPTNKKAIDGLKMK  264 (272)
T ss_dssp             HHHHHHH----------------------HHCTTCHHHHHHHC--
T ss_pred             HHHHHHH----------------------hcCccHHHHHHHhhhh
Confidence            9877774                      8889988776655544

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.54  E-value=2.2e-13  Score=149.82  Aligned_cols=225  Identities=9%  Similarity=0.023  Sum_probs=196.3

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCC-HHHHHHHHhhCCC---CChhhHHHHHHH
Q 003457          216 SVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGA-LAKAKALFDSMPE---RNIATWNAMISG  291 (818)
Q Consensus       216 ~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~-~~~A~~~f~~m~~---~d~~~~~~Li~~  291 (818)
                      ...|..+...+.+.|++++|...++++++.. +.+...++.+..++.+.|+ +++|++.|+++.+   .+...|..+..+
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~  175 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            3567777788899999999999999999986 6678899999999999997 9999999998875   577899999999


Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH-cCCHH
Q 003457          292 LASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR-CGKVL  370 (818)
Q Consensus       292 ~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~-~g~~~  370 (818)
                      +...|++++|+..|+++++.... +...|..+..++.+.|++++|+..++++++.  .+.+...|+.+..+|.+ .|..+
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcch
Confidence            99999999999999999997544 7889999999999999999999999999986  55678999999999999 66657


Q ss_pred             HH-----HHHHHHc-CCCC-CHHHHHHHHHHHHHcC--CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh--------
Q 003457          371 EA-----EELIKRM-VWKP-DVVMWGALLAACKNHG--NIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE--------  433 (818)
Q Consensus       371 ~A-----~~~~~~m-~~~p-d~~~~~~Li~a~~~~g--~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G--------  433 (818)
                      +|     ++.|+++ ...| +...|..+...+.+.|  ++++|++.++++ +.+|+++.++..++++|.+.|        
T Consensus       253 eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchH
Confidence            77     4778777 3455 5789999999888888  689999999998 999999999999999999985        


Q ss_pred             -chHHHHHHHHHH
Q 003457          434 -SMKMQLEILLVQ  445 (818)
Q Consensus       434 -~~~eA~~l~~~~  445 (818)
                       .+++|+++++..
T Consensus       332 ~~~~~A~~~~~~l  344 (382)
T 2h6f_A          332 DILNKALELCEIL  344 (382)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence             358999977666

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.54  E-value=2.7e-13  Score=136.01  Aligned_cols=193  Identities=12%  Similarity=-0.011  Sum_probs=119.1

Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003457          251 AILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSAC  327 (818)
Q Consensus       251 ~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~  327 (818)
                      ...+..+...+...|++++|.+.|+++.+   .+...|..+...|...|++++|++.++++.+... .+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~   86 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKP-DSAEINNNYGWFL   86 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CChHHHHHHHHHH
Confidence            34444555555555555555555554432   2344566666666666666666666666665432 2455566666666


Q ss_pred             HHc-CCHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHHcCCHHH
Q 003457          328 CHA-GFIDVGRQIFGSMKRVYGIEP-KIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-DVVMWGALLAACKNHGNIEV  403 (818)
Q Consensus       328 ~~~-g~~~~A~~~~~~m~~~~g~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~a~~~~g~~~~  403 (818)
                      ... |++++|...++++.+. +..| +...+..+...|.+.|++++|++.|+++. ..| +...+..+...+...|++++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           87 CGRLNRPAESMAYFDKALAD-PTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             HTTTCCHHHHHHHHHHHHTS-TTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhcCcHHHHHHHHHHHHcC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHH
Confidence            666 6777777766666641 2222 24566666666777777777777766652 223 46666666777777777777


Q ss_pred             HHHHHHHHHhcCC-CCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          404 AERVVKEIIALEP-NNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       404 A~~~~~~~~~~~P-~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      |.+.++++++..| ++...+..++.++...|+.++|..+++.+
T Consensus       166 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  208 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQL  208 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            7777777777777 66666766677777777777777766655

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.53  E-value=2.6e-12  Score=134.08  Aligned_cols=225  Identities=9%  Similarity=-0.109  Sum_probs=122.6

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCcHHHHH
Q 003457          180 TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQ----SGCLELGEKVHVFVKMRGFEMGAILGT  255 (818)
Q Consensus       180 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~----~g~~~~A~~i~~~~~~~g~~~~~~~~~  255 (818)
                      +..++..+...+...+++++|++.|++..+.+   +...+..+...+..    .+++++|...+++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            33445555555555566666666666555522   33445555555555    555666666555555543   344444


Q ss_pred             HHHHHHHh----CCCHHHHHHHHhhCCC-CChhhHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457          256 ALVHMYTK----NGALAKAKALFDSMPE-RNIATWNAMISGLAS----HGHAEEALDLFRKLEKEQIVPNDITFVGVLSA  326 (818)
Q Consensus       256 ~Li~~~~~----~g~~~~A~~~f~~m~~-~d~~~~~~Li~~~~~----~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  326 (818)
                      .+..+|..    .+++++|.+.|++..+ .+...+..+...|..    .+++++|+..|++..+.+   +...+..+...
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~  155 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSL  155 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHH
Confidence            45555555    5555555555544432 244455555555555    566666666666665543   34445555555


Q ss_pred             HHH----cCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-
Q 003457          327 CCH----AGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR----CGKVLEAEELIKRMVWKPDVVMWGALLAACKN-  397 (818)
Q Consensus       327 ~~~----~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~----~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~-  397 (818)
                      |..    .+++++|...|++..+.    .+...+..+..+|..    .+++++|++.|+++....+...+..+...|.+ 
T Consensus       156 ~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g  231 (273)
T 1ouv_A          156 YDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQYNG  231 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHcC
Confidence            555    56666666666665543    234555555555666    66666666666555322234555555555555 


Q ss_pred             ---cCCHHHHHHHHHHHHhcCCC
Q 003457          398 ---HGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       398 ---~g~~~~A~~~~~~~~~~~P~  417 (818)
                         .+++++|++.|+++++++|+
T Consensus       232 ~~~~~~~~~A~~~~~~a~~~~~~  254 (273)
T 1ouv_A          232 EGVTRNEKQAIENFKKGCKLGAK  254 (273)
T ss_dssp             SSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             CCcccCHHHHHHHHHHHHHcCCH
Confidence               56666666666666666554

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.53  E-value=3.8e-13  Score=131.41  Aligned_cols=163  Identities=11%  Similarity=0.080  Sum_probs=144.7

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Q 003457          281 NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMV  360 (818)
Q Consensus       281 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li  360 (818)
                      +...|..+...|.+.|++++|++.|++.++..+. +...+..+..+|.+.|++++|...+..+...  .+.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHH
Confidence            5678899999999999999999999999887543 6788889999999999999999999998876  556678888888


Q ss_pred             HHHHHcCCHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHH
Q 003457          361 DLLGRCGKVLEAEELIKRMV-WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQ  438 (818)
Q Consensus       361 ~~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA  438 (818)
                      ..+...+++++|.+.++++. ..| +...+..+...+.+.|++++|++.|+++++++|+++.++..++.+|.+.|++++|
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            99999999999999999872 334 6888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 003457          439 LEILLVQV  446 (818)
Q Consensus       439 ~~l~~~~~  446 (818)
                      ++.++..+
T Consensus       161 ~~~~~~al  168 (184)
T 3vtx_A          161 VKYFKKAL  168 (184)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99777664

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.53  E-value=2.6e-13  Score=139.42  Aligned_cols=200  Identities=14%  Similarity=0.008  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHH
Q 003457          217 VTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLA  293 (818)
Q Consensus       217 ~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~  293 (818)
                      ..+..+...+...|++++|...++++.+.. +.+...+..+...|.+.|++++|.+.|+++.+   .+...+..+...|.
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~  116 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLY  116 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHH
Confidence            344455555555566666666665555543 23344444445555555555555555444332   23334444444444


Q ss_pred             HcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHH
Q 003457          294 SHGHAEEALDLFRKLEKEQIVP-NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEA  372 (818)
Q Consensus       294 ~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A  372 (818)
                      ..|++++|+++++++.+.+..| +...+..+..++...|++++|.+.++++.+.  .+.+...+..+...|.+.|++++|
T Consensus       117 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRL--NRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHHH
Confidence            4444444444444444411122 2233334444444444444444444444433  222334444444444444444444


Q ss_pred             HHHHHHc-CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc
Q 003457          373 EELIKRM-VWK-PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNH  419 (818)
Q Consensus       373 ~~~~~~m-~~~-pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~  419 (818)
                      .+.|+++ ... .+...+..+...+...|++++|.+.++++++..|+++
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~  243 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSL  243 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSH
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCH
Confidence            4444443 111 1233344444444444444444444444444444433

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.53  E-value=1.3e-12  Score=136.33  Aligned_cols=220  Identities=11%  Similarity=-0.032  Sum_probs=195.2

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh----CCCHHHHHHHHhhCCC-CChhhHHHHH
Q 003457          215 NSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTK----NGALAKAKALFDSMPE-RNIATWNAMI  289 (818)
Q Consensus       215 d~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~----~g~~~~A~~~f~~m~~-~d~~~~~~Li  289 (818)
                      +..++..+...+...+++++|.+.+++..+.   .+...+..+...|..    .+++++|.+.|++..+ .+...+..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg   81 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLG   81 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            5677788888999999999999999999984   355778889999999    9999999999998765 4778899999


Q ss_pred             HHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Q 003457          290 SGLAS----HGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCH----AGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVD  361 (818)
Q Consensus       290 ~~~~~----~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~----~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~  361 (818)
                      ..|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...|++..+. +   +...+..+..
T Consensus        82 ~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~  154 (273)
T 1ouv_A           82 NLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL-N---DGDGCTILGS  154 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHH
T ss_pred             HHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHH
Confidence            99999    999999999999999875   77888899999999    99999999999998875 2   6778888999


Q ss_pred             HHHH----cCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHH--
Q 003457          362 LLGR----CGKVLEAEELIKRMVWKPDVVMWGALLAACKN----HGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAE--  431 (818)
Q Consensus       362 ~~~~----~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~----~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~--  431 (818)
                      .|..    .+++++|++.|+++....+...+..+...|..    .+++++|++.|+++++.+|  +..+..++.+|.+  
T Consensus       155 ~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~  232 (273)
T 1ouv_A          155 LYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN--GGGCFNLGAMQYNGE  232 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTS
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCC
Confidence            9998    99999999999998544577888999999999    9999999999999999876  7889999999999  


Q ss_pred             --hhchHHHHHHHHHHH
Q 003457          432 --AESMKMQLEILLVQV  446 (818)
Q Consensus       432 --~G~~~eA~~l~~~~~  446 (818)
                        .+++++|++.++...
T Consensus       233 ~~~~~~~~A~~~~~~a~  249 (273)
T 1ouv_A          233 GVTRNEKQAIENFKKGC  249 (273)
T ss_dssp             SSSCCSTTHHHHHHHHH
T ss_pred             CcccCHHHHHHHHHHHH
Confidence              999999999776663

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.52  E-value=2.4e-13  Score=138.47  Aligned_cols=210  Identities=13%  Similarity=0.042  Sum_probs=138.7

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcC
Q 003457          220 ASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHG  296 (818)
Q Consensus       220 ~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g  296 (818)
                      ..+...+...|++++|...++++.+.. +.+...+..+...|.+.|++++|.+.|+++.+   .+...+..+...|...|
T Consensus        27 ~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~  105 (243)
T 2q7f_A           27 GQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKE  105 (243)
T ss_dssp             ---------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhc
Confidence            333334444444444444444444332 22344444444555555555555555544432   34566777777788888


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 003457          297 HAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELI  376 (818)
Q Consensus       297 ~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~  376 (818)
                      ++++|++.++++.+... .+...+..+...+.+.|++++|...++++.+.  .+.+...+..+...|.+.|++++|++.|
T Consensus       106 ~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~  182 (243)
T 2q7f_A          106 MYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQF  182 (243)
T ss_dssp             CHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            88888888888877643 35667778888888889999999998888875  4556788888889999999999999999


Q ss_pred             HHcC-CC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh
Q 003457          377 KRMV-WK-PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE  433 (818)
Q Consensus       377 ~~m~-~~-pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G  433 (818)
                      +++. .. .+..++..+...|...|++++|++.+++++++.|++...+..++.+....|
T Consensus       183 ~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~  241 (243)
T 2q7f_A          183 AAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLLGHHHH  241 (243)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC------
T ss_pred             HHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHHHhhcc
Confidence            8872 23 357889999999999999999999999999999999888887776655443

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.52  E-value=2.6e-12  Score=131.89  Aligned_cols=192  Identities=8%  Similarity=-0.054  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Q 003457          183 VWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYT  262 (818)
Q Consensus       183 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~  262 (818)
                      .|..+...+...|++++|++.|+++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...|.
T Consensus        39 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  116 (252)
T 2ho1_A           39 AYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLY  116 (252)
T ss_dssp             HHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHH
Confidence            45555555555555555555555555442 3344445555555555555555555555555443 233444555555555


Q ss_pred             hCCCHHHHHHHHhhCCC----C-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 003457          263 KNGALAKAKALFDSMPE----R-NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGR  337 (818)
Q Consensus       263 ~~g~~~~A~~~f~~m~~----~-d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~  337 (818)
                      +.|++++|.+.|+++.+    + +...+..+...|.+.|++++|+..|+++.+... .+...+..+...+...|++++|.
T Consensus       117 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR-NQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             HTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCCHHHHH
Confidence            55555555555555443    1 233444555555555555555555555554421 13444455555555555555555


Q ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc
Q 003457          338 QIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       338 ~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                      ..++++.+.  .+.+...+..+...|.+.|++++|.+.++++
T Consensus       196 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~  235 (252)
T 2ho1_A          196 QYYDLFAQG--GGQNARSLLLGIRLAKVFEDRDTAASYGLQL  235 (252)
T ss_dssp             HHHHHHHTT--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHh--CcCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            555554432  2334444555555555555555555555554

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.50  E-value=5.5e-13  Score=147.73  Aligned_cols=259  Identities=10%  Similarity=-0.042  Sum_probs=162.0

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCChhHHHHHHHHHHHc----C-CCCcHHHHHHH
Q 003457          187 MISGYAQSFRANEALMLFDQMLMEGFEPNS----VTLASVLSACAQSGCLELGEKVHVFVKMR----G-FEMGAILGTAL  257 (818)
Q Consensus       187 Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~----~t~~~ll~~~~~~g~~~~A~~i~~~~~~~----g-~~~~~~~~~~L  257 (818)
                      +...+...|++++|+..|+++++.. +.+.    ..+..+...+...|++++|...++++++.    + .+.....+..+
T Consensus        54 ~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  132 (411)
T 4a1s_A           54 EGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNL  132 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHH
Confidence            3344444455555555555544432 1122    23444444444555555555555444432    0 01123344455


Q ss_pred             HHHHHhCCCHHHHHHHHhhCCC---------CChhhHHHHHHHHHHcCC-----------------HHHHHHHHHHHHHc
Q 003457          258 VHMYTKNGALAKAKALFDSMPE---------RNIATWNAMISGLASHGH-----------------AEEALDLFRKLEKE  311 (818)
Q Consensus       258 i~~~~~~g~~~~A~~~f~~m~~---------~d~~~~~~Li~~~~~~g~-----------------~~~A~~l~~~m~~~  311 (818)
                      ...|...|++++|.+.|+++.+         ....++..+...|...|+                 +++|++.+++..+.
T Consensus       133 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~  212 (411)
T 4a1s_A          133 GNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKL  212 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHH
Confidence            5555666666666555554432         123356667777777777                 77777777765432


Q ss_pred             ----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHcC--
Q 003457          312 ----QIVP-NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAEELIKRMV--  380 (818)
Q Consensus       312 ----g~~p-d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m~--  380 (818)
                          +..+ ....+..+...+...|++++|...+++..+......+    ...+..+...|...|++++|++.|+++.  
T Consensus       213 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  292 (411)
T 4a1s_A          213 MRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLAL  292 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence                1111 1246667778888888888888888887654211122    2367788888899999999999888762  


Q ss_pred             --CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC------cchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          381 --WKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEPNN------HGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       381 --~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~------~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                        ...+    ..++..+...|...|++++|++.+++++++.++.      ...+..++.+|.+.|++++|.+.++...
T Consensus       293 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  370 (411)
T 4a1s_A          293 AVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHL  370 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence              1111    5677888888999999999999999998865442      4588899999999999999999776653

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.50  E-value=1.2e-12  Score=132.02  Aligned_cols=191  Identities=14%  Similarity=-0.009  Sum_probs=81.2

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 003457          182 NVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMY  261 (818)
Q Consensus       182 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~  261 (818)
                      ..+..+...+.+.|++++|+..|++.++.. +.+...+..+..++.+.|++++|...++++++.. +.+...+..+..+|
T Consensus         6 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~   83 (217)
T 2pl2_A            6 QNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAY   83 (217)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            344444555555555555555555554432 3344444445555555555555555555555443 23334444444444


Q ss_pred             HhC-----------CCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003457          262 TKN-----------GALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSAC  327 (818)
Q Consensus       262 ~~~-----------g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~  327 (818)
                      .+.           |++++|+..|++..+   .+...|..+...|...|++++|+..|+++++..  .+...+..+..++
T Consensus        84 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~  161 (217)
T 2pl2_A           84 VALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELY  161 (217)
T ss_dssp             HHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHH
T ss_pred             HHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHH
Confidence            443           444444444443332   123344444444444444444444444444443  3444444444444


Q ss_pred             HHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 003457          328 CHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKR  378 (818)
Q Consensus       328 ~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~  378 (818)
                      ...|++++|...|+++.+.  .+.+...+..+...+.+.|++++|++.|++
T Consensus       162 ~~~g~~~~A~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          162 LSMGRLDEALAQYAKALEQ--APKDLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTC-------------
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            4444444444444444433  222344444444444444444444444443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.50  E-value=6.1e-13  Score=146.49  Aligned_cols=300  Identities=8%  Similarity=-0.052  Sum_probs=197.6

Q ss_pred             CCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhCCChHHHHHHHHHhhcC---------
Q 003457          112 APNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLD---LHVVNCLVRCYSVSSDLNNARQVFDEIRNR---------  179 (818)
Q Consensus       112 ~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~---------  179 (818)
                      ......+......+...|++++|...++++++......   ..++..+...|...|++++|...|++..+.         
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            34555666777778888888888888888887643311   246677777888888888888887765431         


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCC--------------------hhH
Q 003457          180 TLNVWTTMISGYAQSFRANEALMLFDQMLMEGF-EPN----SVTLASVLSACAQSGC--------------------LEL  234 (818)
Q Consensus       180 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~-~pd----~~t~~~ll~~~~~~g~--------------------~~~  234 (818)
                      ...++..+...|...|++++|+..+++..+... .++    ..++..+...+...|+                    +++
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~  165 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQA  165 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHH
Confidence            123566777777777777777777777654310 011    2244445555555555                    333


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Q 003457          235 GEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--RNIATWNAMISGLASHGHAEEALDLFRKLEKEQ  312 (818)
Q Consensus       235 A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g  312 (818)
                      |...+++..+                            ++.....  .....+..+...|...|++++|+..+++..+..
T Consensus       166 A~~~~~~al~----------------------------~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  217 (406)
T 3sf4_A          166 AVDFYEENLS----------------------------LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIA  217 (406)
T ss_dssp             HHHHHHHHHH----------------------------HHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH----------------------------HHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            3333333222                            1111111  123467777778888888888888888776421


Q ss_pred             C-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHcC---
Q 003457          313 I-VPN----DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAEELIKRMV---  380 (818)
Q Consensus       313 ~-~pd----~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m~---  380 (818)
                      . .++    ...+..+..++...|++++|...+++..+......+    ..++..+...|.+.|++++|.+.|+++.   
T Consensus       218 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  297 (406)
T 3sf4_A          218 KEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIA  297 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHH
Confidence            1 112    236677788888889999998888887654211122    5577888888999999999999888772   


Q ss_pred             -CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC------CCcchHHHHHHHHHHhhchHHHH
Q 003457          381 -WKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEP------NNHGVYVVLSNMYAEAESMKMQL  439 (818)
Q Consensus       381 -~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P------~~~~~y~~L~~~l~~~G~~~eA~  439 (818)
                       ...+    ..++..+...|...|++++|++.+++++++.+      ....++..++.++...|+..++.
T Consensus       298 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~  367 (406)
T 3sf4_A          298 QELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYSTN  367 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSCC-
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHHHH
Confidence             1122    56778888889999999999999999887632      33567888888998888775433

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.49  E-value=2.2e-12  Score=142.04  Aligned_cols=261  Identities=11%  Similarity=-0.019  Sum_probs=175.8

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHHHc----CC-CCcHHHH
Q 003457          184 WTTMISGYAQSFRANEALMLFDQMLMEGFEPN----SVTLASVLSACAQSGCLELGEKVHVFVKMR----GF-EMGAILG  254 (818)
Q Consensus       184 ~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd----~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~----g~-~~~~~~~  254 (818)
                      +..+...+...|++++|+..|+++++.. +.+    ...+..+...+...|++++|...++++...    +. +....++
T Consensus        12 l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   90 (406)
T 3sf4_A           12 LALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   90 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHH
Confidence            3444445555555555555555555442 122    123444445555555555555555554332    10 1113345


Q ss_pred             HHHHHHHHhCCCHHHHHHHHhhCCC-----CC----hhhHHHHHHHHHHcCC--------------------HHHHHHHH
Q 003457          255 TALVHMYTKNGALAKAKALFDSMPE-----RN----IATWNAMISGLASHGH--------------------AEEALDLF  305 (818)
Q Consensus       255 ~~Li~~~~~~g~~~~A~~~f~~m~~-----~d----~~~~~~Li~~~~~~g~--------------------~~~A~~l~  305 (818)
                      ..+...|...|++++|...|++..+     .+    ..++..+...|...|+                    +++|+..+
T Consensus        91 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  170 (406)
T 3sf4_A           91 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFY  170 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            5566666666666666666665543     11    3467777788888888                    88888888


Q ss_pred             HHHHHc----CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHHHHH
Q 003457          306 RKLEKE----QIVPN-DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAEELI  376 (818)
Q Consensus       306 ~~m~~~----g~~pd-~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~  376 (818)
                      ++..+.    +..+. ...+..+...+...|++++|...+++..+...-.++    ..++..+...|...|++++|++.+
T Consensus       171 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  250 (406)
T 3sf4_A          171 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYY  250 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            876542    11111 346778888999999999999999998765222233    347888999999999999999999


Q ss_pred             HHcC----CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC------cchHHHHHHHHHHhhchHHHHHHH
Q 003457          377 KRMV----WKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEPNN------HGVYVVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       377 ~~m~----~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~------~~~y~~L~~~l~~~G~~~eA~~l~  442 (818)
                      +++.    ..++    ..++..+...|...|++++|++.+++++++.+..      ..++..++.+|.+.|++++|.+.+
T Consensus       251 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  330 (406)
T 3sf4_A          251 KKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFA  330 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            8872    1122    5678888999999999999999999999875443      568899999999999999999976


Q ss_pred             HHH
Q 003457          443 LVQ  445 (818)
Q Consensus       443 ~~~  445 (818)
                      +..
T Consensus       331 ~~a  333 (406)
T 3sf4_A          331 EKH  333 (406)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.49  E-value=6.5e-12  Score=125.83  Aligned_cols=202  Identities=11%  Similarity=0.002  Sum_probs=131.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHc-C
Q 003457          221 SVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASH-G  296 (818)
Q Consensus       221 ~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~-g  296 (818)
                      .+...+...|++++|.+.++++.+.. +.+...+..+...|...|++++|.+.|+++.+   .+...+..+...|... |
T Consensus        13 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~   91 (225)
T 2vq2_A           13 QLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLN   91 (225)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcC
Confidence            33333444444444444444444332 22233444444444444444444444444332   2445666677777777 7


Q ss_pred             CHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 003457          297 HAEEALDLFRKLEKEQIVPN-DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEEL  375 (818)
Q Consensus       297 ~~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~  375 (818)
                      ++++|+..++++.+.+..|+ ...+..+..++...|++++|...++++.+.  .+.+...+..+...|.+.|++++|.+.
T Consensus        92 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~  169 (225)
T 2vq2_A           92 RPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQLGDADYY  169 (225)
T ss_dssp             CHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHHHHHH
Confidence            88888888877776322333 456677778888888888888888887765  344577888888888888888888888


Q ss_pred             HHHcC-C-C-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHH
Q 003457          376 IKRMV-W-K-PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVL  425 (818)
Q Consensus       376 ~~~m~-~-~-pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L  425 (818)
                      ++++. . . .+...+..+...+...|+.++|..+++.+.+..|+++.....+
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          170 FKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHh
Confidence            88772 2 2 3566777777778889999999999999988999877665543

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.48  E-value=2.6e-12  Score=136.75  Aligned_cols=260  Identities=12%  Similarity=-0.013  Sum_probs=169.1

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHHHc----CC-CCcHHHHHH
Q 003457          186 TMISGYAQSFRANEALMLFDQMLMEGFEPN----SVTLASVLSACAQSGCLELGEKVHVFVKMR----GF-EMGAILGTA  256 (818)
Q Consensus       186 ~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd----~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~----g~-~~~~~~~~~  256 (818)
                      .....+...|++++|+..|+++++.. +.+    ...+..+...+...|++++|...++++.+.    +. +....++..
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   88 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGN   88 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHH
Confidence            34445555566666666666555542 222    234445555555566666666655554432    11 112345555


Q ss_pred             HHHHHHhCCCHHHHHHHHhhCCC-----CC----hhhHHHHHHHHHHcCC--------------------HHHHHHHHHH
Q 003457          257 LVHMYTKNGALAKAKALFDSMPE-----RN----IATWNAMISGLASHGH--------------------AEEALDLFRK  307 (818)
Q Consensus       257 Li~~~~~~g~~~~A~~~f~~m~~-----~d----~~~~~~Li~~~~~~g~--------------------~~~A~~l~~~  307 (818)
                      +...|...|++++|.+.|++..+     .+    ..++..+...|...|+                    +++|+..+++
T Consensus        89 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  168 (338)
T 3ro2_A           89 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEE  168 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHH
Confidence            66666666777666666665542     11    2366677777777777                    7888877777


Q ss_pred             HHHc----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHH
Q 003457          308 LEKE----QIVP-NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAEELIKR  378 (818)
Q Consensus       308 m~~~----g~~p-d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~  378 (818)
                      ..+.    +..+ ....+..+...+...|++++|...+++..+.....++    ...+..+...|...|++++|.+.+++
T Consensus       169 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  248 (338)
T 3ro2_A          169 NLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  248 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6432    1111 1245667778888889999998888887654211122    34777888888999999999998887


Q ss_pred             cC----CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC------cchHHHHHHHHHHhhchHHHHHHHHH
Q 003457          379 MV----WKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEPNN------HGVYVVLSNMYAEAESMKMQLEILLV  444 (818)
Q Consensus       379 m~----~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~------~~~y~~L~~~l~~~G~~~eA~~l~~~  444 (818)
                      +.    ...+    ..++..+...+...|++++|.+.+++++++.|..      ...+..++.+|.+.|++++|.+.++.
T Consensus       249 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  328 (338)
T 3ro2_A          249 TLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  328 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            62    1122    5677788888999999999999999998865543      44788899999999999999997766


Q ss_pred             HH
Q 003457          445 QV  446 (818)
Q Consensus       445 ~~  446 (818)
                      ..
T Consensus       329 a~  330 (338)
T 3ro2_A          329 HL  330 (338)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.48  E-value=9.6e-13  Score=148.59  Aligned_cols=339  Identities=10%  Similarity=0.015  Sum_probs=233.4

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCh---HHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 003457           85 TLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSL---NCCKQIHTHVSKSGLDLDLHVVNCLVRCYS  161 (818)
Q Consensus        85 ~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~---~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~  161 (818)
                      .+...+.+.|++++|+++|++..+.|.   ...+..|...+...|+.   ++|.+.|++..+.    +...+..|..++.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTC---CTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            356677888999999999999988753   33444555566667777   8999999998864    4455566666555


Q ss_pred             hCC-----ChHHHHHHHHHhhcC-CHHHHHHHHHHHHHcCChH---HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 003457          162 VSS-----DLNNARQVFDEIRNR-TLNVWTTMISGYAQSFRAN---EALMLFDQMLMEGFEPNSVTLASVLSACAQSGCL  232 (818)
Q Consensus       162 ~~g-----~~~~A~~l~~~m~~~-d~~~~~~Li~~~~~~g~~~---~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~  232 (818)
                      ..+     +.++|.+.|++..++ +..++..|...|...+..+   ++.+.+.+..+.|   +......+...|...+.+
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTY  157 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCG
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCc
Confidence            555     788999999998775 4557888888888776543   4566666666555   334556677777777766


Q ss_pred             hHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCC---CHHHHHHHHhhCCC---CChhhHHHHHHHHHHc----CCHHHHH
Q 003457          233 ELGEKVHVFVKMRGFEMGAILGTALVHMYTKNG---ALAKAKALFDSMPE---RNIATWNAMISGLASH----GHAEEAL  302 (818)
Q Consensus       233 ~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g---~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~----g~~~~A~  302 (818)
                      +++......+.+.-...++..+..|..+|.+.|   +.++|.+.|++..+   ++...+..|...|...    +++++|+
T Consensus       158 ~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          158 DQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             GGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            555554443333322334447888999999999   99999999998765   3444456777777654    7999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-H--HHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CHHHHHH
Q 003457          303 DLFRKLEKEQIVPNDITFVGVLSA-C--CHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCG-----KVLEAEE  374 (818)
Q Consensus       303 ~l~~~m~~~g~~pd~~t~~~ll~a-~--~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g-----~~~~A~~  374 (818)
                      .+|++.. .|   +...+..+... +  ...+++++|.+.|++..+. +   +...+..|..+|. .|     ++++|++
T Consensus       238 ~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~  308 (452)
T 3e4b_A          238 ALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVPADAKAAEA  308 (452)
T ss_dssp             HHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSCCCHHHHHH
T ss_pred             HHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCCCCHHHHHH
Confidence            9999987 33   45566666666 4  4689999999999998865 3   7788888888887 55     9999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHH----hhchHHHHHHHHHH
Q 003457          375 LIKRMVWKPDVVMWGALLAACKN----HGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAE----AESMKMQLEILLVQ  445 (818)
Q Consensus       375 ~~~~m~~~pd~~~~~~Li~a~~~----~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~----~G~~~eA~~l~~~~  445 (818)
                      .|++.. .-+...+..|...|..    ..++++|..+|+++.+.  .++.+...|+.+|..    ..++++|...++..
T Consensus       309 ~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A  384 (452)
T 3e4b_A          309 HFEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARN--GQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLA  384 (452)
T ss_dssp             HHHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT--TCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHH
T ss_pred             HHHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh--ChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHH
Confidence            999998 6678888888887766    34999999999998764  567899999999985    34788898866554

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.45  E-value=5.5e-12  Score=130.95  Aligned_cols=240  Identities=12%  Similarity=-0.017  Sum_probs=162.8

Q ss_pred             hCCChhHHHHHHHHHHHcCCC---CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHH
Q 003457           92 SSLNPDKAIFLYMNMRRTGFA---PNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNN  168 (818)
Q Consensus        92 ~~g~~~~Al~lf~~m~~~g~~---pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~  168 (818)
                      ..+++++|+..|+++.+....   .+...+..+...+...|++++|...++++++..+. +...+..+..+|...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCHHH
Confidence            346677777777777764221   13446667777777778888888877777776433 56777777888888888888


Q ss_pred             HHHHHHHhhc---CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003457          169 ARQVFDEIRN---RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMR  245 (818)
Q Consensus       169 A~~l~~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~  245 (818)
                      |.+.|+++.+   .+..+|..+...|.+.|++++|++.|+++.+.  .|+.......+..+...|++++|...++.....
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            8888877765   25667888888888888888888888888775  344444444445556678888888888777776


Q ss_pred             CCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCC-------hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHH
Q 003457          246 GFEMGAILGTALVHMYTKNGALAKAKALFDSMPERN-------IATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDI  318 (818)
Q Consensus       246 g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d-------~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~  318 (818)
                      . +++...+ .++..+...++.++|.+.++++.+.+       ...|..+...|.+.|++++|+..|+++.+..  |+. 
T Consensus       174 ~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~-  248 (275)
T 1xnf_A          174 S-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VHN-  248 (275)
T ss_dssp             S-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CTT-
T ss_pred             C-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--chh-
Confidence            4 3333333 36667777788888888888777632       3567777778888888888888888877653  321 


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHH
Q 003457          319 TFVGVLSACCHAGFIDVGRQIF  340 (818)
Q Consensus       319 t~~~ll~a~~~~g~~~~A~~~~  340 (818)
                       +.....++...+++++|++.+
T Consensus       249 -~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 -FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             -CHHHHHHHHHHHHHHHC----
T ss_pred             -HHHHHHHHHHHHHHHhhHHHH
Confidence             122244556666777766655

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.44  E-value=2e-12  Score=146.84  Aligned_cols=205  Identities=9%  Similarity=-0.064  Sum_probs=165.3

Q ss_pred             hHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCH-HHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          233 ELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGAL-AKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKL  308 (818)
Q Consensus       233 ~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~-~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m  308 (818)
                      +++.+.++...... +.+...+..+...|...|++ ++|++.|++..+   .+...|..+...|.+.|++++|++.|++.
T Consensus        85 ~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a  163 (474)
T 4abn_A           85 EKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGA  163 (474)
T ss_dssp             HHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34444444443332 33555566666666666666 666666665543   34667888888888899999999999998


Q ss_pred             HHcCCCCCHHHHHHHHHHHHHc---------CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHc--------CCHHH
Q 003457          309 EKEQIVPNDITFVGVLSACCHA---------GFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRC--------GKVLE  371 (818)
Q Consensus       309 ~~~g~~pd~~t~~~ll~a~~~~---------g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~--------g~~~~  371 (818)
                      .+.  .|+...+..+..++...         |++++|++.|+++.+.  .+.+...|..+..+|...        |++++
T Consensus       164 l~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          164 LTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             Hhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            876  46677888888888888         9999999999998876  455688899999999988        99999


Q ss_pred             HHHHHHHcC-CCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHH
Q 003457          372 AEELIKRMV-WKP----DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       372 A~~~~~~m~-~~p----d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~  442 (818)
                      |++.|+++. ..|    +...|..+..+|...|++++|++.|+++++++|++..++..++.++...|++++|++.+
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999983 345    68899999999999999999999999999999999999999999999999999999854

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.44  E-value=9.5e-14  Score=162.82  Aligned_cols=125  Identities=14%  Similarity=0.199  Sum_probs=109.5

Q ss_pred             ChHHHHHHHHHhhhhcCCCHHHHHHHHhhcC-------CCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHH
Q 003457           46 DHFAASRLLAFCALSSSGDLSYATRLFNSIQ-------SPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTF  118 (818)
Q Consensus        46 d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~-------~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty  118 (818)
                      -..+||+||..|  ++.|++++|.++|++|.       .||+.+||+||.+|++.|++++|+++|++|.+.|+.||..||
T Consensus       126 ~~~TynaLIdgl--cK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          126 QQQRLLAFFKCC--LLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             HHHHHHHHHHHH--HHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HHHHHHHHHHHH--HhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            456899999999  99999999999997653       589999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHccCCh-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHH
Q 003457          119 TFVLKACSNVRSL-NCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQV  172 (818)
Q Consensus       119 ~~ll~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l  172 (818)
                      +++|.++++.|+. ++|.+++++|.+.|+.||..+|+.++..+.+.+-++...++
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv  258 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV  258 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGG
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHh
Confidence            9999999999985 78999999999999999999999998766655444433333

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.43  E-value=3.1e-12  Score=141.63  Aligned_cols=272  Identities=11%  Similarity=0.004  Sum_probs=173.0

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhCCChHHHHHHHHHhhcC---------CHHH
Q 003457          117 TFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDL----HVVNCLVRCYSVSSDLNNARQVFDEIRNR---------TLNV  183 (818)
Q Consensus       117 ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~Li~~y~~~g~~~~A~~l~~~m~~~---------d~~~  183 (818)
                      .+..+...+...|++++|...++++++.... +.    ..+..+...|...|++++|.+.|++..+.         ...+
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            4445556677777777777777777776433 22    35666677777777777777777665431         1235


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcC-----CCCCHHHHHHHHHHHHhcCC----------hhHHHHHHHHHHHcCCC
Q 003457          184 WTTMISGYAQSFRANEALMLFDQMLMEG-----FEPNSVTLASVLSACAQSGC----------LELGEKVHVFVKMRGFE  248 (818)
Q Consensus       184 ~~~Li~~~~~~g~~~~A~~l~~~m~~~g-----~~pd~~t~~~ll~~~~~~g~----------~~~A~~i~~~~~~~g~~  248 (818)
                      +..+...|...|++++|++.|+++.+..     .+.....+..+...+...|+          .+++...          
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~----------  198 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEA----------  198 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHH----------
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHH----------
Confidence            6666666666777777776666654421     01112234444444444444          1111111          


Q ss_pred             CcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---------CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CC--
Q 003457          249 MGAILGTALVHMYTKNGALAKAKALFDSMPE---------RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIV-PN--  316 (818)
Q Consensus       249 ~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---------~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~-pd--  316 (818)
                                        +++|.+.+++..+         .....+..+...|...|++++|+..+++..+.... ++  
T Consensus       199 ------------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  260 (411)
T 4a1s_A          199 ------------------LTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRA  260 (411)
T ss_dssp             ------------------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             ------------------HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcH
Confidence                              4444444333221         12346677777888888888888888877653111 12  


Q ss_pred             --HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHcC----CCCC--
Q 003457          317 --DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAEELIKRMV----WKPD--  384 (818)
Q Consensus       317 --~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m~----~~pd--  384 (818)
                        ...+..+..+|...|++++|...+++..+...-..+    ..++..+...|...|++++|.+.|+++.    ...+  
T Consensus       261 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  340 (411)
T 4a1s_A          261 AERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRI  340 (411)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChH
Confidence              236677788888889999999888887654211111    5677888889999999999999998872    1112  


Q ss_pred             --HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          385 --VVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       385 --~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                        ..++..+...|...|++++|.+.+++++++.+.
T Consensus       341 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  375 (411)
T 4a1s_A          341 GEARACWSLGNAHSAIGGHERALKYAEQHLQLAXX  375 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhh
Confidence              457788888999999999999999999988765

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.43  E-value=2e-13  Score=160.08  Aligned_cols=159  Identities=14%  Similarity=0.192  Sum_probs=124.0

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHhh-------cCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 003457          149 DLHVVNCLVRCYSVSSDLNNARQVFDEIR-------NRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLAS  221 (818)
Q Consensus       149 ~~~~~~~Li~~y~~~g~~~~A~~l~~~m~-------~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~  221 (818)
                      -..+|++||++|++.|++++|.++|++|.       .+|+.+||+||.+|++.|+.++|.++|++|.+.|+.||..||+.
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            44689999999999999999999998765       36999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCh-hHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCC-----ChhhHHHHHHHHHHc
Q 003457          222 VLSACAQSGCL-ELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPER-----NIATWNAMISGLASH  295 (818)
Q Consensus       222 ll~~~~~~g~~-~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~-----d~~~~~~Li~~~~~~  295 (818)
                      +|.++++.|+. ++|.+++++|.+.|+.||..+|+.++..+.+.+-++...++...+..+     .+.+...|...|.+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d  285 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKD  285 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccC
Confidence            99999999985 788999999999999999999998887766654333333333322211     123344455555554


Q ss_pred             C---------CHHHHHHHHHH
Q 003457          296 G---------HAEEALDLFRK  307 (818)
Q Consensus       296 g---------~~~~A~~l~~~  307 (818)
                      +         ..++-.++|++
T Consensus       286 ~~~s~pk~~~~~~~L~~~~~~  306 (1134)
T 3spa_A          286 GRVSYPKLHLPLKTLQCLFEK  306 (1134)
T ss_dssp             SCCCCCCCSSCHHHHHHHHHH
T ss_pred             CCCcCccccCCHHHHHHHHHH
Confidence            4         23555555554

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.39  E-value=3.7e-11  Score=132.16  Aligned_cols=228  Identities=8%  Similarity=-0.065  Sum_probs=118.2

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCC------CcHHHH
Q 003457          186 TMISGYAQSFRANEALMLFDQMLMEGF-EPN----SVTLASVLSACAQSGCLELGEKVHVFVKMRGFE------MGAILG  254 (818)
Q Consensus       186 ~Li~~~~~~g~~~~A~~l~~~m~~~g~-~pd----~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~------~~~~~~  254 (818)
                      .....+...|++++|+..|++..+.-. .++    ...+..+...+...|++++|...+.++.+....      ....++
T Consensus       108 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  187 (383)
T 3ulq_A          108 FRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCH  187 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHH
Confidence            355566677777777777777765310 112    245566666777777777777777666653100      112344


Q ss_pred             HHHHHHHHhCCCHHHHHHHHhhCCC-----CC----hhhHHHHHHHHHHcCCHHHHHHHHHHHHHc----CC-CCCHHHH
Q 003457          255 TALVHMYTKNGALAKAKALFDSMPE-----RN----IATWNAMISGLASHGHAEEALDLFRKLEKE----QI-VPNDITF  320 (818)
Q Consensus       255 ~~Li~~~~~~g~~~~A~~~f~~m~~-----~d----~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~----g~-~pd~~t~  320 (818)
                      +.+..+|...|++++|.+.|++..+     .+    ..++..+...|...|++++|+..|++..+.    +. +....++
T Consensus       188 ~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  267 (383)
T 3ulq_A          188 SLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAY  267 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHH
Confidence            5555556666666666555554432     11    124555556666666666666666655441    11 1123445


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHHHHcCC---HHHHHHHHHHcCCCCC-HHHHHHHHH
Q 003457          321 VGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK---IEHYGCMVDLLGRCGK---VLEAEELIKRMVWKPD-VVMWGALLA  393 (818)
Q Consensus       321 ~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~---~~~~~~Li~~~~~~g~---~~~A~~~~~~m~~~pd-~~~~~~Li~  393 (818)
                      ..+..++.+.|++++|...+++..+......+   ...+..+...|...|+   +++|+.++++....|+ ...+..+..
T Consensus       268 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~  347 (383)
T 3ulq_A          268 FLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAK  347 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            55555666666666666666554432110011   1223444445555555   5555555555532222 234444555


Q ss_pred             HHHHcCCHHHHHHHHHHHHh
Q 003457          394 ACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~  413 (818)
                      .|...|++++|.+.++++++
T Consensus       348 ~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          348 YYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            55555555555555555554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.38  E-value=1.6e-11  Score=130.67  Aligned_cols=134  Identities=8%  Similarity=-0.030  Sum_probs=87.7

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQI-VPN----DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IE  354 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~-~pd----~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~  354 (818)
                      .+..+...|...|++++|+..+++..+... .++    ...+..+...+...|++++|...+++..+......+    ..
T Consensus       185 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  264 (338)
T 3ro2_A          185 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ  264 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHH
Confidence            455566666666777777666666543210 011    235666677777777777777777776543211122    45


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHcC----CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          355 HYGCMVDLLGRCGKVLEAEELIKRMV----WKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       355 ~~~~Li~~~~~~g~~~~A~~~~~~m~----~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      ++..+...|...|++++|.+.++++.    ...+    ..++..+...|.+.|++++|.+.+++++++.++
T Consensus       265 ~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          265 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            67778888888888888888887762    1112    456778888899999999999999999987765

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.37  E-value=2.5e-11  Score=118.37  Aligned_cols=167  Identities=12%  Similarity=0.068  Sum_probs=140.1

Q ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457          250 GAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA  326 (818)
Q Consensus       250 ~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  326 (818)
                      +..+|..|...|.+.|++++|++.|++..+   .+..+|..+...|.+.|++++|+..+++....... +...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHHH
Confidence            456677778888888888888888877654   46678888888999999999999999998876433 56677778888


Q ss_pred             HHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHH
Q 003457          327 CCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVA  404 (818)
Q Consensus       327 ~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A  404 (818)
                      +...++++.+...+.+..+.  .+.+...+..+..+|.+.|++++|++.|+++ ...| +..+|..+..+|.+.|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            99999999999999998876  5567888999999999999999999999988 3344 688899999999999999999


Q ss_pred             HHHHHHHHhcCCCCc
Q 003457          405 ERVVKEIIALEPNNH  419 (818)
Q Consensus       405 ~~~~~~~~~~~P~~~  419 (818)
                      ++.|+++++++|+++
T Consensus       161 ~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          161 VKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHhCCccCH
Confidence            999999999999854

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.36  E-value=2e-10  Score=122.38  Aligned_cols=220  Identities=11%  Similarity=0.079  Sum_probs=164.9

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-------hcCCh-------hHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh
Q 003457          198 NEALMLFDQMLMEGFEPNSVTLASVLSACA-------QSGCL-------ELGEKVHVFVKMRGFEMGAILGTALVHMYTK  263 (818)
Q Consensus       198 ~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~-------~~g~~-------~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~  263 (818)
                      ++|+.+|+++++.. +-+...|..++..+.       +.|+.       ++|..++++.++.-.+.+...+..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            56667777776653 445556666555554       34665       7888888888873124456677788888888


Q ss_pred             CCCHHHHHHHHhhCCC--C-Chh-hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HcCCHHHHHH
Q 003457          264 NGALAKAKALFDSMPE--R-NIA-TWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACC-HAGFIDVGRQ  338 (818)
Q Consensus       264 ~g~~~~A~~~f~~m~~--~-d~~-~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~-~~g~~~~A~~  338 (818)
                      .|++++|.++|+++.+  | +.. .|..++..+.+.|++++|..+|++.++... .+...|........ ..|++++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            8888888888887765  2 343 788888888899999999999999988643 23444443333322 3699999999


Q ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCC----CC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 003457          339 IFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVW----KP--DVVMWGALLAACKNHGNIEVAERVVKEII  412 (818)
Q Consensus       339 ~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~----~p--d~~~~~~Li~a~~~~g~~~~A~~~~~~~~  412 (818)
                      +|++.++.  .+.+...|..++..+.+.|++++|..+|+++..    .|  ....|..++..+.+.|+.++|..++++++
T Consensus       191 ~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          191 IFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99998876  455788899999999999999999999998832    44  46788888988889999999999999999


Q ss_pred             hcCCCCcch
Q 003457          413 ALEPNNHGV  421 (818)
Q Consensus       413 ~~~P~~~~~  421 (818)
                      +..|++...
T Consensus       269 ~~~p~~~~~  277 (308)
T 2ond_A          269 TAFREEYEG  277 (308)
T ss_dssp             HHTTTTTSS
T ss_pred             HHccccccc
Confidence            999986644

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.35  E-value=1.7e-11  Score=134.92  Aligned_cols=223  Identities=10%  Similarity=-0.014  Sum_probs=175.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHhCCCHHHHHHHHhhCCC-----C-----ChhhHH
Q 003457          222 VLSACAQSGCLELGEKVHVFVKMR----GFEM-GAILGTALVHMYTKNGALAKAKALFDSMPE-----R-----NIATWN  286 (818)
Q Consensus       222 ll~~~~~~g~~~~A~~i~~~~~~~----g~~~-~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~-----~-----d~~~~~  286 (818)
                      ....+...|++++|...++++.+.    +.++ ...++..+..+|...|++++|.+.+++..+     +     ...+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            556678899999999999999875    1111 346788899999999999999998887763     1     234788


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh---CC-CCCHHHHH
Q 003457          287 AMISGLASHGHAEEALDLFRKLEKEQIV-PN----DITFVGVLSACCHAGFIDVGRQIFGSMKRVY---GI-EPKIEHYG  357 (818)
Q Consensus       287 ~Li~~~~~~g~~~~A~~l~~~m~~~g~~-pd----~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~---g~-~p~~~~~~  357 (818)
                      .+...|...|++++|+..|++..+.... ++    ..++..+..+|...|++++|...+++..+..   +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            8999999999999999999998753111 12    2477889999999999999999999987621   22 33467889


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHcC----C--CCC-HHHHHHHHHHHHHcCC---HHHHHHHHHHHHhcCCCCcchHHHHHH
Q 003457          358 CMVDLLGRCGKVLEAEELIKRMV----W--KPD-VVMWGALLAACKNHGN---IEVAERVVKEIIALEPNNHGVYVVLSN  427 (818)
Q Consensus       358 ~Li~~~~~~g~~~~A~~~~~~m~----~--~pd-~~~~~~Li~a~~~~g~---~~~A~~~~~~~~~~~P~~~~~y~~L~~  427 (818)
                      .+...|.+.|++++|.+.++++.    .  .|. ...+..+...+...|+   +++|+.++++. ...|.....+..++.
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~  347 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAK  347 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHH
Confidence            99999999999999999999872    1  122 2335667777888888   88888888776 344555678899999


Q ss_pred             HHHHhhchHHHHHHHHHH
Q 003457          428 MYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       428 ~l~~~G~~~eA~~l~~~~  445 (818)
                      +|.+.|++++|.+.++..
T Consensus       348 ~y~~~g~~~~A~~~~~~a  365 (383)
T 3ulq_A          348 YYHERKNFQKASAYFLKV  365 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHH
Confidence            999999999999987766

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.35  E-value=2.6e-11  Score=143.76  Aligned_cols=163  Identities=18%  Similarity=0.136  Sum_probs=146.2

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Q 003457          281 NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMV  360 (818)
Q Consensus       281 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li  360 (818)
                      +..+|+.|...|.+.|++++|++.|++.++.... +...+..+..+|.+.|++++|++.|+++++.  .+.+...|..+.
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg   84 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            4568899999999999999999999999987433 5788999999999999999999999999876  445688999999


Q ss_pred             HHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHH
Q 003457          361 DLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQ  438 (818)
Q Consensus       361 ~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA  438 (818)
                      .+|.+.|++++|++.|+++ ...| +...|..+..+|.+.|++++|++.|+++++++|+++.++..|+.+|.+.|++++|
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHH
Confidence            9999999999999999988 3455 5889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 003457          439 LEILLVQV  446 (818)
Q Consensus       439 ~~l~~~~~  446 (818)
                      .+.++...
T Consensus       165 ~~~~~kal  172 (723)
T 4gyw_A          165 DERMKKLV  172 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99776654

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.34  E-value=2e-11  Score=123.65  Aligned_cols=179  Identities=12%  Similarity=0.033  Sum_probs=108.3

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Q 003457          281 NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMV  360 (818)
Q Consensus       281 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li  360 (818)
                      |+..+..+...+...|++++|+..|++.++....++...+..+..++...|++++|+..+++..+.  .+.+...+..+.
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~   83 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGKS   83 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHHH
Confidence            344555556666666666666666666665543345555555666666666666666666665543  223345566666


Q ss_pred             HHHHHcCCHHHHHHHHHHc-CCCC-CH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC--CcchHHHHHHHH
Q 003457          361 DLLGRCGKVLEAEELIKRM-VWKP-DV-------VMWGALLAACKNHGNIEVAERVVKEIIALEPN--NHGVYVVLSNMY  429 (818)
Q Consensus       361 ~~~~~~g~~~~A~~~~~~m-~~~p-d~-------~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~--~~~~y~~L~~~l  429 (818)
                      ..|.+.|++++|++.|+++ ...| +.       ..|..+...+...|++++|++.|+++++++|+  ++..+..++.+|
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~  163 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLF  163 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHH
Confidence            6666666666666666655 2223 23       34555555666666666666666666666666  666666666666


Q ss_pred             HHhhch---------------------------HHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeeec
Q 003457          430 AEAESM---------------------------KMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLN  482 (818)
Q Consensus       430 ~~~G~~---------------------------~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l~  482 (818)
                      ...|+.                           ++|++.++...                      +++|+++.+..+++
T Consensus       164 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~----------------------~l~p~~~~~~~~l~  221 (228)
T 4i17_A          164 YNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAV----------------------TLSPNRTEIKQMQD  221 (228)
T ss_dssp             HHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHH----------------------HHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHh----------------------hcCCCCHHHHHHHH
Confidence            666665                           88888666653                      78888877665554


Q ss_pred             C
Q 003457          483 G  483 (818)
Q Consensus       483 ~  483 (818)
                      .
T Consensus       222 ~  222 (228)
T 4i17_A          222 Q  222 (228)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.34  E-value=2.9e-11  Score=116.77  Aligned_cols=159  Identities=14%  Similarity=0.057  Sum_probs=105.8

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLL  363 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~  363 (818)
                      .|..+...+...|++++|+..++++.+... .+...+..+...+...|++++|...++++.+.  .+.+...+..+...|
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~   86 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHH
Confidence            344455555556666666666655554321 24455556666666666666666666666554  334556666666667


Q ss_pred             HHcCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHH
Q 003457          364 GRCGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEI  441 (818)
Q Consensus       364 ~~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l  441 (818)
                      ...|++++|.+.|+++.  ...+...+..+...+...|++++|++.++++++..|+++..+..++.++.+.|++++|.+.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            77777777777776652  2235667777777778888888888888888888888788888888888888888888886


Q ss_pred             HHHH
Q 003457          442 LLVQ  445 (818)
Q Consensus       442 ~~~~  445 (818)
                      ++..
T Consensus       167 ~~~~  170 (186)
T 3as5_A          167 FKKA  170 (186)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6655

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.31  E-value=1.5e-10  Score=123.37  Aligned_cols=209  Identities=9%  Similarity=0.006  Sum_probs=170.8

Q ss_pred             hHHHHHHHHHHHcCCCCcHHHHHHHHHHHH-------hCCCH-------HHHHHHHhhCCC----CChhhHHHHHHHHHH
Q 003457          233 ELGEKVHVFVKMRGFEMGAILGTALVHMYT-------KNGAL-------AKAKALFDSMPE----RNIATWNAMISGLAS  294 (818)
Q Consensus       233 ~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~-------~~g~~-------~~A~~~f~~m~~----~d~~~~~~Li~~~~~  294 (818)
                      ++|..+|+++++.. +.+...|..++..+.       +.|++       ++|..+|++..+    .+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67888999998874 667788888887775       35875       899999998765    355689999999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCC-HH-HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH-HcCCHHH
Q 003457          295 HGHAEEALDLFRKLEKEQIVPN-DI-TFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLG-RCGKVLE  371 (818)
Q Consensus       295 ~g~~~~A~~l~~~m~~~g~~pd-~~-t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~-~~g~~~~  371 (818)
                      .|++++|..+|+++++.  .|+ .. .|..++..+.+.|++++|..+|+++.+.  .+.+...|...+.... ..|++++
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHcCCHHH
Confidence            99999999999999985  343 33 7888999999999999999999998864  3445566655544433 3799999


Q ss_pred             HHHHHHHcC-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCC-CcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          372 AEELIKRMV-WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIAL---EPN-NHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       372 A~~~~~~m~-~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~---~P~-~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      |.++|+++. ..| +...|..++..+.+.|++++|+.+|+++++.   .|+ ....|..++..+.+.|++++|.++++..
T Consensus       188 A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          188 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999882 234 6888999999999999999999999999995   553 6778999999999999999999987766


Q ss_pred             H
Q 003457          446 V  446 (818)
Q Consensus       446 ~  446 (818)
                      .
T Consensus       268 ~  268 (308)
T 2ond_A          268 F  268 (308)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.31  E-value=3.1e-12  Score=135.18  Aligned_cols=233  Identities=13%  Similarity=0.052  Sum_probs=116.2

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHc-------CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc------C-C
Q 003457          182 NVWTTMISGYAQSFRANEALMLFDQMLME-------GFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMR------G-F  247 (818)
Q Consensus       182 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~-------g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~------g-~  247 (818)
                      .++..+...+...|++++|+.+|+++.+.       ..+.....+..+...+...|++++|...++++++.      + .
T Consensus        28 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  107 (311)
T 3nf1_A           28 RTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDH  107 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            46777778888888888888888887663       12223445666667777777777777777776653      1 1


Q ss_pred             CCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc------CCCC-CHHHH
Q 003457          248 EMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKE------QIVP-NDITF  320 (818)
Q Consensus       248 ~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~------g~~p-d~~t~  320 (818)
                      +.....+..+...|...|++++|.+.|+++                               .+.      +..| ....+
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a-------------------------------~~~~~~~~~~~~~~~~~~~  156 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRA-------------------------------LEIREKVLGKDHPDVAKQL  156 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHH-------------------------------HHHHHHHHCTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHH-------------------------------HHHHHHhcCCCChHHHHHH
Confidence            112334444555555555555555555443                               321      1111 12233


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHh-----C-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC----------CCC-
Q 003457          321 VGVLSACCHAGFIDVGRQIFGSMKRVY-----G-IEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV----------WKP-  383 (818)
Q Consensus       321 ~~ll~a~~~~g~~~~A~~~~~~m~~~~-----g-~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~----------~~p-  383 (818)
                      ..+...+...|++++|.++++++.+..     + .+....++..+...|.+.|++++|++.|+++.          ..+ 
T Consensus       157 ~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  236 (311)
T 3nf1_A          157 NNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDE  236 (311)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcc
Confidence            344444444555555555544443320     0 01112344445555555555555555554441          000 


Q ss_pred             ------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          384 ------DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       384 ------d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                            ....+..+...+...+.+.++...+++.....|....++..++.+|.+.|++++|.++++..
T Consensus       237 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  304 (311)
T 3nf1_A          237 NKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAA  304 (311)
T ss_dssp             -CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence                  01122222333344555666666677776667777777777777777777777777766554

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.30  E-value=1.1e-08  Score=119.78  Aligned_cols=79  Identities=9%  Similarity=0.047  Sum_probs=38.7

Q ss_pred             CChHHHHHHHHHhhhhcCCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHhCCC---hhHHHHHHHHHHHcC-CCCCHHH
Q 003457           45 QDHFAASRLLAFCALSSSGDLSYATRLFNSIQ---SPNHFMWNTLIRAQASSLN---PDKAIFLYMNMRRTG-FAPNQHT  117 (818)
Q Consensus        45 ~d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~---~p~~~~yn~Li~~~~~~g~---~~~Al~lf~~m~~~g-~~pd~~t  117 (818)
                      .|...|..++..+  .+.++++.+..+|+++.   ......|..-+..-.+.++   ++.+..+|++..... ..|+...
T Consensus        64 ~d~~~W~~yi~~~--~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~L  141 (679)
T 4e6h_A           64 TDIFLYVKLLKHH--VSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSL  141 (679)
T ss_dssp             TCHHHHHHHHHHH--HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHH
T ss_pred             CCHHHHHHHHHHH--HhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHH
Confidence            3555555555555  55555555555555544   2334445555555555555   555555555555432 1245544


Q ss_pred             HHHHHHHH
Q 003457          118 FTFVLKAC  125 (818)
Q Consensus       118 y~~ll~~~  125 (818)
                      |...+.-.
T Consensus       142 W~~Yl~f~  149 (679)
T 4e6h_A          142 WLSYITYV  149 (679)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444433

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.29  E-value=1.2e-11  Score=130.65  Aligned_cols=239  Identities=13%  Similarity=0.057  Sum_probs=150.5

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHhhc--------CC---HHHHHHHHHHHHHcCChHHHHHHHHHHHHc------C
Q 003457          149 DLHVVNCLVRCYSVSSDLNNARQVFDEIRN--------RT---LNVWTTMISGYAQSFRANEALMLFDQMLME------G  211 (818)
Q Consensus       149 ~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~--------~d---~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~------g  211 (818)
                      +..++..+...|...|++++|..+|+++.+        .+   ...+..+...|...|++++|+..++++++.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            456788899999999999999999998876        22   346888999999999999999999998764      2


Q ss_pred             C-CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcC------CCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhh
Q 003457          212 F-EPNSVTLASVLSACAQSGCLELGEKVHVFVKMRG------FEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIAT  284 (818)
Q Consensus       212 ~-~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g------~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~  284 (818)
                      - +.....+..+...+...|++++|...++++.+..      ..+.                              ....
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~------------------------------~~~~  155 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPD------------------------------VAKQ  155 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHH------------------------------HHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChH------------------------------HHHH
Confidence            1 2235577788899999999999999999888641      1111                              1223


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc------CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh------CCCC
Q 003457          285 WNAMISGLASHGHAEEALDLFRKLEKE------QIVPN-DITFVGVLSACCHAGFIDVGRQIFGSMKRVY------GIEP  351 (818)
Q Consensus       285 ~~~Li~~~~~~g~~~~A~~l~~~m~~~------g~~pd-~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~------g~~p  351 (818)
                      +..+...|...|++++|+++|+++.+.      +..|+ ...+..+..+|...|++++|...++++.+..      ...+
T Consensus       156 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  235 (311)
T 3nf1_A          156 LNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDD  235 (311)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCc
Confidence            444444555555555555555554432      11111 2344555566666666666666666655420      0111


Q ss_pred             C-------HHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          352 K-------IEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       352 ~-------~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      .       ...+..+...+...+.+.+|...+++.. ..| +..++..+...|.+.|++++|+++|++++++.|+
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          236 ENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             --CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            1       1222333334445556666666676663 233 3678888999999999999999999999998775

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.28  E-value=2.7e-09  Score=116.52  Aligned_cols=257  Identities=13%  Similarity=-0.020  Sum_probs=138.0

Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHH----HHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-Cc----HHHHHHHHH
Q 003457          189 SGYAQSFRANEALMLFDQMLMEGFEPNSV----TLASVLSACAQSGCLELGEKVHVFVKMRGFE-MG----AILGTALVH  259 (818)
Q Consensus       189 ~~~~~~g~~~~A~~l~~~m~~~g~~pd~~----t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~-~~----~~~~~~Li~  259 (818)
                      ..+...|++++|...+++.++.....+..    .+..+...+...|++++|...+++..+.... .+    ...+..+..
T Consensus        22 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  101 (373)
T 1hz4_A           22 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE  101 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            34444555555555555554432111111    2333334444555555555555554432100 01    122344555


Q ss_pred             HHHhCCCHHHHHHHHhhCCC-------C----ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC----CHHHHHHHH
Q 003457          260 MYTKNGALAKAKALFDSMPE-------R----NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVP----NDITFVGVL  324 (818)
Q Consensus       260 ~~~~~g~~~~A~~~f~~m~~-------~----d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p----d~~t~~~ll  324 (818)
                      .+...|++++|.+.+++..+       +    ....+..+...+...|++++|...+++..+.....    ....+..+.
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  181 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  181 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHH
Confidence            56666666666665554432       1    12244556666677777777777777766532211    124555666


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHH-----HHHHHHHHcCCHHHHHHHHHHcC-CCCC-----HHHHHHHHH
Q 003457          325 SACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYG-----CMVDLLGRCGKVLEAEELIKRMV-WKPD-----VVMWGALLA  393 (818)
Q Consensus       325 ~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~-----~Li~~~~~~g~~~~A~~~~~~m~-~~pd-----~~~~~~Li~  393 (818)
                      ..+...|++++|...+++.............+.     .++..+...|++++|.+.+++.. ..+.     ...+..+..
T Consensus       182 ~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~  261 (373)
T 1hz4_A          182 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR  261 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHH
Confidence            677777777777777777654421111111111     23334667777777777777763 1111     234556666


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCC------CcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          394 ACKNHGNIEVAERVVKEIIALEPN------NHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~P~------~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .+...|++++|...++++++..+.      ....+..++.++.+.|++++|.+.++..
T Consensus       262 ~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a  319 (373)
T 1hz4_A          262 AQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDA  319 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            777777777777777777664322      1235666777777777777777755544

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.28  E-value=9.2e-10  Score=120.76  Aligned_cols=160  Identities=13%  Similarity=-0.046  Sum_probs=77.7

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCC--C----CcHHH
Q 003457          185 TTMISGYAQSFRANEALMLFDQMLMEGF-EPN----SVTLASVLSACAQSGCLELGEKVHVFVKMRGF--E----MGAIL  253 (818)
Q Consensus       185 ~~Li~~~~~~g~~~~A~~l~~~m~~~g~-~pd----~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~--~----~~~~~  253 (818)
                      ......+...|++++|+..|+++.+.-. .++    ...+..+...+...|++++|...++++.+...  .    ....+
T Consensus       105 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  184 (378)
T 3q15_A          105 FFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQS  184 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHH
Confidence            3344556667777777777777654310 122    23455566666667777777666666554310  0    01223


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHhhCCC-----CC----hhhHHHHHHHHHHcCCHHHHHHHHHHHHH-----cCCCCCHHH
Q 003457          254 GTALVHMYTKNGALAKAKALFDSMPE-----RN----IATWNAMISGLASHGHAEEALDLFRKLEK-----EQIVPNDIT  319 (818)
Q Consensus       254 ~~~Li~~~~~~g~~~~A~~~f~~m~~-----~d----~~~~~~Li~~~~~~g~~~~A~~l~~~m~~-----~g~~pd~~t  319 (818)
                      ++.+..+|...|++++|.+.|++..+     .+    ..++..+...|...|++++|+..|++..+     .... ...+
T Consensus       185 ~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~-~~~~  263 (378)
T 3q15_A          185 LFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDL-LPKV  263 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGG-HHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChh-HHHH
Confidence            44444555555555555554444332     01    12344444445555555555555554443     2111 1334


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Q 003457          320 FVGVLSACCHAGFIDVGRQIFGSMKR  345 (818)
Q Consensus       320 ~~~ll~a~~~~g~~~~A~~~~~~m~~  345 (818)
                      +..+..++.+.|++++|...+++..+
T Consensus       264 ~~~la~~~~~~g~~~~A~~~~~~al~  289 (378)
T 3q15_A          264 LFGLSWTLCKAGQTQKAFQFIEEGLD  289 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            44444444455555555555444443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.26  E-value=1.5e-10  Score=131.35  Aligned_cols=209  Identities=10%  Similarity=-0.033  Sum_probs=160.3

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh-hHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHh
Q 003457          197 ANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCL-ELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFD  275 (818)
Q Consensus       197 ~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~-~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~  275 (818)
                      +++++..+++..... +.+...+..+...+...|++ ++|.+.++++++.. +.+...+..+..+|.+.|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            455556666554432 34566667777777777777 77777777777764 4456677777777778888888887777


Q ss_pred             hCCC--CChhhHHHHHHHHHHc---------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc--------CCHHHH
Q 003457          276 SMPE--RNIATWNAMISGLASH---------GHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHA--------GFIDVG  336 (818)
Q Consensus       276 ~m~~--~d~~~~~~Li~~~~~~---------g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~--------g~~~~A  336 (818)
                      +..+  |+...+..+...|...         |++++|+..|++..+..+. +...+..+..+|...        |++++|
T Consensus       162 ~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~~~A  240 (474)
T 4abn_A          162 GALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKISQQA  240 (474)
T ss_dssp             HHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchHHHH
Confidence            7654  5566777777788887         8999999999999887433 577888888888888        899999


Q ss_pred             HHHHHHHHHHhCCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 003457          337 RQIFGSMKRVYGIE---PKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKE  410 (818)
Q Consensus       337 ~~~~~~m~~~~g~~---p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~  410 (818)
                      +..|+++.+.  .+   .+...|..+..+|.+.|++++|++.|+++ ...| +...+..+...+...|++++|++.+++
T Consensus       241 ~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          241 LSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9999998875  33   47889999999999999999999999988 3345 577888888889999999888876543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.25  E-value=1.5e-10  Score=127.10  Aligned_cols=225  Identities=9%  Similarity=-0.070  Sum_probs=172.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCC--C---CcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC-----C-----ChhhH
Q 003457          221 SVLSACAQSGCLELGEKVHVFVKMRGF--E---MGAILGTALVHMYTKNGALAKAKALFDSMPE-----R-----NIATW  285 (818)
Q Consensus       221 ~ll~~~~~~g~~~~A~~i~~~~~~~g~--~---~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~-----~-----d~~~~  285 (818)
                      .....+...|++++|...++++.+.-.  +   ....++..+..+|...|+++.|...+++..+     +     ...++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            344566789999999999999986521  1   1245778899999999999999988887653     1     23478


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh---CCCCCHHHHH
Q 003457          286 NAMISGLASHGHAEEALDLFRKLEKE----QIVP-NDITFVGVLSACCHAGFIDVGRQIFGSMKRVY---GIEPKIEHYG  357 (818)
Q Consensus       286 ~~Li~~~~~~g~~~~A~~l~~~m~~~----g~~p-d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~---g~~p~~~~~~  357 (818)
                      +.+...|...|++++|++.|++..+.    +..+ ...++..+..+|...|++++|...+++..+..   +.+....++.
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  265 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLF  265 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHH
Confidence            88999999999999999999988753    1111 13467788999999999999999999987621   2333467888


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHcC----C--CCC-HHHHHHHHHHHHHcCC---HHHHHHHHHHHHhcCCCCcchHHHHHH
Q 003457          358 CMVDLLGRCGKVLEAEELIKRMV----W--KPD-VVMWGALLAACKNHGN---IEVAERVVKEIIALEPNNHGVYVVLSN  427 (818)
Q Consensus       358 ~Li~~~~~~g~~~~A~~~~~~m~----~--~pd-~~~~~~Li~a~~~~g~---~~~A~~~~~~~~~~~P~~~~~y~~L~~  427 (818)
                      .+...|.+.|++++|.+.++++.    .  .+. ...+..+...+...++   +++|+..+++. ...|+....+..++.
T Consensus       266 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~  344 (378)
T 3q15_A          266 GLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAA  344 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHH
Confidence            99999999999999999999872    1  232 3445666666777788   88888888762 233445678889999


Q ss_pred             HHHHhhchHHHHHHHHHHH
Q 003457          428 MYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       428 ~l~~~G~~~eA~~l~~~~~  446 (818)
                      +|.+.|++++|.+.++...
T Consensus       345 ~y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          345 VFESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHH
Confidence            9999999999999776663

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.25  E-value=6.1e-09  Score=122.08  Aligned_cols=401  Identities=9%  Similarity=0.024  Sum_probs=209.5

Q ss_pred             CCCChhHHHHHHHHhc---CchHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhcCCC---HHHHHHHHhhcC--C---CC
Q 003457           11 PPLPIPPLSLLADKCK---SMHQLKQIHAQMIISSRIQDHFAASRLLAFCALSSSGD---LSYATRLFNSIQ--S---PN   79 (818)
Q Consensus        11 ~~p~~~tl~~ll~~c~---~~~~~~~~~~~~~~~g~~~d~~~~~~Ll~~~a~~k~g~---~e~A~~lf~~~~--~---p~   79 (818)
                      .+-|..++..++..+.   ....++.+++.++.. +......|...+.+-  .+.++   .+.+.++|++..  .   |+
T Consensus        62 np~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E--~~~~~~~~~~~v~~lfeRal~~~~~~~s  138 (679)
T 4e6h_A           62 QPTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLE--FDKMEELDAAVIEPVLARCLSKELGNND  138 (679)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHH--HTC--CCCHHHHHHHHHHHTCSSSCCCC
T ss_pred             CcCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH--HhhCCcchHHHHHHHHHHHHHhcCCCCC
Confidence            3445666666666653   344557788887765 666778888888887  77888   999999999876  2   78


Q ss_pred             HHHHHHHHHHHHhCCCh--------hHHHHHHHHHHH-cCC-CCC-HHHHHHHHHHHHc---------cCChHHHHHHHH
Q 003457           80 HFMWNTLIRAQASSLNP--------DKAIFLYMNMRR-TGF-APN-QHTFTFVLKACSN---------VRSLNCCKQIHT  139 (818)
Q Consensus        80 ~~~yn~Li~~~~~~g~~--------~~Al~lf~~m~~-~g~-~pd-~~ty~~ll~~~~~---------~g~~~~A~~~~~  139 (818)
                      +..|..-+....+.++.        +...++|+.... -|. .|+ ...|...+.....         .++++.+..+|+
T Consensus       139 v~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~  218 (679)
T 4e6h_A          139 LSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYK  218 (679)
T ss_dssp             HHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHH
Confidence            88888888776665543        334477777654 355 554 3566666654432         335677888888


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhCC-------------ChHHHHHHHHHhhc------CC--------------------
Q 003457          140 HVSKSGLDLDLHVVNCLVRCYSVSS-------------DLNNARQVFDEIRN------RT--------------------  180 (818)
Q Consensus       140 ~m~~~g~~p~~~~~~~Li~~y~~~g-------------~~~~A~~l~~~m~~------~d--------------------  180 (818)
                      .++......-..+|......-...+             +++.|...+.++..      +.                    
T Consensus       219 raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~  298 (679)
T 4e6h_A          219 TLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYD  298 (679)
T ss_dssp             HHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCC
T ss_pred             HHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhH
Confidence            8875422222334433322211111             12223333332210      00                    


Q ss_pred             ---HHHHHHHHHHHHHcC-------ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHH-HHHHHHHHcCCCC
Q 003457          181 ---LNVWTTMISGYAQSF-------RANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGE-KVHVFVKMRGFEM  249 (818)
Q Consensus       181 ---~~~~~~Li~~~~~~g-------~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~-~i~~~~~~~g~~~  249 (818)
                         ...|...+.---..+       ..+.+..+|++++.. ++-+...|...+..+.+.|+.++|. .+|++.+... +.
T Consensus       299 ~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~  376 (679)
T 4e6h_A          299 VQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PN  376 (679)
T ss_dssp             HHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CC
Confidence               012333332211111       012334455555544 2345555555555555556666664 6666665532 34


Q ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHhhCCC-------------C------------ChhhHHHHHHHHHHcCCHHHHHHH
Q 003457          250 GAILGTALVHMYTKNGALAKAKALFDSMPE-------------R------------NIATWNAMISGLASHGHAEEALDL  304 (818)
Q Consensus       250 ~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~-------------~------------d~~~~~~Li~~~~~~g~~~~A~~l  304 (818)
                      +...+..++...-+.|+++.|.++|+++.+             |            ....|...+....+.++.+.|..+
T Consensus       377 s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~v  456 (679)
T 4e6h_A          377 SAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKI  456 (679)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            444555555566666666666666665542             1            012355555555555566666666


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CC
Q 003457          305 FRKLEKEQIVPNDITFVGVLSACCHA-GFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WK  382 (818)
Q Consensus       305 ~~~m~~~g~~pd~~t~~~ll~a~~~~-g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~  382 (818)
                      |.++++.-.......|...+..-.+. ++.+.|..+|+..++.  ++.+...+...++.....|+.+.|..+|+++. ..
T Consensus       457 f~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~--~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~  534 (679)
T 4e6h_A          457 FGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY--FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKI  534 (679)
T ss_dssp             HHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTS
T ss_pred             HHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence            66655541111122222222111222 3356666666665554  33344455555555555666666666666552 11


Q ss_pred             C----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 003457          383 P----DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       383 p----d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                      |    ....|...+.--.+.|+.+.+..+.+++.+..|++
T Consensus       535 ~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~  574 (679)
T 4e6h_A          535 SDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEV  574 (679)
T ss_dssp             SSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTC
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            2    13445555555555666666666666666666653

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.24  E-value=7.7e-10  Score=106.63  Aligned_cols=168  Identities=11%  Similarity=0.022  Sum_probs=145.8

Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003457          251 AILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSAC  327 (818)
Q Consensus       251 ~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~  327 (818)
                      ...+..+...+...|++++|.+.|+++.+   .+...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            34566778889999999999999999876   366788899999999999999999999998874 33677888889999


Q ss_pred             HHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CC-CCHHHHHHHHHHHHHcCCHHHHH
Q 003457          328 CHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WK-PDVVMWGALLAACKNHGNIEVAE  405 (818)
Q Consensus       328 ~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~-pd~~~~~~Li~a~~~~g~~~~A~  405 (818)
                      ...|++++|.+.++++.+.  .+.+...+..+...|.+.|++++|.+.++++. .. .+...+..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999999886  55678899999999999999999999999882 23 36788999999999999999999


Q ss_pred             HHHHHHHhcCCCCcch
Q 003457          406 RVVKEIIALEPNNHGV  421 (818)
Q Consensus       406 ~~~~~~~~~~P~~~~~  421 (818)
                      +.+++++++.|++...
T Consensus       165 ~~~~~~~~~~~~~~~~  180 (186)
T 3as5_A          165 PHFKKANELDEGASVE  180 (186)
T ss_dssp             HHHHHHHHHHHCCCGG
T ss_pred             HHHHHHHHcCCCchhh
Confidence            9999999998886543

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.24  E-value=4.1e-10  Score=113.80  Aligned_cols=206  Identities=10%  Similarity=0.031  Sum_probs=159.1

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHH
Q 003457          213 EPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMI  289 (818)
Q Consensus       213 ~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li  289 (818)
                      +.|...+......+...|++++|...|+++++...+++...+..+..+|.+.|++++|++.|++..+   .+...|..+.
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   83 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKS   83 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHH
Confidence            3466788888889999999999999999999886436777777799999999999999999998764   3566888899


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC---HHHHHHH
Q 003457          290 SGLASHGHAEEALDLFRKLEKEQIVPND-------ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK---IEHYGCM  359 (818)
Q Consensus       290 ~~~~~~g~~~~A~~l~~~m~~~g~~pd~-------~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~---~~~~~~L  359 (818)
                      ..|...|++++|+..|++..+..+. +.       ..|..+...+...|++++|+..|+++++   ..|+   ...+..+
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l  159 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHH
Confidence            9999999999999999999886432 34       4577788888899999999999999875   3454   5777888


Q ss_pred             HHHHHHcCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 003457          360 VDLLGRCGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMY  429 (818)
Q Consensus       360 i~~~~~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l  429 (818)
                      ..+|...|+.     .++++.  ...+...+..+.  ....+.+++|+..++++++++|++..+...+..+.
T Consensus       160 ~~~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~  224 (228)
T 4i17_A          160 GVLFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVK  224 (228)
T ss_dssp             HHHHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            8888765543     333331  122344444433  34566789999999999999999988887776554

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.15  E-value=3.4e-10  Score=134.13  Aligned_cols=166  Identities=13%  Similarity=0.092  Sum_probs=138.7

Q ss_pred             CcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003457          249 MGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLS  325 (818)
Q Consensus       249 ~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  325 (818)
                      .+...++.|..+|.+.|++++|++.|++..+   .+..+|+.|..+|.+.|++++|++.|++.++.... +...|..+..
T Consensus         7 ~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~   85 (723)
T 4gyw_A            7 THADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            3456777788888888888888888887664   45678888999999999999999999998886433 5778889999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHH
Q 003457          326 ACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEV  403 (818)
Q Consensus       326 a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~  403 (818)
                      +|.+.|++++|++.|++.++.  .+.+...|..+..+|.+.|++++|++.|+++ ...| +...+..++.++...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHH
Confidence            999999999999999998875  4456889999999999999999999999988 4456 47889999999999999999


Q ss_pred             HHHHHHHHHhcCCC
Q 003457          404 AERVVKEIIALEPN  417 (818)
Q Consensus       404 A~~~~~~~~~~~P~  417 (818)
                      |.+.+++++++.|+
T Consensus       164 A~~~~~kal~l~~~  177 (723)
T 4gyw_A          164 YDERMKKLVSIVAD  177 (723)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhChh
Confidence            99999999886654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.14  E-value=2.6e-08  Score=108.58  Aligned_cols=223  Identities=12%  Similarity=-0.055  Sum_probs=116.3

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHcCCCCCHH----HHHHHHHHHHccCChHHHHHHHHHHHHcCCC-CC----HHHHHHHH
Q 003457           87 IRAQASSLNPDKAIFLYMNMRRTGFAPNQH----TFTFVLKACSNVRSLNCCKQIHTHVSKSGLD-LD----LHVVNCLV  157 (818)
Q Consensus        87 i~~~~~~g~~~~Al~lf~~m~~~g~~pd~~----ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~~~~Li  157 (818)
                      ...+...|++++|+..+++........+..    .+..+...+...|++++|.+.+++.++.... .+    ...+..+.
T Consensus        21 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  100 (373)
T 1hz4_A           21 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS  100 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            344556677777777776665543222221    3444455566667777777666666543111 01    12244555


Q ss_pred             HHHHhCCChHHHHHHHHHhhcC-----------CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCC--C--CHHHHHHH
Q 003457          158 RCYSVSSDLNNARQVFDEIRNR-----------TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFE--P--NSVTLASV  222 (818)
Q Consensus       158 ~~y~~~g~~~~A~~l~~~m~~~-----------d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~--p--d~~t~~~l  222 (818)
                      ..+...|++++|.+.+++..+.           ....+..+...+...|++++|...+++..+....  +  ....+..+
T Consensus       101 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  180 (373)
T 1hz4_A          101 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  180 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHH
Confidence            6666667777776666655421           0124455666666677777777777666543211  0  12345555


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCc--HHHHH----HHHHHHHhCCCHHHHHHHHhhCCCCC-------hhhHHHHH
Q 003457          223 LSACAQSGCLELGEKVHVFVKMRGFEMG--AILGT----ALVHMYTKNGALAKAKALFDSMPERN-------IATWNAMI  289 (818)
Q Consensus       223 l~~~~~~g~~~~A~~i~~~~~~~g~~~~--~~~~~----~Li~~~~~~g~~~~A~~~f~~m~~~d-------~~~~~~Li  289 (818)
                      ...+...|++++|...+++.......++  .....    ..+..+...|++++|...+++..+.+       ...+..+.
T Consensus       181 a~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la  260 (373)
T 1hz4_A          181 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  260 (373)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHH
Confidence            5666666777777776666654311111  11111    22233556666666666666655421       11234445


Q ss_pred             HHHHHcCCHHHHHHHHHHHH
Q 003457          290 SGLASHGHAEEALDLFRKLE  309 (818)
Q Consensus       290 ~~~~~~g~~~~A~~l~~~m~  309 (818)
                      ..+...|++++|...+++..
T Consensus       261 ~~~~~~g~~~~A~~~l~~a~  280 (373)
T 1hz4_A          261 RAQILLGEFEPAEIVLEELN  280 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH
Confidence            55555555555555555543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.09  E-value=3.9e-09  Score=109.08  Aligned_cols=180  Identities=8%  Similarity=-0.033  Sum_probs=108.2

Q ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--C-C---hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCC-HHHHH
Q 003457          250 GAILGTALVHMYTKNGALAKAKALFDSMPE--R-N---IATWNAMISGLASHGHAEEALDLFRKLEKEQI-VPN-DITFV  321 (818)
Q Consensus       250 ~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~-d---~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~-~pd-~~t~~  321 (818)
                      +...+..+...+.+.|++++|...|+++.+  | +   ...+..+..+|.+.|++++|+..|+++++..+ .|. ...+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            344444555566666666666666665553  2 2   34555556666666666666666666655422 111 23444


Q ss_pred             HHHHHHHH--------cCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003457          322 GVLSACCH--------AGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLA  393 (818)
Q Consensus       322 ~ll~a~~~--------~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~  393 (818)
                      .+..++..        .|++++|+..|+++++.  .+.+......+.......++.               ...+..+..
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~~~~~~~~~---------------~~~~~~la~  156 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQKIRELRAKL---------------ARKQYEAAR  156 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHHHHHHHHHHH---------------HHHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHHHHHHHHHHH---------------HHHHHHHHH
Confidence            55555555        56666666666665554  111222221111111000000               112366788


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCC---cchHHHHHHHHHHh----------hchHHHHHHHHHHH
Q 003457          394 ACKNHGNIEVAERVVKEIIALEPNN---HGVYVVLSNMYAEA----------ESMKMQLEILLVQV  446 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~P~~---~~~y~~L~~~l~~~----------G~~~eA~~l~~~~~  446 (818)
                      .|.+.|++++|+..|+++++..|++   +.++..++.+|.+.          |++++|++.++..+
T Consensus       157 ~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~  222 (261)
T 3qky_A          157 LYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLL  222 (261)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHH
Confidence            8999999999999999999999984   46899999999977          99999999776664

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.09  E-value=3.2e-09  Score=109.76  Aligned_cols=206  Identities=9%  Similarity=-0.011  Sum_probs=153.8

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc---HHHHHHHHHHHHhCCCHHHHHHHHhhCCC--C----Chh
Q 003457          213 EPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMG---AILGTALVHMYTKNGALAKAKALFDSMPE--R----NIA  283 (818)
Q Consensus       213 ~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~---~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~----d~~  283 (818)
                      +.+...+..+...+.+.|++++|...|+++++.. +.+   ...+..+..+|.+.|++++|...|+++.+  |    ...
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            4466777888889999999999999999999875 333   67788899999999999999999998875  2    235


Q ss_pred             hHHHHHHHHHH--------cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHH
Q 003457          284 TWNAMISGLAS--------HGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEH  355 (818)
Q Consensus       284 ~~~~Li~~~~~--------~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~  355 (818)
                      .+..+..++..        .|++++|+..|+++++..+. +......+              ..+..+...     -...
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~--------------~~~~~~~~~-----~~~~  150 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDAT--------------QKIRELRAK-----LARK  150 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHH--------------HHHHHHHHH-----HHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHH--------------HHHHHHHHH-----HHHH
Confidence            67788888988        99999999999999987432 11221111              111111110     0123


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHcC-CCCC----HHHHHHHHHHHHHc----------CCHHHHHHHHHHHHhcCCCCc-
Q 003457          356 YGCMVDLLGRCGKVLEAEELIKRMV-WKPD----VVMWGALLAACKNH----------GNIEVAERVVKEIIALEPNNH-  419 (818)
Q Consensus       356 ~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd----~~~~~~Li~a~~~~----------g~~~~A~~~~~~~~~~~P~~~-  419 (818)
                      +..+...|.+.|++++|+..|+++. ..|+    ...+..+..+|...          |++++|+..|+++++..|+++ 
T Consensus       151 ~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  230 (261)
T 3qky_A          151 QYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPL  230 (261)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChH
Confidence            5667888999999999999998872 2343    45777788888766          899999999999999999985 


Q ss_pred             --chHHHHHHHHHHhhchHHHH
Q 003457          420 --GVYVVLSNMYAEAESMKMQL  439 (818)
Q Consensus       420 --~~y~~L~~~l~~~G~~~eA~  439 (818)
                        .++..+..++.+.++++++.
T Consensus       231 ~~~a~~~l~~~~~~~~~~~~~~  252 (261)
T 3qky_A          231 LRTAEELYTRARQRLTELEGDA  252 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHHHHHHHHhhhhh
Confidence              45666777777777776543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.06  E-value=1.3e-08  Score=106.53  Aligned_cols=234  Identities=8%  Similarity=-0.055  Sum_probs=157.4

Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHH
Q 003457          191 YAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKA  270 (818)
Q Consensus       191 ~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A  270 (818)
                      ..-.|.+..++.-..++..   .........+.+++...|+++..         ....|....+..+...+ ..+    |
T Consensus        23 ~fy~G~yq~~i~e~~~~~~---~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a   85 (310)
T 3mv2_B           23 NYYTGNFVQCLQEIEKFSK---VTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----N   85 (310)
T ss_dssp             HHTTTCHHHHTHHHHTSSC---CCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----C
T ss_pred             HHHhhHHHHHHHHHHhcCc---cchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----H
Confidence            3445777777663333211   11223334455777777766532         11233333444343333 322    6


Q ss_pred             HHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Q 003457          271 KALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVP-NDITFVGVLSACCHAGFIDVGRQIFGSMKRV  346 (818)
Q Consensus       271 ~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~  346 (818)
                      +..|++..+   ++..++..+..++...|++++|++++.+.+..+..+ +...+..++..+.+.|+.+.|.+.+++|.+.
T Consensus        86 ~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~  165 (310)
T 3mv2_B           86 IEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA  165 (310)
T ss_dssp             CHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            777776653   455566678888999999999999999887765422 4566777788999999999999999998764


Q ss_pred             hCCCC-----CHHHHHHHHHH--HHHcC--CHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--
Q 003457          347 YGIEP-----KIEHYGCMVDL--LGRCG--KVLEAEELIKRMV-WKPDVVMWGALLAACKNHGNIEVAERVVKEIIAL--  414 (818)
Q Consensus       347 ~g~~p-----~~~~~~~Li~~--~~~~g--~~~~A~~~~~~m~-~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~--  414 (818)
                         .|     +..+...|+.+  ....|  ++.+|..+|+++. ..|+..+-..++.++.+.|++++|.+.++.+.+.  
T Consensus       166 ---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p  242 (310)
T 3mv2_B          166 ---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYY  242 (310)
T ss_dssp             ---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHH
T ss_pred             ---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence               55     34555566655  33344  8999999999984 3355333344445788999999999999987776  


Q ss_pred             --------CCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          415 --------EPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       415 --------~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                              +|+++.++.+++.+....|+  +|.++++.+.
T Consensus       243 ~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~  280 (310)
T 3mv2_B          243 SVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLV  280 (310)
T ss_dssp             HTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHH
T ss_pred             cccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHH
Confidence                    58899999888888888887  8888777664

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.05  E-value=2.8e-09  Score=112.57  Aligned_cols=221  Identities=10%  Similarity=0.006  Sum_probs=135.6

Q ss_pred             ChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCChhHHHHHH
Q 003457          165 DLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLME----GFEPN-SVTLASVLSACAQSGCLELGEKVH  239 (818)
Q Consensus       165 ~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~----g~~pd-~~t~~~ll~~~~~~g~~~~A~~i~  239 (818)
                      ++++|...|++.           ...|...|++++|++.|++..+.    +-+++ ..+|..+..+|...|++++|...+
T Consensus        32 ~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~  100 (292)
T 1qqe_A           32 KFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (292)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            477777776654           56677778888888777776543    21111 345556666666666666666666


Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCC-C-
Q 003457          240 VFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASH-GHAEEALDLFRKLEKEQIVP-N-  316 (818)
Q Consensus       240 ~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~-g~~~~A~~l~~~m~~~g~~p-d-  316 (818)
                      ++.++.               +.+.|+...+           ..+++.+...|... |++++|+..|++..+..... + 
T Consensus       101 ~~Al~l---------------~~~~g~~~~~-----------a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~  154 (292)
T 1qqe_A          101 ENAIQI---------------FTHRGQFRRG-----------ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSV  154 (292)
T ss_dssp             HHHHHH---------------HHHTTCHHHH-----------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHH---------------HHHcCCHHHH-----------HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCCh
Confidence            655532               1122332222           23566677777775 88888888888776531111 1 


Q ss_pred             ---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCH-----HHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCH--
Q 003457          317 ---DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKI-----EHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDV--  385 (818)
Q Consensus       317 ---~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~-----~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~--  385 (818)
                         ..++..+...+.+.|++++|...|+++.+...-.+..     ..+..+..++...|++++|++.|++. ...|+.  
T Consensus       155 ~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~  234 (292)
T 1qqe_A          155 ALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFAD  234 (292)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC------
T ss_pred             HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCC
Confidence               3456777788888888888888888877642111111     15667777788888888888888887 334432  


Q ss_pred             ----HHHHHHHHHHH--HcCCHHHHHHHHHHHHhcCCCCcchH
Q 003457          386 ----VMWGALLAACK--NHGNIEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       386 ----~~~~~Li~a~~--~~g~~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                          ..+..++.++.  ..+++++|+..|+++..++|.....+
T Consensus       235 ~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~~~  277 (292)
T 1qqe_A          235 SRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITIL  277 (292)
T ss_dssp             ---HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHHHH
Confidence                13444555554  35668888888888877777644333

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.02  E-value=2.1e-09  Score=111.29  Aligned_cols=219  Identities=13%  Similarity=0.060  Sum_probs=152.2

Q ss_pred             HhcCChhHHHHHHHHHHHc-------CCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC-----------CChhhHHHH
Q 003457          227 AQSGCLELGEKVHVFVKMR-------GFEMGAILGTALVHMYTKNGALAKAKALFDSMPE-----------RNIATWNAM  288 (818)
Q Consensus       227 ~~~g~~~~A~~i~~~~~~~-------g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~-----------~d~~~~~~L  288 (818)
                      ...|++++|...+++.++.       ..+....++..+...|...|++++|...|+++.+           ....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            4567888888888877763       2233456788889999999999999999887652           134578888


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHc-----CC-CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh------CCCCCHHH
Q 003457          289 ISGLASHGHAEEALDLFRKLEKE-----QI-VP-NDITFVGVLSACCHAGFIDVGRQIFGSMKRVY------GIEPKIEH  355 (818)
Q Consensus       289 i~~~~~~g~~~~A~~l~~~m~~~-----g~-~p-d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~------g~~p~~~~  355 (818)
                      ...|...|++++|+..|+++.+.     +. .| ....+..+...|...|++++|...++++.+..      ..+....+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999988764     11 12 24667788889999999999999999887641      11223567


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHcC----------CCCC-HHHHHHHHHHHHHcC------CHHHHHHHHHHHHhcCCCC
Q 003457          356 YGCMVDLLGRCGKVLEAEELIKRMV----------WKPD-VVMWGALLAACKNHG------NIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       356 ~~~Li~~~~~~g~~~~A~~~~~~m~----------~~pd-~~~~~~Li~a~~~~g------~~~~A~~~~~~~~~~~P~~  418 (818)
                      +..+...|.+.|++++|++.|+++.          ..+. ...|..+...+...+      .+.++...++......|+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            8888999999999999999998772          1222 233333333333322      2334444444433344666


Q ss_pred             cchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          419 HGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       419 ~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ...+..++.+|.+.|++++|.++++..
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~a  278 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCA  278 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            778999999999999999999987765

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.01  E-value=1.9e-08  Score=101.53  Aligned_cols=176  Identities=7%  Similarity=-0.044  Sum_probs=100.5

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHhhCCC--CC----hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHH
Q 003457          253 LGTALVHMYTKNGALAKAKALFDSMPE--RN----IATWNAMISGLASHGHAEEALDLFRKLEKEQIVPND--ITFVGVL  324 (818)
Q Consensus       253 ~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d----~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~--~t~~~ll  324 (818)
                      .+..+...+.+.|++++|...|+++.+  |+    ...+..+..+|.+.|++++|+..|+++++..+....  ..+..+.
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g   85 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRG   85 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHH
Confidence            334455556666666666666666553  21    234555666666666666666666666654322111  1333333


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCH-H----------------
Q 003457          325 SACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDV-V----------------  386 (818)
Q Consensus       325 ~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~-~----------------  386 (818)
                      .++.+.+..     .+             ..+..+...+...|++++|++.|+++ ...|+. .                
T Consensus        86 ~~~~~~~~~-----~~-------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~  147 (225)
T 2yhc_A           86 LTNMALDDS-----AL-------------QGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLA  147 (225)
T ss_dssp             HHHHHHHC--------------------------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhh-----hh-------------hhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHH
Confidence            343331100     00             00000111111234455555555544 222321 1                


Q ss_pred             -HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc---chHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          387 -MWGALLAACKNHGNIEVAERVVKEIIALEPNNH---GVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       387 -~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~---~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                       ....+...|.+.|++++|+..|+++++..|+++   .++..++.+|.+.|++++|.+.++.+.
T Consensus       148 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~  211 (225)
T 2yhc_A          148 KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIA  211 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence             113456678899999999999999999999975   679999999999999999999887773

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.00  E-value=3.3e-09  Score=112.00  Aligned_cols=200  Identities=12%  Similarity=0.029  Sum_probs=144.8

Q ss_pred             ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC-------C--ChhhHHHHHHHHHHcCCHHHH
Q 003457          231 CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE-------R--NIATWNAMISGLASHGHAEEA  301 (818)
Q Consensus       231 ~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~-------~--d~~~~~~Li~~~~~~g~~~~A  301 (818)
                      ++++|...+.++               +..|...|++++|.+.|++..+       +  ...+|+.+...|.+.|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            477777777665               3456778888888888876653       1  145788899999999999999


Q ss_pred             HHHHHHHHHcCCC-CC----HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHH
Q 003457          302 LDLFRKLEKEQIV-PN----DITFVGVLSACCHA-GFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLE  371 (818)
Q Consensus       302 ~~l~~~m~~~g~~-pd----~~t~~~ll~a~~~~-g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~  371 (818)
                      +..|++.++.... .+    ..++..+..+|... |++++|+..|++..+...-..+    ..++..+...|.+.|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            9999988753111 11    35788889999996 9999999999998865211112    4578899999999999999


Q ss_pred             HHHHHHHcC-CCCC---H-----HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcch-----HHHHHHHHH--Hhhch
Q 003457          372 AEELIKRMV-WKPD---V-----VMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGV-----YVVLSNMYA--EAESM  435 (818)
Q Consensus       372 A~~~~~~m~-~~pd---~-----~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~-----y~~L~~~l~--~~G~~  435 (818)
                      |++.|+++. ..|+   .     ..|..+..++...|++++|+..|+++++++|+....     +..++..+.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            999999872 2222   1     257778888999999999999999999999986543     344555554  45678


Q ss_pred             HHHHHHHHHH
Q 003457          436 KMQLEILLVQ  445 (818)
Q Consensus       436 ~eA~~l~~~~  445 (818)
                      ++|++.++.+
T Consensus       257 ~~A~~~~~~~  266 (292)
T 1qqe_A          257 SEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHHTTS
T ss_pred             HHHHHHhccC
Confidence            8888876443

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.99  E-value=8.8e-09  Score=106.48  Aligned_cols=226  Identities=13%  Similarity=0.035  Sum_probs=120.8

Q ss_pred             hCCChHHHHHHHHHhhc-------CC----HHHHHHHHHHHHHcCChHHHHHHHHHHHHc------CCCC-CHHHHHHHH
Q 003457          162 VSSDLNNARQVFDEIRN-------RT----LNVWTTMISGYAQSFRANEALMLFDQMLME------GFEP-NSVTLASVL  223 (818)
Q Consensus       162 ~~g~~~~A~~l~~~m~~-------~d----~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~------g~~p-d~~t~~~ll  223 (818)
                      ..|++++|++.|++..+       .+    ..++..+...|...|++++|+..++++++.      +-.| ...++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            44555555555544332       11    224555666666666666666666665433      1111 223444444


Q ss_pred             HHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhC--C--CCChhhHHHHHHHHHHcCCHH
Q 003457          224 SACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSM--P--ERNIATWNAMISGLASHGHAE  299 (818)
Q Consensus       224 ~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m--~--~~d~~~~~~Li~~~~~~g~~~  299 (818)
                      ..+...|++++|...++++.+..                            ++.  .  ......+..+...|...|+++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~----------------------------~~~~~~~~~~~~~~~~~la~~~~~~g~~~  144 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIR----------------------------EKVLGKFHPDVAKQLNNLALLCQNQGKAE  144 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHH----------------------------HHHHCTTCHHHHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHH----------------------------HHHcCCCChHHHHHHHHHHHHHHHcCCHH
Confidence            55555555555555555544320                            000  0  012345666667777777777


Q ss_pred             HHHHHHHHHHHc------CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh------CCCC-CHHHHHHHHHHHHH
Q 003457          300 EALDLFRKLEKE------QIVP-NDITFVGVLSACCHAGFIDVGRQIFGSMKRVY------GIEP-KIEHYGCMVDLLGR  365 (818)
Q Consensus       300 ~A~~l~~~m~~~------g~~p-d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~------g~~p-~~~~~~~Li~~~~~  365 (818)
                      +|+..++++.+.      +..| ...++..+..+|...|++++|...++++.+..      ...+ ....+..+...+..
T Consensus       145 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  224 (283)
T 3edt_B          145 EVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREES  224 (283)
T ss_dssp             HHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhc
Confidence            777777776653      1122 23566677778888888888888888776531      0111 22233333333333


Q ss_pred             cC------CHHHHHHHHHHcCC-CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Q 003457          366 CG------KVLEAEELIKRMVW-KP-DVVMWGALLAACKNHGNIEVAERVVKEIIALE  415 (818)
Q Consensus       366 ~g------~~~~A~~~~~~m~~-~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~  415 (818)
                      .+      .+.++...++.... .| ...++..+...|...|++++|++++++++++.
T Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  282 (283)
T 3edt_B          225 KDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRNR  282 (283)
T ss_dssp             TCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             CCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            22      24455555555532 23 35678888999999999999999999988753

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.99  E-value=2.3e-09  Score=127.17  Aligned_cols=169  Identities=11%  Similarity=-0.028  Sum_probs=144.6

Q ss_pred             HhCCCHHHHHHHHhhCC--------C---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 003457          262 TKNGALAKAKALFDSMP--------E---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHA  330 (818)
Q Consensus       262 ~~~g~~~~A~~~f~~m~--------~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~  330 (818)
                      ...|++++|++.|++..        +   .+...|..+...|.+.|++++|++.|+++.+.... +...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHHc
Confidence            67899999999998876        2   46678888999999999999999999999886433 677888899999999


Q ss_pred             CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHH
Q 003457          331 GFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVV  408 (818)
Q Consensus       331 g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~  408 (818)
                      |++++|++.|+++.+.  .+.+...+..+..+|.+.|++++ ++.|+++ ...| +...|..+..++.+.|++++|++.|
T Consensus       481 g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999876  45567889999999999999999 9999988 3445 5788999999999999999999999


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          409 KEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       409 ~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      +++++++|++..++..++.+|.+.|+
T Consensus       558 ~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HhhcccCcccHHHHHHHHHHHHccCC
Confidence            99999999999999999999877555

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.99  E-value=1.1e-08  Score=92.47  Aligned_cols=120  Identities=16%  Similarity=0.150  Sum_probs=56.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCH
Q 003457          324 LSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNI  401 (818)
Q Consensus       324 l~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~  401 (818)
                      ...+...|++++|..+++++.+.  .+.+...+..+...+...|++++|.+.|+++.  ...+...+..+...+...|++
T Consensus         8 ~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   85 (136)
T 2fo7_A            8 GNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDY   85 (136)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCH
T ss_pred             HHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcCH
Confidence            33344444444444444444332  12233344444444444444444444444431  112344444455555555555


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          402 EVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       402 ~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ++|++.++++++..|++...+..++.++.+.|++++|.+.++.+
T Consensus        86 ~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  129 (136)
T 2fo7_A           86 DEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKA  129 (136)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHH
Confidence            55555555555555555555555555555555555555544433

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.98  E-value=1.9e-08  Score=100.31  Aligned_cols=180  Identities=9%  Similarity=-0.044  Sum_probs=126.0

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCC
Q 003457          218 TLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGH  297 (818)
Q Consensus       218 t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~  297 (818)
                      .+......+...|++++|...|+++++.. +.+...+..     ......          .......++.+..+|.+.|+
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~-----~~~~~~----------~~~~~~~~~~lg~~~~~~g~   69 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYW-----TNVDKN----------SEISSKLATELALAYKKNRN   69 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHH-----HHSCTT----------SHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHH-----hhhcch----------hhhhHHHHHHHHHHHHHCCC
Confidence            34444555667777777777777777653 111111111     000000          00112234458889999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC--HHHHHHH
Q 003457          298 AEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGK--VLEAEEL  375 (818)
Q Consensus       298 ~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~--~~~A~~~  375 (818)
                      +++|+..|++.++..+. +...+..+..++...|++++|...|+++++.  .+.+...+..+...|...|+  .+++...
T Consensus        70 ~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~~~  146 (208)
T 3urz_A           70 YDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQEKKKLETD  146 (208)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            99999999999987533 6788899999999999999999999999986  45568899999988876654  4556677


Q ss_pred             HHHcCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          376 IKRMVWKPD--VVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       376 ~~~m~~~pd--~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      +++.. .|+  ...+..+..++...|++++|+..|++++++.|+
T Consensus       147 ~~~~~-~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          147 YKKLS-SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             HC----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             HHHHh-CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            77764 344  334555666778899999999999999999998

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.98  E-value=8.9e-11  Score=110.89  Aligned_cols=139  Identities=12%  Similarity=0.014  Sum_probs=69.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCH
Q 003457          291 GLASHGHAEEALDLFRKLEKEQIVPN-DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKV  369 (818)
Q Consensus       291 ~~~~~g~~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~  369 (818)
                      .+...|++++|+..+++....  .|+ ...+..+...|.+.|++++|++.|+++++.  .+.+...|..+..+|.+.|++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCch
Confidence            334445555555555554432  111 223334455555555555555555555543  233455555555555555555


Q ss_pred             HHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHH-HHHHHhcCCCCcchHHHHHHHHHHhh
Q 003457          370 LEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERV-VKEIIALEPNNHGVYVVLSNMYAEAE  433 (818)
Q Consensus       370 ~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~-~~~~~~~~P~~~~~y~~L~~~l~~~G  433 (818)
                      ++|+..|+++ ...| +...|..+...|.+.|++++|.+. ++++++++|+++.+|.....++.+.|
T Consensus        82 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           82 DKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC
Confidence            5555555554 2233 344555555555555555444333 35555555555555555555554444

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.98  E-value=7.3e-10  Score=104.53  Aligned_cols=113  Identities=10%  Similarity=-0.022  Sum_probs=68.3

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCH
Q 003457          325 SACCHAGFIDVGRQIFGSMKRVYGIEP-KIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNI  401 (818)
Q Consensus       325 ~a~~~~g~~~~A~~~~~~m~~~~g~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~  401 (818)
                      ..+...|++++|+..++....   ..| +...+..+...|.+.|++++|++.|+++ ...| +..+|..+..+|.+.|++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCch
Confidence            344455666666666665442   222 2334455666666667777776666665 2333 456666666666666667


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          402 EVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       402 ~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      ++|+..|+++++++|+++.++..++.+|.+.|++++|.+
T Consensus        82 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~  120 (150)
T 4ga2_A           82 DKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAK  120 (150)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHH
Confidence            777776766666666666666666666666666666554

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.96  E-value=5.2e-09  Score=121.55  Aligned_cols=160  Identities=9%  Similarity=0.012  Sum_probs=118.4

Q ss_pred             CCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 003457          264 NGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIF  340 (818)
Q Consensus       264 ~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~  340 (818)
                      .|++++|.+.|++..+   .+...|..+...|.+.|++++|++.|++..+.... +...+..+..+|...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4678888888888775   35678888888899999999999999988876432 5677888888889999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHc---CCHHHHHHHHHHHHhcC
Q 003457          341 GSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNH---GNIEVAERVVKEIIALE  415 (818)
Q Consensus       341 ~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~---g~~~~A~~~~~~~~~~~  415 (818)
                      ++..+.  .+.+...+..+..+|.+.|++++|++.|+++ ...| +...+..+...+...   |++++|.+.++++++.+
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            988876  4556788888888899999999999998887 2334 577888888888888   89999999999999999


Q ss_pred             CCCcchHHHHH
Q 003457          416 PNNHGVYVVLS  426 (818)
Q Consensus       416 P~~~~~y~~L~  426 (818)
                      |++...+..++
T Consensus       159 p~~~~~~~~l~  169 (568)
T 2vsy_A          159 VGAVEPFAFLS  169 (568)
T ss_dssp             CCCSCHHHHTT
T ss_pred             CcccChHHHhC
Confidence            98888877766

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.95  E-value=1.5e-08  Score=106.73  Aligned_cols=174  Identities=11%  Similarity=0.007  Sum_probs=140.4

Q ss_pred             HHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Q 003457          268 AKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVY  347 (818)
Q Consensus       268 ~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~  347 (818)
                      +...+.+......+...+..+...+.+.|++++|+..|+++.+..+. +...+..+..++.+.|++++|...++++.+. 
T Consensus       103 ~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~-  180 (287)
T 3qou_A          103 EAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ-  180 (287)
T ss_dssp             HHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG-
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchh-
Confidence            34445555555556667788888899999999999999999887433 5678888899999999999999999998754 


Q ss_pred             CCCCCHHHHH-HHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC--cchH
Q 003457          348 GIEPKIEHYG-CMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNN--HGVY  422 (818)
Q Consensus       348 g~~p~~~~~~-~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~--~~~y  422 (818)
                        .|+..... .....+.+.++.++|++.|+++ ...| +...+..+...+...|++++|++.|+++++.+|++  ..++
T Consensus       181 --~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~  258 (287)
T 3qou_A          181 --DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTR  258 (287)
T ss_dssp             --GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHH
T ss_pred             --hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHH
Confidence              45544333 3333467788888899999887 3345 58899999999999999999999999999999998  8899


Q ss_pred             HHHHHHHHHhhchHHHHHHHHHH
Q 003457          423 VVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       423 ~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ..|+.+|...|+.++|...++..
T Consensus       259 ~~l~~~~~~~g~~~~a~~~~r~a  281 (287)
T 3qou_A          259 XTFQEILAALGTGDALASXYRRQ  281 (287)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcHHHHHHHH
Confidence            99999999999999999965554

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.95  E-value=3.6e-08  Score=89.00  Aligned_cols=132  Identities=15%  Similarity=0.202  Sum_probs=112.8

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Q 003457          283 ATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDL  362 (818)
Q Consensus       283 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~  362 (818)
                      ..|..+...+...|++++|+.+++++.+... .+...+..+...+...|++++|...++++.+.  .+.+...+..+...
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~   78 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNA   78 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHH
Confidence            3577788889999999999999999987643 36777888888999999999999999998876  45567888899999


Q ss_pred             HHHcCCHHHHHHHHHHcC-C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          363 LGRCGKVLEAEELIKRMV-W-KPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       363 ~~~~g~~~~A~~~~~~m~-~-~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      +.+.|++++|.+.++++. . ..+...+..++..+.+.|++++|.+.++++++..|+
T Consensus        79 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           79 YYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            999999999999999872 2 335788888999999999999999999999999886

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.89  E-value=4.3e-08  Score=116.27  Aligned_cols=191  Identities=12%  Similarity=-0.020  Sum_probs=143.9

Q ss_pred             HhcCChhHHHHHHHHHH--------HcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHc
Q 003457          227 AQSGCLELGEKVHVFVK--------MRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASH  295 (818)
Q Consensus       227 ~~~g~~~~A~~i~~~~~--------~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~  295 (818)
                      ...|++++|.+.+++++        +.. +.+...+..+..+|.+.|++++|.+.|+++.+   .+...|..+..+|.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            66788889988888887        433 45667788888889999999999999988775   4677888899999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 003457          296 GHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEEL  375 (818)
Q Consensus       296 g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~  375 (818)
                      |++++|++.|++..+..+. +...+..+..++.+.|++++ ++.|+++.+.  .+.+...|..+..+|.+.|++++|++.
T Consensus       481 g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999887433 56778888889999999999 9999998875  455678889999999999999999999


Q ss_pred             HHHcC-CCCC-HHHHHHHHHHHHHcCC-----HHHHHHHHHHHHhcCCCCcchH
Q 003457          376 IKRMV-WKPD-VVMWGALLAACKNHGN-----IEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       376 ~~~m~-~~pd-~~~~~~Li~a~~~~g~-----~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                      |+++. ..|+ ...+..+..++...++     .++..+..+...++.++++...
T Consensus       557 ~~~al~l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~~~~~~~  610 (681)
T 2pzi_A          557 LDEVPPTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEPRVL  610 (681)
T ss_dssp             HHTSCTTSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCTTSTTHH
T ss_pred             HHhhcccCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCCCcHHHH
Confidence            99983 5565 5677777777766555     2333333344444445544433

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.88  E-value=1.7e-07  Score=98.11  Aligned_cols=240  Identities=7%  Similarity=-0.012  Sum_probs=162.1

Q ss_pred             HHhCCChHHHHHHHHHhhcCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 003457          160 YSVSSDLNNARQVFDEIRNRT-LNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKV  238 (818)
Q Consensus       160 y~~~g~~~~A~~l~~~m~~~d-~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i  238 (818)
                      ..-.|.+..++.-..++...+ ...-..+.++|...|+++...         .-.|....+..+...+ ..+    +...
T Consensus        23 ~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~~---------~~~~~~~a~~~la~~~-~~~----a~~~   88 (310)
T 3mv2_B           23 NYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQD---------PTSKLGKVLDLYVQFL-DTK----NIEE   88 (310)
T ss_dssp             HHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCCC---------SSSTTHHHHHHHHHHH-TTT----CCHH
T ss_pred             HHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccCC---------CCCHHHHHHHHHHHHh-ccc----HHHH
Confidence            334566666666444443222 223334557777777766321         1234433433333322 221    5667


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC-----CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Q 003457          239 HVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE-----RNIATWNAMISGLASHGHAEEALDLFRKLEKEQI  313 (818)
Q Consensus       239 ~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~-----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~  313 (818)
                      +++.+..+ +++......+..++...|++++|++++.+..+     .+...+..++..+.+.|+.+.|.+.+++|.+.  
T Consensus        89 l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--  165 (310)
T 3mv2_B           89 LENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--  165 (310)
T ss_dssp             HHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--
Confidence            77766654 44455556788888888999999999888743     24567778888999999999999999999876  


Q ss_pred             CC-----CHHHHHHHHHHH--HHcC--CHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCC---
Q 003457          314 VP-----NDITFVGVLSAC--CHAG--FIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVW---  381 (818)
Q Consensus       314 ~p-----d~~t~~~ll~a~--~~~g--~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~---  381 (818)
                      .|     +..+...+..++  ...|  ++++|..+|+++...   .|+......+..++.+.|++++|.+.++.+..   
T Consensus       166 ~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p  242 (310)
T 3mv2_B          166 IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYY  242 (310)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHH
T ss_pred             CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            55     356666666663  3334  899999999998754   45533434445588999999999999987621   


Q ss_pred             --------CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcch
Q 003457          382 --------KP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGV  421 (818)
Q Consensus       382 --------~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~  421 (818)
                              .| |..++..++......|+  +|.++++++.+..|+++-.
T Consensus       243 ~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i  289 (310)
T 3mv2_B          243 SVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFI  289 (310)
T ss_dssp             HTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHH
T ss_pred             cccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHH
Confidence                    24 56777678777778887  8999999999999997643

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.86  E-value=5e-09  Score=95.54  Aligned_cols=91  Identities=9%  Similarity=-0.025  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHh
Q 003457          355 HYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEA  432 (818)
Q Consensus       355 ~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~  432 (818)
                      .+..+...|.+.|++++|++.|+++ ...| +...|..+..+|.+.|++++|++.++++++++|++..+|..++.+|.+.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~   94 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVAM   94 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC
Confidence            3444445555555555555555544 1222 3455555555555555555555555555555555555555555555555


Q ss_pred             hchHHHHHHHHHH
Q 003457          433 ESMKMQLEILLVQ  445 (818)
Q Consensus       433 G~~~eA~~l~~~~  445 (818)
                      |++++|++.++..
T Consensus        95 ~~~~~A~~~~~~a  107 (126)
T 4gco_A           95 REWSKAQRAYEDA  107 (126)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            5555555544443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.86  E-value=4e-08  Score=97.97  Aligned_cols=158  Identities=9%  Similarity=-0.027  Sum_probs=116.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH----------------HHHHHHHcCCHHHHHHHHHHHHHHhC
Q 003457          285 WNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVG----------------VLSACCHAGFIDVGRQIFGSMKRVYG  348 (818)
Q Consensus       285 ~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~----------------ll~a~~~~g~~~~A~~~~~~m~~~~g  348 (818)
                      +......+.+.|++++|+..|++.++..+. +...+..                +..++.+.|++++|+..|++.++.  
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--   83 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--   83 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--
Confidence            334455566777777777777777665211 2334444                888999999999999999999886  


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCC--HHHHHHHHHHHHhcCCCCcchHHH
Q 003457          349 IEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGN--IEVAERVVKEIIALEPNNHGVYVV  424 (818)
Q Consensus       349 ~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~--~~~A~~~~~~~~~~~P~~~~~y~~  424 (818)
                      .+.+...+..+..+|...|++++|++.|+++ ...| +...+..+...|...|+  .+.+...++++....|. ...+..
T Consensus        84 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~a~~~  162 (208)
T 3urz_A           84 APNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKM-QYARYR  162 (208)
T ss_dssp             CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHH-HHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCch-hHHHHH
Confidence            4557889999999999999999999999998 3445 57888888888766553  45566777776544333 235667


Q ss_pred             HHHHHHHhhchHHHHHHHHHHH
Q 003457          425 LSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       425 L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      ++.++...|++++|++.++..+
T Consensus       163 ~g~~~~~~~~~~~A~~~~~~al  184 (208)
T 3urz_A          163 DGLSKLFTTRYEKARNSLQKVI  184 (208)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHT
T ss_pred             HHHHHHHccCHHHHHHHHHHHH
Confidence            7888899999999999877773

>2zex_A S-layer associated multidomain endoglucanase; family 16 CBM-1 cellopentaose complex, glycosidase, hydrolase; HET: BGC; 1.20A {Thermoanaerobacteriumpolysaccharolyticum} PDB: 2zew_A 2zey_A* 3oea_A* 3oeb_A*

Probab=98.86  E-value=1.4e-08  Score=95.13  Aligned_cols=137  Identities=19%  Similarity=0.179  Sum_probs=80.9

Q ss_pred             CCCcccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEeceeee-ecCCceeccCCCeeEEecC--Cccceeeeec
Q 003457          628 NDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKY-IDSKHFYVPKGNAAIEIVS--VSAGIQTATT  704 (818)
Q Consensus       628 ~~~l~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~v~~-i~~~~~~~~~g~~~~~l~~--~~~~~q~~~~  704 (818)
                      ..|||.||+||+|                       +.||+..|.... +.+   .+-.|.+++++.+  .+.+.|++. 
T Consensus         4 ~~Nli~N~~FE~g-----------------------~~~W~~~~~~~~~~~~---~~~~G~~~l~~~~~~~~~~~Q~v~-   56 (147)
T 2zex_A            4 MVNMVSNPGFEDG-----------------------LDSWQDWQQDMSAVPE---AAHNGALGLKIGGGKAAGGGQDIP-   56 (147)
T ss_dssp             CEECCSSTTSTTT-----------------------TTTCEETTSCEEEEGG---GCSSSSCEEEECSSSCEEEEEECC-
T ss_pred             ccceecCCCcccC-----------------------ccCCcCcCCceeEEec---cccCCceEEEEcCCCCccEeEEEE-
Confidence            4599999999985                       236777543111 221   2447899998855  356679999 


Q ss_pred             cccCCCeEEEEEecCcccCccccceEEEEeeC--CcceeeEEEe--cccCCceeeeEEEEeccceeeEEEEeCcccccCC
Q 003457          705 MLTEGSAYNLDFTLGDAKDACEGMFVVRVQAG--SLVQNFTVQS--LGTGSVIKHSVTFKAGSGSTPISFISYNINQTKD  780 (818)
Q Consensus       705 ~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~--~~~~~~~~~~~~f~a~~~~~~~~f~~~~~~~~~~  780 (818)
                       +.||..|+|+|.+-..+ ...+.-.+.|.+.  +........+  ..+.+|...+..|++....+.+.|.-........
T Consensus        57 -v~~~~~Y~ls~wvk~~~-~g~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~W~~~s~~ftt~~~~~~~~~~~~~~~~~~~  134 (147)
T 2zex_A           57 -LKPNTTYILGAWAKFDS-KPAGTFDVVVQYHLKDANNTYVQHILNFNETDWTYKQLLFTTPDVFGSTPQLALWKGDTSK  134 (147)
T ss_dssp             -CCTTCEEEEEEEEEESS-CCSSCEEEEEEEEBSSTTCCEEEEEEEECCSSCEEEEEEEECCSSBSSCCEEEEEECCCSS
T ss_pred             -ECCCCEEEEEEEEEecc-CCCceEEEEEEEeeCCCCCcEEEeEeeeCCCCcEEEEEEEEcCCCCceEEEEEEEecCCCc
Confidence             89999999999863211 1122223444432  1112221222  2367899999999987765543222111111111


Q ss_pred             CCccccccceeeeeec
Q 003457          781 GVFCGPLIDDVVLRAS  796 (818)
Q Consensus       781 ~~~~gp~~d~v~~~~~  796 (818)
                         .--.||||+|+.+
T Consensus       135 ---~~~~iDDv~l~~v  147 (147)
T 2zex_A          135 ---ANLYVDDVYLVEV  147 (147)
T ss_dssp             ---CCEEEEEEEEEEC
T ss_pred             ---ceEEEEeEEEEEC
Confidence               3358999999764

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.84  E-value=6.2e-08  Score=102.96  Aligned_cols=178  Identities=16%  Similarity=0.122  Sum_probs=121.1

Q ss_pred             HHHhCCCHHHHHHHHhhCCC-----C----ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCC---CCC--HHHHHHHHH
Q 003457          260 MYTKNGALAKAKALFDSMPE-----R----NIATWNAMISGLASHGHAEEALDLFRKLEKEQI---VPN--DITFVGVLS  325 (818)
Q Consensus       260 ~~~~~g~~~~A~~~f~~m~~-----~----d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~---~pd--~~t~~~ll~  325 (818)
                      .|...|++++|.+.|.+..+     .    -...|+.+...|.+.|++++|+..|++..+.-.   .+.  ..++..+..
T Consensus        45 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  124 (307)
T 2ifu_A           45 AFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGK  124 (307)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44455555555555544432     0    124677777888888888888888887764311   111  346777788


Q ss_pred             HHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHcC----CCCC----HHHHHHHHH
Q 003457          326 ACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAEELIKRMV----WKPD----VVMWGALLA  393 (818)
Q Consensus       326 a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m~----~~pd----~~~~~~Li~  393 (818)
                      +|.. |++++|+..|++.++...-..+    ..++..+...|.+.|++++|++.|+++.    ..++    ...+..++.
T Consensus       125 ~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~  203 (307)
T 2ifu_A          125 LMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVL  203 (307)
T ss_dssp             HHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Confidence            8888 9999999999987765211111    4678889999999999999999998873    1122    236667777


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCcch-----HHHHHHHHHHhhchHHHHH
Q 003457          394 ACKNHGNIEVAERVVKEIIALEPNNHGV-----YVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~P~~~~~-----y~~L~~~l~~~G~~~eA~~  440 (818)
                      .+...|++++|+..|++++ +.|+....     ...++..+ +.|+.+++.+
T Consensus       204 ~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          204 VQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            7888899999999999999 99976543     33444444 4566655554

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.84  E-value=6.1e-08  Score=112.46  Aligned_cols=148  Identities=13%  Similarity=0.021  Sum_probs=107.5

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 003457          295 HGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEE  374 (818)
Q Consensus       295 ~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~  374 (818)
                      .|++++|++.|+++.+... -+...+..+...+.+.|++++|.+.+++..+.  .+.+...+..+..+|.+.|++++|++
T Consensus         2 ~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRP-QDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            4678889999988877532 25677888888888999999999999988764  34457888888889999999999999


Q ss_pred             HHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHh---hchHHHHHHHHHH
Q 003457          375 LIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEA---ESMKMQLEILLVQ  445 (818)
Q Consensus       375 ~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~---G~~~eA~~l~~~~  445 (818)
                      .|+++ ...| +...+..+...|.+.|++++|++.++++++++|++...+..++.++.+.   |++++|.+.++..
T Consensus        79 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           79 LLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            99887 2334 5778888888899999999999999999999999888999999999998   8899998866554

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.82  E-value=1.3e-07  Score=94.58  Aligned_cols=167  Identities=12%  Similarity=0.002  Sum_probs=123.9

Q ss_pred             HHHHHhhCCC-CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC----CHHHHHHHHHHHH
Q 003457          270 AKALFDSMPE-RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAG----FIDVGRQIFGSMK  344 (818)
Q Consensus       270 A~~~f~~m~~-~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g----~~~~A~~~~~~m~  344 (818)
                      |.+.|++..+ .++..+..|...|...+++++|+..|++..+.|   +...+..|...|.. +    ++++|.+.|++..
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            3344443332 466677777777777888888888888887764   55666677777766 5    7888888888876


Q ss_pred             HHhCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHcCCCCC----HHHHHHHHHHHHH----cCCHHHHHHHHHHHH
Q 003457          345 RVYGIEPKIEHYGCMVDLLGR----CGKVLEAEELIKRMVWKPD----VVMWGALLAACKN----HGNIEVAERVVKEII  412 (818)
Q Consensus       345 ~~~g~~p~~~~~~~Li~~~~~----~g~~~~A~~~~~~m~~~pd----~~~~~~Li~a~~~----~g~~~~A~~~~~~~~  412 (818)
                      +.    .+...+..|..+|..    .+++++|++.|+++....+    ...+..|...|..    .+++++|+++|+++.
T Consensus        81 ~~----g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           81 EA----GSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             HT----TCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             HC----CCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            53    466777788877876    7888888888888853333    7788888888887    778899999998888


Q ss_pred             hcCCCCcchHHHHHHHHHHh-h-----chHHHHHHHHHH
Q 003457          413 ALEPNNHGVYVVLSNMYAEA-E-----SMKMQLEILLVQ  445 (818)
Q Consensus       413 ~~~P~~~~~y~~L~~~l~~~-G-----~~~eA~~l~~~~  445 (818)
                      +. |.++.++..|+.+|.+. |     ++++|++.++..
T Consensus       157 ~~-~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A  194 (212)
T 3rjv_A          157 SL-SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVS  194 (212)
T ss_dssp             HT-SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHH
T ss_pred             Hc-CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHH
Confidence            87 55677888888888765 3     788888876655

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.82  E-value=2.8e-08  Score=105.57  Aligned_cols=195  Identities=6%  Similarity=-0.065  Sum_probs=147.7

Q ss_pred             cCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          229 SGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKL  308 (818)
Q Consensus       229 ~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m  308 (818)
                      .|++++|.+++++..+... ..         .+...+++++|...|.+           ....|...|++++|...|.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~-~~---------~~~~~~~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~a   62 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK-TS---------FMKWKPDYDSAASEYAK-----------AAVAFKNAKQLEQAKDAYLQE   62 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-CC---------SSSCSCCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc-cc---------ccCCCCCHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHHH
Confidence            4566778888777766421 11         01115788888887664           366788999999999999987


Q ss_pred             HHcCCCC-C----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHc
Q 003457          309 EKEQIVP-N----DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       309 ~~~g~~p-d----~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                      .+..... +    ..+|..+..+|.+.|++++|+..|++..+.+....+    ..++..+...|.+ |++++|++.|+++
T Consensus        63 l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~A  141 (307)
T 2ifu_A           63 AEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQA  141 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHH
Confidence            6531111 1    357888889999999999999999998765322222    4578888899988 9999999999987


Q ss_pred             C-CC---CC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc------chHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          380 V-WK---PD----VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNH------GVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       380 ~-~~---pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~------~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      . ..   .+    ..++..+...|.+.|++++|++.|++++++.|++.      ..+..++.++...|++++|.+.++..
T Consensus       142 l~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~a  221 (307)
T 2ifu_A          142 AAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRES  221 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            2 11   11    46788899999999999999999999999876543      36778888899999999999988887

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.81  E-value=2.8e-08  Score=96.05  Aligned_cols=154  Identities=11%  Similarity=0.085  Sum_probs=89.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH-HHHc
Q 003457          288 MISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDL-LGRC  366 (818)
Q Consensus       288 Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~-~~~~  366 (818)
                      +...+.+.|++++|+..|+++.+..+ -+...+..+..++...|++++|+..++++.+.   .|+...+..+... +...
T Consensus        12 ~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A           12 QVSELLQQGEHAQALNVIQTLSDELQ-SRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCHHHH-TSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHHHhh
Confidence            33444444555555555544433211 13344444444455555555555555444332   1122222211111 1111


Q ss_pred             CCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC--cchHHHHHHHHHHhhchHHHHHHH
Q 003457          367 GKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNN--HGVYVVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       367 g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~--~~~y~~L~~~l~~~G~~~eA~~l~  442 (818)
                      ++..+|++.|+++ ...| +...+..+...+...|++++|+..|+++++.+|+.  ...+..++.++...|+.++|...+
T Consensus        88 ~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y  167 (176)
T 2r5s_A           88 AAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKY  167 (176)
T ss_dssp             HTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHH
T ss_pred             cccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHH
Confidence            2223356666665 2345 57888888888999999999999999999999875  458889999999999999999866


Q ss_pred             HHH
Q 003457          443 LVQ  445 (818)
Q Consensus       443 ~~~  445 (818)
                      +..
T Consensus       168 ~~a  170 (176)
T 2r5s_A          168 RRQ  170 (176)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.80  E-value=8.7e-06  Score=92.28  Aligned_cols=352  Identities=12%  Similarity=-0.025  Sum_probs=208.9

Q ss_pred             hHHHHHHHHHhhhhcCCCHHHHHHHHhhcCC--CCHHHHHHHHHHHHhCCC-hhHHHHHHHHHHHc-CCCC-CHHHHHHH
Q 003457           47 HFAASRLLAFCALSSSGDLSYATRLFNSIQS--PNHFMWNTLIRAQASSLN-PDKAIFLYMNMRRT-GFAP-NQHTFTFV  121 (818)
Q Consensus        47 ~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~--p~~~~yn~Li~~~~~~g~-~~~Al~lf~~m~~~-g~~p-d~~ty~~l  121 (818)
                      ..+|...+..+   -.|+.+.+..+|++...  |+...|..-+....+.+. .+....+|+..... |..| +...|...
T Consensus        15 R~vyer~l~~~---P~~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Y   91 (493)
T 2uy1_A           15 SAIMEHARRLY---MSKDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEY   91 (493)
T ss_dssp             HHHHHHHHHHH---HTTCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHH
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHH
Confidence            44555555555   23889999999998773  899999988888777663 45667788877764 4333 55667666


Q ss_pred             HHHHH----ccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-------------CCChHHHHHHHHHhhc----CC
Q 003457          122 LKACS----NVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSV-------------SSDLNNARQVFDEIRN----RT  180 (818)
Q Consensus       122 l~~~~----~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~-------------~g~~~~A~~l~~~m~~----~d  180 (818)
                      +..+.    ..++.+.+.++|+.+++.....-...|......-..             ...+..|..+++.+..    .+
T Consensus        92 i~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s  171 (493)
T 2uy1_A           92 IEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWS  171 (493)
T ss_dssp             HHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCS
T ss_pred             HHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhcc
Confidence            66543    235678899999999874322112233322221111             1122333444433322    13


Q ss_pred             HHHHHHHHHHHHHcC--C-----hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHH
Q 003457          181 LNVWTTMISGYAQSF--R-----ANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAIL  253 (818)
Q Consensus       181 ~~~~~~Li~~~~~~g--~-----~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~  253 (818)
                      ...|...+.--...+  -     .+.+..+|++++... +-+...|...+..+.+.|+.++|..+++++++.  +.+...
T Consensus       172 ~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l  248 (493)
T 2uy1_A          172 VKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFL  248 (493)
T ss_dssp             HHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHH
T ss_pred             HHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHH
Confidence            335555444322211  1     345677888888753 556777777777788889999999999999988  444433


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHhhCC--C----------CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 003457          254 GTALVHMYTKNGALAKAKALFDSMP--E----------RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFV  321 (818)
Q Consensus       254 ~~~Li~~~~~~g~~~~A~~~f~~m~--~----------~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~  321 (818)
                      +...+.. .+.++.  ...+.+...  +          .....|...+..+.+.++.+.|..+|+++ +. ...+...|.
T Consensus       249 ~~~y~~~-~e~~~~--~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i  323 (493)
T 2uy1_A          249 SLYYGLV-MDEEAV--YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFI  323 (493)
T ss_dssp             HHHHHHH-TTCTHH--HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHH
T ss_pred             HHHHHhh-cchhHH--HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHH
Confidence            3322111 111111  112222111  0          11235666666666677788888888888 32 223444443


Q ss_pred             HHHHHHHH-cCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 003457          322 GVLSACCH-AGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGN  400 (818)
Q Consensus       322 ~ll~a~~~-~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~  400 (818)
                      .....-.. .++.+.|..+|+...+.  .+.+...+...++...+.|+.+.|..+|+++.  .....|...+.--...|+
T Consensus       324 ~~A~lE~~~~~d~~~ar~ife~al~~--~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~  399 (493)
T 2uy1_A          324 YCAFIEYYATGSRATPYNIFSSGLLK--HPDSTLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGS  399 (493)
T ss_dssp             HHHHHHHHHHCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHCCChHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCC
Confidence            22222222 23688888888888776  33345556667777778888888888888873  246677777776667788


Q ss_pred             HHHHHHHHHHHHh
Q 003457          401 IEVAERVVKEIIA  413 (818)
Q Consensus       401 ~~~A~~~~~~~~~  413 (818)
                      .+.+..+++++.+
T Consensus       400 ~~~~r~v~~~~~~  412 (493)
T 2uy1_A          400 MELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            8888888877764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.80  E-value=3.5e-07  Score=96.56  Aligned_cols=222  Identities=9%  Similarity=0.035  Sum_probs=98.2

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC--ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHH----HhC---CCH
Q 003457          197 ANEALMLFDQMLMEGFEPNSVTLASVLSACAQSG--CLELGEKVHVFVKMRGFEMGAILGTALVHMY----TKN---GAL  267 (818)
Q Consensus       197 ~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g--~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~----~~~---g~~  267 (818)
                      .++|++++++++... +-+...|+.--.++...+  +++++.+.++.++... +.+..+++.-...+    .+.   +++
T Consensus        49 s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           49 SERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCH
Confidence            346666666666553 333444555555555555  6666666666666554 33333333322222    222   344


Q ss_pred             HHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC------HHHH
Q 003457          268 AKAKALFDSMPE---RNIATWNAMISGLASHGHAE--EALDLFRKLEKEQIVPNDITFVGVLSACCHAGF------IDVG  336 (818)
Q Consensus       268 ~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~--~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~------~~~A  336 (818)
                      ++++++++++.+   ++..+|+.-.-.+.+.++++  ++++.++++++..++ |...++.-...+.+.+.      ++++
T Consensus       127 ~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eE  205 (306)
T 3dra_A          127 YREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEE  205 (306)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHH
Confidence            445444444442   23344444444444444444  444555554444332 33444433333333333      4444


Q ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHH-HHHHHHHcC-C----CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 003457          337 RQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLE-AEELIKRMV-W----KPDVVMWGALLAACKNHGNIEVAERVVKE  410 (818)
Q Consensus       337 ~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~-A~~~~~~m~-~----~pd~~~~~~Li~a~~~~g~~~~A~~~~~~  410 (818)
                      ++.+++++..  .+-|...|+.+...+.+.|+..+ +.++.+++. .    ..+...+..++..|.+.|+.++|++++++
T Consensus       206 l~~~~~aI~~--~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~  283 (306)
T 3dra_A          206 LNYVKDKIVK--CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDL  283 (306)
T ss_dssp             HHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            4444444433  33344444444444444444222 222333321 0    12334444444444444444444444444


Q ss_pred             HHh-cCCCCcchHH
Q 003457          411 IIA-LEPNNHGVYV  423 (818)
Q Consensus       411 ~~~-~~P~~~~~y~  423 (818)
                      +.+ .+|-....|.
T Consensus       284 l~~~~Dpir~~yW~  297 (306)
T 3dra_A          284 LKSKYNPIRSNFWD  297 (306)
T ss_dssp             HHHTTCGGGHHHHH
T ss_pred             HHhccChHHHHHHH
Confidence            443 3444333333

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.80  E-value=8.8e-08  Score=87.19  Aligned_cols=110  Identities=9%  Similarity=-0.029  Sum_probs=96.1

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHH
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAAC  395 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~  395 (818)
                      ..+...+..|.+.|++++|++.|++.++.  .+.+...|..+..+|.+.|++++|++.|+++ ...| +...|..+..++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            45677888899999999999999998876  5567889999999999999999999999988 3344 588999999999


Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 003457          396 KNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMY  429 (818)
Q Consensus       396 ~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l  429 (818)
                      ...|++++|++.|+++++++|++.+++..|+.++
T Consensus        92 ~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~l  125 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQVDPSNEEAREGVRNCL  125 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHC
T ss_pred             HHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHhc
Confidence            9999999999999999999999999988887654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.77  E-value=1.5e-06  Score=91.65  Aligned_cols=210  Identities=10%  Similarity=0.017  Sum_probs=132.2

Q ss_pred             hhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCC--CHHHHHHHHhhCCC---CChhhHHHHHHHH----HHc---CCHH
Q 003457          232 LELGEKVHVFVKMRGFEMGAILGTALVHMYTKNG--ALAKAKALFDSMPE---RNIATWNAMISGL----ASH---GHAE  299 (818)
Q Consensus       232 ~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g--~~~~A~~~f~~m~~---~d~~~~~~Li~~~----~~~---g~~~  299 (818)
                      .++|.+.++.++..+ +.+..+++.-..++...+  +++++++.++.+..   .+..+|+.-...+    ...   ++++
T Consensus        49 s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           49 SERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             CHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHH
Confidence            356667777776664 445556666666666666  77777777776654   3445565554444    444   5677


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH--HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC------HHH
Q 003457          300 EALDLFRKLEKEQIVPNDITFVGVLSACCHAGFID--VGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGK------VLE  371 (818)
Q Consensus       300 ~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~--~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~------~~~  371 (818)
                      +++++++++.+...+ +..+++.-..++.+.++++  ++++.++++++.  .+.|...|+.....+.+.++      +++
T Consensus       128 ~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          128 REFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhhhHHH
Confidence            777777777766444 5666666666666666666  777777777765  44566666666666666655      677


Q ss_pred             HHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHH-HHHHHHHHHhcC---CCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          372 AEELIKRM-VWKP-DVVMWGALLAACKNHGNIEV-AERVVKEIIALE---PNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       372 A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~-A~~~~~~~~~~~---P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +++.++++ ...| |...|+.+...+.+.|+..+ ...+.+++++++   |.++.++..++++|.+.|+.++|.++++.+
T Consensus       205 El~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l  284 (306)
T 3dra_A          205 ELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLL  284 (306)
T ss_dssp             HHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            77777666 2233 56677766666666666333 444556666554   666677777777777777777777765554

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.76  E-value=1.4e-07  Score=95.17  Aligned_cols=187  Identities=17%  Similarity=0.024  Sum_probs=131.0

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC--cHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CC-h---hhHH
Q 003457          215 NSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEM--GAILGTALVHMYTKNGALAKAKALFDSMPE--RN-I---ATWN  286 (818)
Q Consensus       215 d~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~--~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d-~---~~~~  286 (818)
                      +...+..+...+.+.|++++|...|+++++.....  ....+..++.+|.+.|++++|+..|+++.+  |+ .   .++.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            44556667788899999999999999999874221  235777889999999999999999999874  32 2   2455


Q ss_pred             HHHHHHHH------------------cCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Q 003457          287 AMISGLAS------------------HGHAEEALDLFRKLEKEQIVPND-ITFVGVLSACCHAGFIDVGRQIFGSMKRVY  347 (818)
Q Consensus       287 ~Li~~~~~------------------~g~~~~A~~l~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~  347 (818)
                      .+..++.+                  .|++++|+..|+++++..  |+. ........          ...+...+.   
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~----------l~~~~~~~~---  147 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKR----------LVFLKDRLA---  147 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHH----------HHHHHHHHH---
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHH----------HHHHHHHHH---
Confidence            56666654                  456777777777776652  222 11111100          000011110   


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchH
Q 003457          348 GIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       348 g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                            .....+...|.+.|++++|+..|+++. ..|+    ...+..+..++.+.|+.++|++.++++....|++.+++
T Consensus       148 ------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~~~  221 (225)
T 2yhc_A          148 ------KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLEHH  221 (225)
T ss_dssp             ------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCCCT
T ss_pred             ------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchhhc
Confidence                  112356778899999999999999883 3354    25688889999999999999999999999999977654

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.76  E-value=1.5e-07  Score=90.90  Aligned_cols=156  Identities=11%  Similarity=-0.023  Sum_probs=116.4

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHH
Q 003457          254 GTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSA-CCH  329 (818)
Q Consensus       254 ~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a-~~~  329 (818)
                      ...+...+.+.|++++|...|+++.+   .+...+..+...+.+.|++++|+..|+++.+..+  +......+... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHHHh
Confidence            34566778888888899888888875   4667788888888889999999998888776533  44333322212 222


Q ss_pred             cCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC---HHHHHHHHHHHHHcCCHHHHH
Q 003457          330 AGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD---VVMWGALLAACKNHGNIEVAE  405 (818)
Q Consensus       330 ~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd---~~~~~~Li~a~~~~g~~~~A~  405 (818)
                      .+....|...+++..+.  .+.+...+..+...|...|++++|++.|+++ ...|+   ...+..+...+...|+.++|.
T Consensus        87 ~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           87 QAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            22334567888888775  4456888899999999999999999999887 44554   568888899999999999999


Q ss_pred             HHHHHHHh
Q 003457          406 RVVKEIIA  413 (818)
Q Consensus       406 ~~~~~~~~  413 (818)
                      ..|++++.
T Consensus       165 ~~y~~al~  172 (176)
T 2r5s_A          165 SKYRRQLY  172 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.75  E-value=3.2e-08  Score=93.28  Aligned_cols=94  Identities=13%  Similarity=0.059  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          353 IEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       353 ~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      ...+..+...+.+.|++++|++.|+++ ...| +...|..+..+|...|++++|++.|+++++++|+++..|..++.+|.
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHH
Confidence            456667777777888888888888777 2344 57777888888888888888888888888888888888888888888


Q ss_pred             HhhchHHHHHHHHHHH
Q 003457          431 EAESMKMQLEILLVQV  446 (818)
Q Consensus       431 ~~G~~~eA~~l~~~~~  446 (818)
                      +.|++++|++.++..+
T Consensus       116 ~lg~~~eA~~~~~~al  131 (151)
T 3gyz_A          116 RLKAPLKAKECFELVI  131 (151)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHH
Confidence            8888888888666553

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.72  E-value=1.6e-08  Score=94.99  Aligned_cols=93  Identities=11%  Similarity=0.048  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          353 IEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       353 ~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      ...+..+...+.+.|++++|++.|+++ ...| +...|..+..+|...|++++|++.|+++++++|+++..+..++.+|.
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~  100 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            444555566666666666666666665 2223 45566666666666666666666666666666666666666666666


Q ss_pred             HhhchHHHHHHHHHH
Q 003457          431 EAESMKMQLEILLVQ  445 (818)
Q Consensus       431 ~~G~~~eA~~l~~~~  445 (818)
                      ..|++++|++.++..
T Consensus       101 ~~g~~~~A~~~~~~a  115 (148)
T 2vgx_A          101 QXGELAEAESGLFLA  115 (148)
T ss_dssp             HTTCHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHH
Confidence            666666666655444

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.72  E-value=3.3e-07  Score=90.91  Aligned_cols=123  Identities=15%  Similarity=0.063  Sum_probs=102.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-CHHHHHHHHHHHH
Q 003457          319 TFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-DVVMWGALLAACK  396 (818)
Q Consensus       319 t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~a~~  396 (818)
                      .+..+...+...|++++|...|+++     ++|+...+..+...|.+.|++++|++.|+++. ..| +...+..+..++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHH
Confidence            3445666777888888888888765     35677888888888888888888888888872 233 5788899999999


Q ss_pred             HcCCHHHHHHHHHHHHhcCCCCc----------------chHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          397 NHGNIEVAERVVKEIIALEPNNH----------------GVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       397 ~~g~~~~A~~~~~~~~~~~P~~~----------------~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      ..|++++|++.|++++++.|++.                ..+..++.+|.+.|++++|.+.++...
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  148 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALAT  148 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            99999999999999999888877                899999999999999999999877764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.71  E-value=4.7e-07  Score=95.10  Aligned_cols=162  Identities=9%  Similarity=-0.005  Sum_probs=87.2

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--CChhhHH-HHHHH
Q 003457          215 NSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--RNIATWN-AMISG  291 (818)
Q Consensus       215 d~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~d~~~~~-~Li~~  291 (818)
                      +...+..+...+.+.|++++|...++++++.. +.+...+..+..+|.+.|++++|...|+++.+  |+..... .....
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~  194 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIE  194 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHH
Confidence            33445555556666666666666666666654 34455566666666666666666666666654  3222111 11222


Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHH
Q 003457          292 LASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLE  371 (818)
Q Consensus       292 ~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~  371 (818)
                      +.+.++.++|+..|++..+..+ .+...+..+..++...|++++|...|+++.+...-..+...+..++..|...|+.++
T Consensus       195 l~~~~~~~~a~~~l~~al~~~P-~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  273 (287)
T 3qou_A          195 LLXQAADTPEIQQLQQQVAENP-EDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDA  273 (287)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCH
T ss_pred             HHhhcccCccHHHHHHHHhcCC-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCc
Confidence            4445555556666666555432 244555555566666666666666666655541111114455555555555555555


Q ss_pred             HHHHHHH
Q 003457          372 AEELIKR  378 (818)
Q Consensus       372 A~~~~~~  378 (818)
                      |...|++
T Consensus       274 a~~~~r~  280 (287)
T 3qou_A          274 LASXYRR  280 (287)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555543

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.69  E-value=9.5e-07  Score=83.27  Aligned_cols=126  Identities=9%  Similarity=-0.026  Sum_probs=102.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHH
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAAC  395 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~  395 (818)
                      ..+..+...+...|++++|...|++..+.  .+.+...+..+...|...|++++|++.|+++ ...| +...+..+...+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            34566677778888888888888887765  4456788888888888899999999888887 2234 578889999999


Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHH--HHHhhchHHHHHHHHHH
Q 003457          396 KNHGNIEVAERVVKEIIALEPNNHGVYVVLSNM--YAEAESMKMQLEILLVQ  445 (818)
Q Consensus       396 ~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~--l~~~G~~~eA~~l~~~~  445 (818)
                      ...|++++|++.+++++++.|++...+..+..+  +.+.|++++|++.++..
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            999999999999999999999988888555444  88899999999977665

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.68  E-value=7.8e-07  Score=88.14  Aligned_cols=126  Identities=12%  Similarity=-0.030  Sum_probs=76.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHc
Q 003457          287 AMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRC  366 (818)
Q Consensus       287 ~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~  366 (818)
                      .+...+...|++++|+..|++..    .|+...+..+..++.+.|++++|...+++..+.  .+.+...+..+..+|.+.
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHc
Confidence            34444455555555555554442    334445555555555555555555555555543  233445555555555555


Q ss_pred             CCHHHHHHHHHHcC-----------------CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 003457          367 GKVLEAEELIKRMV-----------------WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       367 g~~~~A~~~~~~m~-----------------~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                      |++++|++.|+++.                 ..| ....+..+..+|.+.|++++|++.|++++++.|++
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            55555555555541                 112 24778888999999999999999999999999985

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.67  E-value=1.5e-06  Score=86.79  Aligned_cols=169  Identities=8%  Similarity=-0.047  Sum_probs=102.4

Q ss_pred             HHHHHHHhhcC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC----ChhHHHHHHHHHH
Q 003457          169 ARQVFDEIRNR-TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSG----CLELGEKVHVFVK  243 (818)
Q Consensus       169 A~~l~~~m~~~-d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g----~~~~A~~i~~~~~  243 (818)
                      |.+.|++..+. +..++..|...|...+++++|++.|++..+.|   +...+..+...|.. +    +.++|.+.|++..
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            44445444433 55566666666666666666666666666654   44555555555555 4    6666777666666


Q ss_pred             HcCCCCcHHHHHHHHHHHHh----CCCHHHHHHHHhhCCCCC-----hhhHHHHHHHHHH----cCCHHHHHHHHHHHHH
Q 003457          244 MRGFEMGAILGTALVHMYTK----NGALAKAKALFDSMPERN-----IATWNAMISGLAS----HGHAEEALDLFRKLEK  310 (818)
Q Consensus       244 ~~g~~~~~~~~~~Li~~~~~----~g~~~~A~~~f~~m~~~d-----~~~~~~Li~~~~~----~g~~~~A~~l~~~m~~  310 (818)
                      +.+   +...+..|..+|..    .+++++|.+.|++..+.+     +.++..|...|..    .+++++|+.+|++..+
T Consensus        81 ~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~  157 (212)
T 3rjv_A           81 EAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSS  157 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            543   34455556666655    566777777777666532     4566667667766    6677777777777766


Q ss_pred             cCCCCCHHHHHHHHHHHHHc-C-----CHHHHHHHHHHHHHH
Q 003457          311 EQIVPNDITFVGVLSACCHA-G-----FIDVGRQIFGSMKRV  346 (818)
Q Consensus       311 ~g~~pd~~t~~~ll~a~~~~-g-----~~~~A~~~~~~m~~~  346 (818)
                      .  ..+...+..|...|... |     ++++|...|++..+.
T Consensus       158 ~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~  197 (212)
T 3rjv_A          158 L--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLE  197 (212)
T ss_dssp             T--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHH
T ss_pred             c--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHc
Confidence            5  12334555566555543 2     677777777776654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.66  E-value=6.2e-07  Score=79.68  Aligned_cols=115  Identities=17%  Similarity=0.145  Sum_probs=94.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC--CCCCHHHHHHHHHH
Q 003457          317 DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV--WKPDVVMWGALLAA  394 (818)
Q Consensus       317 ~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a  394 (818)
                      ...+..+...+...|++++|.+.++++.+.  .+.+...+..+...|.+.|++++|+..|+++.  ...+...+..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            456667777788888888888888887765  34567788888888888899999988888872  23467788889999


Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh
Q 003457          395 CKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE  433 (818)
Q Consensus       395 ~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G  433 (818)
                      +...|++++|.+.++++++..|+++..+..++.++.+.|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999999988887654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.64  E-value=5.2e-07  Score=80.91  Aligned_cols=117  Identities=11%  Similarity=0.056  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-CHHHHHHHHHH
Q 003457          317 DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-DVVMWGALLAA  394 (818)
Q Consensus       317 ~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~a  394 (818)
                      ...+..+...+...|++++|...++++.+.  .+.+...+..+...|...|++++|++.++++. ..| +...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            345666677777888888888888887765  44567778888888888888888888888772 234 57788889999


Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhch
Q 003457          395 CKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESM  435 (818)
Q Consensus       395 ~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~  435 (818)
                      +...|++++|.+.+++++++.|++...+..++.++.+.|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999988875

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.64  E-value=3.6e-06  Score=88.42  Aligned_cols=160  Identities=9%  Similarity=-0.057  Sum_probs=120.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCC-CCCHH----HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHH
Q 003457          287 AMISGLASHGHAEEALDLFRKLEKEQI-VPNDI----TFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYG  357 (818)
Q Consensus       287 ~Li~~~~~~g~~~~A~~l~~~m~~~g~-~pd~~----t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~  357 (818)
                      ..+..+...|++++|..++++..+... .|+..    .+..+...+...+++++|...++++.+...-.++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346677888999999999988876422 22211    2334566677778899999999998874222233    34688


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHcC-----CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC------cchH
Q 003457          358 CMVDLLGRCGKVLEAEELIKRMV-----WKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEPNN------HGVY  422 (818)
Q Consensus       358 ~Li~~~~~~g~~~~A~~~~~~m~-----~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~------~~~y  422 (818)
                      .+...|...|++++|++.|+++.     ...+    ..++..+...|.+.|++++|++.+++++++.++.      ..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            89999999999999999888873     1112    3478889999999999999999999999865433      6789


Q ss_pred             HHHHHHHHHhhc-hHHHHHHHHHHH
Q 003457          423 VVLSNMYAEAES-MKMQLEILLVQV  446 (818)
Q Consensus       423 ~~L~~~l~~~G~-~~eA~~l~~~~~  446 (818)
                      ..++.+|.+.|+ +++|.+.++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            999999999995 699999776663

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.62  E-value=5.4e-07  Score=97.04  Aligned_cols=127  Identities=9%  Similarity=-0.027  Sum_probs=100.3

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC---------------HHHHHHHHHHHHHcCCHHHHHHHHHHc-CC
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK---------------IEHYGCMVDLLGRCGKVLEAEELIKRM-VW  381 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~---------------~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~  381 (818)
                      ..+..+...|.+.|++++|...|++.++.  .+.+               ...|..+..+|.+.|++++|++.|+++ ..
T Consensus       148 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          148 TIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHH--hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34444555555555555555555555543  1111               478889999999999999999999988 33


Q ss_pred             CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH-HHHHHH
Q 003457          382 KP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE-ILLVQV  446 (818)
Q Consensus       382 ~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~-l~~~~~  446 (818)
                      .| +...|..+..+|...|++++|+..|+++++++|++..++..++.++.+.|++++|.+ +++.+.
T Consensus       226 ~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          226 DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44 688999999999999999999999999999999999999999999999999999966 666663

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.61  E-value=4.2e-07  Score=82.09  Aligned_cols=117  Identities=9%  Similarity=-0.006  Sum_probs=93.4

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-CHHHHHHHHH
Q 003457          316 NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-DVVMWGALLA  393 (818)
Q Consensus       316 d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~  393 (818)
                      +...+..+...+.+.|++++|...++++.+.  .+.+...+..+...|...|++++|++.|+++. ..| +...+..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            3456667777777888888888888877653  34467777888888888888888888888772 233 5788888899


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          394 ACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      .+.+.|++++|++.+++++++.|++...+..++.++.+.|+
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999887764

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.60  E-value=3.1e-07  Score=82.81  Aligned_cols=91  Identities=13%  Similarity=0.048  Sum_probs=81.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh
Q 003457          356 YGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE  433 (818)
Q Consensus       356 ~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G  433 (818)
                      +..+...+.+.|++++|+..|+++ ...| +...|..+..++...|++++|+..|+++++++|+++..+..++.+|.+.|
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            456677788999999999999988 3345 68889999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHH
Q 003457          434 SMKMQLEILLVQV  446 (818)
Q Consensus       434 ~~~eA~~l~~~~~  446 (818)
                      ++++|++.++..+
T Consensus       100 ~~~~A~~~~~~al  112 (121)
T 1hxi_A          100 NANAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999777764

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.60  E-value=1.2e-07  Score=91.36  Aligned_cols=128  Identities=9%  Similarity=0.083  Sum_probs=94.0

Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH-HHHcCCH-
Q 003457          292 LASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDL-LGRCGKV-  369 (818)
Q Consensus       292 ~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~-~~~~g~~-  369 (818)
                      +...|++++|+..+++..+... .+...+..+..+|...|++++|...|+++.+.  .+.+...+..+..+ |...|++ 
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhhccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcc
Confidence            3456788888888888877643 35677778888888888888888888888775  34467777778877 7788887 


Q ss_pred             -HHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchH
Q 003457          370 -LEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       370 -~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                       ++|++.|+++ ...| +...+..+...|...|++++|+..|++++++.|++....
T Consensus        97 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  152 (177)
T 2e2e_A           97 TAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRT  152 (177)
T ss_dssp             CHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHH
T ss_pred             hHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHH
Confidence             8888888877 2334 467777888888888888888888888888888865543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.60  E-value=1.1e-06  Score=92.38  Aligned_cols=162  Identities=9%  Similarity=-0.040  Sum_probs=118.9

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCC--CCC--HH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQIVPND-----ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGI--EPK--IE  354 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~-----~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~--~p~--~~  354 (818)
                      .+...+..+...|++++|++.+++..+.......     ..+..+...+...|++++|...+++..+....  .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            4455677788889999999988888775332111     22334556677788999999999887753111  111  45


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHcC----CCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC------Cc
Q 003457          355 HYGCMVDLLGRCGKVLEAEELIKRMV----WKPD-----VVMWGALLAACKNHGNIEVAERVVKEIIALEPN------NH  419 (818)
Q Consensus       355 ~~~~Li~~~~~~g~~~~A~~~~~~m~----~~pd-----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~------~~  419 (818)
                      +++.+...|...|++++|++.|+++.    ..|+     ..++..++..|...|++++|++.+++++++.++      ..
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            78888999999999999999998762    1222     257888899999999999999999999876532      15


Q ss_pred             chHHHHHHHHHHhhchHHH-HHHHHHH
Q 003457          420 GVYVVLSNMYAEAESMKMQ-LEILLVQ  445 (818)
Q Consensus       420 ~~y~~L~~~l~~~G~~~eA-~~l~~~~  445 (818)
                      .+|..++.+|.+.|++++| ...++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence            6788999999999999999 6655544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.59  E-value=1.8e-07  Score=86.87  Aligned_cols=87  Identities=11%  Similarity=-0.022  Sum_probs=40.9

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          357 GCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       357 ~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      ..+...+.+.|++++|++.|+++ ...| +...|..+..+|.+.|++++|+..|+++++++|+++..+..++.+|...|+
T Consensus        22 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~  101 (142)
T 2xcb_A           22 YALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQLGD  101 (142)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCC
Confidence            33444444444444444444444 1122 344444444444455555555555555555555555555555555555555


Q ss_pred             hHHHHHHHH
Q 003457          435 MKMQLEILL  443 (818)
Q Consensus       435 ~~eA~~l~~  443 (818)
                      +++|++.++
T Consensus       102 ~~~A~~~~~  110 (142)
T 2xcb_A          102 LDGAESGFY  110 (142)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555554433

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.57  E-value=1.7e-07  Score=98.26  Aligned_cols=185  Identities=7%  Similarity=-0.118  Sum_probs=110.0

Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 003457          252 ILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACC  328 (818)
Q Consensus       252 ~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~  328 (818)
                      ..+..+...+.+.|++++|...|++..+   .+...|..+..+|.+.|++++|+..+++.++... -+...+..+..++.
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~   83 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQCQL   83 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            3444455555556666666666655442   2455666666666677777777777776665432 24556666667777


Q ss_pred             HcCCHHHHHHHHHHHHHHhCCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 003457          329 HAGFIDVGRQIFGSMKRVYGIEP---KIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNHGNIEVAE  405 (818)
Q Consensus       329 ~~g~~~~A~~~~~~m~~~~g~~p---~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~  405 (818)
                      ..|++++|...|+++.+...-.+   ....+..+  ...+..++..    ........+......+..  ...|++++|+
T Consensus        84 ~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~--~~~~~~~~~~----~~~~~~~~~~~i~~~l~~--l~~~~~~~A~  155 (281)
T 2c2l_A           84 EMESYDEAIANLQRAYSLAKEQRLNFGDDIPSAL--RIAKKKRWNS----IEERRIHQESELHSYLTR--LIAAEREREL  155 (281)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHH--HHHHHHHHHH----HHHTCCCCCCHHHHHHHH--HHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHH--HHHHHHHHHH----HHHHHHhhhHHHHHHHHH--HHHHHHHHHH
Confidence            77777777777776654311000   11111111  1122212222    122222334444343333  2368999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHHh-hchHHHHHHHHHH
Q 003457          406 RVVKEIIALEPNNHGVYVVLSNMYAEA-ESMKMQLEILLVQ  445 (818)
Q Consensus       406 ~~~~~~~~~~P~~~~~y~~L~~~l~~~-G~~~eA~~l~~~~  445 (818)
                      +.++++++.+|++......+..++.+. +++++|.+++...
T Consensus       156 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a  196 (281)
T 2c2l_A          156 EECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQV  196 (281)
T ss_dssp             TTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999999888888888888776 7789999988776

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.57  E-value=1.9e-07  Score=88.94  Aligned_cols=108  Identities=12%  Similarity=-0.003  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHH
Q 003457          317 DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAA  394 (818)
Q Consensus       317 ~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a  394 (818)
                      ...+..+...+.+.|++++|+..|++.++.  .+.+...|..+..+|.+.|++++|++.|+++ ...| +...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            455666777777888888888888887765  3446777777777788888888888877776 2334 46777777777


Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCcchHHHHH
Q 003457          395 CKNHGNIEVAERVVKEIIALEPNNHGVYVVLS  426 (818)
Q Consensus       395 ~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~  426 (818)
                      |...|++++|++.|+++++++|++...+...+
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            77888888888888888888777777554443

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.54  E-value=3.9e-07  Score=85.38  Aligned_cols=107  Identities=9%  Similarity=-0.077  Sum_probs=88.7

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHH
Q 003457          317 DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAA  394 (818)
Q Consensus       317 ~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a  394 (818)
                      ...+..+...+.+.|++++|...|+++.+.  .+.+...|..+..+|.+.|++++|++.|+++ ...| +...+..+..+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~   98 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHH
Confidence            445666778888899999999999988875  4557888888999999999999999999887 3344 57888889999


Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCcchHHHH
Q 003457          395 CKNHGNIEVAERVVKEIIALEPNNHGVYVVL  425 (818)
Q Consensus       395 ~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L  425 (818)
                      |...|++++|++.|++++++.|+++......
T Consensus        99 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~  129 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQELIANXPEFXELS  129 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTCGGGHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCcCCCcchHHH
Confidence            9999999999999999999999887764433

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.54  E-value=1.3e-07  Score=93.06  Aligned_cols=92  Identities=12%  Similarity=0.010  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHH
Q 003457          354 EHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAE  431 (818)
Q Consensus       354 ~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~  431 (818)
                      ..+..+..+|.+.|++++|++.++++ ...| +...+..+..+|...|++++|++.|++++++.|++..++..++.++.+
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  168 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  168 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHH
Confidence            57778888899999999999999887 2334 678899999999999999999999999999999999999999999999


Q ss_pred             hhchHHHHH-HHHHH
Q 003457          432 AESMKMQLE-ILLVQ  445 (818)
Q Consensus       432 ~G~~~eA~~-l~~~~  445 (818)
                      .++.+++.+ .++.+
T Consensus       169 ~~~~~~~~~~~~~~~  183 (198)
T 2fbn_A          169 LKEARKKDKLTFGGM  183 (198)
T ss_dssp             HHHHHC---------
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999885 55555

>1gu3_A Endoglucanase C; carbohydrate-binding module, carbohydrate binding module, CBM, cellulose; HET: BGC; 2.3A {Cellulomonas fimi} SCOP: b.18.1.14 PDB: 1ulo_A 1ulp_A

Probab=98.52  E-value=9.4e-07  Score=82.20  Aligned_cols=126  Identities=23%  Similarity=0.318  Sum_probs=72.0

Q ss_pred             CcccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEeceeeeecCCceeccCCCeeEEecCC-----ccceee-ee
Q 003457          630 NLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAAIEIVSV-----SAGIQT-AT  703 (818)
Q Consensus       630 ~l~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~v~~i~~~~~~~~~g~~~~~l~~~-----~~~~q~-~~  703 (818)
                      +||+||+|+.|+.                       +|.+.|.     .+.+.+..|.-.|++.++     --+.|+ +.
T Consensus         2 ~li~NG~F~~g~~-----------------------~W~~~~~-----~~~~~~~~g~l~i~i~~G~~~w~vql~q~gi~   53 (149)
T 1gu3_A            2 SPIGEGTFDDGPE-----------------------GWVAYGT-----DGPLDTSTGALCVAVPAGSAQYGVGVVLNGVA   53 (149)
T ss_dssp             ------CCTTCCT-----------------------TCEEESC-----SSCCBCTTSSEEEEECTTCCTTSSEEEEEEEC
T ss_pred             cccccCCccCCCC-----------------------CcEECCc-----eEEEEEeCCEEEEEECCCCcCEEEEEEeCCEE
Confidence            7999999998642                       5776332     233445567777777552     111365 77


Q ss_pred             ccccCCCeEEEEEecCcccCccccceEEEEeeCCcc---eeeEEEecc-cCCceeeeEEEEecc--cee--------eEE
Q 003457          704 TMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLV---QNFTVQSLG-TGSVIKHSVTFKAGS--GST--------PIS  769 (818)
Q Consensus       704 ~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~~f~a~~--~~~--------~~~  769 (818)
                        ..+|.+|.|+|.   |.-  ..+..+.|.++...   ...--++.. +..|++|++.|++..  +..        +|.
T Consensus        54 --L~~G~tY~lsF~---A~a--s~~r~i~v~i~~~~~~y~~y~~~~~~lt~~~q~yt~tFT~~~~~~~~~~~~~~~grl~  126 (149)
T 1gu3_A           54 --IEEGTTYTLRYT---ATA--STDVTVRALVGQNGAPYGTVLDTSPALTSEPRQVTETFTASATYPATPAADDPEGQIA  126 (149)
T ss_dssp             --BCTTCEEEEEEE---EEE--SSCEECEEEEEESSTTCCEEEEECCEECSSCEEEEEEEECSSCBCSSCBTTBCCEEEE
T ss_pred             --EcCCCEEEEEEE---EEe--CCCcEEEEEEecCCCChhhheeeeeEcCCCceEEEEEEECcCCCcCcccccccccEEE
Confidence              899999999999   442  23455555554322   122113333 778999999999863  344        899


Q ss_pred             EEeCcccccCCCCccccccceeeee
Q 003457          770 FISYNINQTKDGVFCGPLIDDVVLR  794 (818)
Q Consensus       770 f~~~~~~~~~~~~~~gp~~d~v~~~  794 (818)
                      |+=-++...+    .==.||||+++
T Consensus       127 f~lG~~~~~~----~tv~iDnVsL~  147 (149)
T 1gu3_A          127 FQLGGFSADA----WTLCLDDVALD  147 (149)
T ss_dssp             EECTTSCSSC----EEEEEEEEEEE
T ss_pred             EEcCCCCCCC----cEEEEEEEEEe
Confidence            9743222111    11159999986

>1gui_A Laminarinase 16A; carbohydrate binding module, CBM, glucan, cellulose; HET: BGC; 1.9A {Thermotoga maritima} SCOP: b.18.1.14

Probab=98.52  E-value=1.3e-06  Score=82.57  Aligned_cols=101  Identities=22%  Similarity=0.159  Sum_probs=62.9

Q ss_pred             eccCCCeeEEecCCc---c-c--eeeeeccccCCCeEEEEEecCcccCccccceEEEEeeCCc---ceeeEEEecc-cCC
Q 003457          682 YVPKGNAAIEIVSVS---A-G--IQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSL---VQNFTVQSLG-TGS  751 (818)
Q Consensus       682 ~~~~g~~~~~l~~~~---~-~--~q~~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~-~~~  751 (818)
                      .+..|...|++.+.+   . +  .|.+.  +++|.+|.|+|..   .-+  ....++|.+...   ....-.++.. +..
T Consensus        41 ~~~~g~~~i~v~~~g~~~~~~ql~q~i~--l~~G~~Y~lsf~a---ka~--~~~~i~v~l~~~~~~~~~~~~~~~~lt~~  113 (155)
T 1gui_A           41 GVRDGYAYITIADPGTDTWHIQFNQWIG--LYRGKTYTISFKA---KAD--TPRPINVKILQNHDPWTNYFAQTVNLTAD  113 (155)
T ss_dssp             EEETTEEEEEEEECCSSGGGEEEEEEEE--CCTTCEEEEEEEE---EES--SCEEEEEEEECSSTTCCEEEEEEEEECSS
T ss_pred             EEeCCEEEEEECCCCCCcEeEEEEccEE--eCCCCEEEEEEEE---EeC--CCCcEEEEEEcCCCChHHheeccEeeCCC
Confidence            344666666664311   1 1  37787  9999999999994   322  234566665432   2232223333 668


Q ss_pred             ceeeeEEEEecc---ceeeEEEEeCcccccCCCCccccccceeeeee
Q 003457          752 VIKHSVTFKAGS---GSTPISFISYNINQTKDGVFCGPLIDDVVLRA  795 (818)
Q Consensus       752 ~~~~~~~f~a~~---~~~~~~f~~~~~~~~~~~~~~gp~~d~v~~~~  795 (818)
                      |++|++.|++..   ...+|.|.--+..   .+.   =.||+|+|.|
T Consensus       114 w~~~~~~ft~~~~t~~~~~l~f~~g~~~---~~~---v~iD~VsL~P  154 (155)
T 1gui_A          114 WQTFTFTYTHPDDADEVVQISFELGEGT---ATT---IYFDDVTVSP  154 (155)
T ss_dssp             CEEEEEEEECCTTSCSEEEEEEECCSSC---CCE---EEEEEEEEEE
T ss_pred             CEEEEEEEEcCCCCCceEEEEEECCCCC---Cce---EEEEEEEEEe
Confidence            999999999997   5778999752111   111   2399999985

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.50  E-value=1.9e-07  Score=84.34  Aligned_cols=89  Identities=16%  Similarity=0.009  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhh
Q 003457          356 YGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAE  433 (818)
Q Consensus       356 ~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G  433 (818)
                      +..+...+.+.|++++|++.|+++ ...| +...|..+..++.+.|++++|+..++++++++|+++..|..++.++...|
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~   86 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVK   86 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHh
Confidence            334444444555555555555444 1122 34445555555555555555555555555555555555555555555555


Q ss_pred             chHHHHHHHHH
Q 003457          434 SMKMQLEILLV  444 (818)
Q Consensus       434 ~~~eA~~l~~~  444 (818)
                      ++++|++.++.
T Consensus        87 ~~~~A~~~~~~   97 (126)
T 3upv_A           87 EYASALETLDA   97 (126)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            55555554433

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.50  E-value=1.4e-05  Score=83.84  Aligned_cols=158  Identities=9%  Similarity=-0.006  Sum_probs=121.5

Q ss_pred             HHHHHHhCCCHHHHHHHHhhCCCC-----C----hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CC----HHHHHH
Q 003457          257 LVHMYTKNGALAKAKALFDSMPER-----N----IATWNAMISGLASHGHAEEALDLFRKLEKEQIV-PN----DITFVG  322 (818)
Q Consensus       257 Li~~~~~~g~~~~A~~~f~~m~~~-----d----~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~-pd----~~t~~~  322 (818)
                      .+..+.+.|++++|.+.+++..+.     +    ...+..+...+...+++++|+..|+++.+.... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            467788899999999999886641     1    113345667777788999999999999874322 22    236888


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhC-C---CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHcC-------CCCC-HHHHH
Q 003457          323 VLSACCHAGFIDVGRQIFGSMKRVYG-I---EPK-IEHYGCMVDLLGRCGKVLEAEELIKRMV-------WKPD-VVMWG  389 (818)
Q Consensus       323 ll~a~~~~g~~~~A~~~~~~m~~~~g-~---~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~-------~~pd-~~~~~  389 (818)
                      +..+|...|++++|...|+++.+... .   .+. ..++..+...|.+.|++++|++.++++.       ..+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            99999999999999999999875321 1   111 3478899999999999999999998872       1122 67889


Q ss_pred             HHHHHHHHcC-CHHHHHHHHHHHHhc
Q 003457          390 ALLAACKNHG-NIEVAERVVKEIIAL  414 (818)
Q Consensus       390 ~Li~a~~~~g-~~~~A~~~~~~~~~~  414 (818)
                      .+..++.+.| ++++|++.+++++++
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            9999999999 579999999998864

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.49  E-value=4.9e-07  Score=83.47  Aligned_cols=93  Identities=13%  Similarity=0.026  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHH
Q 003457          353 IEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSN  427 (818)
Q Consensus       353 ~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~  427 (818)
                      ...+..+...+.+.|++++|++.|+++ ...|+    ...+..+...|.+.|++++|++.+++++++.|++...+..++.
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~  107 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQ  107 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHH
Confidence            344444444444555555555555444 22333    3444444445555555555555555555555555555555555


Q ss_pred             HHHHhhchHHHHHHHHHH
Q 003457          428 MYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       428 ~l~~~G~~~eA~~l~~~~  445 (818)
                      +|.+.|++++|.+.++..
T Consensus       108 ~~~~~~~~~~A~~~~~~a  125 (148)
T 2dba_A          108 ALEKLGRLDQAVLDLQRC  125 (148)
T ss_dssp             HHHHHTCHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHH
Confidence            555555555555544333

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.49  E-value=1.2e-05  Score=91.07  Aligned_cols=104  Identities=9%  Similarity=0.022  Sum_probs=69.3

Q ss_pred             cCC-CHHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC-hHHHHHHH
Q 003457           61 SSG-DLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRS-LNCCKQIH  138 (818)
Q Consensus        61 k~g-~~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~-~~~A~~~~  138 (818)
                      +.| +++.|+.+|+.+.           ..+-. ++++.+..+|++....  .|+...|...+.-..+.++ .+....+|
T Consensus         6 ~~~~~i~~aR~vyer~l-----------~~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~f   71 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHAR-----------RLYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVY   71 (493)
T ss_dssp             ------CCHHHHHHHHH-----------HHHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHH
T ss_pred             HcCcchHHHHHHHHHHH-----------HHCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHH
Confidence            456 3777777777653           22211 8899999999998873  5788888888877766653 45567788


Q ss_pred             HHHHHc-CCC-CCHHHHHHHHHHHHh----CCChHHHHHHHHHhhc
Q 003457          139 THVSKS-GLD-LDLHVVNCLVRCYSV----SSDLNNARQVFDEIRN  178 (818)
Q Consensus       139 ~~m~~~-g~~-p~~~~~~~Li~~y~~----~g~~~~A~~l~~~m~~  178 (818)
                      +.++.. |.. .+..+|...+..+..    .++++.+.++|++...
T Consensus        72 e~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~  117 (493)
T 2uy1_A           72 EFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQ  117 (493)
T ss_dssp             HHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHh
Confidence            887765 433 366788877776542    4568889999998865

>2zez_A Family 16 CBM-2, S-layer associated multidomain endoglucanase; family 16 carbohydrate binding module-2; 1.90A {Thermoanaerobacterium polysaccharolytiorganism_taxid}

Probab=98.48  E-value=1e-06  Score=81.15  Aligned_cols=131  Identities=19%  Similarity=0.142  Sum_probs=74.0

Q ss_pred             CCcccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEeceeee-ecCCceeccCCCeeEEecCC--ccceeeeecc
Q 003457          629 DNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKY-IDSKHFYVPKGNAAIEIVSV--SAGIQTATTM  705 (818)
Q Consensus       629 ~~l~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~v~~-i~~~~~~~~~g~~~~~l~~~--~~~~q~~~~~  705 (818)
                      .|||.||+||+|                       +.+|+..|.... +++   .+=.|.+|+++.+.  +.+.|++.  
T Consensus         2 ~Nli~N~gFE~G-----------------------l~~W~~~g~~~~~v~~---~~~~Gs~alk~s~~~~~~~~Q~V~--   53 (144)
T 2zez_A            2 SNLIVNGTAENG-----------------------MDGWPDWGYPVSAVPE---AAYGGTKGFKLSGGKQAGMGQKVA--   53 (144)
T ss_dssp             CCSSTTTTSTTT-----------------------TTTSCCCSSSEEEEGG---GCSSTTCEEEECTTSCEEEEEECC--
T ss_pred             CccccCCCcccC-----------------------ccCCcccCCCCceecc---cccCCcceeEEecCCcccEEEEEE--
Confidence            499999999985                       224554332111 111   11268899999664  46669998  


Q ss_pred             ccCCCeEEEEEecC-cccCccccceEEEEeeCC--cc-eeeEEE-ecccCCceeeeEEEEeccce--eeE--EEEeCccc
Q 003457          706 LTEGSAYNLDFTLG-DAKDACEGMFVVRVQAGS--LV-QNFTVQ-SLGTGSVIKHSVTFKAGSGS--TPI--SFISYNIN  776 (818)
Q Consensus       706 ~~~g~~y~~tf~~~-~~~~~~~~~~~~~~~~~~--~~-~~~~~~-~~~~~~~~~~~~~f~a~~~~--~~~--~f~~~~~~  776 (818)
                      +.||++|+|++.+= +..+.  +--.+-+.+..  .+ +....+ +..+.+|...+..|+-.++.  +++  -+++...+
T Consensus        54 l~PnttYtLSa~vk~~~~~g--~~~~v~l~~~~~d~~~~~~~~~~~~~~~~W~~~s~~FtT~~~~~~~~~~~~~~~~~~~  131 (144)
T 2zez_A           54 LKPNTTYILGAWGKFTAKPG--TYCDVIVQYHLKDANNTYVQNILRFTETDWTYKQVVFTTPDAFGSDPEFVLWKDDASN  131 (144)
T ss_dssp             CCTTCEEEEEEEEEESSCCS--SCEEEEEEEEBSSTTCCEEEEEEEECCSSCEEEEEEEECCSSBSSCCEEEEEECCCSS
T ss_pred             ECCCCEEEEEEEEEEcccCC--ceEEEEEeecccccCCceeEEEeecCCCCCEEEEEEEEcCCCceEEEEEEEEeCCCCc
Confidence            99999999999851 11111  11112222221  11 211111 23477899999999988765  333  33331111


Q ss_pred             ccCCCCccccccceeeeeec
Q 003457          777 QTKDGVFCGPLIDDVVLRAS  796 (818)
Q Consensus       777 ~~~~~~~~gp~~d~v~~~~~  796 (818)
                        .+     -.+|||.|..+
T Consensus       132 --g~-----~y~DDv~Lvev  144 (144)
T 2zez_A          132 --AD-----FYADNITLVEV  144 (144)
T ss_dssp             --CC-----EEEEEEEEEC-
T ss_pred             --cc-----EEEEeEEEEeC
Confidence              11     25999998753

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.48  E-value=6e-07  Score=78.92  Aligned_cols=109  Identities=20%  Similarity=0.062  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHH
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAAC  395 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~  395 (818)
                      ..+..+...+...|++++|...+++..+.  .+.+...+..+...|.+.|++++|.+.++++ ...| +...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            34445555555566666666666655543  2334555555555555555555555555554 1122 344555555555


Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 003457          396 KNHGNIEVAERVVKEIIALEPNNHGVYVVLSNM  428 (818)
Q Consensus       396 ~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~  428 (818)
                      ...|++++|.+.++++++..|+++..+..++.+
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            555555555555555555555555554444433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.47  E-value=4e-07  Score=94.09  Aligned_cols=121  Identities=12%  Similarity=-0.046  Sum_probs=77.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCH----HHHHHHHHHHHHc
Q 003457          323 VLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDV----VMWGALLAACKNH  398 (818)
Q Consensus       323 ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~----~~~~~Li~a~~~~  398 (818)
                      +...+...|++++|.++|+.+...   .|+......+...+.+.+++++|+..|++....|+.    ..+..+..++...
T Consensus       108 yA~~L~~~g~y~eA~~~l~~~~~~---~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~L  184 (282)
T 4f3v_A          108 FAACEAAQGNYADAMEALEAAPVA---GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANL  184 (282)
T ss_dssp             HHHHHHHHTCHHHHHHHHTSSCCT---TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHC
Confidence            445566677777777777665532   333325555556677777777777777766433322    3566667777777


Q ss_pred             CCHHHHHHHHHHHHhcC--CC-CcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          399 GNIEVAERVVKEIIALE--PN-NHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       399 g~~~~A~~~~~~~~~~~--P~-~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      |++++|++.|+++..-.  |. .++....++.++.+.|+.++|.++++.+.
T Consensus       185 G~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~  235 (282)
T 4f3v_A          185 ALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQ  235 (282)
T ss_dssp             TCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            77777777777776432  43 44566777777777777777777666553

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.47  E-value=2.2e-06  Score=82.35  Aligned_cols=115  Identities=9%  Similarity=0.069  Sum_probs=70.1

Q ss_pred             HcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-CHHHHHHHHHH-HHHcCCH--HH
Q 003457          329 HAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-DVVMWGALLAA-CKNHGNI--EV  403 (818)
Q Consensus       329 ~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~a-~~~~g~~--~~  403 (818)
                      ..|++++|...+++..+.  .+.+...+..+...|...|++++|++.|+++. ..| +...+..+... +...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHH
Confidence            445666666666666654  34455666666666777777777777666652 222 45566666666 5566666  77


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          404 AERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       404 A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      |+..++++++.+|++...+..++.+|.+.|++++|.+.++..
T Consensus       100 A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a  141 (177)
T 2e2e_A          100 TRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKV  141 (177)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            777777777777766666667777777777777776655443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.46  E-value=2.9e-06  Score=80.52  Aligned_cols=94  Identities=13%  Similarity=0.043  Sum_probs=80.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 003457          352 KIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMY  429 (818)
Q Consensus       352 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l  429 (818)
                      +...+..+...|.+.|++++|++.|+++ ...| +...|..+..+|.+.|++++|+..|+++++++|++...|..++.+|
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            4567788888899999999999999887 2334 6788888999999999999999999999999999999999999999


Q ss_pred             HHhhchHHHHHHHHHH
Q 003457          430 AEAESMKMQLEILLVQ  445 (818)
Q Consensus       430 ~~~G~~~eA~~l~~~~  445 (818)
                      .+.|++++|++.++..
T Consensus        90 ~~~g~~~~A~~~~~~a  105 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKG  105 (164)
T ss_dssp             HHTTCHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHH
Confidence            9999999999976554

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.45  E-value=3.8e-07  Score=85.54  Aligned_cols=61  Identities=7%  Similarity=-0.021  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc-------CCCCcchH----HHHHHHHHHhhchHHHHHHHHHHH
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIAL-------EPNNHGVY----VVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~-------~P~~~~~y----~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      ..|..+..++.+.|++++|+..+++++++       +|++..+|    +.++.+|...|+++||++.++..+
T Consensus        58 ~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           58 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence            48899999999999999999999999999       99999999    999999999999999999777764

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.45  E-value=6.2e-05  Score=80.25  Aligned_cols=229  Identities=9%  Similarity=0.004  Sum_probs=145.4

Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhC-C-CHHH
Q 003457          193 QSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSG-CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKN-G-ALAK  269 (818)
Q Consensus       193 ~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g-~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~-g-~~~~  269 (818)
                      +....++|++++++++... +-+...|+.--.++...+ .++++.+.++.++... +.+..+++.-..++.+. + ++++
T Consensus        66 ~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~  143 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVS  143 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHH
T ss_pred             hCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHH
Confidence            3344566777777777664 334455565555555666 4777777777777664 44555666555555554 5 6677


Q ss_pred             HHHHHhhCCC---CChhhHHHHHHHHHHcCCHH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC------
Q 003457          270 AKALFDSMPE---RNIATWNAMISGLASHGHAE--------EALDLFRKLEKEQIVPNDITFVGVLSACCHAGF------  332 (818)
Q Consensus       270 A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~--------~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~------  332 (818)
                      ++++++++.+   +|..+|+.-.-.+.+.++++        ++++.++++++..+. |...++.....+.+.++      
T Consensus       144 EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~~  222 (349)
T 3q7a_A          144 EIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSSR  222 (349)
T ss_dssp             HHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccchH
Confidence            7777777775   34556666555555555454        788888888887554 67777777767766665      


Q ss_pred             -HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCH--------------------HHHHHHHHHcC-C-------CC
Q 003457          333 -IDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKV--------------------LEAEELIKRMV-W-------KP  383 (818)
Q Consensus       333 -~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~--------------------~~A~~~~~~m~-~-------~p  383 (818)
                       ++++++.+++++..  .+-|...|+.+-..+.+.|+.                    .+..+...++. .       .+
T Consensus       223 ~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  300 (349)
T 3q7a_A          223 SLQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLP  300 (349)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSC
T ss_pred             HHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCC
Confidence             67788888887765  556777787777777766653                    23333333331 1       24


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHH-hcCCCCcchHHHHH
Q 003457          384 DVVMWGALLAACKNHGNIEVAERVVKEII-ALEPNNHGVYVVLS  426 (818)
Q Consensus       384 d~~~~~~Li~a~~~~g~~~~A~~~~~~~~-~~~P~~~~~y~~L~  426 (818)
                      ....+..|++.|...|+.++|.++++.+. +.+|-....|...+
T Consensus       301 s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~  344 (349)
T 3q7a_A          301 VPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRR  344 (349)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHH
Confidence            56777888888888888888888888876 56776555554443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.45  E-value=2.8e-06  Score=78.65  Aligned_cols=112  Identities=12%  Similarity=-0.057  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHH
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAAC  395 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~  395 (818)
                      ..+..+...+.+.|++++|...|+++.+.  .+.+...|..+..+|.+.|++++|++.|+++ ...| +...+..+..+|
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Confidence            34555667788888888888888888775  4556778888888888899999999888887 2334 567788889999


Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHH
Q 003457          396 KNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAE  431 (818)
Q Consensus       396 ~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~  431 (818)
                      ...|++++|++.|++++++.|+++........+...
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  132 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAAAQPAHEALAARAGAM  132 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTCGGGHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHH
Confidence            999999999999999999999888776555444433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.44  E-value=2.3e-06  Score=88.44  Aligned_cols=136  Identities=12%  Similarity=-0.046  Sum_probs=91.9

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC--HHHHHHHHHHH
Q 003457          286 NAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK--IEHYGCMVDLL  363 (818)
Q Consensus       286 ~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~--~~~~~~Li~~~  363 (818)
                      ..+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...+.  ..|.  ...+..+..++
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~--~d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW--PDKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC--SCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc--CCcccHHHHHHHHHHHH
Confidence            344556666777777777777665542  43334445555677777888887777754321  0111  23567777888


Q ss_pred             HHcCCHHHHHHHHHHcCCC---CC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHH
Q 003457          364 GRCGKVLEAEELIKRMVWK---PD--VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLS  426 (818)
Q Consensus       364 ~~~g~~~~A~~~~~~m~~~---pd--~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~  426 (818)
                      .+.|++++|++.|++....   |.  .........++.+.|+.++|...|++++..+|+ ..++..|.
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~  248 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALK  248 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHh
Confidence            8888888888888887312   32  346667777888999999999999999999998 66666553

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.44  E-value=4.1e-07  Score=82.15  Aligned_cols=97  Identities=12%  Similarity=0.057  Sum_probs=87.4

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHH
Q 003457          350 EPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSN  427 (818)
Q Consensus       350 ~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~  427 (818)
                      +.+...+..+...+.+.|++++|++.|+++ ...| +...+..+...+...|++++|++.++++++..|++...+..++.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            345778889999999999999999999998 3444 68889999999999999999999999999999999999999999


Q ss_pred             HHHHhhchHHHHHHHHHHH
Q 003457          428 MYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       428 ~l~~~G~~~eA~~l~~~~~  446 (818)
                      ++.+.|++++|++.++...
T Consensus        93 ~~~~~~~~~~A~~~~~~~~  111 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKAL  111 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHH
Confidence            9999999999999777663

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.44  E-value=3.9e-06  Score=73.53  Aligned_cols=93  Identities=13%  Similarity=0.015  Sum_probs=47.6

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLL  363 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~  363 (818)
                      .+..+...+...|++++|+..|++..+... .+...+..+..++...|++++|...+++..+.  .+.+...+..+..+|
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL--KPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHh--CcccHHHHHHHHHHH
Confidence            444455555555555555555555554421 13444445555555555555555555555543  223344555555555


Q ss_pred             HHcCCHHHHHHHHHHc
Q 003457          364 GRCGKVLEAEELIKRM  379 (818)
Q Consensus       364 ~~~g~~~~A~~~~~~m  379 (818)
                      .+.|++++|.+.|++.
T Consensus        83 ~~~~~~~~A~~~~~~~   98 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEG   98 (118)
T ss_dssp             HHTTCHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHH
Confidence            5555555555555554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.44  E-value=2.6e-06  Score=80.06  Aligned_cols=99  Identities=8%  Similarity=-0.089  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHH
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAAC  395 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~  395 (818)
                      ..+..+...+.+.|++++|...|+++.+.  .+.+...|..+..+|.+.|++++|++.|+++ ...| +...|..+..+|
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~  114 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHH
Confidence            45566677777888888888888887765  4456777888888888888888888888877 3344 467788888888


Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCC
Q 003457          396 KNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       396 ~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                      .+.|++++|++.|++++++.|++
T Consensus       115 ~~lg~~~eA~~~~~~al~l~~~~  137 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQHSNDE  137 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCCH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCH
Confidence            89999999999999999988884

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.44  E-value=2.9e-06  Score=76.43  Aligned_cols=111  Identities=8%  Similarity=-0.100  Sum_probs=89.1

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHH
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAAC  395 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~  395 (818)
                      ..+..+...+.+.|++++|...|++.++.  .+.+...|..+..+|.+.|++++|++.|+++ ...| +...|..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            45666777788888888888888888775  4556788888888888899999998888887 3344 578888899999


Q ss_pred             HHcCCHHHHHHHHHHHHhcC------CCCcchHHHHHHHHH
Q 003457          396 KNHGNIEVAERVVKEIIALE------PNNHGVYVVLSNMYA  430 (818)
Q Consensus       396 ~~~g~~~~A~~~~~~~~~~~------P~~~~~y~~L~~~l~  430 (818)
                      ...|++++|++.|+++++++      |++...+..+..+..
T Consensus        83 ~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~  123 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKASQ  123 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHH
Confidence            99999999999999999998      887777777665544

>1cx1_A Endoglucanase C; cellulose-binding domain, cellooligosacharides, cellulase, protein- carbohydrate interaction, hydrolase; NMR {Cellulomonas fimi} SCOP: b.18.1.14

Probab=98.43  E-value=2.2e-06  Score=80.66  Aligned_cols=81  Identities=26%  Similarity=0.290  Sum_probs=49.2

Q ss_pred             eeeccccCCCeEEEEEecCcccCccccceEEEEeeCCc---c-eeeEEEecc-cCCceeeeEEEEecc--cee-----eE
Q 003457          701 TATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSL---V-QNFTVQSLG-TGSVIKHSVTFKAGS--GST-----PI  768 (818)
Q Consensus       701 ~~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~---~-~~~~~~~~~-~~~~~~~~~~f~a~~--~~~-----~~  768 (818)
                      -+.  +++|.+|.|+|.   |.-+  ....++|.+...   . ..+.-++.. +..|++|++.|++..  +..     +|
T Consensus        57 gi~--l~~G~~Y~lsf~---a~as--~~~~i~v~i~~~~~~~~~~~~~~~~~~t~~w~~~~~~ft~~~~~~~~~~~~~rl  129 (153)
T 1cx1_A           57 GVP--VGEGESYVLSFT---ASAT--PDMPVRVLVGEGGGAYRTAFEQGSAPLTGEPATREYAFTSNLTFPPDGDAPGQV  129 (153)
T ss_dssp             CCC--BCTTSEEEEEEE---EEES--SCEEEEEEEECSSSSCCCSSCEEEEEECSCCEEEEEEEECCSCBCSSSSCCCEE
T ss_pred             CEE--ecCCCEEEEEEE---EEeC--CCceEEEEEeCCCCCchhhcccccEEecCCCEEEEEEEEcCCCCCcccccccEE
Confidence            455  899999999999   4322  223455555322   1 111111233 667999999999984  333     79


Q ss_pred             EEEeCcccccCCCCccccccceeeee
Q 003457          769 SFISYNINQTKDGVFCGPLIDDVVLR  794 (818)
Q Consensus       769 ~f~~~~~~~~~~~~~~gp~~d~v~~~  794 (818)
                      .|.--.   ...+.+   .||+|+|.
T Consensus       130 ~f~lg~---~~~~~v---~iD~VsL~  149 (153)
T 1cx1_A          130 AFHLGK---AGAYEF---CISQVSLT  149 (153)
T ss_dssp             EEECCC---TTCCEE---EEEEEEEE
T ss_pred             EEECCC---CcCCEE---EEEeEEEE
Confidence            886521   112222   39999997

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.43  E-value=7.7e-07  Score=79.04  Aligned_cols=94  Identities=19%  Similarity=0.246  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHcC-CC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          353 IEHYGCMVDLLGRCGKVLEAEELIKRMV-WK-PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       353 ~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~-pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      ...+..+...+.+.|++++|++.|+++. .. .+...+..+...+.+.|++++|+..++++++..|++...+..++.++.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            5678889999999999999999999883 23 367889999999999999999999999999999999999999999999


Q ss_pred             HhhchHHHHHHHHHHH
Q 003457          431 EAESMKMQLEILLVQV  446 (818)
Q Consensus       431 ~~G~~~eA~~l~~~~~  446 (818)
                      +.|++++|.+.++...
T Consensus        89 ~~~~~~~A~~~~~~~~  104 (125)
T 1na0_A           89 KQGDYDEAIEYYQKAL  104 (125)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHH
Confidence            9999999999877664

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.42  E-value=4.8e-06  Score=81.39  Aligned_cols=150  Identities=14%  Similarity=0.043  Sum_probs=67.7

Q ss_pred             CCCHHHHHH---HHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHHcCCHHH
Q 003457          264 NGALAKAKA---LFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKE----QIVP-NDITFVGVLSACCHAGFIDV  335 (818)
Q Consensus       264 ~g~~~~A~~---~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~----g~~p-d~~t~~~ll~a~~~~g~~~~  335 (818)
                      .|++++|.+   .+..-.......+..+...+...|++++|+..+++..+.    +..+ ....+..+...+...|++++
T Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   84 (203)
T 3gw4_A            5 AHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDA   84 (203)
T ss_dssp             --CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             cccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHH
Confidence            455555555   333322223445555555556666666666666555431    1111 12334445555555556655


Q ss_pred             HHHHHHHHHHHhCCCC-C----HHHHHHHHHHHHHcCCHHHHHHHHHHcC----CCCC----HHHHHHHHHHHHHcCCHH
Q 003457          336 GRQIFGSMKRVYGIEP-K----IEHYGCMVDLLGRCGKVLEAEELIKRMV----WKPD----VVMWGALLAACKNHGNIE  402 (818)
Q Consensus       336 A~~~~~~m~~~~g~~p-~----~~~~~~Li~~~~~~g~~~~A~~~~~~m~----~~pd----~~~~~~Li~a~~~~g~~~  402 (818)
                      |...+++..+.....+ +    ...+..+...+...|++++|.+.+++..    ...+    ..++..+...+...|+++
T Consensus        85 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  164 (203)
T 3gw4_A           85 ARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLL  164 (203)
T ss_dssp             HHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHH
Confidence            5555555443211111 1    2234444555555555555555554431    0111    122344444555555555


Q ss_pred             HHHHHHHHHHh
Q 003457          403 VAERVVKEIIA  413 (818)
Q Consensus       403 ~A~~~~~~~~~  413 (818)
                      +|.+.++++++
T Consensus       165 ~A~~~~~~al~  175 (203)
T 3gw4_A          165 EAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555544

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.41  E-value=1.7e-06  Score=97.93  Aligned_cols=144  Identities=9%  Similarity=-0.011  Sum_probs=109.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCH
Q 003457          324 LSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNI  401 (818)
Q Consensus       324 l~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~  401 (818)
                      ...+.+.|++++|.+.|+++++.  .+.+...+..+..+|.+.|++++|++.++++ ...| +...+..+..+|.+.|++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            34566778888999888888875  4456888889999999999999999999888 3445 578899999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHH--HHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCccee
Q 003457          402 EVAERVVKEIIALEPNNHGVYVVLSNM--YAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFV  479 (818)
Q Consensus       402 ~~A~~~~~~~~~~~P~~~~~y~~L~~~--l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v  479 (818)
                      ++|++.|++++++.|++...+..++.+  +.+.|++++|++.++...           .-........++++|+...++.
T Consensus        91 ~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~~~-----------~~~~~~~~~al~~~~~~~~~~~  159 (477)
T 1wao_1           91 RAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR-----------SVVDSLDIESMTIEDEYSGPKL  159 (477)
T ss_dssp             HHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------CC-----------STTTCCTTSSCCCCTTCCSCCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccccc-----------hhHhhhhhhhcccccccccccc
Confidence            999999999999999999999999988  889999999999776430           0111222334577777766654


Q ss_pred             e
Q 003457          480 L  480 (818)
Q Consensus       480 ~  480 (818)
                      .
T Consensus       160 ~  160 (477)
T 1wao_1          160 E  160 (477)
T ss_dssp             G
T ss_pred             c
Confidence            3

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.41  E-value=3e-06  Score=95.29  Aligned_cols=127  Identities=10%  Similarity=-0.010  Sum_probs=95.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCC-------------CHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-
Q 003457          319 TFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP-------------KIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-  383 (818)
Q Consensus       319 t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p-------------~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-  383 (818)
                      .+..+...+.+.|++++|...|+++++.....+             ....|..+..+|.+.|++++|++.|+++ ...| 
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  349 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSA  349 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc
Confidence            344445555555555555555555554311111             1578889999999999999999999988 2334 


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH-HHHHH
Q 003457          384 DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE-ILLVQ  445 (818)
Q Consensus       384 d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~-l~~~~  445 (818)
                      +...|..+..+|...|++++|+..|+++++++|++..++..++.++.+.|++++|.+ +++.+
T Consensus       350 ~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  412 (457)
T 1kt0_A          350 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERDRRIYANM  412 (457)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            688999999999999999999999999999999999999999999999999999987 55555

>2xom_A Arabinogalactan endo-1,4-beta-galactosidase; hydrolase, carbohydrate-binding module, glycoside hydrolase, beta-sandwich.; HET: GAL; 0.95A {Thermotoga maritima} PDB: 2xon_A*

Probab=98.41  E-value=3.8e-06  Score=78.50  Aligned_cols=133  Identities=20%  Similarity=0.232  Sum_probs=81.5

Q ss_pred             CCCcccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEec---eeeeecC-CceeccCCCeeEEecCC----ccce
Q 003457          628 NDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIG---TVKYIDS-KHFYVPKGNAAIEIVSV----SAGI  699 (818)
Q Consensus       628 ~~~l~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~---~v~~i~~-~~~~~~~g~~~~~l~~~----~~~~  699 (818)
                      ..|||.||+||+|                      .+.||++.|   .+.-+.. ..-.+-.|.+++..-..    .++.
T Consensus         7 ~~Nll~N~gFE~g----------------------~ls~Wt~~~~~~~~~~~~~~~~~~~~~Gs~~l~~~~~~~~~~~~~   64 (152)
T 2xom_A            7 SRNYLKNPGFETG----------------------EFSPWRVSGDKKAVKVVKANPSSNAHQGEYAVNFWLDESFSFELS   64 (152)
T ss_dssp             CCCCSSSTTCTTS----------------------SCTTCEEEECGGGEEEEECSSGGGCSSSSEEEEEECSSCEEEEEE
T ss_pred             CCceecCCCcCCC----------------------CCCCceEeCCCCceeeEEeccCCCCCCCcEEEEEEeCCCCeeEEE
Confidence            4599999999995                      245799864   2322210 00122378888876432    4566


Q ss_pred             eeeeccccCCCeEEEEEecCcccCccccceEEEEee---CCcceeeEEEecccCCceeeeEE-EEeccceeeEEEEeCcc
Q 003457          700 QTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQA---GSLVQNFTVQSLGTGSVIKHSVT-FKAGSGSTPISFISYNI  775 (818)
Q Consensus       700 q~~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~-f~a~~~~~~~~f~~~~~  775 (818)
                      |+++   .|..+|+|++.+-.  ..+ +.  +-+.|   ++.....++.+.+-..|.+++.. |+.+....+|.|+.-+.
T Consensus        65 Qtvt---lp~gtYtlsa~v~~--~~~-~~--~yl~~~~~gg~~~~~~~~~~g~~~w~~~~i~~i~v~~G~~~Ig~~~~~~  136 (152)
T 2xom_A           65 QEVE---LPAGVYRVGFWTHG--EKG-VK--IALKVSDYGGNERSVEVETTGWLEWKNPEIRNIKVETGRIKITVSVEGR  136 (152)
T ss_dssp             EEEE---CCSEEEEEEEEEEE--STT-CE--EEEEEESSSSCCEEEEEECCEEEEEECCEEEEEEECSSEEEEEEEEEEC
T ss_pred             EEEE---eCCCeEEEEEEEEc--CCC-ce--EEEEEecCCCcEEEEEccCCCCCcccEEEEeEEEEeCCeEEEEEEEEcC
Confidence            9885   55558999999743  222 22  44444   34444444433333457777665 88888899999987432


Q ss_pred             cccCCCCccccccceeeeeec
Q 003457          776 NQTKDGVFCGPLIDDVVLRAS  796 (818)
Q Consensus       776 ~~~~~~~~~gp~~d~v~~~~~  796 (818)
                      .   .   -+--||||.|...
T Consensus       137 ~---g---~W~~iDd~~L~~~  151 (152)
T 2xom_A          137 A---G---DWGFIDDFYLFRE  151 (152)
T ss_dssp             T---T---CEEEEEEEEEEEC
T ss_pred             C---C---CeEEEEEEEEEEc
Confidence            2   1   1357999998764

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.40  E-value=1.4e-06  Score=79.56  Aligned_cols=100  Identities=8%  Similarity=-0.140  Sum_probs=54.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHH
Q 003457          316 NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLA  393 (818)
Q Consensus       316 d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~  393 (818)
                      +...+..+...+...|++++|...|++..+.  .+.+...+..+..+|...|++++|++.|+++ ...| +...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            3445555555555666666666666555544  2334555555555555555555555555554 1222 3455555555


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          394 ACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      ++...|++++|+..|++++++.|+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHChh
Confidence            555555555555555555555554

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.38  E-value=1.1e-05  Score=75.71  Aligned_cols=129  Identities=12%  Similarity=-0.056  Sum_probs=101.0

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Q 003457          282 IATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVD  361 (818)
Q Consensus       282 ~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~  361 (818)
                      ...|..+...+...|++++|+..|++..+... .+...+..+..++...|++++|...+++..+.  .+.+...+..+..
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~   89 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHH
Confidence            34677788888889999999999999887643 35777888888899999999999999998876  4556788888999


Q ss_pred             HHHHcCCHHHHHHHHHHcC-CCC-CHHHHHH--HHHHHHHcCCHHHHHHHHHHHHh
Q 003457          362 LLGRCGKVLEAEELIKRMV-WKP-DVVMWGA--LLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       362 ~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~--Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                      +|.+.|++++|.+.|+++. ..| +...+..  ++..+...|++++|++.+++..+
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            9999999999999998872 233 4455533  34447778999999998887654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.38  E-value=1e-06  Score=76.70  Aligned_cols=94  Identities=15%  Similarity=0.047  Sum_probs=74.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC--CcchHHHHHH
Q 003457          352 KIEHYGCMVDLLGRCGKVLEAEELIKRMV-WK-PDVVMWGALLAACKNHGNIEVAERVVKEIIALEPN--NHGVYVVLSN  427 (818)
Q Consensus       352 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~-pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~--~~~~y~~L~~  427 (818)
                      +...+..+...+.+.|++++|+..|+++. .. .+...+..+...+...|++++|++.++++++..|+  +...+..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            34556667777778888888888887762 22 35677788888888888888888888888888888  8888888888


Q ss_pred             HHHHh-hchHHHHHHHHHH
Q 003457          428 MYAEA-ESMKMQLEILLVQ  445 (818)
Q Consensus       428 ~l~~~-G~~~eA~~l~~~~  445 (818)
                      ++.+. |++++|++.++..
T Consensus        85 ~~~~~~~~~~~A~~~~~~~  103 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARA  103 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHH
Confidence            88888 8888888877666

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.38  E-value=6.3e-06  Score=75.04  Aligned_cols=95  Identities=17%  Similarity=0.051  Sum_probs=69.9

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 003457          351 PKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNM  428 (818)
Q Consensus       351 p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~  428 (818)
                      .+...+..+...+.+.|++++|+..|+++ ...| +...|..+...+...|++++|+..++++++++|+++..+..++.+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            45667777777777788888888777776 2233 466777777777777888888888888777777777777778888


Q ss_pred             HHHhhchHHHHHHHHHH
Q 003457          429 YAEAESMKMQLEILLVQ  445 (818)
Q Consensus       429 l~~~G~~~eA~~l~~~~  445 (818)
                      |...|++++|++.++..
T Consensus        87 ~~~~~~~~~A~~~~~~a  103 (137)
T 3q49_B           87 QLEMESYDEAIANLQRA  103 (137)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHH
Confidence            87888888777765544

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.37  E-value=1.1e-06  Score=78.79  Aligned_cols=95  Identities=13%  Similarity=0.109  Sum_probs=85.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 003457          352 KIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMY  429 (818)
Q Consensus       352 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l  429 (818)
                      +...+..+...+...|++++|++.|+++. ..| +...+..+...+...|++++|++.++++++..|++...+..++.++
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            45677888899999999999999999882 334 6888999999999999999999999999999999999999999999


Q ss_pred             HHhhchHHHHHHHHHHH
Q 003457          430 AEAESMKMQLEILLVQV  446 (818)
Q Consensus       430 ~~~G~~~eA~~l~~~~~  446 (818)
                      .+.|++++|.+.++...
T Consensus        91 ~~~~~~~~A~~~~~~~~  107 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKAL  107 (131)
T ss_dssp             HHTTCHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHH
Confidence            99999999999776664

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.36  E-value=2.8e-05  Score=82.55  Aligned_cols=145  Identities=12%  Similarity=-0.012  Sum_probs=71.5

Q ss_pred             HHHHHHHHHH---HHHcCChH-HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC----------hhHHHHHHHHHHHcC
Q 003457          181 LNVWTTMISG---YAQSFRAN-EALMLFDQMLMEGFEPNSVTLASVLSACAQSGC----------LELGEKVHVFVKMRG  246 (818)
Q Consensus       181 ~~~~~~Li~~---~~~~g~~~-~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~----------~~~A~~i~~~~~~~g  246 (818)
                      +..|..+...   ..+.|.++ +|++++.+++... +-+...|+.--.++...+.          ++++..+++.++...
T Consensus        26 i~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~  104 (331)
T 3dss_A           26 LKLYQSATQAVFQKRQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN  104 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC
Confidence            3445444432   33455554 7888888888763 3334444443333333222          345555555555543


Q ss_pred             CCCcHHHHHHHHHHHHhCC--CHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCC-HHHHHHHHHHHHHcCCCCCHHHH
Q 003457          247 FEMGAILGTALVHMYTKNG--ALAKAKALFDSMPE---RNIATWNAMISGLASHGH-AEEALDLFRKLEKEQIVPNDITF  320 (818)
Q Consensus       247 ~~~~~~~~~~Li~~~~~~g--~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~-~~~A~~l~~~m~~~g~~pd~~t~  320 (818)
                       +.+..+++.-..++.+.+  ++++++.+++++.+   +|..+|+.-.-.+...|. ++++++.+.++++..+. |...+
T Consensus       105 -PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW  182 (331)
T 3dss_A          105 -PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSW  182 (331)
T ss_dssp             -TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHH
T ss_pred             -CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHH
Confidence             344455554444444444  25555555555543   344455555444455554 35555555555554333 44444


Q ss_pred             HHHHHHHH
Q 003457          321 VGVLSACC  328 (818)
Q Consensus       321 ~~ll~a~~  328 (818)
                      +.....+.
T Consensus       183 ~~R~~ll~  190 (331)
T 3dss_A          183 HYRSCLLP  190 (331)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44433333

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.33  E-value=3.1e-05  Score=81.11  Aligned_cols=162  Identities=10%  Similarity=0.007  Sum_probs=79.4

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHHccCChHHHHHHHHHHHHcCCC---CC--HH
Q 003457           82 MWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQ-----HTFTFVLKACSNVRSLNCCKQIHTHVSKSGLD---LD--LH  151 (818)
Q Consensus        82 ~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~-----~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~---p~--~~  151 (818)
                      .+...+..+...|++++|++.+++..+.......     ..+..+...+...|++++|...+++.++....   +.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            3444555666666777776666665553221110     12223334445556666666666665543211   11  23


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHhhc-----CC-----HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC----CCC-CH
Q 003457          152 VVNCLVRCYSVSSDLNNARQVFDEIRN-----RT-----LNVWTTMISGYAQSFRANEALMLFDQMLMEG----FEP-NS  216 (818)
Q Consensus       152 ~~~~Li~~y~~~g~~~~A~~l~~~m~~-----~d-----~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g----~~p-d~  216 (818)
                      +++.+...|...|++++|...|++..+     ++     ..+++.+...|.+.|++++|+..+++.++..    ... -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            555555566666666666666655431     11     1345555555556666666665555554321    000 03


Q ss_pred             HHHHHHHHHHHhcCChhHH-HHHHHHHH
Q 003457          217 VTLASVLSACAQSGCLELG-EKVHVFVK  243 (818)
Q Consensus       217 ~t~~~ll~~~~~~g~~~~A-~~i~~~~~  243 (818)
                      .+|..+..++.+.|+.++| ...+++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            3444455555555555555 44444433

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.32  E-value=2.4e-06  Score=77.57  Aligned_cols=92  Identities=4%  Similarity=0.058  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc-------hHHH
Q 003457          354 EHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG-------VYVV  424 (818)
Q Consensus       354 ~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~-------~y~~  424 (818)
                      ..+..+...|.+.|++++|++.|+++ ...| +...|..+..+|.+.|++++|++.+++++++.|++..       +|..
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            45667888888999999999999887 3344 5788889999999999999999999999998887643       6777


Q ss_pred             HHHHHHHhhchHHHHHHHHHH
Q 003457          425 LSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       425 L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ++.++...|++++|++.++..
T Consensus        89 lg~~~~~~~~~~~A~~~~~ka  109 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRS  109 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH
Confidence            888888999999999977665

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.31  E-value=0.00011  Score=77.92  Aligned_cols=237  Identities=10%  Similarity=-0.018  Sum_probs=144.8

Q ss_pred             HhCCChH-HHHHHHHHhhcCC---HHHHHHHHHHHHHcCC----------hHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003457          161 SVSSDLN-NARQVFDEIRNRT---LNVWTTMISGYAQSFR----------ANEALMLFDQMLMEGFEPNSVTLASVLSAC  226 (818)
Q Consensus       161 ~~~g~~~-~A~~l~~~m~~~d---~~~~~~Li~~~~~~g~----------~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~  226 (818)
                      .+.|+++ +|+++++.+...+   ..+|+.--..+...+.          +++++.+++.++... +-+..+|..-..++
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL  118 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  118 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3556654 7899999888654   4467765555544433          678888999888775 55777888777777


Q ss_pred             HhcCC--hhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCC-HHHHHHHHhhCCC---CChhhHHHHHHHHHHc-----
Q 003457          227 AQSGC--LELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGA-LAKAKALFDSMPE---RNIATWNAMISGLASH-----  295 (818)
Q Consensus       227 ~~~g~--~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~-~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~-----  295 (818)
                      .+.++  ++++..+++.+.+.. +.+...++.-..++.+.|. ++++++.++++.+   .|..+|+.....+...     
T Consensus       119 ~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          119 SRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC-
T ss_pred             hccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhccc
Confidence            77774  789999999999886 6677777777777777787 6888888888775   5777888877666554     


Q ss_pred             ---------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHc
Q 003457          296 ---------GHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRC  366 (818)
Q Consensus       296 ---------g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~  366 (818)
                               +.++++++.+.+.+...+. |...++-+-..+.+.-.             .  -..+          -.+.
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~-------------~--~~~~----------~~~~  251 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSG-------------R--CELS----------VEKS  251 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSC-------------G--GGCC----------HHHH
T ss_pred             cccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccC-------------c--cccc----------hHHH
Confidence                     2355555555555554322 33444322222222100             0  0000          0011


Q ss_pred             CCHHHHHHHHHHc-CCCCC-HHHHHHHHHH---HHHcCCHHHHHHHHHHHHhcCCCCcchHHHH
Q 003457          367 GKVLEAEELIKRM-VWKPD-VVMWGALLAA---CKNHGNIEVAERVVKEIIALEPNNHGVYVVL  425 (818)
Q Consensus       367 g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a---~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L  425 (818)
                      +.++++++.++++ ...|| ...+..++..   ....+..++....+.++.+++|....-|..+
T Consensus       252 ~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~  315 (331)
T 3dss_A          252 TVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  315 (331)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHH
Confidence            3345666666555 23343 2222222211   1135677888889999999999844444443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.30  E-value=0.0006  Score=72.67  Aligned_cols=180  Identities=10%  Similarity=-0.022  Sum_probs=123.2

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 003457           83 WNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVR-SLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYS  161 (818)
Q Consensus        83 yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~  161 (818)
                      ++.+-....+.+..++|+++++++...+.. +...++.--..+...+ ++++++++++.+++..++ +..+|+.-..++.
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~  134 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLD  134 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHH
Confidence            333333344455567899999998886444 5556777777777777 588999999998887655 6677777666666


Q ss_pred             hC-C-ChHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 003457          162 VS-S-DLNNARQVFDEIRNR---TLNVWTTMISGYAQSFRAN--------EALMLFDQMLMEGFEPNSVTLASVLSACAQ  228 (818)
Q Consensus       162 ~~-g-~~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~--------~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~  228 (818)
                      +. + +.++++++++++.+.   |..+|+...-.+.+.+.++        ++++.++++++.. +-|...|+.....+.+
T Consensus       135 ~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~  213 (349)
T 3q7a_A          135 RISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVS  213 (349)
T ss_dssp             HHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTT
T ss_pred             HhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            65 6 788888888888765   4557776665655555565        8888888888875 4577777777777666


Q ss_pred             cCC-------hhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCC
Q 003457          229 SGC-------LELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGA  266 (818)
Q Consensus       229 ~g~-------~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~  266 (818)
                      .++       ++++.+.+.+++... +.|...++.+-..+.+.|+
T Consensus       214 l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          214 RPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             STTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             ccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            665       466667777766664 4555666655555555443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.29  E-value=1e-05  Score=74.42  Aligned_cols=112  Identities=13%  Similarity=-0.005  Sum_probs=82.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHH
Q 003457          316 NDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWG  389 (818)
Q Consensus       316 d~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~  389 (818)
                      +...+..+...+...|++++|...|++..+   ..|+    ...+..+...|.+.|++++|++.++++ ...| +...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHH
Confidence            345555666666666777777777666653   3444    566777777788888888888888776 2234 577888


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          390 ALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       390 ~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      .+..++...|++++|++.|++++++.|++...+..+..+..
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  144 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISG  144 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHh
Confidence            88888999999999999999999999998887777766543

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.28  E-value=5.9e-06  Score=74.95  Aligned_cols=102  Identities=10%  Similarity=0.038  Sum_probs=70.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CC----CC----HHHH
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WK----PD----VVMW  388 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~----pd----~~~~  388 (818)
                      ..+..++..+.+.|++++|+..|++.++.  .+.+...|..+..+|.+.|++++|++.|+++. ..    ++    ..+|
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            34556666777777777777777776664  34456667777777777777777777776652 11    11    2467


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchH
Q 003457          389 GALLAACKNHGNIEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       389 ~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                      ..+..++...|++++|++.|+++++..|+ ++..
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~~~~-~~~~  119 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSEFRD-PELV  119 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSCC-HHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCcC-HHHH
Confidence            77788888899999999999999988886 4443

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.27  E-value=3.3e-06  Score=88.26  Aligned_cols=191  Identities=11%  Similarity=-0.005  Sum_probs=119.6

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHH
Q 003457          215 NSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISG  291 (818)
Q Consensus       215 d~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~  291 (818)
                      +...+..+...+.+.|++++|...++++++.. +.+...+..+..+|.+.|++++|.+.+++..+   .+...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            34556666667777777777777777777764 44667777788888888888888888887765   356678888888


Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHH
Q 003457          292 LASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLE  371 (818)
Q Consensus       292 ~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~  371 (818)
                      |...|++++|+..|++..+..+. +...+...+....+   ..++.. +...... ..+.+......+...  ..|++++
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~---~~~~~~-~~~~~~~-~~~~~~~i~~~l~~l--~~~~~~~  153 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALR---IAKKKR-WNSIEER-RIHQESELHSYLTRL--IAAERER  153 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHH---HHHHHH-HHHHHHT-CCCCCCHHHHHHHHH--HHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHH---HHHHHH-HHHHHHH-HHhhhHHHHHHHHHH--HHHHHHH
Confidence            99999999999999887764211 00011111111111   111111 1222222 355555555555433  3789999


Q ss_pred             HHHHHHHc-CCCCCHH-HHHHHHHHHHHc-CCHHHHHHHHHHHHhc
Q 003457          372 AEELIKRM-VWKPDVV-MWGALLAACKNH-GNIEVAERVVKEIIAL  414 (818)
Q Consensus       372 A~~~~~~m-~~~pd~~-~~~~Li~a~~~~-g~~~~A~~~~~~~~~~  414 (818)
                      |++.++++ ...|+.. ....+...+.+. +.+++|.++|+++.+.
T Consensus       154 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          154 ELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            99999887 4556643 333443334444 6788999999888764

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.27  E-value=7.1e-06  Score=89.41  Aligned_cols=89  Identities=8%  Similarity=-0.024  Sum_probs=81.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 003457          352 KIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMY  429 (818)
Q Consensus       352 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l  429 (818)
                      +...|..+..+|.+.|++++|++.++++ ...| +...|..+..+|...|++++|++.|++++++.|++...+..+..++
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~  351 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  351 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            4578889999999999999999999998 4455 5889999999999999999999999999999999999999999999


Q ss_pred             HHhhchHHHHH
Q 003457          430 AEAESMKMQLE  440 (818)
Q Consensus       430 ~~~G~~~eA~~  440 (818)
                      .+.++.+++.+
T Consensus       352 ~~~~~~~~a~k  362 (370)
T 1ihg_A          352 QKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999987

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.27  E-value=7.7e-06  Score=79.86  Aligned_cols=149  Identities=12%  Similarity=-0.046  Sum_probs=84.5

Q ss_pred             hcCCCHHHHHH---HHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHccCCh
Q 003457           60 SSSGDLSYATR---LFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRT----GFAP-NQHTFTFVLKACSNVRSL  131 (818)
Q Consensus        60 ~k~g~~e~A~~---lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~----g~~p-d~~ty~~ll~~~~~~g~~  131 (818)
                      ...|++++|++   ++...+......+..+...+...|++++|+..|++..+.    +..+ ....+..+...+...|++
T Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ----CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             cccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            45788888888   554433345667777778888888888888888776652    1111 223566666667777777


Q ss_pred             HHHHHHHHHHHHc----CCCC--CHHHHHHHHHHHHhCCChHHHHHHHHHhhc-----CCH----HHHHHHHHHHHHcCC
Q 003457          132 NCCKQIHTHVSKS----GLDL--DLHVVNCLVRCYSVSSDLNNARQVFDEIRN-----RTL----NVWTTMISGYAQSFR  196 (818)
Q Consensus       132 ~~A~~~~~~m~~~----g~~p--~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~-----~d~----~~~~~Li~~~~~~g~  196 (818)
                      ++|.+.+++.++.    +..+  ....+..+...+...|++++|.+.+++..+     .+.    .++..+...+...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            7777777666543    1011  123455555666666666666666655432     111    123445555555555


Q ss_pred             hHHHHHHHHHHH
Q 003457          197 ANEALMLFDQML  208 (818)
Q Consensus       197 ~~~A~~l~~~m~  208 (818)
                      +++|.+.+++..
T Consensus       163 ~~~A~~~~~~al  174 (203)
T 3gw4_A          163 LLEAQQHWLRAR  174 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555555543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.27  E-value=1.7e-06  Score=81.96  Aligned_cols=121  Identities=12%  Similarity=-0.031  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC----------------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-
Q 003457          317 DITFVGVLSACCHAGFIDVGRQIFGSMKRVYG----------------IEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-  379 (818)
Q Consensus       317 ~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g----------------~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-  379 (818)
                      ...+......+.+.|++++|...|++.++...                .+.+...|..+..+|.+.|++++|+..++++ 
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            34566677788888888888888888765310                0112345666666666666666666666665 


Q ss_pred             CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc-chHHHHHHHHHHhhchHH
Q 003457          380 VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNH-GVYVVLSNMYAEAESMKM  437 (818)
Q Consensus       380 ~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~-~~y~~L~~~l~~~G~~~e  437 (818)
                      ...| +...|..+..+|...|++++|+..|+++++++|++. .....+..+..+.++.++
T Consensus        91 ~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~~~~~~~~~  150 (162)
T 3rkv_A           91 KREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVTERRAEKKA  150 (162)
T ss_dssp             HHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHTT
T ss_pred             hcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            2233 456666666666666666666666666666666665 444455555444444443

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.26  E-value=8e-06  Score=73.04  Aligned_cols=113  Identities=8%  Similarity=-0.004  Sum_probs=78.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-C----CCC----HHHHH
Q 003457          319 TFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-W----KPD----VVMWG  389 (818)
Q Consensus       319 t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~----~pd----~~~~~  389 (818)
                      .+..+...+...|++++|...++++.+.  .+.+...+..+...|...|++++|+..|+++. .    .++    ..++.
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            4455556666666777777776666654  34456666667777777777777777776652 1    122    66778


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          390 ALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       390 ~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      .+...+.+.|++++|.+.|+++++..|+ +.....+..++...++
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~  127 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEHRT-PDVLKKCQQAEKILKE  127 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCC-HHHHHHHHHHHHHHHH
Confidence            8888888999999999999999998884 7777777766665544

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.26  E-value=1.6e-05  Score=85.51  Aligned_cols=131  Identities=5%  Similarity=-0.066  Sum_probs=107.1

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Q 003457          281 NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPN--------------DITFVGVLSACCHAGFIDVGRQIFGSMKRV  346 (818)
Q Consensus       281 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd--------------~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~  346 (818)
                      +...|..+...|.+.|++++|+..|++.++......              ...+..+..+|.+.|++++|+..++++++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345777788888888999999999988887643322              478888899999999999999999999886


Q ss_pred             hCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHH-HHHHHHHHh
Q 003457          347 YGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVA-ERVVKEIIA  413 (818)
Q Consensus       347 ~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A-~~~~~~~~~  413 (818)
                        .+.+...+..+..+|...|++++|++.|+++ ...| +...+..+..++.+.|+.++| ...|++|++
T Consensus       226 --~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          226 --DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             --CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              4567889999999999999999999999988 3345 577888888889999999888 456777764

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.22  E-value=3.5e-06  Score=75.89  Aligned_cols=101  Identities=14%  Similarity=0.073  Sum_probs=60.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCH---HHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC----HHHHHHHHH
Q 003457          322 GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKI---EHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD----VVMWGALLA  393 (818)
Q Consensus       322 ~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~---~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd----~~~~~~Li~  393 (818)
                      .+...+...|++++|...|+++.+.  .+.+.   ..+..+..+|.+.|++++|++.|+++ ...|+    ...+..+..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLEL--YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHH--CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHH
Confidence            3455566667777777777776654  22222   45556666666677777776666665 22232    455566666


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCcchHHH
Q 003457          394 ACKNHGNIEVAERVVKEIIALEPNNHGVYVV  424 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~  424 (818)
                      ++...|++++|+..|+++++..|+++.....
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a  115 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQYPGSDAARVA  115 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTSHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCCChHHHHH
Confidence            6666677777777777666666665544433

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.19  E-value=5.3e-06  Score=78.49  Aligned_cols=87  Identities=15%  Similarity=0.079  Sum_probs=49.5

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHcC-C------------------CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 003457          357 GCMVDLLGRCGKVLEAEELIKRMV-W------------------KP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEP  416 (818)
Q Consensus       357 ~~Li~~~~~~g~~~~A~~~~~~m~-~------------------~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P  416 (818)
                      ......+.+.|++++|++.|+++. .                  .| +...|..+..+|.+.|++++|+..++++++++|
T Consensus        15 ~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p   94 (162)
T 3rkv_A           15 RQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKREE   94 (162)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCC
Confidence            334455556666666666665541 1                  11 124555555566666666666666666666666


Q ss_pred             CCcchHHHHHHHHHHhhchHHHHHHHH
Q 003457          417 NNHGVYVVLSNMYAEAESMKMQLEILL  443 (818)
Q Consensus       417 ~~~~~y~~L~~~l~~~G~~~eA~~l~~  443 (818)
                      +++.+|..++.+|...|++++|++.++
T Consensus        95 ~~~~a~~~~g~~~~~~g~~~~A~~~~~  121 (162)
T 3rkv_A           95 TNEKALFRRAKARIAAWKLDEAEEDLK  121 (162)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhcHHHHHHHHH
Confidence            666666666666666666666666443

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.18  E-value=5.7e-06  Score=81.16  Aligned_cols=152  Identities=7%  Similarity=-0.032  Sum_probs=99.8

Q ss_pred             HHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC---------------HHHHH
Q 003457          260 MYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPN---------------DITFV  321 (818)
Q Consensus       260 ~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd---------------~~t~~  321 (818)
                      .....++++++.+.++.-.+   .....+..+...+.+.|++++|+..|++..+....-.               ...+.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNL   92 (198)
T ss_dssp             ---------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHH
Confidence            34445556666555554332   2345677778888888999999999988887532211               26777


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcC
Q 003457          322 GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHG  399 (818)
Q Consensus       322 ~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g  399 (818)
                      .+..+|.+.|++++|+..++++++.  .+.+...+..+..+|...|++++|++.|+++ ...| +...+..+...+...+
T Consensus        93 ~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~  170 (198)
T 2fbn_A           93 NLATCYNKNKDYPKAIDHASKVLKI--DKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKLK  170 (198)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHH
Confidence            8888889999999999999998876  4557888888999999999999999999887 3344 5677777777777777


Q ss_pred             CHHHHH-HHHHHHHh
Q 003457          400 NIEVAE-RVVKEIIA  413 (818)
Q Consensus       400 ~~~~A~-~~~~~~~~  413 (818)
                      +.+++. ..+.+++.
T Consensus       171 ~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          171 EARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHHC-----------
T ss_pred             HHHHHHHHHHHHHhc
Confidence            777666 44555544

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.18  E-value=3.6e-05  Score=88.72  Aligned_cols=168  Identities=8%  Similarity=0.021  Sum_probs=131.2

Q ss_pred             HHHHHHHHhhCCC---CChhhHHHHHHHHHHcCC----------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC--
Q 003457          267 LAKAKALFDSMPE---RNIATWNAMISGLASHGH----------AEEALDLFRKLEKEQIVPNDITFVGVLSACCHAG--  331 (818)
Q Consensus       267 ~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~----------~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g--  331 (818)
                      .++|++.++++.+   .+..+|+.-..++...++          ++++++.++++.+..++ +..+|..-..++.+.+  
T Consensus        45 ~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~~  123 (567)
T 1dce_A           45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEP  123 (567)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSC
T ss_pred             CHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccc
Confidence            3566666666654   344567666666666666          88899999999887655 6777877777788888  


Q ss_pred             CHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHHc----------
Q 003457          332 FIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCG-KVLEAEELIKRMV-WKP-DVVMWGALLAACKNH----------  398 (818)
Q Consensus       332 ~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g-~~~~A~~~~~~m~-~~p-d~~~~~~Li~a~~~~----------  398 (818)
                      +++++++.++++.+.  .+.|..+|+.....+.+.| .++++++.++++. ..| |...|+.....+.+.          
T Consensus       124 ~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          124 NWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             cHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccc
Confidence            679999999999886  5667888888888888888 8899999988883 344 678888888777663          


Q ss_pred             ----CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHH
Q 003457          399 ----GNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKM  437 (818)
Q Consensus       399 ----g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~e  437 (818)
                          +.++++++.+++++.++|++..+|+.+..++.+.+++++
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                567999999999999999999999999988888887554

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.18  E-value=1.1e-06  Score=78.45  Aligned_cols=80  Identities=16%  Similarity=0.140  Sum_probs=53.7

Q ss_pred             cCCHHHHHHHHHHcC-C---CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          366 CGKVLEAEELIKRMV-W---KP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       366 ~g~~~~A~~~~~~m~-~---~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      .|++++|++.|+++. .   .| +...+..+...|...|++++|++.|++++++.|+++..+..++.+|.+.|++++|++
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            466677777777662 2   13 245667777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHH
Q 003457          441 ILLVQ  445 (818)
Q Consensus       441 l~~~~  445 (818)
                      .++..
T Consensus        83 ~~~~a   87 (117)
T 3k9i_A           83 LLLKI   87 (117)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55544

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.17  E-value=3.5e-05  Score=88.78  Aligned_cols=165  Identities=13%  Similarity=0.046  Sum_probs=138.8

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Q 003457          295 HGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGF----------IDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLG  364 (818)
Q Consensus       295 ~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~----------~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~  364 (818)
                      ....++|++.++++++..+. +...|+.-..++.+.++          ++++++.++++.+.  .+.+..+|+.-...+.
T Consensus        42 ~~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~  118 (567)
T 1dce_A           42 GELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLS  118 (567)
T ss_dssp             TCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            34567889999999987544 55667766666777776          99999999999986  6678899999888899


Q ss_pred             HcC--CHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHh-------
Q 003457          365 RCG--KVLEAEELIKRMV--WKPDVVMWGALLAACKNHG-NIEVAERVVKEIIALEPNNHGVYVVLSNMYAEA-------  432 (818)
Q Consensus       365 ~~g--~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g-~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~-------  432 (818)
                      +.+  +++++++.++++.  ...|..+|+.-...+.+.| .++++++.++++++.+|.+..+|+..+.++.+.       
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             HcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccc
Confidence            999  7799999999992  3347889999888888999 899999999999999999999999999999885       


Q ss_pred             -------hchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeeecCC
Q 003457          433 -------ESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGN  484 (818)
Q Consensus       433 -------G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l~~~  484 (818)
                             +++++|++.++..+                      +++|++.++|..+..+
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai----------------------~~~P~~~saW~y~~~l  235 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAF----------------------FTDPNDQSAWFYHRWL  235 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHH----------------------HHCSSCSHHHHHHHHH
T ss_pred             ccccccHHHHHHHHHHHHHHH----------------------hhCCCCccHHHHHHHH
Confidence                   78899999665553                      7899999998887665

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.16  E-value=3.2e-05  Score=69.33  Aligned_cols=86  Identities=16%  Similarity=0.097  Sum_probs=43.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHcC-CCCC-H---HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC---cchHHHHHHHHH
Q 003457          359 MVDLLGRCGKVLEAEELIKRMV-WKPD-V---VMWGALLAACKNHGNIEVAERVVKEIIALEPNN---HGVYVVLSNMYA  430 (818)
Q Consensus       359 Li~~~~~~g~~~~A~~~~~~m~-~~pd-~---~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~---~~~y~~L~~~l~  430 (818)
                      +...+.+.|++++|++.|+++. ..|+ .   ..+..+..++.+.|++++|+..|+++++..|++   +.++..++.+|.
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~   87 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHH
Confidence            3344455555555555555541 1222 1   344445555555555555555555555555555   444555555555


Q ss_pred             HhhchHHHHHHHHH
Q 003457          431 EAESMKMQLEILLV  444 (818)
Q Consensus       431 ~~G~~~eA~~l~~~  444 (818)
                      +.|++++|.+.++.
T Consensus        88 ~~g~~~~A~~~~~~  101 (129)
T 2xev_A           88 GEGKNTEAQQTLQQ  101 (129)
T ss_dssp             HTTCHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHH
Confidence            55555555554433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.14  E-value=1.5e-05  Score=71.57  Aligned_cols=98  Identities=12%  Similarity=0.047  Sum_probs=70.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHH
Q 003457          320 FVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKN  397 (818)
Q Consensus       320 ~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~  397 (818)
                      +..+...+.+.|++++|...|+++++.  .+.+...|..+..++.+.|++++|++.|+++ ...| +...+..+..++.+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            344556677788888888888887765  4456777788888888888888888888877 3344 56778888888888


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCc
Q 003457          398 HGNIEVAERVVKEIIALEPNNH  419 (818)
Q Consensus       398 ~g~~~~A~~~~~~~~~~~P~~~  419 (818)
                      .|++++|+..++++++++|++.
T Consensus        98 ~g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHHC------
T ss_pred             cCCHHHHHHHHHHHHHhCcCCC
Confidence            8888888888888888888754

>1dyo_A Endo-1,4-beta-xylanase Y; carbohydrate-binding module, xylan-binding; 2.1A {Clostridium thermocellum} SCOP: b.18.1.7 PDB: 1h6y_A 1h6x_A

Probab=98.09  E-value=4.8e-05  Score=71.91  Aligned_cols=136  Identities=13%  Similarity=0.171  Sum_probs=80.2

Q ss_pred             CCCcccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEece--eeeecCCceeccCCCeeEEecCC----ccceee
Q 003457          628 NDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGT--VKYIDSKHFYVPKGNAAIEIVSV----SAGIQT  701 (818)
Q Consensus       628 ~~~l~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~--v~~i~~~~~~~~~g~~~~~l~~~----~~~~q~  701 (818)
                      ..|+|.|++||.|                       +-||+..|.  |+...+   .+..|.+++...+.    .+..|.
T Consensus         6 ~~~ii~n~~FE~g-----------------------~~gW~~~g~~~~~~~~~---~~~~G~~sl~vt~R~~~w~G~~~~   59 (160)
T 1dyo_A            6 DAGYYYHDTFEGS-----------------------VGQWTARGPAEVLLSGR---TAYKGSESLLVRNRTAAWNGAQRA   59 (160)
T ss_dssp             CSSEEEEECCSSC-----------------------CTTCEEETTCEEEEESS---CCSSSSCEEEEECCSSTTCEEEEE
T ss_pred             CCCeEEcCCcCCC-----------------------CCCEEeecceEEEEccc---cccCCcEEEEEECCccCCcCeeEe
Confidence            4599999999974                       236887653  432221   34589999998663    345577


Q ss_pred             ee-ccccCCCeEEEEEecCc-ccCccccceEEEEeeCCccee---eEE--EecccCCceeeeE-EEEeccc--eeeEEEE
Q 003457          702 AT-TMLTEGSAYNLDFTLGD-AKDACEGMFVVRVQAGSLVQN---FTV--QSLGTGSVIKHSV-TFKAGSG--STPISFI  771 (818)
Q Consensus       702 ~~-~~~~~g~~y~~tf~~~~-~~~~~~~~~~~~~~~~~~~~~---~~~--~~~~~~~~~~~~~-~f~a~~~--~~~~~f~  771 (818)
                      ++ ....||++|++++.+-- .+.. .+.-.+.+..-+..+.   ..+  .+..++.|..-+= .|+...+  ..+|-|+
T Consensus        60 ~t~~~l~~g~~Y~~Sa~V~~~~g~~-~~~v~~~l~~~~~~g~~~y~~i~~~~~~~~~W~~L~G~~ft~~~~~~~~~lyve  138 (160)
T 1dyo_A           60 LNPRTFVPGNTYCFSVVASFIEGAS-STTFCMKLQYVDGSGTQRYDTIDMKTVGPNQWVHLYNPQYRIPSDATDMYVYVE  138 (160)
T ss_dssp             ECTTTSCTTCEEEEEEEEECCSSSS-CEEEEEEEEEECTTSCEEEEEEEEEEECSSCCEEEEEEEEECCTTCEEEEEEEE
T ss_pred             cchhhccCCCEEEEEEEEEECCCCC-ceeEEEEEEEEcCCCCEEEEEEeeEEEcCCccEEEECcEEEeCCCCCEEEEEEE
Confidence            74 23789999999999731 1111 1122222222111111   122  2333677998875 7887655  4456666


Q ss_pred             eCcccccCCCCccccccceeeeeecc
Q 003457          772 SYNINQTKDGVFCGPLIDDVVLRASH  797 (818)
Q Consensus       772 ~~~~~~~~~~~~~gp~~d~v~~~~~~  797 (818)
                      ++....|-       .||||+|.+..
T Consensus       139 ~~~~~~d~-------yiDdv~i~~~g  157 (160)
T 1dyo_A          139 TADDTINF-------YIDEAIGAVAG  157 (160)
T ss_dssp             ESSCCCCE-------EEEEEEEEETT
T ss_pred             CCCCCccE-------EEEEEEEEeCc
Confidence            65322111       59999998643

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.09  E-value=2e-05  Score=68.18  Aligned_cols=99  Identities=13%  Similarity=-0.004  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC---CHHHHHHHHHH
Q 003457          319 TFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP---DVVMWGALLAA  394 (818)
Q Consensus       319 t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p---d~~~~~~Li~a  394 (818)
                      .+..+...+...|++++|...++++.+.  .+.+...+..+...|.+.|++++|++.|+++ ...|   +...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            4445556666666777777777666654  3445666667777777777777777777766 2223   46677777777


Q ss_pred             HHHc-CCHHHHHHHHHHHHhcCCCCc
Q 003457          395 CKNH-GNIEVAERVVKEIIALEPNNH  419 (818)
Q Consensus       395 ~~~~-g~~~~A~~~~~~~~~~~P~~~  419 (818)
                      +.+. |++++|++.++++++..|.++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            7788 888888888888888777643

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.08  E-value=4.8e-06  Score=89.63  Aligned_cols=144  Identities=13%  Similarity=-0.024  Sum_probs=80.5

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Q 003457          282 IATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVD  361 (818)
Q Consensus       282 ~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~  361 (818)
                      ...+..+...+.+.|++++|+..|++.++.  .|+...       +...++.+++...+   .        ...|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~--------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K--------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H--------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H--------HHHHHHHHH
Confidence            445677777788888888888888887765  343321       11222333332221   1        136788888


Q ss_pred             HHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH-HhhchHHH
Q 003457          362 LLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA-EAESMKMQ  438 (818)
Q Consensus       362 ~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~-~~G~~~eA  438 (818)
                      +|.+.|++++|++.|+++ ...| +...|..+..+|...|++++|+..|+++++++|++..++..|..+.. ..++.+++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            899999999999999887 2334 67888889999999999999999999999999999988888888844 44566666


Q ss_pred             HHHHHHH
Q 003457          439 LEILLVQ  445 (818)
Q Consensus       439 ~~l~~~~  445 (818)
                      .++++.+
T Consensus       319 ~~~~~~~  325 (338)
T 2if4_A          319 KEMYKGI  325 (338)
T ss_dssp             -------
T ss_pred             HHHHHHh
Confidence            6666655

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.08  E-value=1.9e-05  Score=87.32  Aligned_cols=160  Identities=8%  Similarity=-0.058  Sum_probs=106.5

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCCHH----HHHHHHHHHHHcCCHHHHHHHHHHHHHHh---CCCC-CHH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQI-VPNDI----TFVGVLSACCHAGFIDVGRQIFGSMKRVY---GIEP-KIE  354 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~-~pd~~----t~~~ll~a~~~~g~~~~A~~~~~~m~~~~---g~~p-~~~  354 (818)
                      ++..|+..|.+.|++++|.+++.++.+.-. .++..    ..+.+...+...|+++.+..+++......   +..+ -..
T Consensus        57 al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  136 (434)
T 4b4t_Q           57 SILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHS  136 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHH
Confidence            356677778888888888887777654211 11221    22233334445677888888877765431   1222 245


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHcC-------CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC---CC----c
Q 003457          355 HYGCMVDLLGRCGKVLEAEELIKRMV-------WKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEP---NN----H  419 (818)
Q Consensus       355 ~~~~Li~~~~~~g~~~~A~~~~~~m~-------~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P---~~----~  419 (818)
                      ++..|...|...|++++|..+++++.       .++. ...+..++..|...|++++|..++++++.+.+   +.    .
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  216 (434)
T 4b4t_Q          137 LSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVA  216 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHH
Confidence            77788888888999999888887761       1222 56778888888999999999999988877542   21    2


Q ss_pred             chHHHHHHHHHHhhchHHHHHHHH
Q 003457          420 GVYVVLSNMYAEAESMKMQLEILL  443 (818)
Q Consensus       420 ~~y~~L~~~l~~~G~~~eA~~l~~  443 (818)
                      ..+..++.++...|++++|.+.+.
T Consensus       217 ~~~~~~g~~~~~~~~y~~A~~~~~  240 (434)
T 4b4t_Q          217 ELDLMSGILHCEDKDYKTAFSYFF  240 (434)
T ss_dssp             HHHHHHHHHTTSSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHH
Confidence            456777788888889999888543

>3p6b_A Cellulose 1,4-beta-cellobiosidase; beta-sandwich, carbohydrate binding, sugar binding protein; 2.00A {Clostridium thermocellum}

Probab=98.07  E-value=1.7e-05  Score=77.75  Aligned_cols=87  Identities=18%  Similarity=0.232  Sum_probs=52.0

Q ss_pred             ee-eeccccCCCeEEEEEecCcccCccccceEEEEeeCCcce---eeEEE---ecc-c-CCceeeeEEEEecc---ceee
Q 003457          700 QT-ATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQ---NFTVQ---SLG-T-GSVIKHSVTFKAGS---GSTP  767 (818)
Q Consensus       700 q~-~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~---~~~-~-~~~~~~~~~f~a~~---~~~~  767 (818)
                      |. +.  .++|.+|+|+|.   |.-+  .+..+.|.++....   ..-.+   +.. + ..|++|++.|++..   +..|
T Consensus        95 q~gi~--L~~G~tY~lSFd---AkA~--~~r~i~v~i~~~~~~y~~Y~~~~~~~i~ltt~e~q~yt~~FT~~~~td~~~r  167 (205)
T 3p6b_A           95 HRGIT--LEQGHTYTVRFT---IWSD--KSCRVYAKIGQMGEPYTEYWNNNWNPFNLTPGQKLTVEQNFTMNYPTDDTCE  167 (205)
T ss_dssp             EEEEE--ECTTCEEEEEEE---EEES--SCEEEEEEEEESSTTCCEEESSTTCCEEEBTTEEEEEEEEEECCSCCEEEEE
T ss_pred             ECCEE--ecCCCEEEEEEE---EEeC--CCceEEEEEecCCCCcceeccCccceEEecCCCCEEEEEEEEeCCCCCCceE
Confidence            64 66  899999999999   4322  23455555543322   11101   232 4 48999999999963   5689


Q ss_pred             EEEEeCccccc-CCCCccccccceeeeeec
Q 003457          768 ISFISYNINQT-KDGVFCGPLIDDVVLRAS  796 (818)
Q Consensus       768 ~~f~~~~~~~~-~~~~~~gp~~d~v~~~~~  796 (818)
                      |.|.=-+..+. ....+   .||||+|...
T Consensus       168 l~F~lG~~~~~~~~~tv---~iDnVsL~~~  194 (205)
T 3p6b_A          168 FTFHLGGELAAGTPYYV---YLDDVSLYDP  194 (205)
T ss_dssp             EEEECCGGGCCSSSEEE---EEEEEEEECT
T ss_pred             EEEECCCCcccCCCCEE---EEEeEEEeCc
Confidence            99954221100 01111   4999999855

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.07  E-value=4.5e-05  Score=70.65  Aligned_cols=91  Identities=14%  Similarity=0.050  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHcC----CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC------Ccc
Q 003457          355 HYGCMVDLLGRCGKVLEAEELIKRMV----WKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEPN------NHG  420 (818)
Q Consensus       355 ~~~~Li~~~~~~g~~~~A~~~~~~m~----~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~------~~~  420 (818)
                      .+..+...|...|++++|++.++++.    ..++    ...+..+...+...|++++|++.+++++++.+.      ...
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            44555555666666666666665541    0111    345666677777788888888888777764321      245


Q ss_pred             hHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          421 VYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       421 ~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .+..++.++...|++++|.+.++..
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a  155 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKH  155 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6778888888888888888866554

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.07  E-value=6.9e-06  Score=92.32  Aligned_cols=129  Identities=8%  Similarity=0.017  Sum_probs=100.7

Q ss_pred             CHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCC----------------HHHHHHHHHH
Q 003457          332 FIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPD----------------VVMWGALLAA  394 (818)
Q Consensus       332 ~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd----------------~~~~~~Li~a  394 (818)
                      ++++|...|+...+.  .+.....+..+...|.+.|++++|+..|+++. ..|+                ...|..+..+
T Consensus       249 ~~~~A~~~~~~~~~~--~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~  326 (457)
T 1kt0_A          249 SFEKAKESWEMDTKE--KLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMC  326 (457)
T ss_dssp             EEECCCCGGGSCHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcccCcchhhcCHHH--HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHH
Confidence            444555555443332  11235678888999999999999999999883 2232                5889999999


Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCC
Q 003457          395 CKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNR  474 (818)
Q Consensus       395 ~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~  474 (818)
                      |.+.|++++|+..++++++++|++..+|..++.+|.+.|++++|++.++..+                      +++|++
T Consensus       327 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al----------------------~l~P~~  384 (457)
T 1kt0_A          327 YLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVL----------------------EVNPQN  384 (457)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH----------------------TTC---
T ss_pred             HHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHH----------------------HhCCCC
Confidence            9999999999999999999999999999999999999999999999777764                      888888


Q ss_pred             CcceeeecCC
Q 003457          475 STPFVLLNGN  484 (818)
Q Consensus       475 ~~~~v~l~~~  484 (818)
                      +.++..+..+
T Consensus       385 ~~a~~~l~~~  394 (457)
T 1kt0_A          385 KAARLQISMC  394 (457)
T ss_dssp             -CHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8877766544

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.06  E-value=2.7e-05  Score=72.92  Aligned_cols=109  Identities=14%  Similarity=0.048  Sum_probs=76.1

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhCCCC-----C-----HHHHHHHHHHHHHcCCHHHHHHHHHHc-CC-------C
Q 003457          321 VGVLSACCHAGFIDVGRQIFGSMKRVYGIEP-----K-----IEHYGCMVDLLGRCGKVLEAEELIKRM-VW-------K  382 (818)
Q Consensus       321 ~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p-----~-----~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~-------~  382 (818)
                      ......+.+.|++++|+..|++.++.....|     +     ...|..+..++.+.|++++|+..++++ ..       .
T Consensus        15 ~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~   94 (159)
T 2hr2_A           15 LSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN   94 (159)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCC
Confidence            3444455555666666666665554311100     1     227777777788888888877777766 24       7


Q ss_pred             CC-HHHH----HHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 003457          383 PD-VVMW----GALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMY  429 (818)
Q Consensus       383 pd-~~~~----~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l  429 (818)
                      |+ ...|    .....++...|++++|+..|++++++.|++...+..+..+-
T Consensus        95 pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~  146 (159)
T 2hr2_A           95 QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMM  146 (159)
T ss_dssp             STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHH
T ss_pred             CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHH
Confidence            76 5678    89999999999999999999999999999887776555443

>3k4z_A Glycoside hydrolase family 9; cellulase, CBHA, CBM4, IG-like, cellulosome, CBM, sugar binding protein; HET: CBI XGP; 2.11A {Clostridium thermocellum dsm 4150}

Probab=98.03  E-value=2.6e-05  Score=80.95  Aligned_cols=88  Identities=18%  Similarity=0.229  Sum_probs=53.0

Q ss_pred             ee-eeccccCCCeEEEEEecCcccCccccceEEEEeeCCcc---eeeEEE---ecc-c-CCceeeeEEEEecc---ceee
Q 003457          700 QT-ATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLV---QNFTVQ---SLG-T-GSVIKHSVTFKAGS---GSTP  767 (818)
Q Consensus       700 q~-~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~---~~~-~-~~~~~~~~~f~a~~---~~~~  767 (818)
                      |. +.  .++|.+|.|+|.   |.-+  .+..+.|.++...   ...--+   +.. + ..|++|++.|++..   +..+
T Consensus        74 q~gi~--L~~G~tY~lSF~---akAs--~~r~i~v~i~~~~~~y~~y~~~~~~~v~lt~~e~q~yt~~FT~~~~td~~~r  146 (289)
T 3k4z_A           74 HRGLT--LEQGHTYRVRLK---IWAD--ASCKVYIKIGQMGEPYAEYWNNKWSPYTLTAGKVLEIDETFVMDKPTDDTCE  146 (289)
T ss_dssp             EEEEE--ECTTCEEEEEEE---EEES--SCEEEEEEEEESSTTCCEEESTTTCCEEECTTCCEEEEEEEECCSCCEEEEE
T ss_pred             ECCEE--ecCCCEEEEEEE---EEeC--CCccEEEEEecCCCCceeeccCcceeEEecCCCCEEEEEEEEcCCCCCcceE
Confidence            65 66  899999999999   4322  2245566554322   111111   122 4 57999999999954   6689


Q ss_pred             EEEEeCccccc-CCCCccccccceeeeeecc
Q 003457          768 ISFISYNINQT-KDGVFCGPLIDDVVLRASH  797 (818)
Q Consensus       768 ~~f~~~~~~~~-~~~~~~gp~~d~v~~~~~~  797 (818)
                      |.|.=-+.... ..   .==.||||++....
T Consensus       147 l~F~lG~~~~~~~~---~tv~iDnVsL~~~~  174 (289)
T 3k4z_A          147 FTFHLGGELAATPP---YTVYLDDVSLYDPE  174 (289)
T ss_dssp             EEEECCGGGCCSSS---EEEEEEEEEEECTT
T ss_pred             EEEECCCcccCCCc---eEEEEEEEEEEecc
Confidence            99964221100 01   11149999998765

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.01  E-value=0.00019  Score=79.19  Aligned_cols=120  Identities=6%  Similarity=-0.072  Sum_probs=54.6

Q ss_pred             HcCCHHHHHHHHHHHHH----cCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHH
Q 003457          294 SHGHAEEALDLFRKLEK----EQIVPN-DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLG  364 (818)
Q Consensus       294 ~~g~~~~A~~l~~~m~~----~g~~pd-~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~  364 (818)
                      ..|++++|+.++++...    .+..+. ..++..+...+...|++++|..+++.+.....-..+    ...+..++..|.
T Consensus       107 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (434)
T 4b4t_Q          107 VPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYH  186 (434)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHH
Confidence            34455555555544432    111222 234444555555555555555555554433111111    334555555555


Q ss_pred             HcCCHHHHHHHHHHcC-----C-CC-C--HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 003457          365 RCGKVLEAEELIKRMV-----W-KP-D--VVMWGALLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       365 ~~g~~~~A~~~~~~m~-----~-~p-d--~~~~~~Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                      ..|++++|..++++..     . .| .  ...+..++..+...+++++|...|.++++
T Consensus       187 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          187 KLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            5555555555555441     1 11 0  12334444444555555555555555543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.01  E-value=2.9e-05  Score=71.99  Aligned_cols=133  Identities=9%  Similarity=-0.021  Sum_probs=87.3

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQIV-PN----DITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IE  354 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~-pd----~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~  354 (818)
                      ++..+...|...|++++|+..+++..+.... ++    ...+..+...+...|++++|...+++..+......+    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            4555666666777777777777665542111 11    135566667777777777777777776553211122    44


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHcC----CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 003457          355 HYGCMVDLLGRCGKVLEAEELIKRMV----WKPD----VVMWGALLAACKNHGNIEVAERVVKEIIALEP  416 (818)
Q Consensus       355 ~~~~Li~~~~~~g~~~~A~~~~~~m~----~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P  416 (818)
                      .+..+...+...|++++|.+.+++..    ...+    ...+..+...+...|++++|.+.+++++++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  160 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  160 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH
Confidence            66677777888888888888887762    1112    45677788888899999999999998887543

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.01  E-value=2.3e-05  Score=69.94  Aligned_cols=94  Identities=11%  Similarity=0.043  Sum_probs=82.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC-------cchHH
Q 003457          353 IEHYGCMVDLLGRCGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNN-------HGVYV  423 (818)
Q Consensus       353 ~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~-------~~~y~  423 (818)
                      ...+..+...+...|++++|+..|+++.  ...+...+..+...+...|++++|+..++++++..|++       ...+.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            4567788889999999999999999882  23468889999999999999999999999999998876       78899


Q ss_pred             HHHHHHHHhhchHHHHHHHHHHH
Q 003457          424 VLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       424 ~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .++.++.+.|++++|.+.++...
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~  106 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSL  106 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHH
Confidence            99999999999999999776663

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.00  E-value=4.7e-06  Score=77.92  Aligned_cols=82  Identities=12%  Similarity=0.108  Sum_probs=61.3

Q ss_pred             HcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCC----------HHHHHHHHHHHHhcCCCCcchHHHHHHHHHHh
Q 003457          365 RCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGN----------IEVAERVVKEIIALEPNNHGVYVVLSNMYAEA  432 (818)
Q Consensus       365 ~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~----------~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~  432 (818)
                      +.+++++|++.+++. ...| +...|..+..++...++          +++|+..|+++++++|++..+|++++.+|...
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            444556666666555 2233 45556656655555544          67999999999999999999999999999987


Q ss_pred             h-----------chHHHHHHHHHHH
Q 003457          433 E-----------SMKMQLEILLVQV  446 (818)
Q Consensus       433 G-----------~~~eA~~l~~~~~  446 (818)
                      |           ++++|++.++..+
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl  118 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAV  118 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCcchhhhhccHHHHHHHHHHHH
Confidence            5           8999999877764

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.96  E-value=2.3e-05  Score=84.28  Aligned_cols=152  Identities=10%  Similarity=-0.014  Sum_probs=85.7

Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 003457          251 AILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHA  330 (818)
Q Consensus       251 ~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~  330 (818)
                      ...+..+...+.+.|++++|...|++..+.+....     .+...++.+++...+.          ...|..+..+|.+.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~-----~~~~~~~~~~~~~~l~----------~~~~~nla~~~~~~  243 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDF-----MFQLYGKYQDMALAVK----------NPCHLNIAACLIKL  243 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHH-----HHTCCHHHHHHHHHHH----------THHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccch-----hhhhcccHHHHHHHHH----------HHHHHHHHHHHHHc
Confidence            34567788899999999999999998764222111     1223344444443321          13677888999999


Q ss_pred             CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC-HHHHHHHHHH-HHHcCCHHHHHHH
Q 003457          331 GFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD-VVMWGALLAA-CKNHGNIEVAERV  407 (818)
Q Consensus       331 g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a-~~~~g~~~~A~~~  407 (818)
                      |++++|+..++++++.  .+.+...|..+..+|...|++++|++.|+++ ...|+ ...+..+... ....+..+++...
T Consensus       244 g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~  321 (338)
T 2if4_A          244 KRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKEM  321 (338)
T ss_dssp             TCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------------
T ss_pred             CCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999876  4557889999999999999999999999998 34564 4555555554 3456678899999


Q ss_pred             HHHHHhcCCCCc
Q 003457          408 VKEIIALEPNNH  419 (818)
Q Consensus       408 ~~~~~~~~P~~~  419 (818)
                      |+++++..|+++
T Consensus       322 ~~~~l~~~p~~~  333 (338)
T 2if4_A          322 YKGIFKGKDEGG  333 (338)
T ss_dssp             ------------
T ss_pred             HHHhhCCCCCCC
Confidence            999999998864

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.94  E-value=7.3e-06  Score=72.89  Aligned_cols=93  Identities=15%  Similarity=0.101  Sum_probs=66.0

Q ss_pred             cCCHHHHHHHHHHHHHHhC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHH
Q 003457          330 AGFIDVGRQIFGSMKRVYG--IEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAE  405 (818)
Q Consensus       330 ~g~~~~A~~~~~~m~~~~g--~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~  405 (818)
                      .|++++|+..|+++++. +  .+.+...+..+..+|.+.|++++|++.|+++ ...| +...+..+..++.+.|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            46677777777776642 1  1234567777888888888888888888877 2334 4777888888888999999999


Q ss_pred             HHHHHHHhcCCCCcchHH
Q 003457          406 RVVKEIIALEPNNHGVYV  423 (818)
Q Consensus       406 ~~~~~~~~~~P~~~~~y~  423 (818)
                      +.++++++..|+++....
T Consensus        82 ~~~~~al~~~p~~~~~~~   99 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQS   99 (117)
T ss_dssp             HHHHHHHHHHCCCHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHH
Confidence            999999998888766543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.93  E-value=2.4e-05  Score=68.03  Aligned_cols=89  Identities=13%  Similarity=0.073  Sum_probs=72.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC------cchHH
Q 003457          352 KIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNN------HGVYV  423 (818)
Q Consensus       352 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~------~~~y~  423 (818)
                      +...+..+...+.+.|++++|++.|+++ ...| +...+..+..++.+.|++++|++.+++++++.|++      ...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            4566778888888999999999999887 2334 67888999999999999999999999999999998      66777


Q ss_pred             HHHHHHHHhhchHHHHH
Q 003457          424 VLSNMYAEAESMKMQLE  440 (818)
Q Consensus       424 ~L~~~l~~~G~~~eA~~  440 (818)
                      .++.++...|++++|.+
T Consensus        83 ~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHhHhhhHh
Confidence            77777777777666544

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.92  E-value=1.2e-05  Score=87.63  Aligned_cols=110  Identities=8%  Similarity=0.015  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCC-CHHHHHHHHHHHH
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKP-DVVMWGALLAACK  396 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~p-d~~~~~~Li~a~~  396 (818)
                      ..+..+...+.+.|++++|+..|+++++..   ++.          ......+++.      ...| +...|..+..+|.
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~---~~~----------~~~~~~~~~~------~~~~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYV---EGS----------RAAAEDADGA------KLQPVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---HHH----------HHHSCHHHHG------GGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHh---hcC----------ccccChHHHH------HHHHHHHHHHHHHHHHHH
Confidence            445566666667777777777776665420   000          0000111111      1223 4678899999999


Q ss_pred             HcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          397 NHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       397 ~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      +.|++++|++.++++++++|++..+|..++.+|.+.|++++|++.++...
T Consensus       285 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al  334 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQ  334 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999776663

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.90  E-value=9.7e-06  Score=91.61  Aligned_cols=129  Identities=13%  Similarity=-0.027  Sum_probs=89.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHc
Q 003457          287 AMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRC  366 (818)
Q Consensus       287 ~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~  366 (818)
                      .+...+.+.|++++|++.|++..+.... +...+..+..+|.+.|++++|++.++++.+.  .+.+...+..+..+|.+.
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~   87 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMAL   87 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHc
Confidence            3444566778888888888888876322 5677888888888888888888888888764  445677888888888888


Q ss_pred             CCHHHHHHHHHHc-CCCC-CHHHHHHHHHH--HHHcCCHHHHHHHHH-----------HHHhcCCCC
Q 003457          367 GKVLEAEELIKRM-VWKP-DVVMWGALLAA--CKNHGNIEVAERVVK-----------EIIALEPNN  418 (818)
Q Consensus       367 g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a--~~~~g~~~~A~~~~~-----------~~~~~~P~~  418 (818)
                      |++++|++.|+++ ...| +...+..+..+  +.+.|++++|++.++           +++++.|+.
T Consensus        88 g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~al~~~~~~  154 (477)
T 1wao_1           88 GKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSVVDSLDIESMTIEDEY  154 (477)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------CCSTTTCCTTSSCCCCTTC
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccccchhHhhhhhhhccccccc
Confidence            8888888888877 2233 33444445444  777888888888888           666666653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.87  E-value=0.00022  Score=80.22  Aligned_cols=120  Identities=12%  Similarity=0.032  Sum_probs=95.8

Q ss_pred             HHHHcCCHHHHHHHHHHHHHHhC--CCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHcC---------CCCC-HHHHH
Q 003457          326 ACCHAGFIDVGRQIFGSMKRVYG--IEP----KIEHYGCMVDLLGRCGKVLEAEELIKRMV---------WKPD-VVMWG  389 (818)
Q Consensus       326 a~~~~g~~~~A~~~~~~m~~~~g--~~p----~~~~~~~Li~~~~~~g~~~~A~~~~~~m~---------~~pd-~~~~~  389 (818)
                      .+..+|++++|+.++++.++...  +.+    ...+++.|...|..+|++++|+.+++++.         ..|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            35578899999998888766421  112    25678899999999999999999888762         3344 56789


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh-----cCCCCc---chHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          390 ALLAACKNHGNIEVAERVVKEIIA-----LEPNNH---GVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       390 ~Li~a~~~~g~~~~A~~~~~~~~~-----~~P~~~---~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .|...|...|++++|+.+++++++     ++|+++   +....|..++...|++++|+.+++.+
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~  461 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKM  461 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999987     467765   45578889999999999999987766

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.84  E-value=8.2e-05  Score=61.93  Aligned_cols=81  Identities=21%  Similarity=0.234  Sum_probs=69.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          353 IEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       353 ~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      ...+..+...|.+.|++++|++.|+++ ...| +...+..+...+.+.|++++|++.++++++++|++...+..++.++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            566777888888999999999998887 2234 57788889999999999999999999999999999999999998887


Q ss_pred             Hhh
Q 003457          431 EAE  433 (818)
Q Consensus       431 ~~G  433 (818)
                      +.|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            654

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.67  E-value=5e-05  Score=65.93  Aligned_cols=63  Identities=10%  Similarity=0.018  Sum_probs=58.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          384 DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       384 d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      +...+..+...+...|++++|++.|++++++.|+++..+..++.+|.+.|++++|++.++..+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al   65 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGL   65 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            456788889999999999999999999999999999999999999999999999999776664

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.63  E-value=5.1e-05  Score=63.21  Aligned_cols=62  Identities=21%  Similarity=0.308  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          385 VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       385 ~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      ...+..+...+...|++++|+..++++++..|++...+..++.++.+.|++++|++.++...
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~   70 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL   70 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            56788888899999999999999999999999999999999999999999999999777664

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.63  E-value=0.00021  Score=61.44  Aligned_cols=62  Identities=19%  Similarity=0.284  Sum_probs=51.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          384 DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       384 d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +...+..+...|...|++++|++.|+++++++|+++.+|..++.+|.+.|++++|++.++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            56777888888888888888888888888888888888888888888888888888866555

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.58  E-value=0.00026  Score=62.20  Aligned_cols=65  Identities=12%  Similarity=0.063  Sum_probs=30.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 003457          352 KIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEP  416 (818)
Q Consensus       352 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P  416 (818)
                      +...+..+...|.+.|++++|++.|+++ ...| +...|..+..+|...|++++|+..|++++++.|
T Consensus        18 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~   84 (115)
T 2kat_A           18 NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAAAQ   84 (115)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            3444444555555555555555555444 1122 244444444445555555555555555554444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.58  E-value=0.00025  Score=62.34  Aligned_cols=75  Identities=9%  Similarity=0.080  Sum_probs=56.0

Q ss_pred             HHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          371 EAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       371 ~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +|++.|+++ ...| +...+..+...|...|++++|+..|+++++++|++...+..++.+|.+.|++++|.+.++..
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            455666655 3334 56777777878888888888888888888888888888888888888888888888866544

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.54  E-value=0.00014  Score=67.86  Aligned_cols=86  Identities=13%  Similarity=0.097  Sum_probs=52.3

Q ss_pred             CHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHc-
Q 003457          332 FIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGK----------VLEAEELIKRM-VWKP-DVVMWGALLAACKNH-  398 (818)
Q Consensus       332 ~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~----------~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~-  398 (818)
                      .+++|.+.+++..+.  -+.+...|..+..++.+.++          +++|+..|+++ .+.| +...|..+..+|... 
T Consensus        17 ~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg   94 (158)
T 1zu2_A           17 LFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhc
Confidence            344444444444443  23334444444444444433          34666666666 3344 356666677766655 


Q ss_pred             ----------CCHHHHHHHHHHHHhcCCCCc
Q 003457          399 ----------GNIEVAERVVKEIIALEPNNH  419 (818)
Q Consensus       399 ----------g~~~~A~~~~~~~~~~~P~~~  419 (818)
                                |++++|++.|+++++++|++.
T Consensus        95 ~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~  125 (158)
T 1zu2_A           95 FLTPDETEAKHNFDLATQFFQQAVDEQPDNT  125 (158)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             ccCcchhhhhccHHHHHHHHHHHHHhCCCCH
Confidence                      589999999999999999964

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.48  E-value=0.0012  Score=60.37  Aligned_cols=111  Identities=9%  Similarity=-0.116  Sum_probs=83.6

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH----cCCHHH
Q 003457          296 GHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR----CGKVLE  371 (818)
Q Consensus       296 g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~----~g~~~~  371 (818)
                      +++++|+++|++..+.| .|+..    |...|...+..++|.+.|++..+.    -+...+..|..+|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            46778888888888776 33333    666676777788888888887764    466777788888877    788888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhcC
Q 003457          372 AEELIKRMVWKPDVVMWGALLAACKN----HGNIEVAERVVKEIIALE  415 (818)
Q Consensus       372 A~~~~~~m~~~pd~~~~~~Li~a~~~----~g~~~~A~~~~~~~~~~~  415 (818)
                      |++.|++....-+...+..|...|..    .++.++|+++|+++.+.+
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            88888887544677777888888877    788888888888887764

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.37  E-value=0.00023  Score=60.48  Aligned_cols=78  Identities=14%  Similarity=0.127  Sum_probs=59.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHc-CCCC-CHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhch
Q 003457          359 MVDLLGRCGKVLEAEELIKRM-VWKP-DVV-MWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESM  435 (818)
Q Consensus       359 Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~-~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~  435 (818)
                      ....+.+.|++++|++.|+++ ...| +.. .+..+..+|...|++++|++.|+++++++|++...+..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            455677888888888888887 2344 466 88888888999999999999999999999998877633        556


Q ss_pred             HHHHHHHHH
Q 003457          436 KMQLEILLV  444 (818)
Q Consensus       436 ~eA~~l~~~  444 (818)
                      .+|+..++.
T Consensus        78 ~~a~~~~~~   86 (99)
T 2kc7_A           78 MDILNFYNK   86 (99)
T ss_dssp             HHHHHHHCC
T ss_pred             HHHHHHHHH
Confidence            666665543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.37  E-value=0.00026  Score=60.18  Aligned_cols=56  Identities=21%  Similarity=0.358  Sum_probs=51.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCcc-hHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          391 LLAACKNHGNIEVAERVVKEIIALEPNNHG-VYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       391 Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~-~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      ....+.+.|++++|++.|+++++.+|+++. .+..++.+|.+.|++++|++.++..+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al   62 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAI   62 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            456788999999999999999999999999 99999999999999999999777664

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.33  E-value=0.00076  Score=75.85  Aligned_cols=123  Identities=9%  Similarity=-0.097  Sum_probs=85.3

Q ss_pred             HHHHcCCHHHHHHHHHHHHHc---CCCC---C-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh--CCCC---C-HHHHH
Q 003457          291 GLASHGHAEEALDLFRKLEKE---QIVP---N-DITFVGVLSACCHAGFIDVGRQIFGSMKRVY--GIEP---K-IEHYG  357 (818)
Q Consensus       291 ~~~~~g~~~~A~~l~~~m~~~---g~~p---d-~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~--g~~p---~-~~~~~  357 (818)
                      .+..+|++++|+.++++.++.   -+-|   + ..+++.|..+|..+|++++|+.++++.++..  -+.+   + ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            355678888888888776542   1112   2 3567778888888888888888888765431  1122   2 45778


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHcC---------CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 003457          358 CMVDLLGRCGKVLEAEELIKRMV---------WKPD-VVMWGALLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       358 ~Li~~~~~~g~~~~A~~~~~~m~---------~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                      .|...|..+|++++|+.+++++.         ..|+ ..+...+..++...+.+++|+..|+++.+
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888889999999888888762         2233 23455666677788889999999988765

>2w5f_A Endo-1,4-beta-xylanase Y; cellulosome, glycosidase, xylan degradation, hydrolase; HET: XYP; 1.90A {Clostridium thermocellum} PDB: 2wze_A* 2wys_A*

Probab=97.29  E-value=0.0011  Score=75.52  Aligned_cols=132  Identities=14%  Similarity=0.280  Sum_probs=79.4

Q ss_pred             CCCcccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEece---eeeecCCceeccCCCeeEEecCC----cccee
Q 003457          628 NDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGT---VKYIDSKHFYVPKGNAAIEIVSV----SAGIQ  700 (818)
Q Consensus       628 ~~~l~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~---v~~i~~~~~~~~~g~~~~~l~~~----~~~~q  700 (818)
                      .++++.|++||.|                       +.||+..|.   +.-.. +  .+..|.+++...+.    .+..|
T Consensus        21 ~~~lv~n~~FE~g-----------------------~~gW~~~g~~~~~~~~~-~--~~~~G~~~l~vt~Rt~~w~g~~~   74 (540)
T 2w5f_A           21 ADYEVVHDTFEVN-----------------------FDGWCNLGVDTYLTAVE-N--EGNNGTRGMMVINRSSASDGAYS   74 (540)
T ss_dssp             CCEEEEEECCSSS-----------------------CTTEEEESTTCEEEEET-T--SSGGGSCEEEEECCCSTTCEEEE
T ss_pred             CcceEecCCCCCC-----------------------CCCeeecCCceEEEEec-C--CCCCCCeEEEEEccCCCCCCcee
Confidence            6799999999984                       347888652   23222 2  34688999988652    22234


Q ss_pred             eeeccccCCCeEEEEEecCcccCccccceEEEEeeC-----Cccee---eEEEecccCCceeeeEEEEecccee--eEEE
Q 003457          701 TATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAG-----SLVQN---FTVQSLGTGSVIKHSVTFKAGSGST--PISF  770 (818)
Q Consensus       701 ~~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~-----~~~~~---~~~~~~~~~~~~~~~~~f~a~~~~~--~~~f  770 (818)
                      .+...+++|++|++++-+=..+   .....+.+++-     .....   +.-.+.-+++|...+-.|+..++.+  +|.|
T Consensus        75 ~~~~~l~~G~~Y~fSawVk~~g---~~~~~v~l~l~~~d~~~~~~~~~~i~~~~~~~g~Wt~L~g~ft~p~~~~~~~lyv  151 (540)
T 2w5f_A           75 EKGFYLDGGVEYKYSVFVKHNG---TGTETFKLSVSYLDSETEEENKEVIATKDVVAGEWTEISAKYKAPKTAVNITLSI  151 (540)
T ss_dssp             ECTTTCCTTCEEEEEEEEECCS---SSEEEEEEEEEEEETTTCCEEEEEEEEEEEETTCCEEEEEEEECCTTEEEEEEEE
T ss_pred             eccceecCCCEEEEEEEEEeCC---CCCceEEEEEEEecCCCCCceEEEeeEEEEeCCeeEEEEeEEEecCCCeEEEEEE
Confidence            4433388999999999974211   22333555441     11111   2222333778999988998877555  4555


Q ss_pred             EeCcccccCCCCccccccceeeeeec
Q 003457          771 ISYNINQTKDGVFCGPLIDDVVLRAS  796 (818)
Q Consensus       771 ~~~~~~~~~~~~~~gp~~d~v~~~~~  796 (818)
                      +++  .   .   .-=.||+|+|...
T Consensus       152 e~~--~---~---~~f~vDdvsl~~~  169 (540)
T 2w5f_A          152 TTD--S---T---VDFIFDDVTITRK  169 (540)
T ss_dssp             EES--S---C---CCEEEEEEEEEEC
T ss_pred             EcC--C---C---CCEEEEEEEEecC
Confidence            542  1   1   1126999999753

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.19  E-value=0.0016  Score=55.16  Aligned_cols=64  Identities=9%  Similarity=0.103  Sum_probs=50.8

Q ss_pred             CCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          383 PDVVMWGALLAACKNHGN---IEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       383 pd~~~~~~Li~a~~~~g~---~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .|...+..+..++...++   .++|..+++++++++|+++.++..++..+.+.|++++|++.++.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l   70 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLL   70 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            456777777777765544   6888888888888888888888888888888888888888777764

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.18  E-value=0.0072  Score=55.16  Aligned_cols=109  Identities=13%  Similarity=0.012  Sum_probs=52.7

Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----CCChHHHH
Q 003457           95 NPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSV----SSDLNNAR  170 (818)
Q Consensus        95 ~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~----~g~~~~A~  170 (818)
                      ++++|++.|++..+.|. |+..    |...|...+..++|.+.+++..+.|   +...+..|..+|..    .++.++|.
T Consensus        10 d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            34555555555555441 2222    3344444445555555555555543   34444445555544    45555555


Q ss_pred             HHHHHhhcC-CHHHHHHHHHHHHH----cCChHHHHHHHHHHHHcC
Q 003457          171 QVFDEIRNR-TLNVWTTMISGYAQ----SFRANEALMLFDQMLMEG  211 (818)
Q Consensus       171 ~l~~~m~~~-d~~~~~~Li~~~~~----~g~~~~A~~l~~~m~~~g  211 (818)
                      +.|++..+. +..++..|...|..    .+++++|++.|++..+.|
T Consensus        82 ~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            555544432 34444455555544    445555555555554443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.11  E-value=0.0014  Score=56.15  Aligned_cols=68  Identities=10%  Similarity=-0.056  Sum_probs=52.4

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          350 EPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       350 ~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      +.+...+..+...|.+.|++++|++.|+++ ...| +...|..+..+|...|++++|++.|++++++.|+
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~   73 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVARE   73 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhc
Confidence            345677788888888888888888888877 2334 4677888888888888888888888888887654

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.06  E-value=0.014  Score=62.22  Aligned_cols=137  Identities=11%  Similarity=-0.047  Sum_probs=76.4

Q ss_pred             CChhhHHHHHHHH--HHc---CCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHH---cC--CHHHHH---HHHHHHHH
Q 003457          280 RNIATWNAMISGL--ASH---GHAEEALDLFRKLEKEQIVPN-DITFVGVLSACCH---AG--FIDVGR---QIFGSMKR  345 (818)
Q Consensus       280 ~d~~~~~~Li~~~--~~~---g~~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~---~g--~~~~A~---~~~~~m~~  345 (818)
                      .+..+|...+.+.  ...   ....+|+.+|++.++.  .|+ ...+..+..+|.-   .+  ......   +.++....
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            3566666666543  333   3357889999998886  344 3445444444331   00  001111   11111111


Q ss_pred             HhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 003457          346 VYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       346 ~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                      ....+.+..+|..+...+...|++++|++.++++ ...|+...|..+...+...|++++|.+.|++++.++|..
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~  343 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGA  343 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            1122445666666666666667777777777766 234666666666666677777777777777777777763

>2y6h_A Xylanase, CBM4-2; hydrolase; 1.08A {Rhodothermus marinus} PDB: 2y64_A* 2y6g_A 2y6l_A* 2y6j_A* 2y6k_A* 3jxs_A 1k42_A 1k45_A

Probab=97.05  E-value=0.056  Score=45.47  Aligned_cols=139  Identities=22%  Similarity=0.362  Sum_probs=82.0

Q ss_pred             cCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEe-ce-e------eeecCCceeccCCCeeEEe--cC---Cccce
Q 003457          633 LNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVI-GT-V------KYIDSKHFYVPKGNAAIEI--VS---VSAGI  699 (818)
Q Consensus       633 ~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~-~~-v------~~i~~~~~~~~~g~~~~~l--~~---~~~~~  699 (818)
                      .||+||+.|.       |+++.-     ....-||-.+ |. |      |.++.  --.|+|..-+-.  ++   +..-+
T Consensus         6 ing~festpa-------gvvtdl-----a~gvegw~lnvgs~vtnppvfev~e~--~dap~g~kvlavtvng~gnnp~~i   71 (167)
T 2y6h_A            6 INGGFESTPA-------GVVTDL-----AEGVEGWDLNVGSSVTNPPVFEVLET--SDAPEGNKVLAVTVNGVGNNPFNI   71 (167)
T ss_dssp             SSTTSTTSCS-------EECCCT-----TTSSTTEEEEECTTCSSCCEEEEEEC--TTCSSSSEEEEEECCCCCSSGGGE
T ss_pred             ccCccccCcc-------eeeeec-----ccccceeEeeccccccCCCeEEEEec--cCCCCCceEEEEEeccCCCCCcce
Confidence            6999999885       454432     2567899872 31 2      22221  246899876554  22   33333


Q ss_pred             e--eeeccccCCCeEEEEEecCcccCcccc-ceEEEEeeCCcc----eeeEEEecccCCceeeeEEEEeccceeeEE--E
Q 003457          700 Q--TATTMLTEGSAYNLDFTLGDAKDACEG-MFVVRVQAGSLV----QNFTVQSLGTGSVIKHSVTFKAGSGSTPIS--F  770 (818)
Q Consensus       700 q--~~~~~~~~g~~y~~tf~~~~~~~~~~~-~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~f~a~~~~~~~~--f  770 (818)
                      |  .|...+.||-+|+-|-.   |.  ..| -.++...||.++    +.++.|.. +..|+.|.|.|+-....|-|.  +
T Consensus        72 ~ata~pvnv~pgvtytyti~---ar--aeqdgavvsftvgnqs~~eygrlh~qqi-ttewqp~tfeftvsdqetvirapi  145 (167)
T 2y6h_A           72 QATALPVNVRPGVTYTYTIR---AR--AEQDGAVVSFTVGNQSFDEYGRLHHQQI-TTEWQPFTFEFTVSDQETVIRAPI  145 (167)
T ss_dssp             EEEEEEEECCTTCEEEEEEE---EE--ESSSCEEEEEEEECTTSCEEEEEEEEEE-CSSCEEEEEEEECCSSCSEEEEEE
T ss_pred             eeeeeeeeccCCceEEEEEE---Ee--eccCCcEEEEEecCccHHHhhhhhhhhe-eecccceEEEEEeccceeEEEece
Confidence            3  34444899999998887   32  223 245667777765    34444332 667999999999887655432  2


Q ss_pred             EeCcccccCCCCccccccceeeeee
Q 003457          771 ISYNINQTKDGVFCGPLIDDVVLRA  795 (818)
Q Consensus       771 ~~~~~~~~~~~~~~gp~~d~v~~~~  795 (818)
                      | -||..+..   ---.||...|..
T Consensus       146 h-fgyaan~g---ntiyid~l~i~d  166 (167)
T 2y6h_A          146 H-FGYAANVG---NTIYIDGLAIVD  166 (167)
T ss_dssp             E-CCCGGGTT---CEEEEEEEEEEE
T ss_pred             e-eeeeccCC---CeEEEeEEEEEe
Confidence            2 24443322   223678777653

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.88  E-value=0.0056  Score=67.58  Aligned_cols=91  Identities=12%  Similarity=0.014  Sum_probs=56.7

Q ss_pred             cCCHHHHHHHHHHHHHHhC--CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHcC---------CCCC-HHHHHHHHH
Q 003457          330 AGFIDVGRQIFGSMKRVYG--IEPK----IEHYGCMVDLLGRCGKVLEAEELIKRMV---------WKPD-VVMWGALLA  393 (818)
Q Consensus       330 ~g~~~~A~~~~~~m~~~~g--~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m~---------~~pd-~~~~~~Li~  393 (818)
                      .|++++|+.++++.++...  +.|+    ..+++.|..+|..+|++++|+.+++++.         ..|+ ..+++.|..
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            4567777777766554311  1122    3566677777777777777777776651         2233 356777777


Q ss_pred             HHHHcCCHHHHHHHHHHHHh-----cCCCCcc
Q 003457          394 ACKNHGNIEVAERVVKEIIA-----LEPNNHG  420 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~-----~~P~~~~  420 (818)
                      .|...|++++|+.+++++++     .+|+++.
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~  422 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAIMEVAHGKDHPY  422 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHH
T ss_pred             HHHhccCHHHHHHHHHHHHHHHHHHcCCCChH
Confidence            77777777777777777765     3566543

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.83  E-value=0.0022  Score=70.91  Aligned_cols=82  Identities=15%  Similarity=0.086  Sum_probs=67.4

Q ss_pred             HcCCHHHHHHHHHHcC---------CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHh-----cCCCCc---chHHHHH
Q 003457          365 RCGKVLEAEELIKRMV---------WKPD-VVMWGALLAACKNHGNIEVAERVVKEIIA-----LEPNNH---GVYVVLS  426 (818)
Q Consensus       365 ~~g~~~~A~~~~~~m~---------~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~-----~~P~~~---~~y~~L~  426 (818)
                      ..|++++|+.++++..         ..|+ ..+++.|..+|...|++++|+.+++++++     .+|+++   ..|+.|+
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            4578999999988761         2233 46899999999999999999999999987     355554   5789999


Q ss_pred             HHHHHhhchHHHHHHHHHHH
Q 003457          427 NMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       427 ~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .+|..+|++++|+.+++...
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHH
Confidence            99999999999999776664

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.75  E-value=0.011  Score=65.12  Aligned_cols=99  Identities=10%  Similarity=-0.048  Sum_probs=65.7

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHHh--CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHcC---------CCCC-HHH
Q 003457          324 LSACCHAGFIDVGRQIFGSMKRVY--GIEPK----IEHYGCMVDLLGRCGKVLEAEELIKRMV---------WKPD-VVM  387 (818)
Q Consensus       324 l~a~~~~g~~~~A~~~~~~m~~~~--g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m~---------~~pd-~~~  387 (818)
                      +..+.+.|++++|+.++++..+..  -+.|+    ..+++.|+..|..+|++++|+.+++++.         ..|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            334556677777777777766431  11222    4567777777888888888877777651         2233 456


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh-----cCCCCcchH
Q 003457          388 WGALLAACKNHGNIEVAERVVKEIIA-----LEPNNHGVY  422 (818)
Q Consensus       388 ~~~Li~a~~~~g~~~~A~~~~~~~~~-----~~P~~~~~y  422 (818)
                      ++.|...|...|++++|+.+++++++     .+|+++.+-
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~  413 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIE  413 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHH
Confidence            77888888888888888888888776     467765433

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.72  E-value=0.007  Score=64.42  Aligned_cols=129  Identities=11%  Similarity=0.084  Sum_probs=88.9

Q ss_pred             CCCHHHHHHHHHHH--HHcC---CHHHHHHHHHHHHHHhCCCCC-HHHHHHHHHHHHH---cC-----C---HHHHHHHH
Q 003457          314 VPNDITFVGVLSAC--CHAG---FIDVGRQIFGSMKRVYGIEPK-IEHYGCMVDLLGR---CG-----K---VLEAEELI  376 (818)
Q Consensus       314 ~pd~~t~~~ll~a~--~~~g---~~~~A~~~~~~m~~~~g~~p~-~~~~~~Li~~~~~---~g-----~---~~~A~~~~  376 (818)
                      +.+...|...+++.  ...+   +..+|..+|+++++.   .|+ ...|..+..+|..   .+     .   ...+++..
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l---DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS---SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            44566666666543  3333   358899999999975   554 4555544444431   11     1   11222222


Q ss_pred             HHcC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          377 KRMV-WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       377 ~~m~-~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      ..+. ...+..+|..+...+...|++++|+..++++++++|+ ...|..++.++.-.|++++|.+.++...
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~G~~~eA~e~~~~Al  337 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WLNYVLLGKVYEMKGMNREAADAYLTAF  337 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            2222 2357888888888788889999999999999999986 7788899999999999999999665553

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.71  E-value=0.019  Score=68.64  Aligned_cols=45  Identities=18%  Similarity=0.215  Sum_probs=21.1

Q ss_pred             HhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 003457          161 SVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQM  207 (818)
Q Consensus       161 ~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m  207 (818)
                      ...|++++|.++.+.+  .+...|..|...+.+.++++.|++.|.++
T Consensus       663 l~~~~~~~A~~~~~~~--~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDE--SAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHTCHHHHHHHHTTC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHhh--CcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            3344444444443332  13344555555555555555555555544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.68  E-value=0.042  Score=65.68  Aligned_cols=47  Identities=19%  Similarity=0.227  Sum_probs=27.8

Q ss_pred             HHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHH
Q 003457          261 YTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLE  309 (818)
Q Consensus       261 ~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~  309 (818)
                      ..+.|+++.|.++.+.+.  +...|..+...+.+.++++.|+++|.++.
T Consensus       662 ~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             hhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            344566666666655442  34566666666666666666666666553

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.65  E-value=0.0097  Score=65.70  Aligned_cols=87  Identities=10%  Similarity=0.072  Sum_probs=70.9

Q ss_pred             HHHHHHcCCHHHHHHHHHHcC------CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHh-----cCCCC---cch
Q 003457          360 VDLLGRCGKVLEAEELIKRMV------WKPD----VVMWGALLAACKNHGNIEVAERVVKEIIA-----LEPNN---HGV  421 (818)
Q Consensus       360 i~~~~~~g~~~~A~~~~~~m~------~~pd----~~~~~~Li~a~~~~g~~~~A~~~~~~~~~-----~~P~~---~~~  421 (818)
                      +..+.++|++++|++++++..      ..|+    ..+++.|+.+|...|++++|+.+++++++     ..|++   ...
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            445678899999999998772      1232    46889999999999999999999999886     34555   457


Q ss_pred             HHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          422 YVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       422 y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      ++.|+.+|..+|++++|+.+++...
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            8899999999999999999776654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.33  E-value=0.0065  Score=56.00  Aligned_cols=89  Identities=15%  Similarity=-0.031  Sum_probs=66.6

Q ss_pred             CHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHcC-CC-C--CHHHHHHHHHHHHHcCCHHHH
Q 003457          332 FIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCG---KVLEAEELIKRMV-WK-P--DVVMWGALLAACKNHGNIEVA  404 (818)
Q Consensus       332 ~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g---~~~~A~~~~~~m~-~~-p--d~~~~~~Li~a~~~~g~~~~A  404 (818)
                      ....+++.|.+..+.  -+++..+...+..++.+.+   +.++++.+|++.. .. |  +...+..|.-+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~--~~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHT--TCCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHcc--CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHH
Confidence            456667777766553  3478888888888888888   5668888888772 22 4  356677777788999999999


Q ss_pred             HHHHHHHHhcCCCCcchH
Q 003457          405 ERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       405 ~~~~~~~~~~~P~~~~~y  422 (818)
                      +++++++++++|++..+.
T Consensus        91 ~~y~~~lL~ieP~n~QA~  108 (152)
T 1pc2_A           91 LKYVRGLLQTEPQNNQAK  108 (152)
T ss_dssp             HHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHhcCCCCHHHH
Confidence            999999999999855433

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.20  E-value=0.024  Score=48.70  Aligned_cols=75  Identities=15%  Similarity=0.128  Sum_probs=56.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHcC---------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchH
Q 003457          352 KIEHYGCMVDLLGRCGKVLEAEELIKRMV---------WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       352 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m~---------~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                      +..-+..|...+.+.|+++.|...|+.+.         ..+....+..|..++.+.|++++|+..+++++++.|++..+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~   83 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRAN   83 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHH
Confidence            34445566666667777777776666651         113467888999999999999999999999999999988877


Q ss_pred             HHHH
Q 003457          423 VVLS  426 (818)
Q Consensus       423 ~~L~  426 (818)
                      ..+.
T Consensus        84 ~n~~   87 (104)
T 2v5f_A           84 GNLK   87 (104)
T ss_dssp             HHHH
T ss_pred             hhHH
Confidence            6665

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.19  E-value=0.025  Score=52.10  Aligned_cols=63  Identities=6%  Similarity=-0.079  Sum_probs=42.2

Q ss_pred             CCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHhcC-C-CCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          383 PDVVMWGALLAACKNHG---NIEVAERVVKEIIALE-P-NNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       383 pd~~~~~~Li~a~~~~g---~~~~A~~~~~~~~~~~-P-~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ++..+...+..++.+.+   +.++++.++++.++.+ | ++.++++.|+-.+.+.|++++|.+.++..
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~l   97 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGL   97 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            56666666666666666   5557777777777766 5 44667777777777777777777765554

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.04  E-value=0.039  Score=56.35  Aligned_cols=77  Identities=14%  Similarity=0.121  Sum_probs=48.4

Q ss_pred             HHHHHHHHHHc-CCCCC---HHHHHHHHHHHHHc-----CCHHHHHHHHHHHHhcCCCC-cchHHHHHHHHHHh-hchHH
Q 003457          369 VLEAEELIKRM-VWKPD---VVMWGALLAACKNH-----GNIEVAERVVKEIIALEPNN-HGVYVVLSNMYAEA-ESMKM  437 (818)
Q Consensus       369 ~~~A~~~~~~m-~~~pd---~~~~~~Li~a~~~~-----g~~~~A~~~~~~~~~~~P~~-~~~y~~L~~~l~~~-G~~~e  437 (818)
                      ..+|...++++ ...|+   -..|..|...|.+.     |+.++|.+.|+++++++|+. ..++..+++.|++. |++++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            34555555555 24454   34666666666663     67777777777777777753 77777777777663 77777


Q ss_pred             HHHHHHHH
Q 003457          438 QLEILLVQ  445 (818)
Q Consensus       438 A~~l~~~~  445 (818)
                      |.+.++..
T Consensus       259 a~~~L~kA  266 (301)
T 3u64_A          259 FDEALDRA  266 (301)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77755444

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.91  E-value=0.014  Score=50.29  Aligned_cols=63  Identities=10%  Similarity=-0.067  Sum_probs=53.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-------CCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          384 DVVMWGALLAACKNHGNIEVAERVVKEIIALE-------PNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       384 d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~-------P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      +..-+..++..+.+.|+++.|...|+++++..       +....++..|+.+|.+.|++++|+.+++...
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al   73 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLL   73 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            44556678889999999999999999998853       3456789999999999999999999777664

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.85  E-value=0.00018  Score=77.74  Aligned_cols=365  Identities=9%  Similarity=0.029  Sum_probs=202.1

Q ss_pred             ChHHHHHHHHHhhhhcCCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003457           46 DHFAASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKAC  125 (818)
Q Consensus        46 d~~~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~  125 (818)
                      .+.+|+.|-..+  .+.+++.+|+.-|-+  ..|+..|..+|....+.|.+++-+..+...++..-  +...=+.|+-+|
T Consensus        53 ~p~VWs~LgkAq--L~~~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ay  126 (624)
T 3lvg_A           53 EPAVWSQLAKAQ--LQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFAL  126 (624)
T ss_dssp             CCCCSSSHHHHT--TTSSSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHH
T ss_pred             CccHHHHHHHHH--HccCchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHH
Confidence            455666666666  666777766665533  34555567777777777777777777665554422  223334566777


Q ss_pred             HccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhc------------------------CCH
Q 003457          126 SNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRN------------------------RTL  181 (818)
Q Consensus       126 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~------------------------~d~  181 (818)
                      ++.+++.+.++++.       .|+..-...+.+-|...|.++.|.-+|..+..                        .++
T Consensus       127 Ak~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~  199 (624)
T 3lvg_A          127 AKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANST  199 (624)
T ss_dssp             HTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSS
T ss_pred             HhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCCh
Confidence            77777655444321       23443344556666667777777666655432                        245


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 003457          182 NVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMY  261 (818)
Q Consensus       182 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~  261 (818)
                      .+|..+-.+|...+++..|.-.--.++   +.||  ....++..|...|.+++.+.+++...... .....+|+-|.-.|
T Consensus       200 ktWKeV~~ACvd~~EfrLAqicGLniI---vhad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILY  273 (624)
T 3lvg_A          200 RTWKEVCFACVDGKEFRLAQMCGLHIV---VHAD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILY  273 (624)
T ss_dssp             CSHHHHTHHHHHSCTTTTTTHHHHHHH---CCSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhCchHHHHHHHhcchhc---ccHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHH
Confidence            578888888888888877765544444   2222  23456667788888888888888877543 45778899999999


Q ss_pred             HhCCCHHHHHHHHhhCCC-----------CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 003457          262 TKNGALAKAKALFDSMPE-----------RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHA  330 (818)
Q Consensus       262 ~~~g~~~~A~~~f~~m~~-----------~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~  330 (818)
                      +|-. .++-.+.++..-.           .....|.-+.-.|.+-.+++.|...+   .++  .|+......+.....+.
T Consensus       274 sKY~-PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~ltM---i~h--~~~Aw~h~~Fkdii~KV  347 (624)
T 3lvg_A          274 SKFK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIITKV  347 (624)
T ss_dssp             HSSC-TTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHTT---TSC--HHHHCCGGGGTTTGGGC
T ss_pred             HhcC-HHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHHH---HhC--ChhhccHHHHHHHHHHc
Confidence            8863 4444444443322           24557888888888888888765432   111  00000001111112222


Q ss_pred             CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-------------CCCCCHHHHHHHHHHHHH
Q 003457          331 GFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-------------VWKPDVVMWGALLAACKN  397 (818)
Q Consensus       331 g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-------------~~~pd~~~~~~Li~a~~~  397 (818)
                      .+.+---+...-.++   ..|.  ..+-|+..+...=|..++.++|++.             ....+...-.++-..|..
T Consensus       348 aN~EiyYKAi~FYL~---e~P~--lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IE  422 (624)
T 3lvg_A          348 ANVELYYRAIQFYLE---FKPL--LLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFIT  422 (624)
T ss_dssp             SCSHHHHHHHHHHTT---SCCT--TSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHH---hChH--HHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            222211111111111   1222  2333444444444444455555444             223345555566666777


Q ss_pred             cCCHHHHHHHHH-----------HHHhcCCCCcchHHHHHHHHHHhhchHHHHHH
Q 003457          398 HGNIEVAERVVK-----------EIIALEPNNHGVYVVLSNMYAEAESMKMQLEI  441 (818)
Q Consensus       398 ~g~~~~A~~~~~-----------~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l  441 (818)
                      ..|++.-....+           +-++..+- .+....-+.+|.+.++|++++++
T Consensus       423 EEDy~~LR~SId~ydNFD~i~LA~rLEkHeL-~eFRrIAA~LYkkn~rw~qsi~l  476 (624)
T 3lvg_A          423 EEDYQALRTSIDAYDNFDNISLAQRLEKHEL-IEFRRIAAYLFKGNNRWKQSVEL  476 (624)
T ss_dssp             TTCCHHHHHTTSSCCCSCTTHHHHHHHTCSS-HHHHHHHHHHHHTTCHHHHHSSC
T ss_pred             hhhHHHHHHHHHHhccccHHHHHHHHhhCch-HHHHHHHHHHHHhcccHHHHHHH
Confidence            777664433211           11111221 44555666777888888888764

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.75  E-value=0.075  Score=44.64  Aligned_cols=76  Identities=9%  Similarity=-0.055  Sum_probs=57.4

Q ss_pred             CCCHHHHHHHHHHHHHcCC---HHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHH
Q 003457          350 EPKIEHYGCMVDLLGRCGK---VLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVV  424 (818)
Q Consensus       350 ~p~~~~~~~Li~~~~~~g~---~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~  424 (818)
                      +.|...+..+..++...++   .++|..+|+++ ...| +......+...+.+.|++++|+..|+++++.+|+ ..-...
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~-~~~~~~   81 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP-NLDRVT   81 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT-TCCHHH
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CccHHH
Confidence            4567777788887765555   68888888887 3445 5778888888889999999999999999999988 333333


Q ss_pred             HH
Q 003457          425 LS  426 (818)
Q Consensus       425 L~  426 (818)
                      +.
T Consensus        82 i~   83 (93)
T 3bee_A           82 II   83 (93)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=95.53  E-value=2.5  Score=48.40  Aligned_cols=113  Identities=11%  Similarity=-0.004  Sum_probs=52.7

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHH----HHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHH
Q 003457          297 HAEEALDLFRKLEKEQIVPNDITFVGVLS----ACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEA  372 (818)
Q Consensus       297 ~~~~A~~l~~~m~~~g~~pd~~t~~~ll~----a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A  372 (818)
                      +.+.|..+|....+.. ..+......+-.    .....+...++...+......   ..+.....-.+....+.|+++.|
T Consensus       229 d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             CHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHHH
Confidence            5666777776665432 123222222221    122223234444444443322   23333333333444456777777


Q ss_pred             HHHHHHcCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 003457          373 EELIKRMVWKP--DVVMWGALLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       373 ~~~~~~m~~~p--d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                      .+.|+.|...+  ...-..=+..++...|+.++|..+|+++.+
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            77777764322  121111133455566777777777766653

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.93  E-value=0.99  Score=42.47  Aligned_cols=129  Identities=12%  Similarity=0.077  Sum_probs=79.4

Q ss_pred             HHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 003457          158 RCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEK  237 (818)
Q Consensus       158 ~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~  237 (818)
                      ....++|+++.|.++.+++  .+...|..|.....+.|+++-|.+.|.+...         +..+.-.|...|+.++..+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            4456778888888877665  4566788888888888888888888877642         3344444555677776666


Q ss_pred             HHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 003457          238 VHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKL  308 (818)
Q Consensus       238 i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m  308 (818)
                      +-+.....| .     ++.....+...|+++++.++|.+..+-.....     .....|..+.|.++.+++
T Consensus        82 la~iA~~~g-~-----~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~~-----~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQTRE-D-----FGSMLLNTFYNNSTKERSSIFAEGGSLPLAYA-----VAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHTT-C-----HHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHH-----HHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHCc-c-----HHHHHHHHHHcCCHHHHHHHHHHCCChHHHHH-----HHHHcCcHHHHHHHHHHh
Confidence            665555554 1     23334455566777777777766654221111     112245566666666554

>2w47_A Lipolytic enzyme, G-D-S-L; hydrolase; HET: UNF; 1.40A {Clostridium thermocellum} PDB: 2w1w_A

Probab=94.75  E-value=0.24  Score=45.28  Aligned_cols=84  Identities=14%  Similarity=0.218  Sum_probs=50.5

Q ss_pred             ccCCCeEEEEEecCcccCccccceEEEEeeCCcc--eeeEEEecc-cCCceeee--EEEEeccceeeEEEEeCcccccCC
Q 003457          706 LTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLV--QNFTVQSLG-TGSVIKHS--VTFKAGSGSTPISFISYNINQTKD  780 (818)
Q Consensus       706 ~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~-~~~~~~~~--~~f~a~~~~~~~~f~~~~~~~~~~  780 (818)
                      +.....|.|+|..+.   .-.....+.++|.+..  +.+.|...+ =..|.+.+  +.++|-.+..+|.+  .+.    .
T Consensus        48 v~~aG~Y~l~~ryan---~~~~~~~~~l~VNG~~~~~~v~~p~Tg~w~~w~~~~~~v~L~aG~ntI~l~~--~~~----~  118 (144)
T 2w47_A           48 APSSGSYALIFRYAN---GTTANRPMRITVNGNIVKPSMDFVSTGAWTTWNEAGIVANLNQGNNVIRATA--IAS----D  118 (144)
T ss_dssp             ESSSEEEEEEEEEEC---CSSSCCCEEEEETTEEEEEEECCCCCSSTTCCEEEEEEEEECSEEEEEEEEE--CST----T
T ss_pred             CCCCcEEEEEEEEEC---CCCCCeEEEEEECCeEeeeEEEecCCCCCCeeEEEEEEEEECCCccEEEEEE--eCC----C
Confidence            444678999999543   2223456778887754  455554433 12355554  44444444444443  221    2


Q ss_pred             CCccccccceeeeeeccCccc
Q 003457          781 GVFCGPLIDDVVLRASHGFKL  801 (818)
Q Consensus       781 ~~~~gp~~d~v~~~~~~~~~~  801 (818)
                         +||-||.+.|.+.+..++
T Consensus       119 ---g~~niD~i~v~~~~~~~~  136 (144)
T 2w47_A          119 ---GGPNVDYLKVFSANAFQP  136 (144)
T ss_dssp             ---CCCEEEEEEEEECTTSCC
T ss_pred             ---CCEEEeEEEEEeCCCCCC
Confidence               789999999998776654

>2w3j_A Carbohydrate binding module; sugar-binding protein, family 35, uronic acid sugars; 1.70A {Uncultured bacterium}

Probab=94.75  E-value=0.13  Score=47.13  Aligned_cols=89  Identities=10%  Similarity=0.080  Sum_probs=52.6

Q ss_pred             ccCCCeEEEEEecCcccCccccceEEEEeeCCcc-eeeEEEecc-cCCceeeeEEEEeccceeeEEEEeCcccccCCCCc
Q 003457          706 LTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLV-QNFTVQSLG-TGSVIKHSVTFKAGSGSTPISFISYNINQTKDGVF  783 (818)
Q Consensus       706 ~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~~~~~~f~a~~~~~~~~f~~~~~~~~~~~~~  783 (818)
                      +.....|.|+|..+   +.-.....+.++|.+.. +.+.|...+ -..|.+.+....-....=+|.|.+.+.    .   
T Consensus        47 v~~aG~Y~l~~rya---ng~~~~r~~~l~VNG~~~~~v~~p~Tg~W~~w~t~~~~v~L~aG~ntI~l~~~~~----~---  116 (145)
T 2w3j_A           47 AASAKTYTAQIRFG---NGGTSARRATVVVNDSQIKTLDFPTNSNWTQWQTVNVDIPLKAGTNSIKLVAETA----D---  116 (145)
T ss_dssp             ESSCEEEEEEEEEE---CCSSSCCCEEEEETTEEEEEECCCCCSCTTSCEEEEEEEEECSEEEEEEEEECST----T---
T ss_pred             CCCCeEEEEEEEEE---CCCCCCeEEEEEECCeEeeEEEecCCCCCCeeEEEEEEEEECCCceEEEEEEecC----c---
Confidence            44578999999964   22234567788887754 455554333 122555544433333333455544322    2   


Q ss_pred             cccccceeeeeeccCccchhH
Q 003457          784 CGPLIDDVVLRASHGFKLQLR  804 (818)
Q Consensus       784 ~gp~~d~v~~~~~~~~~~~~~  804 (818)
                      +||-||.+.|.+.+.+.+...
T Consensus       117 g~~niD~i~v~~~~~~~~~~~  137 (145)
T 2w3j_A          117 GLANIDSIRVTGNGITPAACP  137 (145)
T ss_dssp             CCCEEEEEEECSTTEEECCCC
T ss_pred             CCEEEEEEEEEcCCCCCCCCc
Confidence            789999999987776555433

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.57  E-value=1.2  Score=41.92  Aligned_cols=102  Identities=14%  Similarity=0.166  Sum_probs=75.0

Q ss_pred             hcCCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHH
Q 003457           60 SSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHT  139 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~  139 (818)
                      ..+|+++.|.++.+.+  .+...|..|.....+.|+++-|.++|.+...         +..+.-.|...|+.+...++-+
T Consensus        16 L~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kla~   84 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKMQN   84 (177)
T ss_dssp             HHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHHHH
Confidence            5789999999998877  5678899999999999999999999987754         3445555666777777776666


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhc
Q 003457          140 HVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRN  178 (818)
Q Consensus       140 ~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~  178 (818)
                      .....|   +   ++.....+.-.|+++++.++|.+..+
T Consensus        85 iA~~~g---~---~n~af~~~l~lGdv~~~i~lL~~~~r  117 (177)
T 3mkq_B           85 IAQTRE---D---FGSMLLNTFYNNSTKERSSIFAEGGS  117 (177)
T ss_dssp             HHHHTT---C---HHHHHHHHHHHTCHHHHHHHHHHTTC
T ss_pred             HHHHCc---c---HHHHHHHHHHcCCHHHHHHHHHHCCC
Confidence            555544   1   24444556677888888888866543

>2wz8_A Cellulosome protein dockerin type I; sugar binding protein; 1.50A {Clostridium thermocellum}

Probab=94.42  E-value=0.4  Score=44.41  Aligned_cols=86  Identities=10%  Similarity=0.115  Sum_probs=50.8

Q ss_pred             ccCCCeEEEEEecCcccC-------ccccceEEEEeeCCcc-eeeEEEecc-cCCceeeeEEEEeccceeeEEEEeCccc
Q 003457          706 LTEGSAYNLDFTLGDAKD-------ACEGMFVVRVQAGSLV-QNFTVQSLG-TGSVIKHSVTFKAGSGSTPISFISYNIN  776 (818)
Q Consensus       706 ~~~g~~y~~tf~~~~~~~-------~~~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~~~~~~f~a~~~~~~~~f~~~~~~  776 (818)
                      +...-.|.|+|..+....       .......+.|+|.+.. +.+.|...+ -..|.+.++...-....=+|+|.+..  
T Consensus        56 ~~~aG~Y~l~irYang~~~~~~~y~~~~~~r~~~v~VNG~~~~~v~fp~Tg~W~~~~~~tv~V~L~aG~NtI~~~~~~--  133 (156)
T 2wz8_A           56 VPQAGTYRMVVQFANAEVFGQHSYNNNVVDRYCSISVNGGPEKGHYFFNTRGWNTYRTDIIDVYLNAGNNTIRFYNGT--  133 (156)
T ss_dssp             ESSCEEEEEEEEEECCCBC-------CBCCEEEEEEETTCCCEEEEECCCSSTTCCEEEEEEEEECSEEEEEEEECCS--
T ss_pred             cCCCcEEEEEEEEECCCcccccccCCccCcceEEEEECCceeeEEEeCCCCCCCcceEEEEEEEECCCceEEEEEecC--
Confidence            445789999998532211       0123678899997655 566664433 23455554444444444566676631  


Q ss_pred             ccCCCCccccccceeeeeecc
Q 003457          777 QTKDGVFCGPLIDDVVLRASH  797 (818)
Q Consensus       777 ~~~~~~~~gp~~d~v~~~~~~  797 (818)
                       ...   |+|-||.+.|.+..
T Consensus       134 -~~~---~~pdiD~i~v~~~~  150 (156)
T 2wz8_A          134 -SGS---YAPNIDKIAIAALE  150 (156)
T ss_dssp             -TTC---BCCEEEEEEEEC--
T ss_pred             -CCC---CCcEEEEEEEeccc
Confidence             123   99999999997654

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.40  E-value=0.47  Score=41.99  Aligned_cols=93  Identities=15%  Similarity=-0.039  Sum_probs=67.1

Q ss_pred             CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHH---HHHHHHHcCC-C-C--CHHHHHHHHHHHHHcCCHHH
Q 003457          331 GFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLE---AEELIKRMVW-K-P--DVVMWGALLAACKNHGNIEV  403 (818)
Q Consensus       331 g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~---A~~~~~~m~~-~-p--d~~~~~~Li~a~~~~g~~~~  403 (818)
                      ..+..+++.|...... + .++..+--.+..++.+..+..+   ++.+++.... . |  .......|.-++.+.|++++
T Consensus        15 ~~l~~~~~~y~~e~~~-~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHHH-S-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHH
Confidence            3445556666655543 2 3777777788888888877665   8888887732 2 3  24456667778999999999


Q ss_pred             HHHHHHHHHhcCCCCcchHHHH
Q 003457          404 AERVVKEIIALEPNNHGVYVVL  425 (818)
Q Consensus       404 A~~~~~~~~~~~P~~~~~y~~L  425 (818)
                      |++.++.++++.|++..+....
T Consensus        93 A~~~~~~lL~~eP~n~QA~~Lk  114 (126)
T 1nzn_A           93 ALKYVRGLLQTEPQNNQAKELE  114 (126)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHH
Confidence            9999999999999977665533

>3ecq_A Protein SPR0328, endo-alpha-N-acetylgalactosaminidase; distorted (beta/alpha)8 (TIM) barrel glycoside hydrolase DOM WALL; 2.90A {Streptococcus pneumoniae}

Probab=94.21  E-value=0.53  Score=56.43  Aligned_cols=119  Identities=15%  Similarity=0.220  Sum_probs=76.2

Q ss_pred             CCCCCcEEecee---eeecCCceeccCCCeeEEecCC---ccceeeeeccccCCCeEEEEEecCcccCccccceEEEEee
Q 003457          662 SALQQWSVIGTV---KYIDSKHFYVPKGNAAIEIVSV---SAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQA  735 (818)
Q Consensus       662 ~~~~~w~~~~~v---~~i~~~~~~~~~g~~~~~l~~~---~~~~q~~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~  735 (818)
                      ..+-+|+++|.+   +.+.+-     .+...++|.++   .+++|+++. .+||+.|++.=.+.   +.......+.|.+
T Consensus      1031 g~ld~W~~sG~~~~a~i~~s~-----~~n~~l~i~g~~~~~svsQ~lTg-L~pG~~Yav~v~Vd---n~s~akA~itV~~ 1101 (1531)
T 3ecq_A         1031 GTLKHWTISGDASKAEIVKSQ-----GANDMLRIQGNKEKVSLTQKLTG-LKPNTKYAVYVGVD---NRSNAKASITVNT 1101 (1531)
T ss_dssp             SCCTTSEEESCGGGEEEEECT-----TSCEEEEECSBSSCEEEEEECCS-CCTTCEEEEEEEEE---ECSSSCEEEEEEC
T ss_pred             CCCcccccccccceeEEEecc-----CCceeEEecCCCccceEEEEEcc-cCCCcEEEEEEEEc---cCCCceeEEEEec
Confidence            357899999875   444432     56788889773   467799997 99999999776642   2222345677777


Q ss_pred             CCcceeeEE-Ee-------------c-------ccCCceeeeEEEEeccc--eeeEEEEeCcccccCCCCccccccceee
Q 003457          736 GSLVQNFTV-QS-------------L-------GTGSVIKHSVTFKAGSG--STPISFISYNINQTKDGVFCGPLIDDVV  792 (818)
Q Consensus       736 ~~~~~~~~~-~~-------------~-------~~~~~~~~~~~f~a~~~--~~~~~f~~~~~~~~~~~~~~gp~~d~v~  792 (818)
                      |+...+--. ++             .       +++-+++-.+.|+|.++  .++|++.--..+ -+      -.+|||+
T Consensus      1102 G~k~~sn~t~~SiakNyV~a~~hnt~~~n~tv~~~syfQrm~V~FTap~d~~~vtLtLs~~aG~-~~------vyfDDvR 1174 (1531)
T 3ecq_A         1102 GEKEVTTYTNKSLALNYVKAYAHNTRRNNATVDDTSYFQNMYAFFTTGSDVSNVTLTLSREAGD-EA------TYFDEIR 1174 (1531)
T ss_dssp             SSCEEEEEESSCCCCCCBTTSTTCSSGGGCSBTTBCCCEEEEEEEECCSCCTTCEEEEEECSBS-SC------EEEEEEE
T ss_pred             CCEEEEeeeecccccceeeeeecccccccccccCCcEEEEEEEEEEcCCCCceeEEEEEecCCC-Cc------eEeeeEE
Confidence            764221101 11             0       01237778999999774  578888663322 11      2699999


Q ss_pred             eeec
Q 003457          793 LRAS  796 (818)
Q Consensus       793 ~~~~  796 (818)
                      |+.-
T Consensus      1175 IVe~ 1178 (1531)
T 3ecq_A         1175 TFEN 1178 (1531)
T ss_dssp             EEEC
T ss_pred             Eeec
Confidence            9854

>2zxq_A Endo-alpha-N-acetylgalactosaminidase; broken TIM barrel, glycosidase, hydrolase; 2.00A {Bifidobacterium longum}

Probab=93.85  E-value=0.3  Score=59.27  Aligned_cols=117  Identities=21%  Similarity=0.273  Sum_probs=77.7

Q ss_pred             CCCcEEece--eeeecCCceeccCCCeeEEecCCccceeeeeccccCCCeEEEEEecCcccCccccceEEEEeeCCcce-
Q 003457          664 LQQWSVIGT--VKYIDSKHFYVPKGNAAIEIVSVSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQ-  740 (818)
Q Consensus       664 ~~~w~~~~~--v~~i~~~~~~~~~g~~~~~l~~~~~~~q~~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~~~-  740 (818)
                      +-+|+++|.  ++.+++       |..-+++.+..+++|+++. .+||+.|++.-.   ..+.......+.|.+|+... 
T Consensus       799 ~~~W~~~g~~~~~~~~~-------~n~~l~~~g~~~vsQ~lt~-L~~G~~Y~~~v~---v~~~s~~~a~i~v~~g~~~~a  867 (1376)
T 2zxq_A          799 TDNWTVSGSGKAEVEGD-------NNAMLRLTGKVDVSQRLTD-LKAGQKYALYVG---VDNRSTGDASVTVTSGGKVLA  867 (1376)
T ss_dssp             HHTSEEESSSEEEEECS-------SSCEEEEESSEEEEEECCS-CCTTCEEEEEEE---EEECSSSCEEEEEEETTEEEE
T ss_pred             cccceecCcceEEEecc-------CCeEEeccCCceEEEEecC-CCCCCeEEEEEE---EecCCCCeeeEEEecCCEEEe
Confidence            559999874  565553       6667888888888999987 999999999776   33444445677888777433 


Q ss_pred             eeEE-Ee---cc---------------cCCceeeeEEEEecc-ceeeEEEEeCcccccCCCCccccccceeeeeecc
Q 003457          741 NFTV-QS---LG---------------TGSVIKHSVTFKAGS-GSTPISFISYNINQTKDGVFCGPLIDDVVLRASH  797 (818)
Q Consensus       741 ~~~~-~~---~~---------------~~~~~~~~~~f~a~~-~~~~~~f~~~~~~~~~~~~~~gp~~d~v~~~~~~  797 (818)
                      .-.+ ++   .|               ++-+++-.+.|+|.+ ..++|++.-....+-+      -.+|||+|+.-.
T Consensus       868 sn~t~~S~a~n~v~a~~h~~~~~t~~~~syfQrm~V~Fta~~~~~~tltls~~a~G~~~------~~fDDvRiv~~~  938 (1376)
T 2zxq_A          868 TNSTGKSIAKNYIKAYGHNTNSNTENGSSYFQNMYVFFTAPENGDATVTLSHKSTDGAH------TYFDDVRIVENQ  938 (1376)
T ss_dssp             EEEESSCCCCCCBTTSTTCTTSCSBTTBCCCEEEEEEEECCTTCCCEEEEEECSCCSCE------EEEEEEEEEECC
T ss_pred             eeeEecchhhcceecccccCcccccCCCceEEEEEEEEEcCCCCcEEEEEecccCCCCc------eEeeeEEEeecc
Confidence            1111 11   11               123777899999986 5788888664311111      169999998643

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=93.63  E-value=0.28  Score=50.10  Aligned_cols=83  Identities=8%  Similarity=0.104  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHHHHc-----CCHHHHHHHHHHc-CCCCC--HHHHHHHHHHHHH-cCC
Q 003457          333 IDVGRQIFGSMKRVYGIEPK---IEHYGCMVDLLGRC-----GKVLEAEELIKRM-VWKPD--VVMWGALLAACKN-HGN  400 (818)
Q Consensus       333 ~~~A~~~~~~m~~~~g~~p~---~~~~~~Li~~~~~~-----g~~~~A~~~~~~m-~~~pd--~~~~~~Li~a~~~-~g~  400 (818)
                      ...|+..+++.++   +.|+   ...|..|...|.+.     |+.++|.+.|+++ .+.|+  ..++......++. .|+
T Consensus       179 l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          179 VHAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             HHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            3455555555554   3555   45677777777773     7888888888777 34552  5666666776666 488


Q ss_pred             HHHHHHHHHHHHhcCCCC
Q 003457          401 IEVAERVVKEIIALEPNN  418 (818)
Q Consensus       401 ~~~A~~~~~~~~~~~P~~  418 (818)
                      .++|.+.++++++..|..
T Consensus       256 ~~~a~~~L~kAL~a~p~~  273 (301)
T 3u64_A          256 RAGFDEALDRALAIDPES  273 (301)
T ss_dssp             HHHHHHHHHHHHHCCGGG
T ss_pred             HHHHHHHHHHHHcCCCCC
Confidence            888888888888877763

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=93.47  E-value=0.11  Score=45.93  Aligned_cols=80  Identities=6%  Similarity=-0.085  Sum_probs=61.8

Q ss_pred             CCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHH---HHHHHHHHHhcC-C-CCcchHHHHHHHHHHhhchHHHH
Q 003457          367 GKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEV---AERVVKEIIALE-P-NNHGVYVVLSNMYAEAESMKMQL  439 (818)
Q Consensus       367 g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~---A~~~~~~~~~~~-P-~~~~~y~~L~~~l~~~G~~~eA~  439 (818)
                      .....+.+.|.+..  ..++..+--.+..++.+..+...   ++.+++..++.+ | ...++.+.|+-.+.+.|+|++|.
T Consensus        15 ~~l~~~~~~y~~e~~~~~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            33445555555441  24777777788888888886655   999999999877 6 56789999999999999999999


Q ss_pred             HHHHHHH
Q 003457          440 EILLVQV  446 (818)
Q Consensus       440 ~l~~~~~  446 (818)
                      +..+.++
T Consensus        95 ~~~~~lL  101 (126)
T 1nzn_A           95 KYVRGLL  101 (126)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9887774

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.24  E-value=2.4  Score=37.75  Aligned_cols=135  Identities=11%  Similarity=0.097  Sum_probs=96.6

Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHH
Q 003457          292 LASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLE  371 (818)
Q Consensus       292 ~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~  371 (818)
                      +.-.|..++..++..+....   .+..-||.++--....-+-+...+.++.+-+.+.              ...+|+...
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFD--------------is~C~NlKr   79 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFD--------------LDKCQNLKS   79 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSC--------------GGGCSCTHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcC--------------cHhhhcHHH
Confidence            34457888888888887764   3566677777666666666666666666544322              235666666


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          372 AEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       372 A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ....+-.+.  .+.......++.+..+|+.|.-.+++...+.-.|-+++.+.-++.+|.+.|+..+|.++++..
T Consensus        80 Vi~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~A  151 (172)
T 1wy6_A           80 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEA  151 (172)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            666666664  355666777888899999999999999876666666999999999999999999999977655

>2w87_A Esterase D, XYL-CBM35; plant cell WALL degradation, carbohydrate protein binding, xylan, CMB35, glucuronic acid, hydrolase; HET: GCU; 1.60A {Cellvibrio japonicus} PDB: 2w46_A

Probab=92.83  E-value=0.77  Score=41.59  Aligned_cols=78  Identities=10%  Similarity=0.069  Sum_probs=47.0

Q ss_pred             ccCCCeEEEEEecCcccCccccceEEEEeeCCcce---eeEEEecc-cCCceeee--EEEEeccceeeEEEEeCcccccC
Q 003457          706 LTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQ---NFTVQSLG-TGSVIKHS--VTFKAGSGSTPISFISYNINQTK  779 (818)
Q Consensus       706 ~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~-~~~~~~~~--~~f~a~~~~~~~~f~~~~~~~~~  779 (818)
                      +...-.|.|+|..+..   -.....+.++|.+...   .+.|...+ -..|.+.+  +..+|-.+..+|  .+.+.    
T Consensus        47 v~~aG~Y~l~~ryang---~~~~r~~~l~VNG~~~g~~~v~~p~Tg~W~~w~t~~~~v~L~aG~ntI~l--~~~~~----  117 (139)
T 2w87_A           47 ATSSGRRTLTIRYANG---GTANRNGSLVINGGSNGNYTVSLPTTGAWTTWQTATIDVDLVQGNNIVQL--SATTA----  117 (139)
T ss_dssp             ESSCEEEEEEEEEECC---SSSCCCEEEEETTTTTCEEEECCCCCSSTTCCEEEEEEEEECSEEEEEEE--EESST----
T ss_pred             CCCCcEEEEEEEEECC---CCCCceEEEEECCEEcceeEEEecCCCCCCccEEEEEEEEECCCceEEEE--EEcCC----
Confidence            4447899999996432   2234567888877653   66654443 22366553  444444444444  44321    


Q ss_pred             CCCccccccceeeeee
Q 003457          780 DGVFCGPLIDDVVLRA  795 (818)
Q Consensus       780 ~~~~~gp~~d~v~~~~  795 (818)
                      .   ++|-||.+.|.+
T Consensus       118 ~---g~~niD~i~v~~  130 (139)
T 2w87_A          118 E---GLPNIDSLSVVG  130 (139)
T ss_dssp             T---CCCEEEEEEEES
T ss_pred             C---CCEEEEEEEEec
Confidence            2   789999999975

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=92.62  E-value=0.51  Score=42.49  Aligned_cols=71  Identities=17%  Similarity=0.084  Sum_probs=45.1

Q ss_pred             CCCHHHHHHHHHHHHHcCCHH---HHHHHHHHc-CCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc
Q 003457          350 EPKIEHYGCMVDLLGRCGKVL---EAEELIKRM-VWKP--DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG  420 (818)
Q Consensus       350 ~p~~~~~~~Li~~~~~~g~~~---~A~~~~~~m-~~~p--d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~  420 (818)
                      .++..+--.+..++.+..+.+   +++.+++.. ...|  .......|.-++.+.|++++|+++.+.++++.|++..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~Q  112 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  112 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHH
Confidence            566666667777777766543   456666655 2223  2344455555677777777777777777777777543

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.23  E-value=12  Score=38.66  Aligned_cols=168  Identities=8%  Similarity=0.025  Sum_probs=99.4

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHH----HHHHHHcCCCCCHHHHHHHHHHHHh
Q 003457          153 VNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALML----FDQMLMEGFEPNSVTLASVLSACAQ  228 (818)
Q Consensus       153 ~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l----~~~m~~~g~~pd~~t~~~ll~~~~~  228 (818)
                      |.++..=|.+.+++++|.+++..-           ...+.+.|+...|-++    ++.+.+.+++++......++..+..
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~g-----------a~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~  104 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQG-----------ALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAE  104 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            445555677778888888776543           2334455665554443    4445556778888777777776655


Q ss_pred             cCChh-HHHHHHHHHHH----cC--CCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHc---CCH
Q 003457          229 SGCLE-LGEKVHVFVKM----RG--FEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASH---GHA  298 (818)
Q Consensus       229 ~g~~~-~A~~i~~~~~~----~g--~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~---g~~  298 (818)
                      ...-+ .-.++.+++++    .|  ..-++..+..+...|.+.+++.+|+..|-.-...+...+..++.-+.+.   |..
T Consensus       105 ~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~~  184 (312)
T 2wpv_A          105 LDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIED  184 (312)
T ss_dssp             CCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCCH
T ss_pred             CCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCCc
Confidence            33211 22334444443    32  2246788889999999999999999887633333555555555444443   444


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Q 003457          299 EEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRV  346 (818)
Q Consensus       299 ~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~  346 (818)
                      .++--.+              -..++ -|...++...|..+++...+.
T Consensus       185 ~e~dlf~--------------~RaVL-~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          185 STVAEFF--------------SRLVF-NYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             HHHHHHH--------------HHHHH-HHHHTTBHHHHHHHHHHHHHH
T ss_pred             chHHHHH--------------HHHHH-HHHHhcCHHHHHHHHHHHHHH
Confidence            3322111              11222 345678888888888876654

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=91.81  E-value=6.7  Score=34.91  Aligned_cols=63  Identities=10%  Similarity=0.000  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCC
Q 003457          184 WTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGF  247 (818)
Q Consensus       184 ~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~  247 (818)
                      .+.-+.....+|+-|+-.+++..+... .+|+......+..+|.+.|+..++..++.++-+.|+
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            334455566667777777777664332 366666666777777777777777777777777664

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=91.69  E-value=0.67  Score=41.20  Aligned_cols=75  Identities=17%  Similarity=0.070  Sum_probs=47.7

Q ss_pred             CCCCHHHHHHHHHHHHHcCCH---HHHHHHHHHc-CCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchH
Q 003457          349 IEPKIEHYGCMVDLLGRCGKV---LEAEELIKRM-VWKP--DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       349 ~~p~~~~~~~Li~~~~~~g~~---~~A~~~~~~m-~~~p--d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                      -.|+..+--.+..++.+..+.   .+++.+++.. ...|  ....+..|.-++.+.|++++|+++.+.++++.|++..+.
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA~  115 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVG  115 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHHH
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHHH
Confidence            345666666677777776654   3566666655 2223  244555566677778888888888888888888765544


Q ss_pred             H
Q 003457          423 V  423 (818)
Q Consensus       423 ~  423 (818)
                      .
T Consensus       116 ~  116 (134)
T 3o48_A          116 A  116 (134)
T ss_dssp             H
T ss_pred             H
Confidence            3

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.55  E-value=0.43  Score=55.80  Aligned_cols=51  Identities=18%  Similarity=0.139  Sum_probs=46.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHH
Q 003457          392 LAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       392 i~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~  442 (818)
                      ..-|...|+++.|+++.+++....|.+-.+|..|+.+|.+.|+|+.|+-.+
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtL  394 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAI  394 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHH
Confidence            344678999999999999999999999999999999999999999998744

>2vzp_A Aocbm35, EXO-beta-D-glucosaminidase; family 35, CSXA, glucuronic acid, hydrolase; 1.05A {Amycolatopsis orientalis} PDB: 2vzq_A* 2vzr_A*

Probab=91.47  E-value=1.2  Score=39.45  Aligned_cols=96  Identities=15%  Similarity=0.200  Sum_probs=50.8

Q ss_pred             CCeeEEecC--CccceeeeeccccCCCeEEEEEecCcccCccccceEEEEeeCCcce--eeEEEecc-cCCceeeeEEEE
Q 003457          686 GNAAIEIVS--VSAGIQTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLVQ--NFTVQSLG-TGSVIKHSVTFK  760 (818)
Q Consensus       686 g~~~~~l~~--~~~~~q~~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~-~~~~~~~~~~f~  760 (818)
                      |...|.+.+  +..+.=++.  +...-.|.|+|..+..   -.....+.++|.+...  .+.|...+ =..|.+.+..+.
T Consensus        27 G~g~v~~~~~~g~~v~~~V~--v~~aG~Y~l~~rya~~---~~~~~~~~l~VnG~~~~~~v~~p~tg~W~~w~~~~~~v~  101 (127)
T 2vzp_A           27 GTGFVNYDNVAGSSVEWTVT--VPSAGTYDVVVRYANG---TTTSRPLDFSVNGSISASGVAFGSTGTWPAWTTKTVRVT  101 (127)
T ss_dssp             TTCEEEECSSTTCEEEEEEE--ESSSEEEEEEEEEECC---SSSCCCEEEEETTEEEEEEECCCCCSSTTCCEEEEEEEE
T ss_pred             cccEeeCCCCCCCEEEEEEE--cCCCCEEEEEEEEEcC---CCCCeEEEEEECCEEeeeEEEecCCCCCCceEEEEEEEE
Confidence            344556543  333333333  4447899999996432   2234567788877552  35553333 123555443343


Q ss_pred             eccceeeEEEEeCcccccCCCCccccccceeee
Q 003457          761 AGSGSTPISFISYNINQTKDGVFCGPLIDDVVL  793 (818)
Q Consensus       761 a~~~~~~~~f~~~~~~~~~~~~~~gp~~d~v~~  793 (818)
                      -....=+|.|.+...    .   ++|-||.+.|
T Consensus       102 L~aG~ntI~l~~~~~----~---~~~niD~i~v  127 (127)
T 2vzp_A          102 LAAGVNKIKAVATTA----N---GGPNVDKITL  127 (127)
T ss_dssp             ECSEEEEEEEEECST----T---CCCEEEEEEC
T ss_pred             ECCCceEEEEEEeCC----C---CCeEEEEEEC
Confidence            333333444444221    2   7899998865

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=90.42  E-value=16  Score=43.58  Aligned_cols=249  Identities=10%  Similarity=-0.017  Sum_probs=123.1

Q ss_pred             HHHHhCCChHHHHHHHHHhhc----CCHH--HHHHHHHHHHHcCChHHHHHHHHHHHHcCC-------CCCHHHHHHHHH
Q 003457          158 RCYSVSSDLNNARQVFDEIRN----RTLN--VWTTMISGYAQSFRANEALMLFDQMLMEGF-------EPNSVTLASVLS  224 (818)
Q Consensus       158 ~~y~~~g~~~~A~~l~~~m~~----~d~~--~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~-------~pd~~t~~~ll~  224 (818)
                      -+....|+.++++.+++....    .+..  .-..+.-+....|..+++++++...+...-       .+....-..+.-
T Consensus       382 LGlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGL  461 (963)
T 4ady_A          382 LGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGI  461 (963)
T ss_dssp             HHHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHH
T ss_pred             hhhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHH
Confidence            345667788888777776654    1222  222333445555555567777766554320       011112223333


Q ss_pred             HHHhcCC-hhHHHHHHHHHHHcCCCCcHH--HHHHHHHHHHhCCCHHHHHHHHhhCCC-CChh--hHHHHHHHHHHcCCH
Q 003457          225 ACAQSGC-LELGEKVHVFVKMRGFEMGAI--LGTALVHMYTKNGALAKAKALFDSMPE-RNIA--TWNAMISGLASHGHA  298 (818)
Q Consensus       225 ~~~~~g~-~~~A~~i~~~~~~~g~~~~~~--~~~~Li~~~~~~g~~~~A~~~f~~m~~-~d~~--~~~~Li~~~~~~g~~  298 (818)
                      ++.-.|. -+++...+..++... .....  ...+|...+.-.|+-+....++..+.+ .+..  -.-.+.-++...|+.
T Consensus       462 Gla~~GS~~eev~e~L~~~L~dd-~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          462 GLAAMGSANIEVYEALKEVLYND-SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HHHSTTCCCHHHHHHHHHHHHTC-CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCG
T ss_pred             HHHhcCCCCHHHHHHHHHHHhcC-CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCCh
Confidence            3333332 234455555555432 11111  122334445566666666666655432 1222  222333345566777


Q ss_pred             HHHHHHHHHHHHcCCCCCH-HHHH---HHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 003457          299 EEALDLFRKLEKEQIVPND-ITFV---GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEE  374 (818)
Q Consensus       299 ~~A~~l~~~m~~~g~~pd~-~t~~---~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~  374 (818)
                      +.+..+++.+...   .+. .-|.   .+.-+|+..|+.....+++..+...  ...++.....+.-++...|+.+.+.+
T Consensus       541 e~~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v~r  615 (963)
T 4ady_A          541 ELADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTVPR  615 (963)
T ss_dssp             GGGHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSHHH
T ss_pred             HHHHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHHHH
Confidence            7777777777653   232 2222   2344666777877777777776653  23333333333334445666666667


Q ss_pred             HHHHcCCCCCHHHHHH--HHHHHHHcCC-HHHHHHHHHHHH
Q 003457          375 LIKRMVWKPDVVMWGA--LLAACKNHGN-IEVAERVVKEII  412 (818)
Q Consensus       375 ~~~~m~~~pd~~~~~~--Li~a~~~~g~-~~~A~~~~~~~~  412 (818)
                      +++.+....|..+-..  +.-+....|+ ..+++..+.++.
T Consensus       616 lv~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          616 IVQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             HTTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            7665533333333222  2223333433 256666776665

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=89.42  E-value=3.4  Score=37.56  Aligned_cols=55  Identities=7%  Similarity=0.042  Sum_probs=33.3

Q ss_pred             cCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc
Q 003457          366 CGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG  420 (818)
Q Consensus       366 ~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~  420 (818)
                      .++.++|.++|+.+.  .+.=...|.....--.++|+.+.|.+++.+++.+.|...+
T Consensus        73 i~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~  129 (161)
T 4h7y_A           73 IQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLE  129 (161)
T ss_dssp             HHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHH
T ss_pred             hcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHH
Confidence            356666666666551  1111555555555556777777777777777777776433

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.40  E-value=28  Score=37.99  Aligned_cols=96  Identities=13%  Similarity=0.138  Sum_probs=68.1

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-hCCCCC----H
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKE--QIVPN---DITFVGVLSACCHAGFIDVGRQIFGSMKRV-YGIEPK----I  353 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~--g~~pd---~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~-~g~~p~----~  353 (818)
                      ....|...|...|++.+|.+++.++...  +....   ...+...++.|...+++.+|..++.++... ....++    .
T Consensus       139 l~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~  218 (445)
T 4b4t_P          139 VTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKL  218 (445)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHH
Confidence            3456788889999999999999998642  22211   134556678899999999999999886532 112222    3


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHc
Q 003457          354 EHYGCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       354 ~~~~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                      ..+..++..+...+++.+|.+.|.++
T Consensus       219 ~~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          219 EYYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            45677788888899999998877665

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=89.17  E-value=15  Score=39.25  Aligned_cols=57  Identities=5%  Similarity=-0.038  Sum_probs=27.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHc
Q 003457          323 VLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       323 ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m  379 (818)
                      ++..|...|++.+|..++..+.+...-..|    ..++..-+++|...+++.++...+.++
T Consensus       105 L~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a  165 (394)
T 3txn_A          105 LIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSA  165 (394)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            445555555555555555555443211111    233444455555555555555555444

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=89.17  E-value=22  Score=36.61  Aligned_cols=131  Identities=8%  Similarity=-0.031  Sum_probs=72.0

Q ss_pred             HHHHHHHHhhhhcCCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHH----HHHHHHcCCCCCHHHHHHHHHH
Q 003457           49 AASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFL----YMNMRRTGFAPNQHTFTFVLKA  124 (818)
Q Consensus        49 ~~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~l----f~~m~~~g~~pd~~ty~~ll~~  124 (818)
                      .|..+..-|  .+++++++|++++..-           ...+.+.|+...|-++    .+-..+.+++++......++..
T Consensus        35 ~~Rtl~~Ry--~~~~~~~eAidlL~~g-----------a~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l  101 (312)
T 2wpv_A           35 TLRTIANRY--VRSKSYEHAIELISQG-----------ALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRL  101 (312)
T ss_dssp             HHHHHHHHH--HHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHH
T ss_pred             HHHHHHHHH--HHhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            344444445  6677777777766432           3344556776555554    4444556777787777777777


Q ss_pred             HHccCChH-HHHHHHHHHH----HcC--CCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHH
Q 003457          125 CSNVRSLN-CCKQIHTHVS----KSG--LDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYA  192 (818)
Q Consensus       125 ~~~~g~~~-~A~~~~~~m~----~~g--~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~  192 (818)
                      +.....-+ .-.++.+.++    +.|  ..-++.....+...|.+.+++.+|+..|-.-...+...+..++.-+.
T Consensus       102 ~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~  176 (312)
T 2wpv_A          102 IAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWL  176 (312)
T ss_dssp             HTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHH
Confidence            65532111 1223333333    222  12266677777788888888888777765222223444444443333

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=89.12  E-value=23  Score=36.77  Aligned_cols=167  Identities=11%  Similarity=0.040  Sum_probs=95.2

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHH----HHHHHHcCCCCCHHHHHHHHHHHHh
Q 003457          153 VNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALML----FDQMLMEGFEPNSVTLASVLSACAQ  228 (818)
Q Consensus       153 ~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l----~~~m~~~g~~pd~~t~~~ll~~~~~  228 (818)
                      |.++..=|.+.+++++|.+++..-           ...+.+.|+...|.++    ++-+.+.++++|......++..+..
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~  106 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRL  106 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            344555577888888888876543           2234455655544443    3445556777887777777776665


Q ss_pred             cCChh-HHHHHHHHHH----HcC--CCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHH
Q 003457          229 SGCLE-LGEKVHVFVK----MRG--FEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEA  301 (818)
Q Consensus       229 ~g~~~-~A~~i~~~~~----~~g--~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A  301 (818)
                      ...-+ .-..+.++++    +.|  ..-++.....+...|.+.+++.+|+..|-.-.++.+..+..++--+.+.+...++
T Consensus       107 ~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~e~  186 (336)
T 3lpz_A          107 FQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESHTA  186 (336)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGGGH
T ss_pred             CCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCccH
Confidence            44321 1223333333    223  2346778888899999999999998888432223335555554444433332211


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 003457          302 LDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKR  345 (818)
Q Consensus       302 ~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~  345 (818)
                                    +...-..++ -|...++...|..+++...+
T Consensus       187 --------------dlfiaRaVL-~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          187 --------------PLYCARAVL-PYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             --------------HHHHHHHHH-HHHHTTCHHHHHHHHHHHHH
T ss_pred             --------------HHHHHHHHH-HHHHhCCHHHHHHHHHHHHH
Confidence                          122222222 35566788888887766554

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.34  E-value=9.1  Score=41.92  Aligned_cols=93  Identities=13%  Similarity=0.060  Sum_probs=65.8

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHcC-----CCCC----HHH
Q 003457          321 VGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAEELIKRMV-----WKPD----VVM  387 (818)
Q Consensus       321 ~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m~-----~~pd----~~~  387 (818)
                      ..|...+...|++.+|..++..+.....-..+    ...+...++.|...+++.+|..+++++.     ..++    ...
T Consensus       141 ~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~  220 (445)
T 4b4t_P          141 KDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEY  220 (445)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHH
Confidence            35667888889999999988887654222222    4567777888888899999888888762     1222    245


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh
Q 003457          388 WGALLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       388 ~~~Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                      +...+..+.+.+++.+|-+.|.++.+
T Consensus       221 ~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          221 YNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            56666677788888888888777654

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=87.66  E-value=24  Score=43.65  Aligned_cols=128  Identities=7%  Similarity=-0.023  Sum_probs=70.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHcCC-CCCHHHHHHHHH
Q 003457          318 ITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPK---IEHYGCMVDLLGRCGKVLEAEELIKRMVW-KPDVVMWGALLA  393 (818)
Q Consensus       318 ~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~---~~~~~~Li~~~~~~g~~~~A~~~~~~m~~-~pd~~~~~~Li~  393 (818)
                      .-|..++..+.+.+.++.+.++-+..++..+..++   ...|..+.+.+...|++++|...+-.++. .--...+..|+.
T Consensus       900 ~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~~cLr~LV~  979 (1139)
T 4fhn_B          900 CYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKKSCLLDFVN  979 (1139)
T ss_dssp             HHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            34666677777777777777776666654111111   12566777777777777777777766531 123455666666


Q ss_pred             HHHHcCCHHHH------------HHHHH-HHHhc-CCCC-cchHHHHHHHHHHhhchHHHHH-HHHHH
Q 003457          394 ACKNHGNIEVA------------ERVVK-EIIAL-EPNN-HGVYVVLSNMYAEAESMKMQLE-ILLVQ  445 (818)
Q Consensus       394 a~~~~g~~~~A------------~~~~~-~~~~~-~P~~-~~~y~~L~~~l~~~G~~~eA~~-l~~~~  445 (818)
                      .++..|..+.-            .+++. ++... .+.+ +..|..|=..+...|++..|-. +++..
T Consensus       980 ~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~ 1047 (1139)
T 4fhn_B          980 QLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKL 1047 (1139)
T ss_dssp             HHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             HHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHH
Confidence            55555544333            33332 22222 2332 2334444445557777777777 44443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=87.32  E-value=3.7  Score=37.96  Aligned_cols=28  Identities=11%  Similarity=0.000  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHcC
Q 003457          353 IEHYGCMVDLLGRCGKVLEAEELIKRMV  380 (818)
Q Consensus       353 ~~~~~~Li~~~~~~g~~~~A~~~~~~m~  380 (818)
                      .+.-..+..+|.+.+++++|+.+++.++
T Consensus       122 ~Elkykia~C~~~l~~~~~Ai~~Le~Ip  149 (167)
T 3ffl_A          122 IEVKYKLAECYTVLKQDKDAIAILDGIP  149 (167)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHhcCC
Confidence            3444456667777777777777777764

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=86.89  E-value=58  Score=38.83  Aligned_cols=39  Identities=10%  Similarity=0.181  Sum_probs=24.2

Q ss_pred             HHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Q 003457           67 YATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRR  108 (818)
Q Consensus        67 ~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~  108 (818)
                      .+.++|.++..|+   |-.+++++.+.++.+.+.++|+++..
T Consensus       220 ~l~~Iy~k~~~~d---y~~a~~~ai~LnD~~li~~if~~l~~  258 (963)
T 4ady_A          220 KSFDFLMNMPNCD---YLTLNKVVVNLNDAGLALQLFKKLKE  258 (963)
T ss_dssp             HHHHHHHHSSSCC---HHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCchh---HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3555555554333   44556666677778888888877653

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=85.85  E-value=0.008  Score=65.22  Aligned_cols=238  Identities=11%  Similarity=0.077  Sum_probs=151.3

Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 003457          150 LHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQS  229 (818)
Q Consensus       150 ~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~  229 (818)
                      +.+|..|..++.+.+++.+|++.|  ++..|+..|..++.+..+.|.+++-++++...++..-.|...  +.|+-+|++.
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsy--IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~ID--teLi~ayAk~  129 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSY--IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVE--TELIFALAKT  129 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSS--CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTT--HHHHHHHHTS
T ss_pred             ccHHHHHHHHHHccCchHHHHHHH--HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccH--HHHHHHHHhh
Confidence            346677777777777777777665  334566667777777778888888777776665543333333  4577777877


Q ss_pred             CChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC------------------------CChhhH
Q 003457          230 GCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE------------------------RNIATW  285 (818)
Q Consensus       230 g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~------------------------~d~~~~  285 (818)
                      +++.+.++++.       .|+..-...+.+-|...|.++.|.-+|..+..                        .++.+|
T Consensus       130 ~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktW  202 (624)
T 3lvg_A          130 NRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTW  202 (624)
T ss_dssp             CSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSH
T ss_pred             CcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHH
Confidence            77665433321       24443444566777777777777777766542                        366788


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 003457          286 NAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR  365 (818)
Q Consensus       286 ~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~  365 (818)
                      -.+-.+|...+.+.-|.-+--.++-.   ||  .+..++..|...|.+++-+.+++.-...  -....-.|+-|.-.|++
T Consensus       203 KeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglgl--ErAHmGmFTELaILYsK  275 (624)
T 3lvg_A          203 KEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSK  275 (624)
T ss_dssp             HHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS--TTCCHHHHHHHHHHHHS
T ss_pred             HHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC--CchhHHHHHHHHHHHHh
Confidence            88888888888887776655555432   11  1234566678888888888888775521  23456677777777776


Q ss_pred             cCCHHHHHHHHHHcCCC---C-------CHHHHHHHHHHHHHcCCHHHHHH
Q 003457          366 CGKVLEAEELIKRMVWK---P-------DVVMWGALLAACKNHGNIEVAER  406 (818)
Q Consensus       366 ~g~~~~A~~~~~~m~~~---p-------d~~~~~~Li~a~~~~g~~~~A~~  406 (818)
                      - ++++.++.++..-.+   |       ....|.-++..|.+-.++|.|..
T Consensus       276 Y-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          276 F-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             S-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             c-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            5 556666666544211   1       23456777777777777776643

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=85.28  E-value=11  Score=33.86  Aligned_cols=64  Identities=5%  Similarity=-0.060  Sum_probs=36.5

Q ss_pred             CCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhcCCC-CcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          382 KPDVVMWGALLAACKNHGN---IEVAERVVKEIIALEPN-NHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       382 ~pd~~~~~~Li~a~~~~g~---~~~A~~~~~~~~~~~P~-~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      .|+..+--.+..++.+..+   ..+++.+++..++..|. ..++++.|+-.+.+.|+|++|.++.+.+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~l  103 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTL  103 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            3455555555555555543   34566666666665553 3455666666666666666666654443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=83.65  E-value=11  Score=43.96  Aligned_cols=53  Identities=9%  Similarity=-0.035  Sum_probs=39.6

Q ss_pred             HHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC
Q 003457          326 ACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV  380 (818)
Q Consensus       326 a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~  380 (818)
                      .|...|+++.|+++-++....  .+.+-.+|..|..+|.+.|+++.|+-.++.++
T Consensus       346 FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            455677888888887777664  45557788888888888888888888887775

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=83.46  E-value=7.5  Score=35.94  Aligned_cols=111  Identities=14%  Similarity=0.029  Sum_probs=60.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHHcC----CCC-CHHHHH
Q 003457          322 GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKI-------EHYGCMVDLLGRCGKVLEAEELIKRMV----WKP-DVVMWG  389 (818)
Q Consensus       322 ~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~-------~~~~~Li~~~~~~g~~~~A~~~~~~m~----~~p-d~~~~~  389 (818)
                      .-+..+...+.++.|+-+.+.+....+.+++.       .++..+.+++...+++.+|...|+++.    .-+ ......
T Consensus        25 dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~  104 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRP  104 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence            33556666777777777766655443333441       345556667777777777777776641    001 000010


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHH
Q 003457          390 ALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLV  444 (818)
Q Consensus       390 ~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~  444 (818)
                      .+.    .......       -..+ +.+.+..+-++.+|.+.|++++|+.+++.
T Consensus       105 ~~~----~~ss~p~-------s~~~-~~e~Elkykia~C~~~l~~~~~Ai~~Le~  147 (167)
T 3ffl_A          105 STG----NSASTPQ-------SQCL-PSEIEVKYKLAECYTVLKQDKDAIAILDG  147 (167)
T ss_dssp             -----------------------CC-CCHHHHHHHHHHHHHHTTCHHHHHHHHHT
T ss_pred             ccc----ccCCCcc-------cccc-cchHHHHHHHHHHHHHHCCHHHHHHHHhc
Confidence            010    0000000       0111 33457788899999999999999997654

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=83.39  E-value=11  Score=33.52  Aligned_cols=72  Identities=7%  Similarity=-0.051  Sum_probs=42.3

Q ss_pred             CCCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC
Q 003457          312 QIVPNDITFVGVLSACCHAGF---IDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD  384 (818)
Q Consensus       312 g~~pd~~t~~~ll~a~~~~g~---~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd  384 (818)
                      +-.|+..+--.+..++.+..+   ..+++.+++.+.+. +-......+..|.-++.+.|++++|.+..+.+ ...|+
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~-~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~  110 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKE-AESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  110 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHH-CGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTT
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-CcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCC
Confidence            344555555555556666554   34566777776654 21112445556666777777777777777766 44554

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=83.18  E-value=8.1  Score=47.95  Aligned_cols=115  Identities=8%  Similarity=-0.103  Sum_probs=83.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC--CC-----------------
Q 003457          322 GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV--WK-----------------  382 (818)
Q Consensus       322 ~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~~-----------------  382 (818)
                      .++..+.+.+.++.+.++...      .+.+....-.+..+|..+|++++|.+.|+++.  ..                 
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~------~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGW------LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHH------SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhh------ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccc
Confidence            455667777777776664432      34555555677788899999999999998872  00                 


Q ss_pred             ------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCc----chHHHHHHHHHHhhchHHHHHHH
Q 003457          383 ------PDVVMWGALLAACKNHGNIEVAERVVKEIIALEP-NNH----GVYVVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       383 ------pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P-~~~----~~y~~L~~~l~~~G~~~eA~~l~  442 (818)
                            .-...|..++..+.+.+.++.++++.+.+++..+ ++.    ..|..+...+...|++++|...+
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL  961 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVAL  961 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHH
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHH
Confidence                  1124577788888899999999999998888554 332    26778888889999999998844

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=82.80  E-value=6.3  Score=35.82  Aligned_cols=50  Identities=12%  Similarity=-0.034  Sum_probs=43.4

Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          396 KNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       396 ~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ...++.++|.++|+.++++....+..|...+..-.|+|+++.|.+++...
T Consensus        71 ~ei~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~A  120 (161)
T 4h7y_A           71 KAIQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKA  120 (161)
T ss_dssp             HHHHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            34589999999999999887777888899999999999999999987655

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=81.74  E-value=3.7  Score=44.14  Aligned_cols=59  Identities=12%  Similarity=0.023  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          388 WGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       388 ~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      ...++..+...|++++++..+++++..+|-+...|..++.+|.+.|+..+|++.++...
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r  232 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVK  232 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34456677788888888888888888888888888888888888888888888766553

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=81.03  E-value=23  Score=35.43  Aligned_cols=119  Identities=13%  Similarity=0.115  Sum_probs=66.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHH----HHHHHHHHHHHc
Q 003457          291 GLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIE----HYGCMVDLLGRC  366 (818)
Q Consensus       291 ~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~----~~~~Li~~~~~~  366 (818)
                      ...+.|..++|++....-++..+. |...-..++..+|-.|++++|.+-++...+.   .|+..    .|..+|++    
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P~-da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l---~p~~~~~a~~yr~lI~a----   77 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKA----   77 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHH----
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---CchhhHHHHHHHHHHHH----
Confidence            345667777887777777766332 5555566777777788888888777776653   44432    33333322    


Q ss_pred             CCHHHHH-HHHHHcC----CCCCHHHHHHHHHHH--HHcCCHHHHHHHHHHHHhcCCCCcc
Q 003457          367 GKVLEAE-ELIKRMV----WKPDVVMWGALLAAC--KNHGNIEVAERVVKEIIALEPNNHG  420 (818)
Q Consensus       367 g~~~~A~-~~~~~m~----~~pd~~~~~~Li~a~--~~~g~~~~A~~~~~~~~~~~P~~~~  420 (818)
                         +... ++|.--.    ......-...|+.+.  ...|+.++|.++-.++++..|..+.
T Consensus        78 ---E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~ap~~~G  135 (273)
T 1zbp_A           78 ---AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGF  135 (273)
T ss_dssp             ---HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCE
T ss_pred             ---HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCcccCC
Confidence               1111 1221110    111222333344443  3467777777777777777776443

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=80.71  E-value=57  Score=33.85  Aligned_cols=111  Identities=14%  Similarity=0.072  Sum_probs=58.2

Q ss_pred             HHHHHHHhhhhcCCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHH----HHHHHcCCCCCHHHHHHHHHHH
Q 003457           50 ASRLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLY----MNMRRTGFAPNQHTFTFVLKAC  125 (818)
Q Consensus        50 ~~~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf----~~m~~~g~~pd~~ty~~ll~~~  125 (818)
                      |..+..-|  .+++++++|++++..-           ...+.+.|+...|-++-    +-..+.++++|......++..+
T Consensus        38 ~RTi~~Ry--~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~  104 (336)
T 3lpz_A           38 TRLVAARY--SKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCL  104 (336)
T ss_dssp             HHHHHHHH--HHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHH--HhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            34444444  6666666666665322           33345556655544433    4444556777777666666666


Q ss_pred             HccCCh-HHHHHHHHHHH----HcC--CCCCHHHHHHHHHHHHhCCChHHHHHHH
Q 003457          126 SNVRSL-NCCKQIHTHVS----KSG--LDLDLHVVNCLVRCYSVSSDLNNARQVF  173 (818)
Q Consensus       126 ~~~g~~-~~A~~~~~~m~----~~g--~~p~~~~~~~Li~~y~~~g~~~~A~~l~  173 (818)
                      .....- ..-..+.+.++    +.|  ..-|......+...|.+.+++.+|+..|
T Consensus       105 ~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A          105 RLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHL  159 (336)
T ss_dssp             TTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            554421 11122333332    222  2225556666666666666766666665

---

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	818
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-07

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.6 bits (122), Expect = 2e-07
 Identities = 47/380 (12%), Positives = 95/380 (25%), Gaps = 16/380 (4%)

Query: 62  SGDLSYATRLFNSI--QSPNHFM-WNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTF 118
           +GD   A R    +  Q P++      L          D++        +    P     
Sbjct: 12  AGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIK--QNPLLAEA 69

Query: 119 TFVL-KACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIR 177
              L         L    + + H  +   D     +N      +        +     ++
Sbjct: 70  YSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQ 129

Query: 178 NRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSAC-AQSGCLELGE 236
                       G                +     +PN     S L       G + L  
Sbjct: 130 YNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAI 189

Query: 237 KVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNI---ATWNAMISGLA 293
                               L ++  +     +A A +      +         +     
Sbjct: 190 HHFEKAVTLDPNFLDAY-INLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYY 248

Query: 294 SHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKI 353
             G  + A+D +R+    ++ P+       L A        V          +       
Sbjct: 249 EQGLIDLAIDTYRRA--IELQPHFPDAYCNL-ANALKEKGSVAEAEDCYNTALRLCPTHA 305

Query: 354 EHYGCMVDLLGRCGKVLEAEELIKRMV-WKPDVVM-WGALLAACKNHGNIEVAERVVKEI 411
           +    + ++    G + EA  L ++ +   P+       L +  +  G ++ A    KE 
Sbjct: 306 DSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEA 365

Query: 412 IALEPNNHGVYVVLSNMYAE 431
           I + P     Y  + N   E
Sbjct: 366 IRISPTFADAYSNMGNTLKE 385

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	818
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.63
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.6
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.18
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.14
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.11
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.08
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.08
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.08
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.07
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.05
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.97
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.86
d1guia_	155	Carbohydrate binding module from laminarinase 16A	98.82
d1cx1a_	153	Cellulose-binding domain of cellulase C {Cellulomo	98.74
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.72
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.62
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.62
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.58
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.57
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.54
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.53
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.51
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.46
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.45
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.45
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.42
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.42
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.31
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.27
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.27
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.26
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.22
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.2
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.18
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.17
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.14
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.08
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.02
d1h6ya_	157	Xylan-binding domain {Clostridium thermocellum [Ta	98.0
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.92
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.9
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.87
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.85
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.84
d1gu3a_	142	Cellulose-binding domain of cellulase C {Cellulomo	97.78
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.77
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.77
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.59
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.57
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.5
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.47
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.45
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.39
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.34
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.1
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.96
d1k42a_	168	Carbohydrate binding module from a thermostable xy	96.53
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.76
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.75
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.86
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.84
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.41
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.13
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	90.6
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	90.13

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=8.7e-22  Score=212.72  Aligned_cols=368  Identities=13%  Similarity=0.068  Sum_probs=230.6

Q ss_pred             hcCCCHHHHHHHHhhcC--C-CCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHH
Q 003457           60 SSSGDLSYATRLFNSIQ--S-PNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQ  136 (818)
Q Consensus        60 ~k~g~~e~A~~lf~~~~--~-p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~  136 (818)
                      -+.|++++|++.|+++.  . .+...+..+...|.+.|++++|+..|+++.+.... +..++..+...+.+.|++++|..
T Consensus        10 ~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~~~~A~~   88 (388)
T d1w3ba_          10 YQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQLQEAIE   88 (388)
T ss_dssp             HHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhcccccccc
Confidence            46677777777777664  2 34566666777777777777777777776664332 45566667777777777777777


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhc---CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCC
Q 003457          137 IHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRN---RTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFE  213 (818)
Q Consensus       137 ~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~  213 (818)
                      .+..+.+.... +...................+.........   ................+....+...+.+..... +
T Consensus        89 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  166 (388)
T d1w3ba_          89 HYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-P  166 (388)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-T
T ss_pred             ccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccC-c
Confidence            77776665433 333333344444444444444443333322   233445555555566666666666666665543 3


Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHH
Q 003457          214 PNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMIS  290 (818)
Q Consensus       214 pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~  290 (818)
                      -+...+..+...+...+++++|...+++.++.. +.+...+..+...+...|++++|...|++..+   .+...+..+..
T Consensus       167 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  245 (388)
T d1w3ba_         167 NFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLAC  245 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             chhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHH
Confidence            345556666666667777777777777766654 34455666667777777777777776665543   34556666666


Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHH
Q 003457          291 GLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVL  370 (818)
Q Consensus       291 ~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~  370 (818)
                      .+.+.|++++|+..|+++.+..+. +...+..+..++...|++++|.+.++.....  .+.+...+..+...|.+.|+++
T Consensus       246 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  322 (388)
T d1w3ba_         246 VYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIE  322 (388)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc--CCccchhhhHHHHHHHHCCCHH
Confidence            677777777777777776665322 4556666666777777777777777766654  4555666666667777777777


Q ss_pred             HHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          371 EAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       371 ~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      +|++.|+++ ...| +..++..+..+|.+.|++++|++.|+++++++|+++.+|..|+.+|.+.|+
T Consensus       323 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         323 EAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            777777665 3344 355666666677777777777777777777777777777777777766553

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=2.1e-21  Score=209.66  Aligned_cols=354  Identities=13%  Similarity=0.087  Sum_probs=299.8

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Q 003457           86 LIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSD  165 (818)
Q Consensus        86 Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~  165 (818)
                      +...+.+.|++++|++.|+++.+.... +...+..+...+.+.|++++|...++++++..+. +..++..+..+|.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhcc
Confidence            345677889999999999999886433 6778899999999999999999999999998644 67889999999999999


Q ss_pred             hHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 003457          166 LNNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFV  242 (818)
Q Consensus       166 ~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~  242 (818)
                      +++|.+.+....+.   +...+...............+........... .................+....+...+...
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHh
Confidence            99999999988753   44456666666777777777777777766654 344455555666677888888888888888


Q ss_pred             HHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH
Q 003457          243 KMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDIT  319 (818)
Q Consensus       243 ~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t  319 (818)
                      .... +.+...+..+...+...+++++|...+++..+   .+...|..+...+...|++++|+..+++...... .+...
T Consensus       162 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~  239 (388)
T d1w3ba_         162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVV  239 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHH
T ss_pred             hccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHH
Confidence            8775 55677888899999999999999999987764   4667899999999999999999999999988743 36777


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHH
Q 003457          320 FVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV--WKPDVVMWGALLAACKN  397 (818)
Q Consensus       320 ~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~  397 (818)
                      +..+..++.+.|++++|...|+++.+.  .+.+...+..+...|.+.|++++|++.|+.+.  .+.+...+..+...+.+
T Consensus       240 ~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  317 (388)
T d1w3ba_         240 HGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHH
Confidence            888899999999999999999998874  45568899999999999999999999999882  34568889999999999


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          398 HGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       398 ~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .|++++|++.|+++++++|+++.++..++.+|.+.|++++|++.++..+
T Consensus       318 ~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al  366 (388)
T d1w3ba_         318 QGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAI  366 (388)
T ss_dssp             TTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999776653

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=1.3e-14  Score=152.99  Aligned_cols=255  Identities=13%  Similarity=0.024  Sum_probs=170.5

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCC
Q 003457          186 TMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNG  265 (818)
Q Consensus       186 ~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g  265 (818)
                      .....+.+.|++++|+..|+++++.. +-+...|..+..++...|++++|...+.++++.. +.+...+..++.+|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            45666777788888888888877764 4456677777777777788888887777777664 345566666677777777


Q ss_pred             CHHHHHHHHhhCCCCChh---hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 003457          266 ALAKAKALFDSMPERNIA---TWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGS  342 (818)
Q Consensus       266 ~~~~A~~~f~~m~~~d~~---~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~  342 (818)
                      ++++|.+.++++...+..   .+....... .                   ..+.......+..+...+.+.++...+.+
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~-~-------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  161 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGA-G-------------------GAGLGPSKRILGSLLSDSLFLEVKELFLA  161 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhh-h-------------------hcccccchhhHHHHHHhhHHHHHHHHHHH
Confidence            777777766655431110   000000000 0                   00000111112233445567778888888


Q ss_pred             HHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc
Q 003457          343 MKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG  420 (818)
Q Consensus       343 m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~  420 (818)
                      +.+......+...+..+...+...|++++|+..|+++ ...| +...|..+...|...|++++|++.|+++++++|+++.
T Consensus       162 al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  241 (323)
T d1fcha_         162 AVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIR  241 (323)
T ss_dssp             HHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHH
Confidence            7765334456778888888899999999999999887 3344 5788888999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeeecCC
Q 003457          421 VYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLNGN  484 (818)
Q Consensus       421 ~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l~~~  484 (818)
                      ++..++.+|.+.|++++|++.++..+                      +++|++..++..+...
T Consensus       242 a~~~lg~~~~~~g~~~~A~~~~~~al----------------------~l~p~~~~~~~~~~~~  283 (323)
T d1fcha_         242 SRYNLGISCINLGAHREAVEHFLEAL----------------------NMQRKSRGPRGEGGAM  283 (323)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHH----------------------HHHHTC------CCCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHH----------------------HhCCcChhhhhhhHHH
Confidence            99999999999999999999776664                      7777777665544433

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.60  E-value=8.8e-14  Score=146.51  Aligned_cols=266  Identities=14%  Similarity=0.036  Sum_probs=202.4

Q ss_pred             HHHHHHHhCCChHHHHHHHHHhhcC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 003457          155 CLVRCYSVSSDLNNARQVFDEIRNR---TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGC  231 (818)
Q Consensus       155 ~Li~~y~~~g~~~~A~~l~~~m~~~---d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~  231 (818)
                      .....+.+.|++++|++.|+++.+.   +..+|..+..++...|++++|+..|++.++.. +-+...+..+...+...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            4566788999999999999998764   56689999999999999999999999998874 4567788888999999999


Q ss_pred             hhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 003457          232 LELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKE  311 (818)
Q Consensus       232 ~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~  311 (818)
                      +++|.+.++.+...... .............                ..+.......+..+...+.+.+|...|.+..+.
T Consensus       103 ~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~  165 (323)
T d1fcha_         103 QRQACEILRDWLRYTPA-YAHLVTPAEEGAG----------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAVRL  165 (323)
T ss_dssp             HHHHHHHHHHHHHTSTT-TGGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhccc-hHHHHHhhhhhhh----------------hcccccchhhHHHHHHhhHHHHHHHHHHHHHHH
Confidence            99999999999876421 1111100000000                001111111223344556788899999888775


Q ss_pred             CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHH
Q 003457          312 QI-VPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMW  388 (818)
Q Consensus       312 g~-~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~  388 (818)
                      .+ ..+...+..+...+...|++++|+..+++....  .+.+...|..+...|.+.|++++|++.|+++ ...| +..+|
T Consensus       166 ~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~  243 (323)
T d1fcha_         166 DPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSR  243 (323)
T ss_dssp             STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             hhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHH
Confidence            43 345677888889999999999999999998876  4556889999999999999999999999988 3455 57889


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc-----------hHHHHHHHHHHhhchHHHHH
Q 003457          389 GALLAACKNHGNIEVAERVVKEIIALEPNNHG-----------VYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       389 ~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~-----------~y~~L~~~l~~~G~~~eA~~  440 (818)
                      ..++.+|.+.|++++|++.|++++++.|++..           .+..+..++...|+.+.+..
T Consensus       244 ~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         244 YNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999999999999999988654           34556667777777765544

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.18  E-value=5.8e-09  Score=108.92  Aligned_cols=257  Identities=14%  Similarity=0.024  Sum_probs=150.5

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCC--C---CcHHHHHHH
Q 003457          188 ISGYAQSFRANEALMLFDQMLMEGFEPN-----SVTLASVLSACAQSGCLELGEKVHVFVKMRGF--E---MGAILGTAL  257 (818)
Q Consensus       188 i~~~~~~g~~~~A~~l~~~m~~~g~~pd-----~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~--~---~~~~~~~~L  257 (818)
                      ...+...|++++|++++++.++.. +.+     ...+..+..++...|++++|...++++.+...  .   .....+..+
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~-~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   97 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   97 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhC-cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            334445555555555555554432 111     12333444555555555555555555543210  0   011233344


Q ss_pred             HHHHHhCCCHHHHHHHHhhCCC-------C----ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC----CCHHHHHH
Q 003457          258 VHMYTKNGALAKAKALFDSMPE-------R----NIATWNAMISGLASHGHAEEALDLFRKLEKEQIV----PNDITFVG  322 (818)
Q Consensus       258 i~~~~~~g~~~~A~~~f~~m~~-------~----d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~----pd~~t~~~  322 (818)
                      ...+...|++..|...+....+       +    ....+..+...+...|+++++...+.+.......    .....+..
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            5555666666666555554321       1    1124455666777778888888877776653221    22344555


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhCCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-----CHHHHHHH
Q 003457          323 VLSACCHAGFIDVGRQIFGSMKRVYGIEPK-----IEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-----DVVMWGAL  391 (818)
Q Consensus       323 ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~-----~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-----d~~~~~~L  391 (818)
                      ....+...++...+...+.+.........+     ...+..+...+...|++++|.+.+++.. ..+     ....+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            566677777888777777765544222111     2345556667778888888888888773 111     24556667


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHh------cCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          392 LAACKNHGNIEVAERVVKEIIA------LEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       392 i~a~~~~g~~~~A~~~~~~~~~------~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ..++...|++++|.+.+++++.      ..|+...++..++.+|.+.|++++|.+.++..
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~A  317 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDA  317 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            7788888888888888887764      33555677888888888888888888866554

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.14  E-value=5.6e-09  Score=109.04  Aligned_cols=187  Identities=11%  Similarity=-0.021  Sum_probs=115.8

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHhhCCC--------CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCC----HHH
Q 003457          254 GTALVHMYTKNGALAKAKALFDSMPE--------RNIATWNAMISGLASHGHAEEALDLFRKLEKE--QIVPN----DIT  319 (818)
Q Consensus       254 ~~~Li~~~~~~g~~~~A~~~f~~m~~--------~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~--g~~pd----~~t  319 (818)
                      +..+...+...|+++.+...++...+        .....+..+...+...+++.++...+.+....  .....    ...
T Consensus       136 ~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~  215 (366)
T d1hz4a_         136 VRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNA  215 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHH
T ss_pred             HHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHH
Confidence            33445555556666666555554432        12234445556666777777777777665431  11111    123


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhCCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-------CCCC-HHHHH
Q 003457          320 FVGVLSACCHAGFIDVGRQIFGSMKRVYGIE--PKIEHYGCMVDLLGRCGKVLEAEELIKRMV-------WKPD-VVMWG  389 (818)
Q Consensus       320 ~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~--p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-------~~pd-~~~~~  389 (818)
                      +..+...+...++.++|...++...+.....  .....+..+...|...|++++|.+.++++.       ..|+ ...+.
T Consensus       216 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  295 (366)
T d1hz4a_         216 NKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLL  295 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHH
Confidence            4445566777888888888887755331111  123456667788888888888888887762       2232 45677


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCC---------CcchHHHHHHHHHHhhchHHHHH
Q 003457          390 ALLAACKNHGNIEVAERVVKEIIALEPN---------NHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       390 ~Li~a~~~~g~~~~A~~~~~~~~~~~P~---------~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      .+...|.+.|++++|++.+++++++.+.         ....+..+...+.+.++.+|+.+
T Consensus       296 ~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         296 LLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            7888899999999999999998876432         12334455566667788888766

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.11  E-value=3.1e-10  Score=119.72  Aligned_cols=232  Identities=10%  Similarity=-0.070  Sum_probs=176.1

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC--ChhHHHHHHHHHHHcCCCCcHHHH-HHHHHHHHhCCCHH
Q 003457          192 AQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSG--CLELGEKVHVFVKMRGFEMGAILG-TALVHMYTKNGALA  268 (818)
Q Consensus       192 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g--~~~~A~~i~~~~~~~g~~~~~~~~-~~Li~~~~~~g~~~  268 (818)
                      ...+++++|+.++++.++.. +-+...+..+..++...+  +++++...+..+.+.. +.+...+ ..+...+...++++
T Consensus        84 ~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~  161 (334)
T d1dcea1          84 ESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPA  161 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHH
T ss_pred             HHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccH
Confidence            34456788889999888764 456667777777766655  4788888999988875 3344444 44557778889999


Q ss_pred             HHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 003457          269 KAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKR  345 (818)
Q Consensus       269 ~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~  345 (818)
                      +|+..++.+.+   .+..+|+.+...+.+.|++++|...+++..+.  .|+   ...+...+...+..+++...+.....
T Consensus       162 ~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~  236 (334)
T d1dcea1         162 EELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLL  236 (334)
T ss_dssp             HHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            99999998886   46678999999999999998887766655443  111   12233445666777788888888776


Q ss_pred             HhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHH
Q 003457          346 VYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYV  423 (818)
Q Consensus       346 ~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~  423 (818)
                      .  .+++...+..++..+...++.++|.+.+.+.. ..| +..++..++..+...|++++|++.++++++++|++...|.
T Consensus       237 ~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~  314 (334)
T d1dcea1         237 G--RAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLD  314 (334)
T ss_dssp             S--CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHH
T ss_pred             h--CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHH
Confidence            4  45556667778888889999999999999884 445 4678888899999999999999999999999999899999


Q ss_pred             HHHHHHHHh
Q 003457          424 VLSNMYAEA  432 (818)
Q Consensus       424 ~L~~~l~~~  432 (818)
                      .|...+.-.
T Consensus       315 ~L~~~~~~e  323 (334)
T d1dcea1         315 DLRSKFLLE  323 (334)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHhHh
Confidence            888777643

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.08  E-value=9e-10  Score=115.26  Aligned_cols=221  Identities=9%  Similarity=0.064  Sum_probs=129.5

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCC-CHHHHHHHHhhCCC---CChhhHHHHHHHH
Q 003457          217 VTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNG-ALAKAKALFDSMPE---RNIATWNAMISGL  292 (818)
Q Consensus       217 ~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g-~~~~A~~~f~~m~~---~d~~~~~~Li~~~  292 (818)
                      ..|..+...+.+.+..++|.+.++++++.+ |.+...|+....++...+ ++++|++.++++.+   .+..+|+.+...+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHH
Confidence            344555556666677777777777777765 445566666666666654 36777777666543   3556666666667


Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC----
Q 003457          293 ASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGK----  368 (818)
Q Consensus       293 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~----  368 (818)
                      .+.|++++|++.++++++..++ +...|..+..++.+.+++++|++.++++++.  .+.+...|+.+...+.+.++    
T Consensus       123 ~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHccccchh
Confidence            7777777777777776665333 4566666666677777777777777776654  33455666666555555444    


Q ss_pred             --HHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc--hHHHHHHHHHHh--hchHHHHH
Q 003457          369 --VLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG--VYVVLSNMYAEA--ESMKMQLE  440 (818)
Q Consensus       369 --~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~--~y~~L~~~l~~~--G~~~eA~~  440 (818)
                        +++|++.++++ ...| +...|..+...+.. ...+++.+.+++++++.|+...  .+..++.+|...  ++.+.+.+
T Consensus       200 ~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~  278 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  278 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             hhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHH
Confidence              45566666554 2333 45555555544333 3345666666666666655332  334455555433  33444444


Q ss_pred             HH
Q 003457          441 IL  442 (818)
Q Consensus       441 l~  442 (818)
                      .+
T Consensus       279 ~~  280 (315)
T d2h6fa1         279 IL  280 (315)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.08  E-value=6.1e-10  Score=112.33  Aligned_cols=221  Identities=12%  Similarity=-0.058  Sum_probs=137.5

Q ss_pred             ChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHH
Q 003457          196 RANEALMLFDQMLMEGFEP---NSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKA  272 (818)
Q Consensus       196 ~~~~A~~l~~~m~~~g~~p---d~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~  272 (818)
                      +.+.++..+++.+......   ...+|..+..+|.+.|++++|...|++.++.. +.++.++..+..+|.+.|++++|++
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhh
Confidence            4566777777776542111   12356666778888888888888888888875 5567788888888888888888888


Q ss_pred             HHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCC
Q 003457          273 LFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGI  349 (818)
Q Consensus       273 ~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~  349 (818)
                      .|+++.+   .+..+|..+..+|...|++++|+..|++..+..+. +......+..++.+.+..+....+.......   
T Consensus        93 ~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---  168 (259)
T d1xnfa_          93 AFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS---  168 (259)
T ss_dssp             HHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS---
T ss_pred             hhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc---
Confidence            8887764   34567888888888888888888888888776432 4444444444555555555555544444332   


Q ss_pred             CCCHHHHHHHHHHHHHcCCH----HHHHHHHHHc-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchH
Q 003457          350 EPKIEHYGCMVDLLGRCGKV----LEAEELIKRM-VWKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       350 ~p~~~~~~~Li~~~~~~g~~----~~A~~~~~~m-~~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                      .++...+. ++..+......    +.+...+... ...|+ ..+|..+...|...|++++|++.|+++++.+|++...|
T Consensus       169 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  246 (259)
T d1xnfa_         169 DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH  246 (259)
T ss_dssp             CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH
T ss_pred             chhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence            22222222 22222222222    2222222111 01122 34666777788888888888888888888888765444

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.08  E-value=1.5e-09  Score=109.29  Aligned_cols=94  Identities=11%  Similarity=-0.176  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Q 003457          183 VWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYT  262 (818)
Q Consensus       183 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~  262 (818)
                      .|..+...|.+.|++++|++.|++.++.. +-+..+|..+..++.+.|++++|...|+++++.. +.+...+..+..+|.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHH
Confidence            34444444445555555555555544432 2334444444444455555555555555544443 223334444444444


Q ss_pred             hCCCHHHHHHHHhhCC
Q 003457          263 KNGALAKAKALFDSMP  278 (818)
Q Consensus       263 ~~g~~~~A~~~f~~m~  278 (818)
                      ..|++++|.+.|++..
T Consensus       117 ~~g~~~~A~~~~~~al  132 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFY  132 (259)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHH
Confidence            5555555554444443

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.07  E-value=5.9e-11  Score=125.44  Aligned_cols=258  Identities=10%  Similarity=-0.079  Sum_probs=188.9

Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHH----------HHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 003457          193 QSFRANEALMLFDQMLMEGFEPNS-VTLASVLSA----------CAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMY  261 (818)
Q Consensus       193 ~~g~~~~A~~l~~~m~~~g~~pd~-~t~~~ll~~----------~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~  261 (818)
                      .....++|++++++.++.  .|+. ..|+..-..          +...+++++|...++.+++.. +.+...+..+..++
T Consensus        41 ~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~  117 (334)
T d1dcea1          41 AGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  117 (334)
T ss_dssp             TTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHH
Confidence            334457888888888765  3443 333322222          223445788999999998875 55677777777777


Q ss_pred             HhCC--CHHHHHHHHhhCCC---CChhhHHH-HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 003457          262 TKNG--ALAKAKALFDSMPE---RNIATWNA-MISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDV  335 (818)
Q Consensus       262 ~~~g--~~~~A~~~f~~m~~---~d~~~~~~-Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~  335 (818)
                      ...+  ++++|...++++.+   ++...|.. +...+...+++++|+..++++++..+. +...+..+..++.+.|++++
T Consensus       118 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         118 SRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCC
T ss_pred             HHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHH
Confidence            7665  48999999998764   45556544 446777889999999999999887544 67888899999999999988


Q ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 003457          336 GRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM--VWKPDVVMWGALLAACKNHGNIEVAERVVKEIIA  413 (818)
Q Consensus       336 A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m--~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~  413 (818)
                      |...++...+.   .|+   ...+...+...+..+++...+.+.  ...++...+..++..+...++.++|...+.+.++
T Consensus       197 A~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  270 (334)
T d1dcea1         197 SGPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQELEP  270 (334)
T ss_dssp             SSSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            87766665543   111   122334456667777888877776  2223455666677778888999999999999999


Q ss_pred             cCCCCcchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeeec
Q 003457          414 LEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLLN  482 (818)
Q Consensus       414 ~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l~  482 (818)
                      .+|++...+..++.+|.+.|++++|++.++..+                      +++|+++.+|-.|+
T Consensus       271 ~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai----------------------~ldP~~~~y~~~L~  317 (334)
T d1dcea1         271 ENKWCLLTIILLMRALDPLLYEKETLQYFSTLK----------------------AVDPMRAAYLDDLR  317 (334)
T ss_dssp             TCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHH----------------------HHCGGGHHHHHHHH
T ss_pred             hCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHH----------------------HHCcccHHHHHHHH
Confidence            999999999999999999999999999877764                      78888777665443

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=8.1e-09  Score=107.79  Aligned_cols=189  Identities=8%  Similarity=0.006  Sum_probs=90.3

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Q 003457          184 WTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSG-CLELGEKVHVFVKMRGFEMGAILGTALVHMYT  262 (818)
Q Consensus       184 ~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g-~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~  262 (818)
                      ++.+...+.+.+.+++|+++++++++.. +-+...|.....++...+ ++++|...++.+++.. +.+..++..+...+.
T Consensus        46 ~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          46 YDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHH
Confidence            3344444444445555555555554442 223334444444444433 2455555555554443 334444444455555


Q ss_pred             hCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC------H
Q 003457          263 KNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGF------I  333 (818)
Q Consensus       263 ~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~------~  333 (818)
                      +.|++++|++.|+++.+   .+...|..+...+.+.+++++|++.++++++..+. +...|+.+..++.+.+.      +
T Consensus       124 ~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~~~~  202 (315)
T d2h6fa1         124 WLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRAVL  202 (315)
T ss_dssp             HHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHHHH
T ss_pred             hhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchhhhh
Confidence            55555555555554443   24455555555555666666666666666554322 34445544444444333      4


Q ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 003457          334 DVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKR  378 (818)
Q Consensus       334 ~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~  378 (818)
                      ++|.+.+.++++.  .+.+...|..+...+... ..+++.+.+++
T Consensus       203 ~~ai~~~~~al~~--~P~~~~~~~~l~~ll~~~-~~~~~~~~~~~  244 (315)
T d2h6fa1         203 EREVQYTLEMIKL--VPHNESAWNYLKGILQDR-GLSKYPNLLNQ  244 (315)
T ss_dssp             HHHHHHHHHHHHH--STTCHHHHHHHHHHHTTT-CGGGCHHHHHH
T ss_pred             HHhHHHHHHHHHh--CCCchHHHHHHHHHHHhc-ChHHHHHHHHH
Confidence            5555555555544  333455555554443332 23444444433

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.97  E-value=4.9e-08  Score=101.28  Aligned_cols=187  Identities=12%  Similarity=0.084  Sum_probs=143.8

Q ss_pred             ChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCHHHHHHHHhhCCC--C-C-hhhHHHHHHHHHHcCCHHHHHHHHH
Q 003457          231 CLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNGALAKAKALFDSMPE--R-N-IATWNAMISGLASHGHAEEALDLFR  306 (818)
Q Consensus       231 ~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g~~~~A~~~f~~m~~--~-d-~~~~~~Li~~~~~~g~~~~A~~l~~  306 (818)
                      ..+++..++++.++...+.+...+..++..+.+.|+++.|..+|+++.+  + + ...|...+..+.+.++.++|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            3577888888888765566677778888888899999999999988764  2 3 3468888888888999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHH-HHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC----C
Q 003457          307 KLEKEQIVPNDITFVGVLS-ACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV----W  381 (818)
Q Consensus       307 ~m~~~g~~pd~~t~~~ll~-a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~----~  381 (818)
                      ++++..+. +...|..... -+...|+.+.|..+|+.+.+.  .+.+...|...++.+.+.|++++|..+|+++.    .
T Consensus       159 ~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         159 KAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            98887544 3333433332 234468899999999998876  56678889999999999999999999999872    2


Q ss_pred             CC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc
Q 003457          382 KP--DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHG  420 (818)
Q Consensus       382 ~p--d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~  420 (818)
                      .|  ....|...+.--...|+.+.+..+++++.++.|+...
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~~  276 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEYE  276 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTTS
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccccc
Confidence            33  2467888888777889999999999999888887543

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.86  E-value=1.2e-07  Score=98.28  Aligned_cols=178  Identities=9%  Similarity=0.047  Sum_probs=143.7

Q ss_pred             CHHHHHHHHhhCCC----CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 003457          266 ALAKAKALFDSMPE----RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFG  341 (818)
Q Consensus       266 ~~~~A~~~f~~m~~----~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~  341 (818)
                      ..++|..+|++..+    .+...|...+..+.+.|++++|..+|+++++.........+...+..+.+.++.+.|+++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            45777888877543    45667888899999999999999999999986544445678888999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHH-HHcCCHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 003457          342 SMKRVYGIEPKIEHYGCMVDLL-GRCGKVLEAEELIKRMV--WKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       342 ~m~~~~g~~p~~~~~~~Li~~~-~~~g~~~~A~~~~~~m~--~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                      ++.+.  .+.+...|...+... ...|+.+.|.++|+++.  ...+...|...+..+...|+++.|..+|+++++..|.+
T Consensus       159 ~al~~--~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTS--TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHh--CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            98864  444556665555443 34689999999999983  23457889999999999999999999999999987755


Q ss_pred             cc----hHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          419 HG----VYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       419 ~~----~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ++    .|..+...-.+.|+.+.+.++.+.+
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~  267 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            43    6788888888999999999987766

>d1guia_ b.18.1.14 (A:) Carbohydrate binding module from laminarinase 16A {Thermotoga maritima [TaxId: 2336]}

class: All beta proteins
fold: Galactose-binding domain-like
superfamily: Galactose-binding domain-like
family: CBM4/9
domain: Carbohydrate binding module from laminarinase 16A
species: Thermotoga maritima [TaxId: 2336]

Probab=98.82  E-value=2.5e-08  Score=92.25  Aligned_cols=138  Identities=20%  Similarity=0.198  Sum_probs=83.2

Q ss_pred             ccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEeceeeeec----CCceeccCCCeeEEecCCcc------ceee
Q 003457          632 LLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYID----SKHFYVPKGNAAIEIVSVSA------GIQT  701 (818)
Q Consensus       632 ~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~v~~i~----~~~~~~~~g~~~~~l~~~~~------~~q~  701 (818)
                      |.||+||+++..   ..            .+...+|.+-..-.+-.    .....+-.|..++++.+.+.      +.|.
T Consensus         2 i~NG~FE~~~~~---~~------------~~~~~~W~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~g~~~~~~~~~q~   66 (155)
T d1guia_           2 INNGTFDEPIVN---DQ------------ANNPDEWFIWQAGDYGISGARVSDYGVRDGYAYITIADPGTDTWHIQFNQW   66 (155)
T ss_dssp             CSSTTCSSCCCC---CT------------TTCTTSCEEEEGGGGTSCCCEEEEEEEETTEEEEEEEECCSSGGGEEEEEE
T ss_pred             ccCCCCCCCccC---cc------------cCCCCccEEEeCCCccceeeeeecccccCCeEEEEEecCCCCccceEEEEe
Confidence            689999996541   11            13455676511100000    00133347888888876322      3588


Q ss_pred             eeccccCCCeEEEEEecCcccCccccceEEEEeeCC-cceeeEEEecc-cCCceeeeEEEEecc---ceeeEEEEeCccc
Q 003457          702 ATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGS-LVQNFTVQSLG-TGSVIKHSVTFKAGS---GSTPISFISYNIN  776 (818)
Q Consensus       702 ~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~-~~~~~~~~~~f~a~~---~~~~~~f~~~~~~  776 (818)
                      +.  +++|+.|+|+|.+   ...-.+...+.+...+ ......-++.. +..|..|++.|++.+   ..++|.|...+  
T Consensus        67 v~--l~~g~~Y~lSf~~---k~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~W~~~s~~f~~~~~~~~~~~l~~~~~~--  139 (155)
T d1guia_          67 IG--LYRGKTYTISFKA---KADTPRPINVKILQNHDPWTNYFAQTVNLTADWQTFTFTYTHPDDADEVVQISFELGE--  139 (155)
T ss_dssp             EE--CCTTCEEEEEEEE---EESSCEEEEEEEECSSTTCCEEEEEEEEECSSCEEEEEEEECCTTSCSEEEEEEECCS--
T ss_pred             eE--ecCCCEEEEEEEE---EeCCCCcEEEEEEEcCCCCeEEeeeEEeeccccEEEEEEEEecCCCCccEEEEEEECC--
Confidence            88  9999999999994   3222344444444322 23333333333 678999999999986   35688887632  


Q ss_pred             ccCCCCccccccceeeeee
Q 003457          777 QTKDGVFCGPLIDDVVLRA  795 (818)
Q Consensus       777 ~~~~~~~~gp~~d~v~~~~  795 (818)
                       +..   +.-.||||+|.+
T Consensus       140 -~~~---~~~~iDnV~l~~  154 (155)
T d1guia_         140 -GTA---TTIYFDDVTVSP  154 (155)
T ss_dssp             -SCC---CEEEEEEEEEEE
T ss_pred             -CCC---cEEEEEEEEEEE
Confidence             223   556899999975

>d1cx1a_ b.18.1.14 (A:) Cellulose-binding domain of cellulase C {Cellulomonas fimi [TaxId: 1708]}

class: All beta proteins
fold: Galactose-binding domain-like
superfamily: Galactose-binding domain-like
family: CBM4/9
domain: Cellulose-binding domain of cellulase C
species: Cellulomonas fimi [TaxId: 1708]

Probab=98.74  E-value=3e-08  Score=91.50  Aligned_cols=130  Identities=22%  Similarity=0.267  Sum_probs=77.3

Q ss_pred             CCCcccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEeceeeeecCCceeccCCCeeEEecCCcc------ceee
Q 003457          628 NDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAAIEIVSVSA------GIQT  701 (818)
Q Consensus       628 ~~~l~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~v~~i~~~~~~~~~g~~~~~l~~~~~------~~q~  701 (818)
                      .-|||+||+||+|                       +.||.+.|.      +...+-+|..-+++.+++.      +.|+
T Consensus         6 ~~~li~Ng~F~~g-----------------------~~~W~~~g~------~~~~~~~G~~~~~v~~~~~~~w~~~~~~~   56 (153)
T d1cx1a_           6 EVELLPHTSFAES-----------------------LGPWSLYGT------SEPVFADGRMCVDLPGGQGNPWDAGLVYN   56 (153)
T ss_dssp             CCCSSSCCCTTTC-----------------------CTTCEEESS------SCCEECSSCEEEECCSCCSCSTTSEEEEC
T ss_pred             CccEEcCCCccCC-----------------------CCCcEeCcC------CccEEeCCcEEEEccCCCCCccceEEEec
Confidence            4499999999985                       337887542      2233446666666655322      2344


Q ss_pred             -eeccccCCCeEEEEEecCcccCccccceEEEEeeCCc--ceeeEEEecc-cCCceeeeEEEEecc-------ceeeEEE
Q 003457          702 -ATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSL--VQNFTVQSLG-TGSVIKHSVTFKAGS-------GSTPISF  770 (818)
Q Consensus       702 -~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~-~~~~~~~~~~f~a~~-------~~~~~~f  770 (818)
                       +.  +++|+.|+|+|.+   .-+-.....+.+.....  ...+...+.. +..|..|.+.|++..       ...+|.|
T Consensus        57 ~v~--l~~G~~Y~lsf~a---ka~~~~~~~v~v~~~~~~~~~~~~~~~~~~~~~~~~~~~tfT~~~~~~~~~~~~~~l~f  131 (153)
T d1cx1a_          57 GVP--VGEGESYVLSFTA---SATPDMPVRVLVGEGGGAYRTAFEQGSAPLTGEPATREYAFTSNLTFPPDGDAPGQVAF  131 (153)
T ss_dssp             CCC--BCTTSEEEEEEEE---EESSCEEEEEEEECSSSSCCCSSCEEEEEECSCCEEEEEEEECCSCBCSSSSCCCEEEE
T ss_pred             ceE--EcCCCEEEEEEEE---EECCCceEEEEEeccCCCceeecceeEEEecCCceEEEEEEEecccccCCCCcceEEEE
Confidence             66  8999999999994   21112223333333221  1222222233 678999999999764       3457888


Q ss_pred             EeCcccccCCCCccccccceeeeeecc
Q 003457          771 ISYNINQTKDGVFCGPLIDDVVLRASH  797 (818)
Q Consensus       771 ~~~~~~~~~~~~~~gp~~d~v~~~~~~  797 (818)
                      .-.+..   ...+   .||||+|....
T Consensus       132 ~~g~~~---~~~~---~iDdVsLt~~~  152 (153)
T d1cx1a_         132 HLGKAG---AYEF---CISQVSLTTSA  152 (153)
T ss_dssp             ECCCTT---CCEE---EEEEEEEECCC
T ss_pred             EeCCCC---CcEE---EEEEEEEEecc
Confidence            763222   1011   39999998643

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.72  E-value=1.9e-08  Score=88.14  Aligned_cols=87  Identities=13%  Similarity=0.057  Sum_probs=58.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchH
Q 003457          359 MVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMK  436 (818)
Q Consensus       359 Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~  436 (818)
                      -...+.+.|++++|+..|+++ ...| +...|..+..++.+.|++++|++.++++++++|+++.+|..++.++...|+++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            344566667777777777666 2233 46667777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHH
Q 003457          437 MQLEILLVQ  445 (818)
Q Consensus       437 eA~~l~~~~  445 (818)
                      +|++.++..
T Consensus        89 ~A~~~~~~a   97 (117)
T d1elwa_          89 EAKRTYEEG   97 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777755555

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.62  E-value=5.5e-08  Score=93.44  Aligned_cols=114  Identities=8%  Similarity=-0.152  Sum_probs=69.9

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHH
Q 003457          315 PNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALL  392 (818)
Q Consensus       315 pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li  392 (818)
                      |+...+...+..+.+.|++++|+..|+++++.  .+.+...|..+..+|.+.|++++|+..|+++ ...| +..+|..++
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            55555666666666677777777777666654  3445666666666666666666666666666 2344 355666666


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          393 AACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       393 ~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      .+|.+.|++++|+..|++++++.|++...+...+..+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l  117 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSAL  117 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            66666666666666666666666654444443333333

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.62  E-value=3.1e-07  Score=80.15  Aligned_cols=107  Identities=21%  Similarity=0.070  Sum_probs=93.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcC
Q 003457          322 GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHG  399 (818)
Q Consensus       322 ~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g  399 (818)
                      .-...+.+.|++++|+..|+++++.  .+.+...|..+..+|.+.|++++|++.++++ ...| +...|..+..++...|
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHcc
Confidence            3466788899999999999999886  5667888999999999999999999999988 3334 6889999999999999


Q ss_pred             CHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 003457          400 NIEVAERVVKEIIALEPNNHGVYVVLSNMYA  430 (818)
Q Consensus       400 ~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~  430 (818)
                      ++++|+..|+++++++|+++.++..+..+-.
T Consensus        86 ~~~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             CHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            9999999999999999999998888876654

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.58  E-value=8.4e-07  Score=81.89  Aligned_cols=118  Identities=9%  Similarity=-0.004  Sum_probs=100.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcC
Q 003457          322 GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHG  399 (818)
Q Consensus       322 ~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g  399 (818)
                      .....|.+.|++++|+..|+++++.  .+.+...|..+..+|.+.|++++|++.|+++ ...| +...|..++.++...|
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcC
Confidence            3466788999999999999999986  5667889999999999999999999999988 3445 5789999999999999


Q ss_pred             CHHHHHHHHHHHHhcCCCCcchHHHHHHHHH--HhhchHHHHHH
Q 003457          400 NIEVAERVVKEIIALEPNNHGVYVVLSNMYA--EAESMKMQLEI  441 (818)
Q Consensus       400 ~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~--~~G~~~eA~~l  441 (818)
                      ++++|++.+++++++.|+++.++..+..+..  +.+.+++|...
T Consensus        93 ~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          93 KFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999999999888876643  44556667654

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.57  E-value=3.1e-07  Score=87.94  Aligned_cols=95  Identities=6%  Similarity=-0.090  Sum_probs=56.8

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCC-CHHHHHHH
Q 003457          281 NIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEP-KIEHYGCM  359 (818)
Q Consensus       281 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p-~~~~~~~L  359 (818)
                      +...+......|.+.|++++|+..|+++++..+. +...|..+..+|.+.|++++|+..|+++++   +.| +...|..+
T Consensus         3 ~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~---l~p~~~~a~~~l   78 (201)
T d2c2la1           3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALE---LDGQSVKAHFFL   78 (201)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SCTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHH---hCCCcHHHHHHH
Confidence            3344445556666666666666666666655322 455566666666666666666666666553   333 35566666


Q ss_pred             HHHHHHcCCHHHHHHHHHHc
Q 003457          360 VDLLGRCGKVLEAEELIKRM  379 (818)
Q Consensus       360 i~~~~~~g~~~~A~~~~~~m  379 (818)
                      ..+|.+.|++++|+..|+++
T Consensus        79 g~~~~~l~~~~~A~~~~~~a   98 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRA   98 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHH
Confidence            66666666666666666654

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.54  E-value=1.5e-06  Score=82.93  Aligned_cols=139  Identities=7%  Similarity=-0.063  Sum_probs=84.1

Q ss_pred             HHHHHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 003457          258 VHMYTKNGALAKAKALFDSMPERNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGR  337 (818)
Q Consensus       258 i~~~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~  337 (818)
                      ...+...|++++|++.|+++.+++...|..+..+|...|++++|++.|++.++..+. +...|..+..+|.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHHHHH
Confidence            344566677777777777766666666767777777777777777777777665432 4566666666677777777777


Q ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC--CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Q 003457          338 QIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV--WKPD-VVMWGALLAACKNHGNIEVAERVVKEIIAL  414 (818)
Q Consensus       338 ~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~--~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~  414 (818)
                      ..|++.+..  .+.+...                   -+....  .+.+ ..++..+..++.+.|++++|++.+++++++
T Consensus        91 ~~~~kAl~~--~~~n~~~-------------------~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          91 KDLKEALIQ--LRGNQLI-------------------DYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHT--TTTCSEE-------------------ECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHh--CccCchH-------------------HHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            666665542  1111000                   000000  0111 244556666777788888888888887777


Q ss_pred             CCCC
Q 003457          415 EPNN  418 (818)
Q Consensus       415 ~P~~  418 (818)
                      .|+.
T Consensus       150 ~~~~  153 (192)
T d1hh8a_         150 KSEP  153 (192)
T ss_dssp             CCSG
T ss_pred             CCCc
Confidence            7764

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.53  E-value=1.2e-06  Score=89.50  Aligned_cols=205  Identities=11%  Similarity=-0.002  Sum_probs=113.7

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 003457          186 TMISGYAQSFRANEALMLFDQMLME----GFEP-NSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHM  260 (818)
Q Consensus       186 ~Li~~~~~~g~~~~A~~l~~~m~~~----g~~p-d~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~  260 (818)
                      .....|...+++++|.+.|.++.+.    +-++ -..+|..+..+|.+.|++++|...+++..+.               
T Consensus        42 ~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~---------------  106 (290)
T d1qqea_          42 QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQI---------------  106 (290)
T ss_dssp             HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHH---------------
Confidence            3577777888888888888777542    1111 1234555556666666666666555554432               


Q ss_pred             HHhCCCHHHHHHHHhhCCCCChhhHHHHHHHHHH-cCCHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHHcCCHH
Q 003457          261 YTKNGALAKAKALFDSMPERNIATWNAMISGLAS-HGHAEEALDLFRKLEKE----QIVPN-DITFVGVLSACCHAGFID  334 (818)
Q Consensus       261 ~~~~g~~~~A~~~f~~m~~~d~~~~~~Li~~~~~-~g~~~~A~~l~~~m~~~----g~~pd-~~t~~~ll~a~~~~g~~~  334 (818)
                      +.+.++...+           ...+..+...|.. .|++++|++.|++..+.    +..+. ..++..+...+.+.|+++
T Consensus       107 ~~~~~~~~~~-----------~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~  175 (290)
T d1qqea_         107 FTHRGQFRRG-----------ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYI  175 (290)
T ss_dssp             HHHTTCHHHH-----------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             hhhcccchhH-----------HHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHH
Confidence            1122222222           1234444555533 47777777777765431    11111 234566677778888888


Q ss_pred             HHHHHHHHHHHHhCCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCCC------HHHHHHHHHHHHH--cCC
Q 003457          335 VGRQIFGSMKRVYGIEPK-----IEHYGCMVDLLGRCGKVLEAEELIKRMV-WKPD------VVMWGALLAACKN--HGN  400 (818)
Q Consensus       335 ~A~~~~~~m~~~~g~~p~-----~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~pd------~~~~~~Li~a~~~--~g~  400 (818)
                      +|...|+++.......+.     ...+...+..+...|+++.|.+.|+++. ..|.      ......++.++..  .+.
T Consensus       176 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~  255 (290)
T d1qqea_         176 EASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQ  255 (290)
T ss_dssp             HHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTT
T ss_pred             HHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHH
Confidence            888888877664211111     1233445556667788888888888773 2221      2344555655544  345


Q ss_pred             HHHHHHHHHHHHhcCC
Q 003457          401 IEVAERVVKEIIALEP  416 (818)
Q Consensus       401 ~~~A~~~~~~~~~~~P  416 (818)
                      +++|+..|+++.+++|
T Consensus       256 ~~eai~~y~~~~~lD~  271 (290)
T d1qqea_         256 LSEHCKEFDNFMRLDK  271 (290)
T ss_dssp             HHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHHHHhhcCH
Confidence            7777777776666654

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.51  E-value=1.5e-07  Score=87.06  Aligned_cols=103  Identities=11%  Similarity=0.038  Sum_probs=89.5

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          357 GCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       357 ~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      ......|.+.|++++|+..|+++ ...| +...|..+..+|...|++++|++.|+++++++|++..+|..++.+|...|+
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCC
Confidence            34566788999999999999998 3445 688999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeee
Q 003457          435 MKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLL  481 (818)
Q Consensus       435 ~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l  481 (818)
                      +++|++.++...                      +++|+++.++..+
T Consensus        94 ~~eA~~~~~~a~----------------------~~~p~~~~~~~~l  118 (159)
T d1a17a_          94 FRAALRDYETVV----------------------KVKPHDKDAKMKY  118 (159)
T ss_dssp             HHHHHHHHHHHH----------------------HHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHH----------------------HcCCCCHHHHHHH
Confidence            999999776664                      6778777665544

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.46  E-value=6.3e-07  Score=77.45  Aligned_cols=89  Identities=13%  Similarity=0.054  Sum_probs=80.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          357 GCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       357 ~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      ..+...+.+.|++++|+..|+++ ...| +...|..+..++.+.|++++|+..|+++++++|++..++..++.+|...|+
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCC
Confidence            34566788999999999999998 3455 588999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHH
Q 003457          435 MKMQLEILLVQ  445 (818)
Q Consensus       435 ~~eA~~l~~~~  445 (818)
                      +++|++.++.+
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999987765

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.45  E-value=3e-06  Score=79.05  Aligned_cols=92  Identities=11%  Similarity=-0.026  Sum_probs=79.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHH
Q 003457          354 EHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAE  431 (818)
Q Consensus       354 ~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~  431 (818)
                      .+|+.+..+|.+.|++++|++.++++ ...| +..+|..++.+|...|++++|+..|+++++++|+++.+...+..+..+
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~  142 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQR  142 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            46778889999999999999999988 3455 688999999999999999999999999999999999999999999988


Q ss_pred             hhchHHHHH-HHHHH
Q 003457          432 AESMKMQLE-ILLVQ  445 (818)
Q Consensus       432 ~G~~~eA~~-l~~~~  445 (818)
                      .++..+..+ .+..+
T Consensus       143 ~~~~~~~e~~~~~~~  157 (170)
T d1p5qa1         143 IRRQLAREKKLYANM  157 (170)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            887777655 44443

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.45  E-value=7.2e-06  Score=78.07  Aligned_cols=117  Identities=16%  Similarity=0.045  Sum_probs=85.3

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCH
Q 003457          324 LSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNI  401 (818)
Q Consensus       324 l~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~  401 (818)
                      ...+...|+++.|++.|.++     .+|+..+|..+..+|.+.|++++|++.|+++ ...| +...|..+..+|.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccH
Confidence            33456667777777776653     3456667777777777777777777777776 2334 477777788888888888


Q ss_pred             HHHHHHHHHHHhcCCCC----------------cchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          402 EVAERVVKEIIALEPNN----------------HGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       402 ~~A~~~~~~~~~~~P~~----------------~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ++|++.|++++...|.+                .+.+..++.++.+.|++++|.+.++..
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A  146 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALA  146 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            88888888887754432                256788999999999999999976554

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.42  E-value=2.8e-06  Score=86.66  Aligned_cols=187  Identities=13%  Similarity=0.041  Sum_probs=126.2

Q ss_pred             HHHHHHhCCCHHHHHHHHhhCCC-----CC----hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-C----HHHHHH
Q 003457          257 LVHMYTKNGALAKAKALFDSMPE-----RN----IATWNAMISGLASHGHAEEALDLFRKLEKEQIVP-N----DITFVG  322 (818)
Q Consensus       257 Li~~~~~~g~~~~A~~~f~~m~~-----~d----~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~p-d----~~t~~~  322 (818)
                      ...+|...+++++|.+.|.++.+     .+    ..+|..+..+|.+.|++++|++.+++..+.-... +    ..++..
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHH
Confidence            35567777788887777776653     11    3478888889999999999999998765421111 1    345556


Q ss_pred             HHHHHHH-cCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHcC-CCC-------C-HHHH
Q 003457          323 VLSACCH-AGFIDVGRQIFGSMKRVYGIEPK----IEHYGCMVDLLGRCGKVLEAEELIKRMV-WKP-------D-VVMW  388 (818)
Q Consensus       323 ll~a~~~-~g~~~~A~~~~~~m~~~~g~~p~----~~~~~~Li~~~~~~g~~~~A~~~~~~m~-~~p-------d-~~~~  388 (818)
                      +...|.. .+++++|.+.|++..+......+    ..++..+...|.+.|++++|++.|+++. ..+       . ...+
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~  202 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYF  202 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHH
Confidence            6666754 69999999999987654211222    4567889999999999999999999872 111       1 1234


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcc-----hHHHHHHHHHH--hhchHHHHHHHH
Q 003457          389 GALLAACKNHGNIEVAERVVKEIIALEPNNHG-----VYVVLSNMYAE--AESMKMQLEILL  443 (818)
Q Consensus       389 ~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~-----~y~~L~~~l~~--~G~~~eA~~l~~  443 (818)
                      ...+..+...|+++.|.+.++++.+++|....     .+..++.++..  .+++++|++.++
T Consensus       203 ~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~  264 (290)
T d1qqea_         203 LKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFD  264 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            45555677899999999999999999886443     23445555543  345788887654

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=1.2e-06  Score=76.93  Aligned_cols=110  Identities=14%  Similarity=-0.041  Sum_probs=90.8

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHcC-CCCC---HHHHHHHHH
Q 003457          321 VGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGK---VLEAEELIKRMV-WKPD---VVMWGALLA  393 (818)
Q Consensus       321 ~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~---~~~A~~~~~~m~-~~pd---~~~~~~Li~  393 (818)
                      ..+++.+...+++++|++.|++.+..  -+.+..++..+..++.+.++   +++|+++|+++. ..|+   ..+|..|..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            45778888899999999999999886  56678899999999987555   457999999984 3343   247888999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHh
Q 003457          394 ACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEA  432 (818)
Q Consensus       394 a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~  432 (818)
                      +|.+.|++++|++.|+++++++|++..+...+..+..+.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~~~  119 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDKAM  119 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999998887777665544

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.31  E-value=9.8e-07  Score=82.52  Aligned_cols=124  Identities=10%  Similarity=0.020  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 003457          319 TFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPDVVMWGALLAACKNH  398 (818)
Q Consensus       319 t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~  398 (818)
                      .+...+..+.+.|++++|+..|.+.++.....+...               ..-......+    ...+|..+..+|.+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~---------------~~~~~~~~~~----~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFS---------------NEEAQKAQAL----RLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCC---------------SHHHHHHHHH----HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccc---------------hHHHhhhchh----HHHHHHHHHHHHHhh
Confidence            344455666777777777777777665422111100               0000000000    124677788899999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcce
Q 003457          399 GNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPF  478 (818)
Q Consensus       399 g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~  478 (818)
                      |++++|+..++++++++|+++.+|..++.+|...|++++|+..++...                      +++|+++.+.
T Consensus        76 ~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al----------------------~l~P~n~~~~  133 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVL----------------------QLYPNNKAAK  133 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH----------------------HHCSSCHHHH
T ss_pred             hhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHH----------------------HhCCCCHHHH
Confidence            999999999999999999999999999999999999999999777764                      8889888776


Q ss_pred             eeecC
Q 003457          479 VLLNG  483 (818)
Q Consensus       479 v~l~~  483 (818)
                      ..++.
T Consensus       134 ~~l~~  138 (170)
T d1p5qa1         134 TQLAV  138 (170)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65544

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.27  E-value=1.4e-05  Score=74.14  Aligned_cols=92  Identities=9%  Similarity=-0.042  Sum_probs=79.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHH
Q 003457          354 EHYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAE  431 (818)
Q Consensus       354 ~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~  431 (818)
                      .+|..+..+|.+.|++++|+..++++ ...| +...|..+..++...|++++|+..|+++++++|++..+...+..+..+
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~  144 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKK  144 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            45777888999999999999999988 3334 688999999999999999999999999999999999999999999888


Q ss_pred             hhchHHHHH-HHHHH
Q 003457          432 AESMKMQLE-ILLVQ  445 (818)
Q Consensus       432 ~G~~~eA~~-l~~~~  445 (818)
                      .++..+..+ ++..|
T Consensus       145 ~~~~~e~~kk~~~~~  159 (168)
T d1kt1a1         145 AKEHNERDRRTYANM  159 (168)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHH
Confidence            887776555 55444

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.27  E-value=5.9e-08  Score=107.82  Aligned_cols=146  Identities=12%  Similarity=-0.025  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHH--HHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 003457          298 AEEALDLFRKLEKEQIVPNDITFVGVL--SACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEEL  375 (818)
Q Consensus       298 ~~~A~~l~~~m~~~g~~pd~~t~~~ll--~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~  375 (818)
                      +..+++.+++..+....++.......+  ......+.++.+++.++.....  .+++...+..+...+.+.|+.++|...
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l--~~~~~~~~~~lg~~~~~~~~~~~A~~~  142 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNV--DLPCRVKSSQLGIISNKQTHTSAIVKP  142 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--ChhhHHHHHHhHHHHHhCCCHHHHHHH
Confidence            345666666666543333332222111  1222334455555544443321  223456677778888888888888877


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          376 IKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       376 ~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +++........++..++..+...|++++|+..|+++++++|++...|+.||.++...|+..+|...+...
T Consensus       143 ~~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ra  212 (497)
T d1ya0a1         143 QSSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRS  212 (497)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            7665211124567778888889999999999999999999999999999999999999999999865544

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.26  E-value=0.00029  Score=69.77  Aligned_cols=92  Identities=14%  Similarity=-0.033  Sum_probs=47.7

Q ss_pred             CHHHHHHHHHHHHH----cCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhcCCCCcchHH
Q 003457          352 KIEHYGCMVDLLGR----CGKVLEAEELIKRMVWKPDVVMWGALLAACKN----HGNIEVAERVVKEIIALEPNNHGVYV  423 (818)
Q Consensus       352 ~~~~~~~Li~~~~~----~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~----~g~~~~A~~~~~~~~~~~P~~~~~y~  423 (818)
                      +...+..|...|..    ..+...+...++......+......|...|..    ..++++|+.+|+++.+.+  ++.++.
T Consensus       141 ~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~  218 (265)
T d1ouva_         141 DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--NGGGCF  218 (265)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--CHHHHH
T ss_pred             ccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc--CHHHHH
Confidence            33444444444443    33445555555554333345555555544443    445666666666665553  355666


Q ss_pred             HHHHHHHH----hhchHHHHHHHHHH
Q 003457          424 VLSNMYAE----AESMKMQLEILLVQ  445 (818)
Q Consensus       424 ~L~~~l~~----~G~~~eA~~l~~~~  445 (818)
                      .|+.+|.+    ..++++|.+.++..
T Consensus       219 ~LG~~y~~G~g~~~n~~~A~~~~~kA  244 (265)
T d1ouva_         219 NLGAMQYNGEGVTRNEKQAIENFKKG  244 (265)
T ss_dssp             HHHHHHHTTSSSSCCSTTHHHHHHHH
T ss_pred             HHHHHHHcCCCCccCHHHHHHHHHHH
Confidence            66666654    22566666655444

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.22  E-value=0.00031  Score=69.54  Aligned_cols=225  Identities=9%  Similarity=-0.119  Sum_probs=168.8

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCcHHHHH
Q 003457          180 TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQ----SGCLELGEKVHVFVKMRGFEMGAILGT  255 (818)
Q Consensus       180 d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~----~g~~~~A~~i~~~~~~~g~~~~~~~~~  255 (818)
                      |+..+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...+...+....+.+   +.....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            56678888889999999999999999999876   66667777777765    568899999999988876   334444


Q ss_pred             HHHHHHHh----CCCHHHHHHHHhhCCCC-ChhhHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003457          256 ALVHMYTK----NGALAKAKALFDSMPER-NIATWNAMISGLAS----HGHAEEALDLFRKLEKEQIVPNDITFVGVLSA  326 (818)
Q Consensus       256 ~Li~~~~~----~g~~~~A~~~f~~m~~~-d~~~~~~Li~~~~~----~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  326 (818)
                      .|...+..    ..+.+.|...++...+. .......+...+..    ......+...+.+....   .+...+..+...
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~  151 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSL  151 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhh
Confidence            55555543    46788899988877653 44444445545543    45677888888877764   366777778887


Q ss_pred             HHH----cCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-
Q 003457          327 CCH----AGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR----CGKVLEAEELIKRMVWKPDVVMWGALLAACKN-  397 (818)
Q Consensus       327 ~~~----~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~----~g~~~~A~~~~~~m~~~pd~~~~~~Li~a~~~-  397 (818)
                      +..    ..+...+...++...+.    .+......|...|..    ..++++|+..|++....-+...+..|...|.+ 
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~a~~~----g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~~~a~~~LG~~y~~G  227 (265)
T d1ouva_         152 YDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQYNG  227 (265)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             hccCCCcccccccchhhhhccccc----cccccccchhhhcccCcccccchhhhhhhHhhhhcccCHHHHHHHHHHHHcC
Confidence            776    45677888888887653    467777788877876    67899999999998544577888888887765 


Q ss_pred             ---cCCHHHHHHHHHHHHhcCCC
Q 003457          398 ---HGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       398 ---~g~~~~A~~~~~~~~~~~P~  417 (818)
                         .++.++|.++|+++.+.+..
T Consensus       228 ~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         228 EGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             SSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             CCCccCHHHHHHHHHHHHHCcCH
Confidence               44899999999999988755

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.20  E-value=8.6e-06  Score=75.66  Aligned_cols=136  Identities=9%  Similarity=-0.006  Sum_probs=99.4

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Q 003457          284 TWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLL  363 (818)
Q Consensus       284 ~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~  363 (818)
                      .+......+...|++++|++.|+++++.            ...............+         .+.+...+..+..+|
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~~~~~~---------~~~~~~~~~nla~~~   87 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDADGAKL---------QPVALSCVLNIGACK   87 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHHHHGGG---------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhHHHHHh---------ChhhHHHHHHHHHHH
Confidence            3445566677788888888888776542            0000011111111000         112355778889999


Q ss_pred             HHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHH
Q 003457          364 GRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLE  440 (818)
Q Consensus       364 ~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~  440 (818)
                      .+.|++++|+..++++ ...| +...|..++.++.+.|++++|++.|+++++++|++..++..+..+..+.....++.+
T Consensus        88 ~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~~~k  166 (169)
T d1ihga1          88 LKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEK  166 (169)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999988 4455 588999999999999999999999999999999999999999988888777777654

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.18  E-value=1.7e-05  Score=72.27  Aligned_cols=131  Identities=11%  Similarity=-0.022  Sum_probs=92.6

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Q 003457          283 ATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDL  362 (818)
Q Consensus       283 ~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~  362 (818)
                      ..+......+.+.|++++|+..|+++++.-....             ...-.........        ....+|..+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~-------------~~~~~~~~~~~~~--------~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTE-------------EWDDQILLDKKKN--------IEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCT-------------TCCCHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchh-------------hhhhHHHHHhhhh--------HHHHHHhhHHHH
Confidence            3455566677778888888888877765311100             0000000000000        113467788999


Q ss_pred             HHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc
Q 003457          363 LGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES  434 (818)
Q Consensus       363 ~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~  434 (818)
                      |.+.|++++|++.++++ ...| +..+|..++.++...|++++|+..|+++++++|++..+...+..+..+.++
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~kl~~  150 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKLKE  150 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999987 3445 689999999999999999999999999999999999988888777665543

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.17  E-value=5.5e-06  Score=75.74  Aligned_cols=73  Identities=14%  Similarity=0.019  Sum_probs=65.2

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCC
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFES  465 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~  465 (818)
                      .+|..+..+|.+.|++++|++.++++++++|++..+|..++.+|...|++++|+..++...                   
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al-------------------  128 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAA-------------------  128 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-------------------
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHH-------------------
Confidence            4678889999999999999999999999999999999999999999999999999777664                   


Q ss_pred             CCCCCCCCCCcceee
Q 003457          466 PPTNLTPNRSTPFVL  480 (818)
Q Consensus       466 ~~lel~P~~~~~~v~  480 (818)
                         +++|+++.+...
T Consensus       129 ---~l~P~n~~~~~~  140 (153)
T d2fbna1         129 ---SLNPNNLDIRNS  140 (153)
T ss_dssp             ---HHSTTCHHHHHH
T ss_pred             ---HhCCCCHHHHHH
Confidence               788888765443

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.14  E-value=1.4e-06  Score=81.21  Aligned_cols=76  Identities=12%  Similarity=0.046  Sum_probs=66.9

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCC
Q 003457          384 DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDF  463 (818)
Q Consensus       384 d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~  463 (818)
                      +...|..+..++.+.|++++|+..++++++++|+++.+|..++.+|.+.|++++|++.++..+                 
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al-----------------  138 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQ-----------------  138 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-----------------
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHH-----------------
Confidence            356788888999999999999999999999999999999999999999999999999776664                 


Q ss_pred             CCCCCCCCCCCCcceeee
Q 003457          464 ESPPTNLTPNRSTPFVLL  481 (818)
Q Consensus       464 ~~~~lel~P~~~~~~v~l  481 (818)
                           +++|+++.++..+
T Consensus       139 -----~l~p~n~~~~~~l  151 (169)
T d1ihga1         139 -----EIAPEDKAIQAEL  151 (169)
T ss_dssp             -----HHCTTCHHHHHHH
T ss_pred             -----HhCCCCHHHHHHH
Confidence                 7888887665444

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.08  E-value=1.2e-06  Score=76.91  Aligned_cols=103  Identities=9%  Similarity=0.004  Sum_probs=85.2

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcC---CHHHHHHHHHHHHhcCCCC--cchHHHHHHHH
Q 003457          357 GCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHG---NIEVAERVVKEIIALEPNN--HGVYVVLSNMY  429 (818)
Q Consensus       357 ~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g---~~~~A~~~~~~~~~~~P~~--~~~y~~L~~~l  429 (818)
                      ..+++.+...+++++|++.|+++ ...| +..++..+..++.+.+   ++++|+.+++++++.+|.+  ..++..|+.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            46778888999999999999998 3344 6889999999887654   4567999999999988764  45899999999


Q ss_pred             HHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCCCcceeee
Q 003457          430 AEAESMKMQLEILLVQVLFAGLASAADILQNPDFESPPTNLTPNRSTPFVLL  481 (818)
Q Consensus       430 ~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~lel~P~~~~~~v~l  481 (818)
                      .+.|++++|++.++..+                      +++|++..+..++
T Consensus        83 ~~~g~~~~A~~~~~~aL----------------------~~~P~~~~A~~l~  112 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLL----------------------QTEPQNNQAKELE  112 (122)
T ss_dssp             HHTTCHHHHHHHHHHHH----------------------HHCTTCHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHH----------------------HhCcCCHHHHHHH
Confidence            99999999999887774                      8889887765443

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.02  E-value=4.2e-06  Score=77.81  Aligned_cols=75  Identities=7%  Similarity=-0.006  Sum_probs=66.2

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCCCCC
Q 003457          386 VMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADILQNPDFES  465 (818)
Q Consensus       386 ~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~  465 (818)
                      .+|..+..+|.+.|++++|+..++++++++|++..+|..++.+|...|++++|++.++...                   
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al-------------------  125 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVL-------------------  125 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-------------------
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHH-------------------
Confidence            4567788889999999999999999999999999999999999999999999999776664                   


Q ss_pred             CCCCCCCCCCcceeeec
Q 003457          466 PPTNLTPNRSTPFVLLN  482 (818)
Q Consensus       466 ~~lel~P~~~~~~v~l~  482 (818)
                         +++|+++.++..+.
T Consensus       126 ---~l~P~n~~~~~~l~  139 (168)
T d1kt1a1         126 ---EVNPQNKAARLQIF  139 (168)
T ss_dssp             ---HSCTTCHHHHHHHH
T ss_pred             ---HhCCCCHHHHHHHH
Confidence               88899887665543

>d1h6ya_ b.18.1.7 (A:) Xylan-binding domain {Clostridium thermocellum [TaxId: 1515]}

class: All beta proteins
fold: Galactose-binding domain-like
superfamily: Galactose-binding domain-like
family: CBM22
domain: Xylan-binding domain
species: Clostridium thermocellum [TaxId: 1515]

Probab=98.00  E-value=4.3e-05  Score=69.59  Aligned_cols=136  Identities=15%  Similarity=0.199  Sum_probs=77.9

Q ss_pred             CCCcccCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEec--eeeeecCCceeccCCCeeEEecC----Cccceee
Q 003457          628 NDNLLLNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIG--TVKYIDSKHFYVPKGNAAIEIVS----VSAGIQT  701 (818)
Q Consensus       628 ~~~l~~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~--~v~~i~~~~~~~~~g~~~~~l~~----~~~~~q~  701 (818)
                      ..|+|-||+||+|.                       .||...|  .++-.. +  ..-.|.+++++.+    ...+.|.
T Consensus         3 ~~~~~~n~~FE~G~-----------------------~gW~~~g~~~~~~~~-~--~a~~G~~s~~~~~~~~~~~~~~~~   56 (157)
T d1h6ya_           3 ANGYYYHDTFEGSV-----------------------GQWTARGPAEVLLSG-R--TAYKGSESLLVRNRTAAWNGAQRA   56 (157)
T ss_dssp             TTSEEEEECCSSCC-----------------------TTCEEESSCEEEEES-S--CCSSTTCEEEEECCSSTTCEEEEE
T ss_pred             CCccEEcCcccCCC-----------------------CCeEECCCCeEEEcc-C--CccCCceEEEEEeccCCCCceeEE
Confidence            46999999999852                       3687644  344322 2  3448999999865    2334455


Q ss_pred             eec-cccCCCeEEEEEecCcccCccccceEEEEee--CCcceeeE--EEecc-cCCceee-eEEEEeccceeeEEEEe--
Q 003457          702 ATT-MLTEGSAYNLDFTLGDAKDACEGMFVVRVQA--GSLVQNFT--VQSLG-TGSVIKH-SVTFKAGSGSTPISFIS--  772 (818)
Q Consensus       702 ~~~-~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~--~~~~~~~~--~~~~~-~~~~~~~-~~~f~a~~~~~~~~f~~--  772 (818)
                      +.. -.+||++|+++|.+-.....-.....+.+..  ++......  ..... ++.|... ...|++.++.+.+.|+-  
T Consensus        57 ~~~~~l~~g~tY~~s~~vk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~~~~~~~~~~~~~~~~~l~~~~  136 (157)
T d1h6ya_          57 LNPRTFVPGNTYCFSVVASFIEGASSTTFCMKLQYVDGSGTQRYDTIDMKTVGPNQWVHLYNPQYRIPSDATDMYVYVAT  136 (157)
T ss_dssp             CCTTTSCTTCEEEEEEEEECCSSSSCEEEEEEEEEECTTSCEEEEEEEEEEECTTCCEEEEEEEEECCTTCEEEEEEEEE
T ss_pred             ecceeccCCCEEEEEEEEEeCCCCcceeEEEEEEEecCCCceeEEEeeEEEeccCccEEEEEEEEECCCCCcEEEEEEEC
Confidence            431 1689999999998531111111112222222  22222111  12222 6678874 78999999887777653  


Q ss_pred             CcccccCCCCccccccceeeeeec
Q 003457          773 YNINQTKDGVFCGPLIDDVVLRAS  796 (818)
Q Consensus       773 ~~~~~~~~~~~~gp~~d~v~~~~~  796 (818)
                      +....+       =.||||.|.+.
T Consensus       137 ~~~~~~-------~yiDDv~~~~~  153 (157)
T d1h6ya_         137 ADDTIN-------FYIDEAIGAVA  153 (157)
T ss_dssp             SSCCCC-------EEEEEEEEEET
T ss_pred             CCCCce-------EEEeeEEEecc
Confidence            222111       26999999754

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.92  E-value=2.2e-05  Score=69.16  Aligned_cols=91  Identities=12%  Similarity=0.093  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcch-------HHHH
Q 003457          355 HYGCMVDLLGRCGKVLEAEELIKRM-VWKP-DVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGV-------YVVL  425 (818)
Q Consensus       355 ~~~~Li~~~~~~g~~~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~-------y~~L  425 (818)
                      .+..+...|.+.|++++|++.|+++ ...| +...+..+..+|.+.|++++|++.++++++++|++...       |..+
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            3456777888999999999999887 2344 68889999999999999999999999999999887654       4556


Q ss_pred             HHHHHHhhchHHHHHHHHHH
Q 003457          426 SNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       426 ~~~l~~~G~~~eA~~l~~~~  445 (818)
                      +.++...+++++|++.++..
T Consensus        86 g~~~~~~~~~~~A~~~~~ka  105 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKS  105 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHH
Confidence            66677777888888876554

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.90  E-value=5.6e-05  Score=64.66  Aligned_cols=88  Identities=6%  Similarity=-0.090  Sum_probs=50.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC
Q 003457          288 MISGLASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCG  367 (818)
Q Consensus       288 Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g  367 (818)
                      +...+.+.|++++|+..|++.++..+. +...|..+..++.+.+++++|+..|++.++.  .+.+...+..+...|...|
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHCC
Confidence            444555566666666666666554322 4555555566666666666666666665553  3334555555666666666


Q ss_pred             CHHHHHHHHHH
Q 003457          368 KVLEAEELIKR  378 (818)
Q Consensus       368 ~~~~A~~~~~~  378 (818)
                      ++++|++.|++
T Consensus        99 ~~~~A~~~l~~  109 (112)
T d1hxia_          99 NANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            66666655554

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=3.5e-06  Score=93.10  Aligned_cols=218  Identities=6%  Similarity=-0.085  Sum_probs=103.9

Q ss_pred             HHHHHHHHhhc--C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCChhHHHHHHHHHH
Q 003457          168 NARQVFDEIRN--R-TLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSV-TLASVLSACAQSGCLELGEKVHVFVK  243 (818)
Q Consensus       168 ~A~~l~~~m~~--~-d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~-t~~~ll~~~~~~g~~~~A~~i~~~~~  243 (818)
                      +|.+.|++..+  + ...+|..+..++...+++++|   |++++..  .|+.. .+..  ....-...+..+...++...
T Consensus         4 eA~q~~~qA~~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~--dp~~a~~~~~--e~~Lw~~~y~~~ie~~r~~~   76 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADMTDSKLGPAEVWTSRQALQDL---YQKMLVT--DLEYALDKKV--EQDLWNHAFKNQITTLQGQA   76 (497)
T ss_dssp             HHHHHHHHHHHHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHH--CHHHHHHHTH--HHHHHHHHTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHc--ChhhHHHHhH--HHHHHHHHHHHHHHHHHHhc
Confidence            56677776653  2 233566677777777777765   6666554  22211 1111  00000112344555555555


Q ss_pred             HcCCCCcHHHH--HHHHHHHHhCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHH
Q 003457          244 MRGFEMGAILG--TALVHMYTKNGALAKAKALFDSMPE---RNIATWNAMISGLASHGHAEEALDLFRKLEKEQIVPNDI  318 (818)
Q Consensus       244 ~~g~~~~~~~~--~~Li~~~~~~g~~~~A~~~f~~m~~---~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~  318 (818)
                      +....++..-.  ..+...+...+.++.|+..++...+   ++...+..+...+.+.++.++|...+++..+..   ...
T Consensus        77 k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~  153 (497)
T d1ya0a1          77 KNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQH  153 (497)
T ss_dssp             SCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC-------------------------------CCHHHHHH---HHH
T ss_pred             ccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHH
Confidence            44322222111  1112223334556666666655443   344556666667777777777777666655421   124


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-C-CCCCHHHHHHHHHHHH
Q 003457          319 TFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-V-WKPDVVMWGALLAACK  396 (818)
Q Consensus       319 t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~-~~pd~~~~~~Li~a~~  396 (818)
                      ++..++..+...+++++|...|++..+.  .+.+...|+.|...|...|+..+|+..|.+. . ..|...++.+|...+.
T Consensus       154 ~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         154 CLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALS  231 (497)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            5666677777777777777777777764  3445667777777777777777777777766 2 3355666777666554


Q ss_pred             H
Q 003457          397 N  397 (818)
Q Consensus       397 ~  397 (818)
                      +
T Consensus       232 ~  232 (497)
T d1ya0a1         232 K  232 (497)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.85  E-value=2e-05  Score=71.10  Aligned_cols=71  Identities=13%  Similarity=0.102  Sum_probs=46.2

Q ss_pred             HHHHHHHHHc-CCCC-CHHHHHHHHHHHHHcC-----------CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchH
Q 003457          370 LEAEELIKRM-VWKP-DVVMWGALLAACKNHG-----------NIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMK  436 (818)
Q Consensus       370 ~~A~~~~~~m-~~~p-d~~~~~~Li~a~~~~g-----------~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~  436 (818)
                      ++|++.|+++ ...| +..+|..+..+|...|           ++++|.+.|+++++++|++...+..|.......+.+.
T Consensus        58 ~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~ka~~~~~  137 (145)
T d1zu2a1          58 QEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAKAPQLHA  137 (145)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTHHHHHH
T ss_pred             HHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHHHHHHHHHH
Confidence            4445555444 2233 3445555555544332           4688999999999999999888888887776666666


Q ss_pred             HHHH
Q 003457          437 MQLE  440 (818)
Q Consensus       437 eA~~  440 (818)
                      ++.+
T Consensus       138 e~~k  141 (145)
T d1zu2a1         138 EAYK  141 (145)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.84  E-value=5.4e-06  Score=75.01  Aligned_cols=62  Identities=15%  Similarity=0.236  Sum_probs=50.9

Q ss_pred             CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhc-----------hHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCC
Q 003457          399 GNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAES-----------MKMQLEILLVQVLFAGLASAADILQNPDFESPP  467 (818)
Q Consensus       399 g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~-----------~~eA~~l~~~~~~ll~~~~~~~~~~~~~~~~~~  467 (818)
                      +.+++|+..|+++++++|+++.+|..++.+|...|+           +++|.+.++..+                     
T Consensus        55 ~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal---------------------  113 (145)
T d1zu2a1          55 QMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAV---------------------  113 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH---------------------
T ss_pred             HHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhccc---------------------
Confidence            456899999999999999999999999999988775           577888666664                     


Q ss_pred             CCCCCCCCcceeeec
Q 003457          468 TNLTPNRSTPFVLLN  482 (818)
Q Consensus       468 lel~P~~~~~~v~l~  482 (818)
                       +++|++..++..|.
T Consensus       114 -~l~P~~~~~~~~L~  127 (145)
T d1zu2a1         114 -DEQPDNTHYLKSLE  127 (145)
T ss_dssp             -HHCTTCHHHHHHHH
T ss_pred             -ccCCCHHHHHHHHH
Confidence             78888877665554

>d1gu3a_ b.18.1.14 (A:) Cellulose-binding domain of cellulase C {Cellulomonas fimi [TaxId: 1708]}

class: All beta proteins
fold: Galactose-binding domain-like
superfamily: Galactose-binding domain-like
family: CBM4/9
domain: Cellulose-binding domain of cellulase C
species: Cellulomonas fimi [TaxId: 1708]

Probab=97.78  E-value=0.00019  Score=64.09  Aligned_cols=103  Identities=17%  Similarity=0.199  Sum_probs=60.3

Q ss_pred             cCCCeeEEecCC-----ccceee-eeccccCCCeEEEEEecCcccCccccceEEEEeeCC-cceeeEEEecc-cCCceee
Q 003457          684 PKGNAAIEIVSV-----SAGIQT-ATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGS-LVQNFTVQSLG-TGSVIKH  755 (818)
Q Consensus       684 ~~g~~~~~l~~~-----~~~~q~-~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~-~~~~~~~  755 (818)
                      -+|...+...++     ..+.|. +.  .++|++|+|+|.+   .-+-+....+.+...+ ......-++.- +..|+.|
T Consensus        21 ~~G~~~~~v~~~~~~w~~~~~~~~~~--l~~G~tY~lsf~a---k~~~~~~~~~~~~~~~~~~~~~~~~~~~lt~~w~~~   95 (142)
T d1gu3a_          21 STGALCVAVPAGSAQYGVGVVLNGVA--IEEGTTYTLRYTA---TASTDVTVRALVGQNGAPYGTVLDTSPALTSEPRQV   95 (142)
T ss_dssp             TTSSEEEEECTTCCTTSSEEEEEEEC--BCTTCEEEEEEEE---EESSCEECEEEEEESSTTCCEEEEECCEECSSCEEE
T ss_pred             cCCeEEEEEeCCCCCCeeEEEEccee--ecCCCEEEEEEEE---EeCCCCCEEEEEEEcCCCceeeeeeeEEcCCCCEEE
Confidence            367777776442     222353 55  8999999999994   3222333333332222 22233223333 7889999


Q ss_pred             eEEEEeccc----------eeeEEEEeCcccccCCCCccccccceeeeee
Q 003457          756 SVTFKAGSG----------STPISFISYNINQTKDGVFCGPLIDDVVLRA  795 (818)
Q Consensus       756 ~~~f~a~~~----------~~~~~f~~~~~~~~~~~~~~gp~~d~v~~~~  795 (818)
                      ++.|++..+          .++|.|+--+...++    +==.||||+|..
T Consensus        96 ~~~FT~~~~~~~~~~~~~~~~~l~F~~g~~~~~~----~t~~iDdV~L~~  141 (142)
T d1gu3a_          96 TETFTASATYPATPAADDPEGQIAFQLGGFSADA----WTLCLDDVALDS  141 (142)
T ss_dssp             EEEEECSSCBCSSCBTTBCCEEEEEECTTSCSSC----EEEEEEEEEEEE
T ss_pred             EEEEEecCcccccccccccceEEEEEeCCCCCCC----cEEEEEEEEEEe
Confidence            999998764          578999653222111    001499999874

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.77  E-value=0.011  Score=60.00  Aligned_cols=131  Identities=14%  Similarity=0.063  Sum_probs=56.8

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCCh
Q 003457          118 FTFVLKACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRA  197 (818)
Q Consensus       118 y~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~  197 (818)
                      ...+...|.+.|.++.|..+|..+..         |..++..|.+.++++.|.+++.+.  .+..+|..+...+.+....
T Consensus        17 ~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~--~~~~~~k~~~~~l~~~~e~   85 (336)
T d1b89a_          17 IQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEF   85 (336)
T ss_dssp             ------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc--CCHHHHHHHHHHHHhCcHH
Confidence            33344445555555555555543211         234445555555555555554433  2344555555555554443


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCC
Q 003457          198 NEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGFEMGAILGTALVHMYTKNG  265 (818)
Q Consensus       198 ~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~~~~~~~~~~Li~~~~~~g  265 (818)
                      .-|     .+.......+......++..|...|.+++...+++...... ..+...++.++.+|++.+
T Consensus        86 ~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          86 RLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC
T ss_pred             HHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC
Confidence            322     11122223344444555555555566666555555554332 344455555555555543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.77  E-value=0.00021  Score=62.47  Aligned_cols=96  Identities=7%  Similarity=0.002  Sum_probs=65.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcC----CCCC-----HHHHHH
Q 003457          320 FVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMV----WKPD-----VVMWGA  390 (818)
Q Consensus       320 ~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~----~~pd-----~~~~~~  390 (818)
                      +..++..+.+.|++++|+..|++.++.  .+.+...+..+..+|.+.|++++|++.++++.    ..+.     ..+|..
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            344566667777777777777776665  34456667777777777777777777776652    1111     246667


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 003457          391 LLAACKNHGNIEVAERVVKEIIALEPN  417 (818)
Q Consensus       391 Li~a~~~~g~~~~A~~~~~~~~~~~P~  417 (818)
                      +...+...+++++|++.|++.+...|+
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~~~~~  111 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLAEHRT  111 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCC
Confidence            777788888888888888888887765

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.59  E-value=0.00017  Score=59.49  Aligned_cols=77  Identities=16%  Similarity=0.122  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHcC--------CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHH
Q 003457          354 EHYGCMVDLLGRCGKVLEAEELIKRMV--------WKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVV  424 (818)
Q Consensus       354 ~~~~~Li~~~~~~g~~~~A~~~~~~m~--------~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~  424 (818)
                      ..+-.+...+.+.|++++|+..|+++.        ..++ ..++..|..++.+.|++++|+..++++++++|+++.++..
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~N   85 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGN   85 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHH
Confidence            344456677777788877777777661        1122 5788999999999999999999999999999999999988


Q ss_pred             HHHHHH
Q 003457          425 LSNMYA  430 (818)
Q Consensus       425 L~~~l~  430 (818)
                      +..+..
T Consensus        86 l~~~~~   91 (95)
T d1tjca_          86 LKYFEY   91 (95)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            865543

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.57  E-value=8.5e-05  Score=67.64  Aligned_cols=87  Identities=10%  Similarity=-0.044  Sum_probs=62.8

Q ss_pred             HHHHHHcCCHHHHHHHHHHcC----CCCC----------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC-------
Q 003457          360 VDLLGRCGKVLEAEELIKRMV----WKPD----------VVMWGALLAACKNHGNIEVAERVVKEIIALEPNN-------  418 (818)
Q Consensus       360 i~~~~~~g~~~~A~~~~~~m~----~~pd----------~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~-------  418 (818)
                      ...+.+.|++++|++.|++..    ..|+          ...|+.+..+|...|++++|++.+++++++.|+.       
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            334555666666666666651    1121          3578888888999999999999998888754421       


Q ss_pred             ----cchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          419 ----HGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       419 ----~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                          ..+|+.++.+|.+.|++++|++.++..+
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence                2367889999999999999999776663

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.50  E-value=3.8e-05  Score=63.59  Aligned_cols=75  Identities=12%  Similarity=-0.026  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC-------cchHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhhhc
Q 003457          385 VVMWGALLAACKNHGNIEVAERVVKEIIALEPNN-------HGVYVVLSNMYAEAESMKMQLEILLVQVLFAGLASAADI  457 (818)
Q Consensus       385 ~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~-------~~~y~~L~~~l~~~G~~~eA~~l~~~~~~ll~~~~~~~~  457 (818)
                      ...+-.++..+.+.|++++|+..|++++++.|.+       ..++..|+.++.+.|++++|++.++..+           
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL-----------   73 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLL-----------   73 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-----------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHH-----------
Confidence            3445568888999999999999999999876543       4679999999999999999999877764           


Q ss_pred             ccCCCCCCCCCCCCCCCCcceeee
Q 003457          458 LQNPDFESPPTNLTPNRSTPFVLL  481 (818)
Q Consensus       458 ~~~~~~~~~~lel~P~~~~~~v~l  481 (818)
                                 +++|+++.++..+
T Consensus        74 -----------~l~P~~~~a~~Nl   86 (95)
T d1tjca_          74 -----------ELDPEHQRANGNL   86 (95)
T ss_dssp             -----------HHCTTCHHHHHHH
T ss_pred             -----------HhCcCCHHHHHHH
Confidence                       8899998776544

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.47  E-value=0.00016  Score=71.93  Aligned_cols=128  Identities=10%  Similarity=0.035  Sum_probs=86.8

Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHH
Q 003457          292 LASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLE  371 (818)
Q Consensus       292 ~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~  371 (818)
                      ..+.|++++|+..+++.++..+. |...+..+...++..|++++|.+.++...+.  .+.+...+..+...+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHH
Confidence            34568888999998888887433 6778888888888889999999888888765  23335555555555555555555


Q ss_pred             HHHHHHHc-C-CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchH
Q 003457          372 AEELIKRM-V-WKPD-VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVY  422 (818)
Q Consensus       372 A~~~~~~m-~-~~pd-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y  422 (818)
                      +..-.... . ..|+ ...+...+..+...|+.++|.+.++++.+..|+.+..+
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~  136 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  136 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccc
Confidence            44333322 1 2232 33444445567788888888888888888888866553

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.45  E-value=0.0005  Score=63.94  Aligned_cols=112  Identities=13%  Similarity=0.005  Sum_probs=77.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 003457          322 GVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGK-VLEAEELIKRMVWKPDVVMWGALLAACKNHGN  400 (818)
Q Consensus       322 ~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~-~~~A~~~~~~m~~~pd~~~~~~Li~a~~~~g~  400 (818)
                      .........|++++|.+.|.+....+   +....    . .+ ..+. ......-++.    .....+..++..+...|+
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~---rG~~l----~-~~-~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREW---RGPVL----D-DL-RDFQFVEPFATALVE----DKVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC---CSSTT----G-GG-TTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC---ccccc----c-cC-cchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCC
Confidence            34456677788888888888877542   11100    0 00 0000 0011111111    124567888999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          401 IEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       401 ~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      +++|+..++++++.+|.+...|..++.+|.+.|++++|++.++...
T Consensus        83 ~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~  128 (179)
T d2ff4a2          83 ASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVK  128 (179)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999887664

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.39  E-value=0.035  Score=56.24  Aligned_cols=125  Identities=11%  Similarity=0.130  Sum_probs=65.6

Q ss_pred             HHHHHhhhhcCCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCh
Q 003457           52 RLLAFCALSSSGDLSYATRLFNSIQSPNHFMWNTLIRAQASSLNPDKAIFLYMNMRRTGFAPNQHTFTFVLKACSNVRSL  131 (818)
Q Consensus        52 ~Ll~~~a~~k~g~~e~A~~lf~~~~~p~~~~yn~Li~~~~~~g~~~~Al~lf~~m~~~g~~pd~~ty~~ll~~~~~~g~~  131 (818)
                      .+...|  .+.|.++.|..+|..+.     .|..++..+.+.++++.|.+++.+.-      +..+|..+...|.+....
T Consensus        19 ~i~~~c--~~~~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~~~~e~   85 (336)
T d1b89a_          19 QVGDRC--YDEKMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDGKEF   85 (336)
T ss_dssp             ------------CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHH--HHCCCHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHHHhCcHH
Confidence            334444  56677777777776553     24556666667777777766665431      455666666666665554


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhc---CCHHHHHHHHHHHHHc
Q 003457          132 NCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRN---RTLNVWTTMISGYAQS  194 (818)
Q Consensus       132 ~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~---~d~~~~~~Li~~~~~~  194 (818)
                      ..+     .+.......+......++..|-..|..++...+++....   .+...++.++..|++.
T Consensus        86 ~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          86 RLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTT
T ss_pred             HHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHh
Confidence            332     112222233444445566666666777766666665432   2444566666666554

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.34  E-value=0.0013  Score=59.28  Aligned_cols=94  Identities=13%  Similarity=0.005  Sum_probs=61.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHHhCCCCC----------HHHHHHHHHHHHHcCCHHHHHHHHHHcC--------CCCC--
Q 003457          325 SACCHAGFIDVGRQIFGSMKRVYGIEPK----------IEHYGCMVDLLGRCGKVLEAEELIKRMV--------WKPD--  384 (818)
Q Consensus       325 ~a~~~~g~~~~A~~~~~~m~~~~g~~p~----------~~~~~~Li~~~~~~g~~~~A~~~~~~m~--------~~pd--  384 (818)
                      ..+.+.|++++|++.|++.++...-.|+          ..+|+.+..+|.+.|++++|++.+++..        ..++  
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            3444556666666666665543222221          2456677777777777777777666651        1222  


Q ss_pred             ---HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 003457          385 ---VVMWGALLAACKNHGNIEVAERVVKEIIALEPNN  418 (818)
Q Consensus       385 ---~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~  418 (818)
                         ...+..+..+|...|++++|++.|++++++.|+.
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~  133 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  133 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence               2356778889999999999999999999886653

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.10  E-value=0.00017  Score=71.78  Aligned_cols=118  Identities=12%  Similarity=0.022  Sum_probs=87.3

Q ss_pred             HHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHc-CCCCC-HHHHHHHHHHHHHcCCHHHH
Q 003457          327 CCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRM-VWKPD-VVMWGALLAACKNHGNIEVA  404 (818)
Q Consensus       327 ~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m-~~~pd-~~~~~~Li~a~~~~g~~~~A  404 (818)
                      ..+.|++++|+..+++.++.  .+.|...+..++..|+..|++++|++.|+++ ...|+ ...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            34679999999999999885  6678899999999999999999999999998 44565 55666666555544444444


Q ss_pred             HHHHHHHHh-cCCCCcchHHHHHHHHHHhhchHHHHHHHHHHH
Q 003457          405 ERVVKEIIA-LEPNNHGVYVVLSNMYAEAESMKMQLEILLVQV  446 (818)
Q Consensus       405 ~~~~~~~~~-~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~~  446 (818)
                      .....+... ..|+....+...+..+.+.|+.++|.++++...
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~  126 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIE  126 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            333222211 235555666777888999999999999877764

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.96  E-value=0.0073  Score=55.64  Aligned_cols=120  Identities=10%  Similarity=0.010  Sum_probs=71.4

Q ss_pred             HHHHccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHH
Q 003457          123 KACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALM  202 (818)
Q Consensus       123 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~  202 (818)
                      ......|++++|.+.|.+.++....+ .         +......+.+...-..+.......+..+...+.+.|++++|+.
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~rG~-~---------l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~   88 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWRGP-V---------LDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIA   88 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCSS-T---------TGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCccc-c---------cccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHH
Confidence            44566677777777777766542110 0         0000111111112222222334566777777778888888888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH-----cCCCCcHHH
Q 003457          203 LFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKM-----RGFEMGAIL  253 (818)
Q Consensus       203 l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~-----~g~~~~~~~  253 (818)
                      .++++++.. +-+...|..++.++.+.|+.++|.+.|+++.+     .|+.|...+
T Consensus        89 ~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          89 ELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            888877764 55777777788888888888888877777644     366776544

>d1k42a_ b.18.1.14 (A:) Carbohydrate binding module from a thermostable xylanase {Rhodothermus marinus [TaxId: 29549]}

class: All beta proteins
fold: Galactose-binding domain-like
superfamily: Galactose-binding domain-like
family: CBM4/9
domain: Carbohydrate binding module from a thermostable xylanase
species: Rhodothermus marinus [TaxId: 29549]

Probab=96.53  E-value=0.057  Score=43.49  Aligned_cols=139  Identities=20%  Similarity=0.318  Sum_probs=79.6

Q ss_pred             cCCCCCcCCCCCCCCCcceeecCCCCCCCCCCCCcEEe-ce-e------eeecCCceeccCCCeeEEe--cC---Cccce
Q 003457          633 LNGGFEFGPDFLSNSTEGVLLESAPSPIQSALQQWSVI-GT-V------KYIDSKHFYVPKGNAAIEI--VS---VSAGI  699 (818)
Q Consensus       633 ~ng~fe~~p~~~~~~~~~~~~~~~~~~~~~~~~~w~~~-~~-v------~~i~~~~~~~~~g~~~~~l--~~---~~~~~  699 (818)
                      .||+||+.|.       |+++.     -....-||-.+ |. |      |.++.  --.|+|..-+-.  ++   +..-+
T Consensus         6 ing~festpa-------gvvtd-----la~gvegw~lnvgs~vtnppvfev~e~--~dap~g~kvlavtvng~gnnpwdi   71 (168)
T d1k42a_           6 INGGFESTPA-------GVVTD-----LAEGVEGWDLNVGSSVTNPPVFEVLET--SDAPEGNKVLAVTVNGVGNNPWDI   71 (168)
T ss_dssp             SSTTSSSSCS-------EECSC-----GGGSBTTEEEEECTTCCSCCEEEEEEC--TTCSSTTEEEEEEECCCCSSSCSE
T ss_pred             ccCccccCcc-------eeeee-----cccccceeEeeccccccCCCeEEEEec--cCCCCCceEEEEEecCCCCCccce
Confidence            6999999885       44433     12457789872 31 1      22221  246899875543  33   22222


Q ss_pred             --eeeeccccCCCeEEEEEecCcccCccccceEEEEeeCCcc----eeeEEEecccCCceeeeEEEEeccceeeEE--EE
Q 003457          700 --QTATTMLTEGSAYNLDFTLGDAKDACEGMFVVRVQAGSLV----QNFTVQSLGTGSVIKHSVTFKAGSGSTPIS--FI  771 (818)
Q Consensus       700 --q~~~~~~~~g~~y~~tf~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~f~a~~~~~~~~--f~  771 (818)
                        -.|...+.||-+|+-|.-   |... .--.++...||.++    +.++-|. -+..|+.|.|.|+-....|-|.  +|
T Consensus        72 eatafpvnv~pgvtytytiw---arae-qdgavvsftvgnqs~qeygrlheqq-ittewqp~tfeftvsdqetvirapih  146 (168)
T d1k42a_          72 EATAFPVNVRPGVTYTYTIW---ARAE-QDGAVVSFTVGNQSFQEYGRLHEQQ-ITTEWQPFTFEFTVSDQETVIRAPIH  146 (168)
T ss_dssp             EEEEEEEECCSSCEEEEEEE---EEES-SSCEEEEEEEECTTSCEEEEEEEEE-ECSSCEEEEEEEECSSCCSEEEEEEE
T ss_pred             eeeeeeeeccCCceEEEEEE---Eeec-cCCcEEEEEecchhHHHhhhhhhhh-ceecccceEEEEEeccceeEEEecee
Confidence              456555899999999887   3211 22245666777654    2333222 2678999999999887655332  22


Q ss_pred             eCcccccCCCCccccccceeeee
Q 003457          772 SYNINQTKDGVFCGPLIDDVVLR  794 (818)
Q Consensus       772 ~~~~~~~~~~~~~gp~~d~v~~~  794 (818)
                      = ||..+..   ---.||...|.
T Consensus       147 f-gyaan~g---ntiyid~l~ia  165 (168)
T d1k42a_         147 F-GYAANVG---NTIYIDGLAIA  165 (168)
T ss_dssp             E-CCGGGSS---EEEEEEEEEEE
T ss_pred             e-eeeccCC---CEEEEeEEEEe
Confidence            2 3332222   22357777664

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.76  E-value=1.4  Score=45.74  Aligned_cols=266  Identities=10%  Similarity=-0.016  Sum_probs=135.9

Q ss_pred             HHHHHHHhCCChHHHHHHHHHhhcCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh--cCCh
Q 003457          155 CLVRCYSVSSDLNNARQVFDEIRNRTLNVWTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQ--SGCL  232 (818)
Q Consensus       155 ~Li~~y~~~g~~~~A~~l~~~m~~~d~~~~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~--~g~~  232 (818)
                      .-+......|+...|..+...+..........++....   +...+......     ...+......+..++.+  ..+.
T Consensus       159 ~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~---~p~~~~~~~~~-----~~~~~~~~~~~~~~l~rla~~d~  230 (450)
T d1qsaa1         159 ERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLAN---NPNTVLTFART-----TGATDFTRQMAAVAFASVARQDA  230 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHH---CGGGHHHHHHH-----SCCCHHHHHHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHh---ChHhHHHHHhc-----CCCChhhhHHHHHHHHHHhccCh
Confidence            34444555566666666665554443333444443332   22222222111     12333333333333322  2466


Q ss_pred             hHHHHHHHHHHHcCCCCcHHHHH----HHHHHHHhCCCHHHHHHHHhhCCC--CChhhHHHHHHHHHHcCCHHHHHHHHH
Q 003457          233 ELGEKVHVFVKMRGFEMGAILGT----ALVHMYTKNGALAKAKALFDSMPE--RNIATWNAMISGLASHGHAEEALDLFR  306 (818)
Q Consensus       233 ~~A~~i~~~~~~~g~~~~~~~~~----~Li~~~~~~g~~~~A~~~f~~m~~--~d~~~~~~Li~~~~~~g~~~~A~~l~~  306 (818)
                      +.+...+........ .+..-..    .+...+...+..+.+...+.....  .+.....-++......+++..+...++
T Consensus       231 ~~a~~~l~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~al~~~~~~~~~~~~~  309 (450)
T d1qsaa1         231 ENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDRRGLNTWLA  309 (450)
T ss_dssp             HHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             hHHHHHHHhhhhccc-ccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHHHHHHHHcCChHHHHHHHH
Confidence            777777776665432 2222111    222222334555666665544332  233333334444556688888888887


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHcCCCCC-H
Q 003457          307 KLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLEAEELIKRMVWKPD-V  385 (818)
Q Consensus       307 ~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~pd-~  385 (818)
                      .|-.. ..-......-+..++...|+.+.|...|..+..    .++  -|..|.  ..+.|..-.. . .......+. .
T Consensus       310 ~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LA--a~~Lg~~~~~-~-~~~~~~~~~~~  378 (450)
T d1qsaa1         310 RLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVA--AQRIGEEYEL-K-IDKAPQNVDSA  378 (450)
T ss_dssp             HSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHH--HHHTTCCCCC-C-CCCCCSCCCCH
T ss_pred             hcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHH--HHHcCCCCCC-C-cCCCCccHHHh
Confidence            76432 222345556778888888998888888888653    233  233332  1223321000 0 000001111 1


Q ss_pred             HH---HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHH
Q 003457          386 VM---WGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       386 ~~---~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~  442 (818)
                      ..   -..-+..+...|+..+|...+..+.+..  ++.-...++.+..+.|.++.|+...
T Consensus       379 ~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~  436 (450)
T d1qsaa1         379 LTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQAT  436 (450)
T ss_dssp             HHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHH
Confidence            11   1122445678899999999888777543  2456667788888999999988754

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.75  E-value=1.5  Score=45.69  Aligned_cols=113  Identities=8%  Similarity=-0.032  Sum_probs=54.1

Q ss_pred             CCHHHHHHHHHHHHHHhCCCCCHHHHHHH----HHHHHHcCCHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHcCCHHHHH
Q 003457          331 GFIDVGRQIFGSMKRVYGIEPKIEHYGCM----VDLLGRCGKVLEAEELIKRMV-WKPDVVMWGALLAACKNHGNIEVAE  405 (818)
Q Consensus       331 g~~~~A~~~~~~m~~~~g~~p~~~~~~~L----i~~~~~~g~~~~A~~~~~~m~-~~pd~~~~~~Li~a~~~~g~~~~A~  405 (818)
                      .+.+.+...+..........+  .-+..+    ...+...+..+.|...++... ...+.....-.+......+++..+.
T Consensus       228 ~d~~~a~~~l~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~al~~~~~~~~~  305 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQLNE--DQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDRRGLN  305 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTCCH--HHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             cChhHHHHHHHhhhhcccccH--HHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHHHHHHHHcCChHHHH
Confidence            455666666666554422222  212111    112223344555555555442 1223333333333344556666666


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          406 RVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       406 ~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ..++.+-..........+=++..+...|+.++|...+...
T Consensus       306 ~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~  345 (450)
T d1qsaa1         306 TWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQL  345 (450)
T ss_dssp             HHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHH
Confidence            6665543222223445556666666777777766665554

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.86  E-value=0.035  Score=46.91  Aligned_cols=74  Identities=16%  Similarity=0.061  Sum_probs=51.2

Q ss_pred             CCCHHHHHHHHHHHHHcCC---HHHHHHHHHHcC-CCC-C-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHH
Q 003457          350 EPKIEHYGCMVDLLGRCGK---VLEAEELIKRMV-WKP-D-VVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYV  423 (818)
Q Consensus       350 ~p~~~~~~~Li~~~~~~g~---~~~A~~~~~~m~-~~p-d-~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~  423 (818)
                      .+...+--....++.+..+   .++++.+|++.. ..| + ...+..|..+|.+.|++++|++.++++++++|++..+..
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~~  111 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  111 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHHH
Confidence            3556666667777776654   457777777762 233 3 356667777788888888888888888888888665544

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=94.84  E-value=0.16  Score=43.45  Aligned_cols=110  Identities=9%  Similarity=-0.070  Sum_probs=64.6

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH----cCCHHHH
Q 003457          297 HAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGR----CGKVLEA  372 (818)
Q Consensus       297 ~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~----~g~~~~A  372 (818)
                      ++++|+++|++..+.|..   .....|.  .....+.++|.+.+++..+.    -+......|..+|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~----g~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhcc----cchhhhhhHHHhhhhccccchhhHHH
Confidence            566777777777666522   1222222  22345667777777776543    345555556665554    3456777


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhcC
Q 003457          373 EELIKRMVWKPDVVMWGALLAACKN----HGNIEVAERVVKEIIALE  415 (818)
Q Consensus       373 ~~~~~~m~~~pd~~~~~~Li~a~~~----~g~~~~A~~~~~~~~~~~  415 (818)
                      +++|++....-+......|...|.+    ..+.++|+++|+++.+.+
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            7777776433455555666665554    346777777777776654

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=94.41  E-value=0.33  Score=41.26  Aligned_cols=16  Identities=25%  Similarity=0.297  Sum_probs=8.3

Q ss_pred             ChhHHHHHHHHHHHcC
Q 003457           95 NPDKAIFLYMNMRRTG  110 (818)
Q Consensus        95 ~~~~Al~lf~~m~~~g  110 (818)
                      ++++|+.+|++..+.|
T Consensus         8 d~~~A~~~~~kaa~~g   23 (133)
T d1klxa_           8 DLKKAIQYYVKACELN   23 (133)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCC
Confidence            3455555555555443

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.13  E-value=0.22  Score=41.77  Aligned_cols=41  Identities=7%  Similarity=0.075  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHhcCCCC-cchHHHHHHHHHHhhchHHHHHHH
Q 003457          402 EVAERVVKEIIALEPNN-HGVYVVLSNMYAEAESMKMQLEIL  442 (818)
Q Consensus       402 ~~A~~~~~~~~~~~P~~-~~~y~~L~~~l~~~G~~~eA~~l~  442 (818)
                      ++|+.+++++++.+|.+ .+++..|+.+|.+.|++++|.+.+
T Consensus        55 ~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~   96 (124)
T d2pqrb1          55 RLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYV   96 (124)
T ss_dssp             HHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            34444444444444433 234444444455555555554433

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=90.60  E-value=3.9  Score=33.76  Aligned_cols=135  Identities=10%  Similarity=0.095  Sum_probs=90.6

Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCHHH
Q 003457          292 LASHGHAEEALDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVDLLGRCGKVLE  371 (818)
Q Consensus       292 ~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~A~~~~~~m~~~~g~~p~~~~~~~Li~~~~~~g~~~~  371 (818)
                      +.-.|..++..+++.+....   .+..-|+.++--....-+-+...+.++.+-+.+.+              ..+++...
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDl--------------s~C~Nlk~   74 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKS   74 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCc--------------hhhhcHHH
Confidence            45567888888888887764   35667777776666666666666666665443222              23444444


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhhchHHHHHHHHHH
Q 003457          372 AEELIKRMVWKPDVVMWGALLAACKNHGNIEVAERVVKEIIALEPNNHGVYVVLSNMYAEAESMKMQLEILLVQ  445 (818)
Q Consensus       372 A~~~~~~m~~~pd~~~~~~Li~a~~~~g~~~~A~~~~~~~~~~~P~~~~~y~~L~~~l~~~G~~~eA~~l~~~~  445 (818)
                      ....+-.+.  .+...+...++.+..+|+-+.-.++++..++-+.-+++....++.+|.+.|...+|-++++..
T Consensus        75 vv~C~~~~n--~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~A  146 (161)
T d1wy6a1          75 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEA  146 (161)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            444444442  345556666777888888888888888877655445888888889999999888888866554

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=90.13  E-value=4.3  Score=33.50  Aligned_cols=63  Identities=10%  Similarity=0.019  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCC
Q 003457          184 WTTMISGYAQSFRANEALMLFDQMLMEGFEPNSVTLASVLSACAQSGCLELGEKVHVFVKMRGF  247 (818)
Q Consensus       184 ~~~Li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~~~~~~g~~~~A~~i~~~~~~~g~  247 (818)
                      .+.-+....++|+-++-.++++.+.+.+ ++++.....+..+|.+.|...++..++.++-+.|.
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            3344555666677777777777755543 66666666677777777777777777777776664