Citrus Sinensis ID: 040040

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------87
Protein Sequence
SPFLALTTITRALKNKSVPEWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPTQTCHDIRDSACPLKRCLDKPQEKTNDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQLKNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESSGSITSFCSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLDEDFWAGDVNTTLQHLNEKMAKRRMTEVEYESETSMSEENEAEEEEENVGGDPSVCLRFILFNFHINDVLF
Secondary Structure (PSIPRED)
ccccHHHHHHHHHccccHHHHHHHHHHHccccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccEEEcccccccccccccccccccEEEEccccccEEccccccccccccccEEEEEcccccEEEccccccccccccccccEEEEEccccccccccccccccccccccEEEEEEccccccccccccccccccccEEEEEEccccEEEccccccccccccccccccccccccEEEEcccccccccccccccccccEEEcccccccccccccccccccccccccEEEEEcccccccccccccccccccccEEEEEccccccccccccccccccccccccccccEEEEcccccccccccccccccccccEEEEEcccccccccccccccccccccccccccccccccccEEEEEEcccccccccHHHHcccccccEEEEEccccccEEccccccccccccccccccccEEEEccccccccccccccccccccccccEEEEEccccccEEcccccEEEEccccccccccccccccccEEEEcccccccccccccccccccccccHHcccccccccccHHHHHHHccccccccccccccccccccccccccccccccEEEEcccccccccHHHHcccccccEEEccccccccccccccEEEccccccccccccccccccccccccccEEEEEcccccccccccccccccccEEEcccccccccccccccccccccccEEEEEcccccccccccccccccccEEEEcccccccccccHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHcccccccEEEEEEEEEEEcccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccccccEEEEEEEEHHccccHHHHHHHHHHHHcccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHcccccccccEEEEcccccHHEEcccccccccccccccccEEcHccHHccHHcccccccHHHHHcccEEEEcccccccccccHHHHHHHHHccEEEEcccccHHEEEcccccccccccccccccccccccEEEEcccccccccccHcccccccEEEEEEcccccHHccccccccccccccEEEEEccccccHHcccHHHHHHHHHHcEEEEcccccHEEEEcccccccccccEEEccccEEEEEcccccccEcccccccccccccEEEEEccccccEEccHHHHHHccccccccccccccccccEEEEEccccccEEcccHHHHHHHHHccEEEEcccccEEEEEcccccccccccccccccccEEEEcccccHHHHcccccccccEccccEEEEEEccccHHHcccccEEEEEccccccEEEEEEEcccccEEEEcccccccEccccccccccccHcEEEEEcccccccccccccccccccccccccHHHcccccccccHHHHHHHHcccEEEEEcccccHHcHccHHccccHHHHHcccccccccccccccEEEEcHHHHHHHEccccHHHHHHcccccEEEEcccHHHHEHHHHHHHcccccEEEEcccccccEccccccccccccccEEEEEcccccEEEccccccccccEEEEEcccccHHccccHHHHHHHHHHHHcccccccEEHccccccccccccccccccccccccEEEEEEEEcccHcHEcc
Coil and Loop (DISEMBL)
SPFLALTTITRALKNKSVPEWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKLKKIFLLCschdptqtchdirdsacplkrcldkpqektndisLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYEldregfpslkllhiqnnpyllcindstelvprdafplleslslsnlmnlekiSCSQLRAESFLRLRNLKVESCEKLTHIFSFsisrglpqlqTIKVTACKNMKVIFEVgreddinntevIDKIEFSQLRKLTLKslpqlrsfcsvvafpnletlklsainsetiwhnqlpamssCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKcmdlegivfpeemieeerkdivfpqlnflkmkDLAKLTRFcsgncielpslkqlrmaKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLeeifnlqelnseethSGAVSRLRELHVFClpkltkiwnkdprgklifpnLVLVRIFECqrlksifptSVEIVAndvrgndaatkfifpsltflklrdlpylttfysgmhtlecperANLIfqlknpsfgsKSLVMLLCLIgqqvfpnleeltLSKYIFTTWRQAQFHKLKILHFisdgsdffqVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEhlwnpdskldSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFlessgsitsfcsgnyaisfpslevlivencpklntfsagvlktprlrAVQNWkldedfwagdVNTTLQHLNEKMAKRRMTEVEYesetsmseeneaeeeeenvggdpsvCLRFILFNfhindvlf
Flexible Loop (DISEMBL)
spflalttitralknksvpeWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPTQTCHDIRDSACPLKRCLDKPQEKTNDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIfsfsisrglpqLQTIKVTACKNMKVIFevgreddinntEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPkltkiwnkdprgkLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATkfifpsltflklRDLPYLTTFYSGMHTLECPERANLIFQLKNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESSGSITSFCSGNYAISFPSLEVLIVENCPKLNtfsagvlktprLRAVQNWKLDEDFWAGDVNTTLQHLNEKMAKRRMTEVEYEsetsmseeneaEEEEENVGGDPSVCLRFILFNFHINDVLF
Low Complexity Region (SEG)
SPFLALTTITRALKNKSVPEWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPTQTCHDIRDSACPLKRCLDKPQEKTNDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPlleslslsnlmnleKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQLKNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESSGSITSFCSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLDEDFWAGDVNTTLQHLNEKMAKRRMTeveyesetsmseeneaeeeeeNVGGDPSVCLRFILFNFHINDVLF
Disordered region (IsUnstruct)
***LALTTITRALKNKSVPEWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPTQTCHDIRDSACPLKRCLDKPQEKTNDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQLKNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESSGSITSFCSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLDEDFWAGDVNTTLQHL*******************************************************
Disordered Region (DISOPRED)
SPFLALTTITRALKNKSVPEWENVLQELQRPS*****GVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPTQTCHDIRDSACPLKRCLDKPQEKTNDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVG************KIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVF************VFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQE********GAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQLKNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECA***********F**LKWLFLESSGSITSFCSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLDEDFWAGDVNTTLQHLNEKMAKRRMTEV*********************GGDPSVCLRFILFNFHINDVLF
Disordered Region (DISEMBL)
SPFLALTTITRALKNKSVPEWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPTQTCHDIRDSACPLKRCLDKPQEKTNDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELN********VSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQLKNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESSGSITSFCSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLDEDFWAGDVNTTLQHLNEKMAKR***************************GDPSVCLRFILFNFHINDVLF
Disordered Region (DISPRO)
SPFLALTTITRALKNKSVPEWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPTQTCHDIRDSACPLKRCLDKPQEKTNDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQLKNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESSGSITSFCSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLDEDFWAGDVNTTLQHLNEKMAKRRMTEVEYE*****************VGGDPSVCLRFILFNFHINDVLF
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
SPFLALTTITRALKNKSVPEWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPTQTCHDIRDSACPLKRCLDKPQEKTNDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQLKNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESSGSITSFCSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLDEDFWAGDVNTTLQHLNEKMAKRRMTEVEYESETSMSEENEAEEEEENVGGDPSVCLRFILFNFHINDVLF
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	869	2.2.26 [Sep-21-2011]
O81825	919	Probable disease resistan	yes	no	0.235	0.223	0.276	2e-07

>sp|O81825|DRL28_ARATH Probable disease resistance protein At4g27220 OS=Arabidopsis thaliana GN=At4g27220 PE=2 SV=1

 Score = 58.5 bits (140), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 62/224 (27%), Positives = 99/224 (44%), Gaps = 19/224 (8%)

Query: 208 ESCEKLTHIFSFSISRG--LPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQL 265
           E C  ++ +   + S G  L  + ++ +  C+ +  +FE        N     K  F  +
Sbjct: 692 EGCLAISDVNVSNASIGWLLQHVTSLDLNYCEGLNGMFE--------NLVTKSKSSFVAM 743

Query: 266 RKLTLKSLPQLR--SFC--SVVAFPNLETLKLSAINSETIWH-NQLPAMSSCIQNLTRLI 320
           + L++   P L   S C   +  FPNLE L L  +N E+I   N    M   +Q L  L 
Sbjct: 744 KALSIHYFPSLSLASGCESQLDLFPNLEELSLDNVNLESIGELNGFLGMR--LQKLKLLQ 801

Query: 321 VHGCNNLKFLFSTS-LVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLK 379
           V GC  LK LFS   L  +   LQ +++  C+ LE +     +  +   + + P+L  +K
Sbjct: 802 VSGCRQLKRLFSDQILAGTLPNLQEIKVVSCLRLEELFNFSSVPVDFCAESLLPKLTVIK 861

Query: 380 MKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDM 423
           +K L +L   C+   + L SL+ L +  C  LK       NT M
Sbjct: 862 LKYLPQLRSLCNDRVV-LESLEHLEVESCESLKNLPFVPGNTGM 904

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

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	869
224110992	2359	cc-nbs-lrr resistance protein [Populus t	0.834	0.307	0.316	1e-103
255542484	2460	phosphoprotein phosphatase, putative [Ri	0.823	0.291	0.339	3e-95
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.563	0.372	0.394	7e-95
224143316	1337	cc-nbs-lrr resistance protein [Populus t	0.562	0.365	0.393	2e-93
224111284	1340	cc-nbs-lrr resistance protein [Populus t	0.563	0.365	0.388	4e-92
255563252	1603	Disease resistance protein RPS5, putativ	0.540	0.293	0.391	1e-90
359488027	1520	PREDICTED: disease resistance protein At	0.797	0.455	0.336	5e-82
147802546	1409	hypothetical protein VITISV_007222 [Viti	0.792	0.488	0.320	7e-78
147787802	1517	hypothetical protein VITISV_005047 [Viti	0.745	0.427	0.312	2e-75
358344903	2248	Cc-nbs-lrr resistance protein [Medicago	0.762	0.294	0.305	9e-72

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

 Score =  383 bits (983), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 304/960 (31%), Positives = 443/960 (46%), Gaps = 235/960 (24%)

Query: 90   DKPQEKTNDISLKLNASICLKDKFFTQL-KGLEELWLDEVQGVENVVYELDREGFPSLKL 148
            D   E      LKLN  I  ++     L    E+L+L E++GV N++ ELDREGFP LK 
Sbjct: 702  DGAYEMLRTAKLKLNTKIDHRNYGIRMLLNRTEDLYLFEIEGV-NIIQELDREGFPHLKH 760

Query: 149  LHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVE 208
            L ++N+  +  I  + E+V  +AFP+LESL L +L +L+KI    LR ESF +LR + VE
Sbjct: 761  LQLRNSFEIQYIISTMEMVSSNAFPILESLILYDLSSLKKICHGALRVESFAKLRIIAVE 820

Query: 209  SCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKL 268
             C KLT++FSF ++RGL QLQ IK+  C  M+ +     ++  +  EV+D I+F+QL  L
Sbjct: 821  HCNKLTNLFSFFVARGLSQLQKIKIAFCMKMEEVVAEESDELGDQNEVVDVIQFTQLYSL 880

Query: 269  TLKSLPQLRSFCSVVA---------------------------------------FPNLE 289
            +L+ LP L +F S V                                        FPNLE
Sbjct: 881  SLQYLPHLMNFYSKVKPSSLSRTQPKPSITEARSEEIISEDELRTPTQLFNEKILFPNLE 940

Query: 290  TLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRK 349
             L L AIN + +W++Q P++S  IQNL RL+V+ C +LK+LF +SLV   VQL+HL I  
Sbjct: 941  DLNLYAINIDKLWNDQHPSISVSIQNLQRLVVNQCGSLKYLFPSSLVNILVQLKHLSITN 1000

Query: 350  CMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCP 409
            CM +E I+    + EEE    VFP+L F+++ DL KL RFC G+ IE P LK++R+  CP
Sbjct: 1001 CMSVEEIIAIGGLKEEETTSTVFPKLEFMELSDLPKLRRFCIGSSIECPLLKRMRICACP 1060

Query: 410  ELKAFILQ----NINTDMTVVG----------IQSFFNEK-------------------- 435
            E K F       NIN    +            IQS F EK                    
Sbjct: 1061 EFKTFAADFSCANINDGNELEEVNSEENNNNVIQSLFGEKCLNSLRLSNQGGLMQKFVSV 1120

Query: 436  ---------------------------SFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQS 468
                                       SFC+L+ +++  CK +  IFP  +   F++L+ 
Sbjct: 1121 IFPSLAEIEISHIDNLEKIWHNNLAAGSFCELRSIKIRGCKKIVNIFPSVLIRSFMRLEV 1180

Query: 469  LIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLV 528
            L +G C  LE IF+L+  + +E    +V +LR+L +  LPKL  IWNKDP+GK  F NL 
Sbjct: 1181 LEIGFCDLLEAIFDLKGPSVDEIQPSSVVQLRDLSLNSLPKLKHIWNKDPQGKHKFHNLQ 1240

Query: 529  LVRIFECQRLKSIFPTSV------------------EIVANDVRGNDAATKFIFPSLTFL 570
            +VR F C  LK++FP S+                  +IVA +  G +A   F+FP LT L
Sbjct: 1241 IVRAFSCGVLKNLFPFSIARVLRQLEKLEIVHCGVEQIVAKE-EGGEAFPYFMFPRLTSL 1299

Query: 571  KLRDLPYLTTFYSGMHTLECPERANL-IFQLKNPSFGSKSLVMLLCLIG----------- 618
             L ++     FY G HT ECP   +L +    N  +     + L  + G           
Sbjct: 1300 DLIEIRKFRNFYPGKHTWECPRLKSLAVSGCGNIKYFDSKFLYLQEVQGEIDPTVPIQQP 1359

Query: 619  ----QQVFPNLEELTL------SKYIFTTWRQAQFH-KLKILHF--ISDGSDFFQVGLLQ 665
                +++  NLEEL+L      +  I+      +F+ +LK++         D    G LQ
Sbjct: 1360 LFSDEEIISNLEELSLNGEDPATSIIWCCQFPGKFYSRLKVIKLKNFYGKLDPIPFGFLQ 1419

Query: 666  NIHNLEKLVLKV-------------------------EEHAEGIAQIKSLKLNKLWFIKE 700
            +I NLE L +                           +E+    A++K+L ++ +  I  
Sbjct: 1420 SIRNLETLSVSCSSFEKIFLNEGCVDKDEDIRGPVDSDEYTRMRARLKNLVIDSVQDIT- 1478

Query: 701  HLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIV-FSKLKWLFLESSGSITSFCSGNY 759
            H+W P  +L S +QNLE L+++ C  SL++L    V F  L+ L + S   +++  + + 
Sbjct: 1479 HIWEPKYRLISVVQNLESLKMQSCN-SLVNLAPSTVLFHNLETLDVHSCHGLSNLLTSST 1537

Query: 760  A-------------------------------ISFPSLEVL------------------- 769
            A                               I F  LE L                   
Sbjct: 1538 AKSLGQLVKLIVVNCKLVTEIVAKQGGEINDDIIFSKLEYLELVRLENLTSFCPGNYNFI 1597

Query: 770  -------IVENCPKLNTFSAGVLKTPRLRAVQNWKLD---EDFWAGDVNTTLQHLNEKMA 819
                   +VE CPK+  FS G+  TP+L+ V  WK D   E  W G++N TLQ L  KM 
Sbjct: 1598 FPSLKGMVVEQCPKMRIFSQGISSTPKLQGVY-WKKDSMNEKCWHGNLNATLQQLYTKMV 1656

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542484|ref|XP_002512305.1| phosphoprotein phosphatase, putative [Ricinus communis] gi|223548266|gb|EEF49757.1| phosphoprotein phosphatase, putative [Ricinus communis]

 Score =  356 bits (914), Expect = 3e-95,   Method: Compositional matrix adjust.
 Identities = 308/907 (33%), Positives = 423/907 (46%), Gaps = 191/907 (21%)

Query: 94   EKTNDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQN 153
            E +  + LKLN+SI + +K    L   E+L+LDE++GV NV+YELD +GFP LK LHIQN
Sbjct: 669  EASRTLKLKLNSSIEI-EKVKVLLMTTEDLYLDELEGVRNVLYELDGQGFPQLKHLHIQN 727

Query: 154  NPYLLCINDSTELVPRD-AFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEK 212
            +  +  I D   +     AFP LESL + NL NL +I   QL + SF +LR LKVE C  
Sbjct: 728  SSEIQYIVDCLSMGNHYIAFPRLESLLVDNLNNLGQICYGQLMSGSFSKLRKLKVEHCNA 787

Query: 213  LTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKS 272
            L ++F FS+ RGL QL+ I V++C  M+ I     EDD    E+I  I   +LR LTL+ 
Sbjct: 788  LKNLFYFSMFRGLVQLEEIDVSSCNIMEEIVVEEIEDDSGRDEIIKPI---RLRTLTLEY 844

Query: 273  LPQLRSFCSV---------------------------VAFPNLETLKLSAINS-ETIWHN 304
            LP+  SFCS                            + F NL  LKLS+IN+ E IW N
Sbjct: 845  LPRFTSFCSQRMQKLAGLDAGCAQIISETPSVLFGQKIEFSNLLNLKLSSINNMEKIWRN 904

Query: 305  QLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIE 364
            Q+    S +QNLT LIV GC  L +LF++S+V +  QL++LEI  C  +E I+  E + +
Sbjct: 905  QVKEPPSSVQNLTSLIVEGCGKLSYLFTSSMVENLSQLEYLEISDCSFMEEIIVAEGLTK 964

Query: 365  EERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMT 424
               K + FP L+ LK+K L  L RFC GN IE PSL  LR+  CP L  FI  + +T+M 
Sbjct: 965  HNSK-LHFPILHTLKLKSLPNLIRFCFGNLIECPSLNALRIENCPRLLKFISSSASTNME 1023

Query: 425  V--VGIQ---SFFNEK----------------------------SFCKLKLMEVIFCKSL 451
                G +   + F+EK                            SFCKLK++++  CK L
Sbjct: 1024 ANRGGRETNSTLFDEKVSFPILEKLEIVYMNNLRMIWESEDRGDSFCKLKIVKIQNCKEL 1083

Query: 452  WTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSG----AVSRLRELHVFCL 507
             TIFP  M     KL+ ++V  C  LEE+FNLQEL + E         V++LR+L +  L
Sbjct: 1084 VTIFPSKMLRALQKLEDVVVTNCDLLEEVFNLQELMATEGKQNRVLPVVAQLRDLTIENL 1143

Query: 508  PKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSV------------------EIV 549
            P L  +W+ DP+G   F NL  +    C  LK++FP S+                  EIV
Sbjct: 1144 PSLKHVWSGDPQGVFSFDNLRSLSAENCPSLKNLFPASIAKSLSQLEDLSIVNCGLQEIV 1203

Query: 550  ANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANL-IFQLKNPSFGSK 608
            A D    +A  +F+FP L  +KL  L  +  FY G H L+CP+   L I    N    + 
Sbjct: 1204 AKD--RVEATPRFVFPQLKSMKLWILEEVKNFYPGRHILDCPKLEKLTIHDCDNLELFTL 1261

Query: 609  SLVMLLCLIGQ---------------QVFPNLEELTLSKYIFTTWRQAQ-----FHKLKI 648
                L    G+               QV  +L+ L+LS       RQAQ     FHKL+ 
Sbjct: 1262 ESQCLQVGRGENQVDVEFQQPLFSFTQVVSHLKSLSLSNKETMMIRQAQLPASLFHKLER 1321

Query: 649  LHF--ISDGSDFFQVGLLQNIHNLEKLVL---KVEE-----------HAEGIAQIKSLKL 692
            L      D S +F   LLQ   N+E L+L    VE+           +   ++ ++ L L
Sbjct: 1322 LDLQCFHDRSSYFPFDLLQRFQNVETLLLTCSNVEDLFPYPLVGEDNNVRILSNLRHLTL 1381

Query: 693  NKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLR-IEIVFSKLKWLFLESSGSI 751
            N L  I+  +WN + + +  LQNLE LEV  C   LI+L      F  L  L +     +
Sbjct: 1382 NSLRDIR-RIWNQECQPNQSLQNLETLEVMYCK-KLINLAPSSATFKNLASLEVHECNGL 1439

Query: 752  TSFCSGNYA-------------------------------ISFPSLEVL----------- 769
             S  +   A                               I+F  LE L           
Sbjct: 1440 VSLLTSTTAKSLVQLGEMKVSNCKMLREIVANEGDEMESEITFSKLESLRLDDLTRLTTV 1499

Query: 770  ---------------IVENCPKLNTFSAGVLKTPRLRAVQNWKLDEDFW--AGDVNTTLQ 812
                           IV  CP++  FS G++  P+L  V   K + D W   GD+NTT Q
Sbjct: 1500 CSVNCRVKFPSLEELIVTACPRMEFFSHGIITAPKLEKVSLTK-EGDKWRSVGDLNTTTQ 1558

Query: 813  HLNEKMA 819
             L  +M 
Sbjct: 1559 QLYREMV 1565

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  355 bits (910), Expect = 7e-95,   Method: Compositional matrix adjust.
 Identities = 231/585 (39%), Positives = 318/585 (54%), Gaps = 95/585 (16%)

Query: 99   ISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLL 158
            + LKLN  I L++   T LK  EEL L E+ GV++++ +LD EGFP L+ LH+QN P + 
Sbjct: 719  LKLKLNTVIQLEEGVNTLLKITEELHLQELNGVKSILNDLDGEGFPQLRHLHVQNCPGVQ 778

Query: 159  CINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFS 218
             I +S  + PR AF  L+SL L NL NLEKI   QL AES   LR LKVESC +L ++FS
Sbjct: 779  YIINSIRMGPRTAFLNLDSLFLENLDNLEKICHGQLMAESLGNLRILKVESCHRLKNLFS 838

Query: 219  FSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRS 278
             S++R L +L+ I +  CK M+ +     E+D  + E I  IEF+QLR+LTL+ LPQ  S
Sbjct: 839  VSMARRLVRLEEITIIDCKIMEEVVAEESENDAADGEPI--IEFTQLRRLTLQCLPQFTS 896

Query: 279  FCS-----------------------VVA----------------FPNLETLKLSAINSE 299
            F S                       +VA                FPNLE LKLS+I  E
Sbjct: 897  FHSNVEESSDSQRRQKLLASEARSKEIVAGNELGTSMSLFNTKILFPNLEDLKLSSIKVE 956

Query: 300  TIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFP 359
             IWH+Q    S C++NL  + V  C NL +L ++S+V S  QL+ LEI  C  +E IV P
Sbjct: 957  KIWHDQPSVQSPCVKNLASIAVENCRNLNYLLTSSMVESLAQLKKLEICNCKSMEEIVVP 1016

Query: 360  EEMIEEER-KDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQN 418
            E++ E +    ++FP+L  L +  L KLTRFC+ N +E  SLK L +  CPELK FI   
Sbjct: 1017 EDIGEGKMMSKMLFPKLLILSLIRLPKLTRFCTSNLLECHSLKVLTVGNCPELKEFISIP 1076

Query: 419  INTDMTVVGI-----QSFFNEK----------------------------SFCKLKLMEV 445
             + D+  +        + F++K                            SFCKLK + V
Sbjct: 1077 SSADVPAMSKPDNTKSALFDDKVAFPDLEEFLIAEMDNLKVIWHSELHSDSFCKLKTLHV 1136

Query: 446  IFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQEL-NSEETHSGAVSRLRELHV 504
            +  K+L  IFP +M  RF  L++L +GAC S+EEIF+LQEL N E+  +   S+LR + +
Sbjct: 1137 VLVKNLLNIFPSSMLRRFHNLENLTIGACDSVEEIFDLQELINVEQRLAVTASQLRVVRL 1196

Query: 505  FCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSV------------------ 546
              LP L  +WN+DP+G L F NL +V +  C  L+S+FP SV                  
Sbjct: 1197 TNLPHLKHVWNRDPQGILSFHNLCIVHVRGCLGLRSLFPASVALNLLQLEEFLIVNCGVE 1256

Query: 547  EIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECP 591
            EIVA D  G +   +F+FP +T+L L ++P L  FY G+HT E P
Sbjct: 1257 EIVAKD-EGLEEGPEFLFPKVTYLHLVEVPELKRFYPGIHTSEWP 1300

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  350 bits (898), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 227/577 (39%), Positives = 318/577 (55%), Gaps = 88/577 (15%)

Query: 99   ISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLL 158
            + LKLN  I L+++  T LK  EEL L E+ GV++++ +LD EGF  LK LH+QN P + 
Sbjct: 719  LKLKLNTVIQLEERVNTLLKITEELHLQELNGVKSILNDLDEEGFCQLKDLHVQNCPGVQ 778

Query: 159  CINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFS 218
             I +S  + PR AF  L+SL L NL NLEKI   QL AES   LR LKVESC +L ++FS
Sbjct: 779  YIINSMRMGPRTAFLNLDSLFLENLDNLEKICHGQLMAESLGNLRILKVESCHRLKNLFS 838

Query: 219  FSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRS 278
             SI+R + +L+ I +  CK M+   EV  E+  N+T   + IEF+QLR+LTL+ LPQ  S
Sbjct: 839  VSIARRVVRLEEITIIDCKIME---EVVAEESENDTADGEPIEFTQLRRLTLQCLPQFTS 895

Query: 279  FCS---------------VVA----------------FPNLETLKLSAINSETIWHNQLP 307
            F S               +VA                FP LE L LS+I  E IWH+Q  
Sbjct: 896  FHSNRRQKLLASDVRSKEIVAGNELGTSMSLFNTKILFPKLEDLMLSSIKVEKIWHDQHA 955

Query: 308  AMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEE- 366
                C++NL  ++V  C+NL +L ++S+V S  QL+ LEI  C  +E IV PE + E + 
Sbjct: 956  VQPPCVKNLASIVVESCSNLNYLLTSSMVESLAQLKSLEICNCKSMEEIVVPEGIGEGKM 1015

Query: 367  RKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVV 426
               ++FP+L+ L +  L KLTRFC+ N +E  SLK L + KCPELK FI    + D+  +
Sbjct: 1016 MSKMLFPKLHILSLIRLPKLTRFCTSNLLECHSLKVLTLGKCPELKEFISIPSSADVPAM 1075

Query: 427  G-----IQSFFNEK----------------------------SFCKLKLMEVIFCKSLWT 453
                    + F++K                            SFC+LK++ V   K+L  
Sbjct: 1076 SKPDNTKSALFDDKVAFPNLVVFVSFEMDNLKVIWHNELHPDSFCRLKILHVGHGKNLLN 1135

Query: 454  IFPHNMFARFLKLQSLIVGACGSLEEIFNLQEL-NSEETHSGAVSRLRELHVFCLPKLTK 512
            IFP +M  RF  L++L++  C S+EEIF+LQ L N E+  +   S+LR + +  LP L  
Sbjct: 1136 IFPSSMLGRFHNLENLVINDCDSVEEIFDLQALINVEQRLAVTASQLRVVRLTNLPHLKH 1195

Query: 513  IWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSV------------------EIVANDVR 554
            +WN+DP+G + F NL  V +  C  L+S+FP S+                  EIVA D  
Sbjct: 1196 VWNRDPQGIVSFHNLCTVHVQGCLGLRSLFPASIAQNLLQLEELRIDKCGVEEIVAKD-E 1254

Query: 555  GNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECP 591
            G +   +F+FP +TFL+LR+LP L  FY G+HT E P
Sbjct: 1255 GLEEGPEFVFPKVTFLQLRELPELKRFYPGIHTSEWP 1291

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224111284|ref|XP_002332949.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834261|gb|EEE72738.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  346 bits (887), Expect = 4e-92,   Method: Compositional matrix adjust.
 Identities = 225/579 (38%), Positives = 319/579 (55%), Gaps = 89/579 (15%)

Query: 99   ISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLL 158
            + LKLN  I L++   T LK  EEL L E++GV++++ +LD E FP LK LH+QN P + 
Sbjct: 719  LKLKLNTVIQLEEWVNTLLKSTEELHLQELKGVKSILNDLDGEDFPRLKHLHVQNCPGVQ 778

Query: 159  CINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFS 218
             I +S  + PR AF  L+SL L NL NLEKI   QL AES  +LR LKVESC +L ++FS
Sbjct: 779  YIINSIRMGPRTAFLNLDSLFLENLDNLEKICHGQLMAESLGKLRILKVESCHRLKNLFS 838

Query: 219  FSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRS 278
             S++R L +L+ I +  CK M+   EV  E+  N+T   + IEF+QLR+LTL+ LPQ  S
Sbjct: 839  VSMARRLVRLEEITIIDCKIME---EVVAEESENDTADGEPIEFAQLRRLTLQCLPQFTS 895

Query: 279  FCS---------------VVA----------------FPNLETLKLSAINSETIWHNQLP 307
            F S               +VA                FPNLE LKLS+I  E IWH+Q  
Sbjct: 896  FHSNRRQKLLASDVRSKEIVAGNELGTSMSLFNTKILFPNLEDLKLSSIKVEKIWHDQPA 955

Query: 308  AMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEE- 366
                C++NL  ++V  C+NL +L ++S+V S  QL+ LEI  C  +E IV PE + E + 
Sbjct: 956  VQPPCVKNLASMVVESCSNLNYLLTSSMVESLAQLERLEICNCESMEEIVVPEGIGEGKM 1015

Query: 367  RKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVV 426
               ++FP+L+ L++  L KLTRFC+ N +E  SLK L +  CPELK FI    + D+ V+
Sbjct: 1016 MSKMLFPKLHLLELSGLPKLTRFCTSNLLECHSLKVLMVGNCPELKEFISIPSSADVPVM 1075

Query: 427  G-----IQSFFNEK----------------------------SFCKLKLMEVIFCKSLWT 453
                    +FF++K                            SFC+LK++ V   K+L  
Sbjct: 1076 SKPDNTKSAFFDDKVAFPDLEVFLIFEMDNLKAIWHNELHSDSFCELKILHVGHGKNLLN 1135

Query: 454  IFPHNMFARFLKLQSLIVGACGSLEEIFNLQEL-NSEETHSGAVSRLRELHVFCLPKLTK 512
            IFP +M  R   L++LI+  C S+EEIF+LQ L N E+  +   ++LR + +  LP L  
Sbjct: 1136 IFPSSMLGRLHNLENLIINDCDSVEEIFDLQVLINVEQRLADTATQLRVVRLRNLPHLKH 1195

Query: 513  IWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSV------------------EIVAND-- 552
            +WN+DP+G L F NL  V +  C  L+S+FP S+                  EIVA D  
Sbjct: 1196 VWNRDPQGILSFHNLCTVHVRGCPGLRSLFPASIALNLLQLEELLIENCGVEEIVAKDEG 1255

Query: 553  VRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECP 591
            +    ++ +F FP +T+L L ++P L  FY G+H  E P
Sbjct: 1256 LEEGPSSFRFSFPKVTYLHLVEVPELKRFYPGVHVSEWP 1294

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  341 bits (874), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 227/580 (39%), Positives = 316/580 (54%), Gaps = 110/580 (18%)

Query: 99   ISLKLN-ASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYL 157
            + LKLN +SI L+      L+  E+L+L EV+G+++V+Y+LD +GF  LK L +QN+P +
Sbjct: 724  LKLKLNTSSIHLEHGLSILLEVTEDLYLAEVKGIKSVLYDLDSQGFTQLKHLDVQNDPEI 783

Query: 158  LCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIF 217
              I D     P +AFP+LESL L NLM+LEKI C +L   SF +LR+L V  C++L ++F
Sbjct: 784  QYIIDPNRRSPCNAFPILESLYLDNLMSLEKICCGKLTTGSFSKLRSLTVVKCDRLKNLF 843

Query: 218  SFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLR 277
            SFS+ R L QLQ +KV  C N++ I   G ED  N+ E +   + +QL  LTLK LP  +
Sbjct: 844  SFSMMRCLLQLQQMKVVDCANLEEIVACGSEDTDNDYEAV---KLTQLCSLTLKRLPMFK 900

Query: 278  SFCS---------------------------------------VVAFPNLETLKLSAINS 298
            SFCS                                       +  FPNLE L+LS+I  
Sbjct: 901  SFCSKKKVSPISLRVQKQLTTDTGLKEIAPKGELGDPLPLFNEMFCFPNLENLELSSIAC 960

Query: 299  ETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVF 358
            E I  +QL A+SS   NL  LIV  C NLK+LF++SLV++ + L+ LE+  CM +EGI+ 
Sbjct: 961  EKICDDQLSAISS---NLMSLIVERCWNLKYLFTSSLVKNLLLLKRLEVFDCMSVEGIIV 1017

Query: 359  PEEMIEEER-KDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQ 417
             EE++EEER +  +FP+L+FLK+K+L  +TRFC G  +E  SL++L +  CP L  F+ +
Sbjct: 1018 AEELVEEERNRKKLFPELDFLKLKNLPHITRFCDGYPVEFSSLRKLLIENCPALNMFVSK 1077

Query: 418  NINTDMT----VVGI----------QSFFNEK---------------------------- 435
            + + DM       G+          Q  FNEK                            
Sbjct: 1078 SPSADMIESREAKGMNSEKNHHTETQPLFNEKVAFPSLEEIELSYIDNLRRIWHNQLDAG 1137

Query: 436  SFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGA 495
            SFCKLK+M +  CK L TIFP  +  RF  L+ L +  C +LEEI+ LQ LN +E H  A
Sbjct: 1138 SFCKLKIMRINGCKKLRTIFPSYLLERFQCLEKLSLSDCYALEEIYELQGLNFKEKHLLA 1197

Query: 496  VSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSV--------- 546
             S LREL++  LP+L  I +KDP+G   F NL LV I  C  +K++FP SV         
Sbjct: 1198 TSGLRELYIRSLPQLKSILSKDPQGNFTFLNLRLVDISYCS-MKNLFPASVATGLLQLEK 1256

Query: 547  ----------EIVANDVRGNDAATKFIFPSLTFLKLRDLP 576
                      EI A + +G + A  F+F  LT L+L DLP
Sbjct: 1257 LVINHCFWMEEIFAKE-KGGETAPSFVFLQLTSLELSDLP 1295

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  312 bits (800), Expect = 5e-82,   Method: Compositional matrix adjust.
 Identities = 287/853 (33%), Positives = 410/853 (48%), Gaps = 160/853 (18%)

Query: 80   DSACPLKRCLDKPQEKTNDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELD 139
            D  CP  + L     K N    KL+ S+ L D     LKG ++L L E+ G  NV  +LD
Sbjct: 713  DKNCPTTKTL-----KLN----KLDTSLRLADGISLLLKGAKDLHLRELSGAANVFPKLD 763

Query: 140  REGFPSLKLLHIQNNPYLLCINDSTE-LVPRDAFPLLESLSLSNLMNLEKISCSQLRAES 198
            REGF  LK LH++ +P +  I +S + ++   AFP+LESL L+ L+NL+++   QL   S
Sbjct: 764  REGFLQLKCLHVERSPEMQHIMNSMDPILSPCAFPVLESLFLNQLINLQEVCHGQLLVGS 823

Query: 199  FLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVID 258
            F  LR +KVE C+ L  +FS S++RGL +L+ I++T CKNM  +   G+ED     + +D
Sbjct: 824  FSYLRIVKVEYCDGLKFLFSMSMARGLSRLEKIEITRCKNMYKMVAQGKED---GDDAVD 880

Query: 259  KIEFSQLRKLTLKSLPQLRSFC-------SVVAFPNLETLKLSAINSETIWHNQLPAMSS 311
             I F++LR LTL+ LP+LR+FC       S         ++ + I SE    NQ    +S
Sbjct: 881  AILFAELRYLTLQHLPKLRNFCLEGKTMPSTTKRSPTTNVRFNGICSEGELDNQ----TS 936

Query: 312  CIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIV 371
                L     HG           L+ SF  LQ L+I+ C  L  ++ P  +   +  +++
Sbjct: 937  VFNQLEGW--HG----------QLLLSFCNLQSLKIKNCASLLKVLPPSLLQNLQNLEVL 984

Query: 372  FPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSF 431
              + N+    D+     F       LPSL+ L ++    +K      +  D         
Sbjct: 985  IVE-NY----DIPVAVLFNEKAA--LPSLELLNISGLDNVKKIWHNQLPQD--------- 1028

Query: 432  FNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEET 491
                SF KLK ++V  C  L  IFP +M  R   LQ L    C SLEE+F+++ +N +E 
Sbjct: 1029 ----SFTKLKDVKVASCGQLLNIFPSSMLKRLQSLQFLKAVDCSSLEEVFDMEGINVKE- 1083

Query: 492  HSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTS------ 545
             + AV++L +L +  LPK+ +IWNK+PRG L F NL  V I +CQ LK++FP S      
Sbjct: 1084 -AVAVTQLSKLILQFLPKVKQIWNKEPRGILTFQNLKSVMIDQCQSLKNLFPASLVRDLV 1142

Query: 546  -----------VEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTL------ 588
                       +E++     G   A KF+FP +T L+L  L  L +FY G HT       
Sbjct: 1143 QLQELQVWSCGIEVIVAKDNGVKTAAKFVFPKVTSLRLSHLHQLRSFYPGAHTSQWPLLK 1202

Query: 589  -----ECPERANLIFQLKNPSFGS----KSLVML----LCLIGQQVFPNLEELTLSKYIF 635
                 ECPE    +F  + P+F       +L ML    L L+ Q  FPNLEELTL     
Sbjct: 1203 ELKVHECPEVD--LFAFETPTFQQIHHMGNLDMLIHQPLFLVQQVAFPNLEELTLDYNNA 1260

Query: 636  TTWRQAQFH-----KLKILHFISDGSDFFQVG--LLQNIHNLEKL----------VLKVE 678
            T   Q QF      +L++L+    G     +   +LQ +HNLEKL          + ++E
Sbjct: 1261 TEIWQEQFPVNSFCRLRVLNVCEYGDILVVIPSFMLQRLHNLEKLNVKRCSSVKEIFQLE 1320

Query: 679  EHAEGIAQIKSL-KLNKLWFIK----EHLWNPDSKLDSFLQNLEFLEVKECALSLISLRI 733
             H E   Q K L +L ++W        HLW  +SK    LQ+LE LEV  C  SLI+L  
Sbjct: 1321 GHDEE-NQAKMLGRLREIWLRDLPGLTHLWKENSKPGLDLQSLESLEVWNCD-SLINLAP 1378

Query: 734  ---------------------------------------EIVFSKLKWLFLESSGSITSF 754
                                                   EIVF KL+ + L    ++TSF
Sbjct: 1379 CSVSFQNLDTLDVWSCGSLKKSLSNGLVVVENEGGEGADEIVFCKLQHMVLLCLPNLTSF 1438

Query: 755  CSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLDEDFWAGDVNTTLQHL 814
             SG    SFPSLE ++VE CPK+  FS+G + TPRL  V+    DE  W  D+NTT+ +L
Sbjct: 1439 SSGGSIFSFPSLEHMVVEECPKMKIFSSGPITTPRLERVEVAD-DEWHWQDDLNTTIHNL 1497

Query: 815  NEKMAKRRMTEVE 827
              +       EVE
Sbjct: 1498 FIRTHGNVEVEVE 1510

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147802546|emb|CAN77665.1| hypothetical protein VITISV_007222 [Vitis vinifera]

 Score =  298 bits (764), Expect = 7e-78,   Method: Compositional matrix adjust.
 Identities = 275/859 (32%), Positives = 398/859 (46%), Gaps = 170/859 (19%)

Query: 80   DSACPLKRCLDKPQEKTNDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELD 139
            D  CP  + L     K N    KL+ S+ L D     LKG ++L L E+ G  NV  +LD
Sbjct: 576  DKNCPTTKTL-----KLN----KLDTSLRLADGISLLLKGAKDLHLRELSGAANVFPKLD 626

Query: 140  REGFPSLKLLHIQNNPYLLCINDSTE-LVPRDAFPLLESLSLSNLMNLEKISCSQLRAES 198
            REGF  LK LH++ +P +  I +S +  +   AFP+LESL L+ L+NL+++   QL   S
Sbjct: 627  REGFLQLKRLHVERSPEMQHIMNSMDPFLSPCAFPVLESLFLNQLINLQEVCHGQLLVGS 686

Query: 199  FLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVID 258
            F  LR +KVE C+ L  +FS S++RGL +L+ I++T CKNM  +   G+ED     + +D
Sbjct: 687  FSYLRIVKVEHCDGLKFLFSMSMARGLSRLEKIEITRCKNMYKMVAQGKED---GDDAVD 743

Query: 259  KIEFSQLRKLTLKSLPQLRSFC-------SVVAFPNLETLKLSAINSETIWHNQLPAMSS 311
             I F++LR LTL+ LP+LR+FC       S         ++ + I SE    NQ    + 
Sbjct: 744  AILFAELRYLTLQHLPKLRNFCFEGKTMPSTTKRSPTTNVRFNGICSEGELDNQTSVFNQ 803

Query: 312  CIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIV 371
             +  L    +   N+  +  S +L     ++ H+           +    ++E+++    
Sbjct: 804  LVLCLVLSSLAYTNDEIYHCSFAL-----RVSHVTGGLAWSTPTFLLQPPVLEDKK---- 854

Query: 372  FPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSF 431
               L F    D+     F       LPSL+ L ++    +K      +  D         
Sbjct: 855  ---LCFTVENDIPVAVLFNEKAA--LPSLELLNISGLDNVKKIWHNQLPQD--------- 900

Query: 432  FNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEET 491
                SF KLK ++V  C  L  IFP +M  R   LQ L    C SLEE+F+++ +N +E 
Sbjct: 901  ----SFTKLKDVKVASCGQLLNIFPSSMLKRLQSLQFLKAVDCSSLEEVFDMEGINVKE- 955

Query: 492  HSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTS------ 545
             + AV++L +L +  LPK+ +IWNK+P G L F NL  V I +CQ LK++FP S      
Sbjct: 956  -AVAVTQLSKLILQFLPKVKQIWNKEPHGILTFQNLKSVMIDQCQSLKNLFPASLVRDLV 1014

Query: 546  -----------VEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTL------ 588
                       +E++     G   A KF+FP +T L+L  L  L +F+ G HT       
Sbjct: 1015 QLQELQVWSCGIEVIVAKDNGVKTAAKFVFPKVTSLRLSYLRQLRSFFPGAHTSQWPLLK 1074

Query: 589  -----ECPERANLIFQLKNPSFGS----KSLVML----LCLIGQQVFPNLEELTLSKYIF 635
                 ECPE    +F  + P+F       +L ML    L L+ Q  FPNLEELTL     
Sbjct: 1075 ELKVHECPEVD--LFAFETPTFQQIHHMGNLDMLIHQPLFLVQQVAFPNLEELTLDYNNA 1132

Query: 636  TTWRQAQFH-----KLKILHFISDGSDFFQVG--LLQNIHNLEKL----------VLKVE 678
            T   Q QF      +L++L+    G     +   +LQ +HNLEKL          + ++E
Sbjct: 1133 TEIWQEQFPVNSFCRLRVLNVCEYGDILVVIPSFMLQRLHNLEKLNVKRCSSVKEIFQLE 1192

Query: 679  EHAEGIAQIKSL-KLNKLWFIKE----HLWNPDSKLDSFLQNLEFLEVKECALSLISLR- 732
             H E   Q K L +L ++W        HLW  +SK    LQ+LE LEV  C  SLI+L  
Sbjct: 1193 GHDEE-NQAKMLGRLREIWLRDLPGLIHLWKENSKPGLDLQSLESLEVWNCD-SLINLAP 1250

Query: 733  IEIVFSKLKWLFLESSGSITS--------------------------------------- 753
              + F  L  L + S GS+ S                                       
Sbjct: 1251 CSVSFQNLDSLDVWSCGSLRSLISPLVAKSLVKLKKLKIGGSHMMEVVVENEGGEGADEI 1310

Query: 754  -FC-----------------SGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQN 795
             FC                 SG Y  SFPSLE ++VE CPK+  FS+G + TPRL  V+ 
Sbjct: 1311 VFCKLQHIVLLCFPNLTSFSSGGYIFSFPSLEHMVVEECPKMKIFSSGPITTPRLERVEV 1370

Query: 796  WKLDEDFWAGDVNTTLQHL 814
               DE  W  D+NTT+ +L
Sbjct: 1371 AD-DEWHWQDDLNTTIHNL 1388

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147787802|emb|CAN71755.1| hypothetical protein VITISV_005047 [Vitis vinifera]

 Score =  290 bits (742), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 257/822 (31%), Positives = 385/822 (46%), Gaps = 174/822 (21%)

Query: 94   EKTNDISL-KLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQ 152
            E  N + L K + S+ L D     LK  E+L L E+ G  +V+ +L+REGF  LK L+++
Sbjct: 675  EANNTLKLNKFDTSLHLVDGISKLLKRTEDLHLSELCGFTHVLSKLNREGFLKLKHLNVE 734

Query: 153  NNPYLLCINDSTELVP-RDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCE 211
            ++P +  I +S +L      FP++E+LSL+ L+NL+++   Q  A SF  LR ++VE C+
Sbjct: 735  SSPEIQYIANSMDLTSTHGVFPVMETLSLNQLINLQEVCHGQFPAGSFGCLRKVEVEDCD 794

Query: 212  KLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLK 271
             L  +FS S++RGL +L  IKVT CK+M  +   GR++   +T  ++   F +LR LTL+
Sbjct: 795  GLKFLFSLSVARGLSRLVEIKVTRCKSMVEMVSQGRKEIKEDT--VNVPLFPELRHLTLQ 852

Query: 272  SLPQLRSFC----SVVAFPNLETLKLSA--INSETIWHNQLPAMSSCIQNLTRLIVHGCN 325
             LP+L +FC     V + P    +  S   +N   I  +Q   + S   NL  L +  C 
Sbjct: 853  DLPKLSNFCFEENPVHSMPPSTIVGPSTPPLNQPEIRDDQ--RLLSLGGNLRSLKLKNCK 910

Query: 326  NLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAK 385
            +L  LF  SL+++   LQ L +  C  LE               + FP L FL       
Sbjct: 911  SLVKLFPPSLLQN---LQVLTVENCDKLE--------------QVAFPSLEFL------- 946

Query: 386  LTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEV 445
                   N + L ++K++  ++ P                        + SF KLK ++V
Sbjct: 947  -------NIVGLDNVKKIWHSQLP------------------------QDSFSKLKRVKV 975

Query: 446  IFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVF 505
              C  L  IFP +M  R   L+ L    C SLEE+F+++  N        V++L +L + 
Sbjct: 976  ATCGELLNIFPSSMLNRLQSLRFLKAEDCSSLEEVFDVEGTNVNVKEGVTVTQLSQLILR 1035

Query: 506  CLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSV------------------E 547
             LPK+ KIWN+DP G L F NL  + I ECQ LK++FP S+                  E
Sbjct: 1036 SLPKVEKIWNEDPHGILNFQNLQSITIDECQSLKNLFPASLVRDLVQLQELHVLCCGIEE 1095

Query: 548  IVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANL---------IF 598
            IVA D  G D    F+FP +T L+L  L  L +FY G H    P    L         +F
Sbjct: 1096 IVAKD-NGVDTQATFVFPKVTSLELSYLHQLRSFYPGAHPSWWPSLKQLTVRECYKVNVF 1154

Query: 599  QLKNPSFGSK----SLVMLLCLIGQQVFPNLEELTLSKYIFT-TWRQA----QFHKLKIL 649
              +NP+F  +    +L M L L+    FPNLEELTL     T  W +      F +L++L
Sbjct: 1155 AFENPTFRQRHHEGNLDMPLSLLQPVEFPNLEELTLDHNKDTEIWPEQFPVDSFPRLRVL 1214

Query: 650  HFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSK- 708
              +    + FQ+  L N           E  A+ + +++ + L  L  +  HLW  +SK 
Sbjct: 1215 DDVIQFKEVFQLEGLDN-----------ENQAKRLGRLREIWLCDLPELT-HLWKENSKP 1262

Query: 709  -LD----------------------SFLQNLEFLEVKEC-----------ALSLISLRI- 733
             LD                      +  QNL  L+V+ C           A SL+ L+  
Sbjct: 1263 GLDLLSLKSLEVRNCVRLINLVPSSASFQNLATLDVQSCGSLRSLISPSVAKSLVKLKTL 1322

Query: 734  ---------------------EIVFSKLKWLFLESSGSITSFCSGNYAISFPSLEVLIVE 772
                                 EI F KL+ + L+   ++TSF SG Y  SFPSLE ++++
Sbjct: 1323 KIGGSHMMEEVVANEEGEAADEIAFCKLQHMALKCLSNLTSFSSGGYIFSFPSLEHMVLK 1382

Query: 773  NCPKLNTFSAGVLKTPRLRAVQNWKLDEDFWAGDVNTTLQHL 814
             CPK+  FS G++ TPRL  ++    DE  W  D+NTT+ +L
Sbjct: 1383 KCPKMKIFSPGLVTTPRLERIKVGD-DEWHWQDDLNTTIHNL 1423

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358344903|ref|XP_003636525.1| Cc-nbs-lrr resistance protein [Medicago truncatula] gi|355502460|gb|AES83663.1| Cc-nbs-lrr resistance protein [Medicago truncatula]

 Score =  278 bits (711), Expect = 9e-72,   Method: Compositional matrix adjust.
 Identities = 261/854 (30%), Positives = 388/854 (45%), Gaps = 191/854 (22%)

Query: 101  LKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCI 160
            LKL  +I L+      +K +E L+LD+V G++NV+  L+REGF  LK LH+QNN  L  I
Sbjct: 725  LKLGTNIHLEHGIKALIKCVENLYLDDVDGIQNVLPNLNREGFTLLKHLHVQNNTNLNHI 784

Query: 161  NDSTELVPRDA-FPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSF 219
             D+ E     A FP+LE+L L NL NLE I   Q    SF  L  +KV++C +L ++FSF
Sbjct: 785  VDNKERNQIHASFPILETLVLLNLRNLEHICHGQPSVASFGSLSVIKVKNCVQLKYLFSF 844

Query: 220  SISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSF 279
            ++ +GL  L  I+V  C +MK I         NN    +KIEF QLR LTL+ L  L +F
Sbjct: 845  TMVKGLSHLCKIEVCECNSMKEIVFRDNNSSANNDITDEKIEFLQLRSLTLEHLETLDNF 904

Query: 280  CSV--------------------------VAFPNLETLKLSA-INSETIWHNQLPAMSSC 312
             S                           V FPNL+TLK S+ +N   +W +   +M   
Sbjct: 905  FSYYLTHSRNKQKCHGLEPCDSAPFFNAQVVFPNLDTLKFSSLLNLNKVWDDNHQSMC-- 962

Query: 313  IQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVF 372
              NLT LIV  C  LK+LF ++LV SF+ L+HLEI  C  +      EE+I ++ ++   
Sbjct: 963  --NLTSLIVDNCVGLKYLFPSTLVESFMNLKHLEISNCHMM------EEIIAKKDRNNAL 1014

Query: 373  PQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFF 432
             ++ FL                                L+  IL+++++  T+   Q   
Sbjct: 1015 KEVRFLN-------------------------------LEKIILKDMDSLKTIWHYQ--- 1040

Query: 433  NEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNL--QELNSEE 490
                F   K++EV  CK +  +FP +M   + +L+ L V  C  +EEIF L   E NSEE
Sbjct: 1041 ----FETSKMLEVNNCKKIVVVFPSSMQNTYNELEKLEVTNCALVEEIFELTFNENNSEE 1096

Query: 491  THSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSV---- 546
                  + L+E+ +  L  L KIW+ DP   L F NL+ V++  C  L+ + P S+    
Sbjct: 1097 ----VTTHLKEVTIDGLWNLKKIWSGDPEEILSFQNLINVKVVNCASLEYLLPFSIATRC 1152

Query: 547  ---------------EIVANDVRGN-DAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLEC 590
                           EIVA +   +  AA  F F  L+ L L + P L  FY+G HTLEC
Sbjct: 1153 SHLKKLGIKWCENIKEIVAEEKESSLSAAPIFEFNQLSTLLLWNSPKLNGFYAGNHTLEC 1212

Query: 591  PERANL------------IFQLKNPSFGSKSLVMLL---CLIGQQVFPNLEELTLSKYIF 635
            P    +                ++ +F      +L      I ++V PNLE L + +   
Sbjct: 1213 PSLREINVSRCTKLKLFRTLSTRSSNFRDDKPSVLTQPPLFIAEEVIPNLELLRMVQADA 1272

Query: 636  TTWRQAQ-----FHKLKILHFISDGSD--FFQVGLLQNIHNLEKLVL-----------KV 677
                Q Q     F K+  +   S  ++   F    L+N+H LEKL +           K 
Sbjct: 1273 DMILQTQNSSALFSKMTSIGLTSYNTEEARFPYWFLENVHTLEKLHVEWSCFKKIFQDKG 1332

Query: 678  EEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECAL----------- 726
            E   +   QIK+L LN+L  + +++ +  S++D  L+ LE+L+V+ C+            
Sbjct: 1333 EISEKTRTQIKTLMLNELPKL-QYICDEGSQIDPVLEFLEYLKVRSCSSLTNLMPSSVTL 1391

Query: 727  ---------------------------SLISLRIE----------------IVFSKLKWL 743
                                        L  L+IE                I F  L+ L
Sbjct: 1392 NHLTQLEIIKCNGLKYLFTTPTAQSLDKLTVLQIEDCSSLEEIITGVENVDIAFVSLQIL 1451

Query: 744  FLESSGSITSFCSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLDEDF- 802
             LE   S+  FCS    + FPSLE +IV  CP++  FSAG   TP L+ V+  + D ++ 
Sbjct: 1452 NLECLPSLVKFCSSECFMKFPSLEKVIVGECPRMKIFSAGHTSTPILQKVKIAENDSEWH 1511

Query: 803  WAGDVNTTLQHLNE 816
            W G++N T+ ++ E
Sbjct: 1512 WKGNLNNTIYNMFE 1525

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	869
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.235	0.223	0.272	1.8e-07
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.295	0.289	0.25	2.2e-07
TAIR|locus:2005517	909	RPS2 "RESISTANT TO P. SYRINGAE	0.177	0.169	0.257	1.3e-06
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.323	0.317	0.225	0.00023
TAIR|locus:2197739	762	AT1G61300 [Arabidopsis thalian	0.113	0.129	0.289	0.00067

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

 Score = 164 (62.8 bits), Expect = 1.8e-07, Sum P(2) = 1.8e-07
 Identities = 61/224 (27%), Positives = 100/224 (44%)

Query:   208 ESCEKLTHIFSFSISRG--LPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQL 265
             E C  ++ +   + S G  L  + ++ +  C+ +  +FE        N     K  F  +
Sbjct:   692 EGCLAISDVNVSNASIGWLLQHVTSLDLNYCEGLNGMFE--------NLVTKSKSSFVAM 743

Query:   266 RKLTLKSLPQLR--SFCS--VVAFPNLETLKLSAINSETIWH-NQLPAMSSCIQNLTRLI 320
             + L++   P L   S C   +  FPNLE L L  +N E+I   N    M   +Q L  L 
Sbjct:   744 KALSIHYFPSLSLASGCESQLDLFPNLEELSLDNVNLESIGELNGFLGMR--LQKLKLLQ 801

Query:   321 VHGCNNLKFLFSTSLVRSFV-QLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLK 379
             V GC  LK LFS  ++   +  LQ +++  C+ LE +     +  +   + + P+L  +K
Sbjct:   802 VSGCRQLKRLFSDQILAGTLPNLQEIKVVSCLRLEELFNFSSVPVDFCAESLLPKLTVIK 861

Query:   380 MKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDM 423
             +K L +L   C+   + L SL+ L +  C  LK       NT M
Sbjct:   862 LKYLPQLRSLCNDRVV-LESLEHLEVESCESLKNLPFVPGNTGM 904

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201996 RPS5 "AT1G12220" [Arabidopsis thaliana (taxid:3702)]

 Score = 128 (50.1 bits), Expect = 2.2e-07, Sum P(2) = 2.2e-07
 Identities = 76/304 (25%), Positives = 131/304 (43%)

Query:   256 VIDKIEFSQLRKLT--LKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSC- 312
             V+D  E   L +L   +  L  LR F   +++  +  L +     + + H  L  MSS  
Sbjct:   567 VLDLSENQSLNELPEEISELASLRYFN--LSYTCIHQLPVGLWTLKKLIHLNLEHMSSLG 624

Query:   313 ----IQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERK 368
                 I NL  L   G  + + L   SLV+    L+HLE+   +D+   +  E ++  +R 
Sbjct:   625 SILGISNLWNLRTLGLRDSRLLLDMSLVKELQLLEHLEVIT-LDISSSLVAEPLLCSQRL 683

Query:   369 DIVFPQLNF--LKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVV 426
                  +++F  LK + +  LT    GN      L++L + +C       ++ I  + T  
Sbjct:   684 VECIKEVDFKYLKEESVRVLTLPTMGN------LRKLGIKRCG------MREIKIERTTS 731

Query:   427 GIQSFFNEKSFCKLKLMEVIF--CKSL----WTIFPHNMFARFLKLQSLIVGACGSLEEI 480
                   +  + C   L  V    C  L    W +F  N+   FL+     VG    +E+I
Sbjct:   732 SSSRNKSPTTPCFSNLSRVFIAKCHGLKDLTWLLFAPNL--TFLE-----VGFSKEVEDI 784

Query:   481 FNLQELNSEETHSGAV---SRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQR 537
               + E  +EE HS  +    +L  LH+F L  L +I+ K     L FP L ++ + +C++
Sbjct:   785 --ISEEKAEE-HSATIVPFRKLETLHLFELRGLKRIYAK----ALHFPCLKVIHVEKCEK 837

Query:   538 LKSI 541
             L+ +
Sbjct:   838 LRKL 841

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

GO:0006952 "defense response" evidence=IMP;TAS

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2005517 RPS2 "RESISTANT TO P. SYRINGAE 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 147 (56.8 bits), Expect = 1.3e-06, Sum P(2) = 1.3e-06
 Identities = 43/167 (25%), Positives = 78/167 (46%)

Query:   265 LRKLTLKSLPQLRSFCSVVAF-----PNLETLKLSAINSET-IWHNQLPAMSSCIQNLTR 318
             LR+L++KS   L    +   F     P+LE L L ++++ T +W N +     C++N+  
Sbjct:   719 LRRLSIKSCHDLEYLVTPADFENDWLPSLEVLTLHSLHNLTRVWGNSVS--QDCLRNIRC 776

Query:   319 LIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFL 378
             + +  CN LK   + S V+   +L+ +E+  C ++E ++   E    E   + FP L  L
Sbjct:   777 INISHCNKLK---NVSWVQKLPKLEVIELFDCREIEELISEHESPSVEDPTL-FPSLKTL 832

Query:   379 KMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTV 425
             + +DL +L             ++ L +  CP +K    Q   T M +
Sbjct:   833 RTRDLPELNSILPSR-FSFQKVETLVITNCPRVKKLPFQERRTQMNL 878

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

GO:0016045 "detection of bacterium" evidence=RCA;IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0042742 "defense response to bacterium" evidence=RCA;IMP

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009595 "detection of biotic stimulus" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

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

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009863 "salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0031347 "regulation of defense response" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0043069 "negative regulation of programmed cell death" evidence=RCA

GO:0043900 "regulation of multi-organism process" evidence=RCA

GO:0045087 "innate immune response" evidence=RCA

GO:0050776 "regulation of immune response" evidence=RCA

GO:0050832 "defense response to fungus" evidence=RCA

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

TAIR|locus:2034765 AT1G12290 [Arabidopsis thaliana (taxid:3702)]

 Score = 107 (42.7 bits), Expect = 0.00023, Sum P(2) = 0.00023
 Identities = 68/302 (22%), Positives = 126/302 (41%)

Query:   120 LEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDS-TELVPRDAFPXXXXX 178
             L  L+L + + + N+  E  R   P L +L +  N  L  + D  +ELV           
Sbjct:   542 LTTLFLQDNRHLVNISGEFFRS-MPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSYSS 600

Query:   179 XXXXXXXXXKIS-CSQLRAESFLRLRNLK-VESCEKLTHIFSFSISRGLPQLQTIKVTAC 236
                      K+     L  ES L L ++  ++    L  +   ++   L      ++   
Sbjct:   601 IGRLPVGLLKLKKLMHLNLESMLCLESVSGIDHLSNLKTVRLLNLRMWLTISLLEELERL 660

Query:   237 KNMKVI-FEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSA 295
             +N++V+  E+     +       ++    L+K+++K L +      ++  P++  L+   
Sbjct:   661 ENLEVLTIEIISSSALEQLLCSHRL-VRCLQKVSVKYLDE--ESVRILTLPSIGDLREVF 717

Query:   296 INS----ETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCM 351
             I      + I        S C  NL+++++ GCN LK L  T L+ +   L HL +    
Sbjct:   718 IGGCGMRDIIIERNTSLTSPCFPNLSKVLITGCNGLKDL--TWLLFA-PNLTHLNVWNSR 774

Query:   352 DLEGIVFPEEMIEEERKDIV-FPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMA-KCP 409
              +E I+  E+       DIV F +L +L + DL +L +    N +  P L Q+ +  KC 
Sbjct:   775 QIEEIISQEKA---STADIVPFRKLEYLHLWDLPEL-KSIYWNPLPFPCLNQINVQNKCR 830

Query:   410 EL 411
             +L
Sbjct:   831 KL 832

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

TAIR|locus:2197739 AT1G61300 [Arabidopsis thaliana (taxid:3702)]

 Score = 76 (31.8 bits), Expect = 0.00067, Sum P(3) = 0.00067
 Identities = 35/121 (28%), Positives = 58/121 (47%)

Query:   437 FCKLKLMEVIFCKSL----WTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETH 492
             F  L  + +  C S+    W +F  N+   +++  S  VG      EI N +E  +  T 
Sbjct:   623 FTNLSRLGLSKCHSIKDLTWILFAPNLVYLYIE-DSREVG------EIIN-KEKATNLTS 674

Query:   493 SGAVSRLRELHVFCLPKLTKI-WNKDPRGKLIFPNLVLVRIFECQRLKSIFP---TSVEI 548
                  +L  L ++ LPKL  I W+  P   L FP L+++ + +C +L+ + P   TSV +
Sbjct:   675 ITPFLKLERLILYNLPKLESIYWS--P---LHFPRLLIIHVLDCPKLRKL-PLNATSVPL 728

Query:   549 V 549
             V
Sbjct:   729 V 729

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

---

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	869
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.97
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.96
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.89
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.82
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.8
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.71
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.7
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.68
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.67
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.66
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.64
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.34
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.34
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.25
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.2
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.18
KOG4341	483	consensus F-box protein containing LRR [General fu	98.97
KOG4341	483	consensus F-box protein containing LRR [General fu	98.96
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.93
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.92
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	98.89
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.71
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.4
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.39
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.29
PRK15386	426	type III secretion protein GogB; Provisional	98.21
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.17
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.16
PRK15386	426	type III secretion protein GogB; Provisional	98.11
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.09
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.02
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.0
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	97.98
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	97.89
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.71
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.66
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.47
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.38
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.29
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.27
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	97.22
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.15
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	97.13
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	96.95
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	96.81
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	96.18
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	96.05
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	96.01
PLN03150	623	hypothetical protein; Provisional	95.64
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	95.59
PLN03150	623	hypothetical protein; Provisional	95.53
KOG2982	418	consensus Uncharacterized conserved protein [Funct	95.41
KOG2982	418	consensus Uncharacterized conserved protein [Funct	95.35
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	95.1
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	94.4
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	94.35
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	94.14
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	92.49
KOG2123	388	consensus Uncharacterized conserved protein [Funct	92.09
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	92.0
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	91.85
KOG3864	221	consensus Uncharacterized conserved protein [Funct	90.72
KOG3864	221	consensus Uncharacterized conserved protein [Funct	90.58
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	90.57
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	89.51
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	87.15
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	87.0
KOG2123	388	consensus Uncharacterized conserved protein [Funct	86.82
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	81.84
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	80.22

>PLN03210 Resistant to P

Probab=100.00  E-value=1.3e-35  Score=365.21  Aligned_cols=454  Identities=17%  Similarity=0.212  Sum_probs=305.2

Q ss_pred             CCcchhHHHHhhhcCCChhhHHHHHHHhcCCCccchhhHHHHhhccceecccccCcccccchheecccCCCc--------
Q 040040            1 SPFLALTTITRALKNKSVPEWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPT--------   72 (869)
Q Consensus         1 ~~PLAi~~ig~~L~~k~~~~W~~~l~~l~~~~~~~~~~~~~~i~~~L~lSY~~Lp~~~lK~CFlycs~Fped--------   72 (869)
                      |+||||+++|+.|++|+.++|+++++++++..       +.+|.++|++|||+|+++..|.||+|||+||.+        
T Consensus       387 GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~-------~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~  459 (1153)
T PLN03210        387 NLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGL-------DGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKL  459 (1153)
T ss_pred             CCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCc-------cHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHH
Confidence            78999999999999999999999999987622       246889999999999865689999999999975        


Q ss_pred             cccchhhhc--------cc-ccc--cccCCCchhHHHHHHhhhccc---------c-hhhhHHH----------------
Q 040040           73 QTCHDIRDS--------AC-PLK--RCLDKPQEKTNDISLKLNASI---------C-LKDKFFT----------------  115 (869)
Q Consensus        73 w~~~g~~~~--------~~-~~~--~~~~~~~~~~r~l~~~~~~~~---------~-~~~~~~~----------------  115 (869)
                      |.+.+..+.        .+ .+.  .....||+.+|+|+.+++..-         . .++.+.+                
T Consensus       460 ~l~~~~~~~~~~l~~L~~ksLi~~~~~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l  539 (1153)
T PLN03210        460 LLANSDLDVNIGLKNLVDKSLIHVREDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITL  539 (1153)
T ss_pred             HHHhcCCCchhChHHHHhcCCEEEcCCeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEe
Confidence            333221110        00 111  122468999999998775211         0 0112222                


Q ss_pred             ----------------HhccCceeeecccc--Ccc----ccccccCCCCC-CCccEEEEecCCCceecCCCCCCCCCCCC
Q 040040          116 ----------------QLKGLEELWLDEVQ--GVE----NVVYELDREGF-PSLKLLHIQNNPYLLCINDSTELVPRDAF  172 (869)
Q Consensus       116 ----------------~l~~l~~L~l~~~~--~~~----~~~~~~~~~~~-~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  172 (869)
                                      .+++++.|.+....  ...    .++..+  ..+ ++||.|.+.++ .++.+|..+      .+
T Consensus       540 ~~~~~~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~--~~lp~~Lr~L~~~~~-~l~~lP~~f------~~  610 (1153)
T PLN03210        540 DIDEIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGF--DYLPPKLRLLRWDKY-PLRCMPSNF------RP  610 (1153)
T ss_pred             ccCccceeeecHHHHhcCccccEEEEecccccccccceeecCcch--hhcCcccEEEEecCC-CCCCCCCcC------Cc
Confidence                            22333333332110  000    001111  111 34566666555 445555443      45


Q ss_pred             CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccC
Q 040040          173 PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDIN  252 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~  252 (869)
                      .+|++|++.++ +++.+|.+   ...+++|++|++++|..++.+|   .++.+++|++|++++|..+..+|         
T Consensus       611 ~~L~~L~L~~s-~l~~L~~~---~~~l~~Lk~L~Ls~~~~l~~ip---~ls~l~~Le~L~L~~c~~L~~lp---------  674 (1153)
T PLN03210        611 ENLVKLQMQGS-KLEKLWDG---VHSLTGLRNIDLRGSKNLKEIP---DLSMATNLETLKLSDCSSLVELP---------  674 (1153)
T ss_pred             cCCcEEECcCc-cccccccc---cccCCCCCEEECCCCCCcCcCC---ccccCCcccEEEecCCCCccccc---------
Confidence            78888998887 67777766   5678999999999888887774   46788999999999998888888         


Q ss_pred             CccccccccCCcccEEeccCCCCcccccccccCCCcCEEEecccc-ccccccCCCCCcccccCCceEEEEecCCCCcccc
Q 040040          253 NTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAIN-SETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLF  331 (869)
Q Consensus       253 ~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~-l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~  331 (869)
                          ..+..+++|+.|++++|..++.+|....+++|+.|++++|. +..     +|.   ..++|+.|++.++ .++.+ 
T Consensus       675 ----~si~~L~~L~~L~L~~c~~L~~Lp~~i~l~sL~~L~Lsgc~~L~~-----~p~---~~~nL~~L~L~~n-~i~~l-  740 (1153)
T PLN03210        675 ----SSIQYLNKLEDLDMSRCENLEILPTGINLKSLYRLNLSGCSRLKS-----FPD---ISTNISWLDLDET-AIEEF-  740 (1153)
T ss_pred             ----hhhhccCCCCEEeCCCCCCcCccCCcCCCCCCCEEeCCCCCCccc-----ccc---ccCCcCeeecCCC-ccccc-
Confidence                45667889999999999988888877678899999998886 322     232   2457888888775 45554 


Q ss_pred             ChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCcc
Q 040040          332 STSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPEL  411 (869)
Q Consensus       332 ~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l  411 (869)
                      |..  ..+++|++|.+.+|... .+....... .......+++|+.|++++|+.+..+|.. ...+++|+.|++.+|+++
T Consensus       741 P~~--~~l~~L~~L~l~~~~~~-~l~~~~~~l-~~~~~~~~~sL~~L~Ls~n~~l~~lP~s-i~~L~~L~~L~Ls~C~~L  815 (1153)
T PLN03210        741 PSN--LRLENLDELILCEMKSE-KLWERVQPL-TPLMTMLSPSLTRLFLSDIPSLVELPSS-IQNLHKLEHLEIENCINL  815 (1153)
T ss_pred             ccc--ccccccccccccccchh-hcccccccc-chhhhhccccchheeCCCCCCccccChh-hhCCCCCCEEECCCCCCc
Confidence            432  25778888888765421 111000000 0001123578888888888877777754 346788888888888888


Q ss_pred             ccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCcccc
Q 040040          412 KAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEET  491 (869)
Q Consensus       412 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~  491 (869)
                      +.+|..                 ..+++|+.|++++|..+.. +|.    ..++|++|++++ +.++.+|..       +
T Consensus       816 ~~LP~~-----------------~~L~sL~~L~Ls~c~~L~~-~p~----~~~nL~~L~Ls~-n~i~~iP~s-------i  865 (1153)
T PLN03210        816 ETLPTG-----------------INLESLESLDLSGCSRLRT-FPD----ISTNISDLNLSR-TGIEEVPWW-------I  865 (1153)
T ss_pred             CeeCCC-----------------CCccccCEEECCCCCcccc-ccc----cccccCEeECCC-CCCccChHH-------H
Confidence            877743                 1267888888888877754 343    246788888887 566666532       1


Q ss_pred             ccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCcccc
Q 040040          492 HSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSI  541 (869)
Q Consensus       492 ~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l  541 (869)
                        ..+++|+.|++.+|++|+.+    |..+..+++|+.+++++|++|+.+
T Consensus       866 --~~l~~L~~L~L~~C~~L~~l----~~~~~~L~~L~~L~l~~C~~L~~~  909 (1153)
T PLN03210        866 --EKFSNLSFLDMNGCNNLQRV----SLNISKLKHLETVDFSDCGALTEA  909 (1153)
T ss_pred             --hcCCCCCEEECCCCCCcCcc----CcccccccCCCeeecCCCcccccc
Confidence              36788888888888888887    667777888888888888887755

syringae 6; Provisional

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.9e-34  Score=335.04  Aligned_cols=244  Identities=23%  Similarity=0.308  Sum_probs=165.9

Q ss_pred             CCcchhHHHHhhhcCC-ChhhHHHHHHHhcCCCccchhhHHHHhhccceecccccCcccccchheecccCCCc-------
Q 040040            1 SPFLALTTITRALKNK-SVPEWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPT-------   72 (869)
Q Consensus         1 ~~PLAi~~ig~~L~~k-~~~~W~~~l~~l~~~~~~~~~~~~~~i~~~L~lSY~~Lp~~~lK~CFlycs~Fped-------   72 (869)
                      |+|||++|||++|++| ++.||+++.+.+.++-..+..++++.|+++|++|||+|| +++|.||+|||+||||       
T Consensus       354 GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~-~~lK~CFLycalFPED~~I~~e~  432 (889)
T KOG4658|consen  354 GLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLP-EELKSCFLYCALFPEDYEIKKEK  432 (889)
T ss_pred             ChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhh-HHHHHHHHhhccCCcccccchHH
Confidence            7999999999999999 889999999999986567778888899999999999999 6899999999999997       


Q ss_pred             ----cccchhhhccc---ccc-----------------c-------ccCCCchhHHHHHHhhhcccch-------hh--h
Q 040040           73 ----QTCHDIRDSAC---PLK-----------------R-------CLDKPQEKTNDISLKLNASICL-------KD--K  112 (869)
Q Consensus        73 ----w~~~g~~~~~~---~~~-----------------~-------~~~~~~~~~r~l~~~~~~~~~~-------~~--~  112 (869)
                          |+||||++...   .++                 +       ...+|||++|+||+|++..+..       .+  +
T Consensus       433 Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~~  512 (889)
T KOG4658|consen  433 LIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGKQEENQIVSDGVG  512 (889)
T ss_pred             HHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccccccceEEECCcC
Confidence                99999885311   111                 0       1125799999999998863221       11  1


Q ss_pred             HHH-----HhccCceeeeccccCccccccccCCCCCCCccEEEEecCCC-ceecCCCCCCCCCCCCCCccEeeccccccc
Q 040040          113 FFT-----QLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPY-LLCINDSTELVPRDAFPLLESLSLSNLMNL  186 (869)
Q Consensus       113 ~~~-----~l~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~-l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l  186 (869)
                      .++     .....+..++.+ .....+..   ...+++|++|-+.++.. +..++..+    +..+|.|++|++++|..+
T Consensus       513 ~~~~~~~~~~~~~rr~s~~~-~~~~~~~~---~~~~~~L~tLll~~n~~~l~~is~~f----f~~m~~LrVLDLs~~~~l  584 (889)
T KOG4658|consen  513 LSEIPQVKSWNSVRRMSLMN-NKIEHIAG---SSENPKLRTLLLQRNSDWLLEISGEF----FRSLPLLRVLDLSGNSSL  584 (889)
T ss_pred             ccccccccchhheeEEEEec-cchhhccC---CCCCCccceEEEeecchhhhhcCHHH----HhhCcceEEEECCCCCcc
Confidence            111     011222233222 11111111   14456777777777642 44443332    356777888888877777


Q ss_pred             cccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCccc
Q 040040          187 EKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLR  266 (869)
Q Consensus       187 ~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~  266 (869)
                      .++|..   ++.+.+||||+++++. ++.+|.  .+++|..|.+|++..+..+..++             .....+++||
T Consensus       585 ~~LP~~---I~~Li~LryL~L~~t~-I~~LP~--~l~~Lk~L~~Lnl~~~~~l~~~~-------------~i~~~L~~Lr  645 (889)
T KOG4658|consen  585 SKLPSS---IGELVHLRYLDLSDTG-ISHLPS--GLGNLKKLIYLNLEVTGRLESIP-------------GILLELQSLR  645 (889)
T ss_pred             CcCChH---HhhhhhhhcccccCCC-ccccch--HHHHHHhhheecccccccccccc-------------chhhhccccc
Confidence            777766   6777788888887773 777765  67777777777777766555443             1223366777


Q ss_pred             EEeccC
Q 040040          267 KLTLKS  272 (869)
Q Consensus       267 ~L~l~~  272 (869)
                      +|.+..
T Consensus       646 ~L~l~~  651 (889)
T KOG4658|consen  646 VLRLPR  651 (889)
T ss_pred             EEEeec
Confidence            776644

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

Probab=99.97  E-value=5.6e-30  Score=316.43  Aligned_cols=501  Identities=18%  Similarity=0.120  Sum_probs=272.1

Q ss_pred             CCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccc-cccccccccccCCCCEEEecCCCCCcccCCh
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEK-ISCSQLRAESFLRLRNLKVESCEKLTHIFSF  219 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~-l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~  219 (869)
                      ..+++|++|+++++.-...+|...    ...+++|++|+++++ ++.+ ++     .+.+++|++|++++|. +....+ 
T Consensus        90 ~~l~~L~~L~Ls~n~~~~~ip~~~----~~~l~~L~~L~Ls~n-~l~~~~p-----~~~l~~L~~L~Ls~n~-~~~~~p-  157 (968)
T PLN00113         90 FRLPYIQTINLSNNQLSGPIPDDI----FTTSSSLRYLNLSNN-NFTGSIP-----RGSIPNLETLDLSNNM-LSGEIP-  157 (968)
T ss_pred             hCCCCCCEEECCCCccCCcCChHH----hccCCCCCEEECcCC-ccccccC-----ccccCCCCEEECcCCc-ccccCC-
Confidence            456677777776663222344322    135567777777766 3322 22     2356677777777664 332222 


Q ss_pred             hhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccc-ccccCCCcCEEEeccccc
Q 040040          220 SISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFC-SVVAFPNLETLKLSAINS  298 (869)
Q Consensus       220 ~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~-~~~~l~~L~~L~L~~~~l  298 (869)
                      ..++.+++|++|++++|.....+|             ..+.++++|++|+++++.-...+| .+..+++|++|++++|.+
T Consensus       158 ~~~~~l~~L~~L~L~~n~l~~~~p-------------~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l  224 (968)
T PLN00113        158 NDIGSFSSLKVLDLGGNVLVGKIP-------------NSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNL  224 (968)
T ss_pred             hHHhcCCCCCEEECccCcccccCC-------------hhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCcc
Confidence            256667777777777665434444             334556677777776655333333 234566777777776653


Q ss_pred             cccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCcccee
Q 040040          299 ETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFL  378 (869)
Q Consensus       299 ~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L  378 (869)
                      ..    ..|..++.+++|++|++++|..... .| ..++.+++|++|+++++. +......        ....+++|+.|
T Consensus       225 ~~----~~p~~l~~l~~L~~L~L~~n~l~~~-~p-~~l~~l~~L~~L~L~~n~-l~~~~p~--------~l~~l~~L~~L  289 (968)
T PLN00113        225 SG----EIPYEIGGLTSLNHLDLVYNNLTGP-IP-SSLGNLKNLQYLFLYQNK-LSGPIPP--------SIFSLQKLISL  289 (968)
T ss_pred             CC----cCChhHhcCCCCCEEECcCceeccc-cC-hhHhCCCCCCEEECcCCe-eeccCch--------hHhhccCcCEE
Confidence            32    2344445566777777766543222 23 335666777777776653 2221111        13455667777


Q ss_pred             ecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchh
Q 040040          379 KMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHN  458 (869)
Q Consensus       379 ~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~  458 (869)
                      ++++|. +..........+++|+.|++.++.-....|..                ...+++|+.|++++|.. ...+|. 
T Consensus       290 ~Ls~n~-l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~----------------~~~l~~L~~L~L~~n~l-~~~~p~-  350 (968)
T PLN00113        290 DLSDNS-LSGEIPELVIQLQNLEILHLFSNNFTGKIPVA----------------LTSLPRLQVLQLWSNKF-SGEIPK-  350 (968)
T ss_pred             ECcCCe-eccCCChhHcCCCCCcEEECCCCccCCcCChh----------------HhcCCCCCEEECcCCCC-cCcCCh-
Confidence            776664 32222222234566667766654332222210                02256677777766643 223343 


Q ss_pred             HHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCc
Q 040040          459 MFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRL  538 (869)
Q Consensus       459 ~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L  538 (869)
                      .++.+++|+.|++++|.....++.       ..  ..+++|+.|++.++.-...+    |..+..+++|+.|++.+|+ +
T Consensus       351 ~l~~~~~L~~L~Ls~n~l~~~~p~-------~~--~~~~~L~~L~l~~n~l~~~~----p~~~~~~~~L~~L~L~~n~-l  416 (968)
T PLN00113        351 NLGKHNNLTVLDLSTNNLTGEIPE-------GL--CSSGNLFKLILFSNSLEGEI----PKSLGACRSLRRVRLQDNS-F  416 (968)
T ss_pred             HHhCCCCCcEEECCCCeeEeeCCh-------hH--hCcCCCCEEECcCCEecccC----CHHHhCCCCCCEEECcCCE-e
Confidence            345566777777766433223322       11  24456666666665433333    5556666777777776643 3


Q ss_pred             ccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccC-ccccccceeeEee
Q 040040          539 KSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNP-SFGSKSLVMLLCL  616 (869)
Q Consensus       539 ~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~-~~~~~~~~~~~~~  616 (869)
                      ....|.++               ..+++|+.|+++++......+.....  +++|+.|++++ ++. .++...       
T Consensus       417 ~~~~p~~~---------------~~l~~L~~L~Ls~N~l~~~~~~~~~~--l~~L~~L~L~~n~~~~~~p~~~-------  472 (968)
T PLN00113        417 SGELPSEF---------------TKLPLVYFLDISNNNLQGRINSRKWD--MPSLQMLSLARNKFFGGLPDSF-------  472 (968)
T ss_pred             eeECChhH---------------hcCCCCCEEECcCCcccCccChhhcc--CCCCcEEECcCceeeeecCccc-------
Confidence            32224322               22566666666665543333322222  36666776666 433 222211       


Q ss_pred             ecceeccccceeeeecccceeeeccc---cccceEEEe-ecCCCccchHHHHHhccccceEEEE---EE----ecccccc
Q 040040          617 IGQQVFPNLEELTLSKYIFTTWRQAQ---FHKLKILHF-ISDGSDFFQVGLLQNIHNLEKLVLK---VE----EHAEGIA  685 (869)
Q Consensus       617 ~~~~~~~~L~~L~l~~~~~~~~~~~~---~~~L~~L~l-~~~~~~~~p~~~l~~l~~L~~L~l~---~~----~~~~~~~  685 (869)
                          ..++|+.|++++|.+.+..+..   +++|+.|++ .|+..+.+|.. +..+++|++|+++   +.    .....++
T Consensus       473 ----~~~~L~~L~ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~p~~-~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~  547 (968)
T PLN00113        473 ----GSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDE-LSSCKKLVSLDLSHNQLSGQIPASFSEMP  547 (968)
T ss_pred             ----ccccceEEECcCCccCCccChhhhhhhccCEEECcCCcceeeCChH-HcCccCCCEEECCCCcccccCChhHhCcc
Confidence                1356777777777766544432   566677777 34444455543 5667777777766   11    2233467


Q ss_pred             cccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhcccceeEecccchhccccCC
Q 040040          686 QIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESSG  749 (869)
Q Consensus       686 ~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~~~~~~~L~~L~l~~l~  749 (869)
                      +|+.|++++|....     ..|..+..+++|+.|++++|+- ...+|..+.|..+....+.+.+
T Consensus       548 ~L~~L~Ls~N~l~~-----~~p~~l~~l~~L~~l~ls~N~l-~~~~p~~~~~~~~~~~~~~~n~  605 (968)
T PLN00113        548 VLSQLDLSQNQLSG-----EIPKNLGNVESLVQVNISHNHL-HGSLPSTGAFLAINASAVAGNI  605 (968)
T ss_pred             cCCEEECCCCcccc-----cCChhHhcCcccCEEeccCCcc-eeeCCCcchhcccChhhhcCCc
Confidence            88888888874433     3355677889999999999982 4456766666666655555444

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

Probab=99.96  E-value=1e-28  Score=305.13  Aligned_cols=506  Identities=17%  Similarity=0.115  Sum_probs=355.3

Q ss_pred             CCccEEEEecCCCce-ecCCCCCCCCCCCCCCccEeecccccccc-ccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          144 PSLKLLHIQNNPYLL-CINDSTELVPRDAFPLLESLSLSNLMNLE-KISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~-~i~~~~~~~~~~~~~~L~~L~L~~~~~l~-~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      .+++.|+++++ .+. .++..     +..+++|++|+++++ ++. .++...  ...+.+|++|++++|. +....|   
T Consensus        69 ~~v~~L~L~~~-~i~~~~~~~-----~~~l~~L~~L~Ls~n-~~~~~ip~~~--~~~l~~L~~L~Ls~n~-l~~~~p---  135 (968)
T PLN00113         69 SRVVSIDLSGK-NISGKISSA-----IFRLPYIQTINLSNN-QLSGPIPDDI--FTTSSSLRYLNLSNNN-FTGSIP---  135 (968)
T ss_pred             CcEEEEEecCC-CccccCChH-----HhCCCCCCEEECCCC-ccCCcCChHH--hccCCCCCEEECcCCc-cccccC---
Confidence            57899999887 333 22222     357899999999998 444 454432  1278999999999985 443322   


Q ss_pred             hcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc-cccCCCcCEEEeccccccc
Q 040040          222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS-VVAFPNLETLKLSAINSET  300 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~l~~L~~L~L~~~~l~~  300 (869)
                      .+.+++|++|+++++.....+|             ..+..+++|++|+++++.-...+|. +..+++|++|++++|.+..
T Consensus       136 ~~~l~~L~~L~Ls~n~~~~~~p-------------~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~  202 (968)
T PLN00113        136 RGSIPNLETLDLSNNMLSGEIP-------------NDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVG  202 (968)
T ss_pred             ccccCCCCEEECcCCcccccCC-------------hHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcC
Confidence            3578999999999986544555             4567799999999999765444443 5678999999999997432


Q ss_pred             cccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeec
Q 040040          301 IWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKM  380 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l  380 (869)
                          .+|..++.+++|+.|++++|..... .| ..++.+++|++|++++|.-...++.         ....+++|+.|++
T Consensus       203 ----~~p~~l~~l~~L~~L~L~~n~l~~~-~p-~~l~~l~~L~~L~L~~n~l~~~~p~---------~l~~l~~L~~L~L  267 (968)
T PLN00113        203 ----QIPRELGQMKSLKWIYLGYNNLSGE-IP-YEIGGLTSLNHLDLVYNNLTGPIPS---------SLGNLKNLQYLFL  267 (968)
T ss_pred             ----cCChHHcCcCCccEEECcCCccCCc-CC-hhHhcCCCCCEEECcCceeccccCh---------hHhCCCCCCEEEC
Confidence                3555567799999999998754433 34 4478999999999999743223322         2567899999999


Q ss_pred             ccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHH
Q 040040          381 KDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMF  460 (869)
Q Consensus       381 ~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~  460 (869)
                      +++.-...++. ....+++|+.|++++|.-...+|..                ...+++|+.|++.+|... ...|. .+
T Consensus       268 ~~n~l~~~~p~-~l~~l~~L~~L~Ls~n~l~~~~p~~----------------~~~l~~L~~L~l~~n~~~-~~~~~-~~  328 (968)
T PLN00113        268 YQNKLSGPIPP-SIFSLQKLISLDLSDNSLSGEIPEL----------------VIQLQNLEILHLFSNNFT-GKIPV-AL  328 (968)
T ss_pred             cCCeeeccCch-hHhhccCcCEEECcCCeeccCCChh----------------HcCCCCCcEEECCCCccC-CcCCh-hH
Confidence            98862223332 3346789999999887543333321                123689999999887643 33454 46


Q ss_pred             hhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCccc
Q 040040          461 ARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKS  540 (869)
Q Consensus       461 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~  540 (869)
                      ..+++|+.|++++|.....++..       .  +.+++|+.|+++++.--..+    |..+..+++|+.|+++++ ++..
T Consensus       329 ~~l~~L~~L~L~~n~l~~~~p~~-------l--~~~~~L~~L~Ls~n~l~~~~----p~~~~~~~~L~~L~l~~n-~l~~  394 (968)
T PLN00113        329 TSLPRLQVLQLWSNKFSGEIPKN-------L--GKHNNLTVLDLSTNNLTGEI----PEGLCSSGNLFKLILFSN-SLEG  394 (968)
T ss_pred             hcCCCCCEEECcCCCCcCcCChH-------H--hCCCCCcEEECCCCeeEeeC----ChhHhCcCCCCEEECcCC-Eecc
Confidence            78999999999997654444431       1  36789999999987544444    778888999999999985 4554


Q ss_pred             ccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCccccccceeeEeeecc
Q 040040          541 IFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQ  619 (869)
Q Consensus       541 l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~  619 (869)
                      .+|.++               ..+++|+.|++.+|......+.....  +++|+.|++++ .+........         
T Consensus       395 ~~p~~~---------------~~~~~L~~L~L~~n~l~~~~p~~~~~--l~~L~~L~Ls~N~l~~~~~~~~---------  448 (968)
T PLN00113        395 EIPKSL---------------GACRSLRRVRLQDNSFSGELPSEFTK--LPLVYFLDISNNNLQGRINSRK---------  448 (968)
T ss_pred             cCCHHH---------------hCCCCCCEEECcCCEeeeECChhHhc--CCCCCEEECcCCcccCccChhh---------
Confidence            446544               24789999999998765555544443  48999999998 6654322110         


Q ss_pred             eeccccceeeeecccceeeeccc--cccceEEEe-ecCCCccchHHHHHhccccceEEEE---EE----ecccccccccE
Q 040040          620 QVFPNLEELTLSKYIFTTWRQAQ--FHKLKILHF-ISDGSDFFQVGLLQNIHNLEKLVLK---VE----EHAEGIAQIKS  689 (869)
Q Consensus       620 ~~~~~L~~L~l~~~~~~~~~~~~--~~~L~~L~l-~~~~~~~~p~~~l~~l~~L~~L~l~---~~----~~~~~~~~L~~  689 (869)
                      ..+++|+.|++++|.+.+..+..  .++|+.|++ .+...+.+|.. +..+++|+.|+++   +.    .....+++|+.
T Consensus       449 ~~l~~L~~L~L~~n~~~~~~p~~~~~~~L~~L~ls~n~l~~~~~~~-~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~  527 (968)
T PLN00113        449 WDMPSLQMLSLARNKFFGGLPDSFGSKRLENLDLSRNQFSGAVPRK-LGSLSELMQLKLSENKLSGEIPDELSSCKKLVS  527 (968)
T ss_pred             ccCCCCcEEECcCceeeeecCcccccccceEEECcCCccCCccChh-hhhhhccCEEECcCCcceeeCChHHcCccCCCE
Confidence            13689999999999988765543  578999999 55555677755 7889999999998   22    22334788999


Q ss_pred             EEcCccccccccccCCCCCcccccCCccEEEEecccchhh-ccccee-EecccchhccccCCCcceeecC
Q 040040          690 LKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLI-SLRIEI-VFSKLKWLFLESSGSITSFCSG  757 (869)
Q Consensus       690 L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~-~l~~~~-~~~~L~~L~l~~l~~l~~~~~~  757 (869)
                      |++++|.-.     +..+.....+++|+.|++++|.  +. .+|... .+++|+.|++.+++-...++..
T Consensus       528 L~Ls~N~l~-----~~~p~~~~~l~~L~~L~Ls~N~--l~~~~p~~l~~l~~L~~l~ls~N~l~~~~p~~  590 (968)
T PLN00113        528 LDLSHNQLS-----GQIPASFSEMPVLSQLDLSQNQ--LSGEIPKNLGNVESLVQVNISHNHLHGSLPST  590 (968)
T ss_pred             EECCCCccc-----ccCChhHhCcccCCEEECCCCc--ccccCChhHhcCcccCEEeccCCcceeeCCCc
Confidence            999987433     3345556788999999999997  44 445432 4667888888877655455543

>PLN03210 Resistant to P

Probab=99.89  E-value=5.2e-22  Score=245.06  Aligned_cols=350  Identities=22%  Similarity=0.302  Sum_probs=243.1

Q ss_pred             hhhcCCCCCcEEEEeecC--Cce----eeeccccccccCCccccccccC-CcccEEeccCCCCcccccccccCCCcCEEE
Q 040040          220 SISRGLPQLQTIKVTACK--NMK----VIFEVGREDDINNTEVIDKIEF-SQLRKLTLKSLPQLRSFCSVVAFPNLETLK  292 (869)
Q Consensus       220 ~~~~~L~~L~~L~l~~c~--~l~----~l~~~~~~~~~~~~~~~~~~~l-~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~  292 (869)
                      ..+.++++|+.|.+....  ...    .+|             .++..+ .+|+.|.+.+++ ++.+|....+.+|++|+
T Consensus       552 ~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp-------------~~~~~lp~~Lr~L~~~~~~-l~~lP~~f~~~~L~~L~  617 (1153)
T PLN03210        552 NAFKGMRNLLFLKFYTKKWDQKKEVRWHLP-------------EGFDYLPPKLRLLRWDKYP-LRCMPSNFRPENLVKLQ  617 (1153)
T ss_pred             HHHhcCccccEEEEecccccccccceeecC-------------cchhhcCcccEEEEecCCC-CCCCCCcCCccCCcEEE
Confidence            467889999999996532  100    112             122233 469999998864 67778777789999999


Q ss_pred             eccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecccccccccccccccccccccccc
Q 040040          293 LSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVF  372 (869)
Q Consensus       293 L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~  372 (869)
                      +.++.++.+|.+.     ..+++|+.|++++|..++.+ |.  +..+++|+.|++++|..+..++..         +..+
T Consensus       618 L~~s~l~~L~~~~-----~~l~~Lk~L~Ls~~~~l~~i-p~--ls~l~~Le~L~L~~c~~L~~lp~s---------i~~L  680 (1153)
T PLN03210        618 MQGSKLEKLWDGV-----HSLTGLRNIDLRGSKNLKEI-PD--LSMATNLETLKLSDCSSLVELPSS---------IQYL  680 (1153)
T ss_pred             CcCcccccccccc-----ccCCCCCEEECCCCCCcCcC-Cc--cccCCcccEEEecCCCCccccchh---------hhcc
Confidence            9999988887652     35899999999999888876 32  677899999999999988887643         5678


Q ss_pred             CccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcc
Q 040040          373 PQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLW  452 (869)
Q Consensus       373 ~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~  452 (869)
                      ++|+.|++++|.+++.+|...  .+++|+.|.+.+|..++.+|..                   ..+|+.|++.++. +.
T Consensus       681 ~~L~~L~L~~c~~L~~Lp~~i--~l~sL~~L~Lsgc~~L~~~p~~-------------------~~nL~~L~L~~n~-i~  738 (1153)
T PLN03210        681 NKLEDLDMSRCENLEILPTGI--NLKSLYRLNLSGCSRLKSFPDI-------------------STNISWLDLDETA-IE  738 (1153)
T ss_pred             CCCCEEeCCCCCCcCccCCcC--CCCCCCEEeCCCCCCccccccc-------------------cCCcCeeecCCCc-cc
Confidence            999999999999999998754  5889999999999988887742                   5789999998775 44


Q ss_pred             cccchhHHhhcCCccEEEEcccCCcccccccc-ccCccccccccccccceeecccccccccccccCCCCcccCCCccEEE
Q 040040          453 TIFPHNMFARFLKLQSLIVGACGSLEEIFNLQ-ELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVR  531 (869)
Q Consensus       453 ~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~-~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~  531 (869)
                      . +|...  .+++|++|.+.+|.... +.... ......  ...+++|+.|++++|+.+..+    |..+.++++|+.|+
T Consensus       739 ~-lP~~~--~l~~L~~L~l~~~~~~~-l~~~~~~l~~~~--~~~~~sL~~L~Ls~n~~l~~l----P~si~~L~~L~~L~  808 (1153)
T PLN03210        739 E-FPSNL--RLENLDELILCEMKSEK-LWERVQPLTPLM--TMLSPSLTRLFLSDIPSLVEL----PSSIQNLHKLEHLE  808 (1153)
T ss_pred             c-ccccc--cccccccccccccchhh-ccccccccchhh--hhccccchheeCCCCCCcccc----ChhhhCCCCCCEEE
Confidence            3 46543  57889999888754321 11100 000000  024567888888888777777    77788888888888


Q ss_pred             EecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeeccccCccccccce
Q 040040          532 IFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQLKNPSFGSKSLV  611 (869)
Q Consensus       532 l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~~l~~~~~~~~~  611 (869)
                      +++|++++.+ |..+                .+++|+.|++++|..+..++.                            
T Consensus       809 Ls~C~~L~~L-P~~~----------------~L~sL~~L~Ls~c~~L~~~p~----------------------------  843 (1153)
T PLN03210        809 IENCINLETL-PTGI----------------NLESLESLDLSGCSRLRTFPD----------------------------  843 (1153)
T ss_pred             CCCCCCcCee-CCCC----------------CccccCEEECCCCCccccccc----------------------------
Confidence            8888888776 6422                256777777777766544321                            


Q ss_pred             eeEeeecceeccccceeeeecccceeeeccccccceEEEeecCCCccchHHHHHhccccceEEEEEEecccccccccEEE
Q 040040          612 MLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLK  691 (869)
Q Consensus       612 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~~~~~~~~~~~L~~L~  691 (869)
                               .+++|++|++++|.+..                     +|.+ +..                 +++|+.|+
T Consensus       844 ---------~~~nL~~L~Ls~n~i~~---------------------iP~s-i~~-----------------l~~L~~L~  875 (1153)
T PLN03210        844 ---------ISTNISDLNLSRTGIEE---------------------VPWW-IEK-----------------FSNLSFLD  875 (1153)
T ss_pred             ---------cccccCEeECCCCCCcc---------------------ChHH-Hhc-----------------CCCCCEEE
Confidence                     13456666666554433                     4433 222                 34555666


Q ss_pred             cCccccccccccCCCCCcccccCCccEEEEecccchhhcc
Q 040040          692 LNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISL  731 (869)
Q Consensus       692 l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l  731 (869)
                      +++|++|+ .+.    .....+++|+.|++++|+ +|..+
T Consensus       876 L~~C~~L~-~l~----~~~~~L~~L~~L~l~~C~-~L~~~  909 (1153)
T PLN03210        876 MNGCNNLQ-RVS----LNISKLKHLETVDFSDCG-ALTEA  909 (1153)
T ss_pred             CCCCCCcC-ccC----cccccccCCCeeecCCCc-ccccc
Confidence            67777777 552    335667888888888887 35544

syringae 6; Provisional

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

Probab=99.82  E-value=5.8e-21  Score=199.12  Aligned_cols=72  Identities=18%  Similarity=0.262  Sum_probs=54.9

Q ss_pred             ccccceeeeecccceeeeccc------cccceEEEeecCCCccchHHHHHhccccceEEEE---EE----eccccccccc
Q 040040          622 FPNLEELTLSKYIFTTWRQAQ------FHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLK---VE----EHAEGIAQIK  688 (869)
Q Consensus       622 ~~~L~~L~l~~~~~~~~~~~~------~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~---~~----~~~~~~~~L~  688 (869)
                      +.+|+.|+++.|.+.....+.      +++|+.|++.+|....+|...+.++++||.|++.   +-    +.++.+ .|+
T Consensus       364 lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~gNqlk~I~krAfsgl~~LE~LdL~~NaiaSIq~nAFe~m-~Lk  442 (873)
T KOG4194|consen  364 LSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTGNQLKSIPKRAFSGLEALEHLDLGDNAIASIQPNAFEPM-ELK  442 (873)
T ss_pred             hhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecCceeeecchhhhccCcccceecCCCCcceeecccccccc-hhh
Confidence            688999999999888755433      7888999998888899999889999999999987   11    222233 777


Q ss_pred             EEEcCc
Q 040040          689 SLKLNK  694 (869)
Q Consensus       689 ~L~l~~  694 (869)
                      +|.+.+
T Consensus       443 ~Lv~nS  448 (873)
T KOG4194|consen  443 ELVMNS  448 (873)
T ss_pred             hhhhcc
Confidence            777665

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

Probab=99.80  E-value=3.6e-20  Score=193.28  Aligned_cols=356  Identities=20%  Similarity=0.235  Sum_probs=213.9

Q ss_pred             CcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecccccccccccccccccc
Q 040040          287 NLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEE  366 (869)
Q Consensus       287 ~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~  366 (869)
                      .-+.|++++|.+..+...    .+..+++|+.+++.. +.++.+ | ...+...+|+.|++.+ +.+..+-..       
T Consensus        79 ~t~~LdlsnNkl~~id~~----~f~nl~nLq~v~l~~-N~Lt~I-P-~f~~~sghl~~L~L~~-N~I~sv~se-------  143 (873)
T KOG4194|consen   79 QTQTLDLSNNKLSHIDFE----FFYNLPNLQEVNLNK-NELTRI-P-RFGHESGHLEKLDLRH-NLISSVTSE-------  143 (873)
T ss_pred             ceeeeeccccccccCcHH----HHhcCCcceeeeecc-chhhhc-c-cccccccceeEEeeec-cccccccHH-------
Confidence            445566666665443222    123366666666655 455554 3 2122334567777666 344443222       


Q ss_pred             ccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEe
Q 040040          367 RKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVI  446 (869)
Q Consensus       367 ~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~  446 (869)
                       ....+|.|++|+++... +..++...+..-+++++|++.+ +.++.+..+.+               ..+.+|..|.++
T Consensus       144 -~L~~l~alrslDLSrN~-is~i~~~sfp~~~ni~~L~La~-N~It~l~~~~F---------------~~lnsL~tlkLs  205 (873)
T KOG4194|consen  144 -ELSALPALRSLDLSRNL-ISEIPKPSFPAKVNIKKLNLAS-NRITTLETGHF---------------DSLNSLLTLKLS  205 (873)
T ss_pred             -HHHhHhhhhhhhhhhch-hhcccCCCCCCCCCceEEeecc-ccccccccccc---------------cccchheeeecc
Confidence             34466777777776643 5555544333334677777755 34444332211               226678888888


Q ss_pred             ccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCC
Q 040040          447 FCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPN  526 (869)
Q Consensus       447 ~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~  526 (869)
                      ++. ++. +|...+.+++.|+.|++.. +.++.+-        +.....+++|+.|.+.. +++..+   +...+..+.+
T Consensus       206 rNr-itt-Lp~r~Fk~L~~L~~LdLnr-N~irive--------~ltFqgL~Sl~nlklqr-N~I~kL---~DG~Fy~l~k  270 (873)
T KOG4194|consen  206 RNR-ITT-LPQRSFKRLPKLESLDLNR-NRIRIVE--------GLTFQGLPSLQNLKLQR-NDISKL---DDGAFYGLEK  270 (873)
T ss_pred             cCc-ccc-cCHHHhhhcchhhhhhccc-cceeeeh--------hhhhcCchhhhhhhhhh-cCcccc---cCcceeeecc
Confidence            765 432 5888888899999999987 5555441        11114677888888876 345545   3456777888


Q ss_pred             ccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeeccccCccc
Q 040040          527 LVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQLKNPSFG  606 (869)
Q Consensus       527 L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~~l~~~~  606 (869)
                      +++|++.. +++..+--.++               +.+++|+.|++++.                         .+..+.
T Consensus       271 me~l~L~~-N~l~~vn~g~l---------------fgLt~L~~L~lS~N-------------------------aI~rih  309 (873)
T KOG4194|consen  271 MEHLNLET-NRLQAVNEGWL---------------FGLTSLEQLDLSYN-------------------------AIQRIH  309 (873)
T ss_pred             cceeeccc-chhhhhhcccc---------------cccchhhhhccchh-------------------------hhheee
Confidence            88888875 66666511111               23455555555542                         333222


Q ss_pred             cccceeeEeeecceeccccceeeeecccceeeeccc---cccceEEEeecCCCccchHHHHHhccccceEEEE-------
Q 040040          607 SKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQ---FHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLK-------  676 (869)
Q Consensus       607 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~---~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~-------  676 (869)
                      .....         ..++|++|+++.|.+....++.   ++.|+.|.++.|....+-...+..+.+|++|+++       
T Consensus       310 ~d~Ws---------ftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~  380 (873)
T KOG4194|consen  310 IDSWS---------FTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWC  380 (873)
T ss_pred             cchhh---------hcccceeEeccccccccCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEE
Confidence            11100         2467777777777777766655   5667777777777777777778888888888887       


Q ss_pred             EEe---cccccccccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhccc-ceeEecccchhcccc
Q 040040          677 VEE---HAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLR-IEIVFSKLKWLFLES  747 (869)
Q Consensus       677 ~~~---~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~-~~~~~~~L~~L~l~~  747 (869)
                      +++   .+.++++|+.|++.+ ++++ .+.+..   ...|.+||.|++.+|.  +.++- +......|++|.+..
T Consensus       381 IEDaa~~f~gl~~LrkL~l~g-Nqlk-~I~krA---fsgl~~LE~LdL~~Na--iaSIq~nAFe~m~Lk~Lv~nS  448 (873)
T KOG4194|consen  381 IEDAAVAFNGLPSLRKLRLTG-NQLK-SIPKRA---FSGLEALEHLDLGDNA--IASIQPNAFEPMELKELVMNS  448 (873)
T ss_pred             EecchhhhccchhhhheeecC-ceee-ecchhh---hccCcccceecCCCCc--ceeecccccccchhhhhhhcc
Confidence            333   234599999999998 5677 775544   4578999999999997  66653 333344666666554

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

Probab=99.71  E-value=1.2e-20  Score=188.46  Aligned_cols=177  Identities=21%  Similarity=0.195  Sum_probs=109.8

Q ss_pred             CccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCC
Q 040040          174 LLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINN  253 (869)
Q Consensus       174 ~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~  253 (869)
                      -|+.|.++.+ +++.+...   ...+..|.+|++.+. ++..+|+  .++.+..++.|+++.. ++.++|          
T Consensus        46 ~l~~lils~N-~l~~l~~d---l~nL~~l~vl~~~~n-~l~~lp~--aig~l~~l~~l~vs~n-~ls~lp----------  107 (565)
T KOG0472|consen   46 DLQKLILSHN-DLEVLRED---LKNLACLTVLNVHDN-KLSQLPA--AIGELEALKSLNVSHN-KLSELP----------  107 (565)
T ss_pred             chhhhhhccC-chhhccHh---hhcccceeEEEeccc-hhhhCCH--HHHHHHHHHHhhcccc-hHhhcc----------
Confidence            3555556555 33333322   345666777777766 3556654  6777777777777763 355666          


Q ss_pred             ccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccCh
Q 040040          254 TEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFST  333 (869)
Q Consensus       254 ~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~  333 (869)
                         .++..+.+|++++++...-.+-.+.++.+-.|+.|+-.+|++..     .|..++.+.+|..+.+.+ ++++.+ |+
T Consensus       108 ---~~i~s~~~l~~l~~s~n~~~el~~~i~~~~~l~dl~~~~N~i~s-----lp~~~~~~~~l~~l~~~~-n~l~~l-~~  177 (565)
T KOG0472|consen  108 ---EQIGSLISLVKLDCSSNELKELPDSIGRLLDLEDLDATNNQISS-----LPEDMVNLSKLSKLDLEG-NKLKAL-PE  177 (565)
T ss_pred             ---HHHhhhhhhhhhhccccceeecCchHHHHhhhhhhhcccccccc-----CchHHHHHHHHHHhhccc-cchhhC-CH
Confidence               45556667777777664433334445666777777777776444     444456677888888877 566766 44


Q ss_pred             hhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCccccccC
Q 040040          334 SLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFC  390 (869)
Q Consensus       334 ~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~  390 (869)
                      ..+. ++.|++|+... +.++.++..         .+.+.+|+-|++.... +..+|
T Consensus       178 ~~i~-m~~L~~ld~~~-N~L~tlP~~---------lg~l~~L~~LyL~~Nk-i~~lP  222 (565)
T KOG0472|consen  178 NHIA-MKRLKHLDCNS-NLLETLPPE---------LGGLESLELLYLRRNK-IRFLP  222 (565)
T ss_pred             HHHH-HHHHHhcccch-hhhhcCChh---------hcchhhhHHHHhhhcc-cccCC
Confidence            4344 88888888765 356655543         5567777777777654 55555

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

Probab=99.70  E-value=6.2e-21  Score=190.48  Aligned_cols=38  Identities=16%  Similarity=0.275  Sum_probs=25.9

Q ss_pred             cccccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhh
Q 040040          684 IAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLI  729 (869)
Q Consensus       684 ~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~  729 (869)
                      +.+|+.|++.+ ..++ .+    |+.+++++||++|++++|+  +.
T Consensus       504 m~nL~tLDL~n-Ndlq-~I----Pp~LgnmtnL~hLeL~gNp--fr  541 (565)
T KOG0472|consen  504 MRNLTTLDLQN-NDLQ-QI----PPILGNMTNLRHLELDGNP--FR  541 (565)
T ss_pred             hhhcceeccCC-Cchh-hC----ChhhccccceeEEEecCCc--cC
Confidence            34455555555 3455 33    5678899999999999997  55

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

Probab=99.68  E-value=1.3e-18  Score=191.76  Aligned_cols=253  Identities=19%  Similarity=0.162  Sum_probs=129.0

Q ss_pred             cccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeeccccccccccccc
Q 040040          437 FCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNK  516 (869)
Q Consensus       437 ~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~  516 (869)
                      +.+|++++++.+. +.. +| .+...+.+|+.+.+.+ +.+..++.       .+  ...++|+.|.+..| .++++   
T Consensus       240 p~nl~~~dis~n~-l~~-lp-~wi~~~~nle~l~~n~-N~l~~lp~-------ri--~~~~~L~~l~~~~n-el~yi---  302 (1081)
T KOG0618|consen  240 PLNLQYLDISHNN-LSN-LP-EWIGACANLEALNANH-NRLVALPL-------RI--SRITSLVSLSAAYN-ELEYI---  302 (1081)
T ss_pred             cccceeeecchhh-hhc-ch-HHHHhcccceEecccc-hhHHhhHH-------HH--hhhhhHHHHHhhhh-hhhhC---
Confidence            5778888887764 443 46 4556788888888887 55555543       12  25677888888774 57777   


Q ss_pred             CCCCcccCCCccEEEEecCCCcccccCccEEEEEec--------cCCCC---CcceeeccccceEeecCCCCCceecCCC
Q 040040          517 DPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVAND--------VRGND---AATKFIFPSLTFLKLRDLPYLTTFYSGM  585 (869)
Q Consensus       517 ~p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~--------~~~~~---~~~~~~~~~L~~L~l~~~~~l~~~~~~~  585 (869)
                       |.....+.+|++|++.. ++|..+ |..+.-+...        ....+   ......++.|+.|.+.+...-....+-.
T Consensus       303 -p~~le~~~sL~tLdL~~-N~L~~l-p~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l  379 (1081)
T KOG0618|consen  303 -PPFLEGLKSLRTLDLQS-NNLPSL-PDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVL  379 (1081)
T ss_pred             -CCcccccceeeeeeehh-cccccc-chHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhh
Confidence             67777788888888886 677776 5432000000        00000   0001123444444444432222211111


Q ss_pred             CCCCCCCCceeeecc-ccCccccccceeeEeeecceeccccceeeeecccceeeeccc--cccceEEEeecCCCccchHH
Q 040040          586 HTLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQ--FHKLKILHFISDGSDFFQVG  662 (869)
Q Consensus       586 ~~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~--~~~L~~L~l~~~~~~~~p~~  662 (869)
                      ..  ...|+.|++++ .+.+||.....         .+..|++|+++||.+..++...  +..|++|..++|....+|  
T Consensus       380 ~~--~~hLKVLhLsyNrL~~fpas~~~---------kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~ahsN~l~~fP--  446 (1081)
T KOG0618|consen  380 VN--FKHLKVLHLSYNRLNSFPASKLR---------KLEELEELNLSGNKLTTLPDTVANLGRLHTLRAHSNQLLSFP--  446 (1081)
T ss_pred             cc--ccceeeeeecccccccCCHHHHh---------chHHhHHHhcccchhhhhhHHHHhhhhhHHHhhcCCceeech--
Confidence            22  24555555555 55555543211         2445555566666555554322  445555555555555555  


Q ss_pred             HHHhccccceEEEEEEecccccccccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhcccceeEecccch
Q 040040          663 LLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKW  742 (869)
Q Consensus       663 ~l~~l~~L~~L~l~~~~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~~~~~~~L~~  742 (869)
                      -+..+                 ++|+.+|++. .+|+ .+....  .... ++|++||+++|.. ++  -+...|+.++.
T Consensus       447 e~~~l-----------------~qL~~lDlS~-N~L~-~~~l~~--~~p~-p~LkyLdlSGN~~-l~--~d~~~l~~l~~  501 (1081)
T KOG0618|consen  447 ELAQL-----------------PQLKVLDLSC-NNLS-EVTLPE--ALPS-PNLKYLDLSGNTR-LV--FDHKTLKVLKS  501 (1081)
T ss_pred             hhhhc-----------------CcceEEeccc-chhh-hhhhhh--hCCC-cccceeeccCCcc-cc--cchhhhHHhhh
Confidence            23444                 4555555543 3344 221110  0011 6788888887762 11  12334555555


Q ss_pred             hcccc
Q 040040          743 LFLES  747 (869)
Q Consensus       743 L~l~~  747 (869)
                      +...+
T Consensus       502 l~~~~  506 (1081)
T KOG0618|consen  502 LSQMD  506 (1081)
T ss_pred             hhhee
Confidence            44443

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

Probab=99.67  E-value=1e-18  Score=183.47  Aligned_cols=227  Identities=19%  Similarity=0.210  Sum_probs=161.2

Q ss_pred             hccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccc--cccccc
Q 040040          117 LKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEK--ISCSQL  194 (869)
Q Consensus       117 l~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~--l~~~~~  194 (869)
                      +..++-|.+.+ .++..++.++  ..+.+|++|.+.++ .+..+....     ..+|.|+.+++.++ +++.  +|..  
T Consensus        31 Mt~~~WLkLnr-t~L~~vPeEL--~~lqkLEHLs~~HN-~L~~vhGEL-----s~Lp~LRsv~~R~N-~LKnsGiP~d--   98 (1255)
T KOG0444|consen   31 MTQMTWLKLNR-TKLEQVPEEL--SRLQKLEHLSMAHN-QLISVHGEL-----SDLPRLRSVIVRDN-NLKNSGIPTD--   98 (1255)
T ss_pred             hhheeEEEech-hhhhhChHHH--HHHhhhhhhhhhhh-hhHhhhhhh-----ccchhhHHHhhhcc-ccccCCCCch--
Confidence            45566677765 5566677777  67888888888887 566665443     57888888888876 5543  4544  


Q ss_pred             cccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCC
Q 040040          195 RAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLP  274 (869)
Q Consensus       195 ~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  274 (869)
                       +-.+..|..|+|+++ +++..|.  .+..-.++-+|++++. +++.+|..            -..+++.|-.|++++ +
T Consensus        99 -iF~l~dLt~lDLShN-qL~EvP~--~LE~AKn~iVLNLS~N-~IetIPn~------------lfinLtDLLfLDLS~-N  160 (1255)
T KOG0444|consen   99 -IFRLKDLTILDLSHN-QLREVPT--NLEYAKNSIVLNLSYN-NIETIPNS------------LFINLTDLLFLDLSN-N  160 (1255)
T ss_pred             -hcccccceeeecchh-hhhhcch--hhhhhcCcEEEEcccC-ccccCCch------------HHHhhHhHhhhcccc-c
Confidence             457888888999888 5888865  6777888889999874 47777722            234577777888877 4


Q ss_pred             Ccccccc-cccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccc
Q 040040          275 QLRSFCS-VVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDL  353 (869)
Q Consensus       275 ~l~~~~~-~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l  353 (869)
                      ++..+|. ...+.+|++|+|++|.+...-..++|+    +++|+.|.+++-+.-..-+|.+ +..+.+|..++++. +++
T Consensus       161 rLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPs----mtsL~vLhms~TqRTl~N~Pts-ld~l~NL~dvDlS~-N~L  234 (1255)
T KOG0444|consen  161 RLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQLPS----MTSLSVLHMSNTQRTLDNIPTS-LDDLHNLRDVDLSE-NNL  234 (1255)
T ss_pred             hhhhcCHHHHHHhhhhhhhcCCChhhHHHHhcCcc----chhhhhhhcccccchhhcCCCc-hhhhhhhhhccccc-cCC
Confidence            5666654 567788999999999876666667777    8889999888865433334544 67788899888886 566


Q ss_pred             cccccccccccccccccccCccceeecccCcccccc
Q 040040          354 EGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRF  389 (869)
Q Consensus       354 ~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l  389 (869)
                      ..++..         +..+++|+.|++++.. ++.+
T Consensus       235 p~vPec---------ly~l~~LrrLNLS~N~-iteL  260 (1255)
T KOG0444|consen  235 PIVPEC---------LYKLRNLRRLNLSGNK-ITEL  260 (1255)
T ss_pred             CcchHH---------HhhhhhhheeccCcCc-eeee
Confidence            665432         4567888888888765 5544

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

Probab=99.66  E-value=2.6e-18  Score=180.49  Aligned_cols=367  Identities=17%  Similarity=0.239  Sum_probs=266.8

Q ss_pred             CCCCCccEeecccccccc--ccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeecccc
Q 040040          170 DAFPLLESLSLSNLMNLE--KISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGR  247 (869)
Q Consensus       170 ~~~~~L~~L~L~~~~~l~--~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~  247 (869)
                      +.+|..+-.+++++. ++  ..|..   ...+..++.|.|... ++..+|.  .++.+.+|++|.+.... +..+.    
T Consensus         4 gVLpFVrGvDfsgND-Fsg~~FP~~---v~qMt~~~WLkLnrt-~L~~vPe--EL~~lqkLEHLs~~HN~-L~~vh----   71 (1255)
T KOG0444|consen    4 GVLPFVRGVDFSGND-FSGDRFPHD---VEQMTQMTWLKLNRT-KLEQVPE--ELSRLQKLEHLSMAHNQ-LISVH----   71 (1255)
T ss_pred             cccceeecccccCCc-CCCCcCchh---HHHhhheeEEEechh-hhhhChH--HHHHHhhhhhhhhhhhh-hHhhh----
Confidence            456777888888873 33  23333   456889999999887 5888875  89999999999998754 54444    


Q ss_pred             ccccCCccccccccCCcccEEeccCCCCccc---ccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecC
Q 040040          248 EDDINNTEVIDKIEFSQLRKLTLKSLPQLRS---FCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGC  324 (869)
Q Consensus       248 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~---~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c  324 (869)
                               -++..++.||.+.++.. +++.   .+.+..+..|..|+|+.|.+.++     |..+..-+++-.|++++ 
T Consensus        72 ---------GELs~Lp~LRsv~~R~N-~LKnsGiP~diF~l~dLt~lDLShNqL~Ev-----P~~LE~AKn~iVLNLS~-  135 (1255)
T KOG0444|consen   72 ---------GELSDLPRLRSVIVRDN-NLKNSGIPTDIFRLKDLTILDLSHNQLREV-----PTNLEYAKNSIVLNLSY-  135 (1255)
T ss_pred             ---------hhhccchhhHHHhhhcc-ccccCCCCchhcccccceeeecchhhhhhc-----chhhhhhcCcEEEEccc-
Confidence                     35566889999888763 3332   23467788999999999987664     44445567889999988 


Q ss_pred             CCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEE
Q 040040          325 NNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLR  404 (869)
Q Consensus       325 ~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~  404 (869)
                      +++..+ |.+.+-+|+.|-.|++++ +.++.++..         ...+..|++|.+++.| |.-+.......+++|+.|+
T Consensus       136 N~IetI-Pn~lfinLtDLLfLDLS~-NrLe~LPPQ---------~RRL~~LqtL~Ls~NP-L~hfQLrQLPsmtsL~vLh  203 (1255)
T KOG0444|consen  136 NNIETI-PNSLFINLTDLLFLDLSN-NRLEMLPPQ---------IRRLSMLQTLKLSNNP-LNHFQLRQLPSMTSLSVLH  203 (1255)
T ss_pred             CccccC-CchHHHhhHhHhhhcccc-chhhhcCHH---------HHHHhhhhhhhcCCCh-hhHHHHhcCccchhhhhhh
Confidence            577776 777788999999999998 578877654         5678899999999988 3332222222356677777


Q ss_pred             EccCCc-cccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccc
Q 040040          405 MAKCPE-LKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNL  483 (869)
Q Consensus       405 l~~c~~-l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~  483 (869)
                      +++-.. +..+|.     +           ...+.+|..++++.+ .+.. .|.... .+++|+.|++++ +.++++...
T Consensus       204 ms~TqRTl~N~Pt-----s-----------ld~l~NL~dvDlS~N-~Lp~-vPecly-~l~~LrrLNLS~-N~iteL~~~  263 (1255)
T KOG0444|consen  204 MSNTQRTLDNIPT-----S-----------LDDLHNLRDVDLSEN-NLPI-VPECLY-KLRNLRRLNLSG-NKITELNMT  263 (1255)
T ss_pred             cccccchhhcCCC-----c-----------hhhhhhhhhcccccc-CCCc-chHHHh-hhhhhheeccCc-Cceeeeecc
Confidence            766322 111221     1           133789999999755 4653 466544 789999999999 777766332


Q ss_pred             cccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCc--ccccCccEEEEEeccCCCCCcce
Q 040040          484 QELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRL--KSIFPTSVEIVANDVRGNDAATK  561 (869)
Q Consensus       484 ~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L--~~l~p~s~ei~~~~~~~~~~~~~  561 (869)
                      .         +.-.+|++|+++. ++|+.+    |..+..+++|+.|.+.+ ++|  +.+ |+++               
T Consensus       264 ~---------~~W~~lEtLNlSr-NQLt~L----P~avcKL~kL~kLy~n~-NkL~FeGi-PSGI---------------  312 (1255)
T KOG0444|consen  264 E---------GEWENLETLNLSR-NQLTVL----PDAVCKLTKLTKLYANN-NKLTFEGI-PSGI---------------  312 (1255)
T ss_pred             H---------HHHhhhhhhcccc-chhccc----hHHHhhhHHHHHHHhcc-CcccccCC-ccch---------------
Confidence            2         2556899999998 678888    99999999999999986 555  455 8766               


Q ss_pred             eeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCccccccceeeEeeecceeccccceeeeecccceeeec
Q 040040          562 FIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQ  640 (869)
Q Consensus       562 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~  640 (869)
                      +.+.+|+.+...+. +|+-.|.+.+  +|+.|+.|.+.. .+-++|...          ..++.|+.|++..|.....+|
T Consensus       313 GKL~~Levf~aanN-~LElVPEglc--RC~kL~kL~L~~NrLiTLPeaI----------HlL~~l~vLDlreNpnLVMPP  379 (1255)
T KOG0444|consen  313 GKLIQLEVFHAANN-KLELVPEGLC--RCVKLQKLKLDHNRLITLPEAI----------HLLPDLKVLDLRENPNLVMPP  379 (1255)
T ss_pred             hhhhhhHHHHhhcc-ccccCchhhh--hhHHHHHhcccccceeechhhh----------hhcCCcceeeccCCcCccCCC
Confidence            45778888877763 5666777765  479999999999 888888754          247999999999998877665

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

Probab=99.64  E-value=3.1e-18  Score=188.80  Aligned_cols=258  Identities=20%  Similarity=0.205  Sum_probs=177.3

Q ss_pred             ccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccC
Q 040040          438 CKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKD  517 (869)
Q Consensus       438 ~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~  517 (869)
                      ++|+.|+...|...+ ..+.   ..-.+|++++++. +.+..+|++.         +.+.+|+.+.+.. ..|..+    
T Consensus       219 ~~l~~L~a~~n~l~~-~~~~---p~p~nl~~~dis~-n~l~~lp~wi---------~~~~nle~l~~n~-N~l~~l----  279 (1081)
T KOG0618|consen  219 PSLTALYADHNPLTT-LDVH---PVPLNLQYLDISH-NNLSNLPEWI---------GACANLEALNANH-NRLVAL----  279 (1081)
T ss_pred             cchheeeeccCccee-eccc---cccccceeeecch-hhhhcchHHH---------HhcccceEecccc-hhHHhh----
Confidence            778888888776442 2222   2346899999998 6777776543         3788899999887 566777    


Q ss_pred             CCCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceee
Q 040040          518 PRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLI  597 (869)
Q Consensus       518 p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~  597 (869)
                      |..+...++|+.|.+.. +.++.+ |.-.               ..+.+|++|++... ++.+++.......-.++..+.
T Consensus       280 p~ri~~~~~L~~l~~~~-nel~yi-p~~l---------------e~~~sL~tLdL~~N-~L~~lp~~~l~v~~~~l~~ln  341 (1081)
T KOG0618|consen  280 PLRISRITSLVSLSAAY-NELEYI-PPFL---------------EGLKSLRTLDLQSN-NLPSLPDNFLAVLNASLNTLN  341 (1081)
T ss_pred             HHHHhhhhhHHHHHhhh-hhhhhC-CCcc---------------cccceeeeeeehhc-cccccchHHHhhhhHHHHHHh
Confidence            78888899999999987 578887 4311               12688999999864 455555532222112355566


Q ss_pred             ecc-ccCccccccceeeEeeecceeccccceeeeeccccee-eec--cccccceEEEeecCCCccchHHHHHhccccceE
Q 040040          598 FQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTT-WRQ--AQFHKLKILHFISDGSDFFQVGLLQNIHNLEKL  673 (869)
Q Consensus       598 l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~--~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L  673 (869)
                      .+. ++...+...         +...+.|+.|++.+|.+.. .++  ..+.+|+.|++++|..+.||...+.++..||.|
T Consensus       342 ~s~n~l~~lp~~~---------e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL  412 (1081)
T KOG0618|consen  342 VSSNKLSTLPSYE---------ENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEEL  412 (1081)
T ss_pred             hhhcccccccccc---------chhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHHhHHH
Confidence            665 666665432         1247889999999999876 333  338999999999999999999999999999999


Q ss_pred             EEE------EEecccccccccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhccc-ceeEe-cccchhcc
Q 040040          674 VLK------VEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLR-IEIVF-SKLKWLFL  745 (869)
Q Consensus       674 ~l~------~~~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~-~~~~~-~~L~~L~l  745 (869)
                      +++      +.+....+..|+.|...++ .|. ++     +.+..++.|+.+|++.|.  |..+. .+..+ +.|+.|++
T Consensus       413 ~LSGNkL~~Lp~tva~~~~L~tL~ahsN-~l~-~f-----Pe~~~l~qL~~lDlS~N~--L~~~~l~~~~p~p~LkyLdl  483 (1081)
T KOG0618|consen  413 NLSGNKLTTLPDTVANLGRLHTLRAHSN-QLL-SF-----PELAQLPQLKVLDLSCNN--LSEVTLPEALPSPNLKYLDL  483 (1081)
T ss_pred             hcccchhhhhhHHHHhhhhhHHHhhcCC-cee-ec-----hhhhhcCcceEEecccch--hhhhhhhhhCCCcccceeec
Confidence            987      2222333677777777663 233 33     346788888888888886  44331 12234 67777777


Q ss_pred             ccCCC
Q 040040          746 ESSGS  750 (869)
Q Consensus       746 ~~l~~  750 (869)
                      .+..+
T Consensus       484 SGN~~  488 (1081)
T KOG0618|consen  484 SGNTR  488 (1081)
T ss_pred             cCCcc
Confidence            76554

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.34  E-value=1e-11  Score=142.61  Aligned_cols=78  Identities=23%  Similarity=0.230  Sum_probs=52.4

Q ss_pred             ccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccC
Q 040040          438 CKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKD  517 (869)
Q Consensus       438 ~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~  517 (869)
                      ++|+.|++++|. +.. +|.    ..++|+.|++++ +.+..+|.            .+.+|+.|++++ .+++.+    
T Consensus       382 ~~L~~LdLs~N~-Lt~-LP~----l~s~L~~LdLS~-N~LssIP~------------l~~~L~~L~Ls~-NqLt~L----  437 (788)
T PRK15387        382 SGLKELIVSGNR-LTS-LPV----LPSELKELMVSG-NRLTSLPM------------LPSGLLSLSVYR-NQLTRL----  437 (788)
T ss_pred             cccceEEecCCc-ccC-CCC----cccCCCEEEccC-CcCCCCCc------------chhhhhhhhhcc-Cccccc----
Confidence            567777777654 443 343    135788888888 45666653            345678888877 457777    


Q ss_pred             CCCcccCCCccEEEEecCCCccc
Q 040040          518 PRGKLIFPNLVLVRIFECQRLKS  540 (869)
Q Consensus       518 p~~~~~l~~L~~L~l~~c~~L~~  540 (869)
                      |..+..+++|+.|+++++ .+..
T Consensus       438 P~sl~~L~~L~~LdLs~N-~Ls~  459 (788)
T PRK15387        438 PESLIHLSSETTVNLEGN-PLSE  459 (788)
T ss_pred             ChHHhhccCCCeEECCCC-CCCc
Confidence            777888888888888874 4543

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.34  E-value=4.7e-12  Score=145.40  Aligned_cols=169  Identities=20%  Similarity=0.131  Sum_probs=116.7

Q ss_pred             ccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccC
Q 040040          438 CKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKD  517 (869)
Q Consensus       438 ~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~  517 (869)
                      ..-..|+++++ .++. +|....   ++|+.|++.+ +.++.+|.            .+++|++|+++++ +|+.+    
T Consensus       201 ~~~~~LdLs~~-~Lts-LP~~l~---~~L~~L~L~~-N~Lt~LP~------------lp~~Lk~LdLs~N-~LtsL----  257 (788)
T PRK15387        201 NGNAVLNVGES-GLTT-LPDCLP---AHITTLVIPD-NNLTSLPA------------LPPELRTLEVSGN-QLTSL----  257 (788)
T ss_pred             CCCcEEEcCCC-CCCc-CCcchh---cCCCEEEccC-CcCCCCCC------------CCCCCcEEEecCC-ccCcc----
Confidence            34567888877 4554 576442   5789999988 67777764            5688999999884 77777    


Q ss_pred             CCCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceee
Q 040040          518 PRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLI  597 (869)
Q Consensus       518 p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~  597 (869)
                      |..   .++|++|+++++ .+..+ |.                  .+++|+.|+++++ .++.++..     .++|+.|+
T Consensus       258 P~l---p~sL~~L~Ls~N-~L~~L-p~------------------lp~~L~~L~Ls~N-~Lt~LP~~-----p~~L~~Ld  308 (788)
T PRK15387        258 PVL---PPGLLELSIFSN-PLTHL-PA------------------LPSGLCKLWIFGN-QLTSLPVL-----PPGLQELS  308 (788)
T ss_pred             cCc---ccccceeeccCC-chhhh-hh------------------chhhcCEEECcCC-cccccccc-----ccccceeE
Confidence            432   468889999874 57766 53                  1467888888886 45555442     27889999


Q ss_pred             ecc-ccCccccccceeeEeeecceeccccceeeeecccceeeeccccccceEEEeecCCCccchHHHHHhccccceEEEE
Q 040040          598 FQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLK  676 (869)
Q Consensus       598 l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~  676 (869)
                      +++ ++..++.             .+.+|+.|++++|.+..++. ...+|+.|++++|....+|..    .++|+.|+++
T Consensus       309 LS~N~L~~Lp~-------------lp~~L~~L~Ls~N~L~~LP~-lp~~Lq~LdLS~N~Ls~LP~l----p~~L~~L~Ls  370 (788)
T PRK15387        309 VSDNQLASLPA-------------LPSELCKLWAYNNQLTSLPT-LPSGLQELSVSDNQLASLPTL----PSELYKLWAY  370 (788)
T ss_pred             CCCCccccCCC-------------CcccccccccccCccccccc-cccccceEecCCCccCCCCCC----Ccccceehhh
Confidence            988 7777665             24678888898888876543 345788888876766666632    2345555443

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

Probab=99.25  E-value=4.8e-13  Score=134.53  Aligned_cols=365  Identities=16%  Similarity=0.186  Sum_probs=187.5

Q ss_pred             cccEEeccCCCCcccccc--cccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCC
Q 040040          264 QLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQ  341 (869)
Q Consensus       264 ~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~  341 (869)
                      .-..+++.. +.++++|.  ...+++|+.|+|++|.|+.|..+.|..    +.+|.+|.+.+.++++++ |...+++|..
T Consensus        68 ~tveirLdq-N~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~G----L~~l~~Lvlyg~NkI~~l-~k~~F~gL~s  141 (498)
T KOG4237|consen   68 ETVEIRLDQ-NQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKG----LASLLSLVLYGNNKITDL-PKGAFGGLSS  141 (498)
T ss_pred             cceEEEecc-CCcccCChhhccchhhhceecccccchhhcChHhhhh----hHhhhHHHhhcCCchhhh-hhhHhhhHHH
Confidence            334455543 45666664  467789999999999988887666655    888888888888889987 7788888888


Q ss_pred             ccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCC--------cccc
Q 040040          342 LQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCP--------ELKA  413 (869)
Q Consensus       342 L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~--------~l~~  413 (869)
                      |+.|.+.-+ .+..+...        ....+++|..|.+.+.. ++.++.+.+..+.+++.+.+..-+        .+.+
T Consensus       142 lqrLllNan-~i~Cir~~--------al~dL~~l~lLslyDn~-~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~  211 (498)
T KOG4237|consen  142 LQRLLLNAN-HINCIRQD--------ALRDLPSLSLLSLYDNK-IQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLAD  211 (498)
T ss_pred             HHHHhcChh-hhcchhHH--------HHHHhhhcchhcccchh-hhhhccccccchhccchHhhhcCccccccccchhhh
Confidence            888887653 34333221        23456777777777754 677776666666666666554322        1111


Q ss_pred             ccccccCCCceEeeee------------ccCccc-ccccccEE---EEeccCCcccccchhHHhhcCCccEEEEcccCCc
Q 040040          414 FILQNINTDMTVVGIQ------------SFFNEK-SFCKLKLM---EVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSL  477 (869)
Q Consensus       414 l~~~~~~~~~~~~~~~------------~~~~~~-~~~~L~~L---~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l  477 (869)
                      .-..   ......+..            ++.+.. ....++.+   --+.| ....+.|...++.+++|++|++++ +.+
T Consensus       212 ~~a~---~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d-~~d~~cP~~cf~~L~~L~~lnlsn-N~i  286 (498)
T KOG4237|consen  212 DLAM---NPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSED-FPDSICPAKCFKKLPNLRKLNLSN-NKI  286 (498)
T ss_pred             HHhh---chhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhcccc-CcCCcChHHHHhhcccceEeccCC-Ccc
Confidence            0000   000000000            011110 01112221   11122 122234555566666666666665 445


Q ss_pred             cccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCcccccCccE---------EE
Q 040040          478 EEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSV---------EI  548 (869)
Q Consensus       478 ~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l~p~s~---------ei  548 (869)
                      +.|-+...        .....++.|.+.. .+++.+.   ...+..+..|+.|++++ ++++.+-|-++         .+
T Consensus       287 ~~i~~~aF--------e~~a~l~eL~L~~-N~l~~v~---~~~f~~ls~L~tL~L~~-N~it~~~~~aF~~~~~l~~l~l  353 (498)
T KOG4237|consen  287 TRIEDGAF--------EGAAELQELYLTR-NKLEFVS---SGMFQGLSGLKTLSLYD-NQITTVAPGAFQTLFSLSTLNL  353 (498)
T ss_pred             chhhhhhh--------cchhhhhhhhcCc-chHHHHH---HHhhhccccceeeeecC-CeeEEEecccccccceeeeeeh
Confidence            44422100        2334455555544 3444441   12344455555555554 44444423211         00


Q ss_pred             EEe---------------ccCCCCCc-ceeeccccceEeecCCCCCcee----------cCCCCCCCCCCCceee-ecc-
Q 040040          549 VAN---------------DVRGNDAA-TKFIFPSLTFLKLRDLPYLTTF----------YSGMHTLECPERANLI-FQL-  600 (869)
Q Consensus       549 ~~~---------------~~~~~~~~-~~~~~~~L~~L~l~~~~~l~~~----------~~~~~~~~~~~L~~L~-l~~-  600 (869)
                      ++.               ...+.... +-..+-.++.+.+++.+.=..-          ..+.....|+.+.++. .++ 
T Consensus       354 ~~Np~~CnC~l~wl~~Wlr~~~~~~~~~Cq~p~~~~~~~~~dv~~~~~~c~~~ee~~~~~s~~cP~~c~c~~tVvRcSnk  433 (498)
T KOG4237|consen  354 LSNPFNCNCRLAWLGEWLRKKSVVGNPRCQSPGFVRQIPISDVAFGDFRCGGPEELGCLTSSPCPPPCTCLDTVVRCSNK  433 (498)
T ss_pred             ccCcccCccchHHHHHHHhhCCCCCCCCCCCCchhccccchhccccccccCCccccCCCCCCCCCCCcchhhhhHhhccc
Confidence            000               00000000 0011223444444432211111          1111122334443332 222 


Q ss_pred             ccCccccccceeeEeeecceeccccceeeeecccceeeeccccccceEEEeecCCCccchHHHHHhccccceEEE
Q 040040          601 KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVL  675 (869)
Q Consensus       601 ~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l  675 (869)
                      .++.+|.+.            +..-.+|++.+|.+..++...++.| .+|+++|....+....+.+++.|.+|.+
T Consensus       434 ~lk~lp~~i------------P~d~telyl~gn~~~~vp~~~~~~l-~~dls~n~i~~Lsn~tf~n~tql~tlil  495 (498)
T KOG4237|consen  434 LLKLLPRGI------------PVDVTELYLDGNAITSVPDELLRSL-LLDLSNNRISSLSNYTFSNMTQLSTLIL  495 (498)
T ss_pred             chhhcCCCC------------CchhHHHhcccchhcccCHHHHhhh-hcccccCceehhhcccccchhhhheeEE
Confidence            445555543            5678889999999988888778888 8888888777766666667776666654

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.20  E-value=4.7e-11  Score=138.22  Aligned_cols=73  Identities=14%  Similarity=0.134  Sum_probs=41.4

Q ss_pred             CCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCc
Q 040040          314 QNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGN  393 (869)
Q Consensus       314 ~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~  393 (869)
                      .+...|++++. +++.+ |...   .++|+.|+++++ .++.++..           .+++|+.|+++++. ++++|...
T Consensus       178 ~~~~~L~L~~~-~LtsL-P~~I---p~~L~~L~Ls~N-~LtsLP~~-----------l~~nL~~L~Ls~N~-LtsLP~~l  239 (754)
T PRK15370        178 NNKTELRLKIL-GLTTI-PACI---PEQITTLILDNN-ELKSLPEN-----------LQGNIKTLYANSNQ-LTSIPATL  239 (754)
T ss_pred             cCceEEEeCCC-CcCcC-Cccc---ccCCcEEEecCC-CCCcCChh-----------hccCCCEEECCCCc-cccCChhh
Confidence            35677888774 56665 4322   357888888774 56655322           34577777777654 55554321


Q ss_pred             ccCCCCccEEEEcc
Q 040040          394 CIELPSLKQLRMAK  407 (869)
Q Consensus       394 ~~~l~~L~~L~l~~  407 (869)
                         .++|+.|++++
T Consensus       240 ---~~~L~~L~Ls~  250 (754)
T PRK15370        240 ---PDTIQEMELSI  250 (754)
T ss_pred             ---hccccEEECcC
Confidence               22455555544

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.18  E-value=4.7e-11  Score=138.28  Aligned_cols=248  Identities=16%  Similarity=0.159  Sum_probs=127.4

Q ss_pred             CccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcc
Q 040040          373 PQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLW  452 (869)
Q Consensus       373 ~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~  452 (869)
                      .+...|++++.. ++++|..   -.+.|+.|++.+ .+++.+|..                  .+.+|+.|++++|. ++
T Consensus       178 ~~~~~L~L~~~~-LtsLP~~---Ip~~L~~L~Ls~-N~LtsLP~~------------------l~~nL~~L~Ls~N~-Lt  233 (754)
T PRK15370        178 NNKTELRLKILG-LTTIPAC---IPEQITTLILDN-NELKSLPEN------------------LQGNIKTLYANSNQ-LT  233 (754)
T ss_pred             cCceEEEeCCCC-cCcCCcc---cccCCcEEEecC-CCCCcCChh------------------hccCCCEEECCCCc-cc
Confidence            345667777653 6666542   144677777754 355555431                  13567777776553 44


Q ss_pred             cccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEE
Q 040040          453 TIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRI  532 (869)
Q Consensus       453 ~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l  532 (869)
                      . +|...   .++|+.|++++| .+..+|.           ..+.+|+.|++++ .+++.+    |..+.  ++|+.|++
T Consensus       234 s-LP~~l---~~~L~~L~Ls~N-~L~~LP~-----------~l~s~L~~L~Ls~-N~L~~L----P~~l~--~sL~~L~L  290 (754)
T PRK15370        234 S-IPATL---PDTIQEMELSIN-RITELPE-----------RLPSALQSLDLFH-NKISCL----PENLP--EELRYLSV  290 (754)
T ss_pred             c-CChhh---hccccEEECcCC-ccCcCCh-----------hHhCCCCEEECcC-CccCcc----ccccC--CCCcEEEC
Confidence            3 34422   245667777663 3444433           1334666666664 355555    43332  46666666


Q ss_pred             ecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCccccccce
Q 040040          533 FECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPSFGSKSLV  611 (869)
Q Consensus       533 ~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~~~~~~  611 (869)
                      ++| +++.+ |..+                 +++|+.|+++++. +..++...    .++|+.|++++ .+..+|..   
T Consensus       291 s~N-~Lt~L-P~~l-----------------p~sL~~L~Ls~N~-Lt~LP~~l----~~sL~~L~Ls~N~Lt~LP~~---  343 (754)
T PRK15370        291 YDN-SIRTL-PAHL-----------------PSGITHLNVQSNS-LTALPETL----PPGLKTLEAGENALTSLPAS---  343 (754)
T ss_pred             CCC-ccccC-cccc-----------------hhhHHHHHhcCCc-cccCCccc----cccceeccccCCccccCChh---
Confidence            653 55554 4322                 3456666666543 33333221    14566666666 55555432   


Q ss_pred             eeEeeecceeccccceeeeecccceeeeccccccceEEEeecCCCccchHHHHHhccccceEEEEEEecccccccccEEE
Q 040040          612 MLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLK  691 (869)
Q Consensus       612 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~~~~~~~~~~~L~~L~  691 (869)
                               .+++|+.|++++|.+..++....++|+.|++.+|....+|..+                    ..+|+.|+
T Consensus       344 ---------l~~sL~~L~Ls~N~L~~LP~~lp~~L~~LdLs~N~Lt~LP~~l--------------------~~sL~~Ld  394 (754)
T PRK15370        344 ---------LPPELQVLDVSKNQITVLPETLPPTITTLDVSRNALTNLPENL--------------------PAALQIMQ  394 (754)
T ss_pred             ---------hcCcccEEECCCCCCCcCChhhcCCcCEEECCCCcCCCCCHhH--------------------HHHHHHHh
Confidence                     1356666666666655443333455666666444444445332                    12455555


Q ss_pred             cCccccccccccCCCCCcccccCCccEEEEeccc
Q 040040          692 LNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECA  725 (869)
Q Consensus       692 l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~  725 (869)
                      ++++ .++ .++...+.....++++..|++.+|+
T Consensus       395 Ls~N-~L~-~LP~sl~~~~~~~~~l~~L~L~~Np  426 (754)
T PRK15370        395 ASRN-NLV-RLPESLPHFRGEGPQPTRIIVEYNP  426 (754)
T ss_pred             hccC-Ccc-cCchhHHHHhhcCCCccEEEeeCCC
Confidence            5553 344 3322212222345677788888886

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

Probab=98.97  E-value=1.1e-11  Score=125.99  Aligned_cols=94  Identities=20%  Similarity=0.270  Sum_probs=53.1

Q ss_pred             CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccC
Q 040040          173 PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDIN  252 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~  252 (869)
                      ..|+.|.+.+|.....-+...+ ...++++.+|.+.+|.++++..-.+....+++|++|++..|..+.......      
T Consensus       138 g~lk~LSlrG~r~v~~sslrt~-~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~------  210 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGDSSLRTF-ASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKY------  210 (483)
T ss_pred             cccccccccccccCCcchhhHH-hhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHH------
Confidence            3577777777754433222222 235777777777777766654333344566777777777776654433110      


Q ss_pred             CccccccccCCcccEEeccCCCCccc
Q 040040          253 NTEVIDKIEFSQLRKLTLKSLPQLRS  278 (869)
Q Consensus       253 ~~~~~~~~~l~~L~~L~l~~~~~l~~  278 (869)
                           -...+++|++|+++.|+.+..
T Consensus       211 -----la~gC~kL~~lNlSwc~qi~~  231 (483)
T KOG4341|consen  211 -----LAEGCRKLKYLNLSWCPQISG  231 (483)
T ss_pred             -----HHHhhhhHHHhhhccCchhhc
Confidence                 112366666666666665443

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

Probab=98.96  E-value=1.4e-11  Score=125.40  Aligned_cols=319  Identities=17%  Similarity=0.186  Sum_probs=176.1

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhc
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISR  223 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~  223 (869)
                      ..||.|.+.++.....-+   .......+|+++.|.+.+|.++++.....+. ..+++|++|++..|..+++..-.....
T Consensus       138 g~lk~LSlrG~r~v~~ss---lrt~~~~CpnIehL~l~gc~~iTd~s~~sla-~~C~~l~~l~L~~c~~iT~~~Lk~la~  213 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGDSS---LRTFASNCPNIEHLALYGCKKITDSSLLSLA-RYCRKLRHLNLHSCSSITDVSLKYLAE  213 (483)
T ss_pred             cccccccccccccCCcch---hhHHhhhCCchhhhhhhcceeccHHHHHHHH-HhcchhhhhhhcccchhHHHHHHHHHH
Confidence            356667776664332111   0011245677777777777666554332221 357777777777777776653322455


Q ss_pred             CCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccc--cc-ccccCCCcCEEEecccc-cc
Q 040040          224 GLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRS--FC-SVVAFPNLETLKLSAIN-SE  299 (869)
Q Consensus       224 ~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~--~~-~~~~l~~L~~L~L~~~~-l~  299 (869)
                      ++++|++|+++.|+.++.--   ..        .-..+...++.+...||..+..  +- .....+-+.++++..|. ++
T Consensus       214 gC~kL~~lNlSwc~qi~~~g---v~--------~~~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lT  282 (483)
T KOG4341|consen  214 GCRKLKYLNLSWCPQISGNG---VQ--------ALQRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLT  282 (483)
T ss_pred             hhhhHHHhhhccCchhhcCc---ch--------HHhccchhhhhhhhcccccccHHHHHHHhccChHhhccchhhhcccc
Confidence            67777777777777655410   00        0011233355555555544321  10 01122334455555554 22


Q ss_pred             ccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceee
Q 040040          300 TIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLK  379 (869)
Q Consensus       300 ~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~  379 (869)
                      .   ...-.+...+..|+.|..++|..+++..-.....+.++|+.|.+.+|..+...-...       -....+.|+.++
T Consensus       283 D---~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~-------l~rn~~~Le~l~  352 (483)
T KOG4341|consen  283 D---EDLWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTM-------LGRNCPHLERLD  352 (483)
T ss_pred             c---hHHHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhh-------hhcCChhhhhhc
Confidence            1   111111233667888888888877765333334567888888888887765532210       023567788888


Q ss_pred             cccCccccccC-CCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchh
Q 040040          380 MKDLAKLTRFC-SGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHN  458 (869)
Q Consensus       380 l~~~~~L~~l~-~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~  458 (869)
                      +.+|.....-. ......+|.|+++.++.|..++......+.           ........|..+.+.+|+.+.+. ...
T Consensus       353 ~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~-----------~~~c~~~~l~~lEL~n~p~i~d~-~Le  420 (483)
T KOG4341|consen  353 LEECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLS-----------SSSCSLEGLEVLELDNCPLITDA-TLE  420 (483)
T ss_pred             ccccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhh-----------hccccccccceeeecCCCCchHH-HHH
Confidence            88776433321 111245788888888888777654211100           01133577888999999877654 233


Q ss_pred             HHhhcCCccEEEEcccCCccccccccccCccccccccccccceeeccc
Q 040040          459 MFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFC  506 (869)
Q Consensus       459 ~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~  506 (869)
                      .+..+++|+.+++.+|..+..-+.       ..+...+|+++...+..
T Consensus       421 ~l~~c~~Leri~l~~~q~vtk~~i-------~~~~~~lp~i~v~a~~a  461 (483)
T KOG4341|consen  421 HLSICRNLERIELIDCQDVTKEAI-------SRFATHLPNIKVHAYFA  461 (483)
T ss_pred             HHhhCcccceeeeechhhhhhhhh-------HHHHhhCccceehhhcc
Confidence            456788999999999887754211       00113566666665544

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

Probab=98.93  E-value=6.6e-11  Score=119.43  Aligned_cols=94  Identities=22%  Similarity=0.274  Sum_probs=61.5

Q ss_pred             CccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecC
Q 040040          130 GVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVES  209 (869)
Q Consensus       130 ~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~  209 (869)
                      ++..++.+++    +.-..+++..+ +++.||+..    ++.+++|+.|+|+++ +++.|....+  ..+++|-.|-+.+
T Consensus        57 GL~eVP~~LP----~~tveirLdqN-~I~~iP~~a----F~~l~~LRrLdLS~N-~Is~I~p~AF--~GL~~l~~Lvlyg  124 (498)
T KOG4237|consen   57 GLTEVPANLP----PETVEIRLDQN-QISSIPPGA----FKTLHRLRRLDLSKN-NISFIAPDAF--KGLASLLSLVLYG  124 (498)
T ss_pred             CcccCcccCC----CcceEEEeccC-CcccCChhh----ccchhhhceeccccc-chhhcChHhh--hhhHhhhHHHhhc
Confidence            4445555543    34456667666 777777654    467777888888877 6766655543  2567777777777


Q ss_pred             CCCCcccCChhhhcCCCCCcEEEEeec
Q 040040          210 CEKLTHIFSFSISRGLPQLQTIKVTAC  236 (869)
Q Consensus       210 c~~l~~l~~~~~~~~L~~L~~L~l~~c  236 (869)
                      ..+++++|. ..+++|..||.|.+.-+
T Consensus       125 ~NkI~~l~k-~~F~gL~slqrLllNan  150 (498)
T KOG4237|consen  125 NNKITDLPK-GAFGGLSSLQRLLLNAN  150 (498)
T ss_pred             CCchhhhhh-hHhhhHHHHHHHhcChh
Confidence            667777765 56777777777776543

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.92  E-value=6.2e-10  Score=131.13  Aligned_cols=269  Identities=20%  Similarity=0.269  Sum_probs=164.2

Q ss_pred             cCceeeeccccC-ccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccccc
Q 040040          119 GLEELWLDEVQG-VENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAE  197 (869)
Q Consensus       119 ~l~~L~l~~~~~-~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~  197 (869)
                      +++.|-+.+... +..+..+++ ..++.|++|++++|..+..+|++.     +.+-+||+|++++. .++.+|.+   .+
T Consensus       546 ~L~tLll~~n~~~l~~is~~ff-~~m~~LrVLDLs~~~~l~~LP~~I-----~~Li~LryL~L~~t-~I~~LP~~---l~  615 (889)
T KOG4658|consen  546 KLRTLLLQRNSDWLLEISGEFF-RSLPLLRVLDLSGNSSLSKLPSSI-----GELVHLRYLDLSDT-GISHLPSG---LG  615 (889)
T ss_pred             ccceEEEeecchhhhhcCHHHH-hhCcceEEEECCCCCccCcCChHH-----hhhhhhhcccccCC-CccccchH---HH
Confidence            566776665432 344444332 678999999999998999998776     67899999999988 78888877   78


Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEec-------
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTL-------  270 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l-------  270 (869)
                      +|..|.+|++..+..+..++  .....|++|++|.+.... .   . .      ....+.++.++.+|+.+.+       
T Consensus       616 ~Lk~L~~Lnl~~~~~l~~~~--~i~~~L~~Lr~L~l~~s~-~---~-~------~~~~l~el~~Le~L~~ls~~~~s~~~  682 (889)
T KOG4658|consen  616 NLKKLIYLNLEVTGRLESIP--GILLELQSLRVLRLPRSA-L---S-N------DKLLLKELENLEHLENLSITISSVLL  682 (889)
T ss_pred             HHHhhheecccccccccccc--chhhhcccccEEEeeccc-c---c-c------chhhHHhhhcccchhhheeecchhHh
Confidence            99999999999988776663  256669999999987643 0   0 0      0000112222333333322       


Q ss_pred             -------------------cCCCCcccccccccCCCcCEEEeccccccccccCCCCCc-cc-ccCCceEEEEecCCCCcc
Q 040040          271 -------------------KSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAM-SS-CIQNLTRLIVHGCNNLKF  329 (869)
Q Consensus       271 -------------------~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~-~~-~l~~L~~L~l~~c~~l~~  329 (869)
                                         .+|..-........+.+|+.|.+.+|.+.++........ .. .++++..+.+.+|...+.
T Consensus       683 ~e~l~~~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~  762 (889)
T KOG4658|consen  683 LEDLLGMTRLRSLLQSLSIEGCSKRTLISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRD  762 (889)
T ss_pred             HhhhhhhHHHHHHhHhhhhcccccceeecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccc
Confidence                               223333334446677888888888887433211111111 11 266777788888888777


Q ss_pred             ccChhhHhccCCccEEEEeccccccccccccccccccc-cccccCcccee-ecccCccccccCCCcccCCCCccEEEEcc
Q 040040          330 LFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEER-KDIVFPQLNFL-KMKDLAKLTRFCSGNCIELPSLKQLRMAK  407 (869)
Q Consensus       330 l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~-~~~~~~~L~~L-~l~~~~~L~~l~~~~~~~l~~L~~L~l~~  407 (869)
                      +.+   ....++|+.|.+..|..++++++......... .+..|.++..+ .+.+.+.+.++.... ..++.|+.+.+..
T Consensus       763 l~~---~~f~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~~-l~~~~l~~~~ve~  838 (889)
T KOG4658|consen  763 LTW---LLFAPHLTSLSLVSCRLLEDIIPKLKALLELKELILPFNKLEGLRMLCSLGGLPQLYWLP-LSFLKLEELIVEE  838 (889)
T ss_pred             cch---hhccCcccEEEEecccccccCCCHHHHhhhcccEEecccccccceeeecCCCCceeEecc-cCccchhheehhc
Confidence            633   44568999999999988888765533222111 13345555555 344444444333221 1234466666666


Q ss_pred             CCccccc
Q 040040          408 CPELKAF  414 (869)
Q Consensus       408 c~~l~~l  414 (869)
                      ||++..+
T Consensus       839 ~p~l~~~  845 (889)
T KOG4658|consen  839 CPKLGKL  845 (889)
T ss_pred             CcccccC
Confidence            6665443

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

Probab=98.89  E-value=1.7e-10  Score=121.71  Aligned_cols=78  Identities=28%  Similarity=0.425  Sum_probs=64.3

Q ss_pred             CCcchhHHHHhhhcCC-ChhhHHHHHHHhcCCCccchhhHHHHhhccceecccccCcccccchheecccCCCc-------
Q 040040            1 SPFLALTTITRALKNK-SVPEWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPT-------   72 (869)
Q Consensus         1 ~~PLAi~~ig~~L~~k-~~~~W~~~l~~l~~~~~~~~~~~~~~i~~~L~lSY~~Lp~~~lK~CFlycs~Fped-------   72 (869)
                      |+||||+++|+.|+.+ +..+|+++++++.+. ..+..+....++.++.+||+.||+ ++|+||+|||+||++       
T Consensus       194 glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~-~~~~~~~~~~~~~~l~~s~~~L~~-~~~~~f~~L~~f~~~~~i~~~~  271 (287)
T PF00931_consen  194 GLPLALKLIASYLRSKSTVDEWEEALEELENS-LRESRDYDRSVFSALELSYDSLPD-ELRRCFLYLSIFPEGVPIPRER  271 (287)
T ss_dssp             T-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHC-HTCSSGSCHHHHHHHHHHHHSSHT-CCHHHHHHGGGSGTTS-EEHHH
T ss_pred             cccccccccccccccccccccccccccccccc-ccccccccccccccceechhcCCc-cHHHHHhhCcCCCCCceECHHH
Confidence            6899999999999877 889999999998863 223333345799999999999986 799999999999986       


Q ss_pred             ----cccchhhh
Q 040040           73 ----QTCHDIRD   80 (869)
Q Consensus        73 ----w~~~g~~~   80 (869)
                          |++||+++
T Consensus       272 li~lW~~e~~i~  283 (287)
T PF00931_consen  272 LIRLWVAEGFIS  283 (287)
T ss_dssp             HHHHHTT-HHTC
T ss_pred             HHHHHHHCCCCc
Confidence                99999874

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

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

Probab=98.71  E-value=6.1e-10  Score=99.33  Aligned_cols=159  Identities=22%  Similarity=0.277  Sum_probs=114.3

Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcc
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLR  277 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~  277 (869)
                      .+.+...|.++++ +++.+||  .+..+.+|+.|++++ +.++++|             .++..+++|++|++. ++++.
T Consensus        31 ~~s~ITrLtLSHN-Kl~~vpp--nia~l~nlevln~~n-nqie~lp-------------~~issl~klr~lnvg-mnrl~   92 (264)
T KOG0617|consen   31 NMSNITRLTLSHN-KLTVVPP--NIAELKNLEVLNLSN-NQIEELP-------------TSISSLPKLRILNVG-MNRLN   92 (264)
T ss_pred             chhhhhhhhcccC-ceeecCC--cHHHhhhhhhhhccc-chhhhcC-------------hhhhhchhhhheecc-hhhhh
Confidence            3456666777776 5777766  778888888888876 4577777             567778888888874 45555


Q ss_pred             cccc-cccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecccccccc
Q 040040          278 SFCS-VVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGI  356 (869)
Q Consensus       278 ~~~~-~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i  356 (869)
                      .+|. .+.+|.|+.|++.++++.+   ..+|.-...++.|+-|++++ +..+.+ |.. ++.+++|+.|.+++. .+-.+
T Consensus        93 ~lprgfgs~p~levldltynnl~e---~~lpgnff~m~tlralyl~d-ndfe~l-p~d-vg~lt~lqil~lrdn-dll~l  165 (264)
T KOG0617|consen   93 ILPRGFGSFPALEVLDLTYNNLNE---NSLPGNFFYMTTLRALYLGD-NDFEIL-PPD-VGKLTNLQILSLRDN-DLLSL  165 (264)
T ss_pred             cCccccCCCchhhhhhcccccccc---ccCCcchhHHHHHHHHHhcC-CCcccC-Chh-hhhhcceeEEeeccC-chhhC
Confidence            5553 6788999999999887442   34565555678888889987 456665 433 689999999999984 44444


Q ss_pred             ccccccccccccccccCccceeecccCccccccCC
Q 040040          357 VFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCS  391 (869)
Q Consensus       357 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~  391 (869)
                      +.         +++.+.+|++|++.+.. ++-+|.
T Consensus       166 pk---------eig~lt~lrelhiqgnr-l~vlpp  190 (264)
T KOG0617|consen  166 PK---------EIGDLTRLRELHIQGNR-LTVLPP  190 (264)
T ss_pred             cH---------HHHHHHHHHHHhcccce-eeecCh
Confidence            43         36678899999998875 666654

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

Probab=98.40  E-value=7.3e-08  Score=103.60  Aligned_cols=14  Identities=43%  Similarity=0.404  Sum_probs=8.2

Q ss_pred             CCCCCccEEEEecC
Q 040040          141 EGFPSLKLLHIQNN  154 (869)
Q Consensus       141 ~~~~~L~~L~l~~~  154 (869)
                      ...+++++|+++++
T Consensus        48 ~~~~~l~~l~l~~~   61 (319)
T cd00116          48 RPQPSLKELCLSLN   61 (319)
T ss_pred             hhCCCceEEecccc
Confidence            34455666666655

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

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

Probab=98.39  E-value=6.5e-08  Score=104.01  Aligned_cols=37  Identities=11%  Similarity=-0.124  Sum_probs=18.6

Q ss_pred             ccccEEEEeccCCccccc--chhHHhhcCCccEEEEccc
Q 040040          438 CKLKLMEVIFCKSLWTIF--PHNMFARFLKLQSLIVGAC  474 (869)
Q Consensus       438 ~~L~~L~l~~c~~l~~~~--~~~~~~~l~~L~~L~l~~c  474 (869)
                      +.|++|++.+|.......  -...+..+++|++++++++
T Consensus       250 ~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l~~N  288 (319)
T cd00116         250 ISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDLRGN  288 (319)
T ss_pred             CCceEEEccCCCCCcHHHHHHHHHHhcCCCccEEECCCC
Confidence            566677776664221000  0112334567777777763

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

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

Probab=98.29  E-value=7e-08  Score=86.41  Aligned_cols=51  Identities=18%  Similarity=0.257  Sum_probs=27.0

Q ss_pred             ccccceeeeecccceeeecc--ccccceEEEeecCCCccchHHHHHhccccceE
Q 040040          622 FPNLEELTLSKYIFTTWRQA--QFHKLKILHFISDGSDFFQVGLLQNIHNLEKL  673 (869)
Q Consensus       622 ~~~L~~L~l~~~~~~~~~~~--~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L  673 (869)
                      +..|+.|++++|++..++++  .+.+|+.|.+.+|..-.+|.. ++.++.|++|
T Consensus       126 m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll~lpke-ig~lt~lrel  178 (264)
T KOG0617|consen  126 MTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLLSLPKE-IGDLTRLREL  178 (264)
T ss_pred             HHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchhhCcHH-HHHHHHHHHH
Confidence            45566667777766555542  266666666644444445543 3444433333

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.21  E-value=3.8e-06  Score=88.93  Aligned_cols=30  Identities=17%  Similarity=0.192  Sum_probs=16.5

Q ss_pred             ccccceeeeecccceeeeccccccceEEEe
Q 040040          622 FPNLEELTLSKYIFTTWRQAQFHKLKILHF  651 (869)
Q Consensus       622 ~~~L~~L~l~~~~~~~~~~~~~~~L~~L~l  651 (869)
                      +++|++|++++|.....+..-..+|+.|++
T Consensus       155 PsSLk~L~Is~c~~i~LP~~LP~SLk~L~l  184 (426)
T PRK15386        155 SPSLKTLSLTGCSNIILPEKLPESLQSITL  184 (426)
T ss_pred             CCcccEEEecCCCcccCcccccccCcEEEe
Confidence            456666666666654433333455666665

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

Probab=98.17  E-value=5.5e-07  Score=88.04  Aligned_cols=123  Identities=20%  Similarity=0.104  Sum_probs=72.7

Q ss_pred             CCCCCceeeecc-ccCccccccceeeEeeecceeccccceeeeecccceeeeccc-cccceEEEeecCCCccchHHHHHh
Q 040040          589 ECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQ-FHKLKILHFISDGSDFFQVGLLQN  666 (869)
Q Consensus       589 ~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~-~~~L~~L~l~~~~~~~~p~~~l~~  666 (869)
                      .|..|+++++++ .++.|....          +..|.++.|++++|.+..+..-+ +++|+.||+++|....+-.| -.+
T Consensus       282 TWq~LtelDLS~N~I~~iDESv----------KL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LDLS~N~Ls~~~Gw-h~K  350 (490)
T KOG1259|consen  282 TWQELTELDLSGNLITQIDESV----------KLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSGNLLAECVGW-HLK  350 (490)
T ss_pred             hHhhhhhccccccchhhhhhhh----------hhccceeEEeccccceeeehhhhhcccceEeecccchhHhhhhh-Hhh
Confidence            467788888887 666665533          24678888888888887766543 77788888877766655544 223


Q ss_pred             ccccceEEEEEEecccccccccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhcccc---eeEecccchh
Q 040040          667 IHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRI---EIVFSKLKWL  743 (869)
Q Consensus       667 l~~L~~L~l~~~~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~---~~~~~~L~~L  743 (869)
                                       +.+++.|.++.+ .++ .+     .+++.|-+|..||+++|.  ++++.+   .+.+|.|+.+
T Consensus       351 -----------------LGNIKtL~La~N-~iE-~L-----SGL~KLYSLvnLDl~~N~--Ie~ldeV~~IG~LPCLE~l  404 (490)
T KOG1259|consen  351 -----------------LGNIKTLKLAQN-KIE-TL-----SGLRKLYSLVNLDLSSNQ--IEELDEVNHIGNLPCLETL  404 (490)
T ss_pred             -----------------hcCEeeeehhhh-hHh-hh-----hhhHhhhhheeccccccc--hhhHHHhcccccccHHHHH
Confidence                             445555555542 122 22     335556666666666664  444422   1245555555


Q ss_pred             ccccC
Q 040040          744 FLESS  748 (869)
Q Consensus       744 ~l~~l  748 (869)
                      .+.+.
T Consensus       405 ~L~~N  409 (490)
T KOG1259|consen  405 RLTGN  409 (490)
T ss_pred             hhcCC
Confidence            55543

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

Probab=98.16  E-value=4.2e-07  Score=93.84  Aligned_cols=58  Identities=19%  Similarity=0.240  Sum_probs=31.7

Q ss_pred             cccccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhcc--cce------eEecccchhcccc
Q 040040          684 IAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISL--RIE------IVFSKLKWLFLES  747 (869)
Q Consensus       684 ~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l--~~~------~~~~~L~~L~l~~  747 (869)
                      +..|++|+|++++.+.    .........|+.|+.|+++.|.  +.++  |+.      ..|++|+.|.+..
T Consensus       245 ~~~L~~LdLs~N~li~----~~~~~~~~~l~~L~~Lnls~tg--i~si~~~d~~s~~kt~~f~kL~~L~i~~  310 (505)
T KOG3207|consen  245 LQTLQELDLSNNNLID----FDQGYKVGTLPGLNQLNLSSTG--IASIAEPDVESLDKTHTFPKLEYLNISE  310 (505)
T ss_pred             hhHHhhccccCCcccc----cccccccccccchhhhhccccC--cchhcCCCccchhhhcccccceeeeccc
Confidence            5666777777655444    1222334566777777777775  4433  222      3566666665554

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.11  E-value=9.4e-06  Score=86.01  Aligned_cols=31  Identities=13%  Similarity=0.278  Sum_probs=17.7

Q ss_pred             CCccEEEEcccCCccccccccccCccccccccccccceeeccc
Q 040040          464 LKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFC  506 (869)
Q Consensus       464 ~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~  506 (869)
                      ++|++|.+++|..+. +|+           +.+.+|+.|++..
T Consensus       156 sSLk~L~Is~c~~i~-LP~-----------~LP~SLk~L~ls~  186 (426)
T PRK15386        156 PSLKTLSLTGCSNII-LPE-----------KLPESLQSITLHI  186 (426)
T ss_pred             CcccEEEecCCCccc-Ccc-----------cccccCcEEEecc
Confidence            467777777766442 221           2455677777654

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

Probab=98.09  E-value=1.3e-06  Score=85.48  Aligned_cols=128  Identities=19%  Similarity=0.218  Sum_probs=84.6

Q ss_pred             CCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccccC
Q 040040          225 LPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHN  304 (869)
Q Consensus       225 L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~  304 (869)
                      ...|+++|+++.. ++.+-             .++.-.|+++.|+++. +.+..+..+..+++|+.|+|++|.+.++   
T Consensus       283 Wq~LtelDLS~N~-I~~iD-------------ESvKL~Pkir~L~lS~-N~i~~v~nLa~L~~L~~LDLS~N~Ls~~---  344 (490)
T KOG1259|consen  283 WQELTELDLSGNL-ITQID-------------ESVKLAPKLRRLILSQ-NRIRTVQNLAELPQLQLLDLSGNLLAEC---  344 (490)
T ss_pred             Hhhhhhccccccc-hhhhh-------------hhhhhccceeEEeccc-cceeeehhhhhcccceEeecccchhHhh---
Confidence            3456666776532 33333             2344467888888877 3455555567788888888888875543   


Q ss_pred             CCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCc
Q 040040          305 QLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLA  384 (869)
Q Consensus       305 ~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~  384 (869)
                        ..|-..+.|.+.|.+.+ +.++++   +.++.+-+|..|++++ ++++++-..       ..++.+|.|+.+.+.++|
T Consensus       345 --~Gwh~KLGNIKtL~La~-N~iE~L---SGL~KLYSLvnLDl~~-N~Ie~ldeV-------~~IG~LPCLE~l~L~~NP  410 (490)
T KOG1259|consen  345 --VGWHLKLGNIKTLKLAQ-NKIETL---SGLRKLYSLVNLDLSS-NQIEELDEV-------NHIGNLPCLETLRLTGNP  410 (490)
T ss_pred             --hhhHhhhcCEeeeehhh-hhHhhh---hhhHhhhhheeccccc-cchhhHHHh-------cccccccHHHHHhhcCCC
Confidence              22233477888888887 456655   4577788888888887 455543211       247788888888888887

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

Probab=98.02  E-value=1.8e-06  Score=89.23  Aligned_cols=173  Identities=17%  Similarity=0.218  Sum_probs=99.0

Q ss_pred             ccccceeeeecccceeeec----cccccceEEEeecCCCcc-ch-HHHHHhccccceEEEE---EE-----ecccccccc
Q 040040          622 FPNLEELTLSKYIFTTWRQ----AQFHKLKILHFISDGSDF-FQ-VGLLQNIHNLEKLVLK---VE-----EHAEGIAQI  687 (869)
Q Consensus       622 ~~~L~~L~l~~~~~~~~~~----~~~~~L~~L~l~~~~~~~-~p-~~~l~~l~~L~~L~l~---~~-----~~~~~~~~L  687 (869)
                      +..|++..++++.......    .++++++.||++.|.... .| ..+.+.+|+|+.|+++   +.     .....+++|
T Consensus       120 ~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~l  199 (505)
T KOG3207|consen  120 LKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHL  199 (505)
T ss_pred             HHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhh
Confidence            3445555555554433221    125555555554333221 11 2356777777777777   11     111237888


Q ss_pred             cEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhcccceeEecccchhccccCCCcceeecCCeeeeCCCcc
Q 040040          688 KSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESSGSITSFCSGNYAISFPSLE  767 (869)
Q Consensus       688 ~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~~~~~~~L~~L~l~~l~~l~~~~~~~~~~~~~~L~  767 (869)
                      +.|.+++|.- .   |+...+....+|+|+.|++..|..-+.+-.....+..|+.|++.+ .++..+..+.....+|.|+
T Consensus       200 K~L~l~~CGl-s---~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~-N~li~~~~~~~~~~l~~L~  274 (505)
T KOG3207|consen  200 KQLVLNSCGL-S---WKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSN-NNLIDFDQGYKVGTLPGLN  274 (505)
T ss_pred             heEEeccCCC-C---HHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccC-Ccccccccccccccccchh
Confidence            8888888731 1   222223345788888888888842122222233566777777766 4455666555556788888


Q ss_pred             eEeeccCCCccc--cCCC-----CcCCCcceEEEccCCCc
Q 040040          768 VLIVENCPKLNT--FSAG-----VLKTPRLRAVQNWKLDE  800 (869)
Q Consensus       768 ~L~i~~c~~~~~--~~~~-----~~~~~~L~~l~~s~~~~  800 (869)
                      .|.+++| .++.  +|.+     ....|+|+.|.++.|+-
T Consensus       275 ~Lnls~t-gi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I  313 (505)
T KOG3207|consen  275 QLNLSST-GIASIAEPDVESLDKTHTFPKLEYLNISENNI  313 (505)
T ss_pred             hhhcccc-CcchhcCCCccchhhhcccccceeeecccCcc
Confidence            8888888 4333  3443     45678888888887764

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

Probab=98.00  E-value=2.1e-07  Score=91.07  Aligned_cols=41  Identities=17%  Similarity=0.298  Sum_probs=19.6

Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCce
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMK  240 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~  240 (869)
                      .+.+|+.|.+++.. +.+- ....+.+=.+|+.|+++.|..+.
T Consensus       208 ~C~kLk~lSlEg~~-LdD~-I~~~iAkN~~L~~lnlsm~sG~t  248 (419)
T KOG2120|consen  208 QCSKLKNLSLEGLR-LDDP-IVNTIAKNSNLVRLNLSMCSGFT  248 (419)
T ss_pred             HHHhhhhccccccc-cCcH-HHHHHhccccceeeccccccccc
Confidence            35556666655553 3221 11234444555555555555443

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

Probab=97.98  E-value=7.5e-06  Score=77.26  Aligned_cols=107  Identities=21%  Similarity=0.289  Sum_probs=33.4

Q ss_pred             cCCcccEEeccCCCCcccccccc-cCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhcc
Q 040040          261 EFSQLRKLTLKSLPQLRSFCSVV-AFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSF  339 (869)
Q Consensus       261 ~l~~L~~L~l~~~~~l~~~~~~~-~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L  339 (869)
                      +..++++|++.++ .+..+..++ .+.+|+.|++++|.++.+.  .++.    +++|+.|++++ +.++++ .......+
T Consensus        17 n~~~~~~L~L~~n-~I~~Ie~L~~~l~~L~~L~Ls~N~I~~l~--~l~~----L~~L~~L~L~~-N~I~~i-~~~l~~~l   87 (175)
T PF14580_consen   17 NPVKLRELNLRGN-QISTIENLGATLDKLEVLDLSNNQITKLE--GLPG----LPRLKTLDLSN-NRISSI-SEGLDKNL   87 (175)
T ss_dssp             --------------------S--TT-TT--EEE-TTS--S--T--T--------TT--EEE--S-S---S--CHHHHHH-
T ss_pred             ccccccccccccc-ccccccchhhhhcCCCEEECCCCCCcccc--CccC----hhhhhhcccCC-CCCCcc-ccchHHhC
Confidence            3445666666663 234444443 4667788888888766542  2333    77888888876 566665 22333467


Q ss_pred             CCccEEEEeccccccccccccccccccccccccCccceeecccCc
Q 040040          340 VQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLA  384 (869)
Q Consensus       340 ~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~  384 (869)
                      ++|++|++++ +.+.++-.-       .....+|+|+.|++.++|
T Consensus        88 p~L~~L~L~~-N~I~~l~~l-------~~L~~l~~L~~L~L~~NP  124 (175)
T PF14580_consen   88 PNLQELYLSN-NKISDLNEL-------EPLSSLPKLRVLSLEGNP  124 (175)
T ss_dssp             TT--EEE-TT-S---SCCCC-------GGGGG-TT--EEE-TT-G
T ss_pred             CcCCEEECcC-CcCCChHHh-------HHHHcCCCcceeeccCCc
Confidence            8888888877 355543211       134577888888888877

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

Probab=97.89  E-value=7.5e-06  Score=77.27  Aligned_cols=36  Identities=17%  Similarity=0.337  Sum_probs=5.6

Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhc-CCCCCcEEEEeecC
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISR-GLPQLQTIKVTACK  237 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~-~L~~L~~L~l~~c~  237 (869)
                      +..++|+|+|+++. ++.+   ..++ .+.+|+.|+++++.
T Consensus        17 n~~~~~~L~L~~n~-I~~I---e~L~~~l~~L~~L~Ls~N~   53 (175)
T PF14580_consen   17 NPVKLRELNLRGNQ-ISTI---ENLGATLDKLEVLDLSNNQ   53 (175)
T ss_dssp             -----------------------S--TT-TT--EEE-TTS-
T ss_pred             cccccccccccccc-cccc---cchhhhhcCCCEEECCCCC
Confidence            34456777777663 5444   2333 45566666666543

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

Probab=97.71  E-value=2.8e-06  Score=83.35  Aligned_cols=188  Identities=20%  Similarity=0.180  Sum_probs=106.1

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccc-cccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEK-ISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~-l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      ..|++|++++. .++.-   ........+.+|+.|.+++. .+.+ +...   +.+-.+|+.|+++.|..++...-.-.+
T Consensus       185 sRlq~lDLS~s-~it~s---tl~~iLs~C~kLk~lSlEg~-~LdD~I~~~---iAkN~~L~~lnlsm~sG~t~n~~~ll~  256 (419)
T KOG2120|consen  185 SRLQHLDLSNS-VITVS---TLHGILSQCSKLKNLSLEGL-RLDDPIVNT---IAKNSNLVRLNLSMCSGFTENALQLLL  256 (419)
T ss_pred             hhhHHhhcchh-heeHH---HHHHHHHHHHhhhhcccccc-ccCcHHHHH---HhccccceeeccccccccchhHHHHHH
Confidence            35788888765 22210   00011235667777877776 3433 2111   446789999999999988765333367


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIW  302 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~  302 (869)
                      .+++.|+.|+++.|....+.......+         +  -++|+.|+++||.+--                        .
T Consensus       257 ~scs~L~~LNlsWc~l~~~~Vtv~V~h---------i--se~l~~LNlsG~rrnl------------------------~  301 (419)
T KOG2120|consen  257 SSCSRLDELNLSWCFLFTEKVTVAVAH---------I--SETLTQLNLSGYRRNL------------------------Q  301 (419)
T ss_pred             HhhhhHhhcCchHhhccchhhhHHHhh---------h--chhhhhhhhhhhHhhh------------------------h
Confidence            889999999999997554433111000         0  2345555555543211                        0


Q ss_pred             cCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeeccc
Q 040040          303 HNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKD  382 (869)
Q Consensus       303 ~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~  382 (869)
                      ...+......+++|..|++++|..++.- -...+-.++.|++|.++.|..+.-   ..     .-+....|+|.+|++.+
T Consensus       302 ~sh~~tL~~rcp~l~~LDLSD~v~l~~~-~~~~~~kf~~L~~lSlsRCY~i~p---~~-----~~~l~s~psl~yLdv~g  372 (419)
T KOG2120|consen  302 KSHLSTLVRRCPNLVHLDLSDSVMLKND-CFQEFFKFNYLQHLSLSRCYDIIP---ET-----LLELNSKPSLVYLDVFG  372 (419)
T ss_pred             hhHHHHHHHhCCceeeeccccccccCch-HHHHHHhcchheeeehhhhcCCCh---HH-----eeeeccCcceEEEEecc
Confidence            1112222345777888888887777652 234456677888888888765421   00     00233456666666655


Q ss_pred             C
Q 040040          383 L  383 (869)
Q Consensus       383 ~  383 (869)
                      |
T Consensus       373 ~  373 (419)
T KOG2120|consen  373 C  373 (419)
T ss_pred             c
Confidence            5

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

Probab=97.66  E-value=5.9e-05  Score=57.95  Aligned_cols=58  Identities=29%  Similarity=0.375  Sum_probs=27.9

Q ss_pred             CccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeec
Q 040040          174 LLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTAC  236 (869)
Q Consensus       174 ~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  236 (869)
                      +|++|+++++ +++.++.+.+  ..+++|++|+++++ +++.+++ ..+.++++|++|+++++
T Consensus         2 ~L~~L~l~~n-~l~~i~~~~f--~~l~~L~~L~l~~N-~l~~i~~-~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    2 NLESLDLSNN-KLTEIPPDSF--SNLPNLETLDLSNN-NLTSIPP-DAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSS-TESEECTTTT--TTGTTESEEEETSS-SESEEET-TTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCC-CCCccCHHHH--cCCCCCCEeEccCC-ccCccCH-HHHcCCCCCCEEeCcCC
Confidence            4455555554 4444443332  24555555555544 3444443 34455555555555543

...

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

Probab=97.47  E-value=0.00014  Score=55.87  Aligned_cols=59  Identities=27%  Similarity=0.375  Sum_probs=34.7

Q ss_pred             CCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecc
Q 040040          286 PNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       286 ~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  350 (869)
                      |+|++|++++|.+..+..+.+..    +++|++|++++ +.++.+ +...+.++++|++|+++++
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~----l~~L~~L~l~~-N~l~~i-~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSN----LPNLETLDLSN-NNLTSI-PPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTT----GTTESEEEETS-SSESEE-ETTTTTTSTTESEEEETSS
T ss_pred             CcCcEEECCCCCCCccCHHHHcC----CCCCCEeEccC-CccCcc-CHHHHcCCCCCCEEeCcCC
Confidence            45666666666655554443333    66677777764 345554 4445666666666666664

...

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

Probab=97.38  E-value=2.7e-05  Score=89.03  Aligned_cols=39  Identities=23%  Similarity=0.433  Sum_probs=24.4

Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeec
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTAC  236 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  236 (869)
                      .+++|+.|.+.+|..+....-.+....+++|++|++++|
T Consensus       186 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  224 (482)
T KOG1947|consen  186 SCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGC  224 (482)
T ss_pred             hCchhhHhhhcccccCChhhHHHHHhhCchhheecccCc
Confidence            357777777777766665322235666777777777763

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

Probab=97.29  E-value=1.8e-05  Score=90.64  Aligned_cols=142  Identities=20%  Similarity=0.243  Sum_probs=74.2

Q ss_pred             cCCCCEEEecCCCCCcccC-ChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCC-CCc
Q 040040          199 FLRLRNLKVESCEKLTHIF-SFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSL-PQL  276 (869)
Q Consensus       199 l~~L~~L~L~~c~~l~~l~-~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~-~~l  276 (869)
                      ...++.+....+....... ........++|+.|.+.+|..+.....           .......++|+.|++++| ...
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~l~l~~~~~~~~~~~-----------~~~~~~~~~L~~L~l~~~~~~~  228 (482)
T KOG1947|consen  160 LANLESLSLSCCGSLLLDKILLRLLSSCPLLKRLSLSGCSKITDDSL-----------DALALKCPNLEELDLSGCCLLI  228 (482)
T ss_pred             HHHHheeeeecccccccHHHHHHHHhhCchhhHhhhcccccCChhhH-----------HHHHhhCchhheecccCccccc
Confidence            4455555555554322111 011334578888888888876654210           022344778888888773 222


Q ss_pred             cccc-----ccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccc
Q 040040          277 RSFC-----SVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCM  351 (869)
Q Consensus       277 ~~~~-----~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  351 (869)
                      ...+     ....+++|+.|+++++..  +.+..+......+++|++|.+.+|..+++..-......+++|++|++++|.
T Consensus       229 ~~~~~~~~~~~~~~~~L~~l~l~~~~~--isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~  306 (482)
T KOG1947|consen  229 TLSPLLLLLLLSICRKLKSLDLSGCGL--VTDIGLSALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCH  306 (482)
T ss_pred             ccchhHhhhhhhhcCCcCccchhhhhc--cCchhHHHHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCc
Confidence            1111     123346667777766651  111222222223566777776666655443223344556667777777766


Q ss_pred             cc
Q 040040          352 DL  353 (869)
Q Consensus       352 ~l  353 (869)
                      .+
T Consensus       307 ~~  308 (482)
T KOG1947|consen  307 GL  308 (482)
T ss_pred             cc
Confidence            55

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

Probab=97.27  E-value=7e-05  Score=86.68  Aligned_cols=108  Identities=19%  Similarity=0.176  Sum_probs=45.2

Q ss_pred             ccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccccc
Q 040040          118 KGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAE  197 (869)
Q Consensus       118 ~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~  197 (869)
                      .++++|+++|...+.+--+.-.+..+|+|++|.+.+..-...   . ....+.+||+|..||++++ +++.+ .|   ++
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~---d-F~~lc~sFpNL~sLDIS~T-nI~nl-~G---IS  192 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDND---D-FSQLCASFPNLRSLDISGT-NISNL-SG---IS  192 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecch---h-HHHHhhccCccceeecCCC-CccCc-HH---Hh
Confidence            456666666533321111111124556666666655311000   0 0011234555555555554 44433 11   34


Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEee
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTA  235 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~  235 (869)
                      .++||+.|.+.+.+ +........+-+|++|++||++.
T Consensus       193 ~LknLq~L~mrnLe-~e~~~~l~~LF~L~~L~vLDIS~  229 (699)
T KOG3665|consen  193 RLKNLQVLSMRNLE-FESYQDLIDLFNLKKLRVLDISR  229 (699)
T ss_pred             ccccHHHHhccCCC-CCchhhHHHHhcccCCCeeeccc
Confidence            45555555554442 22211222334455555555554

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

Probab=97.22  E-value=0.00023  Score=78.78  Aligned_cols=172  Identities=21%  Similarity=0.255  Sum_probs=80.6

Q ss_pred             CCCccEeeccccccccccccccccccccC-CCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccc
Q 040040          172 FPLLESLSLSNLMNLEKISCSQLRAESFL-RLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDD  250 (869)
Q Consensus       172 ~~~L~~L~L~~~~~l~~l~~~~~~~~~l~-~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~  250 (869)
                      ++.++.|++.+. .+.+++..   .+.+. +|+.|++++.. +..++.  .++.+++|+.|+++++. +.+++.      
T Consensus       115 ~~~l~~L~l~~n-~i~~i~~~---~~~~~~nL~~L~l~~N~-i~~l~~--~~~~l~~L~~L~l~~N~-l~~l~~------  180 (394)
T COG4886         115 LTNLTSLDLDNN-NITDIPPL---IGLLKSNLKELDLSDNK-IESLPS--PLRNLPNLKNLDLSFND-LSDLPK------  180 (394)
T ss_pred             ccceeEEecCCc-ccccCccc---cccchhhcccccccccc-hhhhhh--hhhccccccccccCCch-hhhhhh------
Confidence            344555555544 34444332   22332 55566655552 444431  45555666666665543 334441      


Q ss_pred             cCCccccccccCCcccEEeccCCCCcccccccc-cCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCcc
Q 040040          251 INNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVV-AFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKF  329 (869)
Q Consensus       251 ~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~-~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~  329 (869)
                             .....+.|+.|++++ ..+..++... ....|++|.++++.+..     .+.....+.++..+.+.+ ..+..
T Consensus       181 -------~~~~~~~L~~L~ls~-N~i~~l~~~~~~~~~L~~l~~~~N~~~~-----~~~~~~~~~~l~~l~l~~-n~~~~  246 (394)
T COG4886         181 -------LLSNLSNLNNLDLSG-NKISDLPPEIELLSALEELDLSNNSIIE-----LLSSLSNLKNLSGLELSN-NKLED  246 (394)
T ss_pred             -------hhhhhhhhhheeccC-CccccCchhhhhhhhhhhhhhcCCccee-----cchhhhhcccccccccCC-ceeee
Confidence                   111355555555555 3344444432 33346666666663111     111123344455555333 23332


Q ss_pred             ccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCc
Q 040040          330 LFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLA  384 (869)
Q Consensus       330 l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~  384 (869)
                      +  ...++.+++++.|+++++ .++.+..          ...+.+|+.|++++..
T Consensus       247 ~--~~~~~~l~~l~~L~~s~n-~i~~i~~----------~~~~~~l~~L~~s~n~  288 (394)
T COG4886         247 L--PESIGNLSNLETLDLSNN-QISSISS----------LGSLTNLRELDLSGNS  288 (394)
T ss_pred             c--cchhccccccceeccccc-ccccccc----------ccccCccCEEeccCcc
Confidence            1  133556666777776663 4444421          2355666777766654

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

Probab=97.15  E-value=0.00013  Score=84.63  Aligned_cols=133  Identities=22%  Similarity=0.256  Sum_probs=84.2

Q ss_pred             CCCccEEEEecCCCc-eecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          143 FPSLKLLHIQNNPYL-LCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l-~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      -.+|++|+++|...+ ..|+..    ...-||+|++|.+.+.. +..-....+ -.+||||+.||++++. ++.+   ..
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~k----ig~~LPsL~sL~i~~~~-~~~~dF~~l-c~sFpNL~sLDIS~Tn-I~nl---~G  190 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKK----IGTMLPSLRSLVISGRQ-FDNDDFSQL-CASFPNLRSLDISGTN-ISNL---SG  190 (699)
T ss_pred             HHhhhhcCccccchhhccHHHH----HhhhCcccceEEecCce-ecchhHHHH-hhccCccceeecCCCC-ccCc---HH
Confidence            478999999885332 122211    23579999999999862 222111111 2379999999999994 7776   58


Q ss_pred             hcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccc-------cccccCCCcCEEEec
Q 040040          222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSF-------CSVVAFPNLETLKLS  294 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~-------~~~~~l~~L~~L~L~  294 (869)
                      +++|++||+|.+.+.+-- .-.           ...++..+++|+.||++.-.....-       .....+|+|+.||.+
T Consensus       191 IS~LknLq~L~mrnLe~e-~~~-----------~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcS  258 (699)
T KOG3665|consen  191 ISRLKNLQVLSMRNLEFE-SYQ-----------DLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCS  258 (699)
T ss_pred             HhccccHHHHhccCCCCC-chh-----------hHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecC
Confidence            999999999999875421 111           1245677899999999874432221       112335666666666


Q ss_pred             ccc
Q 040040          295 AIN  297 (869)
Q Consensus       295 ~~~  297 (869)
                      +..
T Consensus       259 gTd  261 (699)
T KOG3665|consen  259 GTD  261 (699)
T ss_pred             Ccc
Confidence            554

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

Probab=97.13  E-value=0.00034  Score=77.52  Aligned_cols=174  Identities=21%  Similarity=0.293  Sum_probs=121.9

Q ss_pred             CCCCCccEEEEecCCCceecCCCCCCCCCCCC-CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCCh
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDSTELVPRDAF-PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSF  219 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~-~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~  219 (869)
                      ..++.+..|.+.++ .+..++...     ..+ ++|+.|++++. .++.++..   ++.+++|+.|++.+++ +..+++ 
T Consensus       113 ~~~~~l~~L~l~~n-~i~~i~~~~-----~~~~~nL~~L~l~~N-~i~~l~~~---~~~l~~L~~L~l~~N~-l~~l~~-  180 (394)
T COG4886         113 LELTNLTSLDLDNN-NITDIPPLI-----GLLKSNLKELDLSDN-KIESLPSP---LRNLPNLKNLDLSFND-LSDLPK-  180 (394)
T ss_pred             hcccceeEEecCCc-ccccCcccc-----ccchhhccccccccc-chhhhhhh---hhccccccccccCCch-hhhhhh-
Confidence            34567888888887 666666543     344 38999999987 66666422   5689999999999984 777754 


Q ss_pred             hhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEecccccc
Q 040040          220 SISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSE  299 (869)
Q Consensus       220 ~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~  299 (869)
                       ..+.+++|+.|++++.. +..+|.             .+.....|+++.+.+.+..........+.++..+.+.++.+.
T Consensus       181 -~~~~~~~L~~L~ls~N~-i~~l~~-------------~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~  245 (394)
T COG4886         181 -LLSNLSNLNNLDLSGNK-ISDLPP-------------EIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLE  245 (394)
T ss_pred             -hhhhhhhhhheeccCCc-cccCch-------------hhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCceee
Confidence             44488999999999854 666762             222355588888877655555555667777888887777644


Q ss_pred             ccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecc
Q 040040          300 TIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       300 ~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  350 (869)
                      .+     +..++.+++++.|+++++ .+.++ +.  ++.+.+++.|++++.
T Consensus       246 ~~-----~~~~~~l~~l~~L~~s~n-~i~~i-~~--~~~~~~l~~L~~s~n  287 (394)
T COG4886         246 DL-----PESIGNLSNLETLDLSNN-QISSI-SS--LGSLTNLRELDLSGN  287 (394)
T ss_pred             ec-----cchhccccccceeccccc-ccccc-cc--ccccCccCEEeccCc
Confidence            32     444566788999999874 56665 22  678889999999884

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

Probab=96.95  E-value=5.6e-05  Score=81.08  Aligned_cols=174  Identities=21%  Similarity=0.201  Sum_probs=97.6

Q ss_pred             CCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChh
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFS  220 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~  220 (869)
                      ..|..|..+.+..+ .+..++...     ..+..|..|+|+.+ .+..+|..   +. +--|+.|.++++ +++.+|.  
T Consensus        95 ~~f~~Le~liLy~n-~~r~ip~~i-----~~L~~lt~l~ls~N-qlS~lp~~---lC-~lpLkvli~sNN-kl~~lp~--  160 (722)
T KOG0532|consen   95 CAFVSLESLILYHN-CIRTIPEAI-----CNLEALTFLDLSSN-QLSHLPDG---LC-DLPLKVLIVSNN-KLTSLPE--  160 (722)
T ss_pred             HHHHHHHHHHHHhc-cceecchhh-----hhhhHHHHhhhccc-hhhcCChh---hh-cCcceeEEEecC-ccccCCc--
Confidence            44556666666555 566666543     45666666666655 44444443   32 233777777776 5777765  


Q ss_pred             hhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccc
Q 040040          221 ISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSET  300 (869)
Q Consensus       221 ~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~  300 (869)
                      .++.++.|..||.+.|. +..+|             ..++.+.+|+.|.+... ++..+|.....=.|..||++.|++..
T Consensus       161 ~ig~~~tl~~ld~s~ne-i~slp-------------sql~~l~slr~l~vrRn-~l~~lp~El~~LpLi~lDfScNkis~  225 (722)
T KOG0532|consen  161 EIGLLPTLAHLDVSKNE-IQSLP-------------SQLGYLTSLRDLNVRRN-HLEDLPEELCSLPLIRLDFSCNKISY  225 (722)
T ss_pred             ccccchhHHHhhhhhhh-hhhch-------------HHhhhHHHHHHHHHhhh-hhhhCCHHHhCCceeeeecccCceee
Confidence            66677777777777654 45555             45566777777776653 34444432222346677777776544


Q ss_pred             cccCCCCCcccccCCceEEEEecCCCCccccChhh--HhccCCccEEEEecc
Q 040040          301 IWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSL--VRSFVQLQHLEIRKC  350 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~--~~~L~~L~~L~l~~c  350 (869)
                      +     |.-+..|..|++|.|.+ +-++. +|..+  -+...=-|+|++.-|
T Consensus       226 i-----Pv~fr~m~~Lq~l~Len-NPLqS-PPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  226 L-----PVDFRKMRHLQVLQLEN-NPLQS-PPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             c-----chhhhhhhhheeeeecc-CCCCC-ChHHHHhccceeeeeeecchhc
Confidence            3     33344567777777754 44554 23221  112223455666555

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

Probab=96.81  E-value=4.9e-05  Score=81.52  Aligned_cols=128  Identities=18%  Similarity=0.157  Sum_probs=64.3

Q ss_pred             CCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChh
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFS  220 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~  220 (869)
                      ..+..|.+|+++.+ .+..+|...      .+--|++|.++++ +++.+|..   ++..+.|..|+.+.|. +..+|+  
T Consensus       118 ~~L~~lt~l~ls~N-qlS~lp~~l------C~lpLkvli~sNN-kl~~lp~~---ig~~~tl~~ld~s~ne-i~slps--  183 (722)
T KOG0532|consen  118 CNLEALTFLDLSSN-QLSHLPDGL------CDLPLKVLIVSNN-KLTSLPEE---IGLLPTLAHLDVSKNE-IQSLPS--  183 (722)
T ss_pred             hhhhHHHHhhhccc-hhhcCChhh------hcCcceeEEEecC-ccccCCcc---cccchhHHHhhhhhhh-hhhchH--
Confidence            34455555555555 445444433      3334566666555 45554444   4555566666665553 444543  


Q ss_pred             hhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc-cccCCCcCEEEeccccc
Q 040040          221 ISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS-VVAFPNLETLKLSAINS  298 (869)
Q Consensus       221 ~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~l~~L~~L~L~~~~l  298 (869)
                      .++++.+|+.|.++... +..+|             .+.. --.|..|+++ |+++..+|. +..+..|++|.|.+|.+
T Consensus       184 ql~~l~slr~l~vrRn~-l~~lp-------------~El~-~LpLi~lDfS-cNkis~iPv~fr~m~~Lq~l~LenNPL  246 (722)
T KOG0532|consen  184 QLGYLTSLRDLNVRRNH-LEDLP-------------EELC-SLPLIRLDFS-CNKISYLPVDFRKMRHLQVLQLENNPL  246 (722)
T ss_pred             HhhhHHHHHHHHHhhhh-hhhCC-------------HHHh-CCceeeeecc-cCceeecchhhhhhhhheeeeeccCCC
Confidence            55566666666655432 33444             1222 1234555553 345555553 34455666666666553

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=96.18  E-value=0.0068  Score=42.54  Aligned_cols=35  Identities=20%  Similarity=0.342  Sum_probs=20.4

Q ss_pred             CCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecC
Q 040040          200 LRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       200 ~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  237 (869)
                      ++|++|+++++ +++++++  .+++|++|++|+++++.
T Consensus         1 ~~L~~L~l~~N-~i~~l~~--~l~~l~~L~~L~l~~N~   35 (44)
T PF12799_consen    1 KNLEELDLSNN-QITDLPP--ELSNLPNLETLNLSNNP   35 (44)
T ss_dssp             TT-SEEEETSS-S-SSHGG--HGTTCTTSSEEEETSSC
T ss_pred             CcceEEEccCC-CCcccCc--hHhCCCCCCEEEecCCC
Confidence            35666666666 3666543  46667777777776653

...

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=96.05  E-value=0.0081  Score=42.15  Aligned_cols=40  Identities=23%  Similarity=0.301  Sum_probs=27.4

Q ss_pred             CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccC
Q 040040          173 PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIF  217 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~  217 (869)
                      ++|++|+++++ ++++++..   ++.+++|++|++++|+ +++++
T Consensus         1 ~~L~~L~l~~N-~i~~l~~~---l~~l~~L~~L~l~~N~-i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNN-QITDLPPE---LSNLPNLETLNLSNNP-ISDIS   40 (44)
T ss_dssp             TT-SEEEETSS-S-SSHGGH---GTTCTTSSEEEETSSC-CSBEG
T ss_pred             CcceEEEccCC-CCcccCch---HhCCCCCCEEEecCCC-CCCCc
Confidence            46778888877 67776653   4578888888888884 66653

...

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

Probab=96.01  E-value=0.00031  Score=77.59  Aligned_cols=108  Identities=18%  Similarity=0.126  Sum_probs=74.5

Q ss_pred             cccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhc
Q 040040          259 KIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRS  338 (869)
Q Consensus       259 ~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~  338 (869)
                      +.-++.|++|+++. ++++....+..++.|++|+|++|.+..+..-....    + .|+.|.+++ +.++.+   ..+.+
T Consensus       183 Lqll~ale~LnLsh-Nk~~~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~g----c-~L~~L~lrn-N~l~tL---~gie~  252 (1096)
T KOG1859|consen  183 LQLLPALESLNLSH-NKFTKVDNLRRLPKLKHLDLSYNCLRHVPQLSMVG----C-KLQLLNLRN-NALTTL---RGIEN  252 (1096)
T ss_pred             HHHHHHhhhhccch-hhhhhhHHHHhcccccccccccchhccccccchhh----h-hheeeeecc-cHHHhh---hhHHh
Confidence            34467889999987 45666666778899999999999866543322221    3 499999988 567765   34678


Q ss_pred             cCCccEEEEeccccccccccccccccccccccccCccceeecccCc
Q 040040          339 FVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLA  384 (869)
Q Consensus       339 L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~  384 (869)
                      |.+|+.|++++. -+.+..       .......+..|+.|.+.|+|
T Consensus       253 LksL~~LDlsyN-ll~~hs-------eL~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  253 LKSLYGLDLSYN-LLSEHS-------ELEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             hhhhhccchhHh-hhhcch-------hhhHHHHHHHHHHHhhcCCc
Confidence            999999999873 332211       01134567788999999887

>PLN03150 hypothetical protein; Provisional

Probab=95.64  E-value=0.023  Score=66.40  Aligned_cols=110  Identities=14%  Similarity=0.092  Sum_probs=70.9

Q ss_pred             cccEEeccCCCCccccc-ccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCc
Q 040040          264 QLRKLTLKSLPQLRSFC-SVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQL  342 (869)
Q Consensus       264 ~L~~L~l~~~~~l~~~~-~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L  342 (869)
                      .++.|++.++.--..+| .+..+++|+.|+|++|.+.    +.+|..++.+++|+.|+++++ .+....| ..++++++|
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~----g~iP~~~~~l~~L~~LdLs~N-~lsg~iP-~~l~~L~~L  492 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIR----GNIPPSLGSITSLEVLDLSYN-SFNGSIP-ESLGQLTSL  492 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCccc----CcCChHHhCCCCCCEEECCCC-CCCCCCc-hHHhcCCCC
Confidence            46777887754322333 2567789999999998743    235655677899999999886 4444334 447889999


Q ss_pred             cEEEEecccccc-ccccccccccccccccccCccceeecccCccccc
Q 040040          343 QHLEIRKCMDLE-GIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTR  388 (869)
Q Consensus       343 ~~L~l~~c~~l~-~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~  388 (869)
                      +.|+++++. +. .++..-        ...+.++..+.+.+++.+..
T Consensus       493 ~~L~Ls~N~-l~g~iP~~l--------~~~~~~~~~l~~~~N~~lc~  530 (623)
T PLN03150        493 RILNLNGNS-LSGRVPAAL--------GGRLLHRASFNFTDNAGLCG  530 (623)
T ss_pred             CEEECcCCc-ccccCChHH--------hhccccCceEEecCCccccC
Confidence            999999864 43 332210        01234566778887765543

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

Probab=95.59  E-value=0.00081  Score=74.45  Aligned_cols=122  Identities=20%  Similarity=0.175  Sum_probs=69.9

Q ss_pred             CCCCCceeeecc-ccCccccccceeeEeeecceeccccceeeeecccceeeec-cccccceEEEeecCCCccchHHHHHh
Q 040040          589 ECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQ-AQFHKLKILHFISDGSDFFQVGLLQN  666 (869)
Q Consensus       589 ~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~p~~~l~~  666 (869)
                      .|..|...+.+. .+......-          ..++.|+.|++++|++..... ..+++|+.||++.|....+|......
T Consensus       162 ~Wn~L~~a~fsyN~L~~mD~SL----------qll~ale~LnLshNk~~~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~g  231 (1096)
T KOG1859|consen  162 VWNKLATASFSYNRLVLMDESL----------QLLPALESLNLSHNKFTKVDNLRRLPKLKHLDLSYNCLRHVPQLSMVG  231 (1096)
T ss_pred             hhhhHhhhhcchhhHHhHHHHH----------HHHHHhhhhccchhhhhhhHHHHhcccccccccccchhccccccchhh
Confidence            466666666666 444433211          146888999999998876443 12788888888777777777654455


Q ss_pred             ccccceEEEE---EE--ecccccccccEEEcCccccccccccCCCCCcccccCCccEEEEeccc
Q 040040          667 IHNLEKLVLK---VE--EHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECA  725 (869)
Q Consensus       667 l~~L~~L~l~---~~--~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~  725 (869)
                      +. |+.|.++   +.  ...+.+.+|+.|+++++=-.. +-   .-..+..|..|..|++.+||
T Consensus       232 c~-L~~L~lrnN~l~tL~gie~LksL~~LDlsyNll~~-hs---eL~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  232 CK-LQLLNLRNNALTTLRGIENLKSLYGLDLSYNLLSE-HS---ELEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             hh-heeeeecccHHHhhhhHHhhhhhhccchhHhhhhc-ch---hhhHHHHHHHHHHHhhcCCc
Confidence            55 6777666   11  112236666666666521111 10   01123456666667777666

>PLN03150 hypothetical protein; Provisional

Probab=95.53  E-value=0.026  Score=65.91  Aligned_cols=105  Identities=11%  Similarity=0.127  Sum_probs=64.2

Q ss_pred             CccEeeccccccccc-cccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccC
Q 040040          174 LLESLSLSNLMNLEK-ISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDIN  252 (869)
Q Consensus       174 ~L~~L~L~~~~~l~~-l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~  252 (869)
                      .++.|+|.++ .+.. ++..   ++.+++|++|+|++|. +....| ..++.+++|+.|+++++..-..+|         
T Consensus       419 ~v~~L~L~~n-~L~g~ip~~---i~~L~~L~~L~Ls~N~-l~g~iP-~~~~~l~~L~~LdLs~N~lsg~iP---------  483 (623)
T PLN03150        419 FIDGLGLDNQ-GLRGFIPND---ISKLRHLQSINLSGNS-IRGNIP-PSLGSITSLEVLDLSYNSFNGSIP---------  483 (623)
T ss_pred             EEEEEECCCC-CccccCCHH---HhCCCCCCEEECCCCc-ccCcCC-hHHhCCCCCCEEECCCCCCCCCCc---------
Confidence            3667777766 4433 2222   4577888888888774 443222 367788888888888765444555         


Q ss_pred             CccccccccCCcccEEeccCCCCccccccc-c-cCCCcCEEEecccc
Q 040040          253 NTEVIDKIEFSQLRKLTLKSLPQLRSFCSV-V-AFPNLETLKLSAIN  297 (869)
Q Consensus       253 ~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~-~-~l~~L~~L~L~~~~  297 (869)
                          ..+..+++|++|+++++.--..+|.. . ...++..+++.+|.
T Consensus       484 ----~~l~~L~~L~~L~Ls~N~l~g~iP~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        484 ----ESLGQLTSLRILNLNGNSLSGRVPAALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             ----hHHhcCCCCCEEECcCCcccccCChHHhhccccCceEEecCCc
Confidence                44566778888888776533344431 1 12355677777765

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.41  E-value=0.0028  Score=62.91  Aligned_cols=157  Identities=20%  Similarity=0.207  Sum_probs=93.7

Q ss_pred             ccccceeeeecccceeeec---cccccceEEEeecCC-CccchHHHHHhccccceEEEE------EEeccc----ccccc
Q 040040          622 FPNLEELTLSKYIFTTWRQ---AQFHKLKILHFISDG-SDFFQVGLLQNIHNLEKLVLK------VEEHAE----GIAQI  687 (869)
Q Consensus       622 ~~~L~~L~l~~~~~~~~~~---~~~~~L~~L~l~~~~-~~~~p~~~l~~l~~L~~L~l~------~~~~~~----~~~~L  687 (869)
                      +|.|+.|+|+.|.+.....   ....+|++|-+++.. .-.--..++..+|.++.|+++      +.....    -.+.+
T Consensus        96 lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v  175 (418)
T KOG2982|consen   96 LPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTEV  175 (418)
T ss_pred             CccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhhhhhhhccchhhhhccccccccccchhh
Confidence            6788888888887655222   236777777773322 212223467778888888776      221111    14456


Q ss_pred             cEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhcccceeEecccchhccccC--CCcceeecCCeeeeCCC
Q 040040          688 KSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESS--GSITSFCSGNYAISFPS  765 (869)
Q Consensus       688 ~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~~~~~~~L~~L~l~~l--~~l~~~~~~~~~~~~~~  765 (869)
                      +.|.+..|..   ..|.+.......|||+..+-+..||  +..+..+-.+..+..+...++  .++-+...-.....||+
T Consensus       176 ~tlh~~~c~~---~~w~~~~~l~r~Fpnv~sv~v~e~P--lK~~s~ek~se~~p~~~~LnL~~~~idswasvD~Ln~f~~  250 (418)
T KOG2982|consen  176 LTLHQLPCLE---QLWLNKNKLSRIFPNVNSVFVCEGP--LKTESSEKGSEPFPSLSCLNLGANNIDSWASVDALNGFPQ  250 (418)
T ss_pred             hhhhcCCcHH---HHHHHHHhHHhhcccchheeeecCc--ccchhhcccCCCCCcchhhhhcccccccHHHHHHHcCCch
Confidence            6666665543   3344444444678999999999998  666644443433444434443  23333322233357899


Q ss_pred             cceEeeccCCCccccCCC
Q 040040          766 LEVLIVENCPKLNTFSAG  783 (869)
Q Consensus       766 L~~L~i~~c~~~~~~~~~  783 (869)
                      |..|.|.+.|....+..+
T Consensus       251 l~dlRv~~~Pl~d~l~~~  268 (418)
T KOG2982|consen  251 LVDLRVSENPLSDPLRGG  268 (418)
T ss_pred             hheeeccCCcccccccCC
Confidence            999999999988766544

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.35  E-value=0.0038  Score=62.00  Aligned_cols=155  Identities=15%  Similarity=0.199  Sum_probs=89.3

Q ss_pred             ccccceeeeecccceeeecc-----ccccceEEEeecCCCccchHHHHHhccccceEEEEEEecccccccccEEEcCccc
Q 040040          622 FPNLEELTLSKYIFTTWRQA-----QFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLW  696 (869)
Q Consensus       622 ~~~L~~L~l~~~~~~~~~~~-----~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~~~~~~~~~~~L~~L~l~~~~  696 (869)
                      .+.+++|++.+|.++.|..-     +++.|+.|+++.|.....    ++.+|             ....+|+.|.+.+- 
T Consensus        70 ~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~----I~~lp-------------~p~~nl~~lVLNgT-  131 (418)
T KOG2982|consen   70 VTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSD----IKSLP-------------LPLKNLRVLVLNGT-  131 (418)
T ss_pred             hhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCc----cccCc-------------ccccceEEEEEcCC-
Confidence            46788888888888775442     255555555533322210    11111             12456777777651 


Q ss_pred             cccccccCCCCCcccccCCccEEEEecccchhhcccc---ee--EecccchhccccCCCcceeecCCeeeeCCCcceEee
Q 040040          697 FIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRI---EI--VFSKLKWLFLESSGSITSFCSGNYAISFPSLEVLIV  771 (869)
Q Consensus       697 ~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~---~~--~~~~L~~L~l~~l~~l~~~~~~~~~~~~~~L~~L~i  771 (869)
                      .|.   |...-.....+|.++.|+++.|.  +.++-.   ++  .-+.++++....|+-..-....+..-.||++..+.+
T Consensus       132 ~L~---w~~~~s~l~~lP~vtelHmS~N~--~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v  206 (418)
T KOG2982|consen  132 GLS---WTQSTSSLDDLPKVTELHMSDNS--LRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFV  206 (418)
T ss_pred             CCC---hhhhhhhhhcchhhhhhhhccch--hhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhcccchheee
Confidence            111   22222335677888888888884  666621   11  345677777777754432222222236899999999


Q ss_pred             ccCCCccc-cCCCCcCCCcceEEEccCCC
Q 040040          772 ENCPKLNT-FSAGVLKTPRLRAVQNWKLD  799 (869)
Q Consensus       772 ~~c~~~~~-~~~~~~~~~~L~~l~~s~~~  799 (869)
                      .+||.-.. -.++....|.+--|.++.++
T Consensus       207 ~e~PlK~~s~ek~se~~p~~~~LnL~~~~  235 (418)
T KOG2982|consen  207 CEGPLKTESSEKGSEPFPSLSCLNLGANN  235 (418)
T ss_pred             ecCcccchhhcccCCCCCcchhhhhcccc
Confidence            99986332 34556667777778887554

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

Probab=95.10  E-value=0.051  Score=51.32  Aligned_cols=106  Identities=17%  Similarity=0.281  Sum_probs=61.7

Q ss_pred             CCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecccccccccccccccc
Q 040040          285 FPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIE  364 (869)
Q Consensus       285 l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~  364 (869)
                      ..+...+++++|.+..+  ..+|.    +++|..|.+.+ +.++.+-| ....-+++|+.|.+.+ +++.++..-+    
T Consensus        41 ~d~~d~iDLtdNdl~~l--~~lp~----l~rL~tLll~n-NrIt~I~p-~L~~~~p~l~~L~Ltn-Nsi~~l~dl~----  107 (233)
T KOG1644|consen   41 LDQFDAIDLTDNDLRKL--DNLPH----LPRLHTLLLNN-NRITRIDP-DLDTFLPNLKTLILTN-NSIQELGDLD----  107 (233)
T ss_pred             ccccceecccccchhhc--ccCCC----ccccceEEecC-Ccceeecc-chhhhccccceEEecC-cchhhhhhcc----
Confidence            34566777777764442  23554    77777887765 56666633 4445667788888877 3555543221    


Q ss_pred             ccccccccCccceeecccCccccccCC---CcccCCCCccEEEEcc
Q 040040          365 EERKDIVFPQLNFLKMKDLAKLTRFCS---GNCIELPSLKQLRMAK  407 (869)
Q Consensus       365 ~~~~~~~~~~L~~L~l~~~~~L~~l~~---~~~~~l~~L~~L~l~~  407 (869)
                         ....+|+|++|.+-+.+ ++.-..   .....+|+|+.|+...
T Consensus       108 ---pLa~~p~L~~Ltll~Np-v~~k~~YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  108 ---PLASCPKLEYLTLLGNP-VEHKKNYRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             ---hhccCCccceeeecCCc-hhcccCceeEEEEecCcceEeehhh
Confidence               34577888888887776 222111   1123456666666544

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

Probab=94.40  E-value=0.011  Score=65.74  Aligned_cols=33  Identities=18%  Similarity=0.111  Sum_probs=18.5

Q ss_pred             ccEEEcCccccccccccCCCCCcccccCCccEEEEeccc
Q 040040          687 IKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECA  725 (869)
Q Consensus       687 L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~  725 (869)
                      |+++++.+.+--+  ++    ..+..+..++.|++.++.
T Consensus       234 L~~l~l~~n~i~~--~~----~~~~~~~~l~~l~~~~n~  266 (414)
T KOG0531|consen  234 LRELYLSGNRISR--SP----EGLENLKNLPVLDLSSNR  266 (414)
T ss_pred             HHHHhcccCcccc--cc----ccccccccccccchhhcc
Confidence            6666666532211  10    335567777777777775

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

Probab=94.35  E-value=0.0094  Score=60.82  Aligned_cols=40  Identities=13%  Similarity=0.210  Sum_probs=24.3

Q ss_pred             ccCCCCEEEecCCCCC-cccCCh-hhhcCCCCCcEEEEeecC
Q 040040          198 SFLRLRNLKVESCEKL-THIFSF-SISRGLPQLQTIKVTACK  237 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l-~~l~~~-~~~~~L~~L~~L~l~~c~  237 (869)
                      ..++|++|+|+++--= +.++.+ ..++++..|++|.+.+|.
T Consensus        90 ~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~G  131 (382)
T KOG1909|consen   90 GCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCG  131 (382)
T ss_pred             cCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCC
Confidence            4567888888776411 111111 245667888888888876

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

Probab=94.14  E-value=0.09  Score=49.70  Aligned_cols=95  Identities=20%  Similarity=0.175  Sum_probs=56.1

Q ss_pred             ccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecccccccccc
Q 040040          279 FCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVF  358 (869)
Q Consensus       279 ~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~  358 (869)
                      +..+..++.|.+|.+.+|.|..|...-    ...+++|+.|.+.+ +++..+....-+..+|.|++|.+-+.+ +++-..
T Consensus        57 l~~lp~l~rL~tLll~nNrIt~I~p~L----~~~~p~l~~L~Ltn-Nsi~~l~dl~pLa~~p~L~~Ltll~Np-v~~k~~  130 (233)
T KOG1644|consen   57 LDNLPHLPRLHTLLLNNNRITRIDPDL----DTFLPNLKTLILTN-NSIQELGDLDPLASCPKLEYLTLLGNP-VEHKKN  130 (233)
T ss_pred             cccCCCccccceEEecCCcceeeccch----hhhccccceEEecC-cchhhhhhcchhccCCccceeeecCCc-hhcccC
Confidence            333445677888888888766654332    22367788888877 333333222335677888888887742 322111


Q ss_pred             ccccccccccccccCccceeecccCc
Q 040040          359 PEEMIEEERKDIVFPQLNFLKMKDLA  384 (869)
Q Consensus       359 ~~~~~~~~~~~~~~~~L~~L~l~~~~  384 (869)
                      -...     -+..+|+|+.|++.+..
T Consensus       131 YR~y-----vl~klp~l~~LDF~kVt  151 (233)
T KOG1644|consen  131 YRLY-----VLYKLPSLRTLDFQKVT  151 (233)
T ss_pred             ceeE-----EEEecCcceEeehhhhh
Confidence            0000     14578889999887654

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

Probab=92.49  E-value=0.031  Score=62.12  Aligned_cols=57  Identities=25%  Similarity=0.318  Sum_probs=25.6

Q ss_pred             CCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEee
Q 040040          171 AFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTA  235 (869)
Q Consensus       171 ~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~  235 (869)
                      .+.+|+.|++.+. +++++...   ...+++|++|+++++ +++++   ..+..++.|+.|++.+
T Consensus        93 ~~~~l~~l~l~~n-~i~~i~~~---l~~~~~L~~L~ls~N-~I~~i---~~l~~l~~L~~L~l~~  149 (414)
T KOG0531|consen   93 KLKSLEALDLYDN-KIEKIENL---LSSLVNLQVLDLSFN-KITKL---EGLSTLTLLKELNLSG  149 (414)
T ss_pred             cccceeeeecccc-chhhcccc---hhhhhcchheecccc-ccccc---cchhhccchhhheecc
Confidence            4445555555544 33333221   224555555555554 24443   2334444455555544

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.09  E-value=0.013  Score=57.74  Aligned_cols=94  Identities=17%  Similarity=0.211  Sum_probs=54.2

Q ss_pred             ccccceeeeecccceeeeccc-cccceEEEeecCCCccchHHHHHhccccceEEEE---EEecc-----cccccccEEEc
Q 040040          622 FPNLEELTLSKYIFTTWRQAQ-FHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLK---VEEHA-----EGIAQIKSLKL  692 (869)
Q Consensus       622 ~~~L~~L~l~~~~~~~~~~~~-~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~---~~~~~-----~~~~~L~~L~l  692 (869)
                      +.+.+.|+.++|.+..|.... ++.|+.|.|+-|....+-  -++.|++|++|+++   ++...     .++++|+.|+|
T Consensus        18 l~~vkKLNcwg~~L~DIsic~kMp~lEVLsLSvNkIssL~--pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL   95 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDISICEKMPLLEVLSLSVNKISSLA--PLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWL   95 (388)
T ss_pred             HHHhhhhcccCCCccHHHHHHhcccceeEEeeccccccch--hHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhh
Confidence            345566666666666655543 666666666444433322  26777777777776   33222     23778888888


Q ss_pred             CccccccccccCCCCC----cccccCCccEEEE
Q 040040          693 NKLWFIKEHLWNPDSK----LDSFLQNLEFLEV  721 (869)
Q Consensus       693 ~~~~~L~~~l~~~~~~----~~~~l~~L~~L~l  721 (869)
                      ..+|...    ..++.    .+..||||+.||=
T Consensus        96 ~ENPCc~----~ag~nYR~~VLR~LPnLkKLDn  124 (388)
T KOG2123|consen   96 DENPCCG----EAGQNYRRKVLRVLPNLKKLDN  124 (388)
T ss_pred             ccCCccc----ccchhHHHHHHHHcccchhccC
Confidence            8766544    11111    2456788877763

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=92.00  E-value=0.095  Score=51.73  Aligned_cols=85  Identities=21%  Similarity=0.306  Sum_probs=43.7

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccc--ccccccccccccccccCCCCEEEecCCCCCcccCChh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNL--MNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFS  220 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~--~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~  220 (869)
                      +..|..|.+.++ ++..+-.      +..+|+|++|.++++  .-..++.   .....+++|++|+++++. ++.+-...
T Consensus        42 ~~~le~ls~~n~-gltt~~~------~P~Lp~LkkL~lsdn~~~~~~~l~---vl~e~~P~l~~l~ls~Nk-i~~lstl~  110 (260)
T KOG2739|consen   42 FVELELLSVINV-GLTTLTN------FPKLPKLKKLELSDNYRRVSGGLE---VLAEKAPNLKVLNLSGNK-IKDLSTLR  110 (260)
T ss_pred             ccchhhhhhhcc-ceeeccc------CCCcchhhhhcccCCcccccccce---ehhhhCCceeEEeecCCc-cccccccc
Confidence            445555555554 3333321      135566777777665  1111111   112345777777777763 44333333


Q ss_pred             hhcCCCCCcEEEEeecCC
Q 040040          221 ISRGLPQLQTIKVTACKN  238 (869)
Q Consensus       221 ~~~~L~~L~~L~l~~c~~  238 (869)
                      .+..+.+|..|++.+|..
T Consensus       111 pl~~l~nL~~Ldl~n~~~  128 (260)
T KOG2739|consen  111 PLKELENLKSLDLFNCSV  128 (260)
T ss_pred             hhhhhcchhhhhcccCCc
Confidence            455666677777776654

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=91.85  E-value=0.1  Score=51.48  Aligned_cols=66  Identities=24%  Similarity=0.365  Sum_probs=30.3

Q ss_pred             ccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccc
Q 040040          283 VAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCM  351 (869)
Q Consensus       283 ~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  351 (869)
                      ..+|+|++|.++.|....  ...++.....+++|++|++++ ++++.+-....+..+.+|..|++.+|.
T Consensus        62 P~Lp~LkkL~lsdn~~~~--~~~l~vl~e~~P~l~~l~ls~-Nki~~lstl~pl~~l~nL~~Ldl~n~~  127 (260)
T KOG2739|consen   62 PKLPKLKKLELSDNYRRV--SGGLEVLAEKAPNLKVLNLSG-NKIKDLSTLRPLKELENLKSLDLFNCS  127 (260)
T ss_pred             CCcchhhhhcccCCcccc--cccceehhhhCCceeEEeecC-CccccccccchhhhhcchhhhhcccCC
Confidence            345666666666663111  111222223346666666665 233322111224455555666666553

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.72  E-value=0.034  Score=52.52  Aligned_cols=43  Identities=16%  Similarity=0.289  Sum_probs=18.7

Q ss_pred             cCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccc
Q 040040          313 IQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEG  355 (869)
Q Consensus       313 l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~  355 (869)
                      ++.++.|.+.+|..+.+..-...-+-.++|+.|+|++|+.+++
T Consensus       124 l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~  166 (221)
T KOG3864|consen  124 LRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITD  166 (221)
T ss_pred             cchhhhheeccccchhhHHHHHhcccccchheeeccCCCeech
Confidence            4445555555555444321111112234555555555555543

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.58  E-value=0.044  Score=51.76  Aligned_cols=66  Identities=18%  Similarity=0.267  Sum_probs=45.0

Q ss_pred             CCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecC
Q 040040          170 DAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       170 ~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  237 (869)
                      ..++.++.|.+.+|..+.+++.+.+.. -.++|+.|+|++|+.+++- ....+..+++|+.|.+.+.+
T Consensus       122 ~~l~~i~~l~l~~ck~~dD~~L~~l~~-~~~~L~~L~lsgC~rIT~~-GL~~L~~lknLr~L~l~~l~  187 (221)
T KOG3864|consen  122 RDLRSIKSLSLANCKYFDDWCLERLGG-LAPSLQDLDLSGCPRITDG-GLACLLKLKNLRRLHLYDLP  187 (221)
T ss_pred             hccchhhhheeccccchhhHHHHHhcc-cccchheeeccCCCeechh-HHHHHHHhhhhHHHHhcCch
Confidence            466777888888888777776654432 5778888888888877764 22345666677777666543

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

Probab=90.57  E-value=0.057  Score=55.30  Aligned_cols=40  Identities=20%  Similarity=0.258  Sum_probs=18.7

Q ss_pred             ccccceEeecCCCCCceecCCCCC--CCCCCCceeeecc-ccC
Q 040040          564 FPSLTFLKLRDLPYLTTFYSGMHT--LECPERANLIFQL-KNP  603 (869)
Q Consensus       564 ~~~L~~L~l~~~~~l~~~~~~~~~--~~~~~L~~L~l~~-~l~  603 (869)
                      +|.|++++|+++..=....++...  ..|..|++|.+.+ .+.
T Consensus        91 ~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg  133 (382)
T KOG1909|consen   91 CPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLG  133 (382)
T ss_pred             CCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCC
Confidence            457777777765321111111000  0246666666666 444

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=89.51  E-value=0.21  Score=26.81  Aligned_cols=17  Identities=35%  Similarity=0.425  Sum_probs=9.0

Q ss_pred             CCccEEEEecccchhhccc
Q 040040          714 QNLEFLEVKECALSLISLR  732 (869)
Q Consensus       714 ~~L~~L~l~~c~~~l~~l~  732 (869)
                      ++|+.|++++|.  +.++|
T Consensus         1 ~~L~~L~l~~n~--L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNR--LTSLP   17 (17)
T ss_dssp             TT-SEEEETSS----SSE-
T ss_pred             CccCEEECCCCC--CCCCc
Confidence            467777888775  55543

...

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

Probab=87.15  E-value=0.047  Score=48.07  Aligned_cols=60  Identities=12%  Similarity=0.166  Sum_probs=32.8

Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCC
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSL  273 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~  273 (869)
                      .-.+|+..+|+++. +++.|+ ......+.+++|++.+. .+.++|             .++..++.|+.|+++..
T Consensus        51 ~~~el~~i~ls~N~-fk~fp~-kft~kf~t~t~lNl~~n-eisdvP-------------eE~Aam~aLr~lNl~~N  110 (177)
T KOG4579|consen   51 KGYELTKISLSDNG-FKKFPK-KFTIKFPTATTLNLANN-EISDVP-------------EELAAMPALRSLNLRFN  110 (177)
T ss_pred             CCceEEEEecccch-hhhCCH-HHhhccchhhhhhcchh-hhhhch-------------HHHhhhHHhhhcccccC
Confidence            44556666666663 555543 33444556666666653 355555             34445566666666553

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=87.00  E-value=0.36  Score=27.94  Aligned_cols=18  Identities=39%  Similarity=0.338  Sum_probs=11.5

Q ss_pred             ccceeeeecccceeeecc
Q 040040          624 NLEELTLSKYIFTTWRQA  641 (869)
Q Consensus       624 ~L~~L~l~~~~~~~~~~~  641 (869)
                      +|++|++++|.++.+++.
T Consensus         1 ~L~~Ldls~n~l~~ip~~   18 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSS   18 (22)
T ss_dssp             TESEEEETSSEESEEGTT
T ss_pred             CccEEECCCCcCEeCChh
Confidence            467777777776654433

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.82  E-value=0.035  Score=54.88  Aligned_cols=14  Identities=21%  Similarity=0.323  Sum_probs=6.6

Q ss_pred             ccCccceeecccCc
Q 040040          371 VFPQLNFLKMKDLA  384 (869)
Q Consensus       371 ~~~~L~~L~l~~~~  384 (869)
                      .+|+|+.|.|..+|
T Consensus        86 nlpsLr~LWL~ENP   99 (388)
T KOG2123|consen   86 NLPSLRTLWLDENP   99 (388)
T ss_pred             cCchhhhHhhccCC
Confidence            44455555544443

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=81.84  E-value=6.5  Score=35.04  Aligned_cols=33  Identities=18%  Similarity=0.342  Sum_probs=14.5

Q ss_pred             cCCceEEEEecCCCCccccChhhHhccCCccEEEEe
Q 040040          313 IQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIR  348 (869)
Q Consensus       313 l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~  348 (869)
                      +++++.+.+.+  .+..+ +...+..+++|+.+.+.
T Consensus        57 ~~~l~~i~~~~--~~~~i-~~~~F~~~~~l~~i~~~   89 (129)
T PF13306_consen   57 CKSLESITFPN--NLKSI-GDNAFSNCTNLKNIDIP   89 (129)
T ss_dssp             -TT-EEEEETS--TT-EE--TTTTTT-TTECEEEET
T ss_pred             ccccccccccc--ccccc-ccccccccccccccccC
Confidence            44566666643  33332 23344556666666663

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

Probab=80.22  E-value=0.34  Score=42.89  Aligned_cols=74  Identities=15%  Similarity=0.113  Sum_probs=46.5

Q ss_pred             CCCceeeecc-ccCccccccceeeEeeecceeccccceeeeecccceeeeccc--cccceEEEeecCCCccchHHHHHhc
Q 040040          591 PERANLIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQ--FHKLKILHFISDGSDFFQVGLLQNI  667 (869)
Q Consensus       591 ~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~--~~~L~~L~l~~~~~~~~p~~~l~~l  667 (869)
                      ..|+.+++++ .++.||.....         .+|..+.|++++|.+..++.+.  ++.|+.|++..|.....|.-++. +
T Consensus        53 ~el~~i~ls~N~fk~fp~kft~---------kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~-L  122 (177)
T KOG4579|consen   53 YELTKISLSDNGFKKFPKKFTI---------KFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNPLNAEPRVIAP-L  122 (177)
T ss_pred             ceEEEEecccchhhhCCHHHhh---------ccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCccccchHHHHH-H
Confidence            4566667777 67766654311         3567778888888877766543  67777777766666666655443 5


Q ss_pred             cccceEE
Q 040040          668 HNLEKLV  674 (869)
Q Consensus       668 ~~L~~L~  674 (869)
                      .+|-.|+
T Consensus       123 ~~l~~Ld  129 (177)
T KOG4579|consen  123 IKLDMLD  129 (177)
T ss_pred             HhHHHhc
Confidence            5554444

---

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	869
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-14
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-12
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-07
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	7e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-06
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	5e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	5e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-05
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	8e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	8e-05
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	1e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-04
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	1e-04
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	4e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	5e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	5e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	5e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 74.9 bits (183), Expect = 8e-14
 Identities = 73/504 (14%), Positives = 144/504 (28%), Gaps = 162/504 (32%)

Query: 8   TITRALKNKSVPEWENVLQELQRPS-------MKNFQG--VL-KEACSTIELHYKYLKGE 57
            ++R    +   +    L EL RP+       +    G   +  + C + ++  K     
Sbjct: 130 NVSRL---QPYLKLRQALLEL-RPAKNVLIDGVLGS-GKTWVALDVCLSYKVQCKMDFK- 183

Query: 58  KLKKIFLLC--SCHDPTQT-------CHDIRDSACPLKRCLDKPQEKTNDISLKL----- 103
               IF L   +C+ P           + I  +           + + + I  +L     
Sbjct: 184 ----IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239

Query: 104 -----NASICLKD-------KFF---------TQLKGLEELWLDEVQGVENVVYELD--R 140
                N  + L +         F         T+ K +     D +         LD   
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQV----TDFLSAATTTHISLDHHS 295

Query: 141 EGFP---SLKLLHIQNNPYLLCINDSTELVPRDA---FPLLESLSLSNLMNLEKISCSQL 194
                     LL       L  ++   + +PR+     P   S+             ++ 
Sbjct: 296 MTLTPDEVKSLL-------LKYLDCRPQDLPREVLTTNPRRLSI------------IAES 336

Query: 195 RAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNT 254
             +      N K  +C+KLT I   S++     L+  +     +   +F        +  
Sbjct: 337 IRDGLATWDNWKHVNCDKLTTIIESSLN----VLEPAEYRKMFDRLSVF----PPSAHIP 388

Query: 255 EVI------DKIEFSQ---LRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQ 305
            ++      D I+      + KL   SL + +   S ++ P++       + +E   H  
Sbjct: 389 TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS 448

Query: 306 LPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEE---- 361
           +                                   + H  I K  D + ++ P      
Sbjct: 449 I-----------------------------------VDHYNIPKTFDSDDLIPPYLDQYF 473

Query: 362 ---------MIEEERKDIVFPQ----LNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKC 408
                     IE   +  +F        FL+ K +   +   + +   L +L+QL+    
Sbjct: 474 YSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK-IRHDSTAWNASGSILNTLQQLKF--- 529

Query: 409 PELKAFILQNINT-DMTVVGIQSF 431
              K +I  N    +  V  I  F
Sbjct: 530 --YKPYICDNDPKYERLVNAILDF 551

>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 = 69.1 bits (168), Expect = 5e-12
 Identities = 77/534 (14%), Positives = 144/534 (26%), Gaps = 170/534 (31%)

Query: 359 PEEMIEEERKDI-----VFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLR--------- 404
              M  E+R  +     VF + N  +++   KL +          +L +LR         
Sbjct: 108 MTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ----------ALLELRPAKNVLIDG 157

Query: 405 MAKCPE--LKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFAR 462
           +    +  +   +  +         +Q   + K F     + +  C S     P  +   
Sbjct: 158 VLGSGKTWVALDVCLSY-------KVQCKMDFKIF----WLNLKNCNS-----PETVLEM 201

Query: 463 FLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLREL-----HVFCLPKLTKIWNKD 517
             KL   I     S  +  +  +L          + LR L     +  CL  L  + N  
Sbjct: 202 LQKLLYQIDPNWTSRSDHSSNIKLRIHS----IQAELRRLLKSKPYENCLLVLLNVQNAK 257

Query: 518 PRGKLIFPNLVLVRIFE--CQ-----RLKSIF-----PTSVEIVANDVRG--NDAATKFI 563
                          F   C+     R K +       T+  I  +           K +
Sbjct: 258 -----------AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL 306

Query: 564 FPSLTFLKLRDLPYLTT----FYSGMHTLECPERANLIFQLKNPSFGSKSLVMLLCLIGQ 619
                  + +DLP            +      +        K+ +    + ++   L   
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVL 366

Query: 620 Q------------VFP---NLEELTLSKYIFTTWRQ----------AQFHKLKILHFISD 654
           +            VFP   ++  + LS      W             + HK  ++     
Sbjct: 367 EPAEYRKMFDRLSVFPPSAHIPTILLSLI----WFDVIKSDVMVVVNKLHKYSLV--EKQ 420

Query: 655 GSDFFQVGLLQNIHNLE-KLVLKVEE----HAEGIAQ---IKSLKLNKL----------W 696
             +        +I ++  +L +K+E     H   +      K+   + L           
Sbjct: 421 PKES-----TISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYS 475

Query: 697 FIKEHLWN--PDSKLDSF---LQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESSGSI 751
            I  HL N     ++  F     +  FLE K            I      W    +SGSI
Sbjct: 476 HIGHHLKNIEHPERMTLFRMVFLDFRFLEQK------------IRHDSTAW---NASGSI 520

Query: 752 TSFCSGNYAISFPSLEVLIVENCPK-----------LNTFSAGVLKTPRLRAVQ 794
                 N        +  I +N PK           L      ++ +     ++
Sbjct: 521 L-----NTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLR 569

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 53.0 bits (127), Expect = 3e-07
 Identities = 59/371 (15%), Positives = 127/371 (34%), Gaps = 58/371 (15%)

Query: 143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLR------- 195
           FP ++ + ++  P+    N   +      +P +E++S S+   LE+I   ++        
Sbjct: 65  FPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMS-SSYTWLEEIRLKRMVVTDDCLE 123

Query: 196 --AESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINN 253
             A+SF   + L + SCE  +     +I+     L+ + +       V            
Sbjct: 124 LIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTY 183

Query: 254 TEVIDKIEFSQLR-KLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSC 312
           T  +  +  S L  +++  +L +L + C     PNL++LKL+   +  +   +L  +   
Sbjct: 184 TS-LVSLNISCLASEVSFSALERLVTRC-----PNLKSLKLN--RAVPLE--KLATLLQR 233

Query: 313 IQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVF 372
              L  L   G          S +     L   +  +C+       P  +        V+
Sbjct: 234 APQLEELGTGGYTAEVRPDVYSGLSVA--LSGCKELRCLSGFWDAVPAYLPA------VY 285

Query: 373 PQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFF 432
              + L   +L     + +    +L  L    + +CP+L+   + +   D  +  + S  
Sbjct: 286 SVCSRLTTLNL----SYATVQSYDLVKL----LCQCPKLQRLWVLDYIEDAGLEVLAS-- 335

Query: 433 NEKSFCKLKLMEVIFCKSLWTIFPHN--------MFARFLKLQSLIVGACG----SLEEI 480
              +   L+ + V   +                 +     KL+S++         +L  I
Sbjct: 336 ---TCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMTNAALITI 392

Query: 481 F----NLQELN 487
                N+    
Sbjct: 393 ARNRPNMTRFR 403

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 51.9 bits (124), Expect = 7e-07
 Identities = 53/355 (14%), Positives = 108/355 (30%), Gaps = 60/355 (16%)

Query: 143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCS---------- 192
           FP+L+ L ++  P     N   E       P +  +S +NL  L+ +             
Sbjct: 72  FPNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEIS-NNLRQLKSVHFRRMIVSDLDLD 130

Query: 193 QLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDIN 252
           +L       L  LK++ C   T     SI     +++T+                   + 
Sbjct: 131 RLAKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTL------------------LME 172

Query: 253 NTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSC 312
            +   +            K L +L          +LE L         I    L  ++  
Sbjct: 173 ESSFSE---------KDGKWLHELAQHN-----TSLEVLNFYMTEFAKISPKDLETIARN 218

Query: 313 IQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVF 372
            ++L  + V     L+ +      ++   L+        +  G+      +   RK +  
Sbjct: 219 CRSLVSVKVGDFEILELV---GFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRK-LCR 274

Query: 373 PQLNFLKMKDLAKLTRFCSG-------NCIELPSLKQLRMAKCPELKAFILQNINTDMTV 425
             L+++   ++  L  F +          +         + KCP L+    +N+  D  +
Sbjct: 275 LGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGL 334

Query: 426 VGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEI 480
             +      +   +LK + +        +           L +L  G C  LE +
Sbjct: 335 EVLA-----QYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQG-CQELEYM 383

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 50.3 bits (120), Expect = 3e-06
 Identities = 37/252 (14%), Positives = 75/252 (29%), Gaps = 30/252 (11%)

Query: 114 FTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFP 173
             QL  L+ L         +      R          +             ++   D   
Sbjct: 343 IGQLTELKVLSFGT-----HSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFL-DYDQ 396

Query: 174 LLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKV 233
            L    L             ++ +S + L++ ++ +        S +I R L +LQ I  
Sbjct: 397 RLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAIQR-LTKLQIIYF 455

Query: 234 TACKNMKVIFEVGRED---DINNTEVIDKIEFSQLRKLT---------LKSLPQLRSFCS 281
                      V  ED   D       +++ +S L+ LT         +  LP       
Sbjct: 456 ANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPD--FLYD 513

Query: 282 VVAFPNLETL-----KLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLV 336
           +   P L++L     +  +         +L         +    +   NNL+   +++ +
Sbjct: 514 L---PELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGY-NNLEEFPASASL 569

Query: 337 RSFVQLQHLEIR 348
           +  V+L  L+  
Sbjct: 570 QKMVKLGLLDCV 581

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 49.3 bits (118), Expect = 5e-06
 Identities = 46/269 (17%), Positives = 84/269 (31%), Gaps = 30/269 (11%)

Query: 93  QEKTNDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQ 152
                 + L LN    ++   F +++ L +L L            + +     L  L + 
Sbjct: 176 PLLNLSLDLSLNPMNFIQPGAFKEIR-LHKLTLRNNF----DSLNVMKTCIQGLAGLEVH 230

Query: 153 NNPYLLCINDST-ELVPRDAFPLLESLSLSNLMNLEKISCSQLR-AESFLRLRNLKVESC 210
                   N+   E   + A   L +L++     L  +        + F  L N+   S 
Sbjct: 231 RLVLGEFRNEGNLEKFDKSALEGLCNLTIEEF-RLAYLDYYLDDIIDLFNCLTNVSSFSL 289

Query: 211 E--KLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKL 268
               +  +  FS + G   L+ +     +   +  +  +     + +  +      L  L
Sbjct: 290 VSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSL 349

Query: 269 TL-------KSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQ---NLTR 318
                     S     S  S     +L+ L LS         N +  MSS       L  
Sbjct: 350 EFLDLSRNGLSFKGCCS-QSDFGTTSLKYLDLS--------FNGVITMSSNFLGLEQLEH 400

Query: 319 LIVHGCNNLKFLFSTSLVRSFVQLQHLEI 347
           L     +NLK +   S+  S   L +L+I
Sbjct: 401 LDFQH-SNLKQMSEFSVFLSLRNLIYLDI 428

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 47.4 bits (113), Expect = 1e-05
 Identities = 48/310 (15%), Positives = 98/310 (31%), Gaps = 68/310 (21%)

Query: 114 FTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFP 173
            T L  L  L  D      N + +LD    P L  L+   N                   
Sbjct: 102 VTPLTKLTYLNCDT-----NKLTKLDVSQNPLLTYLNCARNT------------------ 138

Query: 174 LLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKV 233
            L  + +S+   L ++ C   +  + L +           T + +   S    ++  + V
Sbjct: 139 -LTEIDVSHNTQLTELDCHLNKKITKLDVTP--------QTQLTTLDCSFN--KITELDV 187

Query: 234 TACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLP--QLRSFCSVVAFPNLETL 291
           +  K +  +       + +    I K++ +Q  +LT       +L     V     L   
Sbjct: 188 SQNKLLNRL-------NCDTNN-ITKLDLNQNIQLTFLDCSSNKLTEI-DVTPLTQLTYF 238

Query: 292 KLSAINSETIWHNQLPAMSS--CIQN-LTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIR 348
             S      +  + L  +++  CIQ  L  + +     L +  +        +++ L++ 
Sbjct: 239 DCSVNPLTELDVSTLSKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGC----RKIKELDVT 294

Query: 349 KCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKC 408
               L  +      I E         L+  +   L  L  + +        L +L ++  
Sbjct: 295 HNTQLYLLDCQAAGITE---------LDLSQNPKLVYL--YLNNT-----ELTELDVSHN 338

Query: 409 PELKAFILQN 418
            +LK+    N
Sbjct: 339 TKLKSLSCVN 348

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 44.7 bits (106), Expect = 1e-04
 Identities = 29/222 (13%), Positives = 54/222 (24%), Gaps = 64/222 (28%)

Query: 114 FTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFP 173
            T L  L            N + ELD      L  LH                       
Sbjct: 229 VTPLTQLTYFDCSV-----NPLTELDVSTLSKLTTLHCIQTD------------------ 265

Query: 174 LLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKV 233
            L  + L++   L        R    L + +         T ++          +  + +
Sbjct: 266 -LLEIDLTHNTQLIYFQAEGCRKIKELDVTH--------NTQLYLLDCQAA--GITELDL 314

Query: 234 TACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLT--------LKSLPQLRSFCSVVAF 285
           +    +  +        +NNTE + +++ S   KL         ++    +         
Sbjct: 315 SQNPKLVYL-------YLNNTE-LTELDVSHNTKLKSLSCVNAHIQDFSSVGK------I 360

Query: 286 PNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNL 327
           P L     +          Q   M         L +    +L
Sbjct: 361 PALNNNFEA--------EGQTITMPKETLTNNSLTIAVSPDL 394

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 42.4 bits (100), Expect = 5e-04
 Identities = 54/322 (16%), Positives = 94/322 (29%), Gaps = 88/322 (27%)

Query: 114 FTQLKGLEELWLDEVQGVENVVYELDR-EGFPSLKLLHIQNNPYLLCINDSTELVPRDAF 172
             QL  L  L         + + ++   E    L  L   +N                  
Sbjct: 38  EEQLATLTSLDCHN-----SSITDMTGIEKLTGLTKLICTSN------------------ 74

Query: 173 PLLESLSLSNLMNLEKISCS--QLRAESFLRLRNLKVESCE--KLTHIFSFSISRGLP-- 226
             + +L LS   NL  ++C   +L       L  L   +C+  KLT +   S +  L   
Sbjct: 75  -NITTLDLSQNTNLTYLACDSNKLTNLDVTPLTKLTYLNCDTNKLTKL-DVSQNPLLTYL 132

Query: 227 -----QLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLP--QLRSF 279
                 L  I V+    +  +       D +  + I K++ +   +LT       ++   
Sbjct: 133 NCARNTLTEIDVSHNTQLTEL-------DCHLNKKITKLDVTPQTQLTTLDCSFNKITEL 185

Query: 280 CSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSF 339
             V     L  L            N           +T+L ++    L FL       S 
Sbjct: 186 -DVSQNKLLNRLNCD--------TNN----------ITKLDLNQNIQLTFL---DC--SS 221

Query: 340 VQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTR-FCSGNCIELP 398
            +L  +++     L               D     L  L +  L+KLT   C        
Sbjct: 222 NKLTEIDVTPLTQLTYF------------DCSVNPLTELDVSTLSKLTTLHCIQT----- 264

Query: 399 SLKQLRMAKCPELKAFILQNIN 420
            L ++ +    +L  F  +   
Sbjct: 265 DLLEIDLTHNTQLIYFQAEGCR 286

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 47.1 bits (112), Expect = 2e-05
 Identities = 66/421 (15%), Positives = 133/421 (31%), Gaps = 69/421 (16%)

Query: 106 SICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTE 165
              LKD +F  LK L  L L + Q + ++          SLK +   +N           
Sbjct: 111 DAVLKDGYFRNLKALTRLDLSKNQ-IRSLYLHPSFGKLNSLKSIDFSSNQI--------F 161

Query: 166 LVPRDAFPLLESLSLSNL--------MNLEKISCSQLRAESFLRLRNLKVESCEKLTHIF 217
           LV       L+  +LS            +       +     + L  L V      T   
Sbjct: 162 LVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGN-GWTVDI 220

Query: 218 SFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSL---- 273
           + + S  + + Q   +    ++            +N +  D+  F+ L + +++ L    
Sbjct: 221 TGNFSNAISKSQAFSLILAHHIMGAG-----FGFHNIKDPDQNTFAGLARSSVRHLDLSH 275

Query: 274 PQLRSFCSVV--AFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLF 331
             + S  S V     +L+ L L+      I       +     NL  L +   N L  L+
Sbjct: 276 GFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLD----NLQVLNLSY-NLLGELY 330

Query: 332 STSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCS 391
           S++      ++ +++++K      I   ++          F  L  L+  DL        
Sbjct: 331 SSNF-YGLPKVAYIDLQKNH----IAIIQD--------QTFKFLEKLQTLDL-------R 370

Query: 392 GNCIE----LPSLKQLRMA--KCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEV 445
            N +     +PS+  + ++  K   L    L      ++   +++        ++  +++
Sbjct: 371 DNALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQI 430

Query: 446 IFCK--SLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELH 503
           +        +       +    L+ L +G          LQ     E        L  L 
Sbjct: 431 LILNQNRFSSCSGDQTPSENPSLEQLFLGEN-------MLQLAWETELCWDVFEGLSHLQ 483

Query: 504 V 504
           V
Sbjct: 484 V 484

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 46.3 bits (110), Expect = 3e-05
 Identities = 36/271 (13%), Positives = 81/271 (29%), Gaps = 61/271 (22%)

Query: 109 LKDKFFTQLKGLEELWLDEVQGVENVVYELDREGF---PSLKLLHIQNNP---------- 155
           + +    +   L+ L L       N +  ++ + F    SL+ L +  N           
Sbjct: 67  ISNSDLQRCVNLQALVLT-----SNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFK 121

Query: 156 ------YL-LCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKV- 207
                 +L L  N    L     F  L  L +  + N++    ++++ + F  L  L+  
Sbjct: 122 PLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTF--TKIQRKDFAGLTFLEEL 179

Query: 208 --ESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQL 265
             ++   L      S+   +  +  + +                 +    ++ +I     
Sbjct: 180 EIDAS-DLQSYEPKSLK-SIQNVSHLIL----------------HMKQHILLLEIFVDVT 221

Query: 266 RKLTLKSL-------PQLRSFCSVV--AFPNLETLKLSAINSETIWHNQLPAMSSCIQNL 316
             +    L              +    +     T +   I  E++   Q+  + + I  L
Sbjct: 222 SSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESL--FQVMKLLNQISGL 279

Query: 317 TRLIVHGCNNLKFLFSTSLVRSFVQLQHLEI 347
             L     N LK +    +      LQ + +
Sbjct: 280 LELEFSR-NQLKSV-PDGIFDRLTSLQKIWL 308

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 44.8 bits (106), Expect = 8e-05
 Identities = 29/193 (15%), Positives = 54/193 (27%), Gaps = 40/193 (20%)

Query: 109 LKDKFFTQLKGLEELWLDEVQGVENVVYELDREGF---PSLKLLHIQNNPYLLCINDSTE 165
           +  + F  L  L+ L +         +  L            LL IQ+N  +  I     
Sbjct: 95  INPEAFQNLPNLQYLLISN-----TGIKHLPDVHKIHSLQKVLLDIQDNINIHTI----- 144

Query: 166 LVPRDAF----PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI 221
              R++F         L L+   N   I      A +  +L  L +     L  + +   
Sbjct: 145 --ERNSFVGLSFESVILWLNK--N--GIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVF 198

Query: 222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS 281
             G      + ++                      +       L+KL  +S   L+   +
Sbjct: 199 -HGASGPVILDISR----------------TRIHSLPSYGLENLKKLRARSTYNLKKLPT 241

Query: 282 VVAFPNLETLKLS 294
           +     L    L+
Sbjct: 242 LEKLVALMEASLT 254

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 42.5 bits (100), Expect = 4e-04
 Identities = 48/297 (16%), Positives = 97/297 (32%), Gaps = 63/297 (21%)

Query: 65  LCSCHDPTQTCHDIRDSACPLKRCLDKPQEKTNDISLKLNASICLKDKFFTQLKGLEELW 124
           +C C +    C + + +  P     D P+    ++   L     ++   F+    LE++ 
Sbjct: 6   ICHCSNRVFLCQESKVTEIPS----DLPRN-AIELRFVLTKLRVIQKGAFSGFGDLEKIE 60

Query: 125 LDEVQGVENVVYELDREGF---PSLKLLHIQNNPYLLCINDSTELVPRDAF---PLLESL 178
           + +   +E     ++ + F   P L  + I+    LL I         +AF   P L+ L
Sbjct: 61  ISQNDVLEV----IEADVFSNLPKLHEIRIEKANNLLYI-------NPEAFQNLPNLQYL 109

Query: 179 SLSN--LMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTAC 236
            +SN  + +L  +          L+   L ++    +  I   S      +   + +   
Sbjct: 110 LISNTGIKHLPDVHKIHS-----LQKVLLDIQDNINIHTIERNSFVGLSFESVILWL--- 161

Query: 237 KNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSL--PQLRSFCSVVAF---PNLETL 291
                        + N  + I    F+  +   L       L    +   F        L
Sbjct: 162 -------------NKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPN-DVFHGASGPVIL 207

Query: 292 KLSAINSETIWHNQLPAMSSCI-QNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEI 347
            +S          ++ ++ S   +NL +L      NLK L +   +   V L    +
Sbjct: 208 DIS--------RTRIHSLPSYGLENLKKLRARSTYNLKKLPT---LEKLVALMEASL 253

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 44.5 bits (105), Expect = 8e-05
 Identities = 44/271 (16%), Positives = 88/271 (32%), Gaps = 38/271 (14%)

Query: 162 DSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI 221
               L P     LL    ++       +        S  R++++ + +   +       I
Sbjct: 55  TGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNS-VIEVSTLHGI 113

Query: 222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS 281
                +LQ + +   +    I        +     + ++  S     +  +L  L S C 
Sbjct: 114 LSQCSKLQNLSLEGLRLSDPIVNT-----LAKNSNLVRLNLSGCSGFSEFALQTLLSSC- 167

Query: 282 VVAFPNLETLKLS---AINSETIWHNQLPAMSSCIQNLTRLIVHGCN-NLKFLFSTSLVR 337
                 L+ L LS       + +      A++   + +T+L + G   NL+    ++LVR
Sbjct: 168 ----SRLDELNLSWCFDFTEKHVQV----AVAHVSETITQLNLSGYRKNLQKSDLSTLVR 219

Query: 338 SFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIEL 397
               L HL++   + L              K+  F +        L  L       C ++
Sbjct: 220 RCPNLVHLDLSDSVML--------------KNDCFQEF-----FQLNYLQHLSLSRCYDI 260

Query: 398 PSLKQLRMAKCPELKAFILQNINTDMTVVGI 428
                L + + P LK   +  I  D T+  +
Sbjct: 261 IPETLLELGEIPTLKTLQVFGIVPDGTLQLL 291

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 43.7 bits (103), Expect = 1e-04
 Identities = 44/267 (16%), Positives = 88/267 (32%), Gaps = 29/267 (10%)

Query: 97  NDISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPY 156
           +D SL     +  K+        L    +   +   + + +   E F   ++ H+  +  
Sbjct: 44  SDESLWQTLDLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHM--DLS 101

Query: 157 LLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHI 216
              I  ST          L++LSL   + L     + L       L  L +  C   +  
Sbjct: 102 NSVIEVSTLHGILSQCSKLQNLSLEG-LRLSDPIVNTLA--KNSNLVRLNLSGCSGFSEF 158

Query: 217 FSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDI-NNTEVIDKIEFSQLRK-LTLKSLP 274
              ++     +L  + ++ C +     E   +  + + +E I ++  S  RK L    L 
Sbjct: 159 ALQTLLSSCSRLDELNLSWCFD---FTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLS 215

Query: 275 QLRSFCSVVAFPNLETLKLS---AINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLF 331
            L   C     PNL  L LS    + ++                L  L +  C ++    
Sbjct: 216 TLVRRC-----PNLVHLDLSDSVMLKNDCFQE-----FFQL-NYLQHLSLSRCYDII--- 261

Query: 332 STSL--VRSFVQLQHLEIRKCMDLEGI 356
             +L  +     L+ L++   +    +
Sbjct: 262 PETLLELGEIPTLKTLQVFGIVPDGTL 288

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 44.7 bits (106), Expect = 1e-04
 Identities = 39/272 (14%), Positives = 80/272 (29%), Gaps = 57/272 (20%)

Query: 99  ISLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPS-LKLLHIQNNPYL 157
           ++L L+ S  L + F   L  +  L L +          L  +   S +K L  + +   
Sbjct: 177 LTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLT 236

Query: 158 LCINDSTELVPRDAFPL----LESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKL 213
               +    + R    L     +  +L+ L +        +     +    ++      +
Sbjct: 237 DESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLH---I 293

Query: 214 THIFSFSIS----RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLT 269
              + F         L +++ I V                  +   ++       L+ L 
Sbjct: 294 PQFYLFYDLSTVYSLLEKVKRITVE----------------NSKVFLVPCSFSQHLKSLE 337

Query: 270 --------LKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQ------N 315
                   +     L++     A+P+L+TL LS         N L +M    +      N
Sbjct: 338 FLDLSENLMVEEY-LKNSACKGAWPSLQTLVLS--------QNHLRSMQKTGEILLTLKN 388

Query: 316 LTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEI 347
           LT L +   N    +       S    + +  
Sbjct: 389 LTSLDISR-NTFHPMPD-----SCQWPEKMRF 414

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 43.9 bits (104), Expect = 2e-04
 Identities = 30/317 (9%), Positives = 93/317 (29%), Gaps = 46/317 (14%)

Query: 104 NASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGF---PSLKLLHIQNNPYLLCI 160
                ++   F  L  L EL +         +     +       +  L +  +     +
Sbjct: 134 ETFSEIRRIDFAGLTSLNELEIK-----ALSLRNYQSQSLKSIRDIHHLTLHLSE-SAFL 187

Query: 161 NDSTELVPRDAFPLLESLSLSN--LMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFS 218
            +       D    +  L L +  L   +          S ++    +       +    
Sbjct: 188 LEIF----ADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNEL 243

Query: 219 FSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRS 278
             + R + +L  ++   C    +        + +    + K+E   +R+L +        
Sbjct: 244 LKLLRYILELSEVEFDDCTLNGLGD--FNPSESDVVSELGKVETVTIRRLHIPQFYLFYD 301

Query: 279 FCSVVA-FPNLETLKLSAINSETIWHNQLPAMSSCI----QNLTRLIVHGCNNLKFLF-- 331
             +V +    ++ + +         ++++  +        ++L  L +   N +   +  
Sbjct: 302 LSTVYSLLEKVKRITVE--------NSKVFLVPCSFSQHLKSLEFLDLSE-NLMVEEYLK 352

Query: 332 STSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLA--KLTRF 389
           +++   ++  LQ L + +            +   ++   +   L  L   D++       
Sbjct: 353 NSACKGAWPSLQTLVLSQN----------HLRSMQKTGEILLTLKNLTSLDISRNTFHPM 402

Query: 390 CSGNCIELPSLKQLRMA 406
               C     ++ L ++
Sbjct: 403 PDS-CQWPEKMRFLNLS 418

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 43.6 bits (103), Expect = 3e-04
 Identities = 44/291 (15%), Positives = 88/291 (30%), Gaps = 46/291 (15%)

Query: 142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAF---PLLESLSLSNLMNLEKISCSQLRAES 198
              +L++L ++++     IN     +  DAF     LE L LS+  +L  +S        
Sbjct: 48  ACANLQVLILKSS----RINT----IEGDAFYSLGSLEHLDLSD-NHLSSLSS-----SW 93

Query: 199 FLRLRNLKV--ESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGRED------- 249
           F  L +LK           +   S+   L  LQT+++   +    I  +           
Sbjct: 94  FGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNEL 153

Query: 250 --DINNTEVIDKIEFSQLRKLTLKSL--PQLRSFCSVV--AFPNLETLKLSAINSETIWH 303
                +           +R +   +L   +      +      ++  L+L   N      
Sbjct: 154 EIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQF 213

Query: 304 NQLPAMSSCIQ-NLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEM 362
           + LP                   +  F     L+R  ++L  +E   C       F    
Sbjct: 214 SPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSE 273

Query: 363 IEEERKDIVFPQLNFLKMKDLAKL-------TRFCSGNCIELPSLKQLRMA 406
            +      V  +L  ++   + +L           S     L  +K++ + 
Sbjct: 274 SD------VVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVE 318

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 44.2 bits (105), Expect = 1e-04
 Identities = 43/255 (16%), Positives = 79/255 (30%), Gaps = 66/255 (25%)

Query: 109 LKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVP 168
           +    F  L  LE L+L +     N + EL  +   +L+ L +  N     I      V 
Sbjct: 91  ISPGAFAPLVKLERLYLSK-----NQLKELPEKMPKTLQELRVHENE----ITK----VR 137

Query: 169 RDAF---PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKV---ESCEKLTHIFSFSIS 222
           +  F     +  + L    N   +  S +   +F  ++ L          +T      I 
Sbjct: 138 KSVFNGLNQMIVVELGT--N--PLKSSGIENGAFQGMKKLSYIRIADT-NITT-----IP 187

Query: 223 RGLPQ-LQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSL--PQLRSF 279
           +GLP  L  + +                D N    +D      L  L    L    + + 
Sbjct: 188 QGLPPSLTELHL----------------DGNKITKVDAASLKGLNNLAKLGLSFNSISAV 231

Query: 280 CSVVAF---PNLETLKLSAINSETIWHNQL---PAMSSCIQNLTRLIVHGCNNLKFLFST 333
               +    P+L  L L+        +N+L   P   +  + +  + +H  NN+  + S 
Sbjct: 232 -DNGSLANTPHLRELHLN--------NNKLVKVPGGLADHKYIQVVYLHN-NNISAIGSN 281

Query: 334 SL--VRSFVQLQHLE 346
                    +     
Sbjct: 282 DFCPPGYNTKKASYS 296

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 43.7 bits (103), Expect = 1e-04
 Identities = 42/258 (16%), Positives = 80/258 (31%), Gaps = 39/258 (15%)

Query: 100 SLKLNASICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLC 159
           + ++ + I         + GL+EL L+ ++        L     P L +L+++N  +   
Sbjct: 77  AARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATR 136

Query: 160 INDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSF 219
                EL  +   P L+ LS++   +    SC Q+R    L   +L          + S 
Sbjct: 137 DAWLAEL-QQWLKPGLKVLSIAQA-HSLNFSCEQVRVFPALSTLDLSDNPELGERGLISA 194

Query: 220 SISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLT--------LK 271
                 P LQ + +             R   +     +     +   +L         L+
Sbjct: 195 LCPLKFPTLQVLAL-------------RNAGMETPSGVCSALAAARVQLQGLDLSHNSLR 241

Query: 272 SLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCI-QNLTRLIVHGCNNLKFL 330
                 S         L +L LS           L  +   +   L+ L +   N L   
Sbjct: 242 DAAGAPSC---DWPSQLNSLNLS--------FTGLKQVPKGLPAKLSVLDLS-YNRLDRN 289

Query: 331 FSTSLVRSFVQLQHLEIR 348
                     Q+ +L ++
Sbjct: 290 ---PSPDELPQVGNLSLK 304

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 43.1 bits (102), Expect = 3e-04
 Identities = 49/257 (19%), Positives = 92/257 (35%), Gaps = 71/257 (27%)

Query: 109 LKDKFFTQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVP 168
           + +K F+ L+ L++L++ +     N + E+      SL  L I +N     I      VP
Sbjct: 93  IHEKAFSPLRKLQKLYISK-----NHLVEIPPNLPSSLVELRIHDNR----IRK----VP 139

Query: 169 RDAF---PLLESLSLSNLMNLEKISCSQLRAESF--LRLRNLKVESCEKLTHIFSFSISR 223
           +  F     +  + +    N   +  S     +F  L+L  L++    KLT      I +
Sbjct: 140 KGVFSGLRNMNCIEMGG--N--PLENSGFEPGAFDGLKLNYLRISEA-KLT-----GIPK 189

Query: 224 GLPQ-LQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLT--------LKSLP 274
            LP+ L  + +                D N  + I+  +  +  KL         ++ + 
Sbjct: 190 DLPETLNELHL----------------DHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIE 233

Query: 275 QLRSFCSVVAFPNLETLKLSAINSETIWHNQL---PAMSSCIQNLTRLIVHGCNNLKFLF 331
              S   +   P L  L L         +N+L   PA    ++ L  + +H  NN+  + 
Sbjct: 234 N-GSLSFL---PTLRELHLD--------NNKLSRVPAGLPDLKLLQVVYLHT-NNITKVG 280

Query: 332 STSL--VRSFVQLQHLE 346
                 V   V+  +  
Sbjct: 281 VNDFCPVGFGVKRAYYN 297

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 42.8 bits (101), Expect = 3e-04
 Identities = 35/263 (13%), Positives = 76/263 (28%), Gaps = 50/263 (19%)

Query: 106 SICLKDKFFTQLKGLEELWLDEVQGVENVVYELDREGF----PSLKLLHIQNNPYLLCIN 161
              L   FF  L  LE L L      +N + ++    F        +L +  N  +  I 
Sbjct: 117 GAVLSGNFFKPLTSLEMLVLR-----DNNIKKIQPASFFLNMRRFHVLDLTFNK-VKSI- 169

Query: 162 DSTELVPRDAFPLLESLSLSNLMN-------LEKISCSQLRAESFLRLRNLKVE--SCEK 212
                   +     +    + L         + +      +  +  +  ++     S   
Sbjct: 170 ------CEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNG 223

Query: 213 LTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKS 272
                +      +   +   +    +  +    G      N +  D   F  L    +K+
Sbjct: 224 FKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGH----TNFKDPDNFTFKGLEASGVKT 279

Query: 273 LP----QLRSFCSVV--AFPNLETLKLSAINSETIWHNQLPAMSSCI----QNLTRLIVH 322
                 ++ +    V   F +LE L L+         N++  +         +L +L + 
Sbjct: 280 CDLSKSKIFALLKSVFSHFTDLEQLTLA--------QNEINKIDDNAFWGLTHLLKLNLS 331

Query: 323 GCNNLKFLFSTSLVRSFVQLQHL 345
             N L  + S     +  +L+ L
Sbjct: 332 Q-NFLGSIDSRMF-ENLDKLEVL 352

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 42.8 bits (101), Expect = 4e-04
 Identities = 73/383 (19%), Positives = 131/383 (34%), Gaps = 97/383 (25%)

Query: 66  CSCHDPTQT--CHDIRDSACPLKRCLDKPQEKTNDISLKLNASICLKDKFFTQLKGLEEL 123
           C C    +   CH  R  A P     +    +T  + L  N    L    F     LEEL
Sbjct: 7   CECSAQDRAVLCHRKRFVAVP-----EGIPTETRLLDLGKNRIKTLNQDEFASFPHLEEL 61

Query: 124 WLDEVQGVENVVYELDREGF---PSLKLLHIQNNPYLLCINDSTELVPRDAF---PLLES 177
            L+E     N+V  ++   F    +L+ L +++N          +L+P   F     L  
Sbjct: 62  ELNE-----NIVSAVEPGAFNNLFNLRTLGLRSN--------RLKLIPLGVFTGLSNLTK 108

Query: 178 LSLSN-------------LMNLEKISCSQ-----LRAESFLRLRNLKV---ESCEKLTHI 216
           L +S              L NL+ +         +   +F  L +L+    E C  LT I
Sbjct: 109 LDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKC-NLTSI 167

Query: 217 FSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFS---QLRKLTLKSL 273
            + ++S  L  L  +++                   N   I    F    +L+ L +   
Sbjct: 168 PTEALS-HLHGLIVLRL----------------RHLNINAIRDYSFKRLYRLKVLEISHW 210

Query: 274 PQLRSFCSVVAF-PNLETLKLSAINSETIWHNQLPAMSSCI----QNLTRLIVHGCNNLK 328
           P L +      +  NL +L ++        H  L A+          L  L +   N + 
Sbjct: 211 PYLDTMTPNCLYGLNLTSLSIT--------HCNLTAVPYLAVRHLVYLRFLNLSY-NPIS 261

Query: 329 FLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLA--KL 386
            +  + L    ++LQ +++     L  +               F  LN+L++ +++  +L
Sbjct: 262 TIEGSML-HELLRLQEIQLVG-GQLAVV--EPYA---------FRGLNYLRVLNVSGNQL 308

Query: 387 TRFCSGNCIELPSLKQLRMAKCP 409
           T         + +L+ L +   P
Sbjct: 309 TTLEESVFHSVGNLETLILDSNP 331

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 42.4 bits (100), Expect = 5e-04
 Identities = 49/227 (21%), Positives = 75/227 (33%), Gaps = 63/227 (27%)

Query: 114 FTQLKGLEELWLDEVQGVENVVYELDREGF---PSLKLLHIQNNPYLLCINDSTELVPRD 170
           F  L  L  L L      +N +  +    F     L+ L ++NNP    I      +P  
Sbjct: 119 FNGLASLNTLELF-----DNWLTVIPSGAFEYLSKLRELWLRNNP----IES----IPSY 165

Query: 171 AF---PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCE--KLTHIFSFSISRGL 225
           AF   P L  L L  L  LE IS       +F  L NLK  +     +  + +      L
Sbjct: 166 AFNRVPSLMRLDLGELKKLEYIS-----EGAFEGLFNLKYLNLGMCNIKDMPNL---TPL 217

Query: 226 PQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLP--QLRSFCSVV 283
             L+ +++                  N+   I    F  L  L    +   Q+       
Sbjct: 218 VGLEELEM----------------SGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLI-ERN 260

Query: 284 AF---PNLETLKLSAINSETIWHNQLPAMSSCI----QNLTRLIVHG 323
           AF    +L  L L+        HN L ++   +    + L  L +H 
Sbjct: 261 AFDGLASLVELNLA--------HNNLSSLPHDLFTPLRYLVELHLHH 299

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 42.4 bits (100), Expect = 5e-04
 Identities = 57/309 (18%), Positives = 99/309 (32%), Gaps = 86/309 (27%)

Query: 66  CSCHDPTQTCHDIRDSACPLKRCLDKPQ---EKTNDISLKLNASICLKDKFFTQLKGLEE 122
           CSC +            C  +   + PQ     T  ++L  N    ++   F  L  LE 
Sbjct: 50  CSCSNQFSKVV------CTRRGLSEVPQGIPSNTRYLNLMENNIQMIQADTFRHLHHLEV 103

Query: 123 LWLDEVQGVENVVYELDREGF---PSLKLLHIQNNPYLLCINDSTELVPRDAF---PLLE 176
           L L       N + +++   F    SL  L + +N           ++P  AF     L 
Sbjct: 104 LQLG-----RNSIRQIEVGAFNGLASLNTLELFDN--------WLTVIPSGAFEYLSKLR 150

Query: 177 SLSLSNLMNLEKISCSQLRAESFLRLRNLKV---ESCEKLTHI--FSFSISRGLPQLQTI 231
            L L N  N   I    + + +F R+ +L        +KL +I   +F    GL  L+ +
Sbjct: 151 ELWLRN--N--PI--ESIPSYAFNRVPSLMRLDLGELKKLEYISEGAF---EGLFNLKYL 201

Query: 232 KVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLT--------LKSLPQLRSFCSVV 283
            +                 + N + +     + L  L            +    SF    
Sbjct: 202 NL----------------GMCNIKDMP--NLTPLVGLEELEMSGNHFPEIRP-GSF---H 239

Query: 284 AFPNLETLKLSAINSETIWHNQLPAMS----SCIQNLTRLIVHGCNNLKFLFSTSLVRSF 339
              +L+ L +         ++Q+  +       + +L  L +   NNL  L    L    
Sbjct: 240 GLSSLKKLWVM--------NSQVSLIERNAFDGLASLVELNLAH-NNLSSL-PHDLFTPL 289

Query: 340 VQLQHLEIR 348
             L  L + 
Sbjct: 290 RYLVELHLH 298

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 42.7 bits (101), Expect = 5e-04
 Identities = 55/327 (16%), Positives = 99/327 (30%), Gaps = 78/327 (23%)

Query: 109 LKDKFFTQLKGLEELWLDEVQGVENVVYELDREGF---PSLKLLHIQNNPYLLCINDSTE 165
           +        K LE L+L       N +  +          LK+L  QNN     I+    
Sbjct: 120 IDFIPLHNQKTLESLYLG-----SNHISSIKLPKGFPTEKLKVLDFQNNA----IHY--- 167

Query: 166 LVPRDAFPLLESLSLSNL-MNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRG 224
            + ++    L+  +  +L +N   I+  +  A      ++L     + L  IF    +  
Sbjct: 168 -LSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNST 226

Query: 225 LPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSL---------PQ 275
           +  L                     +  + E I    F  L +++++S+           
Sbjct: 227 IQSLWLGTF----------------EDMDDEDISPAVFEGLCEMSVESINLQKHYFFNIS 270

Query: 276 LRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIV----HGCNNLKFLF 331
             +F     F  L+ L L+           L  + S +  L+ L         N  + L 
Sbjct: 271 SNTFHC---FSGLQELDLT--------ATHLSELPSGLVGLSTLKKLVLSA--NKFENLC 317

Query: 332 STSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCS 391
             S   +F  L HL I+       +                  L  L+  DL       S
Sbjct: 318 QISA-SNFPSLTHLSIKGNTKRLELG-----------TGCLENLENLRELDL-------S 358

Query: 392 GNCIELPSLKQLRMAKCPELKAFILQN 418
            + IE      L++     L++  L  
Sbjct: 359 HDDIETSDCCNLQLRNLSHLQSLNLSY 385

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 42.4 bits (100), Expect = 5e-04
 Identities = 58/310 (18%), Positives = 104/310 (33%), Gaps = 88/310 (28%)

Query: 66  CSCHDPTQTCHDIRDSACPLKRCLDKPQ---EKTNDISLKLNASICLKDKFFTQLKGLEE 122
           CSC +            C  K   + P      T  ++L  N    +K   F  L+ LE 
Sbjct: 39  CSCSNQFSKVI------CVRKNLREVPDGISTNTRLLNLHENQIQIIKVNSFKHLRHLEI 92

Query: 123 LWLDEVQGVENVVYELDREGF---PSLKLLHIQNNPYLLCINDSTELVPRDAF---PLLE 176
           L L       N +  ++   F    +L  L + +N            +P  AF     L+
Sbjct: 93  LQLS-----RNHIRTIEIGAFNGLANLNTLELFDN--------RLTTIPNGAFVYLSKLK 139

Query: 177 SLSLSNLMNLEKISCSQLRAESFLRLRNLKV---ESCEKLTHI--FSFSISRGLPQLQTI 231
            L L N  N   I    + + +F R+ +L+       ++L++I   +F    GL  L+ +
Sbjct: 140 ELWLRN--N--PI--ESIPSYAFNRIPSLRRLDLGELKRLSYISEGAF---EGLSNLRYL 190

Query: 232 KVTACKNMKVIFEVGREDDINNTEVIDKI-EFSQLRKLT--------LKSLPQLRSFCSV 282
            +  C                    + +I   + L KL         L ++    SF   
Sbjct: 191 NLAMCN-------------------LREIPNLTPLIKLDELDLSGNHLSAIRP-GSF--- 227

Query: 283 VAFPNLETLKLSAINSETIWHNQLPAMS----SCIQNLTRLIVHGCNNLKFLFSTSLVRS 338
               +L+ L +          +Q+  +       +Q+L  + +   NNL  L    L   
Sbjct: 228 QGLMHLQKLWMI--------QSQIQVIERNAFDNLQSLVEINLAH-NNLTLL-PHDLFTP 277

Query: 339 FVQLQHLEIR 348
              L+ + + 
Sbjct: 278 LHHLERIHLH 287

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	869
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	100.0
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	100.0
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.97
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.97
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.97
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.97
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.96
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.96
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.96
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.95
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.95
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.95
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.94
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.93
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.93
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.93
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.92
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.92
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.92
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.91
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.91
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.9
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.89
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.89
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.89
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.87
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.87
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.87
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.86
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.85
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.84
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.84
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.84
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.83
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.83
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.81
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.81
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.8
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.77
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.77
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.76
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.75
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.74
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.73
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.72
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.71
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.7
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.69
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.68
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.67
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.67
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.63
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.63
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.63
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.62
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.62
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.61
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.59
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.58
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.58
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.57
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.57
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.56
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.55
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.54
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.53
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.53
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.52
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.52
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.51
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.49
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.45
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.43
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.42
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.42
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.42
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.42
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.41
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.4
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.4
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.39
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.37
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.36
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.36
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.33
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.32
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.31
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.3
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.22
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.2
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.18
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.17
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.16
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.14
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.12
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.12
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.1
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.1
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.08
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.04
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.0
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.95
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.95
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	98.92
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.9
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.88
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.88
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.87
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.86
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.86
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.83
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.81
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.8
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.79
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.79
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.79
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.78
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.76
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.73
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.66
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.64
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.64
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.63
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	98.61
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.54
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.47
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.41
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.4
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.39
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.38
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.38
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.35
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.34
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.33
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.29
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.26
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.24
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.1
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.02
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	98.01
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.0
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.98
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.98
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	97.96
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	97.96
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.95
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	97.94
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	97.93
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.65
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.6
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.53
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.49
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.42
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.38
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.37
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.11
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.01
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.73
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.62
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	95.36
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	95.09
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	94.41
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	93.75
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	81.85
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	80.38

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=100.00  E-value=4.8e-35  Score=350.73  Aligned_cols=557  Identities=15%  Similarity=0.044  Sum_probs=363.6

Q ss_pred             CCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccc-cccccccccccCCCCEEEecCCCCCcccCCh
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEK-ISCSQLRAESFLRLRNLKVESCEKLTHIFSF  219 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~-l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~  219 (869)
                      ..+++|++|+++++.--..++..   .....+++|++|+++++ .+.. .+...  .+.+++|++|++++|. ++..++.
T Consensus        97 ~~l~~L~~L~Ls~n~l~~~~~~~---~~l~~l~~L~~L~Ls~n-~l~~~~~~~~--~~~l~~L~~L~Ls~n~-l~~~~~~  169 (768)
T 3rgz_A           97 KCSASLTSLDLSRNSLSGPVTTL---TSLGSCSGLKFLNVSSN-TLDFPGKVSG--GLKLNSLEVLDLSANS-ISGANVV  169 (768)
T ss_dssp             CCCTTCCEEECCSSEEEEEGGGG---GGGGGCTTCCEEECCSS-EEECCSSCCS--CCCCTTCSEEECCSSC-CEEETHH
T ss_pred             ccCCCCCEEECCCCcCCCcCCCh---HHHhCCCCCCEEECcCC-ccCCcCCHHH--hccCCCCCEEECCCCc-cCCcCCh
Confidence            67888899998887332334431   01257888889988887 3332 22210  1478888999998884 6655431


Q ss_pred             h--hhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEecccc
Q 040040          220 S--ISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAIN  297 (869)
Q Consensus       220 ~--~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~  297 (869)
                      .  .++++++|++|++++|.. ....              ....+++|++|+++++.-...++.+..+++|++|++++|.
T Consensus       170 ~~~~~~~l~~L~~L~Ls~n~l-~~~~--------------~~~~l~~L~~L~Ls~n~l~~~~~~l~~l~~L~~L~Ls~n~  234 (768)
T 3rgz_A          170 GWVLSDGCGELKHLAISGNKI-SGDV--------------DVSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNK  234 (768)
T ss_dssp             HHHHTTCCTTCCEEECCSSEE-ESCC--------------BCTTCTTCCEEECCSSCCCSCCCBCTTCCSCCEEECCSSC
T ss_pred             hhhhhccCCCCCEEECCCCcc-cccC--------------CcccCCcCCEEECcCCcCCCCCcccccCCCCCEEECcCCc
Confidence            1  167888899998888752 2211              1245888999999887655556667778889999998887


Q ss_pred             ccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecccccc-cccccccccccccccc-ccCcc
Q 040040          298 SETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLE-GIVFPEEMIEEERKDI-VFPQL  375 (869)
Q Consensus       298 l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~-~i~~~~~~~~~~~~~~-~~~~L  375 (869)
                      +...    .|..++.+++|++|++++|..... .|.   ..+++|++|++++|. +. .++..         .. .+++|
T Consensus       235 l~~~----~~~~l~~l~~L~~L~Ls~n~l~~~-~~~---~~l~~L~~L~L~~n~-l~~~ip~~---------~~~~~~~L  296 (768)
T 3rgz_A          235 LSGD----FSRAISTCTELKLLNISSNQFVGP-IPP---LPLKSLQYLSLAENK-FTGEIPDF---------LSGACDTL  296 (768)
T ss_dssp             CCSC----HHHHTTTCSSCCEEECCSSCCEES-CCC---CCCTTCCEEECCSSE-EEESCCCC---------SCTTCTTC
T ss_pred             CCCc----ccHHHhcCCCCCEEECCCCcccCc-cCc---cccCCCCEEECcCCc-cCCccCHH---------HHhhcCcC
Confidence            5432    344455688899999988754333 232   268889999988864 43 33221         22 34889


Q ss_pred             ceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCccccc
Q 040040          376 NFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIF  455 (869)
Q Consensus       376 ~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~  455 (869)
                      ++|+++++. +..........+++|+.|++.+|.-...+|...               ...+++|++|++++|. +...+
T Consensus       297 ~~L~Ls~n~-l~~~~p~~~~~l~~L~~L~L~~n~l~~~ip~~~---------------l~~l~~L~~L~Ls~n~-l~~~~  359 (768)
T 3rgz_A          297 TGLDLSGNH-FYGAVPPFFGSCSLLESLALSSNNFSGELPMDT---------------LLKMRGLKVLDLSFNE-FSGEL  359 (768)
T ss_dssp             SEEECCSSE-EEECCCGGGGGCTTCCEEECCSSEEEEECCHHH---------------HTTCTTCCEEECCSSE-EEECC
T ss_pred             CEEECcCCc-CCCccchHHhcCCCccEEECCCCcccCcCCHHH---------------HhcCCCCCEEeCcCCc-cCccc
Confidence            999998886 554433445568889999988764333444210               1236889999998875 44345


Q ss_pred             chhHHhhcC-CccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEec
Q 040040          456 PHNMFARFL-KLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFE  534 (869)
Q Consensus       456 ~~~~~~~l~-~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~  534 (869)
                      |... ..++ +|++|++++|.....++..       .....+++|++|++++|.--..+    |..+..+++|++|++++
T Consensus       360 p~~l-~~l~~~L~~L~Ls~N~l~~~~~~~-------~~~~~~~~L~~L~L~~n~l~~~~----p~~l~~l~~L~~L~Ls~  427 (768)
T 3rgz_A          360 PESL-TNLSASLLTLDLSSNNFSGPILPN-------LCQNPKNTLQELYLQNNGFTGKI----PPTLSNCSELVSLHLSF  427 (768)
T ss_dssp             CTTH-HHHTTTCSEEECCSSEEEEECCTT-------TTCSTTCCCCEEECCSSEEEEEC----CGGGGGCTTCCEEECCS
T ss_pred             cHHH-HhhhcCCcEEEccCCCcCCCcChh-------hhhcccCCccEEECCCCcccccc----CHHHhcCCCCCEEECcC
Confidence            6654 4555 8999999986543334321       10013678999999997544444    78899999999999998


Q ss_pred             CCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccC-cccccccee
Q 040040          535 CQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNP-SFGSKSLVM  612 (869)
Q Consensus       535 c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~-~~~~~~~~~  612 (869)
                      | .+....|.++               ..+++|+.|++++|.....++.....  +++|++|++++ ++. .++....  
T Consensus       428 N-~l~~~~p~~l---------------~~l~~L~~L~L~~n~l~~~~p~~~~~--l~~L~~L~L~~N~l~~~~p~~l~--  487 (768)
T 3rgz_A          428 N-YLSGTIPSSL---------------GSLSKLRDLKLWLNMLEGEIPQELMY--VKTLETLILDFNDLTGEIPSGLS--  487 (768)
T ss_dssp             S-EEESCCCGGG---------------GGCTTCCEEECCSSCCCSCCCGGGGG--CTTCCEEECCSSCCCSCCCGGGG--
T ss_pred             C-cccCcccHHH---------------hcCCCCCEEECCCCcccCcCCHHHcC--CCCceEEEecCCcccCcCCHHHh--
Confidence            5 5654446544               34789999999998766566655544  48999999998 766 3443221  


Q ss_pred             eEeeecceeccccceeeeecccceeeecc---ccccceEEEe-ecCCCccchHHHHHhccccceEEEE---EE-ecccc-
Q 040040          613 LLCLIGQQVFPNLEELTLSKYIFTTWRQA---QFHKLKILHF-ISDGSDFFQVGLLQNIHNLEKLVLK---VE-EHAEG-  683 (869)
Q Consensus       613 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~---~~~~L~~L~l-~~~~~~~~p~~~l~~l~~L~~L~l~---~~-~~~~~-  683 (869)
                              .+++|++|++++|.+.+..+.   .+++|++|++ .|...+.+|.. ++.+++|+.|+++   +. ..... 
T Consensus       488 --------~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~-l~~l~~L~~L~Ls~N~l~g~ip~~~  558 (768)
T 3rgz_A          488 --------NCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAE-LGDCRSLIWLDLNTNLFNGTIPAAM  558 (768)
T ss_dssp             --------GCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGGCTTCCEEECCSSEEESBCCGGG
T ss_pred             --------cCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHH-HcCCCCCCEEECCCCccCCcCChHH
Confidence                    368999999999998865553   3789999999 45555577765 7889999999987   32 11111 


Q ss_pred             --cccccEEEcCc-----------------------------------ccccc------ccccCCCCCcccccCCccEEE
Q 040040          684 --IAQIKSLKLNK-----------------------------------LWFIK------EHLWNPDSKLDSFLQNLEFLE  720 (869)
Q Consensus       684 --~~~L~~L~l~~-----------------------------------~~~L~------~~l~~~~~~~~~~l~~L~~L~  720 (869)
                        ...+..+.+..                                   +..+.      ..+.+..+.....+++|+.|+
T Consensus       559 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~Ld  638 (768)
T 3rgz_A          559 FKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLD  638 (768)
T ss_dssp             GTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEE
T ss_pred             hcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEEE
Confidence              11111111110                                   00000      011112233456789999999


Q ss_pred             Eecccchhh-ccccee-EecccchhccccCCCcceeecCCeeeeCCCcceEeeccCCCccccCCCCcCCCcceEEEccCC
Q 040040          721 VKECALSLI-SLRIEI-VFSKLKWLFLESSGSITSFCSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKL  798 (869)
Q Consensus       721 l~~c~~~l~-~l~~~~-~~~~L~~L~l~~l~~l~~~~~~~~~~~~~~L~~L~i~~c~~~~~~~~~~~~~~~L~~l~~s~~  798 (869)
                      +++|.  +. .+|... .+++|+.|++.++.--..++.  ....+++|+.|++++|......|..+...+.|+.++++.|
T Consensus       639 Ls~N~--l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~--~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~ls~N  714 (768)
T 3rgz_A          639 MSYNM--LSGYIPKEIGSMPYLFILNLGHNDISGSIPD--EVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNN  714 (768)
T ss_dssp             CCSSC--CBSCCCGGGGGCTTCCEEECCSSCCCSCCCG--GGGGCTTCCEEECCSSCCEECCCGGGGGCCCCSEEECCSS
T ss_pred             CcCCc--ccccCCHHHhccccCCEEeCcCCccCCCCCh--HHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECcCC
Confidence            99997  65 445442 466677777666432223332  2346789999999999777688998999999999999954


Q ss_pred             C
Q 040040          799 D  799 (869)
Q Consensus       799 ~  799 (869)
                      +
T Consensus       715 ~  715 (768)
T 3rgz_A          715 N  715 (768)
T ss_dssp             E
T ss_pred             c
Confidence            3

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=100.00  E-value=2.2e-33  Score=336.38  Aligned_cols=558  Identities=15%  Similarity=0.070  Sum_probs=383.3

Q ss_pred             HhccCceeeeccccCcccccc--ccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccc
Q 040040          116 QLKGLEELWLDEVQGVENVVY--ELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQ  193 (869)
Q Consensus       116 ~l~~l~~L~l~~~~~~~~~~~--~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~  193 (869)
                      .++++++|+++++.-...++.  .+  ..+++|++|+++++.-...++...    ...+++|++|+++++ ++.+.....
T Consensus        98 ~l~~L~~L~Ls~n~l~~~~~~~~~l--~~l~~L~~L~Ls~n~l~~~~~~~~----~~~l~~L~~L~Ls~n-~l~~~~~~~  170 (768)
T 3rgz_A           98 CSASLTSLDLSRNSLSGPVTTLTSL--GSCSGLKFLNVSSNTLDFPGKVSG----GLKLNSLEVLDLSAN-SISGANVVG  170 (768)
T ss_dssp             CCTTCCEEECCSSEEEEEGGGGGGG--GGCTTCCEEECCSSEEECCSSCCS----CCCCTTCSEEECCSS-CCEEETHHH
T ss_pred             cCCCCCEEECCCCcCCCcCCChHHH--hCCCCCCEEECcCCccCCcCCHHH----hccCCCCCEEECCCC-ccCCcCChh
Confidence            467899999988653333443  34  679999999999983222222211    257899999999998 565543221


Q ss_pred             -ccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccC
Q 040040          194 -LRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKS  272 (869)
Q Consensus       194 -~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~  272 (869)
                       ...+.+++|++|++++|. +....+   ...+++|++|++++|.....++              .+..+++|++|++++
T Consensus       171 ~~~~~~l~~L~~L~Ls~n~-l~~~~~---~~~l~~L~~L~Ls~n~l~~~~~--------------~l~~l~~L~~L~Ls~  232 (768)
T 3rgz_A          171 WVLSDGCGELKHLAISGNK-ISGDVD---VSRCVNLEFLDVSSNNFSTGIP--------------FLGDCSALQHLDISG  232 (768)
T ss_dssp             HHHTTCCTTCCEEECCSSE-EESCCB---CTTCTTCCEEECCSSCCCSCCC--------------BCTTCCSCCEEECCS
T ss_pred             hhhhccCCCCCEEECCCCc-ccccCC---cccCCcCCEEECcCCcCCCCCc--------------ccccCCCCCEEECcC
Confidence             013578999999999995 555433   4789999999999987544344              256799999999999


Q ss_pred             CCCccccc-ccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccc
Q 040040          273 LPQLRSFC-SVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCM  351 (869)
Q Consensus       273 ~~~l~~~~-~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  351 (869)
                      +.--..++ .+..+++|++|++++|.+...    .|..  .+++|++|++++|. ++...|......+++|++|++++|.
T Consensus       233 n~l~~~~~~~l~~l~~L~~L~Ls~n~l~~~----~~~~--~l~~L~~L~L~~n~-l~~~ip~~~~~~~~~L~~L~Ls~n~  305 (768)
T 3rgz_A          233 NKLSGDFSRAISTCTELKLLNISSNQFVGP----IPPL--PLKSLQYLSLAENK-FTGEIPDFLSGACDTLTGLDLSGNH  305 (768)
T ss_dssp             SCCCSCHHHHTTTCSSCCEEECCSSCCEES----CCCC--CCTTCCEEECCSSE-EEESCCCCSCTTCTTCSEEECCSSE
T ss_pred             CcCCCcccHHHhcCCCCCEEECCCCcccCc----cCcc--ccCCCCEEECcCCc-cCCccCHHHHhhcCcCCEEECcCCc
Confidence            76433333 367889999999999985432    2321  58899999999975 4422354434446999999999974


Q ss_pred             cccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeecc
Q 040040          352 DLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSF  431 (869)
Q Consensus       352 ~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~  431 (869)
                       +......        ....+++|++|+++++.-...++......+++|++|++.+|.-...+|..              
T Consensus       306 -l~~~~p~--------~~~~l~~L~~L~L~~n~l~~~ip~~~l~~l~~L~~L~Ls~n~l~~~~p~~--------------  362 (768)
T 3rgz_A          306 -FYGAVPP--------FFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPES--------------  362 (768)
T ss_dssp             -EEECCCG--------GGGGCTTCCEEECCSSEEEEECCHHHHTTCTTCCEEECCSSEEEECCCTT--------------
T ss_pred             -CCCccch--------HHhcCCCccEEECCCCcccCcCCHHHHhcCCCCCEEeCcCCccCccccHH--------------
Confidence             4433222        35688999999999987333666554567899999999887433233321              


Q ss_pred             Ccccccc-cccEEEEeccCCcccccchhHHh-hcCCccEEEEcccCCccccccccccCccccccccccccceeecccccc
Q 040040          432 FNEKSFC-KLKLMEVIFCKSLWTIFPHNMFA-RFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPK  509 (869)
Q Consensus       432 ~~~~~~~-~L~~L~l~~c~~l~~~~~~~~~~-~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  509 (869)
                        ...++ +|+.|++++|. +...+|..... .+++|++|++++|.....++.       ..  +.+++|++|+++++.-
T Consensus       363 --l~~l~~~L~~L~Ls~N~-l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~p~-------~l--~~l~~L~~L~Ls~N~l  430 (768)
T 3rgz_A          363 --LTNLSASLLTLDLSSNN-FSGPILPNLCQNPKNTLQELYLQNNGFTGKIPP-------TL--SNCSELVSLHLSFNYL  430 (768)
T ss_dssp             --HHHHTTTCSEEECCSSE-EEEECCTTTTCSTTCCCCEEECCSSEEEEECCG-------GG--GGCTTCCEEECCSSEE
T ss_pred             --HHhhhcCCcEEEccCCC-cCCCcChhhhhcccCCccEEECCCCccccccCH-------HH--hcCCCCCEEECcCCcc
Confidence              01134 89999999886 43334443321 278999999999754434432       12  4789999999999753


Q ss_pred             cccccccCCCCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCC
Q 040040          510 LTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLE  589 (869)
Q Consensus       510 L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~  589 (869)
                      -..+    |..+..+++|++|++++| .+...+|..+               ..+++|++|+++++......+.....  
T Consensus       431 ~~~~----p~~l~~l~~L~~L~L~~n-~l~~~~p~~~---------------~~l~~L~~L~L~~N~l~~~~p~~l~~--  488 (768)
T 3rgz_A          431 SGTI----PSSLGSLSKLRDLKLWLN-MLEGEIPQEL---------------MYVKTLETLILDFNDLTGEIPSGLSN--  488 (768)
T ss_dssp             ESCC----CGGGGGCTTCCEEECCSS-CCCSCCCGGG---------------GGCTTCCEEECCSSCCCSCCCGGGGG--
T ss_pred             cCcc----cHHHhcCCCCCEEECCCC-cccCcCCHHH---------------cCCCCceEEEecCCcccCcCCHHHhc--
Confidence            3344    788999999999999986 4554447544               34789999999999766566655544  


Q ss_pred             CCCCceeeecc-ccC-ccccccceeeEeeecceeccccceeeeecccceeeeccc---cccceEEEe-ecCCCccchHHH
Q 040040          590 CPERANLIFQL-KNP-SFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQ---FHKLKILHF-ISDGSDFFQVGL  663 (869)
Q Consensus       590 ~~~L~~L~l~~-~l~-~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~---~~~L~~L~l-~~~~~~~~p~~~  663 (869)
                      +++|+.|++++ ++. .+|....          .+++|++|++++|.+.+..+..   +++|+.|++ .|...+.+|.++
T Consensus       489 l~~L~~L~L~~N~l~~~~p~~~~----------~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~~  558 (768)
T 3rgz_A          489 CTNLNWISLSNNRLTGEIPKWIG----------RLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM  558 (768)
T ss_dssp             CTTCCEEECCSSCCCSCCCGGGG----------GCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCCGGG
T ss_pred             CCCCCEEEccCCccCCcCChHHh----------cCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCChHH
Confidence            49999999999 776 4554321          3789999999999999766644   789999999 555666888764


Q ss_pred             HHhccccceEE---------E-------------------------------------E-------EEecccccccccEE
Q 040040          664 LQNIHNLEKLV---------L-------------------------------------K-------VEEHAEGIAQIKSL  690 (869)
Q Consensus       664 l~~l~~L~~L~---------l-------------------------------------~-------~~~~~~~~~~L~~L  690 (869)
                      .. ...+..+.         +                                     .       .......+++|+.|
T Consensus       559 ~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~L  637 (768)
T 3rgz_A          559 FK-QSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFL  637 (768)
T ss_dssp             GT-TTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEE
T ss_pred             hc-ccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEE
Confidence            33 22221110         0                                     0       00112236789999


Q ss_pred             EcCccccccccccCCCCCcccccCCccEEEEecccchhh-ccccee-EecccchhccccCCCcc-eeecCCeeeeCCCcc
Q 040040          691 KLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLI-SLRIEI-VFSKLKWLFLESSGSIT-SFCSGNYAISFPSLE  767 (869)
Q Consensus       691 ~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~-~l~~~~-~~~~L~~L~l~~l~~l~-~~~~~~~~~~~~~L~  767 (869)
                      +++++     .+.+..|..++.+++|+.|++++|.  +. .+|+.. .+++|+.|++.++. +. .++.  ....+++|+
T Consensus       638 dLs~N-----~l~g~ip~~l~~l~~L~~L~Ls~N~--l~g~ip~~l~~L~~L~~LdLs~N~-l~g~ip~--~l~~l~~L~  707 (768)
T 3rgz_A          638 DMSYN-----MLSGYIPKEIGSMPYLFILNLGHND--ISGSIPDEVGDLRGLNILDLSSNK-LDGRIPQ--AMSALTMLT  707 (768)
T ss_dssp             ECCSS-----CCBSCCCGGGGGCTTCCEEECCSSC--CCSCCCGGGGGCTTCCEEECCSSC-CEECCCG--GGGGCCCCS
T ss_pred             ECcCC-----cccccCCHHHhccccCCEEeCcCCc--cCCCCChHHhCCCCCCEEECCCCc-ccCcCCh--HHhCCCCCC
Confidence            99987     3334556678899999999999997  65 455442 45666666666543 33 2222  223578899


Q ss_pred             eEeeccCCCccccCCC
Q 040040          768 VLIVENCPKLNTFSAG  783 (869)
Q Consensus       768 ~L~i~~c~~~~~~~~~  783 (869)
                      +|++++|+.-...|.+
T Consensus       708 ~L~ls~N~l~g~iP~~  723 (768)
T 3rgz_A          708 EIDLSNNNLSGPIPEM  723 (768)
T ss_dssp             EEECCSSEEEEECCSS
T ss_pred             EEECcCCcccccCCCc
Confidence            9999999765566654

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=99.97  E-value=3.2e-30  Score=306.39  Aligned_cols=545  Identities=16%  Similarity=0.132  Sum_probs=277.1

Q ss_pred             ccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccccc
Q 040040          118 KGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAE  197 (869)
Q Consensus       118 ~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~  197 (869)
                      +++++|++++. .+..+..... ..+++|++|+++++ .+..++...    +..+++|++|+++++ +++.++...  .+
T Consensus        25 ~~l~~L~Ls~n-~l~~~~~~~~-~~l~~L~~L~Ls~n-~l~~~~~~~----~~~l~~L~~L~L~~n-~l~~l~~~~--~~   94 (680)
T 1ziw_A           25 TNITVLNLTHN-QLRRLPAANF-TRYSQLTSLDVGFN-TISKLEPEL----CQKLPMLKVLNLQHN-ELSQLSDKT--FA   94 (680)
T ss_dssp             TTCSEEECCSS-CCCCCCGGGG-GGGTTCSEEECCSS-CCCCCCTTH----HHHCTTCCEEECCSS-CCCCCCTTT--TT
T ss_pred             CCCcEEECCCC-CCCCcCHHHH-hCCCcCcEEECCCC-ccCccCHHH----HhcccCcCEEECCCC-ccCccChhh--hc
Confidence            45666666653 2333332211 45666666666665 343332211    234566666666665 455554432  33


Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcc
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLR  277 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~  277 (869)
                      .+++|++|++++| +++.+++ ..++++++|++|+++++.. ...+.            ..+..+++|++|+++++. +.
T Consensus        95 ~l~~L~~L~L~~n-~l~~~~~-~~~~~l~~L~~L~Ls~n~l-~~~~~------------~~~~~l~~L~~L~L~~n~-l~  158 (680)
T 1ziw_A           95 FCTNLTELHLMSN-SIQKIKN-NPFVKQKNLITLDLSHNGL-SSTKL------------GTQVQLENLQELLLSNNK-IQ  158 (680)
T ss_dssp             TCTTCSEEECCSS-CCCCCCS-CTTTTCTTCCEEECCSSCC-SCCCC------------CSSSCCTTCCEEECCSSC-CC
T ss_pred             cCCCCCEEECCCC-ccCccCh-hHccccCCCCEEECCCCcc-cccCc------------hhhcccccCCEEEccCCc-cc
Confidence            5666666666666 3555543 3456666666666666542 22211            123346666666666543 22


Q ss_pred             cccc----cccCCCcCEEEeccccccccccCCCCCccccc---------------------------CCceEEEEecCCC
Q 040040          278 SFCS----VVAFPNLETLKLSAINSETIWHNQLPAMSSCI---------------------------QNLTRLIVHGCNN  326 (869)
Q Consensus       278 ~~~~----~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l---------------------------~~L~~L~l~~c~~  326 (869)
                      .++.    ....++|++|++++|.+..+....    +..+                           ++|+.|+++++ .
T Consensus       159 ~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~----~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n-~  233 (680)
T 1ziw_A          159 ALKSEELDIFANSSLKKLELSSNQIKEFSPGC----FHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNS-Q  233 (680)
T ss_dssp             CBCHHHHGGGTTCEESEEECTTCCCCCBCTTG----GGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTS-C
T ss_pred             ccCHHHhhccccccccEEECCCCcccccChhh----hhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCC-c
Confidence            2221    123356666666666544332211    1122                           45666666654 2


Q ss_pred             CccccChhhHhccC--CccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEE
Q 040040          327 LKFLFSTSLVRSFV--QLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLR  404 (869)
Q Consensus       327 l~~l~~~~~~~~L~--~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~  404 (869)
                      +....+ ..+..++  +|++|+++++ .++.+...        ....+++|++|+++++. +..+.......+++|+.|+
T Consensus       234 l~~~~~-~~~~~l~~~~L~~L~Ls~n-~l~~~~~~--------~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~  302 (680)
T 1ziw_A          234 LSTTSN-TTFLGLKWTNLTMLDLSYN-NLNVVGND--------SFAWLPQLEYFFLEYNN-IQHLFSHSLHGLFNVRYLN  302 (680)
T ss_dssp             CCEECT-TTTGGGGGSCCCEEECTTS-CCCEECTT--------TTTTCTTCCEEECCSCC-BSEECTTTTTTCTTCCEEE
T ss_pred             ccccCh-hHhhccCcCCCCEEECCCC-CcCccCcc--------cccCcccccEeeCCCCc-cCccChhhhcCCCCccEEe
Confidence            333322 2344443  3777777664 34433221        23456677777777664 5555444445566777777


Q ss_pred             EccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCC-ccccccc
Q 040040          405 MAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGS-LEEIFNL  483 (869)
Q Consensus       405 l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~-l~~i~~~  483 (869)
                      +.++..-..++...+.      .+ .......+++|++|++++|. +.. ++...+..+++|++|++++|.. +..++..
T Consensus       303 L~~~~~~~~~~~~~lp------~i-~~~~~~~l~~L~~L~l~~n~-l~~-~~~~~~~~l~~L~~L~Ls~n~~~~~~l~~~  373 (680)
T 1ziw_A          303 LKRSFTKQSISLASLP------KI-DDFSFQWLKCLEHLNMEDND-IPG-IKSNMFTGLINLKYLSLSNSFTSLRTLTNE  373 (680)
T ss_dssp             CTTCBCCC------CC------EE-CTTTTTTCTTCCEEECCSCC-BCC-CCTTTTTTCTTCCEEECTTCBSCCCEECTT
T ss_pred             ccchhhhccccccccc------cc-ChhhcccCCCCCEEECCCCc-cCC-CChhHhccccCCcEEECCCCchhhhhcchh
Confidence            7653211111000000      00 00111336778888887765 333 2444566788888888887542 2222210


Q ss_pred             cccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCcccccC-ccEEEEEeccCCCCCccee
Q 040040          484 QELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFP-TSVEIVANDVRGNDAATKF  562 (869)
Q Consensus       484 ~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l~p-~s~ei~~~~~~~~~~~~~~  562 (869)
                      .   ...   ...++|+.|+++++. +..+   .|..+..+++|++|+++++. +...+| ..+               .
T Consensus       374 ~---f~~---~~~~~L~~L~L~~n~-l~~~---~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~---------------~  427 (680)
T 1ziw_A          374 T---FVS---LAHSPLHILNLTKNK-ISKI---ESDAFSWLGHLEVLDLGLNE-IGQELTGQEW---------------R  427 (680)
T ss_dssp             T---TGG---GTTSCCCEEECTTSC-CCEE---CTTTTTTCTTCCEEECCSSC-CEEECCSGGG---------------T
T ss_pred             h---hcc---cccCcCceEECCCCC-CCeE---ChhhhhCCCCCCEEeCCCCc-CccccCcccc---------------c
Confidence            0   000   123578888888753 4444   35677788888888888753 432213 111               1


Q ss_pred             eccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCc---cccccceeeEeeecceeccccceeeeecccceee
Q 040040          563 IFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPS---FGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTW  638 (869)
Q Consensus       563 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~---~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~  638 (869)
                      .+++|++|+++++.. ........ ..+++|+.|++++ .+..   .+...          ..+++|++|++++|.+..+
T Consensus       428 ~l~~L~~L~Ls~n~l-~~~~~~~~-~~~~~L~~L~l~~n~l~~~~~~p~~~----------~~l~~L~~L~Ls~N~l~~i  495 (680)
T 1ziw_A          428 GLENIFEIYLSYNKY-LQLTRNSF-ALVPSLQRLMLRRVALKNVDSSPSPF----------QPLRNLTILDLSNNNIANI  495 (680)
T ss_dssp             TCTTCCEEECCSCSE-EECCTTTT-TTCTTCCEEECTTSCCBCTTCSSCTT----------TTCTTCCEEECCSSCCCCC
T ss_pred             CcccccEEecCCCCc-ceeChhhh-hcCcccccchhccccccccccCCccc----------ccCCCCCEEECCCCCCCcC
Confidence            257788888887753 22222211 1357888888877 5432   22211          1257788888888877776


Q ss_pred             eccc---cccceEEEeecCCCccchH--------HHHHhccccceEEEEEEecccccccccEEEcCccccccccccCCCC
Q 040040          639 RQAQ---FHKLKILHFISDGSDFFQV--------GLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDS  707 (869)
Q Consensus       639 ~~~~---~~~L~~L~l~~~~~~~~p~--------~~l~~l~~L~~L~l~~~~~~~~~~~L~~L~l~~~~~L~~~l~~~~~  707 (869)
                      .+..   +++|++|++++|....++.        ..+.++                 ++|+.|+++++ .++ .+   +.
T Consensus       496 ~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~~~~~l-----------------~~L~~L~L~~N-~l~-~i---~~  553 (680)
T 1ziw_A          496 NDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGL-----------------SHLHILNLESN-GFD-EI---PV  553 (680)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCGGGGSTTSTTSCCCTTTTC-----------------TTCCEEECCSS-CCC-CC---CT
T ss_pred             ChhhhccccccCEEeCCCCCccccchhhccCCcchhhcCC-----------------CCCCEEECCCC-CCC-CC---CH
Confidence            6543   5677788875554443321        113444                 45555555553 233 22   11


Q ss_pred             CcccccCCccEEEEecccchhhccccee--EecccchhccccCCCcceeecCCeeeeCCCcceEeeccCCC
Q 040040          708 KLDSFLQNLEFLEVKECALSLISLRIEI--VFSKLKWLFLESSGSITSFCSGNYAISFPSLEVLIVENCPK  776 (869)
Q Consensus       708 ~~~~~l~~L~~L~l~~c~~~l~~l~~~~--~~~~L~~L~l~~l~~l~~~~~~~~~~~~~~L~~L~i~~c~~  776 (869)
                      .....+++|+.|++++|.  +..+|...  .+++|+.|++.++ +++.+........+++|+.+++++||-
T Consensus       554 ~~~~~l~~L~~L~Ls~N~--l~~l~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~~~~~L~~l~l~~N~~  621 (680)
T 1ziw_A          554 EVFKDLFELKIIDLGLNN--LNTLPASVFNNQVSLKSLNLQKN-LITSVEKKVFGPAFRNLTELDMRFNPF  621 (680)
T ss_dssp             TTTTTCTTCCEEECCSSC--CCCCCTTTTTTCTTCCEEECTTS-CCCBCCHHHHHHHHTTCSEEECTTCCC
T ss_pred             HHcccccCcceeECCCCC--CCcCCHhHhCCCCCCCEEECCCC-cCCccChhHhcccccccCEEEccCCCc
Confidence            224456666666666664  55555432  2344555555443 333333211001356677777776653

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=99.97  E-value=9.2e-29  Score=293.79  Aligned_cols=542  Identities=15%  Similarity=0.120  Sum_probs=280.1

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhc
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISR  223 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~  223 (869)
                      +++++|+++++ .++.++...    +..+++|++|+++++ .++.+....  .+.+++|++|++++| .++.+|+ ..++
T Consensus        25 ~~l~~L~Ls~n-~l~~~~~~~----~~~l~~L~~L~Ls~n-~l~~~~~~~--~~~l~~L~~L~L~~n-~l~~l~~-~~~~   94 (680)
T 1ziw_A           25 TNITVLNLTHN-QLRRLPAAN----FTRYSQLTSLDVGFN-TISKLEPEL--CQKLPMLKVLNLQHN-ELSQLSD-KTFA   94 (680)
T ss_dssp             TTCSEEECCSS-CCCCCCGGG----GGGGTTCSEEECCSS-CCCCCCTTH--HHHCTTCCEEECCSS-CCCCCCT-TTTT
T ss_pred             CCCcEEECCCC-CCCCcCHHH----HhCCCcCcEEECCCC-ccCccCHHH--HhcccCcCEEECCCC-ccCccCh-hhhc
Confidence            67888888887 565555322    356788888888877 555554332  346788888888887 4777654 3577


Q ss_pred             CCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccc-ccccCCCcCEEEeccccccccc
Q 040040          224 GLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFC-SVVAFPNLETLKLSAINSETIW  302 (869)
Q Consensus       224 ~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~-~~~~l~~L~~L~L~~~~l~~i~  302 (869)
                      ++++|++|+++++. +..++.            ..+..+++|++|+++++.-....+ .+..+++|++|++++|.+..+.
T Consensus        95 ~l~~L~~L~L~~n~-l~~~~~------------~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~  161 (680)
T 1ziw_A           95 FCTNLTELHLMSNS-IQKIKN------------NPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALK  161 (680)
T ss_dssp             TCTTCSEEECCSSC-CCCCCS------------CTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBC
T ss_pred             cCCCCCEEECCCCc-cCccCh------------hHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccccC
Confidence            88888888888765 444441            234557788888887764222222 2456778888888887654432


Q ss_pred             cCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeeccc
Q 040040          303 HNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKD  382 (869)
Q Consensus       303 ~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~  382 (869)
                      ...+.  ...+++|++|+++++ .++.+ ++..+..+++|+.|++.++. +..-... .    .......++|+.|++++
T Consensus       162 ~~~~~--~~~~~~L~~L~L~~n-~l~~~-~~~~~~~l~~L~~L~l~~~~-l~~~~~~-~----~~~~l~~~~L~~L~L~~  231 (680)
T 1ziw_A          162 SEELD--IFANSSLKKLELSSN-QIKEF-SPGCFHAIGRLFGLFLNNVQ-LGPSLTE-K----LCLELANTSIRNLSLSN  231 (680)
T ss_dssp             HHHHG--GGTTCEESEEECTTC-CCCCB-CTTGGGGSSEECEEECTTCC-CHHHHHH-H----HHHHHTTSCCCEEECTT
T ss_pred             HHHhh--ccccccccEEECCCC-ccccc-Chhhhhhhhhhhhhhccccc-cChhhHH-H----HHHHhhhccccEEEccC
Confidence            21111  112467888888775 45554 33456677778887776643 2110000 0    00011236778888877


Q ss_pred             CccccccCCCcccCCC--CccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHH
Q 040040          383 LAKLTRFCSGNCIELP--SLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMF  460 (869)
Q Consensus       383 ~~~L~~l~~~~~~~l~--~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~  460 (869)
                      +. +..........++  +|+.|++++|. ++.++...               .+.+++|++|++++|. +... +...+
T Consensus       232 n~-l~~~~~~~~~~l~~~~L~~L~Ls~n~-l~~~~~~~---------------~~~l~~L~~L~L~~n~-l~~~-~~~~~  292 (680)
T 1ziw_A          232 SQ-LSTTSNTTFLGLKWTNLTMLDLSYNN-LNVVGNDS---------------FAWLPQLEYFFLEYNN-IQHL-FSHSL  292 (680)
T ss_dssp             SC-CCEECTTTTGGGGGSCCCEEECTTSC-CCEECTTT---------------TTTCTTCCEEECCSCC-BSEE-CTTTT
T ss_pred             Cc-ccccChhHhhccCcCCCCEEECCCCC-cCccCccc---------------ccCcccccEeeCCCCc-cCcc-Chhhh
Confidence            64 5544443333333  47777776653 32222110               1225677777777664 3333 33345


Q ss_pred             hhcCCccEEEEcccCCcc-----ccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecC
Q 040040          461 ARFLKLQSLIVGACGSLE-----EIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFEC  535 (869)
Q Consensus       461 ~~l~~L~~L~l~~c~~l~-----~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c  535 (869)
                      ..+++|++|+++++..-.     .++.+.+   ...  +.+++|++|+++++ .+..+   .+..+..+++|++|++++|
T Consensus       293 ~~l~~L~~L~L~~~~~~~~~~~~~lp~i~~---~~~--~~l~~L~~L~l~~n-~l~~~---~~~~~~~l~~L~~L~Ls~n  363 (680)
T 1ziw_A          293 HGLFNVRYLNLKRSFTKQSISLASLPKIDD---FSF--QWLKCLEHLNMEDN-DIPGI---KSNMFTGLINLKYLSLSNS  363 (680)
T ss_dssp             TTCTTCCEEECTTCBCCC------CCEECT---TTT--TTCTTCCEEECCSC-CBCCC---CTTTTTTCTTCCEEECTTC
T ss_pred             cCCCCccEEeccchhhhcccccccccccCh---hhc--ccCCCCCEEECCCC-ccCCC---ChhHhccccCCcEEECCCC
Confidence            667777777776642211     1111110   011  35667777777764 33333   2455666777777777665


Q ss_pred             C-CcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCc-ccccccee
Q 040040          536 Q-RLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPS-FGSKSLVM  612 (869)
Q Consensus       536 ~-~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~-~~~~~~~~  612 (869)
                      . .+..+ |..            .......++|+.|+++++......+....  .+++|+.|++++ .+.. ++....  
T Consensus       364 ~~~~~~l-~~~------------~f~~~~~~~L~~L~L~~n~l~~~~~~~~~--~l~~L~~L~L~~N~l~~~~~~~~~--  426 (680)
T 1ziw_A          364 FTSLRTL-TNE------------TFVSLAHSPLHILNLTKNKISKIESDAFS--WLGHLEVLDLGLNEIGQELTGQEW--  426 (680)
T ss_dssp             BSCCCEE-CTT------------TTGGGTTSCCCEEECTTSCCCEECTTTTT--TCTTCCEEECCSSCCEEECCSGGG--
T ss_pred             chhhhhc-chh------------hhcccccCcCceEECCCCCCCeEChhhhh--CCCCCCEEeCCCCcCccccCcccc--
Confidence            3 12222 110            00001124666677666643222222222  236666666666 4431 221110  


Q ss_pred             eEeeecceeccccceeeeecccceeeeccc---cccceEEEeecCCC---ccchHHHHHhccccceEEEEEEeccccccc
Q 040040          613 LLCLIGQQVFPNLEELTLSKYIFTTWRQAQ---FHKLKILHFISDGS---DFFQVGLLQNIHNLEKLVLKVEEHAEGIAQ  686 (869)
Q Consensus       613 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~---~~~L~~L~l~~~~~---~~~p~~~l~~l~~L~~L~l~~~~~~~~~~~  686 (869)
                             ..+++|++|++++|.+..+.+..   +++|+.|++.++..   +.+|.. ++.+++                 
T Consensus       427 -------~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~p~~-~~~l~~-----------------  481 (680)
T 1ziw_A          427 -------RGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSP-FQPLRN-----------------  481 (680)
T ss_dssp             -------TTCTTCCEEECCSCSEEECCTTTTTTCTTCCEEECTTSCCBCTTCSSCT-TTTCTT-----------------
T ss_pred             -------cCcccccEEecCCCCcceeChhhhhcCcccccchhccccccccccCCcc-cccCCC-----------------
Confidence                   02456666666666665544433   45666666633322   233322 344444                 


Q ss_pred             ccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhcccce----------eEecccchhccccCCCcceeec
Q 040040          687 IKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIE----------IVFSKLKWLFLESSGSITSFCS  756 (869)
Q Consensus       687 L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~~----------~~~~~L~~L~l~~l~~l~~~~~  756 (869)
                      |+.|+++++ .++ .+   .+.....+++|++|++++|.  +..++..          ..+++|+.|++.++ +++.++.
T Consensus       482 L~~L~Ls~N-~l~-~i---~~~~~~~l~~L~~L~Ls~N~--l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~N-~l~~i~~  553 (680)
T 1ziw_A          482 LTILDLSNN-NIA-NI---NDDMLEGLEKLEILDLQHNN--LARLWKHANPGGPIYFLKGLSHLHILNLESN-GFDEIPV  553 (680)
T ss_dssp             CCEEECCSS-CCC-CC---CTTTTTTCTTCCEEECCSSC--CGGGGSTTSTTSCCCTTTTCTTCCEEECCSS-CCCCCCT
T ss_pred             CCEEECCCC-CCC-cC---ChhhhccccccCEEeCCCCC--ccccchhhccCCcchhhcCCCCCCEEECCCC-CCCCCCH
Confidence            445555543 122 11   12223445555555555554  4443211          01233333333321 2333322


Q ss_pred             CCeeeeCCCcceEeeccCCCccccCCCC-cCCCcceEEEccCC
Q 040040          757 GNYAISFPSLEVLIVENCPKLNTFSAGV-LKTPRLRAVQNWKL  798 (869)
Q Consensus       757 ~~~~~~~~~L~~L~i~~c~~~~~~~~~~-~~~~~L~~l~~s~~  798 (869)
                      +. ...+++|+.|+++++ .++.+|.+. ...++|+.|++++|
T Consensus       554 ~~-~~~l~~L~~L~Ls~N-~l~~l~~~~~~~l~~L~~L~L~~N  594 (680)
T 1ziw_A          554 EV-FKDLFELKIIDLGLN-NLNTLPASVFNNQVSLKSLNLQKN  594 (680)
T ss_dssp             TT-TTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECTTS
T ss_pred             HH-cccccCcceeECCCC-CCCcCCHhHhCCCCCCCEEECCCC
Confidence            11 123466777777666 455555543 45577777777644

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=99.97  E-value=3e-29  Score=293.91  Aligned_cols=294  Identities=17%  Similarity=0.123  Sum_probs=162.5

Q ss_pred             cccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCC
Q 040040          439 KLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDP  518 (869)
Q Consensus       439 ~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p  518 (869)
                      +|+.|++++|. +.. ++...++.+++|++|++++| .+..++..       .  ..+++|++|+++++. ++.+   .|
T Consensus       255 ~L~~L~l~~n~-l~~-~~~~~~~~l~~L~~L~l~~n-~l~~lp~~-------l--~~l~~L~~L~l~~n~-l~~~---~~  318 (606)
T 3t6q_A          255 SVESINLQKHY-FFN-ISSNTFHCFSGLQELDLTAT-HLSELPSG-------L--VGLSTLKKLVLSANK-FENL---CQ  318 (606)
T ss_dssp             EEEEEECTTCC-CSS-CCTTTTTTCTTCSEEECTTS-CCSCCCSS-------C--CSCTTCCEEECTTCC-CSBG---GG
T ss_pred             ceeEEEeecCc-cCc-cCHHHhccccCCCEEeccCC-ccCCCChh-------h--cccccCCEEECccCC-cCcC---ch
Confidence            67788887764 333 35555677888888888884 45555431       1  367788888888763 3333   24


Q ss_pred             CCcccCCCccEEEEecCCCcccccCc-cEEEEEeccCCCCCcceeeccccceEeecCCCCCcee--cCCCCCCCCCCCce
Q 040040          519 RGKLIFPNLVLVRIFECQRLKSIFPT-SVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTF--YSGMHTLECPERAN  595 (869)
Q Consensus       519 ~~~~~l~~L~~L~l~~c~~L~~l~p~-s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~--~~~~~~~~~~~L~~  595 (869)
                      ..+..+++|++|++++|.....+ |. .+               ..+++|++|+++++..-...  +....  .+++|++
T Consensus       319 ~~~~~l~~L~~L~l~~n~~~~~~-~~~~~---------------~~l~~L~~L~l~~n~l~~~~~~~~~~~--~l~~L~~  380 (606)
T 3t6q_A          319 ISASNFPSLTHLSIKGNTKRLEL-GTGCL---------------ENLENLRELDLSHDDIETSDCCNLQLR--NLSHLQS  380 (606)
T ss_dssp             GCGGGCTTCSEEECCSCSSCCBC-CSSTT---------------TTCTTCCEEECCSSCCCEEEESTTTTT--TCTTCCE
T ss_pred             hhhhccCcCCEEECCCCCccccc-chhhh---------------hccCcCCEEECCCCccccccCcchhcc--cCCCCCE
Confidence            56778888888888876433343 32 11               12577888888776543322  22222  3477777


Q ss_pred             eeecc-ccCccccccceeeEeeecceeccccceeeeecccceeeecc----ccccceEEEeecCCCccchHHHHHhcccc
Q 040040          596 LIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQA----QFHKLKILHFISDGSDFFQVGLLQNIHNL  670 (869)
Q Consensus       596 L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~----~~~~L~~L~l~~~~~~~~p~~~l~~l~~L  670 (869)
                      |++++ .+...+....         ..+++|++|++++|.+....+.    .+++|+.|++++|.....+...+..+++|
T Consensus       381 L~l~~n~l~~~~~~~~---------~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L  451 (606)
T 3t6q_A          381 LNLSYNEPLSLKTEAF---------KECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPAL  451 (606)
T ss_dssp             EECCSCSCEEECTTTT---------TTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTTCCCBTTCTTTTTTCTTC
T ss_pred             EECCCCcCCcCCHHHh---------cCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCCCccCCcCHHHHhCCCCC
Confidence            77777 5544332110         0256777788877777654332    26777777774444433332334555555


Q ss_pred             ceEEEEEEecccccccccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhccccee--EecccchhccccC
Q 040040          671 EKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEI--VFSKLKWLFLESS  748 (869)
Q Consensus       671 ~~L~l~~~~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~~~--~~~~L~~L~l~~l  748 (869)
                      ++|+                 ++++. +. ......+..+..+++|++|++++|.  +..++...  .+++|+.|++.++
T Consensus       452 ~~L~-----------------L~~n~-l~-~~~~~~~~~~~~l~~L~~L~Ls~n~--l~~~~~~~~~~l~~L~~L~Ls~N  510 (606)
T 3t6q_A          452 QHLN-----------------LQGNH-FP-KGNIQKTNSLQTLGRLEILVLSFCD--LSSIDQHAFTSLKMMNHVDLSHN  510 (606)
T ss_dssp             CEEE-----------------CTTCB-CG-GGEECSSCGGGGCTTCCEEECTTSC--CCEECTTTTTTCTTCCEEECCSS
T ss_pred             CEEE-----------------CCCCC-CC-ccccccchhhccCCCccEEECCCCc--cCccChhhhccccCCCEEECCCC
Confidence            5554                 44432 11 0000111224455556666666554  44442211  2344444444433


Q ss_pred             CCcceeecCCeeeeCCCcceEeeccCCCccccCCCCcCCCcceEEEccCCC
Q 040040          749 GSITSFCSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLD  799 (869)
Q Consensus       749 ~~l~~~~~~~~~~~~~~L~~L~i~~c~~~~~~~~~~~~~~~L~~l~~s~~~  799 (869)
                       +++..... ....+++| .|++++|......|..+...++|+.|++++|+
T Consensus       511 -~l~~~~~~-~l~~l~~L-~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~  558 (606)
T 3t6q_A          511 -RLTSSSIE-ALSHLKGI-YLNLASNHISIILPSLLPILSQQRTINLRQNP  558 (606)
T ss_dssp             -CCCGGGGG-GGTTCCSC-EEECCSSCCCCCCGGGHHHHHTSSEEECTTCC
T ss_pred             -ccCcCChh-HhCccccc-EEECcCCcccccCHhhcccCCCCCEEeCCCCC
Confidence             12221111 12245677 88889985544445555667899999998665

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.97  E-value=2.1e-29  Score=295.27  Aligned_cols=283  Identities=13%  Similarity=0.155  Sum_probs=154.3

Q ss_pred             cccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCC
Q 040040          439 KLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDP  518 (869)
Q Consensus       439 ~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p  518 (869)
                      +++.+.+..+..+....|.  +..+++|++|+++++ .+..++.+          ..+++|++|++.+|.- +.+    |
T Consensus       262 ~l~~l~l~~~~~~~~~~~~--~~~l~~L~~L~l~~~-~~~~l~~l----------~~~~~L~~L~l~~n~l-~~l----p  323 (606)
T 3vq2_A          262 TIDEFRLTYTNDFSDDIVK--FHCLANVSAMSLAGV-SIKYLEDV----------PKHFKWQSLSIIRCQL-KQF----P  323 (606)
T ss_dssp             EEEEEEECCCTTCCGGGGS--CGGGTTCSEEEEESC-CCCCCCCC----------CTTCCCSEEEEESCCC-SSC----C
T ss_pred             cHhheeccccccccccccc--cccCCCCCEEEecCc-cchhhhhc----------cccccCCEEEcccccC-ccc----c
Confidence            4556666555556554444  566777788877774 34444311          3566777777777643 555    4


Q ss_pred             CCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCcee---cCCCCCCCCCCCce
Q 040040          519 RGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTF---YSGMHTLECPERAN  595 (869)
Q Consensus       519 ~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~---~~~~~~~~~~~L~~  595 (869)
                       .+ .+++|++|++++|..+..+ +.                 ..+++|++|+++++.. ...   +....  .+++|++
T Consensus       324 -~~-~l~~L~~L~l~~n~~~~~~-~~-----------------~~l~~L~~L~ls~n~l-~~~~~~~~~~~--~~~~L~~  380 (606)
T 3vq2_A          324 -TL-DLPFLKSLTLTMNKGSISF-KK-----------------VALPSLSYLDLSRNAL-SFSGCCSYSDL--GTNSLRH  380 (606)
T ss_dssp             -CC-CCSSCCEEEEESCSSCEEC-CC-----------------CCCTTCCEEECCSSCE-EEEEECCHHHH--CCSCCCE
T ss_pred             -cC-CCCccceeeccCCcCccch-hh-----------------ccCCCCCEEECcCCcc-CCCcchhhhhc--cCCcccE
Confidence             34 7777777777776544433 21                 2356777777766542 211   11111  2356666


Q ss_pred             eeecc-ccCccccccceeeEeeecceeccccceeeeecccceeeec-c---ccccceEEEeecCCCc-cchHHHHHhccc
Q 040040          596 LIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQ-A---QFHKLKILHFISDGSD-FFQVGLLQNIHN  669 (869)
Q Consensus       596 L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~---~~~~L~~L~l~~~~~~-~~p~~~l~~l~~  669 (869)
                      |++++ .+..++....          .+++|++|++++|.+.+..+ .   .+++|+.|++++|... .+|. .+..   
T Consensus       381 L~L~~n~l~~~~~~~~----------~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-~~~~---  446 (606)
T 3vq2_A          381 LDLSFNGAIIMSANFM----------GLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDG-IFLG---  446 (606)
T ss_dssp             EECCSCSEEEECCCCT----------TCTTCCEEECTTSEEESTTTTTTTTTCTTCCEEECTTSCCEECCTT-TTTT---
T ss_pred             eECCCCccccchhhcc----------CCCCCCeeECCCCccCCccChhhhhccccCCEEECcCCCCCccchh-hhcC---
Confidence            66666 5444432110          24566666666666655433 1   2556666666333322 2332 2334   


Q ss_pred             cceEEEEEEecccccccccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhccccee--Eecccchhcccc
Q 040040          670 LEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEI--VFSKLKWLFLES  747 (869)
Q Consensus       670 L~~L~l~~~~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~~~--~~~~L~~L~l~~  747 (869)
                                    +++|++|+++++.--. .+   .+..+..+++|++|++++|.  +..++...  .+++|+.|++.+
T Consensus       447 --------------l~~L~~L~l~~n~l~~-~~---~~~~~~~l~~L~~L~Ls~n~--l~~~~~~~~~~l~~L~~L~Ls~  506 (606)
T 3vq2_A          447 --------------LTSLNTLKMAGNSFKD-NT---LSNVFANTTNLTFLDLSKCQ--LEQISWGVFDTLHRLQLLNMSH  506 (606)
T ss_dssp             --------------CTTCCEEECTTCEEGG-GE---ECSCCTTCTTCCEEECTTSC--CCEECTTTTTTCTTCCEEECCS
T ss_pred             --------------CCCCCEEECCCCcCCC-cc---hHHhhccCCCCCEEECCCCc--CCccChhhhcccccCCEEECCC
Confidence                          4455555555542111 10   12334556666666666664  44443221  345555555555


Q ss_pred             CCCcceeecCCeeeeCCCcceEeeccCCCccccCCCCcCCC-cceEEEccCCC
Q 040040          748 SGSITSFCSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTP-RLRAVQNWKLD  799 (869)
Q Consensus       748 l~~l~~~~~~~~~~~~~~L~~L~i~~c~~~~~~~~~~~~~~-~L~~l~~s~~~  799 (869)
                      + +++..... ....+++|++|++++| .++.+|.++...| .|+.|++++|+
T Consensus       507 N-~l~~~~~~-~~~~l~~L~~L~l~~N-~l~~~p~~~~~l~~~L~~l~l~~N~  556 (606)
T 3vq2_A          507 N-NLLFLDSS-HYNQLYSLSTLDCSFN-RIETSKGILQHFPKSLAFFNLTNNS  556 (606)
T ss_dssp             S-CCSCEEGG-GTTTCTTCCEEECTTS-CCCCEESCGGGSCTTCCEEECCSCC
T ss_pred             C-cCCCcCHH-HccCCCcCCEEECCCC-cCcccCHhHhhhcccCcEEEccCCC
Confidence            4 23332211 1224678999999999 4778888877777 59999998665

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=99.96  E-value=8.3e-29  Score=290.10  Aligned_cols=294  Identities=12%  Similarity=0.061  Sum_probs=168.3

Q ss_pred             ccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCccc
Q 040040          374 QLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWT  453 (869)
Q Consensus       374 ~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~  453 (869)
                      +|+.|+++++. +..++......+++|+.|++.++ .++.+|..                ...+++|++|++++|. +..
T Consensus       255 ~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~lp~~----------------l~~l~~L~~L~l~~n~-l~~  315 (606)
T 3t6q_A          255 SVESINLQKHY-FFNISSNTFHCFSGLQELDLTAT-HLSELPSG----------------LVGLSTLKKLVLSANK-FEN  315 (606)
T ss_dssp             EEEEEECTTCC-CSSCCTTTTTTCTTCSEEECTTS-CCSCCCSS----------------CCSCTTCCEEECTTCC-CSB
T ss_pred             ceeEEEeecCc-cCccCHHHhccccCCCEEeccCC-ccCCCChh----------------hcccccCCEEECccCC-cCc
Confidence            68888888874 77777666667888888888775 45555532                1226788888888775 333


Q ss_pred             ccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEe
Q 040040          454 IFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIF  533 (869)
Q Consensus       454 ~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~  533 (869)
                      . +...+..+++|++|++++|.....++.      ...  +.+++|++|+++++. ++.+.. .+..+..+++|++|+++
T Consensus       316 ~-~~~~~~~l~~L~~L~l~~n~~~~~~~~------~~~--~~l~~L~~L~l~~n~-l~~~~~-~~~~~~~l~~L~~L~l~  384 (606)
T 3t6q_A          316 L-CQISASNFPSLTHLSIKGNTKRLELGT------GCL--ENLENLRELDLSHDD-IETSDC-CNLQLRNLSHLQSLNLS  384 (606)
T ss_dssp             G-GGGCGGGCTTCSEEECCSCSSCCBCCS------STT--TTCTTCCEEECCSSC-CCEEEE-STTTTTTCTTCCEEECC
T ss_pred             C-chhhhhccCcCCEEECCCCCcccccch------hhh--hccCcCCEEECCCCc-cccccC-cchhcccCCCCCEEECC
Confidence            3 334566788888888888654434332      111  467788888888753 333310 14567788888888888


Q ss_pred             cCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCcccccccee
Q 040040          534 ECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPSFGSKSLVM  612 (869)
Q Consensus       534 ~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~~~~~~~  612 (869)
                      +| .+..+.|..+               ..+++|++|+++++......+.. ....+++|+.|++++ .+...+....  
T Consensus       385 ~n-~l~~~~~~~~---------------~~l~~L~~L~l~~n~l~~~~~~~-~~~~l~~L~~L~l~~n~l~~~~~~~~--  445 (606)
T 3t6q_A          385 YN-EPLSLKTEAF---------------KECPQLELLDLAFTRLKVKDAQS-PFQNLHLLKVLNLSHSLLDISSEQLF--  445 (606)
T ss_dssp             SC-SCEEECTTTT---------------TTCTTCSEEECTTCCEECCTTCC-TTTTCTTCCEEECTTCCCBTTCTTTT--
T ss_pred             CC-cCCcCCHHHh---------------cCCccCCeEECCCCcCCCcccch-hhhCcccCCEEECCCCccCCcCHHHH--
Confidence            74 4555434322               12577888888876533222222 111347788888877 6554332210  


Q ss_pred             eEeeecceeccccceeeeecccceee--e----ccccccceEEEeecCCCccchHHHHHhccccceEEEEEEeccccccc
Q 040040          613 LLCLIGQQVFPNLEELTLSKYIFTTW--R----QAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQ  686 (869)
Q Consensus       613 ~~~~~~~~~~~~L~~L~l~~~~~~~~--~----~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~~~~~~~~~~~  686 (869)
                             ..+++|++|++++|.+.+.  .    -..+++|+.|++++|....++...+..+++|                
T Consensus       446 -------~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L----------------  502 (606)
T 3t6q_A          446 -------DGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMM----------------  502 (606)
T ss_dssp             -------TTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSCCCEECTTTTTTCTTC----------------
T ss_pred             -------hCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCCccCccChhhhccccCC----------------
Confidence                   0257788888888876551  1    1226777777774444433332334444544                


Q ss_pred             ccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhccccee--EecccchhccccC
Q 040040          687 IKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEI--VFSKLKWLFLESS  748 (869)
Q Consensus       687 L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~~~--~~~~L~~L~l~~l  748 (869)
                       ++|+++++. ++    ...+..+..+++| .|++++|.  +..++...  .+++|+.|++.++
T Consensus       503 -~~L~Ls~N~-l~----~~~~~~l~~l~~L-~L~L~~N~--l~~~~~~~~~~l~~L~~L~l~~N  557 (606)
T 3t6q_A          503 -NHVDLSHNR-LT----SSSIEALSHLKGI-YLNLASNH--ISIILPSLLPILSQQRTINLRQN  557 (606)
T ss_dssp             -CEEECCSSC-CC----GGGGGGGTTCCSC-EEECCSSC--CCCCCGGGHHHHHTSSEEECTTC
T ss_pred             -CEEECCCCc-cC----cCChhHhCccccc-EEECcCCc--ccccCHhhcccCCCCCEEeCCCC
Confidence             444555441 22    1223334555666 66666664  44444331  3444555555443

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.96  E-value=6.3e-28  Score=282.66  Aligned_cols=503  Identities=13%  Similarity=0.074  Sum_probs=291.8

Q ss_pred             hccCceeeeccccCcccccc-ccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccc
Q 040040          117 LKGLEELWLDEVQGVENVVY-ELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLR  195 (869)
Q Consensus       117 l~~l~~L~l~~~~~~~~~~~-~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~  195 (869)
                      .++++.|++++. .+..+.. .+  .++++|++|+++++ .+..++...    +..+++|++|+++++ .++.+....  
T Consensus        31 ~~~l~~L~Ls~n-~l~~~~~~~~--~~l~~L~~L~Ls~n-~l~~i~~~~----~~~l~~L~~L~Ls~n-~l~~~~p~~--   99 (606)
T 3vq2_A           31 PSSTKNIDLSFN-PLKILKSYSF--SNFSELQWLDLSRC-EIETIEDKA----WHGLHHLSNLILTGN-PIQSFSPGS--   99 (606)
T ss_dssp             CTTCCEEECTTS-CCCEECTTTT--TTCTTCCEEECTTC-CCCEECTTT----TTTCTTCCEEECTTC-CCCCCCTTS--
T ss_pred             CCCcCEEECCCC-CcCEeChhhc--cCCccCcEEeCCCC-cccccCHHH----hhchhhcCEeECCCC-cccccChhh--
Confidence            367888998874 4444444 33  67899999999988 666664432    367899999999988 566663332  


Q ss_pred             ccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCce-eeeccccccccCCccccccccCCcccEEeccCCC
Q 040040          196 AESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMK-VIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLP  274 (869)
Q Consensus       196 ~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~-~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  274 (869)
                      .+.+++|++|++++|. ++.+++ ..++++++|++|+++++.... .+|             ..+.++++|++|+++++.
T Consensus       100 ~~~l~~L~~L~L~~n~-l~~~~~-~~~~~l~~L~~L~L~~n~l~~~~lp-------------~~~~~l~~L~~L~Ls~n~  164 (606)
T 3vq2_A          100 FSGLTSLENLVAVETK-LASLES-FPIGQLITLKKLNVAHNFIHSCKLP-------------AYFSNLTNLVHVDLSYNY  164 (606)
T ss_dssp             STTCTTCCEEECTTSC-CCCSSS-SCCTTCTTCCEEECCSSCCCCCCCC-------------GGGGTCTTCCEEECCSSC
T ss_pred             cCCcccCCEEEccCCc-cccccc-cccCCCCCCCEEeCCCCcccceech-------------HhHhhcCCCCEEEccCCc
Confidence            5689999999999984 777765 358899999999999876322 344             456678999999998864


Q ss_pred             Ccccccc--cccCCC----cCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEe
Q 040040          275 QLRSFCS--VVAFPN----LETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIR  348 (869)
Q Consensus       275 ~l~~~~~--~~~l~~----L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~  348 (869)
                       +..++.  +..+++    +++|++++|.+..+....+.     ..+|+.|+++++...... .+..++.+++|+.+++.
T Consensus       165 -l~~~~~~~~~~l~~L~~~l~~L~l~~n~l~~~~~~~~~-----~~~L~~L~L~~n~~~~~~-~~~~~~~l~~L~~l~l~  237 (606)
T 3vq2_A          165 -IQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQ-----GIKLHELTLRGNFNSSNI-MKTCLQNLAGLHVHRLI  237 (606)
T ss_dssp             -CCEECTTTTHHHHHCTTCCCEEECTTCCCCEECTTTTT-----TCEEEEEEEESCCSCHHH-HHHHHHTTTTCEEEEEE
T ss_pred             -ceecChhhhhhhhccccccceeeccCCCcceeCccccc-----CceeeeeeccCCccchhH-HHHHhcccccccccccc
Confidence             333321  222333    45899999987765444333     348999999987543333 33557888888888775


Q ss_pred             cc--ccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEe
Q 040040          349 KC--MDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVV  426 (869)
Q Consensus       349 ~c--~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~  426 (869)
                      ..  .....+......  .......+ +++.+.+.....+...... ...+++|+.|++.++. ++.++.          
T Consensus       238 ~~~~~~~~~l~~~~~~--~~~~l~~l-~l~~l~l~~~~~~~~~~~~-~~~l~~L~~L~l~~~~-~~~l~~----------  302 (606)
T 3vq2_A          238 LGEFKDERNLEIFEPS--IMEGLCDV-TIDEFRLTYTNDFSDDIVK-FHCLANVSAMSLAGVS-IKYLED----------  302 (606)
T ss_dssp             EECCTTSCCCSCCCGG--GGTTGGGS-EEEEEEECCCTTCCGGGGS-CGGGTTCSEEEEESCC-CCCCCC----------
T ss_pred             ccccccCCcccccChH--Hhhhhhhc-cHhheeccccccccccccc-cccCCCCCEEEecCcc-chhhhh----------
Confidence            32  111111000000  00001111 3444444333333332222 3446667777776643 233320          


Q ss_pred             eeeccCcccccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeeccc
Q 040040          427 GIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFC  506 (869)
Q Consensus       427 ~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~  506 (869)
                             ...+++|++|++++|.. . .+|.  + .+++|++|++++|..+..+..           ..+++|++|++++
T Consensus       303 -------l~~~~~L~~L~l~~n~l-~-~lp~--~-~l~~L~~L~l~~n~~~~~~~~-----------~~l~~L~~L~ls~  359 (606)
T 3vq2_A          303 -------VPKHFKWQSLSIIRCQL-K-QFPT--L-DLPFLKSLTLTMNKGSISFKK-----------VALPSLSYLDLSR  359 (606)
T ss_dssp             -------CCTTCCCSEEEEESCCC-S-SCCC--C-CCSSCCEEEEESCSSCEECCC-----------CCCTTCCEEECCS
T ss_pred             -------ccccccCCEEEcccccC-c-cccc--C-CCCccceeeccCCcCccchhh-----------ccCCCCCEEECcC
Confidence                   12256677777776654 3 2452  2 567777777776644443311           3566777777766


Q ss_pred             ccccccccccCCCCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCC
Q 040040          507 LPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMH  586 (869)
Q Consensus       507 ~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~  586 (869)
                      +. ++.+.. .|..+..+++|++|++++|. +..+ |..+               ..+++|+.|+++++......+.. .
T Consensus       360 n~-l~~~~~-~~~~~~~~~~L~~L~L~~n~-l~~~-~~~~---------------~~l~~L~~L~l~~n~l~~~~~~~-~  419 (606)
T 3vq2_A          360 NA-LSFSGC-CSYSDLGTNSLRHLDLSFNG-AIIM-SANF---------------MGLEELQHLDFQHSTLKRVTEFS-A  419 (606)
T ss_dssp             SC-EEEEEE-CCHHHHCCSCCCEEECCSCS-EEEE-CCCC---------------TTCTTCCEEECTTSEEESTTTTT-T
T ss_pred             Cc-cCCCcc-hhhhhccCCcccEeECCCCc-cccc-hhhc---------------cCCCCCCeeECCCCccCCccChh-h
Confidence            42 322200 03445666777777776643 4444 3222               12566777777665432221111 1


Q ss_pred             CCCCCCCceeeecc-ccCccccccceeeEeeecceeccccceeeeeccccee-eecc---ccccceEEEeecCCCccchH
Q 040040          587 TLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTT-WRQA---QFHKLKILHFISDGSDFFQV  661 (869)
Q Consensus       587 ~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~---~~~~L~~L~l~~~~~~~~p~  661 (869)
                      ...+++|++|++++ .+........         ..+++|++|++++|.+.+ +.+.   .+++|+.|++++|....++.
T Consensus       420 ~~~l~~L~~L~l~~n~l~~~~~~~~---------~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~  490 (606)
T 3vq2_A          420 FLSLEKLLYLDISYTNTKIDFDGIF---------LGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISW  490 (606)
T ss_dssp             TTTCTTCCEEECTTSCCEECCTTTT---------TTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECT
T ss_pred             hhccccCCEEECcCCCCCccchhhh---------cCCCCCCEEECCCCcCCCcchHHhhccCCCCCEEECCCCcCCccCh
Confidence            11246777777766 5443221110         024677777777776665 2332   25677777774444433333


Q ss_pred             HHHHhccccceEEEE---E----EecccccccccEEEcCccccccccccCCCCCcccccC-CccEEEEeccc
Q 040040          662 GLLQNIHNLEKLVLK---V----EEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQ-NLEFLEVKECA  725 (869)
Q Consensus       662 ~~l~~l~~L~~L~l~---~----~~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~-~L~~L~l~~c~  725 (869)
                      ..+..+++|++|+++   +    ......+++|+.|+++++. ++ .+    +..+..++ +|++|++++|+
T Consensus       491 ~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l~~N~-l~-~~----p~~~~~l~~~L~~l~l~~N~  556 (606)
T 3vq2_A          491 GVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNR-IE-TS----KGILQHFPKSLAFFNLTNNS  556 (606)
T ss_dssp             TTTTTCTTCCEEECCSSCCSCEEGGGTTTCTTCCEEECTTSC-CC-CE----ESCGGGSCTTCCEEECCSCC
T ss_pred             hhhcccccCCEEECCCCcCCCcCHHHccCCCcCCEEECCCCc-Cc-cc----CHhHhhhcccCcEEEccCCC
Confidence            346667777777776   1    1223447888899999863 55 44    23366776 69999999997

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.96  E-value=1.9e-27  Score=287.99  Aligned_cols=159  Identities=14%  Similarity=0.149  Sum_probs=91.2

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      .++|++|+++++ .++.+....    +..+++|++|+++++.....++...  .+.+++|++|++++|. +..+++ ..+
T Consensus        23 p~~l~~LdLs~N-~i~~i~~~~----~~~l~~L~~LdLs~n~~~~~i~~~~--f~~L~~L~~L~Ls~N~-l~~~~p-~~~   93 (844)
T 3j0a_A           23 LNTTERLLLSFN-YIRTVTASS----FPFLEQLQLLELGSQYTPLTIDKEA--FRNLPNLRILDLGSSK-IYFLHP-DAF   93 (844)
T ss_dssp             CTTCCEEEEESC-CCCEECSSS----CSSCCSCSEEEECTTCCCCEECTTT--TSSCTTCCEEECTTCC-CCEECT-TSS
T ss_pred             CCCcCEEECCCC-cCCccChhH----CcccccCeEEeCCCCCCccccCHHH--hcCCCCCCEEECCCCc-CcccCH-hHc
Confidence            467888888877 555553322    3577778888887774444443322  3467778888887774 655544 467


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccc--cccccCCCcCEEEeccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSF--CSVVAFPNLETLKLSAINSET  300 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~--~~~~~l~~L~~L~L~~~~l~~  300 (869)
                      +++++|++|++++|.....++..           ..+..+++|++|+++++.-....  +.+..+++|++|++++|.+..
T Consensus        94 ~~l~~L~~L~Ls~n~l~~~~~~~-----------~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~  162 (844)
T 3j0a_A           94 QGLFHLFELRLYFCGLSDAVLKD-----------GYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFL  162 (844)
T ss_dssp             CSCSSCCCEECTTCCCSSCCSTT-----------CCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCC
T ss_pred             cCCcccCEeeCcCCCCCcccccC-----------ccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCe
Confidence            77778888887776533223310           11345667777777665422111  124556667777776665443


Q ss_pred             cccCCCCCccccc--CCceEEEEecCC
Q 040040          301 IWHNQLPAMSSCI--QNLTRLIVHGCN  325 (869)
Q Consensus       301 i~~~~~~~~~~~l--~~L~~L~l~~c~  325 (869)
                      +...    .+..+  ++|+.|+++++.
T Consensus       163 ~~~~----~l~~l~~~~L~~L~L~~n~  185 (844)
T 3j0a_A          163 VCEH----ELEPLQGKTLSFFSLAANS  185 (844)
T ss_dssp             CCSG----GGHHHHHCSSCCCEECCSB
T ss_pred             eCHH----HcccccCCccceEECCCCc
Confidence            2211    12223  566666666643

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.95  E-value=2.8e-26  Score=277.66  Aligned_cols=497  Identities=16%  Similarity=0.127  Sum_probs=281.6

Q ss_pred             EEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCC
Q 040040          148 LLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQ  227 (869)
Q Consensus       148 ~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~  227 (869)
                      ..+.+++ +++.+|.        ..+++++|+++++ .++.+....  ...+++|++|++++|.....+++ ..++++++
T Consensus         8 ~~dcs~~-~L~~vP~--------lp~~l~~LdLs~N-~i~~i~~~~--~~~l~~L~~LdLs~n~~~~~i~~-~~f~~L~~   74 (844)
T 3j0a_A            8 IAFYRFC-NLTQVPQ--------VLNTTERLLLSFN-YIRTVTASS--FPFLEQLQLLELGSQYTPLTIDK-EAFRNLPN   74 (844)
T ss_dssp             EEEESCC-CSSCCCS--------SCTTCCEEEEESC-CCCEECSSS--CSSCCSCSEEEECTTCCCCEECT-TTTSSCTT
T ss_pred             EEEccCC-CCCCCCC--------CCCCcCEEECCCC-cCCccChhH--CcccccCeEEeCCCCCCccccCH-HHhcCCCC
Confidence            3444454 6666663        3578999999998 677665443  45899999999999976666644 57899999


Q ss_pred             CcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc---cccCCCcCEEEeccccccccccC
Q 040040          228 LQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS---VVAFPNLETLKLSAINSETIWHN  304 (869)
Q Consensus       228 L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~---~~~l~~L~~L~L~~~~l~~i~~~  304 (869)
                      |++|+++++. +..+..            ..+..+++|++|+++++.--..++.   +..+++|++|++++|.+..+.  
T Consensus        75 L~~L~Ls~N~-l~~~~p------------~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~--  139 (844)
T 3j0a_A           75 LRILDLGSSK-IYFLHP------------DAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLY--  139 (844)
T ss_dssp             CCEEECTTCC-CCEECT------------TSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCC--
T ss_pred             CCEEECCCCc-CcccCH------------hHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccc--
Confidence            9999999876 444421            3456789999999998753332332   567889999999999755432  


Q ss_pred             CCCCcccccCCceEEEEecCCCCccccChhhHhcc--CCccEEEEeccccccccccccccccccccccccC------ccc
Q 040040          305 QLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSF--VQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFP------QLN  376 (869)
Q Consensus       305 ~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L--~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~------~L~  376 (869)
                       .+..++.+++|++|+++++ .++.+.+ ..+..+  ++|+.|+++++. +......        ....++      +|+
T Consensus       140 -~~~~~~~L~~L~~L~Ls~N-~i~~~~~-~~l~~l~~~~L~~L~L~~n~-l~~~~~~--------~~~~~~~~~~~~~L~  207 (844)
T 3j0a_A          140 -LHPSFGKLNSLKSIDFSSN-QIFLVCE-HELEPLQGKTLSFFSLAANS-LYSRVSV--------DWGKCMNPFRNMVLE  207 (844)
T ss_dssp             -CCGGGGTCSSCCEEEEESS-CCCCCCS-GGGHHHHHCSSCCCEECCSB-SCCCCCC--------CCCSSSCTTTTCCBS
T ss_pred             -cchhHhhCCCCCEEECCCC-cCCeeCH-HHcccccCCccceEECCCCc-ccccccc--------chhhcCCccccCcee
Confidence             2234567899999999885 4454433 335555  889999998864 3321111        111222      488


Q ss_pred             eeecccCccccccCCCcc--cCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccc
Q 040040          377 FLKMKDLAKLTRFCSGNC--IELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTI  454 (869)
Q Consensus       377 ~L~l~~~~~L~~l~~~~~--~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~  454 (869)
                      .|+++++.--...+....  ...+.++.+.+..+..-..+....+. ..    ....+.....++|+.|++++|. +...
T Consensus       208 ~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~-~~----~~~~f~~l~~~~L~~L~Ls~n~-l~~~  281 (844)
T 3j0a_A          208 ILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIK-DP----DQNTFAGLARSSVRHLDLSHGF-VFSL  281 (844)
T ss_dssp             EEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBCSSSCSSST-TG----GGTTTTTTTTSCCCEEECTTCC-CCEE
T ss_pred             EEecCCCcCchhHHHHHHhhcCcccccceecccccccccccccccC-CC----ChhhhhccccCCccEEECCCCc-cccc
Confidence            888888742112221111  12245666666532111111100000 00    0111111223677778777765 3332


Q ss_pred             cchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEec
Q 040040          455 FPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFE  534 (869)
Q Consensus       455 ~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~  534 (869)
                       +...+..+++|++|+++++ .+..+..      ...  ..+++|++|+++++ .++.+   .|..+..+++|++|++++
T Consensus       282 -~~~~~~~l~~L~~L~L~~n-~i~~~~~------~~~--~~l~~L~~L~Ls~N-~l~~~---~~~~~~~l~~L~~L~L~~  347 (844)
T 3j0a_A          282 -NSRVFETLKDLKVLNLAYN-KINKIAD------EAF--YGLDNLQVLNLSYN-LLGEL---YSSNFYGLPKVAYIDLQK  347 (844)
T ss_dssp             -CSCCSSSCCCCCEEEEESC-CCCEECT------TTT--TTCSSCCEEEEESC-CCSCC---CSCSCSSCTTCCEEECCS
T ss_pred             -ChhhhhcCCCCCEEECCCC-cCCCCCh------HHh--cCCCCCCEEECCCC-CCCcc---CHHHhcCCCCCCEEECCC
Confidence             3344566777888888773 3443322      111  35677777777775 34433   355677777777777776


Q ss_pred             CCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCccccccceee
Q 040040          535 CQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPSFGSKSLVML  613 (869)
Q Consensus       535 c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~~~~~~~~  613 (869)
                      + .+..+.|..+               ..+++|++|+++++. ++.++.      +++|+.|++++ ++..++..     
T Consensus       348 N-~i~~~~~~~~---------------~~l~~L~~L~Ls~N~-l~~i~~------~~~L~~L~l~~N~l~~l~~~-----  399 (844)
T 3j0a_A          348 N-HIAIIQDQTF---------------KFLEKLQTLDLRDNA-LTTIHF------IPSIPDIFLSGNKLVTLPKI-----  399 (844)
T ss_dssp             C-CCCCCCSSCS---------------CSCCCCCEEEEETCC-SCCCSS------CCSCSEEEEESCCCCCCCCC-----
T ss_pred             C-CCCccChhhh---------------cCCCCCCEEECCCCC-CCcccC------CCCcchhccCCCCccccccc-----
Confidence            4 5555522211               125677777777654 222221      36677777777 66655542     


Q ss_pred             Eeeecceeccccceeeeecccceeeec----cccccceEEEeecCCCcc-chHHHHHhccccceEEEE---EE-------
Q 040040          614 LCLIGQQVFPNLEELTLSKYIFTTWRQ----AQFHKLKILHFISDGSDF-FQVGLLQNIHNLEKLVLK---VE-------  678 (869)
Q Consensus       614 ~~~~~~~~~~~L~~L~l~~~~~~~~~~----~~~~~L~~L~l~~~~~~~-~p~~~l~~l~~L~~L~l~---~~-------  678 (869)
                              ..+++.|++++|.+..+..    ..+++|+.|++++|.... .+...+..+++|+.|+++   +.       
T Consensus       400 --------~~~l~~L~ls~N~l~~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~L~~L~Ls~N~l~~~~~~~~  471 (844)
T 3j0a_A          400 --------NLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETEL  471 (844)
T ss_dssp             --------CTTCCEEECCSCCCCSSTTHHHHTTCTTCCEEEEESCCCCCCCSSSSSCSCTTCCBCEEESCCCSSSCCSCC
T ss_pred             --------ccccceeecccCccccCchhhhhhcCCccceeeCCCCcccccccccccccCCccccccCCCCcccccccccc
Confidence                    3567777777776665432    135667777774433332 222223345666666665   11       


Q ss_pred             --ecccccccccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhcccceeEecccchhcccc
Q 040040          679 --EHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLES  747 (869)
Q Consensus       679 --~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~~~~~~~L~~L~l~~  747 (869)
                        ....++++|+.|+++++ .++    ...+.....+++|+.|++++|.  +..++.....++|+.|++.+
T Consensus       472 ~~~~~~~l~~L~~L~Ls~N-~l~----~~~~~~~~~l~~L~~L~Ls~N~--l~~l~~~~~~~~L~~L~Ls~  535 (844)
T 3j0a_A          472 CWDVFEGLSHLQVLYLNHN-YLN----SLPPGVFSHLTALRGLSLNSNR--LTVLSHNDLPANLEILDISR  535 (844)
T ss_dssp             CSSCSSCBCCEECCCCCHH-HHT----TCCTTSSSSCCSCSEEEEESCC--CSSCCCCCCCSCCCEEEEEE
T ss_pred             chhhhcCcccccEEECCCC-ccc----ccChhHccchhhhheeECCCCC--CCccChhhhhccccEEECCC
Confidence              01123455555555554 222    1222334455666666666664  55555444344555555444

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.95  E-value=4.9e-26  Score=263.30  Aligned_cols=469  Identities=14%  Similarity=0.104  Sum_probs=275.4

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      .++|++|+++++ .++.++...    +..+++|++|+++++ .++.++...  .+.+++|++|++++| .++.+++ ..+
T Consensus        25 ~~~L~~L~Ls~n-~l~~~~~~~----~~~l~~L~~L~Ls~n-~i~~~~~~~--~~~l~~L~~L~Ls~n-~l~~~~~-~~~   94 (549)
T 2z81_A           25 TAAMKSLDLSFN-KITYIGHGD----LRACANLQVLILKSS-RINTIEGDA--FYSLGSLEHLDLSDN-HLSSLSS-SWF   94 (549)
T ss_dssp             CTTCCEEECCSS-CCCEECSST----TSSCTTCCEEECTTS-CCCEECTTT--TTTCTTCCEEECTTS-CCCSCCH-HHH
T ss_pred             CCCccEEECcCC-ccCccChhh----hhcCCcccEEECCCC-CcCccChhh--ccccccCCEEECCCC-ccCccCH-HHh
Confidence            368888888887 566554321    367888888888887 566655433  347888888888888 4776654 457


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccc--ccccCCCcCEEEeccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFC--SVVAFPNLETLKLSAINSET  300 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~--~~~~l~~L~~L~L~~~~l~~  300 (869)
                      +++++|++|+++++. +..++..           ..+..+++|++|+++++..+..++  .+..+++|++|++++|.+..
T Consensus        95 ~~l~~L~~L~Ls~n~-l~~~~~~-----------~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~  162 (549)
T 2z81_A           95 GPLSSLKYLNLMGNP-YQTLGVT-----------SLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRN  162 (549)
T ss_dssp             TTCTTCCEEECTTCC-CSSSCSS-----------CSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCE
T ss_pred             ccCCCCcEEECCCCc-ccccchh-----------hhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccc
Confidence            888888888888765 3322100           234567888888888876555554  35667888888888887554


Q ss_pred             cccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeec
Q 040040          301 IWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKM  380 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l  380 (869)
                      .    .|..++.+++|++|+++++. ...+ +...+..+++|++|+++++ .+..+......     ....+++|+.|++
T Consensus       163 ~----~~~~l~~l~~L~~L~l~~n~-~~~~-~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~-----~~~~~~~L~~L~l  230 (549)
T 2z81_A          163 Y----QSQSLKSIRDIHHLTLHLSE-SAFL-LEIFADILSSVRYLELRDT-NLARFQFSPLP-----VDEVSSPMKKLAF  230 (549)
T ss_dssp             E----CTTTTTTCSEEEEEEEECSB-STTH-HHHHHHSTTTBSEEEEESC-BCTTCCCCCCS-----SCCCCCCCCEEEE
T ss_pred             c----ChhhhhccccCceEecccCc-cccc-chhhHhhcccccEEEccCC-ccccccccccc-----hhhhhhcccceec
Confidence            3    33344557888888888754 3333 4444566888888888885 44433111000     1224677888887


Q ss_pred             ccCccccccCC----CcccCCCCccEEEEccCCccc--cccccccCCCceEeeeeccCcccccccccEEEEeccCCcccc
Q 040040          381 KDLAKLTRFCS----GNCIELPSLKQLRMAKCPELK--AFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTI  454 (869)
Q Consensus       381 ~~~~~L~~l~~----~~~~~l~~L~~L~l~~c~~l~--~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~  454 (869)
                      .++. +.....    .....+++|+.+.+.+|.--.  .++...            .-....+++|+.|.+.++..-...
T Consensus       231 ~~n~-l~~~~~~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~------------~~~~~~l~~L~~L~l~~~~i~~~~  297 (549)
T 2z81_A          231 RGSV-LTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSE------------SDVVSELGKVETVTIRRLHIPQFY  297 (549)
T ss_dssp             ESCE-EEHHHHHHHHGGGGGCTTCCEEEEESCEEECCSCCCCCT------------TTCCCCCTTCCEEEEESCBCSCGG
T ss_pred             cccc-cchhHHHHHHHHhhhhccccccccccccccccccccccc------------hhhhhhhcccccccccccccchhh
Confidence            7764 221100    011235677777777764211  111000            000122566777777665321100


Q ss_pred             ---cchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEE
Q 040040          455 ---FPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVR  531 (869)
Q Consensus       455 ---~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~  531 (869)
                         -........++|++|+++++ .+..++....        +.+++|++|+++++.--..+.. .+..+..+++|++|+
T Consensus       298 ~~~~l~~~~~~~~~L~~L~l~~n-~l~~ip~~~~--------~~l~~L~~L~Ls~N~l~~~~~~-~~~~~~~l~~L~~L~  367 (549)
T 2z81_A          298 LFYDLSTVYSLLEKVKRITVENS-KVFLVPCSFS--------QHLKSLEFLDLSENLMVEEYLK-NSACKGAWPSLQTLV  367 (549)
T ss_dssp             GSCCCCHHHHHSTTCCEEEEESS-CCCCCCHHHH--------HHCTTCCEEECCSSCCCHHHHH-HHTCTTSSTTCCEEE
T ss_pred             hcccchhhhhhcccceEEEeccC-ccccCCHHHH--------hcCccccEEEccCCcccccccc-chhhhhccccCcEEE
Confidence               00112334566777777763 3555442100        1466777777777543222100 012355677777777


Q ss_pred             EecCCCcccccCc---cEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCcccc
Q 040040          532 IFECQRLKSIFPT---SVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPSFGS  607 (869)
Q Consensus       532 l~~c~~L~~l~p~---s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~~  607 (869)
                      +++| .++.+ |.   .+               ..+++|++|++++| .++.++.....  +++|++|++++ ++..++.
T Consensus       368 Ls~N-~l~~~-~~~~~~~---------------~~l~~L~~L~Ls~N-~l~~lp~~~~~--~~~L~~L~Ls~N~l~~l~~  427 (549)
T 2z81_A          368 LSQN-HLRSM-QKTGEIL---------------LTLKNLTSLDISRN-TFHPMPDSCQW--PEKMRFLNLSSTGIRVVKT  427 (549)
T ss_dssp             CTTS-CCCCH-HHHHHHG---------------GGCTTCCEEECTTC-CCCCCCSCCCC--CTTCCEEECTTSCCSCCCT
T ss_pred             ccCC-ccccc-ccchhhh---------------hcCCCCCEEECCCC-CCccCChhhcc--cccccEEECCCCCcccccc
Confidence            7764 45443 21   01               12567777777776 34455544333  37777787777 7766654


Q ss_pred             ccceeeEeeecceeccccceeeeecccceeeeccccccceEEEeecCCCccchHHHHHhccccceEEEEEEecccccccc
Q 040040          608 KSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQI  687 (869)
Q Consensus       608 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~~~~~~~~~~~L  687 (869)
                      ..            +++|++|++++|.+.++. ..+++|++|++++|....+|..  ..                 +++|
T Consensus       428 ~~------------~~~L~~L~Ls~N~l~~~~-~~l~~L~~L~Ls~N~l~~ip~~--~~-----------------l~~L  475 (549)
T 2z81_A          428 CI------------PQTLEVLDVSNNNLDSFS-LFLPRLQELYISRNKLKTLPDA--SL-----------------FPVL  475 (549)
T ss_dssp             TS------------CTTCSEEECCSSCCSCCC-CCCTTCCEEECCSSCCSSCCCG--GG-----------------CTTC
T ss_pred             hh------------cCCceEEECCCCChhhhc-ccCChhcEEECCCCccCcCCCc--cc-----------------CccC
Confidence            32            468888888888877654 4577888888866665566632  22                 4456


Q ss_pred             cEEEcCccccccccccCCCCCcccccCCccEEEEeccc
Q 040040          688 KSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECA  725 (869)
Q Consensus       688 ~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~  725 (869)
                      +.|+++++ .++    ...+..+..+++|+.|++++|+
T Consensus       476 ~~L~Ls~N-~l~----~~~~~~~~~l~~L~~L~l~~N~  508 (549)
T 2z81_A          476 LVMKISRN-QLK----SVPDGIFDRLTSLQKIWLHTNP  508 (549)
T ss_dssp             CEEECCSS-CCC----CCCTTGGGGCTTCCEEECCSSC
T ss_pred             CEEecCCC-ccC----CcCHHHHhcCcccCEEEecCCC
Confidence            66666764 333    2233446778888888888887

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.95  E-value=6.1e-26  Score=262.46  Aligned_cols=465  Identities=18%  Similarity=0.199  Sum_probs=316.2

Q ss_pred             ccCceeeeccccCcccccc-ccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccc
Q 040040          118 KGLEELWLDEVQGVENVVY-ELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRA  196 (869)
Q Consensus       118 ~~l~~L~l~~~~~~~~~~~-~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~  196 (869)
                      ++++.|+++++. +..+.+ .+  ..+++|++|+++++ .+..++...    +..+++|++|+++++ .+++++...  .
T Consensus        26 ~~L~~L~Ls~n~-l~~~~~~~~--~~l~~L~~L~Ls~n-~i~~~~~~~----~~~l~~L~~L~Ls~n-~l~~~~~~~--~   94 (549)
T 2z81_A           26 AAMKSLDLSFNK-ITYIGHGDL--RACANLQVLILKSS-RINTIEGDA----FYSLGSLEHLDLSDN-HLSSLSSSW--F   94 (549)
T ss_dssp             TTCCEEECCSSC-CCEECSSTT--SSCTTCCEEECTTS-CCCEECTTT----TTTCTTCCEEECTTS-CCCSCCHHH--H
T ss_pred             CCccEEECcCCc-cCccChhhh--hcCCcccEEECCCC-CcCccChhh----ccccccCCEEECCCC-ccCccCHHH--h
Confidence            678999999854 555443 34  77999999999998 676665432    368899999999998 676655432  4


Q ss_pred             cccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCc
Q 040040          197 ESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQL  276 (869)
Q Consensus       197 ~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l  276 (869)
                      +.+++|++|++++|. ++.++....++++++|++|+++++..+..++.            ..+..+++|++|+++++.--
T Consensus        95 ~~l~~L~~L~Ls~n~-l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~------------~~~~~l~~L~~L~L~~n~l~  161 (549)
T 2z81_A           95 GPLSSLKYLNLMGNP-YQTLGVTSLFPNLTNLQTLRIGNVETFSEIRR------------IDFAGLTSLNELEIKALSLR  161 (549)
T ss_dssp             TTCTTCCEEECTTCC-CSSSCSSCSCTTCTTCCEEEEEESSSCCEECT------------TTTTTCCEEEEEEEEETTCC
T ss_pred             ccCCCCcEEECCCCc-ccccchhhhhhccCCccEEECCCCccccccCH------------hhhhcccccCeeeccCCccc
Confidence            589999999999995 66543324789999999999999886777662            24566899999999986533


Q ss_pred             cccc-ccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCcccc--ChhhHhccCCccEEEEeccccc
Q 040040          277 RSFC-SVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLF--STSLVRSFVQLQHLEIRKCMDL  353 (869)
Q Consensus       277 ~~~~-~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~--~~~~~~~L~~L~~L~l~~c~~l  353 (869)
                      ...+ .+..+++|++|+++++.+..+...    ....+++|++|+++++. ++...  +......+++|+.|+++++ .+
T Consensus       162 ~~~~~~l~~l~~L~~L~l~~n~~~~~~~~----~~~~l~~L~~L~L~~n~-l~~~~~~~~~~~~~~~~L~~L~l~~n-~l  235 (549)
T 2z81_A          162 NYQSQSLKSIRDIHHLTLHLSESAFLLEI----FADILSSVRYLELRDTN-LARFQFSPLPVDEVSSPMKKLAFRGS-VL  235 (549)
T ss_dssp             EECTTTTTTCSEEEEEEEECSBSTTHHHH----HHHSTTTBSEEEEESCB-CTTCCCCCCSSCCCCCCCCEEEEESC-EE
T ss_pred             ccChhhhhccccCceEecccCcccccchh----hHhhcccccEEEccCCc-cccccccccchhhhhhcccceecccc-cc
Confidence            3233 356688999999999874432211    12347899999999864 33321  2222356789999999986 33


Q ss_pred             cccccccccccccccccccCccceeecccCccccccCC------CcccCCCCccEEEEccCCccccccccccCCCceEee
Q 040040          354 EGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCS------GNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVG  427 (869)
Q Consensus       354 ~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~------~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~  427 (869)
                      .......    .......+++|+.+++.+|. +..+..      .....+++|+.|.+.++. +..+...          
T Consensus       236 ~~~~~~~----l~~~~~~~~~L~~l~l~~~~-~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~-i~~~~~~----------  299 (549)
T 2z81_A          236 TDESFNE----LLKLLRYILELSEVEFDDCT-LNGLGDFNPSESDVVSELGKVETVTIRRLH-IPQFYLF----------  299 (549)
T ss_dssp             EHHHHHH----HHGGGGGCTTCCEEEEESCE-EECCSCCCCCTTTCCCCCTTCCEEEEESCB-CSCGGGS----------
T ss_pred             chhHHHH----HHHHhhhhcccccccccccc-ccccccccccchhhhhhhcccccccccccc-cchhhhc----------
Confidence            3211100    00123467899999999886 333211      122357788999887753 1111100          


Q ss_pred             eeccCc--ccccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecc
Q 040040          428 IQSFFN--EKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVF  505 (869)
Q Consensus       428 ~~~~~~--~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~  505 (869)
                        ..++  .....+|++|++++|. +. .+|...++.+++|++|++++|.....++...    ...  +.+++|++|+++
T Consensus       300 --~~l~~~~~~~~~L~~L~l~~n~-l~-~ip~~~~~~l~~L~~L~Ls~N~l~~~~~~~~----~~~--~~l~~L~~L~Ls  369 (549)
T 2z81_A          300 --YDLSTVYSLLEKVKRITVENSK-VF-LVPCSFSQHLKSLEFLDLSENLMVEEYLKNS----ACK--GAWPSLQTLVLS  369 (549)
T ss_dssp             --CCCCHHHHHSTTCCEEEEESSC-CC-CCCHHHHHHCTTCCEEECCSSCCCHHHHHHH----TCT--TSSTTCCEEECT
T ss_pred             --ccchhhhhhcccceEEEeccCc-cc-cCCHHHHhcCccccEEEccCCccccccccch----hhh--hccccCcEEEcc
Confidence              0000  0124789999999876 44 3688777889999999999965444332210    001  478899999999


Q ss_pred             cccccccccccCCCCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCC
Q 040040          506 CLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGM  585 (869)
Q Consensus       506 ~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~  585 (869)
                      ++ .++.+... +..+..+++|++|++++| +++.+ |..+               ..+++|++|+++++. +..++...
T Consensus       370 ~N-~l~~~~~~-~~~~~~l~~L~~L~Ls~N-~l~~l-p~~~---------------~~~~~L~~L~Ls~N~-l~~l~~~~  429 (549)
T 2z81_A          370 QN-HLRSMQKT-GEILLTLKNLTSLDISRN-TFHPM-PDSC---------------QWPEKMRFLNLSSTG-IRVVKTCI  429 (549)
T ss_dssp             TS-CCCCHHHH-HHHGGGCTTCCEEECTTC-CCCCC-CSCC---------------CCCTTCCEEECTTSC-CSCCCTTS
T ss_pred             CC-cccccccc-hhhhhcCCCCCEEECCCC-CCccC-Chhh---------------cccccccEEECCCCC-cccccchh
Confidence            96 55554100 124788999999999985 77776 7543               246899999999986 44444322


Q ss_pred             CCCCCCCCceeeecc-ccCccccccceeeEeeecceeccccceeeeecccceeeecc-ccccceEEEeecCCCccchHHH
Q 040040          586 HTLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQA-QFHKLKILHFISDGSDFFQVGL  663 (869)
Q Consensus       586 ~~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~p~~~  663 (869)
                          .++|+.|++++ ++..++.             .+++|++|++++|++..++.. .+++|+.|++++|....+|...
T Consensus       430 ----~~~L~~L~Ls~N~l~~~~~-------------~l~~L~~L~Ls~N~l~~ip~~~~l~~L~~L~Ls~N~l~~~~~~~  492 (549)
T 2z81_A          430 ----PQTLEVLDVSNNNLDSFSL-------------FLPRLQELYISRNKLKTLPDASLFPVLLVMKISRNQLKSVPDGI  492 (549)
T ss_dssp             ----CTTCSEEECCSSCCSCCCC-------------CCTTCCEEECCSSCCSSCCCGGGCTTCCEEECCSSCCCCCCTTG
T ss_pred             ----cCCceEEECCCCChhhhcc-------------cCChhcEEECCCCccCcCCCcccCccCCEEecCCCccCCcCHHH
Confidence                26899999999 8877653             368999999999999877653 3899999999555555555444


Q ss_pred             HHhccccceEEE
Q 040040          664 LQNIHNLEKLVL  675 (869)
Q Consensus       664 l~~l~~L~~L~l  675 (869)
                      +..+++|+.|++
T Consensus       493 ~~~l~~L~~L~l  504 (549)
T 2z81_A          493 FDRLTSLQKIWL  504 (549)
T ss_dssp             GGGCTTCCEEEC
T ss_pred             HhcCcccCEEEe
Confidence            566665555543

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.94  E-value=1e-25  Score=262.08  Aligned_cols=132  Identities=21%  Similarity=0.225  Sum_probs=74.6

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhc
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISR  223 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~  223 (869)
                      +++++|+++++ .++.++...    +..+++|++|+++++ +++.++...  .+.+++|++|+++++. ++.+++ ..++
T Consensus        28 ~~l~~L~Ls~n-~l~~~~~~~----~~~l~~L~~L~Ls~n-~i~~i~~~~--~~~l~~L~~L~L~~n~-l~~~~~-~~~~   97 (570)
T 2z63_A           28 FSTKNLDLSFN-PLRHLGSYS----FFSFPELQVLDLSRC-EIQTIEDGA--YQSLSHLSTLILTGNP-IQSLAL-GAFS   97 (570)
T ss_dssp             SSCCEEECCSC-CCCEECTTT----TTTCSSCCEEECTTC-CCCEECTTT--TTTCTTCCEEECTTCC-CCEECT-TTTT
T ss_pred             ccccEEEccCC-ccCccChhH----hhCCCCceEEECCCC-cCCccCccc--ccCchhCCEEeCcCCc-CCccCH-hhhc
Confidence            46777777776 555554322    356777777777776 455554332  3367777777777774 665544 3566


Q ss_pred             CCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccc--cc-ccccCCCcCEEEecccccc
Q 040040          224 GLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRS--FC-SVVAFPNLETLKLSAINSE  299 (869)
Q Consensus       224 ~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~--~~-~~~~l~~L~~L~L~~~~l~  299 (869)
                      ++++|++|+++++. +..++.            ..+..+++|++|+++++. +..  +| .+..+++|++|++++|.+.
T Consensus        98 ~l~~L~~L~L~~n~-l~~l~~------------~~~~~l~~L~~L~L~~n~-l~~~~lp~~~~~l~~L~~L~l~~n~l~  162 (570)
T 2z63_A           98 GLSSLQKLVAVETN-LASLEN------------FPIGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLDLSSNKIQ  162 (570)
T ss_dssp             TCTTCCEEECTTSC-CCCSTT------------CSCTTCTTCCEEECCSSC-CCCCCCCGGGGGCTTCCEEECTTSCCC
T ss_pred             Cccccccccccccc-cccCCC------------ccccccccccEEecCCCc-cceecChhhhcccCCCCEEeCcCCccc
Confidence            77777777777653 343331            123445666666665543 221  12 2344555555555555543

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.93  E-value=1.8e-24  Score=251.40  Aligned_cols=454  Identities=14%  Similarity=0.121  Sum_probs=287.1

Q ss_pred             hccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccc
Q 040040          117 LKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRA  196 (869)
Q Consensus       117 l~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~  196 (869)
                      .++++.|++++. .+..+..... .++++|++|++++| .++.++...    +..+++|++|+++++ .++.++...  .
T Consensus        27 ~~~l~~L~Ls~n-~l~~~~~~~~-~~l~~L~~L~Ls~n-~i~~i~~~~----~~~l~~L~~L~L~~n-~l~~~~~~~--~   96 (570)
T 2z63_A           27 PFSTKNLDLSFN-PLRHLGSYSF-FSFPELQVLDLSRC-EIQTIEDGA----YQSLSHLSTLILTGN-PIQSLALGA--F   96 (570)
T ss_dssp             CSSCCEEECCSC-CCCEECTTTT-TTCSSCCEEECTTC-CCCEECTTT----TTTCTTCCEEECTTC-CCCEECTTT--T
T ss_pred             cccccEEEccCC-ccCccChhHh-hCCCCceEEECCCC-cCCccCccc----ccCchhCCEEeCcCC-cCCccCHhh--h
Confidence            356888888874 3444433221 67899999999988 677665432    367889999999988 566665433  4


Q ss_pred             cccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCce-eeeccccccccCCccccccccCCcccEEeccCCCC
Q 040040          197 ESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMK-VIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQ  275 (869)
Q Consensus       197 ~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~-~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~  275 (869)
                      +.+++|++|+++++ +++.+++. .++++++|++|+++++.... .+|             ..+.++++|++|+++++. 
T Consensus        97 ~~l~~L~~L~L~~n-~l~~l~~~-~~~~l~~L~~L~L~~n~l~~~~lp-------------~~~~~l~~L~~L~l~~n~-  160 (570)
T 2z63_A           97 SGLSSLQKLVAVET-NLASLENF-PIGHLKTLKELNVAHNLIQSFKLP-------------EYFSNLTNLEHLDLSSNK-  160 (570)
T ss_dssp             TTCTTCCEEECTTS-CCCCSTTC-SCTTCTTCCEEECCSSCCCCCCCC-------------GGGGGCTTCCEEECTTSC-
T ss_pred             cCcccccccccccc-ccccCCCc-cccccccccEEecCCCccceecCh-------------hhhcccCCCCEEeCcCCc-
Confidence            57899999999988 47777552 47889999999999875322 234             346678899999998864 


Q ss_pred             ccccc--ccccCCCc----CEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEE---
Q 040040          276 LRSFC--SVVAFPNL----ETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLE---  346 (869)
Q Consensus       276 l~~~~--~~~~l~~L----~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~---  346 (869)
                      +..++  .+..+++|    ++|++++|.+..+....+.     ..+|++|+++++..-.... ...++.+++++.+.   
T Consensus       161 l~~~~~~~~~~l~~L~~~~~~L~l~~n~l~~~~~~~~~-----~~~L~~L~l~~n~~~~~~~-~~~~~~l~~l~~~~l~~  234 (570)
T 2z63_A          161 IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFK-----EIRLHKLTLRNNFDSLNVM-KTCIQGLAGLEVHRLVL  234 (570)
T ss_dssp             CCEECGGGGHHHHTCTTCCCEEECTTCCCCEECTTTTT-----TCEEEEEEEESCCSCTTHH-HHHHHTTTTCEEEEEEE
T ss_pred             cceecHHHccchhccchhhhhcccCCCCceecCHHHhc-----cCcceeEecccccccccch-hhhhcCccccceeeecc
Confidence            33332  23445566    7888988886665443333     2368888887753211111 12233444444333   


Q ss_pred             -----------------------------EeccccccccccccccccccccccccCccceeecccCccccccCCCcccCC
Q 040040          347 -----------------------------IRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIEL  397 (869)
Q Consensus       347 -----------------------------l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l  397 (869)
                                                   +.++..+.....        .....+++|+.|+++++. ++.++.... .+
T Consensus       235 ~~~~~~~~l~~~~~~~~~~l~~l~l~~l~l~~~~~~~~~~~--------~~~~~l~~L~~L~l~~~~-l~~l~~~~~-~~  304 (570)
T 2z63_A          235 GEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDII--------DLFNCLTNVSSFSLVSVT-IERVKDFSY-NF  304 (570)
T ss_dssp             EECCCCSSCEECCTTTTGGGGGSEEEEEEEEETTEEESCST--------TTTGGGTTCSEEEEESCE-ECSCCBCCS-CC
T ss_pred             ccccCchhhhhcchhhhccccccchhhhhhhcchhhhhhch--------hhhcCcCcccEEEecCcc-chhhhhhhc-cC
Confidence                                         333222211111        124567888999988875 666665432 34


Q ss_pred             CCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCc
Q 040040          398 PSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSL  477 (869)
Q Consensus       398 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l  477 (869)
                       +|+.|++.+|. +..+|.                  ..+++|++|++.+|.... .++.   ..+++|++|++++|. +
T Consensus       305 -~L~~L~l~~n~-~~~l~~------------------~~l~~L~~L~l~~n~~~~-~~~~---~~~~~L~~L~l~~n~-l  359 (570)
T 2z63_A          305 -GWQHLELVNCK-FGQFPT------------------LKLKSLKRLTFTSNKGGN-AFSE---VDLPSLEFLDLSRNG-L  359 (570)
T ss_dssp             -CCSEEEEESCB-CSSCCB------------------CBCSSCCEEEEESCBSCC-BCCC---CBCTTCCEEECCSSC-C
T ss_pred             -CccEEeeccCc-ccccCc------------------ccccccCEEeCcCCcccc-cccc---ccCCCCCEEeCcCCc-c
Confidence             88888888764 334432                  236788888888876433 2332   467888888888853 3


Q ss_pred             cccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCcccccCc-cEEEEEeccCCC
Q 040040          478 EEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPT-SVEIVANDVRGN  556 (869)
Q Consensus       478 ~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l~p~-s~ei~~~~~~~~  556 (869)
                      ..+...    ....  ..+++|++|+++++. +..+    +..+..+++|++|++++| .+....|. .+          
T Consensus       360 ~~~~~~----~~~~--~~~~~L~~L~l~~n~-l~~~----~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~----------  417 (570)
T 2z63_A          360 SFKGCC----SQSD--FGTTSLKYLDLSFNG-VITM----SSNFLGLEQLEHLDFQHS-NLKQMSEFSVF----------  417 (570)
T ss_dssp             BEEEEE----EHHH--HTCSCCCEEECCSCS-EEEE----EEEEETCTTCCEEECTTS-EEESCTTSCTT----------
T ss_pred             Cccccc----cccc--cccCccCEEECCCCc-cccc----cccccccCCCCEEEccCC-ccccccchhhh----------
Confidence            332100    0011  367788888888863 4444    344778888888888874 44443221 11          


Q ss_pred             CCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccC--ccccccceeeEeeecceeccccceeeeecc
Q 040040          557 DAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNP--SFGSKSLVMLLCLIGQQVFPNLEELTLSKY  633 (869)
Q Consensus       557 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~--~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  633 (869)
                           ..+++|++|++++|......+.....  +++|++|++++ .+.  .++....          .+++|++|++++|
T Consensus       418 -----~~l~~L~~L~l~~n~l~~~~~~~~~~--l~~L~~L~l~~n~l~~~~~p~~~~----------~l~~L~~L~l~~n  480 (570)
T 2z63_A          418 -----LSLRNLIYLDISHTHTRVAFNGIFNG--LSSLEVLKMAGNSFQENFLPDIFT----------ELRNLTFLDLSQC  480 (570)
T ss_dssp             -----TTCTTCCEEECTTSCCEECCTTTTTT--CTTCCEEECTTCEEGGGEECSCCT----------TCTTCCEEECTTS
T ss_pred             -----hcCCCCCEEeCcCCcccccchhhhhc--CCcCcEEECcCCcCccccchhhhh----------cccCCCEEECCCC
Confidence                 13678888888887644433333333  48888888888 554  3443221          2678899999998


Q ss_pred             cceeeeccc---cccceEEEeecCCCccchHHHHHhccccceEEEE
Q 040040          634 IFTTWRQAQ---FHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLK  676 (869)
Q Consensus       634 ~~~~~~~~~---~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~  676 (869)
                      .+.++.+..   +++|+.|++++|....+|...+.++++|+.|+++
T Consensus       481 ~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  526 (570)
T 2z63_A          481 QLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLH  526 (570)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             ccccCChhhhhcccCCCEEeCCCCcCCCCCHHHhhcccCCcEEEec
Confidence            888875543   6788888886555555565667888889988875

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.93  E-value=2e-24  Score=256.36  Aligned_cols=366  Identities=15%  Similarity=0.121  Sum_probs=251.0

Q ss_pred             cccccccccccccccCCCCEEEecCCCCCcc------------------cCChhhhc--CCCCCcEEEEeecCCceeeec
Q 040040          185 NLEKISCSQLRAESFLRLRNLKVESCEKLTH------------------IFSFSISR--GLPQLQTIKVTACKNMKVIFE  244 (869)
Q Consensus       185 ~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~------------------l~~~~~~~--~L~~L~~L~l~~c~~l~~l~~  244 (869)
                      +++++|..   .+.+++|++|+++++. ++.                  +|.  .++  ++++|++|++++|.....+| 
T Consensus       436 ~L~~IP~~---l~~L~~L~~L~Ls~N~-Lsg~~i~~~~~~~s~n~~~g~iP~--~l~f~~L~~L~~L~Ls~N~l~~~iP-  508 (876)
T 4ecn_A          436 RITFISKA---IQRLTKLQIIYFANSP-FTYDNIAVDWEDANSDYAKQYENE--ELSWSNLKDLTDVELYNCPNMTQLP-  508 (876)
T ss_dssp             EEEEECGG---GGGCTTCCEEEEESCC-CCGGGBSSSCSCTTSHHHHHHTTS--CCCGGGCTTCCEEEEESCTTCCSCC-
T ss_pred             cccchhHH---HhcCCCCCEEECcCCc-CCCCcccccccccccccccccCCh--hhhhccCCCCCEEECcCCCCCccCh-
Confidence            44556554   6789999999999995 776                  654  566  99999999999998777777 


Q ss_pred             cccccccCCccccccccCCcccEEeccCCCCccc--ccc--------cccCCCcCEEEeccccccccccCCCCC--cccc
Q 040040          245 VGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRS--FCS--------VVAFPNLETLKLSAINSETIWHNQLPA--MSSC  312 (869)
Q Consensus       245 ~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~--~~~--------~~~l~~L~~L~L~~~~l~~i~~~~~~~--~~~~  312 (869)
                                  ..+..+++|++|+++++..+..  +|.        ...+++|++|++++|.+..     +|.  .++.
T Consensus       509 ------------~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~-----ip~~~~l~~  571 (876)
T 4ecn_A          509 ------------DFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEE-----FPASASLQK  571 (876)
T ss_dssp             ------------GGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCB-----CCCHHHHTT
T ss_pred             ------------HHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCCc-----cCChhhhhc
Confidence                        5667799999999999764543  432        2345699999999998653     555  5667


Q ss_pred             cCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCc-cceeecccCccccccCC
Q 040040          313 IQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQ-LNFLKMKDLAKLTRFCS  391 (869)
Q Consensus       313 l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~-L~~L~l~~~~~L~~l~~  391 (869)
                      +++|+.|+++++. ++.+ |  .++.+++|+.|+++++ .+..++.         ....+++ |+.|+++++. ++.+|.
T Consensus       572 L~~L~~L~Ls~N~-l~~l-p--~~~~L~~L~~L~Ls~N-~l~~lp~---------~l~~l~~~L~~L~Ls~N~-L~~lp~  636 (876)
T 4ecn_A          572 MVKLGLLDCVHNK-VRHL-E--AFGTNVKLTDLKLDYN-QIEEIPE---------DFCAFTDQVEGLGFSHNK-LKYIPN  636 (876)
T ss_dssp             CTTCCEEECTTSC-CCBC-C--CCCTTSEESEEECCSS-CCSCCCT---------TSCEECTTCCEEECCSSC-CCSCCS
T ss_pred             CCCCCEEECCCCC-cccc-h--hhcCCCcceEEECcCC-ccccchH---------HHhhccccCCEEECcCCC-CCcCch
Confidence            9999999999864 5555 4  4788999999999986 4555543         2557788 9999999986 777764


Q ss_pred             Ccc-cCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHhhcCCccEEE
Q 040040          392 GNC-IELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLI  470 (869)
Q Consensus       392 ~~~-~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~  470 (869)
                      ... ...++|+.|+++++.--..+|.-           ......-..++|+.|++++|. +. .+|...+..+++|+.|+
T Consensus       637 ~~~~~~~~~L~~L~Ls~N~l~g~ip~l-----------~~~l~~~~~~~L~~L~Ls~N~-L~-~lp~~~~~~l~~L~~L~  703 (876)
T 4ecn_A          637 IFNAKSVYVMGSVDFSYNKIGSEGRNI-----------SCSMDDYKGINASTVTLSYNE-IQ-KFPTELFATGSPISTII  703 (876)
T ss_dssp             CCCTTCSSCEEEEECCSSCTTTTSSSC-----------SSCTTTCCCCCEEEEECCSSC-CC-SCCHHHHHTTCCCSEEE
T ss_pred             hhhccccCCCCEEECcCCcCCCccccc-----------hhhhccccCCCcCEEEccCCc-CC-ccCHHHHccCCCCCEEE
Confidence            321 12345999999886432222210           000000123589999999886 44 36888888899999999


Q ss_pred             EcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcc--cCCCccEEEEecCCCcccccCccEEE
Q 040040          471 VGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKL--IFPNLVLVRIFECQRLKSIFPTSVEI  548 (869)
Q Consensus       471 l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~--~l~~L~~L~l~~c~~L~~l~p~s~ei  548 (869)
                      +++| .+..++.......... ...+++|+.|++++| +++.+    |..+.  .+++|+.|++++ +.+..+ |.++  
T Consensus       704 Ls~N-~L~~ip~~~~~~~~~~-l~nl~~L~~L~Ls~N-~L~~l----p~~l~~~~l~~L~~L~Ls~-N~L~~l-p~~l--  772 (876)
T 4ecn_A          704 LSNN-LMTSIPENSLKPKDGN-YKNTYLLTTIDLRFN-KLTSL----SDDFRATTLPYLSNMDVSY-NCFSSF-PTQP--  772 (876)
T ss_dssp             CCSC-CCSCCCTTSSSCTTSC-CTTGGGCCEEECCSS-CCCCC----CGGGSTTTCTTCCEEECCS-SCCSSC-CCGG--
T ss_pred             CCCC-cCCccChHHhcccccc-ccccCCccEEECCCC-CCccc----hHHhhhccCCCcCEEEeCC-CCCCcc-chhh--
Confidence            9995 5666654221000000 013459999999997 67766    77776  899999999997 467775 7654  


Q ss_pred             EEeccCCCCCcceeeccccceEeecCCC------CCceecCCCCCCCCCCCceeeecc-ccCccccccceeeEeeeccee
Q 040040          549 VANDVRGNDAATKFIFPSLTFLKLRDLP------YLTTFYSGMHTLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQV  621 (869)
Q Consensus       549 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~------~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~~  621 (869)
                                   ..+++|+.|++++++      ....++.....  +++|+.|++++ .+..+|...            
T Consensus       773 -------------~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~--L~~L~~L~Ls~N~L~~Ip~~l------------  825 (876)
T 4ecn_A          773 -------------LNSSQLKAFGIRHQRDAEGNRILRQWPTGITT--CPSLIQLQIGSNDIRKVDEKL------------  825 (876)
T ss_dssp             -------------GGCTTCCEEECCCCBCTTCCBCCCCCCTTGGG--CSSCCEEECCSSCCCBCCSCC------------
T ss_pred             -------------hcCCCCCEEECCCCCCcccccccccChHHHhc--CCCCCEEECCCCCCCccCHhh------------
Confidence                         347899999998744      23334433333  36677777766 665555532            


Q ss_pred             ccccceeeeecccceeeec
Q 040040          622 FPNLEELTLSKYIFTTWRQ  640 (869)
Q Consensus       622 ~~~L~~L~l~~~~~~~~~~  640 (869)
                      .++|+.|+|++|.+..+..
T Consensus       826 ~~~L~~LdLs~N~l~~i~~  844 (876)
T 4ecn_A          826 TPQLYILDIADNPNISIDV  844 (876)
T ss_dssp             CSSSCEEECCSCTTCEEEC
T ss_pred             cCCCCEEECCCCCCCccCh
Confidence            3566777777766655443

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.93  E-value=1.7e-24  Score=253.10  Aligned_cols=427  Identities=14%  Similarity=0.103  Sum_probs=273.9

Q ss_pred             ccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCC--------------------------------
Q 040040          118 KGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTE--------------------------------  165 (869)
Q Consensus       118 ~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~--------------------------------  165 (869)
                      .+++.|++.++.-...+++.+  ..+++|++|+++++. +..-+..+.                                
T Consensus        81 ~~V~~L~L~~~~l~g~lp~~l--~~L~~L~~L~Ls~N~-~~~~~~~~~~~~~~~~~~~~~~~~l~l~l~~~~l~~~~~~~  157 (636)
T 4eco_A           81 GRVTGLSLEGFGASGRVPDAI--GQLTELEVLALGSHG-EKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPRED  157 (636)
T ss_dssp             CCEEEEECTTSCCEEEECGGG--GGCTTCCEEESCCGG-GGGTCCSBSTTSBCTTCCHHHHHHHHTHHHHHHTCCCGGGG
T ss_pred             CCEEEEEecCcccCCcCChHH--hcCccceEEECcCCc-cccCCccccccccccCchHHHHHHHHhhHHHhhhccCchhh
Confidence            467788888765555566556  788999999998873 100000000                                


Q ss_pred             --------------C--CCCCCCCCccEeeccc-cccccccccccccccccCCCCEEEecCCCCCcc-------------
Q 040040          166 --------------L--VPRDAFPLLESLSLSN-LMNLEKISCSQLRAESFLRLRNLKVESCEKLTH-------------  215 (869)
Q Consensus       166 --------------~--~~~~~~~~L~~L~L~~-~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~-------------  215 (869)
                                    .  ........++.+.+.. +.+++++|..   .+.+++|++|+++++. ++.             
T Consensus       158 ~~~~~~~l~~~~l~~~~~~~~~~~~l~~l~l~~~~n~l~~ip~~---l~~l~~L~~L~Ls~n~-l~~~~~~~~~~~~~~~  233 (636)
T 4eco_A          158 FSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKA---VMRLTKLRQFYMGNSP-FVAENICEAWENENSE  233 (636)
T ss_dssp             SCHHHHHHHHHCTTSCCCCCCCCCCCCTTTTTCCSCEEEEECGG---GGGCTTCCEEEEESCC-CCGGGBSSSCSCTTSH
T ss_pred             HHHHHHHHhhcCccccccccccccchhhhhhccccCCCccCCHH---HhcccCCCEEECcCCc-cccccccccccccccc
Confidence                          0  0001112233333332 2255566554   6789999999999996 777             


Q ss_pred             -----cCChhhhc--CCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccc--ccc-ccc-
Q 040040          216 -----IFSFSISR--GLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRS--FCS-VVA-  284 (869)
Q Consensus       216 -----l~~~~~~~--~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~--~~~-~~~-  284 (869)
                           +|.  .++  ++++|++|++++|.....+|             ..+..+++|++|+++++..+..  +|. +.. 
T Consensus       234 ~~~~~ip~--~l~~~~l~~L~~L~L~~n~l~~~~p-------------~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L  298 (636)
T 4eco_A          234 YAQQYKTE--DLKWDNLKDLTDVEVYNCPNLTKLP-------------TFLKALPEMQLINVACNRGISGEQLKDDWQAL  298 (636)
T ss_dssp             HHHHHTTS--CCCGGGCTTCCEEEEECCTTCSSCC-------------TTTTTCSSCCEEECTTCTTSCHHHHHHHHHHH
T ss_pred             hhcccCch--hhhhcccCCCCEEEecCCcCCccCh-------------HHHhcCCCCCEEECcCCCCCccccchHHHHhh
Confidence                 665  677  99999999999998777777             4567799999999999864543  443 233 


Q ss_pred             -----CCCcCEEEeccccccccccCCCCC--cccccCCceEEEEecCCCCc-cccChhhHhccCCccEEEEecccccccc
Q 040040          285 -----FPNLETLKLSAINSETIWHNQLPA--MSSCIQNLTRLIVHGCNNLK-FLFSTSLVRSFVQLQHLEIRKCMDLEGI  356 (869)
Q Consensus       285 -----l~~L~~L~L~~~~l~~i~~~~~~~--~~~~l~~L~~L~l~~c~~l~-~l~~~~~~~~L~~L~~L~l~~c~~l~~i  356 (869)
                           +++|++|++++|.+..     +|.  .++.+++|++|++++|. ++ .+ |  .++.+++|++|+++++ .++.+
T Consensus       299 ~~~~~l~~L~~L~L~~n~l~~-----ip~~~~l~~l~~L~~L~L~~N~-l~g~i-p--~~~~l~~L~~L~L~~N-~l~~l  368 (636)
T 4eco_A          299 ADAPVGEKIQIIYIGYNNLKT-----FPVETSLQKMKKLGMLECLYNQ-LEGKL-P--AFGSEIKLASLNLAYN-QITEI  368 (636)
T ss_dssp             HHSGGGGTCCEEECCSSCCSS-----CCCHHHHTTCTTCCEEECCSCC-CEEEC-C--CCEEEEEESEEECCSS-EEEEC
T ss_pred             hccccCCCCCEEECCCCcCCc-----cCchhhhccCCCCCEEeCcCCc-Cccch-h--hhCCCCCCCEEECCCC-ccccc
Confidence                 3899999999998553     555  56678999999999864 45 54 4  4788999999999986 56555


Q ss_pred             ccccccccccccccccCc-cceeecccCccccccCCCcc-cCCCCccEEEEccCCccccccccccCCCceEeeee-ccCc
Q 040040          357 VFPEEMIEEERKDIVFPQ-LNFLKMKDLAKLTRFCSGNC-IELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQ-SFFN  433 (869)
Q Consensus       357 ~~~~~~~~~~~~~~~~~~-L~~L~l~~~~~L~~l~~~~~-~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~-~~~~  433 (869)
                      +.         ....+++ |+.|+++++. ++.+|.... ..+++|+.|+++++.--...|.. +         . ....
T Consensus       369 p~---------~l~~l~~~L~~L~Ls~N~-l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~-l---------~~~~~~  428 (636)
T 4eco_A          369 PA---------NFCGFTEQVENLSFAHNK-LKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKN-F---------DPLDPT  428 (636)
T ss_dssp             CT---------TSEEECTTCCEEECCSSC-CSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCS-S---------CTTCSS
T ss_pred             cH---------hhhhhcccCcEEEccCCc-CcccchhhhhcccCccCEEECcCCcCCCcchhh-h---------cccccc
Confidence            43         2557788 9999999986 777775422 22458999999886433322211 0         0 0000


Q ss_pred             ccccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccc
Q 040040          434 EKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKI  513 (869)
Q Consensus       434 ~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l  513 (869)
                      .-..++|+.|++++|. +. .+|...+..+++|++|++++| .+..++.......... ...+++|++|+++++ .++.+
T Consensus       429 ~~~~~~L~~L~Ls~N~-l~-~lp~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~~~~~~-~~~l~~L~~L~Ls~N-~l~~l  503 (636)
T 4eco_A          429 PFKGINVSSINLSNNQ-IS-KFPKELFSTGSPLSSINLMGN-MLTEIPKNSLKDENEN-FKNTYLLTSIDLRFN-KLTKL  503 (636)
T ss_dssp             CCCCCCEEEEECCSSC-CC-SCCTHHHHTTCCCSEEECCSS-CCSBCCSSSSEETTEE-CTTGGGCCEEECCSS-CCCBC
T ss_pred             cccCCCCCEEECcCCc-cC-cCCHHHHccCCCCCEEECCCC-CCCCcCHHHhcccccc-ccccCCccEEECcCC-cCCcc
Confidence            0124689999999876 44 358777878999999999984 4556654211000000 012338999999986 56666


Q ss_pred             cccCCCCcc--cCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCC------CCceecCCC
Q 040040          514 WNKDPRGKL--IFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLP------YLTTFYSGM  585 (869)
Q Consensus       514 ~~~~p~~~~--~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~------~l~~~~~~~  585 (869)
                          |..+.  .+++|++|++++ +.+..+ |.++               ..+++|+.|+++++.      ....++...
T Consensus       504 ----p~~~~~~~l~~L~~L~Ls~-N~l~~i-p~~~---------------~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l  562 (636)
T 4eco_A          504 ----SDDFRATTLPYLVGIDLSY-NSFSKF-PTQP---------------LNSSTLKGFGIRNQRDAQGNRTLREWPEGI  562 (636)
T ss_dssp             ----CGGGSTTTCTTCCEEECCS-SCCSSC-CCGG---------------GGCSSCCEEECCSCBCTTCCBCCCCCCTTG
T ss_pred             ----ChhhhhccCCCcCEEECCC-CCCCCc-Chhh---------------hcCCCCCEEECCCCcccccCcccccChHHH
Confidence                67776  899999999998 467665 7654               347888999886543      233333333


Q ss_pred             CCCCCCCCceeeecc-ccCccccccceeeEeeecceeccccceeeeecccce
Q 040040          586 HTLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFT  636 (869)
Q Consensus       586 ~~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~  636 (869)
                      ..  +++|++|++++ .+..+|...            .++|++|++++|.+.
T Consensus       563 ~~--l~~L~~L~Ls~N~l~~ip~~~------------~~~L~~L~Ls~N~l~  600 (636)
T 4eco_A          563 TL--CPSLTQLQIGSNDIRKVNEKI------------TPNISVLDIKDNPNI  600 (636)
T ss_dssp             GG--CSSCCEEECCSSCCCBCCSCC------------CTTCCEEECCSCTTC
T ss_pred             hc--CCCCCEEECCCCcCCccCHhH------------hCcCCEEECcCCCCc
Confidence            22  25555555555 554444322            245555555555443

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.92  E-value=3.1e-23  Score=237.90  Aligned_cols=121  Identities=17%  Similarity=0.136  Sum_probs=66.1

Q ss_pred             cEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCC
Q 040040          147 KLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLP  226 (869)
Q Consensus       147 ~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~  226 (869)
                      ++|+++++ .++.+|...       +++|++|+++++ .++.++...  ...+++|++|++++|. ++.+++ ..+++++
T Consensus         3 ~~l~ls~n-~l~~ip~~~-------~~~L~~L~Ls~n-~i~~~~~~~--~~~l~~L~~L~Ls~n~-l~~~~~-~~~~~l~   69 (520)
T 2z7x_B            3 FLVDRSKN-GLIHVPKDL-------SQKTTILNISQN-YISELWTSD--ILSLSKLRILIISHNR-IQYLDI-SVFKFNQ   69 (520)
T ss_dssp             CEEECTTS-CCSSCCCSC-------CTTCSEEECCSS-CCCCCCHHH--HTTCTTCCEEECCSSC-CCEEEG-GGGTTCT
T ss_pred             ceEecCCC-Ccccccccc-------cccccEEECCCC-cccccChhh--ccccccccEEecCCCc-cCCcCh-HHhhccc
Confidence            45666666 566665432       267777777766 455444222  3356777777777663 555533 3566677


Q ss_pred             CCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccc--c-cccccCCCcCEEEecccc
Q 040040          227 QLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRS--F-CSVVAFPNLETLKLSAIN  297 (869)
Q Consensus       227 ~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~--~-~~~~~l~~L~~L~L~~~~  297 (869)
                      +|++|+++++. ++.+|.             .  .+++|++|+++++. +..  + ..+..+++|++|++++|.
T Consensus        70 ~L~~L~Ls~N~-l~~lp~-------------~--~l~~L~~L~L~~N~-l~~~~~p~~~~~l~~L~~L~L~~n~  126 (520)
T 2z7x_B           70 ELEYLDLSHNK-LVKISC-------------H--PTVNLKHLDLSFNA-FDALPICKEFGNMSQLKFLGLSTTH  126 (520)
T ss_dssp             TCCEEECCSSC-CCEEEC-------------C--CCCCCSEEECCSSC-CSSCCCCGGGGGCTTCCEEEEEESS
T ss_pred             CCCEEecCCCc-eeecCc-------------c--ccCCccEEeccCCc-cccccchhhhccCCcceEEEecCcc
Confidence            77777776653 445551             1  35556666665543 221  1 123445555555555554

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.92  E-value=4.3e-24  Score=249.75  Aligned_cols=448  Identities=12%  Similarity=0.100  Sum_probs=298.3

Q ss_pred             CcccEEeccCCCCccccc-ccccCCCcCEEEeccccccc---ccc--------------------------CCCCCcc--
Q 040040          263 SQLRKLTLKSLPQLRSFC-SVVAFPNLETLKLSAINSET---IWH--------------------------NQLPAMS--  310 (869)
Q Consensus       263 ~~L~~L~l~~~~~l~~~~-~~~~l~~L~~L~L~~~~l~~---i~~--------------------------~~~~~~~--  310 (869)
                      .+++.|+++++.--..+| .++.+++|++|+|++|.+..   ...                          ...+...  
T Consensus        81 ~~V~~L~L~~~~l~g~lp~~l~~L~~L~~L~Ls~N~~~~~~~~~~~~~~~~~~~~~~~~~l~l~l~~~~l~~~~~~~~~~  160 (636)
T 4eco_A           81 GRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSD  160 (636)
T ss_dssp             CCEEEEECTTSCCEEEECGGGGGCTTCCEEESCCGGGGGTCCSBSTTSBCTTCCHHHHHHHHTHHHHHHTCCCGGGGSCH
T ss_pred             CCEEEEEecCcccCCcCChHHhcCccceEEECcCCccccCCccccccccccCchHHHHHHHHhhHHHhhhccCchhhHHH
Confidence            478899998876433443 47889999999999995310   000                          0000000  


Q ss_pred             -----------------cccCCceEEEEec-CCCCccccChhhHhccCCccEEEEeccccccc-----------------
Q 040040          311 -----------------SCIQNLTRLIVHG-CNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEG-----------------  355 (869)
Q Consensus       311 -----------------~~l~~L~~L~l~~-c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~-----------------  355 (869)
                                       .....++.+.+.. ++.++.+ |. .++++++|++|+++++. ++.                 
T Consensus       161 ~~~~l~~~~l~~~~~~~~~~~~l~~l~l~~~~n~l~~i-p~-~l~~l~~L~~L~Ls~n~-l~~~~~~~~~~~~~~~~~~~  237 (636)
T 4eco_A          161 LIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFV-SK-AVMRLTKLRQFYMGNSP-FVAENICEAWENENSEYAQQ  237 (636)
T ss_dssp             HHHHHHHHCTTSCCCCCCCCCCCCTTTTTCCSCEEEEE-CG-GGGGCTTCCEEEEESCC-CCGGGBSSSCSCTTSHHHHH
T ss_pred             HHHHHhhcCccccccccccccchhhhhhccccCCCccC-CH-HHhcccCCCEEECcCCc-cccccccccccccccchhcc
Confidence                             0011122222222 3456664 53 47889999999999964 665                 


Q ss_pred             -ccccccccccccccc--ccCccceeecccCccccccCCCcccCCCCccEEEEccCCcccc--ccccccCCCceEeeeec
Q 040040          356 -IVFPEEMIEEERKDI--VFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKA--FILQNINTDMTVVGIQS  430 (869)
Q Consensus       356 -i~~~~~~~~~~~~~~--~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~--l~~~~~~~~~~~~~~~~  430 (869)
                       ++.         .+.  .+++|++|+++++.-...+|. ....+++|+.|+++++..++.  +|..-          ..
T Consensus       238 ~ip~---------~l~~~~l~~L~~L~L~~n~l~~~~p~-~l~~l~~L~~L~Ls~n~~l~~~~lp~~~----------~~  297 (636)
T 4eco_A          238 YKTE---------DLKWDNLKDLTDVEVYNCPNLTKLPT-FLKALPEMQLINVACNRGISGEQLKDDW----------QA  297 (636)
T ss_dssp             HTTS---------CCCGGGCTTCCEEEEECCTTCSSCCT-TTTTCSSCCEEECTTCTTSCHHHHHHHH----------HH
T ss_pred             cCch---------hhhhcccCCCCEEEecCCcCCccChH-HHhcCCCCCEEECcCCCCCccccchHHH----------Hh
Confidence             332         355  789999999999875555553 345689999999998875553  54320          00


Q ss_pred             cCcccccccccEEEEeccCCcccccch-hHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccc
Q 040040          431 FFNEKSFCKLKLMEVIFCKSLWTIFPH-NMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPK  509 (869)
Q Consensus       431 ~~~~~~~~~L~~L~l~~c~~l~~~~~~-~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  509 (869)
                      ......+++|+.|++++|. +. .+|. ..++.+++|++|++++|..-..++.+          +.+++|++|+++++ .
T Consensus       298 L~~~~~l~~L~~L~L~~n~-l~-~ip~~~~l~~l~~L~~L~L~~N~l~g~ip~~----------~~l~~L~~L~L~~N-~  364 (636)
T 4eco_A          298 LADAPVGEKIQIIYIGYNN-LK-TFPVETSLQKMKKLGMLECLYNQLEGKLPAF----------GSEIKLASLNLAYN-Q  364 (636)
T ss_dssp             HHHSGGGGTCCEEECCSSC-CS-SCCCHHHHTTCTTCCEEECCSCCCEEECCCC----------EEEEEESEEECCSS-E
T ss_pred             hhccccCCCCCEEECCCCc-CC-ccCchhhhccCCCCCEEeCcCCcCccchhhh----------CCCCCCCEEECCCC-c
Confidence            0000124899999999886 44 3565 35778999999999995433266521          47899999999996 5


Q ss_pred             cccccccCCCCcccCCC-ccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCC--
Q 040040          510 LTKIWNKDPRGKLIFPN-LVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMH--  586 (869)
Q Consensus       510 L~~l~~~~p~~~~~l~~-L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~--  586 (869)
                      ++.+    |..+..+++ |++|+++++ .+..+ |..+        +     ...+++|+.|+++++......+....  
T Consensus       365 l~~l----p~~l~~l~~~L~~L~Ls~N-~l~~l-p~~~--------~-----~~~l~~L~~L~Ls~N~l~~~~p~~l~~~  425 (636)
T 4eco_A          365 ITEI----PANFCGFTEQVENLSFAHN-KLKYI-PNIF--------D-----AKSVSVMSAIDFSYNEIGSVDGKNFDPL  425 (636)
T ss_dssp             EEEC----CTTSEEECTTCCEEECCSS-CCSSC-CSCC--------C-----TTCSSCEEEEECCSSCTTTTTTCSSCTT
T ss_pred             cccc----cHhhhhhcccCcEEEccCC-cCccc-chhh--------h-----hcccCccCEEECcCCcCCCcchhhhccc
Confidence            6666    888999999 999999985 57765 7533        0     01145899999999875544333322  


Q ss_pred             ---CCCCCCCceeeecc-ccCccccccceeeEeeecceeccccceeeeecccceeeeccccc----------cceEEEee
Q 040040          587 ---TLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFH----------KLKILHFI  652 (869)
Q Consensus       587 ---~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~----------~L~~L~l~  652 (869)
                         ...+++|++|++++ ++..++.....         .+++|++|++++|.+..++...+.          +|+.|+++
T Consensus       426 ~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~---------~l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls  496 (636)
T 4eco_A          426 DPTPFKGINVSSINLSNNQISKFPKELFS---------TGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLR  496 (636)
T ss_dssp             CSSCCCCCCEEEEECCSSCCCSCCTHHHH---------TTCCCSEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECC
T ss_pred             ccccccCCCCCEEECcCCccCcCCHHHHc---------cCCCCCEEECCCCCCCCcCHHHhccccccccccCCccEEECc
Confidence               22457999999999 88877764211         268999999999999876665543          99999997


Q ss_pred             cCCCccchHHHH-HhccccceEEEE---EE---ecccccccccEEEcCcccccc-ccccCCCCCcccccCCccEEEEecc
Q 040040          653 SDGSDFFQVGLL-QNIHNLEKLVLK---VE---EHAEGIAQIKSLKLNKLWFIK-EHLWNPDSKLDSFLQNLEFLEVKEC  724 (869)
Q Consensus       653 ~~~~~~~p~~~l-~~l~~L~~L~l~---~~---~~~~~~~~L~~L~l~~~~~L~-~~l~~~~~~~~~~l~~L~~L~l~~c  724 (869)
                      +|....+|..+. ..+++|+.|+++   +.   .....+++|+.|+++++..+. -.+....+..+..+++|++|++++|
T Consensus       497 ~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N  576 (636)
T 4eco_A          497 FNKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSN  576 (636)
T ss_dssp             SSCCCBCCGGGSTTTCTTCCEEECCSSCCSSCCCGGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSS
T ss_pred             CCcCCccChhhhhccCCCcCEEECCCCCCCCcChhhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCC
Confidence            676668887644 589999999998   22   233458899999997644221 0222344566788999999999999


Q ss_pred             cchhhcccceeEecccchhccccCCCcceeecC-Ce------eeeCCCcceEeeccCCCcc
Q 040040          725 ALSLISLRIEIVFSKLKWLFLESSGSITSFCSG-NY------AISFPSLEVLIVENCPKLN  778 (869)
Q Consensus       725 ~~~l~~l~~~~~~~~L~~L~l~~l~~l~~~~~~-~~------~~~~~~L~~L~i~~c~~~~  778 (869)
                      .  +..+|.. .+++|+.|++.+++- ..+... .+      ...+...+..++++||.++
T Consensus       577 ~--l~~ip~~-~~~~L~~L~Ls~N~l-~~~~~~~~~~~~~~~~~~l~~~~~~~i~~C~~L~  633 (636)
T 4eco_A          577 D--IRKVNEK-ITPNISVLDIKDNPN-ISIDLSYVCPYIEAGMYMLFYDKTQDIRGCDALD  633 (636)
T ss_dssp             C--CCBCCSC-CCTTCCEEECCSCTT-CEEECTTTHHHHHTTCCEEECCTTSEEESCGGGC
T ss_pred             c--CCccCHh-HhCcCCEEECcCCCC-ccccHHhcchhhhcccceeecCCccccCCCcccc
Confidence            7  8888876 458999999888753 333221 11      1122334556788888765

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.92  E-value=1.1e-23  Score=241.62  Aligned_cols=450  Identities=15%  Similarity=0.124  Sum_probs=260.6

Q ss_pred             ceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccC
Q 040040          121 EELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFL  200 (869)
Q Consensus       121 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~  200 (869)
                      +.+++++. .++.++..+    .++|++|+++++ .+..++..    .+..+++|++|+++++ +++.+....  .+.++
T Consensus         3 ~~l~ls~n-~l~~ip~~~----~~~L~~L~Ls~n-~i~~~~~~----~~~~l~~L~~L~Ls~n-~l~~~~~~~--~~~l~   69 (520)
T 2z7x_B            3 FLVDRSKN-GLIHVPKDL----SQKTTILNISQN-YISELWTS----DILSLSKLRILIISHN-RIQYLDISV--FKFNQ   69 (520)
T ss_dssp             CEEECTTS-CCSSCCCSC----CTTCSEEECCSS-CCCCCCHH----HHTTCTTCCEEECCSS-CCCEEEGGG--GTTCT
T ss_pred             ceEecCCC-Ccccccccc----cccccEEECCCC-cccccChh----hccccccccEEecCCC-ccCCcChHH--hhccc
Confidence            45666663 444554433    278888888888 55554421    1257888888888887 566654332  45788


Q ss_pred             CCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCce-eeeccccccccCCccccccccCCcccEEeccCCCCcccc
Q 040040          201 RLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMK-VIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSF  279 (869)
Q Consensus       201 ~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~-~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~  279 (869)
                      +|++|+++++ +++.+|..    .+++|++|+++++.... .+|             ..+..+++|++|+++++. +.. 
T Consensus        70 ~L~~L~Ls~N-~l~~lp~~----~l~~L~~L~L~~N~l~~~~~p-------------~~~~~l~~L~~L~L~~n~-l~~-  129 (520)
T 2z7x_B           70 ELEYLDLSHN-KLVKISCH----PTVNLKHLDLSFNAFDALPIC-------------KEFGNMSQLKFLGLSTTH-LEK-  129 (520)
T ss_dssp             TCCEEECCSS-CCCEEECC----CCCCCSEEECCSSCCSSCCCC-------------GGGGGCTTCCEEEEEESS-CCG-
T ss_pred             CCCEEecCCC-ceeecCcc----ccCCccEEeccCCccccccch-------------hhhccCCcceEEEecCcc-cch-
Confidence            8888888888 47777552    78888888888875322 233             345668888888888754 333 


Q ss_pred             cccccCCCc--CEEEeccccccccccCCCCCcccccC-CceEEEEecCCCCccccChhhHhccCCccEEEEecccc----
Q 040040          280 CSVVAFPNL--ETLKLSAINSETIWHNQLPAMSSCIQ-NLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMD----  352 (869)
Q Consensus       280 ~~~~~l~~L--~~L~L~~~~l~~i~~~~~~~~~~~l~-~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~----  352 (869)
                      ..+..+++|  ++|++++|.+..  ....|..+..+. +...+++.++.....+ +...+..+++|+.|+++++..    
T Consensus       130 ~~~~~l~~L~L~~L~l~~n~l~~--~~~~~~~l~~l~~~~l~l~l~~n~~~~~~-~~~~~~~l~~L~~L~l~~n~~~~~~  206 (520)
T 2z7x_B          130 SSVLPIAHLNISKVLLVLGETYG--EKEDPEGLQDFNTESLHIVFPTNKEFHFI-LDVSVKTVANLELSNIKCVLEDNKC  206 (520)
T ss_dssp             GGGGGGTTSCEEEEEEEECTTTT--SSCCTTTTTTCCEEEEEEECCSSSCCCCC-CCCCCTTCSEEEECCEEECCSTTTT
T ss_pred             hhccccccceeeEEEeecccccc--cccccccccccccceEEEEeccCcchhhh-hhhhhhcccceeecccccccccccc
Confidence            234556677  888888887510  111222222222 1224455555444433 334456778888888877531    


Q ss_pred             --ccccccccccccccccccccCccceeecccCccccccC-CC--cccCCCCccEEEEccCCccccccccccCCCceEee
Q 040040          353 --LEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFC-SG--NCIELPSLKQLRMAKCPELKAFILQNINTDMTVVG  427 (869)
Q Consensus       353 --l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~-~~--~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~  427 (869)
                        +...+         .....+++|+.|++.++. +..-. .+  .....++|+.|++.+|.--..+|....        
T Consensus       207 ~~~~~~~---------~~l~~l~~L~~L~l~~~~-l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~p~~~~--------  268 (520)
T 2z7x_B          207 SYFLSIL---------AKLQTNPKLSNLTLNNIE-TTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDF--------  268 (520)
T ss_dssp             HHHHHHH---------HGGGGCTTCCEEEEEEEE-EEHHHHHHHHHHHHTSSCSEEEEEEEEEESCCCCCCC--------
T ss_pred             ceeecch---------hhhccccchhhccccccc-cCHHHHHHHHHHhhhCcccEEEeecccccCccccchh--------
Confidence              11111         124567778888877654 22100 00  001245788888877632223332100        


Q ss_pred             eeccCcccccccccEEEEeccCCcccccchhHHhhc---CCccEEEEcccCCccccccccccCccccccccccccceeec
Q 040040          428 IQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARF---LKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHV  504 (869)
Q Consensus       428 ~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l---~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l  504 (869)
                         ....+.+++|+.++++++..   .+|...+..+   ++|+.|++++|. +..+..          ...+++|++|++
T Consensus       269 ---~~~~~~l~~L~~l~l~~n~~---~~p~~~~~~~~~~~~L~~L~l~~n~-l~~~~~----------~~~l~~L~~L~L  331 (520)
T 2z7x_B          269 ---DYSGTSLKALSIHQVVSDVF---GFPQSYIYEIFSNMNIKNFTVSGTR-MVHMLC----------PSKISPFLHLDF  331 (520)
T ss_dssp             ---CCCSCCCCEEEEEEEEECCC---CSCTHHHHHHHHTCCCSEEEEESSC-CCCCCC----------CSSCCCCCEEEC
T ss_pred             ---hcccccCceeEeccccccce---ecchhhhhcccccCceeEEEcCCCc-cccccc----------hhhCCcccEEEe
Confidence               00013367788888887764   2463333344   678999998864 332211          036788899999


Q ss_pred             ccccccccccccCCCCcccCCCccEEEEecCCCcccc--cCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceec
Q 040040          505 FCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSI--FPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFY  582 (869)
Q Consensus       505 ~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l--~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  582 (869)
                      +++. +...   .|..+..+++|++|++++| ++..+  +|..+               ..+++|++|+++++.....++
T Consensus       332 s~n~-l~~~---~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~---------------~~l~~L~~L~Ls~N~l~~~l~  391 (520)
T 2z7x_B          332 SNNL-LTDT---VFENCGHLTELETLILQMN-QLKELSKIAEMT---------------TQMKSLQQLDISQNSVSYDEK  391 (520)
T ss_dssp             CSSC-CCTT---TTTTCCCCSSCCEEECCSS-CCCBHHHHHHHH---------------TTCTTCCEEECCSSCCBCCGG
T ss_pred             ECCc-cChh---hhhhhccCCCCCEEEccCC-ccCccccchHHH---------------hhCCCCCEEECCCCcCCcccc
Confidence            8864 4332   2677888889999999874 45542  12222               236788888888876544355


Q ss_pred             CCCCCCCCCCCceeeecc-ccCc-cccccceeeEeeecceeccccceeeeecccceeeecc--ccccceEEEeecCCCcc
Q 040040          583 SGMHTLECPERANLIFQL-KNPS-FGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQA--QFHKLKILHFISDGSDF  658 (869)
Q Consensus       583 ~~~~~~~~~~L~~L~l~~-~l~~-~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~--~~~~L~~L~l~~~~~~~  658 (869)
                      .+... .+++|++|++++ ++.. ++..            ..++|++|++++|.+..++..  .+++|+.|++.+|....
T Consensus       392 ~~~~~-~l~~L~~L~Ls~N~l~~~~~~~------------l~~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~L~~N~l~~  458 (520)
T 2z7x_B          392 KGDCS-WTKSLLSLNMSSNILTDTIFRC------------LPPRIKVLDLHSNKIKSIPKQVVKLEALQELNVASNQLKS  458 (520)
T ss_dssp             GCSCC-CCTTCCEEECCSSCCCGGGGGS------------CCTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCC
T ss_pred             cchhc-cCccCCEEECcCCCCCcchhhh------------hcccCCEEECCCCcccccchhhhcCCCCCEEECCCCcCCc
Confidence            43221 247777777777 5542 2221            135777777777777765543  26777777775555556


Q ss_pred             chHHHHHhccccceEE
Q 040040          659 FQVGLLQNIHNLEKLV  674 (869)
Q Consensus       659 ~p~~~l~~l~~L~~L~  674 (869)
                      +|...+..+++|++|+
T Consensus       459 l~~~~~~~l~~L~~L~  474 (520)
T 2z7x_B          459 VPDGIFDRLTSLQKIW  474 (520)
T ss_dssp             CCTTTTTTCTTCCEEE
T ss_pred             cCHHHhccCCcccEEE
Confidence            6654344444444443

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.91  E-value=7e-24  Score=251.66  Aligned_cols=357  Identities=12%  Similarity=0.121  Sum_probs=250.4

Q ss_pred             CCccccChhhHhccCCccEEEEeccccccc------------------ccccccccccccccc--ccCccceeecccCcc
Q 040040          326 NLKFLFSTSLVRSFVQLQHLEIRKCMDLEG------------------IVFPEEMIEEERKDI--VFPQLNFLKMKDLAK  385 (869)
Q Consensus       326 ~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~------------------i~~~~~~~~~~~~~~--~~~~L~~L~l~~~~~  385 (869)
                      .++.+ |. .++++++|+.|+++++ .++.                  ++.         .+.  .+++|+.|++++|.-
T Consensus       436 ~L~~I-P~-~l~~L~~L~~L~Ls~N-~Lsg~~i~~~~~~~s~n~~~g~iP~---------~l~f~~L~~L~~L~Ls~N~l  503 (876)
T 4ecn_A          436 RITFI-SK-AIQRLTKLQIIYFANS-PFTYDNIAVDWEDANSDYAKQYENE---------ELSWSNLKDLTDVELYNCPN  503 (876)
T ss_dssp             EEEEE-CG-GGGGCTTCCEEEEESC-CCCGGGBSSSCSCTTSHHHHHHTTS---------CCCGGGCTTCCEEEEESCTT
T ss_pred             cccch-hH-HHhcCCCCCEEECcCC-cCCCCcccccccccccccccccCCh---------hhhhccCCCCCEEECcCCCC
Confidence            44444 53 4788999999999986 4555                  332         244  789999999999875


Q ss_pred             ccccCCCcccCCCCccEEEEccCCcccc--ccccccCCCceEeeeeccC-cccccccccEEEEeccCCcccccch-hHHh
Q 040040          386 LTRFCSGNCIELPSLKQLRMAKCPELKA--FILQNINTDMTVVGIQSFF-NEKSFCKLKLMEVIFCKSLWTIFPH-NMFA  461 (869)
Q Consensus       386 L~~l~~~~~~~l~~L~~L~l~~c~~l~~--l~~~~~~~~~~~~~~~~~~-~~~~~~~L~~L~l~~c~~l~~~~~~-~~~~  461 (869)
                      ...+| .....+++|+.|+++++..++.  +|..-          .... ....+++|+.|++++|. +. .+|. ..++
T Consensus       504 ~~~iP-~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i----------~~L~~~~~~l~~L~~L~Ls~N~-L~-~ip~~~~l~  570 (876)
T 4ecn_A          504 MTQLP-DFLYDLPELQSLNIACNRGISAAQLKADW----------TRLADDEDTGPKIQIFYMGYNN-LE-EFPASASLQ  570 (876)
T ss_dssp             CCSCC-GGGGGCSSCCEEECTTCTTSCHHHHHHHH----------HHHHHCTTTTTTCCEEECCSSC-CC-BCCCHHHHT
T ss_pred             CccCh-HHHhCCCCCCEEECcCCCCcccccchHHH----------HhhhhcccccCCccEEEeeCCc-CC-ccCChhhhh
Confidence            55666 3445789999999988764543  44310          0000 01224699999999886 44 3565 3577


Q ss_pred             hcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCC-ccEEEEecCCCccc
Q 040040          462 RFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPN-LVLVRIFECQRLKS  540 (869)
Q Consensus       462 ~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~-L~~L~l~~c~~L~~  540 (869)
                      .+++|++|++++| .+..++.+          +.+++|+.|+++++. +..+    |..+..+++ |++|++++| .+..
T Consensus       571 ~L~~L~~L~Ls~N-~l~~lp~~----------~~L~~L~~L~Ls~N~-l~~l----p~~l~~l~~~L~~L~Ls~N-~L~~  633 (876)
T 4ecn_A          571 KMVKLGLLDCVHN-KVRHLEAF----------GTNVKLTDLKLDYNQ-IEEI----PEDFCAFTDQVEGLGFSHN-KLKY  633 (876)
T ss_dssp             TCTTCCEEECTTS-CCCBCCCC----------CTTSEESEEECCSSC-CSCC----CTTSCEECTTCCEEECCSS-CCCS
T ss_pred             cCCCCCEEECCCC-Ccccchhh----------cCCCcceEEECcCCc-cccc----hHHHhhccccCCEEECcCC-CCCc
Confidence            8999999999995 45566521          478999999999964 5566    788999999 999999985 5776


Q ss_pred             ccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCcee---cCCCCCCCCCCCceeeecc-ccCccccccceeeEee
Q 040040          541 IFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTF---YSGMHTLECPERANLIFQL-KNPSFGSKSLVMLLCL  616 (869)
Q Consensus       541 l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~---~~~~~~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~  616 (869)
                      + |..+        +  .   ...++|+.|+++++..-...   +.......+++|+.|++++ .+..++.....     
T Consensus       634 l-p~~~--------~--~---~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~-----  694 (876)
T 4ecn_A          634 I-PNIF--------N--A---KSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFA-----  694 (876)
T ss_dssp             C-CSCC--------C--T---TCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCCSCCHHHHH-----
T ss_pred             C-chhh--------h--c---cccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCCccCHHHHc-----
Confidence            5 6533        0  0   11245999999988654322   2233333456899999999 88877754210     


Q ss_pred             ecceeccccceeeeecccceeeeccccc----------cceEEEeecCCCccchHHHH-HhccccceEEEE---E---Ee
Q 040040          617 IGQQVFPNLEELTLSKYIFTTWRQAQFH----------KLKILHFISDGSDFFQVGLL-QNIHNLEKLVLK---V---EE  679 (869)
Q Consensus       617 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~----------~L~~L~l~~~~~~~~p~~~l-~~l~~L~~L~l~---~---~~  679 (869)
                          .+++|+.|++++|.+..++...+.          +|+.|++++|....+|..+. ..+++|+.|+++   +   +.
T Consensus       695 ----~l~~L~~L~Ls~N~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~~lp~~l~~~~l~~L~~L~Ls~N~L~~lp~  770 (876)
T 4ecn_A          695 ----TGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPT  770 (876)
T ss_dssp             ----TTCCCSEEECCSCCCSCCCTTSSSCTTSCCTTGGGCCEEECCSSCCCCCCGGGSTTTCTTCCEEECCSSCCSSCCC
T ss_pred             ----cCCCCCEEECCCCcCCccChHHhccccccccccCCccEEECCCCCCccchHHhhhccCCCcCEEEeCCCCCCccch
Confidence                258999999999999876665433          89999996666668887643 489999999998   2   22


Q ss_pred             cccccccccEEEcCccccccc-cccCCCCCcccccCCccEEEEecccchhhcccceeEecccchhccccCCC
Q 040040          680 HAEGIAQIKSLKLNKLWFIKE-HLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESSGS  750 (869)
Q Consensus       680 ~~~~~~~L~~L~l~~~~~L~~-~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~~~~~~~L~~L~l~~l~~  750 (869)
                      ....+++|+.|++++++.+.. .+....+..+..+++|+.|++++|.  +..+|.. .+++|+.|++.+++-
T Consensus       771 ~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~N~--L~~Ip~~-l~~~L~~LdLs~N~l  839 (876)
T 4ecn_A          771 QPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSND--IRKVDEK-LTPQLYILDIADNPN  839 (876)
T ss_dssp             GGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSC--CCBCCSC-CCSSSCEEECCSCTT
T ss_pred             hhhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEECCCCC--CCccCHh-hcCCCCEEECCCCCC
Confidence            334588999999987542220 2223445567889999999999997  7888876 457899998888763

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.91  E-value=1.6e-24  Score=242.02  Aligned_cols=173  Identities=21%  Similarity=0.191  Sum_probs=75.6

Q ss_pred             CCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeecccccccc
Q 040040          172 FPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDI  251 (869)
Q Consensus       172 ~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~  251 (869)
                      ..+|++|+++++ ++..+|..   ++.+++|++|++++|.-...+|.  .++++.+|+.+++.+|.              
T Consensus        10 ~~~L~~L~l~~n-~l~~iP~~---i~~L~~L~~L~l~~n~~~~~~p~--~~~~l~~L~~l~l~~c~--------------   69 (454)
T 1jl5_A           10 NTFLQEPLRHSS-NLTEMPVE---AENVKSKTEYYNAWSEWERNAPP--GNGEQREMAVSRLRDCL--------------   69 (454)
T ss_dssp             ----------------------------CCHHHHHHHHHHHHHTSCT--TSCCCHHHHHHHHHHHH--------------
T ss_pred             cccchhhhcccC-chhhCChh---HhcccchhhhhccCCcccccCCc--ccccchhcchhhhhhhh--------------
Confidence            345566666554 44444443   44556666666655531112222  44555555444444442              


Q ss_pred             CCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCcccc
Q 040040          252 NNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLF  331 (869)
Q Consensus       252 ~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~  331 (869)
                                ..++++|+++++. ++.+|..  .++|++|++++|.++.+     |.   .+++|++|+++++ .++.+ 
T Consensus        70 ----------~~~l~~L~l~~~~-l~~lp~~--~~~L~~L~l~~n~l~~l-----p~---~~~~L~~L~l~~n-~l~~l-  126 (454)
T 1jl5_A           70 ----------DRQAHELELNNLG-LSSLPEL--PPHLESLVASCNSLTEL-----PE---LPQSLKSLLVDNN-NLKAL-  126 (454)
T ss_dssp             ----------HHTCSEEECTTSC-CSCCCSC--CTTCSEEECCSSCCSSC-----CC---CCTTCCEEECCSS-CCSCC-
T ss_pred             ----------ccCCCEEEecCCc-cccCCCC--cCCCCEEEccCCcCCcc-----cc---ccCCCcEEECCCC-ccCcc-
Confidence                      1345667776653 5555442  46777777777764442     21   1356777777664 34443 


Q ss_pred             ChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEcc
Q 040040          332 STSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAK  407 (869)
Q Consensus       332 ~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~  407 (869)
                      +.    ..++|++|+++++ .++.++          ....+++|++|+++++. ++.++..    .++|+.|++.+
T Consensus       127 ~~----~~~~L~~L~L~~n-~l~~lp----------~~~~l~~L~~L~l~~N~-l~~lp~~----~~~L~~L~L~~  182 (454)
T 1jl5_A          127 SD----LPPLLEYLGVSNN-QLEKLP----------ELQNSSFLKIIDVDNNS-LKKLPDL----PPSLEFIAAGN  182 (454)
T ss_dssp             CS----CCTTCCEEECCSS-CCSSCC----------CCTTCTTCCEEECCSSC-CSCCCCC----CTTCCEEECCS
T ss_pred             cC----CCCCCCEEECcCC-CCCCCc----------ccCCCCCCCEEECCCCc-CcccCCC----cccccEEECcC
Confidence            11    1246777777664 344432          13355666666666653 4444321    23455555544

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.90  E-value=1.2e-22  Score=234.87  Aligned_cols=168  Identities=13%  Similarity=0.078  Sum_probs=91.2

Q ss_pred             CCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCccccc-
Q 040040          464 LKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIF-  542 (869)
Q Consensus       464 ~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l~-  542 (869)
                      .+|++|+++++. +..+..          .+.+++|++|+++++. ++..   .|..+..+++|++|++++ ++++.+- 
T Consensus       331 ~~L~~L~l~~n~-~~~~~~----------~~~l~~L~~L~l~~n~-l~~~---~~~~~~~l~~L~~L~L~~-N~l~~~~~  394 (562)
T 3a79_B          331 MNIKMLSISDTP-FIHMVC----------PPSPSSFTFLNFTQNV-FTDS---VFQGCSTLKRLQTLILQR-NGLKNFFK  394 (562)
T ss_dssp             CCCSEEEEESSC-CCCCCC----------CSSCCCCCEEECCSSC-CCTT---TTTTCCSCSSCCEEECCS-SCCCBTTH
T ss_pred             CcceEEEccCCC-cccccC----------ccCCCCceEEECCCCc-cccc---hhhhhcccCCCCEEECCC-CCcCCccc
Confidence            567778877754 222210          0256777888887753 3332   256677777888888876 3555431 


Q ss_pred             -CccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCccccccceeeEeeecce
Q 040040          543 -PTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQ  620 (869)
Q Consensus       543 -p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~  620 (869)
                       |..+               ..+++|+.|+++++.....++.+... .+++|++|++++ ++.......           
T Consensus       395 ~~~~~---------------~~l~~L~~L~l~~N~l~~~~~~~~~~-~l~~L~~L~l~~n~l~~~~~~~-----------  447 (562)
T 3a79_B          395 VALMT---------------KNMSSLETLDVSLNSLNSHAYDRTCA-WAESILVLNLSSNMLTGSVFRC-----------  447 (562)
T ss_dssp             HHHTT---------------TTCTTCCEEECTTSCCBSCCSSCCCC-CCTTCCEEECCSSCCCGGGGSS-----------
T ss_pred             chhhh---------------cCCCCCCEEECCCCcCCCccChhhhc-CcccCCEEECCCCCCCcchhhh-----------
Confidence             1111               12567777777776543334433211 236677777766 553211111           


Q ss_pred             eccccceeeeecccceeeeccc--cccceEEEeecCCCccchHHHHHhccccceEE
Q 040040          621 VFPNLEELTLSKYIFTTWRQAQ--FHKLKILHFISDGSDFFQVGLLQNIHNLEKLV  674 (869)
Q Consensus       621 ~~~~L~~L~l~~~~~~~~~~~~--~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~  674 (869)
                      ..++|++|++++|.+..++...  +++|+.|++++|....+|...+..+++|+.|+
T Consensus       448 l~~~L~~L~L~~N~l~~ip~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~  503 (562)
T 3a79_B          448 LPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIW  503 (562)
T ss_dssp             CCTTCSEEECCSSCCCCCCTTTTSSCCCSEEECCSSCCCCCCTTSTTTCTTCCCEE
T ss_pred             hcCcCCEEECCCCcCcccChhhcCCCCCCEEECCCCCCCCCCHHHHhcCCCCCEEE
Confidence            1256777777777666555432  56677777755555555544344444444333

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.89  E-value=7.6e-22  Score=232.66  Aligned_cols=133  Identities=22%  Similarity=0.240  Sum_probs=75.3

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhc
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISR  223 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~  223 (869)
                      +++++|+++++ .++.++...    +..+++|++|+|+++ +++.++.+.  .+.+++|++|+|++| +++.+|+ ..++
T Consensus        52 ~~~~~LdLs~N-~i~~l~~~~----f~~l~~L~~L~Ls~N-~i~~i~~~~--f~~L~~L~~L~Ls~N-~l~~l~~-~~f~  121 (635)
T 4g8a_A           52 FSTKNLDLSFN-PLRHLGSYS----FFSFPELQVLDLSRC-EIQTIEDGA--YQSLSHLSTLILTGN-PIQSLAL-GAFS  121 (635)
T ss_dssp             TTCCEEECTTS-CCCEECTTT----TTTCTTCCEEECTTC-CCCEECTTT--TTTCTTCCEEECTTC-CCCEECG-GGGT
T ss_pred             cCCCEEEeeCC-CCCCCCHHH----HhCCCCCCEEECCCC-cCCCcChhH--hcCCCCCCEEEccCC-cCCCCCH-HHhc
Confidence            36777777776 566665432    356677777777776 566665443  235677777777776 3666654 4566


Q ss_pred             CCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccc---cccccCCCcCEEEeccccccc
Q 040040          224 GLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSF---CSVVAFPNLETLKLSAINSET  300 (869)
Q Consensus       224 ~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~---~~~~~l~~L~~L~L~~~~l~~  300 (869)
                      ++++|++|+++++. +..++.            ..+..+++|++|+++++. +..+   .....+++|++|++++|.++.
T Consensus       122 ~L~~L~~L~Ls~N~-l~~l~~------------~~~~~L~~L~~L~Ls~N~-l~~~~~~~~~~~l~~L~~L~L~~N~l~~  187 (635)
T 4g8a_A          122 GLSSLQKLVAVETN-LASLEN------------FPIGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLDLSSNKIQS  187 (635)
T ss_dssp             TCTTCCEEECTTSC-CCCSTT------------CCCTTCTTCCEEECCSSC-CCCCCCCGGGGGCTTCCEEECCSSCCCE
T ss_pred             CCCCCCEEECCCCc-CCCCCh------------hhhhcCcccCeeccccCc-cccCCCchhhccchhhhhhcccCccccc
Confidence            77777777777653 444431            123345666666665532 2221   113345556666666555443

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.89  E-value=4.3e-21  Score=226.20  Aligned_cols=492  Identities=13%  Similarity=0.070  Sum_probs=287.2

Q ss_pred             hccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccc
Q 040040          117 LKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRA  196 (869)
Q Consensus       117 l~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~  196 (869)
                      .++++.|++++ +.++.+.+... .++++|++|++++| .++.++...    +..+++|++|+|+++ +++.++.+.  .
T Consensus        51 p~~~~~LdLs~-N~i~~l~~~~f-~~l~~L~~L~Ls~N-~i~~i~~~~----f~~L~~L~~L~Ls~N-~l~~l~~~~--f  120 (635)
T 4g8a_A           51 PFSTKNLDLSF-NPLRHLGSYSF-FSFPELQVLDLSRC-EIQTIEDGA----YQSLSHLSTLILTGN-PIQSLALGA--F  120 (635)
T ss_dssp             CTTCCEEECTT-SCCCEECTTTT-TTCTTCCEEECTTC-CCCEECTTT----TTTCTTCCEEECTTC-CCCEECGGG--G
T ss_pred             CcCCCEEEeeC-CCCCCCCHHHH-hCCCCCCEEECCCC-cCCCcChhH----hcCCCCCCEEEccCC-cCCCCCHHH--h
Confidence            35789999998 56666654322 78999999999998 788887643    468999999999998 688887654  3


Q ss_pred             cccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCc
Q 040040          197 ESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQL  276 (869)
Q Consensus       197 ~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l  276 (869)
                      +.+++|++|++++| +++.+++ ..++++++|++|+++++. +..++..           ..+..+++|++|+++++. +
T Consensus       121 ~~L~~L~~L~Ls~N-~l~~l~~-~~~~~L~~L~~L~Ls~N~-l~~~~~~-----------~~~~~l~~L~~L~L~~N~-l  185 (635)
T 4g8a_A          121 SGLSSLQKLVAVET-NLASLEN-FPIGHLKTLKELNVAHNL-IQSFKLP-----------EYFSNLTNLEHLDLSSNK-I  185 (635)
T ss_dssp             TTCTTCCEEECTTS-CCCCSTT-CCCTTCTTCCEEECCSSC-CCCCCCC-----------GGGGGCTTCCEEECCSSC-C
T ss_pred             cCCCCCCEEECCCC-cCCCCCh-hhhhcCcccCeeccccCc-cccCCCc-----------hhhccchhhhhhcccCcc-c
Confidence            47999999999999 5888865 468999999999999875 3332210           234568999999998854 4


Q ss_pred             ccccc--cccCC----CcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecc
Q 040040          277 RSFCS--VVAFP----NLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       277 ~~~~~--~~~l~----~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  350 (869)
                      +.++.  +..+.    ....++++.+.+..+....+.     ...++.+.+.+......+ ....+..+..++...+...
T Consensus       186 ~~~~~~~l~~L~~l~~~~~~~~ls~n~l~~i~~~~~~-----~~~~~~l~l~~n~~~~~~-~~~~~~~l~~l~~~~l~~~  259 (635)
T 4g8a_A          186 QSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFK-----EIRLHKLTLRNNFDSLNV-MKTCIQGLAGLEVHRLVLG  259 (635)
T ss_dssp             CEECGGGGHHHHTCTTCCCEEECTTCCCCEECTTTTT-----TCEEEEEEEESCCSSHHH-HHHHHHTTTTCEEEEEEEE
T ss_pred             cccccccccchhhhhhhhhhhhcccCcccccCccccc-----chhhhhhhhhcccccccc-cchhhcCCccccccccccc
Confidence            43321  11222    334677777765554333222     234555666543221111 2233455566655544321


Q ss_pred             c--c---cccccccc-------------------ccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEc
Q 040040          351 M--D---LEGIVFPE-------------------EMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMA  406 (869)
Q Consensus       351 ~--~---l~~i~~~~-------------------~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~  406 (869)
                      .  .   +.......                   ...........+.+++.+.+.++. +..+..  ......|+.|++.
T Consensus       260 ~~~~~~~l~~~~~~~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~-~~~~~~--~~~~~~L~~L~l~  336 (635)
T 4g8a_A          260 EFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDGIIDLFNCLTNVSSFSLVSVT-IERVKD--FSYNFGWQHLELV  336 (635)
T ss_dssp             CCTTSCCCSCCCTTTTGGGGGSEEEEEEEECCCSCEEECTTTTGGGTTCSEEEEESCE-EEECGG--GGSCCCCSEEEEE
T ss_pred             ccccccccccccccccccccchhhhhhhhhhhcccccchhhhhhhhcccccccccccc-cccccc--cccchhhhhhhcc
Confidence            1  0   00000000                   000000012334556666666554 222221  2235678888887


Q ss_pred             cCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCcccccccccc
Q 040040          407 KCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQEL  486 (869)
Q Consensus       407 ~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~  486 (869)
                      +|. +..++                  ...+..|+.+.+.++.... . +.  ...+++|+.|+++++ .+......   
T Consensus       337 ~~~-~~~~~------------------~~~l~~L~~l~l~~n~~~~-~-~~--~~~l~~L~~L~ls~n-~l~~~~~~---  389 (635)
T 4g8a_A          337 NCK-FGQFP------------------TLKLKSLKRLTFTSNKGGN-A-FS--EVDLPSLEFLDLSRN-GLSFKGCC---  389 (635)
T ss_dssp             SCE-ESSCC------------------CCBCTTCCEEEEESCCSCC-B-CC--CCBCTTCCEEECCSS-CCBEEEEC---
T ss_pred             ccc-ccCcC------------------cccchhhhhcccccccCCC-C-cc--cccccccccchhhcc-cccccccc---
Confidence            753 22221                  1236788888887765332 2 21  235788999998873 33222110   


Q ss_pred             CccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccc
Q 040040          487 NSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPS  566 (869)
Q Consensus       487 ~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~  566 (869)
                       ....  ....+|+.|++..+.. ..+    +..+..+++|+.+++.+++..... +...            .  ..+++
T Consensus       390 -~~~~--~~~~~L~~L~~~~~~~-~~~----~~~~~~l~~L~~l~l~~~~~~~~~-~~~~------------~--~~l~~  446 (635)
T 4g8a_A          390 -SQSD--FGTISLKYLDLSFNGV-ITM----SSNFLGLEQLEHLDFQHSNLKQMS-EFSV------------F--LSLRN  446 (635)
T ss_dssp             -CHHH--HSCSCCCEEECCSCSE-EEE----CSCCTTCTTCCEEECTTSEEESTT-SSCT------------T--TTCTT
T ss_pred             -ccch--hhhhhhhhhhcccccc-ccc----cccccccccccchhhhhccccccc-cccc------------c--ccccc
Confidence             0011  2566788888877543 333    456778888888888875443332 2100            0  12567


Q ss_pred             cceEeecCCCCCceecCCCCCCCCCCCceeeecc-c-cCccccccceeeEeeecceeccccceeeeecccceeeeccc--
Q 040040          567 LTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-K-NPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQ--  642 (869)
Q Consensus       567 L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~-l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~--  642 (869)
                      ++.++++.+..-...+....  .+++++.|++++ . ...+.....         ..+++|++|++++|.+.++.+..  
T Consensus       447 l~~l~ls~n~l~~~~~~~~~--~~~~L~~L~Ls~N~~~~~~~~~~~---------~~l~~L~~L~Ls~N~L~~l~~~~f~  515 (635)
T 4g8a_A          447 LIYLDISHTHTRVAFNGIFN--GLSSLEVLKMAGNSFQENFLPDIF---------TELRNLTFLDLSQCQLEQLSPTAFN  515 (635)
T ss_dssp             CCEEECTTSCCEECCTTTTT--TCTTCCEEECTTCEEGGGEECSCC---------TTCTTCCEEECTTSCCCEECTTTTT
T ss_pred             cccccccccccccccccccc--cchhhhhhhhhhcccccccCchhh---------hhccccCEEECCCCccCCcChHHHc
Confidence            78888877643222222222  247888888877 3 332221110         02678888888888888877654  


Q ss_pred             -cccceEEEeecCCCccchHHHHHhccccceEEEEEEecccccccccEEEcCccccccccccCCCCCccccc-CCccEEE
Q 040040          643 -FHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFL-QNLEFLE  720 (869)
Q Consensus       643 -~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~~~~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l-~~L~~L~  720 (869)
                       +++|++|++++|....+|...++.+                 ++|+.|+++++ .++    ...+..+..+ ++|++|+
T Consensus       516 ~l~~L~~L~Ls~N~l~~l~~~~~~~l-----------------~~L~~L~Ls~N-~l~----~~~~~~l~~l~~~L~~L~  573 (635)
T 4g8a_A          516 SLSSLQVLNMSHNNFFSLDTFPYKCL-----------------NSLQVLDYSLN-HIM----TSKKQELQHFPSSLAFLN  573 (635)
T ss_dssp             TCTTCCEEECTTSCCCBCCCGGGTTC-----------------TTCCEEECTTS-CCC----BCCSSCTTCCCTTCCEEE
T ss_pred             CCCCCCEEECCCCcCCCCChhHHhCC-----------------CCCCEEECCCC-cCC----CCCHHHHHhhhCcCCEEE
Confidence             6778888886555555544434444                 45555556664 233    2233445555 6788888


Q ss_pred             Eeccc
Q 040040          721 VKECA  725 (869)
Q Consensus       721 l~~c~  725 (869)
                      +++|+
T Consensus       574 L~~Np  578 (635)
T 4g8a_A          574 LTQND  578 (635)
T ss_dssp             CTTCC
T ss_pred             eeCCC
Confidence            88776

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.89  E-value=1e-22  Score=227.37  Aligned_cols=399  Identities=17%  Similarity=0.133  Sum_probs=163.1

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccc-ccccccccccccCCC-------------CEEEe
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLE-KISCSQLRAESFLRL-------------RNLKV  207 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~-~l~~~~~~~~~l~~L-------------~~L~L  207 (869)
                      ...+|++|.++++ .++.+|..+     +.+++|++|+++++. +. .+|..   ++.+.+|             ++|++
T Consensus         9 ~~~~L~~L~l~~n-~l~~iP~~i-----~~L~~L~~L~l~~n~-~~~~~p~~---~~~l~~L~~l~l~~c~~~~l~~L~l   78 (454)
T 1jl5_A            9 SNTFLQEPLRHSS-NLTEMPVEA-----ENVKSKTEYYNAWSE-WERNAPPG---NGEQREMAVSRLRDCLDRQAHELEL   78 (454)
T ss_dssp             -------------------------------CCHHHHHHHHHH-HHHTSCTT---SCCCHHHHHHHHHHHHHHTCSEEEC
T ss_pred             ccccchhhhcccC-chhhCChhH-----hcccchhhhhccCCc-ccccCCcc---cccchhcchhhhhhhhccCCCEEEe
Confidence            4588999999998 678888765     789999999999984 43 44443   4566655             66666


Q ss_pred             cCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCC
Q 040040          208 ESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPN  287 (869)
Q Consensus       208 ~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~  287 (869)
                      ++|. ++.+|..     .++|++|+++++. ++.+|.                .+++|++|+++++ .+..++..  .++
T Consensus        79 ~~~~-l~~lp~~-----~~~L~~L~l~~n~-l~~lp~----------------~~~~L~~L~l~~n-~l~~l~~~--~~~  132 (454)
T 1jl5_A           79 NNLG-LSSLPEL-----PPHLESLVASCNS-LTELPE----------------LPQSLKSLLVDNN-NLKALSDL--PPL  132 (454)
T ss_dssp             TTSC-CSCCCSC-----CTTCSEEECCSSC-CSSCCC----------------CCTTCCEEECCSS-CCSCCCSC--CTT
T ss_pred             cCCc-cccCCCC-----cCCCCEEEccCCc-CCcccc----------------ccCCCcEEECCCC-ccCcccCC--CCC
Confidence            6663 5555431     2566666665543 333331                1245555555543 23333221  135


Q ss_pred             cCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccc
Q 040040          288 LETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEER  367 (869)
Q Consensus       288 L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~  367 (869)
                      |++|++++|.++.+     |. ++.+++|++|+++++ .++.+ |.    ...+|++|++                    
T Consensus       133 L~~L~L~~n~l~~l-----p~-~~~l~~L~~L~l~~N-~l~~l-p~----~~~~L~~L~L--------------------  180 (454)
T 1jl5_A          133 LEYLGVSNNQLEKL-----PE-LQNSSFLKIIDVDNN-SLKKL-PD----LPPSLEFIAA--------------------  180 (454)
T ss_dssp             CCEEECCSSCCSSC-----CC-CTTCTTCCEEECCSS-CCSCC-CC----CCTTCCEEEC--------------------
T ss_pred             CCEEECcCCCCCCC-----cc-cCCCCCCCEEECCCC-cCccc-CC----CcccccEEEC--------------------
Confidence            55555555543321     21 233445555555443 23332 21    1234444444                    


Q ss_pred             cccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEec
Q 040040          368 KDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIF  447 (869)
Q Consensus       368 ~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  447 (869)
                                   +++. ++.++.  ...+++|+.|++.+| .++.+|.                   .+++|++|++++
T Consensus       181 -------------~~n~-l~~l~~--~~~l~~L~~L~l~~N-~l~~l~~-------------------~~~~L~~L~l~~  224 (454)
T 1jl5_A          181 -------------GNNQ-LEELPE--LQNLPFLTAIYADNN-SLKKLPD-------------------LPLSLESIVAGN  224 (454)
T ss_dssp             -------------CSSC-CSSCCC--CTTCTTCCEEECCSS-CCSSCCC-------------------CCTTCCEEECCS
T ss_pred             -------------cCCc-CCcCcc--ccCCCCCCEEECCCC-cCCcCCC-------------------CcCcccEEECcC
Confidence                         4442 333331  233445555555443 2222221                   124566666666


Q ss_pred             cCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCc
Q 040040          448 CKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNL  527 (869)
Q Consensus       448 c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L  527 (869)
                      |. +.. +|.  ++.+++|++|+++++ .+..++.            .+++|++|+++++ .++.+    |..   +++|
T Consensus       225 n~-l~~-lp~--~~~l~~L~~L~l~~N-~l~~l~~------------~~~~L~~L~l~~N-~l~~l----~~~---~~~L  279 (454)
T 1jl5_A          225 NI-LEE-LPE--LQNLPFLTTIYADNN-LLKTLPD------------LPPSLEALNVRDN-YLTDL----PEL---PQSL  279 (454)
T ss_dssp             SC-CSS-CCC--CTTCTTCCEEECCSS-CCSSCCS------------CCTTCCEEECCSS-CCSCC----CCC---CTTC
T ss_pred             Cc-CCc-ccc--cCCCCCCCEEECCCC-cCCcccc------------cccccCEEECCCC-ccccc----Ccc---cCcC
Confidence            53 332 342  445666666666663 3444332            3456666666664 34444    322   3566


Q ss_pred             cEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCccc
Q 040040          528 VLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPSFG  606 (869)
Q Consensus       528 ~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~  606 (869)
                      ++|++++| .+..+ |.                  .+++|+.|+++++. +..++..     .++|++|++++ ++..++
T Consensus       280 ~~L~ls~N-~l~~l-~~------------------~~~~L~~L~l~~N~-l~~i~~~-----~~~L~~L~Ls~N~l~~lp  333 (454)
T 1jl5_A          280 TFLDVSEN-IFSGL-SE------------------LPPNLYYLNASSNE-IRSLCDL-----PPSLEELNVSNNKLIELP  333 (454)
T ss_dssp             CEEECCSS-CCSEE-SC------------------CCTTCCEEECCSSC-CSEECCC-----CTTCCEEECCSSCCSCCC
T ss_pred             CEEECcCC-ccCcc-cC------------------cCCcCCEEECcCCc-CCcccCC-----cCcCCEEECCCCcccccc
Confidence            66666653 34443 21                  13566666666653 2333211     14666777766 665554


Q ss_pred             cccceeeEeeecceeccccceeeeecccceeeeccccccceEEEeecCC-Cc--cchHHHHHhccccceEEEE--EEecc
Q 040040          607 SKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDG-SD--FFQVGLLQNIHNLEKLVLK--VEEHA  681 (869)
Q Consensus       607 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~L~~L~l~~~~-~~--~~p~~~l~~l~~L~~L~l~--~~~~~  681 (869)
                      .             .+++|++|++++|.+..++. .+++|+.|++++|. .+  .+|.+       +..|...  .....
T Consensus       334 ~-------------~~~~L~~L~L~~N~l~~lp~-~l~~L~~L~L~~N~l~~l~~ip~~-------l~~L~~n~~~~~i~  392 (454)
T 1jl5_A          334 A-------------LPPRLERLIASFNHLAEVPE-LPQNLKQLHVEYNPLREFPDIPES-------VEDLRMNSHLAEVP  392 (454)
T ss_dssp             C-------------CCTTCCEEECCSSCCSCCCC-CCTTCCEEECCSSCCSSCCCCCTT-------CCEEECCC------
T ss_pred             c-------------cCCcCCEEECCCCccccccc-hhhhccEEECCCCCCCcCCCChHH-------HHhhhhcccccccc
Confidence            4             24667777777776665554 56677777773333 33  34432       2222111  11111


Q ss_pred             cccccccEEEcCccccccccccCCCCCcccccCCccEEEEeccc
Q 040040          682 EGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECA  725 (869)
Q Consensus       682 ~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~  725 (869)
                      ..+++|+.|++++++ ++ .+     +  .-.++|+.|.+.+|.
T Consensus       393 ~~~~~L~~L~ls~N~-l~-~~-----~--~iP~sl~~L~~~~~~  427 (454)
T 1jl5_A          393 ELPQNLKQLHVETNP-LR-EF-----P--DIPESVEDLRMNSER  427 (454)
T ss_dssp             --------------------------------------------
T ss_pred             cccCcCCEEECCCCc-CC-cc-----c--cchhhHhheeCcCcc
Confidence            224677888887742 33 11     0  112567778888875

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.87  E-value=1.1e-20  Score=218.52  Aligned_cols=147  Identities=16%  Similarity=0.163  Sum_probs=96.8

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      .+...++++++++ +++.+|...       +++|++|+++++ .++.++...  .+.+++|++|++++| +++.+++ ..
T Consensus        29 ~~~~~~~l~ls~~-~L~~ip~~~-------~~~L~~L~Ls~N-~i~~~~~~~--~~~l~~L~~L~Ls~N-~l~~~~~-~~   95 (562)
T 3a79_B           29 SNELESMVDYSNR-NLTHVPKDL-------PPRTKALSLSQN-SISELRMPD--ISFLSELRVLRLSHN-RIRSLDF-HV   95 (562)
T ss_dssp             ----CCEEECTTS-CCCSCCTTS-------CTTCCEEECCSS-CCCCCCGGG--TTTCTTCCEEECCSC-CCCEECT-TT
T ss_pred             ccCCCcEEEcCCC-CCccCCCCC-------CCCcCEEECCCC-CccccChhh--hccCCCccEEECCCC-CCCcCCH-HH
Confidence            3455588888887 677777533       478888888887 566665433  457888888888888 4777755 46


Q ss_pred             hcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccc---ccccCCCcCEEEeccccc
Q 040040          222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFC---SVVAFPNLETLKLSAINS  298 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~---~~~~l~~L~~L~L~~~~l  298 (869)
                      ++++++|++|+++++. ++.+|.             .  .+++|++|+++++. +..++   .+..+++|++|++++|.+
T Consensus        96 ~~~l~~L~~L~Ls~N~-l~~lp~-------------~--~l~~L~~L~Ls~N~-l~~l~~p~~~~~l~~L~~L~L~~n~l  158 (562)
T 3a79_B           96 FLFNQDLEYLDVSHNR-LQNISC-------------C--PMASLRHLDLSFND-FDVLPVCKEFGNLTKLTFLGLSAAKF  158 (562)
T ss_dssp             TTTCTTCCEEECTTSC-CCEECS-------------C--CCTTCSEEECCSSC-CSBCCCCGGGGGCTTCCEEEEECSBC
T ss_pred             hCCCCCCCEEECCCCc-CCccCc-------------c--ccccCCEEECCCCC-ccccCchHhhcccCcccEEecCCCcc
Confidence            7888888888888865 566662             1  47788888887754 43332   355677777777777764


Q ss_pred             cccccCCCCCcccccCCc--eEEEEecCC
Q 040040          299 ETIWHNQLPAMSSCIQNL--TRLIVHGCN  325 (869)
Q Consensus       299 ~~i~~~~~~~~~~~l~~L--~~L~l~~c~  325 (869)
                      ...   .+    ..+++|  ++|+++++.
T Consensus       159 ~~~---~~----~~l~~L~L~~L~L~~n~  180 (562)
T 3a79_B          159 RQL---DL----LPVAHLHLSCILLDLVS  180 (562)
T ss_dssp             CTT---TT----GGGTTSCEEEEEEEESS
T ss_pred             ccC---ch----hhhhhceeeEEEeeccc
Confidence            431   11    223444  777777754

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.87  E-value=1e-20  Score=213.15  Aligned_cols=343  Identities=17%  Similarity=0.235  Sum_probs=242.4

Q ss_pred             HhccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccc
Q 040040          116 QLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLR  195 (869)
Q Consensus       116 ~l~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~  195 (869)
                      .+++++.|++.++ .+..+. .+  ..+++|++|+++++ .++.++.      ...+++|++|+++++ .+..++.    
T Consensus        44 ~l~~l~~L~l~~~-~i~~l~-~~--~~l~~L~~L~Ls~n-~l~~~~~------~~~l~~L~~L~l~~n-~l~~~~~----  107 (466)
T 1o6v_A           44 DLDQVTTLQADRL-GIKSID-GV--EYLNNLTQINFSNN-QLTDITP------LKNLTKLVDILMNNN-QIADITP----  107 (466)
T ss_dssp             HHHTCCEEECCSS-CCCCCT-TG--GGCTTCCEEECCSS-CCCCCGG------GTTCTTCCEEECCSS-CCCCCGG----
T ss_pred             HhccccEEecCCC-CCccCc-ch--hhhcCCCEEECCCC-ccCCchh------hhccccCCEEECCCC-ccccChh----
Confidence            4678899998874 343332 33  56899999999998 5666653      368899999999998 5665543    


Q ss_pred             ccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCC
Q 040040          196 AESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQ  275 (869)
Q Consensus       196 ~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~  275 (869)
                      .+.+++|++|++++| .++.++   .++++++|++|++++|. +..++              .+..+++|++|++.+  .
T Consensus       108 ~~~l~~L~~L~L~~n-~l~~~~---~~~~l~~L~~L~l~~n~-l~~~~--------------~~~~l~~L~~L~l~~--~  166 (466)
T 1o6v_A          108 LANLTNLTGLTLFNN-QITDID---PLKNLTNLNRLELSSNT-ISDIS--------------ALSGLTSLQQLSFGN--Q  166 (466)
T ss_dssp             GTTCTTCCEEECCSS-CCCCCG---GGTTCTTCSEEEEEEEE-ECCCG--------------GGTTCTTCSEEEEEE--S
T ss_pred             hcCCCCCCEEECCCC-CCCCCh---HHcCCCCCCEEECCCCc-cCCCh--------------hhccCCcccEeecCC--c
Confidence            458999999999998 477774   37899999999999975 44443              345688999999864  4


Q ss_pred             cccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccc
Q 040040          276 LRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEG  355 (869)
Q Consensus       276 l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~  355 (869)
                      +..++.+..+++|++|++++|.+..+     + .+..+++|++|++++|. +..+.+   ++.+++|++|++++| .++.
T Consensus       167 ~~~~~~~~~l~~L~~L~l~~n~l~~~-----~-~l~~l~~L~~L~l~~n~-l~~~~~---~~~l~~L~~L~l~~n-~l~~  235 (466)
T 1o6v_A          167 VTDLKPLANLTTLERLDISSNKVSDI-----S-VLAKLTNLESLIATNNQ-ISDITP---LGILTNLDELSLNGN-QLKD  235 (466)
T ss_dssp             CCCCGGGTTCTTCCEEECCSSCCCCC-----G-GGGGCTTCSEEECCSSC-CCCCGG---GGGCTTCCEEECCSS-CCCC
T ss_pred             ccCchhhccCCCCCEEECcCCcCCCC-----h-hhccCCCCCEEEecCCc-cccccc---ccccCCCCEEECCCC-Cccc
Confidence            45555677889999999999986553     1 14568899999999864 555433   577899999999986 4554


Q ss_pred             cccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCccc
Q 040040          356 IVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEK  435 (869)
Q Consensus       356 i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~  435 (869)
                      +.          ....+++|+.|+++++. +..++.  ...+++|+.|++.+|. +..++.                 ..
T Consensus       236 ~~----------~l~~l~~L~~L~l~~n~-l~~~~~--~~~l~~L~~L~l~~n~-l~~~~~-----------------~~  284 (466)
T 1o6v_A          236 IG----------TLASLTNLTDLDLANNQ-ISNLAP--LSGLTKLTELKLGANQ-ISNISP-----------------LA  284 (466)
T ss_dssp             CG----------GGGGCTTCSEEECCSSC-CCCCGG--GTTCTTCSEEECCSSC-CCCCGG-----------------GT
T ss_pred             ch----------hhhcCCCCCEEECCCCc-cccchh--hhcCCCCCEEECCCCc-cCcccc-----------------cc
Confidence            31          24578899999999886 555543  4457888888887753 333321                 12


Q ss_pred             ccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccc
Q 040040          436 SFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWN  515 (869)
Q Consensus       436 ~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~  515 (869)
                      .+++|+.|++++|. +... +.  +..+++|++|++++|. +..++..          +.+++|++|++++| .++.+  
T Consensus       285 ~l~~L~~L~L~~n~-l~~~-~~--~~~l~~L~~L~L~~n~-l~~~~~~----------~~l~~L~~L~l~~n-~l~~~--  346 (466)
T 1o6v_A          285 GLTALTNLELNENQ-LEDI-SP--ISNLKNLTYLTLYFNN-ISDISPV----------SSLTKLQRLFFYNN-KVSDV--  346 (466)
T ss_dssp             TCTTCSEEECCSSC-CSCC-GG--GGGCTTCSEEECCSSC-CSCCGGG----------GGCTTCCEEECCSS-CCCCC--
T ss_pred             CCCccCeEEcCCCc-ccCc-hh--hcCCCCCCEEECcCCc-CCCchhh----------ccCccCCEeECCCC-ccCCc--
Confidence            36888888888875 4433 32  5678888888888863 4443321          46788888888886 45544  


Q ss_pred             cCCCCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCC
Q 040040          516 KDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLP  576 (869)
Q Consensus       516 ~~p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~  576 (869)
                         ..+..+++|+.|++++| .+..+.|.                 ..+++|+.|++++|+
T Consensus       347 ---~~l~~l~~L~~L~l~~n-~l~~~~~~-----------------~~l~~L~~L~l~~n~  386 (466)
T 1o6v_A          347 ---SSLANLTNINWLSAGHN-QISDLTPL-----------------ANLTRITQLGLNDQA  386 (466)
T ss_dssp             ---GGGTTCTTCCEEECCSS-CCCBCGGG-----------------TTCTTCCEEECCCEE
T ss_pred             ---hhhccCCCCCEEeCCCC-ccCccchh-----------------hcCCCCCEEeccCCc
Confidence               35777888888888875 45554332                 235777777777664

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.87  E-value=2.9e-21  Score=215.73  Aligned_cols=222  Identities=20%  Similarity=0.193  Sum_probs=134.1

Q ss_pred             HhccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccc
Q 040040          116 QLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLR  195 (869)
Q Consensus       116 ~l~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~  195 (869)
                      .+++++.|+++++ .+..++ .+  ..+++|++|+++++ .++.++       ...+++|++|+++++ .++.++     
T Consensus        40 ~l~~L~~L~Ls~n-~l~~~~-~l--~~l~~L~~L~Ls~n-~l~~~~-------~~~l~~L~~L~Ls~N-~l~~~~-----  101 (457)
T 3bz5_A           40 QLATLTSLDCHNS-SITDMT-GI--EKLTGLTKLICTSN-NITTLD-------LSQNTNLTYLACDSN-KLTNLD-----  101 (457)
T ss_dssp             HHTTCCEEECCSS-CCCCCT-TG--GGCTTCSEEECCSS-CCSCCC-------CTTCTTCSEEECCSS-CCSCCC-----
T ss_pred             HcCCCCEEEccCC-CcccCh-hh--cccCCCCEEEccCC-cCCeEc-------cccCCCCCEEECcCC-CCceee-----
Confidence            4577777777764 343332 33  56777778877777 455543       256777777777776 455542     


Q ss_pred             ccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCC
Q 040040          196 AESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQ  275 (869)
Q Consensus       196 ~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~  275 (869)
                      .+.+++|++|++++| +++.++    ++.+++|++|+++++. +..++               +..+++|++|+++++..
T Consensus       102 ~~~l~~L~~L~L~~N-~l~~l~----~~~l~~L~~L~l~~N~-l~~l~---------------l~~l~~L~~L~l~~n~~  160 (457)
T 3bz5_A          102 VTPLTKLTYLNCDTN-KLTKLD----VSQNPLLTYLNCARNT-LTEID---------------VSHNTQLTELDCHLNKK  160 (457)
T ss_dssp             CTTCTTCCEEECCSS-CCSCCC----CTTCTTCCEEECTTSC-CSCCC---------------CTTCTTCCEEECTTCSC
T ss_pred             cCCCCcCCEEECCCC-cCCeec----CCCCCcCCEEECCCCc-cceec---------------cccCCcCCEEECCCCCc
Confidence            346777777777777 466552    5677777777777654 33322               23467777777777765


Q ss_pred             cccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccc
Q 040040          276 LRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEG  355 (869)
Q Consensus       276 l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~  355 (869)
                      +..+ .+..+++|++|++++|.++.+.       ++.+++|+.|++++| .++.+ +   ++.+++|++|+++++ .++.
T Consensus       161 ~~~~-~~~~l~~L~~L~ls~n~l~~l~-------l~~l~~L~~L~l~~N-~l~~~-~---l~~l~~L~~L~Ls~N-~l~~  226 (457)
T 3bz5_A          161 ITKL-DVTPQTQLTTLDCSFNKITELD-------VSQNKLLNRLNCDTN-NITKL-D---LNQNIQLTFLDCSSN-KLTE  226 (457)
T ss_dssp             CCCC-CCTTCTTCCEEECCSSCCCCCC-------CTTCTTCCEEECCSS-CCSCC-C---CTTCTTCSEEECCSS-CCSC
T ss_pred             cccc-ccccCCcCCEEECCCCccceec-------cccCCCCCEEECcCC-cCCee-c---cccCCCCCEEECcCC-cccc
Confidence            5555 3456677777777777655432       234667777777664 34443 2   456677777777764 4444


Q ss_pred             cccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEE
Q 040040          356 IVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRM  405 (869)
Q Consensus       356 i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l  405 (869)
                      ++           ...+++|+.|+++++. ++.++.+   .+++|+.|++
T Consensus       227 ip-----------~~~l~~L~~L~l~~N~-l~~~~~~---~l~~L~~L~l  261 (457)
T 3bz5_A          227 ID-----------VTPLTQLTYFDCSVNP-LTELDVS---TLSKLTTLHC  261 (457)
T ss_dssp             CC-----------CTTCTTCSEEECCSSC-CSCCCCT---TCTTCCEEEC
T ss_pred             cC-----------ccccCCCCEEEeeCCc-CCCcCHH---HCCCCCEEec
Confidence            32           2355666777766654 4444321   2455555554

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.86  E-value=2.2e-20  Score=210.53  Aligned_cols=189  Identities=15%  Similarity=0.213  Sum_probs=112.9

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      .++++++|++.++ .++.++.      ...+++|++|+++++ .++.++.    .+.+++|++|++++|. ++.+++   
T Consensus        44 ~l~~l~~L~l~~~-~i~~l~~------~~~l~~L~~L~Ls~n-~l~~~~~----~~~l~~L~~L~l~~n~-l~~~~~---  107 (466)
T 1o6v_A           44 DLDQVTTLQADRL-GIKSIDG------VEYLNNLTQINFSNN-QLTDITP----LKNLTKLVDILMNNNQ-IADITP---  107 (466)
T ss_dssp             HHHTCCEEECCSS-CCCCCTT------GGGCTTCCEEECCSS-CCCCCGG----GTTCTTCCEEECCSSC-CCCCGG---
T ss_pred             HhccccEEecCCC-CCccCcc------hhhhcCCCEEECCCC-ccCCchh----hhccccCCEEECCCCc-cccChh---
Confidence            3678899998887 5665543      246788888888887 5666543    4578888888888874 666532   


Q ss_pred             hcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEecccccccc
Q 040040          222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETI  301 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i  301 (869)
                      ++++++|++|++++|. +..++              .+..+++|++|+++++. +..++.+..+++|++|++.++ +.. 
T Consensus       108 ~~~l~~L~~L~L~~n~-l~~~~--------------~~~~l~~L~~L~l~~n~-l~~~~~~~~l~~L~~L~l~~~-~~~-  169 (466)
T 1o6v_A          108 LANLTNLTGLTLFNNQ-ITDID--------------PLKNLTNLNRLELSSNT-ISDISALSGLTSLQQLSFGNQ-VTD-  169 (466)
T ss_dssp             GTTCTTCCEEECCSSC-CCCCG--------------GGTTCTTCSEEEEEEEE-ECCCGGGTTCTTCSEEEEEES-CCC-
T ss_pred             hcCCCCCCEEECCCCC-CCCCh--------------HHcCCCCCCEEECCCCc-cCCChhhccCCcccEeecCCc-ccC-
Confidence            7788888888888764 44443              13446677777776643 444455556666666666432 111 


Q ss_pred             ccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecc
Q 040040          302 WHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMK  381 (869)
Q Consensus       302 ~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~  381 (869)
                          .+. ++.+++|++|++++|. ++.+   ..+..+++|++|++++| .+..+..          ...+++|+.|+++
T Consensus       170 ----~~~-~~~l~~L~~L~l~~n~-l~~~---~~l~~l~~L~~L~l~~n-~l~~~~~----------~~~l~~L~~L~l~  229 (466)
T 1o6v_A          170 ----LKP-LANLTTLERLDISSNK-VSDI---SVLAKLTNLESLIATNN-QISDITP----------LGILTNLDELSLN  229 (466)
T ss_dssp             ----CGG-GTTCTTCCEEECCSSC-CCCC---GGGGGCTTCSEEECCSS-CCCCCGG----------GGGCTTCCEEECC
T ss_pred             ----chh-hccCCCCCEEECcCCc-CCCC---hhhccCCCCCEEEecCC-ccccccc----------ccccCCCCEEECC
Confidence                111 3345666666666643 3433   12455666666666664 2332211          2345556666665


Q ss_pred             cCc
Q 040040          382 DLA  384 (869)
Q Consensus       382 ~~~  384 (869)
                      ++.
T Consensus       230 ~n~  232 (466)
T 1o6v_A          230 GNQ  232 (466)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            553

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.85  E-value=3.4e-20  Score=200.69  Aligned_cols=190  Identities=17%  Similarity=0.224  Sum_probs=96.7

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      +++|++|+++++ .+..++.      ...+++|++|+++++ .++.++.    ...+++|++|++++| .++.+   +.+
T Consensus        43 l~~L~~L~l~~~-~i~~~~~------~~~~~~L~~L~l~~n-~i~~~~~----~~~l~~L~~L~L~~n-~i~~~---~~~  106 (347)
T 4fmz_A           43 LESITKLVVAGE-KVASIQG------IEYLTNLEYLNLNGN-QITDISP----LSNLVKLTNLYIGTN-KITDI---SAL  106 (347)
T ss_dssp             HTTCSEEECCSS-CCCCCTT------GGGCTTCCEEECCSS-CCCCCGG----GTTCTTCCEEECCSS-CCCCC---GGG
T ss_pred             cccccEEEEeCC-ccccchh------hhhcCCccEEEccCC-ccccchh----hhcCCcCCEEEccCC-cccCc---hHH
Confidence            455566666555 3443332      134556666666655 4444332    235566666666665 34443   245


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIW  302 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~  302 (869)
                      .++++|++|++++|. +..++              .+..+++|++|+++++..+..++....+++|++|++++|.+..+.
T Consensus       107 ~~l~~L~~L~l~~n~-i~~~~--------------~~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~  171 (347)
T 4fmz_A          107 QNLTNLRELYLNEDN-ISDIS--------------PLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVT  171 (347)
T ss_dssp             TTCTTCSEEECTTSC-CCCCG--------------GGTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCG
T ss_pred             cCCCcCCEEECcCCc-ccCch--------------hhccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCch
Confidence            566666666666543 33333              133455666666666655555555555666666666666533321


Q ss_pred             cCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeeccc
Q 040040          303 HNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKD  382 (869)
Q Consensus       303 ~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~  382 (869)
                      .      +..+++|++|++++| .++.+.+   +..+++|+.|+++++ .+..+.          ....+++|++|++++
T Consensus       172 ~------~~~l~~L~~L~l~~n-~l~~~~~---~~~l~~L~~L~l~~n-~l~~~~----------~~~~~~~L~~L~l~~  230 (347)
T 4fmz_A          172 P------IANLTDLYSLSLNYN-QIEDISP---LASLTSLHYFTAYVN-QITDIT----------PVANMTRLNSLKIGN  230 (347)
T ss_dssp             G------GGGCTTCSEEECTTS-CCCCCGG---GGGCTTCCEEECCSS-CCCCCG----------GGGGCTTCCEEECCS
T ss_pred             h------hccCCCCCEEEccCC-ccccccc---ccCCCccceeecccC-CCCCCc----------hhhcCCcCCEEEccC
Confidence            1      234556666666654 2333311   455666666666654 233221          123455555555555


Q ss_pred             Cc
Q 040040          383 LA  384 (869)
Q Consensus       383 ~~  384 (869)
                      +.
T Consensus       231 n~  232 (347)
T 4fmz_A          231 NK  232 (347)
T ss_dssp             SC
T ss_pred             Cc
Confidence            53

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.84  E-value=3.8e-20  Score=206.71  Aligned_cols=142  Identities=17%  Similarity=0.127  Sum_probs=79.1

Q ss_pred             cccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeeccccccccccccc
Q 040040          437 FCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNK  516 (869)
Q Consensus       437 ~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~  516 (869)
                      +++|+.|++++|. +.. +|   +..+++|++|+++++ .++.++.           +.+++|+.|++++          
T Consensus       211 l~~L~~L~Ls~N~-l~~-ip---~~~l~~L~~L~l~~N-~l~~~~~-----------~~l~~L~~L~l~~----------  263 (457)
T 3bz5_A          211 NIQLTFLDCSSNK-LTE-ID---VTPLTQLTYFDCSVN-PLTELDV-----------STLSKLTTLHCIQ----------  263 (457)
T ss_dssp             CTTCSEEECCSSC-CSC-CC---CTTCTTCSEEECCSS-CCSCCCC-----------TTCTTCCEEECTT----------
T ss_pred             CCCCCEEECcCCc-ccc-cC---ccccCCCCEEEeeCC-cCCCcCH-----------HHCCCCCEEeccC----------
Confidence            4566666666554 333 24   345667777777663 3443321           2455555555443          


Q ss_pred             CCCCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCcee
Q 040040          517 DPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANL  596 (869)
Q Consensus       517 ~p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L  596 (869)
                              .+|+.|++++|+.+..+ |.                 ..+++|+.|++++|+.++.++..     +++|+.|
T Consensus       264 --------n~L~~L~l~~n~~~~~~-~~-----------------~~l~~L~~L~Ls~n~~l~~l~~~-----~~~L~~L  312 (457)
T 3bz5_A          264 --------TDLLEIDLTHNTQLIYF-QA-----------------EGCRKIKELDVTHNTQLYLLDCQ-----AAGITEL  312 (457)
T ss_dssp             --------CCCSCCCCTTCTTCCEE-EC-----------------TTCTTCCCCCCTTCTTCCEEECT-----TCCCSCC
T ss_pred             --------CCCCEEECCCCccCCcc-cc-----------------cccccCCEEECCCCcccceeccC-----CCcceEe
Confidence                    13444455555544443 32                 12567777777777766666542     2555555


Q ss_pred             eeccccCccccccceeeEeeecceeccccceeeeecccceeeeccccccceEEEeecCCCc
Q 040040          597 IFQLKNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSD  657 (869)
Q Consensus       597 ~l~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~L~~L~l~~~~~~  657 (869)
                      ++++                     .++|++|++++|.+.++.-..+++|+.|++++|...
T Consensus       313 ~l~~---------------------~~~L~~L~L~~N~l~~l~l~~l~~L~~L~l~~N~l~  352 (457)
T 3bz5_A          313 DLSQ---------------------NPKLVYLYLNNTELTELDVSHNTKLKSLSCVNAHIQ  352 (457)
T ss_dssp             CCTT---------------------CTTCCEEECTTCCCSCCCCTTCTTCSEEECCSSCCC
T ss_pred             chhh---------------------cccCCEEECCCCcccccccccCCcCcEEECCCCCCC
Confidence            5433                     467777777777776654444667777777444433

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.84  E-value=1.6e-19  Score=203.34  Aligned_cols=61  Identities=21%  Similarity=0.191  Sum_probs=35.1

Q ss_pred             CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecC
Q 040040          173 PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  237 (869)
                      ++|++|+++++ .++++....  .+.+++|++|++++|.....+++ ..++++++|++|+++++.
T Consensus        30 ~~l~~L~Ls~n-~i~~~~~~~--~~~l~~L~~L~L~~n~~~~~i~~-~~~~~l~~L~~L~Ls~n~   90 (455)
T 3v47_A           30 AHVNYVDLSLN-SIAELNETS--FSRLQDLQFLKVEQQTPGLVIRN-NTFRGLSSLIILKLDYNQ   90 (455)
T ss_dssp             TTCCEEECCSS-CCCEECTTT--TSSCTTCCEEECCCCSTTCEECT-TTTTTCTTCCEEECTTCT
T ss_pred             CccCEEEecCC-ccCcCChhH--hccCccccEEECcCCcccceECc-ccccccccCCEEeCCCCc
Confidence            56777777766 455543222  34666777777776643223332 356666677777766654

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.84  E-value=2.1e-19  Score=194.45  Aligned_cols=282  Identities=15%  Similarity=0.210  Sum_probs=199.8

Q ss_pred             HHhccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccc
Q 040040          115 TQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQL  194 (869)
Q Consensus       115 ~~l~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~  194 (869)
                      ..+++++.+++.++ .+..+ +.+  ..+++|++|+++++ .+..++.      ...+++|++|+++++ .++.++.   
T Consensus        41 ~~l~~L~~L~l~~~-~i~~~-~~~--~~~~~L~~L~l~~n-~i~~~~~------~~~l~~L~~L~L~~n-~i~~~~~---  105 (347)
T 4fmz_A           41 EELESITKLVVAGE-KVASI-QGI--EYLTNLEYLNLNGN-QITDISP------LSNLVKLTNLYIGTN-KITDISA---  105 (347)
T ss_dssp             HHHTTCSEEECCSS-CCCCC-TTG--GGCTTCCEEECCSS-CCCCCGG------GTTCTTCCEEECCSS-CCCCCGG---
T ss_pred             hhcccccEEEEeCC-ccccc-hhh--hhcCCccEEEccCC-ccccchh------hhcCCcCCEEEccCC-cccCchH---
Confidence            35789999999884 34333 233  66899999999998 6666654      368999999999998 6776642   


Q ss_pred             cccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCC
Q 040040          195 RAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLP  274 (869)
Q Consensus       195 ~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  274 (869)
                       .+.+++|++|++++|. ++.++   .+..+++|++|++++|..+..++              .+..+++|++|+++++.
T Consensus       106 -~~~l~~L~~L~l~~n~-i~~~~---~~~~l~~L~~L~l~~n~~~~~~~--------------~~~~l~~L~~L~l~~~~  166 (347)
T 4fmz_A          106 -LQNLTNLRELYLNEDN-ISDIS---PLANLTKMYSLNLGANHNLSDLS--------------PLSNMTGLNYLTVTESK  166 (347)
T ss_dssp             -GTTCTTCSEEECTTSC-CCCCG---GGTTCTTCCEEECTTCTTCCCCG--------------GGTTCTTCCEEECCSSC
T ss_pred             -HcCCCcCCEEECcCCc-ccCch---hhccCCceeEEECCCCCCccccc--------------chhhCCCCcEEEecCCC
Confidence             5689999999999995 77664   48899999999999997766554              35668999999999975


Q ss_pred             CcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecccccc
Q 040040          275 QLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLE  354 (869)
Q Consensus       275 ~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~  354 (869)
                       +..++.+..+++|++|++++|.+..+..      ...+++|+.|+++++ .+..+.+   +..+++|++|++++| .++
T Consensus       167 -~~~~~~~~~l~~L~~L~l~~n~l~~~~~------~~~l~~L~~L~l~~n-~l~~~~~---~~~~~~L~~L~l~~n-~l~  234 (347)
T 4fmz_A          167 -VKDVTPIANLTDLYSLSLNYNQIEDISP------LASLTSLHYFTAYVN-QITDITP---VANMTRLNSLKIGNN-KIT  234 (347)
T ss_dssp             -CCCCGGGGGCTTCSEEECTTSCCCCCGG------GGGCTTCCEEECCSS-CCCCCGG---GGGCTTCCEEECCSS-CCC
T ss_pred             -cCCchhhccCCCCCEEEccCCccccccc------ccCCCccceeecccC-CCCCCch---hhcCCcCCEEEccCC-ccC
Confidence             5556667889999999999998665432      456899999999986 4555422   678999999999997 455


Q ss_pred             ccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcc
Q 040040          355 GIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNE  434 (869)
Q Consensus       355 ~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~  434 (869)
                      .+..          ...+++|+.|+++++. ++.++  ....+++|+.|++++| .++.++.                 .
T Consensus       235 ~~~~----------~~~l~~L~~L~l~~n~-l~~~~--~~~~l~~L~~L~l~~n-~l~~~~~-----------------~  283 (347)
T 4fmz_A          235 DLSP----------LANLSQLTWLEIGTNQ-ISDIN--AVKDLTKLKMLNVGSN-QISDISV-----------------L  283 (347)
T ss_dssp             CCGG----------GTTCTTCCEEECCSSC-CCCCG--GGTTCTTCCEEECCSS-CCCCCGG-----------------G
T ss_pred             CCcc----------hhcCCCCCEEECCCCc-cCCCh--hHhcCCCcCEEEccCC-ccCCChh-----------------h
Confidence            4421          4477899999998875 55542  2334666777777664 3332221                 0


Q ss_pred             cccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccC
Q 040040          435 KSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACG  475 (869)
Q Consensus       435 ~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~  475 (869)
                      ..+++|+.|++++|. +... +...+..+++|++|++++|.
T Consensus       284 ~~l~~L~~L~L~~n~-l~~~-~~~~l~~l~~L~~L~L~~n~  322 (347)
T 4fmz_A          284 NNLSQLNSLFLNNNQ-LGNE-DMEVIGGLTNLTTLFLSQNH  322 (347)
T ss_dssp             GGCTTCSEEECCSSC-CCGG-GHHHHHTCTTCSEEECCSSS
T ss_pred             cCCCCCCEEECcCCc-CCCc-ChhHhhccccCCEEEccCCc
Confidence            224566666666654 2222 33344556666666666643

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.83  E-value=9.1e-20  Score=205.32  Aligned_cols=184  Identities=13%  Similarity=0.101  Sum_probs=116.9

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhc
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISR  223 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~  223 (869)
                      ++|++|+++++ .++.++...    +..+++|++|+++++.-...++...  ...+++|++|++++|. ++.+++ ..++
T Consensus        30 ~~l~~L~Ls~n-~i~~~~~~~----~~~l~~L~~L~L~~n~~~~~i~~~~--~~~l~~L~~L~Ls~n~-l~~~~~-~~~~  100 (455)
T 3v47_A           30 AHVNYVDLSLN-SIAELNETS----FSRLQDLQFLKVEQQTPGLVIRNNT--FRGLSSLIILKLDYNQ-FLQLET-GAFN  100 (455)
T ss_dssp             TTCCEEECCSS-CCCEECTTT----TSSCTTCCEEECCCCSTTCEECTTT--TTTCTTCCEEECTTCT-TCEECT-TTTT
T ss_pred             CccCEEEecCC-ccCcCChhH----hccCccccEEECcCCcccceECccc--ccccccCCEEeCCCCc-cCccCh-hhcc
Confidence            78999999998 666663322    3689999999999984323444333  4579999999999995 666644 4789


Q ss_pred             CCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEecccccccc
Q 040040          224 GLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINSETI  301 (869)
Q Consensus       224 ~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l~~i  301 (869)
                      ++++|++|++++|..-..++..           ..+..+++|++|+++++.--...+.  +..+++|++|++++|.+..+
T Consensus       101 ~l~~L~~L~L~~n~l~~~~~~~-----------~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~  169 (455)
T 3v47_A          101 GLANLEVLTLTQCNLDGAVLSG-----------NFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSI  169 (455)
T ss_dssp             TCTTCCEEECTTSCCBTHHHHS-----------STTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCC
T ss_pred             CcccCCEEeCCCCCCCccccCc-----------ccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCccccc
Confidence            9999999999998643223311           1145678888888888653222232  45678888888888875544


Q ss_pred             ccCCCCCcccccCCceEEEEecCCCCccccChh-------hHhccCCccEEEEecc
Q 040040          302 WHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTS-------LVRSFVQLQHLEIRKC  350 (869)
Q Consensus       302 ~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~-------~~~~L~~L~~L~l~~c  350 (869)
                      ....+..  ....+|+.|+++++. +..+.+..       .+..+++|++|+++++
T Consensus       170 ~~~~l~~--l~~~~L~~L~l~~n~-l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n  222 (455)
T 3v47_A          170 CEEDLLN--FQGKHFTLLRLSSIT-LQDMNEYWLGWEKCGNPFKNTSITTLDLSGN  222 (455)
T ss_dssp             CTTTSGG--GTTCEEEEEECTTCB-CTTCSTTCTTHHHHCCTTTTCEEEEEECTTS
T ss_pred             Chhhhhc--cccccccccccccCc-ccccchhhccccccccccccceeeeEecCCC
Confidence            3322221  012567777777653 33331110       0123456666666665

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.83  E-value=6.7e-19  Score=199.37  Aligned_cols=317  Identities=17%  Similarity=0.200  Sum_probs=194.4

Q ss_pred             cEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCC
Q 040040          147 KLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLP  226 (869)
Q Consensus       147 ~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~  226 (869)
                      +.++..+. +++.+|..       ..+.+++|+++++ +++.++...  ...+++|++|+++++ .++.+++ ..+++++
T Consensus        14 ~~v~c~~~-~l~~ip~~-------~~~~l~~L~L~~n-~l~~~~~~~--~~~l~~L~~L~L~~n-~i~~~~~-~~~~~l~   80 (477)
T 2id5_A           14 RAVLCHRK-RFVAVPEG-------IPTETRLLDLGKN-RIKTLNQDE--FASFPHLEELELNEN-IVSAVEP-GAFNNLF   80 (477)
T ss_dssp             TEEECCSC-CCSSCCSC-------CCTTCSEEECCSS-CCCEECTTT--TTTCTTCCEEECTTS-CCCEECT-TTTTTCT
T ss_pred             CEEEeCCC-CcCcCCCC-------CCCCCcEEECCCC-ccceECHhH--ccCCCCCCEEECCCC-ccCEeCh-hhhhCCc
Confidence            44555444 56666643       2467888888887 676665433  347888888888887 4666644 4677888


Q ss_pred             CCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccc-c-ccccCCCcCEEEeccccccccccC
Q 040040          227 QLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSF-C-SVVAFPNLETLKLSAINSETIWHN  304 (869)
Q Consensus       227 ~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~-~-~~~~l~~L~~L~L~~~~l~~i~~~  304 (869)
                      +|++|+++++. +..++.            ..+..+++|++|+++++. +..+ + .+..+++|++|++++|.+..+...
T Consensus        81 ~L~~L~L~~n~-l~~~~~------------~~~~~l~~L~~L~Ls~n~-i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~  146 (477)
T 2id5_A           81 NLRTLGLRSNR-LKLIPL------------GVFTGLSNLTKLDISENK-IVILLDYMFQDLYNLKSLEVGDNDLVYISHR  146 (477)
T ss_dssp             TCCEEECCSSC-CCSCCT------------TSSTTCTTCCEEECTTSC-CCEECTTTTTTCTTCCEEEECCTTCCEECTT
T ss_pred             cCCEEECCCCc-CCccCc------------ccccCCCCCCEEECCCCc-cccCChhHccccccCCEEECCCCccceeChh
Confidence            88888888764 555552            123446777777776654 2222 1 234566677777766665444332


Q ss_pred             CCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCc
Q 040040          305 QLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLA  384 (869)
Q Consensus       305 ~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~  384 (869)
                      .+    ..+++|++|++++| .++.+ +...+..+++|+.|+++++ .+..                             
T Consensus       147 ~~----~~l~~L~~L~l~~n-~l~~~-~~~~l~~l~~L~~L~l~~n-~i~~-----------------------------  190 (477)
T 2id5_A          147 AF----SGLNSLEQLTLEKC-NLTSI-PTEALSHLHGLIVLRLRHL-NINA-----------------------------  190 (477)
T ss_dssp             SS----TTCTTCCEEEEESC-CCSSC-CHHHHTTCTTCCEEEEESC-CCCE-----------------------------
T ss_pred             hc----cCCCCCCEEECCCC-cCccc-ChhHhcccCCCcEEeCCCC-cCcE-----------------------------
Confidence            22    23666666666664 34443 4444566666666666664 2332                             


Q ss_pred             cccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHhhcC
Q 040040          385 KLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFL  464 (869)
Q Consensus       385 ~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~  464 (869)
                          ++......+++|+.|++.+|+.+..++...                ....+|++|++++|. +.. +|...+..++
T Consensus       191 ----~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~----------------~~~~~L~~L~l~~n~-l~~-~~~~~~~~l~  248 (477)
T 2id5_A          191 ----IRDYSFKRLYRLKVLEISHWPYLDTMTPNC----------------LYGLNLTSLSITHCN-LTA-VPYLAVRHLV  248 (477)
T ss_dssp             ----ECTTCSCSCTTCCEEEEECCTTCCEECTTT----------------TTTCCCSEEEEESSC-CCS-CCHHHHTTCT
T ss_pred             ----eChhhcccCcccceeeCCCCccccccCccc----------------ccCccccEEECcCCc-ccc-cCHHHhcCcc
Confidence                222223335555666666655554444321                112478888888875 443 4766778899


Q ss_pred             CccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCcccccCc
Q 040040          465 KLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPT  544 (869)
Q Consensus       465 ~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l~p~  544 (869)
                      +|++|+++++ .+..++.      ...  ..+++|++|+++++ .++.+   .|..+..+++|++|+++++ .++.+.+.
T Consensus       249 ~L~~L~Ls~n-~l~~~~~------~~~--~~l~~L~~L~L~~n-~l~~~---~~~~~~~l~~L~~L~L~~N-~l~~~~~~  314 (477)
T 2id5_A          249 YLRFLNLSYN-PISTIEG------SML--HELLRLQEIQLVGG-QLAVV---EPYAFRGLNYLRVLNVSGN-QLTTLEES  314 (477)
T ss_dssp             TCCEEECCSS-CCCEECT------TSC--TTCTTCCEEECCSS-CCSEE---CTTTBTTCTTCCEEECCSS-CCSCCCGG
T ss_pred             ccCeeECCCC-cCCccCh------hhc--cccccCCEEECCCC-ccceE---CHHHhcCcccCCEEECCCC-cCceeCHh
Confidence            9999999984 4555432      111  46788999999885 45555   4677888999999999984 67776222


Q ss_pred             cEEEEEeccCCCCCcceeeccccceEeecCCCC
Q 040040          545 SVEIVANDVRGNDAATKFIFPSLTFLKLRDLPY  577 (869)
Q Consensus       545 s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  577 (869)
                      .+               ..+++|+.|++++++.
T Consensus       315 ~~---------------~~l~~L~~L~l~~N~l  332 (477)
T 2id5_A          315 VF---------------HSVGNLETLILDSNPL  332 (477)
T ss_dssp             GB---------------SCGGGCCEEECCSSCE
T ss_pred             Hc---------------CCCcccCEEEccCCCc
Confidence            11               1357888888887653

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.81  E-value=7.5e-19  Score=193.28  Aligned_cols=306  Identities=15%  Similarity=0.133  Sum_probs=167.7

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      .++++++|++.++ .++.++...    +..+++|++|+++++ .++.++...  .+.+++|++|++++|. ++.+++ ..
T Consensus        43 ~l~~l~~l~l~~~-~l~~l~~~~----~~~l~~L~~L~L~~n-~i~~~~~~~--~~~l~~L~~L~L~~n~-l~~~~~-~~  112 (390)
T 3o6n_A           43 TLNNQKIVTFKNS-TMRKLPAAL----LDSFRQVELLNLNDL-QIEEIDTYA--FAYAHTIQKLYMGFNA-IRYLPP-HV  112 (390)
T ss_dssp             GGCCCSEEEEESC-EESEECTHH----HHHCCCCSEEECTTS-CCCEECTTT--TTTCTTCCEEECCSSC-CCCCCT-TT
T ss_pred             ccCCceEEEecCC-chhhCChhH----hcccccCcEEECCCC-cccccChhh--ccCCCCcCEEECCCCC-CCcCCH-HH
Confidence            4577888888776 566666432    245677888888776 565555432  3467777777777774 666654 35


Q ss_pred             hcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEecccccc
Q 040040          222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINSE  299 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l~  299 (869)
                      ++++++|++|+++++. +..++..            .+..+++|++|+++++. +..++.  +..+++|++|++++|.+.
T Consensus       113 ~~~l~~L~~L~L~~n~-l~~l~~~------------~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~  178 (390)
T 3o6n_A          113 FQNVPLLTVLVLERND-LSSLPRG------------IFHNTPKLTTLSMSNNN-LERIEDDTFQATTSLQNLQLSSNRLT  178 (390)
T ss_dssp             TTTCTTCCEEECCSSC-CCCCCTT------------TTTTCTTCCEEECCSSC-CCBCCTTTTSSCTTCCEEECCSSCCS
T ss_pred             hcCCCCCCEEECCCCc-cCcCCHH------------HhcCCCCCcEEECCCCc-cCccChhhccCCCCCCEEECCCCcCC
Confidence            6777777777777754 4444411            12345566666665543 222221  334455555555555433


Q ss_pred             ccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceee
Q 040040          300 TIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLK  379 (869)
Q Consensus       300 ~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~  379 (869)
                      .+.       .+.+++|+.|+++++ .++.+      .                                 ..++|+.|+
T Consensus       179 ~~~-------~~~l~~L~~L~l~~n-~l~~~------~---------------------------------~~~~L~~L~  211 (390)
T 3o6n_A          179 HVD-------LSLIPSLFHANVSYN-LLSTL------A---------------------------------IPIAVEELD  211 (390)
T ss_dssp             BCC-------GGGCTTCSEEECCSS-CCSEE------E---------------------------------CCSSCSEEE
T ss_pred             ccc-------cccccccceeecccc-ccccc------C---------------------------------CCCcceEEE
Confidence            221       122344444444442 22221      1                                 223444444


Q ss_pred             cccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhH
Q 040040          380 MKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNM  459 (869)
Q Consensus       380 l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~  459 (869)
                      ++++. +..++..   .+++|+.|++.++. ++..+.                 ...+++|++|++++|. +... +...
T Consensus       212 l~~n~-l~~~~~~---~~~~L~~L~l~~n~-l~~~~~-----------------l~~l~~L~~L~Ls~n~-l~~~-~~~~  267 (390)
T 3o6n_A          212 ASHNS-INVVRGP---VNVELTILKLQHNN-LTDTAW-----------------LLNYPGLVEVDLSYNE-LEKI-MYHP  267 (390)
T ss_dssp             CCSSC-CCEEECC---CCSSCCEEECCSSC-CCCCGG-----------------GGGCTTCSEEECCSSC-CCEE-ESGG
T ss_pred             CCCCe-eeecccc---ccccccEEECCCCC-CcccHH-----------------HcCCCCccEEECCCCc-CCCc-ChhH
Confidence            44433 3333221   12344444444431 111110                 1225677777777764 4333 2334


Q ss_pred             HhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCcc
Q 040040          460 FARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLK  539 (869)
Q Consensus       460 ~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~  539 (869)
                      +..+++|++|++++ +.+..++...         ..+++|++|+++++ .++.+    |..+..+++|++|++++| .+.
T Consensus       268 ~~~l~~L~~L~L~~-n~l~~~~~~~---------~~l~~L~~L~L~~n-~l~~~----~~~~~~l~~L~~L~L~~N-~i~  331 (390)
T 3o6n_A          268 FVKMQRLERLYISN-NRLVALNLYG---------QPIPTLKVLDLSHN-HLLHV----ERNQPQFDRLENLYLDHN-SIV  331 (390)
T ss_dssp             GTTCSSCCEEECCS-SCCCEEECSS---------SCCTTCCEEECCSS-CCCCC----GGGHHHHTTCSEEECCSS-CCC
T ss_pred             ccccccCCEEECCC-CcCcccCccc---------CCCCCCCEEECCCC-cceec----CccccccCcCCEEECCCC-ccc
Confidence            56778888888887 4455543211         35778888888886 56555    566777888888888874 455


Q ss_pred             cccCccEEEEEeccCCCCCcceeeccccceEeecCCC
Q 040040          540 SIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLP  576 (869)
Q Consensus       540 ~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~  576 (869)
                      .+ |.                 ..+++|+.|++++++
T Consensus       332 ~~-~~-----------------~~~~~L~~L~l~~N~  350 (390)
T 3o6n_A          332 TL-KL-----------------STHHTLKNLTLSHND  350 (390)
T ss_dssp             CC-CC-----------------CTTCCCSEEECCSSC
T ss_pred             ee-Cc-----------------hhhccCCEEEcCCCC
Confidence            54 32                 125777777777765

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.81  E-value=1.9e-18  Score=195.61  Aligned_cols=225  Identities=20%  Similarity=0.232  Sum_probs=163.7

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      .+++++|+++++ .++.++...    +..+++|++|+++++ .++.+....  .+.+++|++|+++++ +++.+++ ..+
T Consensus        31 ~~~l~~L~L~~n-~l~~~~~~~----~~~l~~L~~L~L~~n-~i~~~~~~~--~~~l~~L~~L~L~~n-~l~~~~~-~~~  100 (477)
T 2id5_A           31 PTETRLLDLGKN-RIKTLNQDE----FASFPHLEELELNEN-IVSAVEPGA--FNNLFNLRTLGLRSN-RLKLIPL-GVF  100 (477)
T ss_dssp             CTTCSEEECCSS-CCCEECTTT----TTTCTTCCEEECTTS-CCCEECTTT--TTTCTTCCEEECCSS-CCCSCCT-TSS
T ss_pred             CCCCcEEECCCC-ccceECHhH----ccCCCCCCEEECCCC-ccCEeChhh--hhCCccCCEEECCCC-cCCccCc-ccc
Confidence            468999999998 677775432    368999999999998 677764433  458999999999998 4888765 467


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccc--ccccCCCcCEEEeccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFC--SVVAFPNLETLKLSAINSET  300 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~--~~~~l~~L~~L~L~~~~l~~  300 (869)
                      +++++|++|+++++. +..++.            ..+..+++|++|+++++. +..+.  .+..+++|++|++++|.+..
T Consensus       101 ~~l~~L~~L~Ls~n~-i~~~~~------------~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~  166 (477)
T 2id5_A          101 TGLSNLTKLDISENK-IVILLD------------YMFQDLYNLKSLEVGDND-LVYISHRAFSGLNSLEQLTLEKCNLTS  166 (477)
T ss_dssp             TTCTTCCEEECTTSC-CCEECT------------TTTTTCTTCCEEEECCTT-CCEECTTSSTTCTTCCEEEEESCCCSS
T ss_pred             cCCCCCCEEECCCCc-cccCCh------------hHccccccCCEEECCCCc-cceeChhhccCCCCCCEEECCCCcCcc
Confidence            899999999999876 444431            345668999999998864 44332  35678999999999998665


Q ss_pred             cccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeec
Q 040040          301 IWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKM  380 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l  380 (869)
                      +...    .+..+++|+.|+++++ .+..+ +...+..+++|++|++++|..+..++..         .....+|++|++
T Consensus       167 ~~~~----~l~~l~~L~~L~l~~n-~i~~~-~~~~~~~l~~L~~L~l~~~~~~~~~~~~---------~~~~~~L~~L~l  231 (477)
T 2id5_A          167 IPTE----ALSHLHGLIVLRLRHL-NINAI-RDYSFKRLYRLKVLEISHWPYLDTMTPN---------CLYGLNLTSLSI  231 (477)
T ss_dssp             CCHH----HHTTCTTCCEEEEESC-CCCEE-CTTCSCSCTTCCEEEEECCTTCCEECTT---------TTTTCCCSEEEE
T ss_pred             cChh----HhcccCCCcEEeCCCC-cCcEe-ChhhcccCcccceeeCCCCccccccCcc---------cccCccccEEEC
Confidence            4322    2445899999999986 45555 4455788999999999998776665432         223457888888


Q ss_pred             ccCccccccCCCcccCCCCccEEEEcc
Q 040040          381 KDLAKLTRFCSGNCIELPSLKQLRMAK  407 (869)
Q Consensus       381 ~~~~~L~~l~~~~~~~l~~L~~L~l~~  407 (869)
                      +++. ++.++......+++|+.|++++
T Consensus       232 ~~n~-l~~~~~~~~~~l~~L~~L~Ls~  257 (477)
T 2id5_A          232 THCN-LTAVPYLAVRHLVYLRFLNLSY  257 (477)
T ss_dssp             ESSC-CCSCCHHHHTTCTTCCEEECCS
T ss_pred             cCCc-ccccCHHHhcCccccCeeECCC
Confidence            8774 6655544344455666666654

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.80  E-value=9.2e-19  Score=192.56  Aligned_cols=307  Identities=19%  Similarity=0.143  Sum_probs=161.7

Q ss_pred             CCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccc--ccccCCCcCEEEecccccccc
Q 040040          224 GLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFC--SVVAFPNLETLKLSAINSETI  301 (869)
Q Consensus       224 ~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~--~~~~l~~L~~L~L~~~~l~~i  301 (869)
                      .+++++.|+++++. ++.+|..            .+..+++|++|+++++. +..++  .+..+++|++|++++|.+..+
T Consensus        43 ~l~~l~~l~l~~~~-l~~l~~~------------~~~~l~~L~~L~L~~n~-i~~~~~~~~~~l~~L~~L~L~~n~l~~~  108 (390)
T 3o6n_A           43 TLNNQKIVTFKNST-MRKLPAA------------LLDSFRQVELLNLNDLQ-IEEIDTYAFAYAHTIQKLYMGFNAIRYL  108 (390)
T ss_dssp             GGCCCSEEEEESCE-ESEECTH------------HHHHCCCCSEEECTTSC-CCEECTTTTTTCTTCCEEECCSSCCCCC
T ss_pred             ccCCceEEEecCCc-hhhCChh------------HhcccccCcEEECCCCc-ccccChhhccCCCCcCEEECCCCCCCcC
Confidence            46788888887754 5666621            13446777777777653 33332  245566777777777765443


Q ss_pred             ccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecc
Q 040040          302 WHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMK  381 (869)
Q Consensus       302 ~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~  381 (869)
                      ..    ..++.+++|++|+++++ .++.+ |...+..+++|++|+++++ .++.+...        ....+++|+.|+++
T Consensus       109 ~~----~~~~~l~~L~~L~L~~n-~l~~l-~~~~~~~l~~L~~L~L~~n-~l~~~~~~--------~~~~l~~L~~L~l~  173 (390)
T 3o6n_A          109 PP----HVFQNVPLLTVLVLERN-DLSSL-PRGIFHNTPKLTTLSMSNN-NLERIEDD--------TFQATTSLQNLQLS  173 (390)
T ss_dssp             CT----TTTTTCTTCCEEECCSS-CCCCC-CTTTTTTCTTCCEEECCSS-CCCBCCTT--------TTSSCTTCCEEECC
T ss_pred             CH----HHhcCCCCCCEEECCCC-ccCcC-CHHHhcCCCCCcEEECCCC-ccCccChh--------hccCCCCCCEEECC
Confidence            22    22334666777777664 44444 4344556667777777664 34333221        13345666666666


Q ss_pred             cCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHh
Q 040040          382 DLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFA  461 (869)
Q Consensus       382 ~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~  461 (869)
                      ++. ++.++.   ..+++                                        |+.|+++++. +..      +.
T Consensus       174 ~n~-l~~~~~---~~l~~----------------------------------------L~~L~l~~n~-l~~------~~  202 (390)
T 3o6n_A          174 SNR-LTHVDL---SLIPS----------------------------------------LFHANVSYNL-LST------LA  202 (390)
T ss_dssp             SSC-CSBCCG---GGCTT----------------------------------------CSEEECCSSC-CSE------EE
T ss_pred             CCc-CCcccc---ccccc----------------------------------------cceeeccccc-ccc------cC
Confidence            554 333321   12444                                        4444444432 111      11


Q ss_pred             hcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCcccc
Q 040040          462 RFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSI  541 (869)
Q Consensus       462 ~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l  541 (869)
                      ..++|++|++++ +.+..++.           ..+++|+.|+++++ .++.+     ..+..+++|++|+++++ .+..+
T Consensus       203 ~~~~L~~L~l~~-n~l~~~~~-----------~~~~~L~~L~l~~n-~l~~~-----~~l~~l~~L~~L~Ls~n-~l~~~  263 (390)
T 3o6n_A          203 IPIAVEELDASH-NSINVVRG-----------PVNVELTILKLQHN-NLTDT-----AWLLNYPGLVEVDLSYN-ELEKI  263 (390)
T ss_dssp             CCSSCSEEECCS-SCCCEEEC-----------CCCSSCCEEECCSS-CCCCC-----GGGGGCTTCSEEECCSS-CCCEE
T ss_pred             CCCcceEEECCC-Ceeeeccc-----------cccccccEEECCCC-CCccc-----HHHcCCCCccEEECCCC-cCCCc
Confidence            223455555555 23333321           13445555555553 23222     34555566666666553 34433


Q ss_pred             cCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCccccccceeeEeeecce
Q 040040          542 FPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQ  620 (869)
Q Consensus       542 ~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~  620 (869)
                      .|..+               ..+++|++|+++++. ++.++....  .+++|++|++++ ++..++....          
T Consensus       264 ~~~~~---------------~~l~~L~~L~L~~n~-l~~~~~~~~--~l~~L~~L~L~~n~l~~~~~~~~----------  315 (390)
T 3o6n_A          264 MYHPF---------------VKMQRLERLYISNNR-LVALNLYGQ--PIPTLKVLDLSHNHLLHVERNQP----------  315 (390)
T ss_dssp             ESGGG---------------TTCSSCCEEECCSSC-CCEEECSSS--CCTTCCEEECCSSCCCCCGGGHH----------
T ss_pred             ChhHc---------------cccccCCEEECCCCc-CcccCcccC--CCCCCCEEECCCCcceecCcccc----------
Confidence            23222               124556666665542 333333322  236677777766 6655544221          


Q ss_pred             eccccceeeeecccceeeeccccccceEEEeecCCCc
Q 040040          621 VFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSD  657 (869)
Q Consensus       621 ~~~~L~~L~l~~~~~~~~~~~~~~~L~~L~l~~~~~~  657 (869)
                      .+++|++|++++|.+..+....+++|+.|++.+|...
T Consensus       316 ~l~~L~~L~L~~N~i~~~~~~~~~~L~~L~l~~N~~~  352 (390)
T 3o6n_A          316 QFDRLENLYLDHNSIVTLKLSTHHTLKNLTLSHNDWD  352 (390)
T ss_dssp             HHTTCSEEECCSSCCCCCCCCTTCCCSEEECCSSCEE
T ss_pred             ccCcCCEEECCCCccceeCchhhccCCEEEcCCCCcc
Confidence            2578888888888877776666788888888555433

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.77  E-value=6e-18  Score=196.60  Aligned_cols=306  Identities=18%  Similarity=0.132  Sum_probs=166.8

Q ss_pred             CCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccc--ccccCCCcCEEEecccccccc
Q 040040          224 GLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFC--SVVAFPNLETLKLSAINSETI  301 (869)
Q Consensus       224 ~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~--~~~~l~~L~~L~L~~~~l~~i  301 (869)
                      .+.+++.++++++. +..+|..            .+..+++|++|+++++. +..++  .+..+++|++|+|++|.+..+
T Consensus        49 ~l~~l~~l~l~~~~-l~~lp~~------------~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~l~~~  114 (597)
T 3oja_B           49 TLNNQKIVTFKNST-MRKLPAA------------LLDSFRQVELLNLNDLQ-IEEIDTYAFAYAHTIQKLYMGFNAIRYL  114 (597)
T ss_dssp             GGCCCSEEEESSCE-ESEECTH------------HHHHCCCCSEEECTTSC-CCEECTTTTTTCTTCCEEECCSSCCCCC
T ss_pred             cCCCceEEEeeCCC-CCCcCHH------------HHccCCCCcEEECCCCC-CCCCChHHhcCCCCCCEEECCCCcCCCC
Confidence            36777777777754 5555521            12346677777776643 33333  244566666666666654443


Q ss_pred             ccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecc
Q 040040          302 WHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMK  381 (869)
Q Consensus       302 ~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~  381 (869)
                      .    |..++.+++|++|++++| .++.+ |...++.+++|++|+++++ .+..++..        ....+++|+.|+++
T Consensus       115 ~----~~~~~~l~~L~~L~L~~n-~l~~l-~~~~~~~l~~L~~L~Ls~N-~l~~~~~~--------~~~~l~~L~~L~L~  179 (597)
T 3oja_B          115 P----PHVFQNVPLLTVLVLERN-DLSSL-PRGIFHNTPKLTTLSMSNN-NLERIEDD--------TFQATTSLQNLQLS  179 (597)
T ss_dssp             C----TTTTTTCTTCCEEECCSS-CCCCC-CTTTTTTCTTCCEEECCSS-CCCBCCTT--------TTTTCTTCCEEECT
T ss_pred             C----HHHHcCCCCCCEEEeeCC-CCCCC-CHHHhccCCCCCEEEeeCC-cCCCCChh--------hhhcCCcCcEEECc
Confidence            2    222334666666666664 34443 3344455666666666664 33333221        13345555555555


Q ss_pred             cCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHh
Q 040040          382 DLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFA  461 (869)
Q Consensus       382 ~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~  461 (869)
                      ++. ++.++.                                           +.+++|+.|+++++. +..      +.
T Consensus       180 ~N~-l~~~~~-------------------------------------------~~l~~L~~L~l~~n~-l~~------l~  208 (597)
T 3oja_B          180 SNR-LTHVDL-------------------------------------------SLIPSLFHANVSYNL-LST------LA  208 (597)
T ss_dssp             TSC-CSBCCG-------------------------------------------GGCTTCSEEECCSSC-CSE------EE
T ss_pred             CCC-CCCcCh-------------------------------------------hhhhhhhhhhcccCc-ccc------cc
Confidence            543 333221                                           124555555555442 221      11


Q ss_pred             hcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCcccc
Q 040040          462 RFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSI  541 (869)
Q Consensus       462 ~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l  541 (869)
                      ..++|++|+++++ .+..++.           ..+++|+.|+++++. ++.     +..+..+++|++|++++| .+..+
T Consensus       209 ~~~~L~~L~ls~n-~l~~~~~-----------~~~~~L~~L~L~~n~-l~~-----~~~l~~l~~L~~L~Ls~N-~l~~~  269 (597)
T 3oja_B          209 IPIAVEELDASHN-SINVVRG-----------PVNVELTILKLQHNN-LTD-----TAWLLNYPGLVEVDLSYN-ELEKI  269 (597)
T ss_dssp             CCTTCSEEECCSS-CCCEEEC-----------SCCSCCCEEECCSSC-CCC-----CGGGGGCTTCSEEECCSS-CCCEE
T ss_pred             CCchhheeeccCC-ccccccc-----------ccCCCCCEEECCCCC-CCC-----ChhhccCCCCCEEECCCC-ccCCC
Confidence            2345666666663 3333322           234566666666642 332     245666677777777663 45444


Q ss_pred             cCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCccccccceeeEeeecce
Q 040040          542 FPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQ  620 (869)
Q Consensus       542 ~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~  620 (869)
                      .|.++               ..+++|+.|+++++. +..++.....  +++|+.|++++ .+..++....          
T Consensus       270 ~~~~~---------------~~l~~L~~L~Ls~N~-l~~l~~~~~~--l~~L~~L~Ls~N~l~~i~~~~~----------  321 (597)
T 3oja_B          270 MYHPF---------------VKMQRLERLYISNNR-LVALNLYGQP--IPTLKVLDLSHNHLLHVERNQP----------  321 (597)
T ss_dssp             ESGGG---------------TTCSSCCEEECTTSC-CCEEECSSSC--CTTCCEEECCSSCCCCCGGGHH----------
T ss_pred             CHHHh---------------cCccCCCEEECCCCC-CCCCCccccc--CCCCcEEECCCCCCCccCcccc----------
Confidence            34332               125667777776653 3444443322  37777777777 6666654321          


Q ss_pred             eccccceeeeecccceeeeccccccceEEEeecCCC
Q 040040          621 VFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGS  656 (869)
Q Consensus       621 ~~~~L~~L~l~~~~~~~~~~~~~~~L~~L~l~~~~~  656 (869)
                      .+++|++|++++|.+..+....+++|+.|++++|..
T Consensus       322 ~l~~L~~L~L~~N~l~~~~~~~~~~L~~L~l~~N~~  357 (597)
T 3oja_B          322 QFDRLENLYLDHNSIVTLKLSTHHTLKNLTLSHNDW  357 (597)
T ss_dssp             HHTTCSEEECCSSCCCCCCCCTTCCCSEEECCSSCE
T ss_pred             cCCCCCEEECCCCCCCCcChhhcCCCCEEEeeCCCC
Confidence            368888888888888877766788888888855543

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.77  E-value=9.3e-18  Score=194.95  Aligned_cols=306  Identities=14%  Similarity=0.144  Sum_probs=160.5

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      .+.+++.|++.++ .+..+|...    +..+++|++|+++++ .++.++...  .+.+++|++|++++|. ++.+++ ..
T Consensus        49 ~l~~l~~l~l~~~-~l~~lp~~~----~~~l~~L~~L~L~~n-~l~~~~~~~--~~~l~~L~~L~L~~n~-l~~~~~-~~  118 (597)
T 3oja_B           49 TLNNQKIVTFKNS-TMRKLPAAL----LDSFRQVELLNLNDL-QIEEIDTYA--FAYAHTIQKLYMGFNA-IRYLPP-HV  118 (597)
T ss_dssp             GGCCCSEEEESSC-EESEECTHH----HHHCCCCSEEECTTS-CCCEECTTT--TTTCTTCCEEECCSSC-CCCCCT-TT
T ss_pred             cCCCceEEEeeCC-CCCCcCHHH----HccCCCCcEEECCCC-CCCCCChHH--hcCCCCCCEEECCCCc-CCCCCH-HH
Confidence            3456666666665 455555432    234566666666665 455544322  3356666666666663 555544 34


Q ss_pred             hcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccc--ccccCCCcCEEEecccccc
Q 040040          222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFC--SVVAFPNLETLKLSAINSE  299 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~--~~~~l~~L~~L~L~~~~l~  299 (869)
                      ++++++|++|++++|. +..+|..            .+..+++|++|+++++. +..++  .+..+++|++|++++|.+.
T Consensus       119 ~~~l~~L~~L~L~~n~-l~~l~~~------------~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~  184 (597)
T 3oja_B          119 FQNVPLLTVLVLERND-LSSLPRG------------IFHNTPKLTTLSMSNNN-LERIEDDTFQATTSLQNLQLSSNRLT  184 (597)
T ss_dssp             TTTCTTCCEEECCSSC-CCCCCTT------------TTTTCTTCCEEECCSSC-CCBCCTTTTTTCTTCCEEECTTSCCS
T ss_pred             HcCCCCCCEEEeeCCC-CCCCCHH------------HhccCCCCCEEEeeCCc-CCCCChhhhhcCCcCcEEECcCCCCC
Confidence            5666666666666653 3444410            11334555555555432 22221  1233444444444444432


Q ss_pred             ccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceee
Q 040040          300 TIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLK  379 (869)
Q Consensus       300 ~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~  379 (869)
                                                   .+ +   ++.+++|+.|+++++ .+..+             ...++|+.|+
T Consensus       185 -----------------------------~~-~---~~~l~~L~~L~l~~n-~l~~l-------------~~~~~L~~L~  217 (597)
T 3oja_B          185 -----------------------------HV-D---LSLIPSLFHANVSYN-LLSTL-------------AIPIAVEELD  217 (597)
T ss_dssp             -----------------------------BC-C---GGGCTTCSEEECCSS-CCSEE-------------ECCTTCSEEE
T ss_pred             -----------------------------Cc-C---hhhhhhhhhhhcccC-ccccc-------------cCCchhheee
Confidence                                         22 1   233444444444442 22211             1223444555


Q ss_pred             cccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhH
Q 040040          380 MKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNM  459 (869)
Q Consensus       380 l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~  459 (869)
                      ++++. +..++...   .++|+.|++.+|. ++..+                 ....+++|+.|++++|. +....| ..
T Consensus       218 ls~n~-l~~~~~~~---~~~L~~L~L~~n~-l~~~~-----------------~l~~l~~L~~L~Ls~N~-l~~~~~-~~  273 (597)
T 3oja_B          218 ASHNS-INVVRGPV---NVELTILKLQHNN-LTDTA-----------------WLLNYPGLVEVDLSYNE-LEKIMY-HP  273 (597)
T ss_dssp             CCSSC-CCEEECSC---CSCCCEEECCSSC-CCCCG-----------------GGGGCTTCSEEECCSSC-CCEEES-GG
T ss_pred             ccCCc-cccccccc---CCCCCEEECCCCC-CCCCh-----------------hhccCCCCCEEECCCCc-cCCCCH-HH
Confidence            44443 33332211   2345555554432 11111                 01225777888887765 443333 34


Q ss_pred             HhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCcc
Q 040040          460 FARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLK  539 (869)
Q Consensus       460 ~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~  539 (869)
                      +..+++|++|++++ +.+..++...         ..+++|+.|+++++ .+..+    |..+..+++|++|++++| .+.
T Consensus       274 ~~~l~~L~~L~Ls~-N~l~~l~~~~---------~~l~~L~~L~Ls~N-~l~~i----~~~~~~l~~L~~L~L~~N-~l~  337 (597)
T 3oja_B          274 FVKMQRLERLYISN-NRLVALNLYG---------QPIPTLKVLDLSHN-HLLHV----ERNQPQFDRLENLYLDHN-SIV  337 (597)
T ss_dssp             GTTCSSCCEEECTT-SCCCEEECSS---------SCCTTCCEEECCSS-CCCCC----GGGHHHHTTCSEEECCSS-CCC
T ss_pred             hcCccCCCEEECCC-CCCCCCCccc---------ccCCCCcEEECCCC-CCCcc----CcccccCCCCCEEECCCC-CCC
Confidence            56788888888888 4455554311         25778888888886 45555    667778888888888874 455


Q ss_pred             cccCccEEEEEeccCCCCCcceeeccccceEeecCCC
Q 040040          540 SIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLP  576 (869)
Q Consensus       540 ~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~  576 (869)
                      .+ |.                 ..+++|+.|++++++
T Consensus       338 ~~-~~-----------------~~~~~L~~L~l~~N~  356 (597)
T 3oja_B          338 TL-KL-----------------STHHTLKNLTLSHND  356 (597)
T ss_dssp             CC-CC-----------------CTTCCCSEEECCSSC
T ss_pred             Cc-Ch-----------------hhcCCCCEEEeeCCC
Confidence            54 32                 226778888887765

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.76  E-value=1.1e-19  Score=212.07  Aligned_cols=162  Identities=15%  Similarity=0.264  Sum_probs=93.8

Q ss_pred             CCCCCccEeecccccccccccccc------------ccccccCCCCEEEecCCCCCcccCChhhh-cCCCCCcEEEEeec
Q 040040          170 DAFPLLESLSLSNLMNLEKISCSQ------------LRAESFLRLRNLKVESCEKLTHIFSFSIS-RGLPQLQTIKVTAC  236 (869)
Q Consensus       170 ~~~~~L~~L~L~~~~~l~~l~~~~------------~~~~~l~~L~~L~L~~c~~l~~l~~~~~~-~~L~~L~~L~l~~c  236 (869)
                      ..|++|++|++.+++.+.++...+            .....+++|++|++++|. +..... ..+ ..+++|++|++++|
T Consensus        63 ~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~-~~~~~~-~~l~~~~~~L~~L~L~~~  140 (594)
T 2p1m_B           63 RRFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMV-VTDDCL-ELIAKSFKNFKVLVLSSC  140 (594)
T ss_dssp             HHCTTCCEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCB-CCHHHH-HHHHHHCTTCCEEEEESC
T ss_pred             hhCCCceEEeccCCCchhhcccccccccchhhHHHHHHHHhCCCCCeEEeeCcE-EcHHHH-HHHHHhCCCCcEEeCCCc
Confidence            468899999999987665432110            001357888888888885 544322 233 36888888888887


Q ss_pred             CCcee--eeccccccccCCccccccccCCcccEEeccCCCCccc-----ccc-cccCCCcCEEEeccccccccccCCCCC
Q 040040          237 KNMKV--IFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRS-----FCS-VVAFPNLETLKLSAINSETIWHNQLPA  308 (869)
Q Consensus       237 ~~l~~--l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~-----~~~-~~~l~~L~~L~L~~~~l~~i~~~~~~~  308 (869)
                      ..+..  ++             .-...+++|++|++++|. +..     ++. ...+++|++|++++|. ..+....++.
T Consensus       141 ~~~~~~~l~-------------~~~~~~~~L~~L~L~~~~-i~~~~~~~l~~~~~~~~~L~~L~l~~~~-~~~~~~~l~~  205 (594)
T 2p1m_B          141 EGFSTDGLA-------------AIAATCRNLKELDLRESD-VDDVSGHWLSHFPDTYTSLVSLNISCLA-SEVSFSALER  205 (594)
T ss_dssp             EEEEHHHHH-------------HHHHHCTTCCEEECTTCE-EECCCGGGGGGSCTTCCCCCEEECTTCC-SCCCHHHHHH
T ss_pred             CCCCHHHHH-------------HHHHhCCCCCEEeCcCCc-cCCcchHHHHHHhhcCCcCcEEEecccC-CcCCHHHHHH
Confidence            54433  11             112247778888887765 221     111 1245677777777664 1111122233


Q ss_pred             cccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecc
Q 040040          309 MSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       309 ~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  350 (869)
                      ....+++|++|++++|..++.+  ...+..+++|++|++..|
T Consensus       206 l~~~~~~L~~L~L~~~~~~~~l--~~~~~~~~~L~~L~l~~~  245 (594)
T 2p1m_B          206 LVTRCPNLKSLKLNRAVPLEKL--ATLLQRAPQLEELGTGGY  245 (594)
T ss_dssp             HHHHCTTCCEEECCTTSCHHHH--HHHHHHCTTCSEEECSBC
T ss_pred             HHHhCCCCcEEecCCCCcHHHH--HHHHhcCCcceEcccccc
Confidence            3334567777777776555553  234566677777776654

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.75  E-value=8.2e-19  Score=204.68  Aligned_cols=234  Identities=10%  Similarity=0.031  Sum_probs=116.2

Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcC-CCC-CcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCC
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRG-LPQ-LQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQ  275 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~-L~~-L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~  275 (869)
                      .+++|++|++++|. ++.... ..+.. +++ |++|++++|..+....   ..        .-...+++|++|++++|. 
T Consensus       110 ~~~~L~~L~L~~~~-i~~~~~-~~l~~~~~~~L~~L~L~~~~~~~~~~---l~--------~~~~~~~~L~~L~L~~~~-  175 (592)
T 3ogk_B          110 NLRQLKSVHFRRMI-VSDLDL-DRLAKARADDLETLKLDKCSGFTTDG---LL--------SIVTHCRKIKTLLMEESS-  175 (592)
T ss_dssp             HCTTCCEEEEESCB-CCHHHH-HHHHHHHGGGCCEEEEESCEEEEHHH---HH--------HHHHHCTTCSEEECTTCE-
T ss_pred             hCCCCCeEEeeccE-ecHHHH-HHHHHhccccCcEEECcCCCCcCHHH---HH--------HHHhhCCCCCEEECcccc-
Confidence            45666666666662 332211 12222 233 6666666664211100   00        011235666666666653 


Q ss_pred             ccc-----cc-ccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEec
Q 040040          276 LRS-----FC-SVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRK  349 (869)
Q Consensus       276 l~~-----~~-~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~  349 (869)
                      +..     ++ ....+++|++|+++++.+..+....++.....+++|++|++++|. +..+ + ..+..+++|++|+++.
T Consensus       176 ~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~-~~~l-~-~~~~~~~~L~~L~l~~  252 (592)
T 3ogk_B          176 FSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFE-ILEL-V-GFFKAAANLEEFCGGS  252 (592)
T ss_dssp             EECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCB-GGGG-H-HHHHHCTTCCEEEECB
T ss_pred             ccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCcc-HHHH-H-HHHhhhhHHHhhcccc
Confidence            111     11 123467888888887775533333455555667888888888864 3443 3 5577888888888876


Q ss_pred             cccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeee
Q 040040          350 CMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQ  429 (869)
Q Consensus       350 c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~  429 (869)
                      +........      .......+++|+.|.+.++. ...++. ....+++|++|++.+|. +.......           
T Consensus       253 ~~~~~~~~~------~~~~l~~~~~L~~L~l~~~~-~~~l~~-~~~~~~~L~~L~Ls~~~-l~~~~~~~-----------  312 (592)
T 3ogk_B          253 LNEDIGMPE------KYMNLVFPRKLCRLGLSYMG-PNEMPI-LFPFAAQIRKLDLLYAL-LETEDHCT-----------  312 (592)
T ss_dssp             CCCCTTCTT------SSSCCCCCTTCCEEEETTCC-TTTGGG-GGGGGGGCCEEEETTCC-CCHHHHHH-----------
T ss_pred             cccccchHH------HHHHhhccccccccCccccc-hhHHHH-HHhhcCCCcEEecCCCc-CCHHHHHH-----------
Confidence            332211000      00124456677777776542 222221 12235566666666655 32211000           


Q ss_pred             ccCcccccccccEEEEeccCCcccccchhHHhhcCCccEEEEcc
Q 040040          430 SFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGA  473 (869)
Q Consensus       430 ~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~  473 (869)
                         ....+++|++|++.++  +.+.........+++|++|++++
T Consensus       313 ---~~~~~~~L~~L~L~~~--~~~~~l~~~~~~~~~L~~L~L~~  351 (592)
T 3ogk_B          313 ---LIQKCPNLEVLETRNV--IGDRGLEVLAQYCKQLKRLRIER  351 (592)
T ss_dssp             ---HHTTCTTCCEEEEEGG--GHHHHHHHHHHHCTTCCEEEEEC
T ss_pred             ---HHHhCcCCCEEeccCc--cCHHHHHHHHHhCCCCCEEEeec
Confidence               0012466666666632  22111223344566667776664

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.74  E-value=4.3e-17  Score=174.84  Aligned_cols=206  Identities=13%  Similarity=0.123  Sum_probs=103.2

Q ss_pred             CCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCcc-ccChhhHhccCCccEEEEecccccccccccccccc
Q 040040          286 PNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKF-LFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIE  364 (869)
Q Consensus       286 ~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~-l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~  364 (869)
                      ++|++|++++|.+..+...    .+..+++|++|+++++. ++. -.....+..+ +|++|+++++ .++.++.      
T Consensus       123 ~~L~~L~l~~n~i~~~~~~----~~~~l~~L~~L~l~~n~-l~~~~~~~~~~~~l-~L~~L~l~~n-~l~~l~~------  189 (332)
T 2ft3_A          123 SSLVELRIHDNRIRKVPKG----VFSGLRNMNCIEMGGNP-LENSGFEPGAFDGL-KLNYLRISEA-KLTGIPK------  189 (332)
T ss_dssp             TTCCEEECCSSCCCCCCSG----GGSSCSSCCEEECCSCC-CBGGGSCTTSSCSC-CCSCCBCCSS-BCSSCCS------
T ss_pred             ccCCEEECCCCccCccCHh----HhCCCccCCEEECCCCc-cccCCCCcccccCC-ccCEEECcCC-CCCccCc------
Confidence            4566666665554433221    12335666666666543 221 0112223344 6666666664 3444322      


Q ss_pred             ccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEE
Q 040040          365 EERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLME  444 (869)
Q Consensus       365 ~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~  444 (869)
                           ..+++|++|+++++. ++.++......+++|+.|++.++ .++.++...               ...+++|+.|+
T Consensus       190 -----~~~~~L~~L~l~~n~-i~~~~~~~l~~l~~L~~L~L~~N-~l~~~~~~~---------------~~~l~~L~~L~  247 (332)
T 2ft3_A          190 -----DLPETLNELHLDHNK-IQAIELEDLLRYSKLYRLGLGHN-QIRMIENGS---------------LSFLPTLRELH  247 (332)
T ss_dssp             -----SSCSSCSCCBCCSSC-CCCCCTTSSTTCTTCSCCBCCSS-CCCCCCTTG---------------GGGCTTCCEEE
T ss_pred             -----cccCCCCEEECCCCc-CCccCHHHhcCCCCCCEEECCCC-cCCcCChhH---------------hhCCCCCCEEE
Confidence                 133567777776654 55555444445666666666553 233222110               12256777777


Q ss_pred             EeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccc-cccccCCCCccc
Q 040040          445 VIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLT-KIWNKDPRGKLI  523 (869)
Q Consensus       445 l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~-~l~~~~p~~~~~  523 (869)
                      +++|. +.. +|.+ +..+++|++|++++ +.++.++.....  ........++|+.|++.+++... .+   .|..+..
T Consensus       248 L~~N~-l~~-lp~~-l~~l~~L~~L~l~~-N~l~~~~~~~~~--~~~~~~~~~~l~~L~l~~N~~~~~~~---~~~~~~~  318 (332)
T 2ft3_A          248 LDNNK-LSR-VPAG-LPDLKLLQVVYLHT-NNITKVGVNDFC--PVGFGVKRAYYNGISLFNNPVPYWEV---QPATFRC  318 (332)
T ss_dssp             CCSSC-CCB-CCTT-GGGCTTCCEEECCS-SCCCBCCTTSSS--CSSCCSSSCCBSEEECCSSSSCGGGS---CGGGGTT
T ss_pred             CCCCc-Cee-cChh-hhcCccCCEEECCC-CCCCccChhHcc--ccccccccccccceEeecCccccccc---Ccccccc
Confidence            77764 432 4554 56778888888887 445554321100  00000124567777777765321 11   2455666


Q ss_pred             CCCccEEEEecC
Q 040040          524 FPNLVLVRIFEC  535 (869)
Q Consensus       524 l~~L~~L~l~~c  535 (869)
                      +++|+.++++++
T Consensus       319 l~~L~~l~l~~n  330 (332)
T 2ft3_A          319 VTDRLAIQFGNY  330 (332)
T ss_dssp             BCCSTTEEC---
T ss_pred             cchhhhhhcccc
Confidence            777777777664

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.73  E-value=1.3e-18  Score=203.21  Aligned_cols=239  Identities=17%  Similarity=0.208  Sum_probs=143.8

Q ss_pred             CCCCCccEEEEecCCCceecCCCC-CC---------CCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCC
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDST-EL---------VPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESC  210 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~-~~---------~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c  210 (869)
                      ..+++|++|++.++..+..+.-.. .+         .....+++|++|+++++. +.......+ ...+++|++|++.+|
T Consensus        63 ~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~-~~~~~~~~l-~~~~~~L~~L~L~~~  140 (594)
T 2p1m_B           63 RRFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMV-VTDDCLELI-AKSFKNFKVLVLSSC  140 (594)
T ss_dssp             HHCTTCCEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCB-CCHHHHHHH-HHHCTTCCEEEEESC
T ss_pred             hhCCCceEEeccCCCchhhcccccccccchhhHHHHHHHHhCCCCCeEEeeCcE-EcHHHHHHH-HHhCCCCcEEeCCCc
Confidence            467999999999986554332110 00         001357899999999983 443222211 125899999999999


Q ss_pred             CCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCC-Ccc--cccc-cccCC
Q 040040          211 EKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLP-QLR--SFCS-VVAFP  286 (869)
Q Consensus       211 ~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~-~l~--~~~~-~~~l~  286 (869)
                      ..++.......+.++++|++|++++|. +.........        .-...+++|++|+++++. .+.  .+.. ...++
T Consensus       141 ~~~~~~~l~~~~~~~~~L~~L~L~~~~-i~~~~~~~l~--------~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~  211 (594)
T 2p1m_B          141 EGFSTDGLAAIAATCRNLKELDLRESD-VDDVSGHWLS--------HFPDTYTSLVSLNISCLASEVSFSALERLVTRCP  211 (594)
T ss_dssp             EEEEHHHHHHHHHHCTTCCEEECTTCE-EECCCGGGGG--------GSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCT
T ss_pred             CCCCHHHHHHHHHhCCCCCEEeCcCCc-cCCcchHHHH--------HHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCC
Confidence            766552111245689999999999986 3322111000        112357899999999986 121  1111 23479


Q ss_pred             CcCEEEecccc-ccccccCCCCCcccccCCceEEEEecCCC------CccccChhhHhccCCccEEE-Eecccccccccc
Q 040040          287 NLETLKLSAIN-SETIWHNQLPAMSSCIQNLTRLIVHGCNN------LKFLFSTSLVRSFVQLQHLE-IRKCMDLEGIVF  358 (869)
Q Consensus       287 ~L~~L~L~~~~-l~~i~~~~~~~~~~~l~~L~~L~l~~c~~------l~~l~~~~~~~~L~~L~~L~-l~~c~~l~~i~~  358 (869)
                      +|++|++++|. +..     ++..+..+++|++|.+.+|..      +..+ + ..+.++++|+.|. +.+.. ...+..
T Consensus       212 ~L~~L~L~~~~~~~~-----l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~l-~-~~l~~~~~L~~Ls~~~~~~-~~~l~~  283 (594)
T 2p1m_B          212 NLKSLKLNRAVPLEK-----LATLLQRAPQLEELGTGGYTAEVRPDVYSGL-S-VALSGCKELRCLSGFWDAV-PAYLPA  283 (594)
T ss_dssp             TCCEEECCTTSCHHH-----HHHHHHHCTTCSEEECSBCCCCCCHHHHHHH-H-HHHHTCTTCCEEECCBTCC-GGGGGG
T ss_pred             CCcEEecCCCCcHHH-----HHHHHhcCCcceEcccccccCccchhhHHHH-H-HHHhcCCCcccccCCcccc-hhhHHH
Confidence            99999999984 222     555566789999999887643      1222 1 2356778888873 32211 011100


Q ss_pred             ccccccccccccccCccceeecccCccccccCCC-cccCCCCccEEEEccC
Q 040040          359 PEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSG-NCIELPSLKQLRMAKC  408 (869)
Q Consensus       359 ~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~-~~~~l~~L~~L~l~~c  408 (869)
                               ....+++|++|++++|. +..-... ....+++|+.|.+.+|
T Consensus       284 ---------~~~~~~~L~~L~L~~~~-l~~~~l~~~~~~~~~L~~L~l~~~  324 (594)
T 2p1m_B          284 ---------VYSVCSRLTTLNLSYAT-VQSYDLVKLLCQCPKLQRLWVLDY  324 (594)
T ss_dssp             ---------GHHHHTTCCEEECTTCC-CCHHHHHHHHTTCTTCCEEEEEGG
T ss_pred             ---------HHHhhCCCCEEEccCCC-CCHHHHHHHHhcCCCcCEEeCcCc
Confidence                     12256888888888876 4432111 1224677777777766

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=99.72  E-value=3e-16  Score=168.08  Aligned_cols=297  Identities=12%  Similarity=0.086  Sum_probs=140.1

Q ss_pred             CccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcC
Q 040040          145 SLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRG  224 (869)
Q Consensus       145 ~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~  224 (869)
                      ++++++++++ .++.+|..       ..+.+++|+++++ +++.++...  .+.+++|++|++++|. ++.+.+ ..+++
T Consensus        32 ~l~~l~~~~~-~l~~lp~~-------~~~~l~~L~L~~n-~i~~~~~~~--~~~l~~L~~L~L~~n~-l~~~~~-~~~~~   98 (330)
T 1xku_A           32 HLRVVQCSDL-GLEKVPKD-------LPPDTALLDLQNN-KITEIKDGD--FKNLKNLHTLILINNK-ISKISP-GAFAP   98 (330)
T ss_dssp             ETTEEECTTS-CCCSCCCS-------CCTTCCEEECCSS-CCCCBCTTT--TTTCTTCCEEECCSSC-CCCBCT-TTTTT
T ss_pred             CCeEEEecCC-CccccCcc-------CCCCCeEEECCCC-cCCEeChhh--hccCCCCCEEECCCCc-CCeeCH-HHhcC
Confidence            5566655554 44444432       2345666666655 454444322  2355666666666552 444432 24555


Q ss_pred             CCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccccC
Q 040040          225 LPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHN  304 (869)
Q Consensus       225 L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~  304 (869)
                      +++|++|+++++. +..+|                                     .. ..++|++|++++|.+..+...
T Consensus        99 l~~L~~L~Ls~n~-l~~l~-------------------------------------~~-~~~~L~~L~l~~n~l~~~~~~  139 (330)
T 1xku_A           99 LVKLERLYLSKNQ-LKELP-------------------------------------EK-MPKTLQELRVHENEITKVRKS  139 (330)
T ss_dssp             CTTCCEEECCSSC-CSBCC-------------------------------------SS-CCTTCCEEECCSSCCCBBCHH
T ss_pred             CCCCCEEECCCCc-CCccC-------------------------------------hh-hcccccEEECCCCcccccCHh
Confidence            5566666655543 33333                                     11 114555555555543332111


Q ss_pred             CCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCc
Q 040040          305 QLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLA  384 (869)
Q Consensus       305 ~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~  384 (869)
                          .+..+++|++|+++++..-..-.....+..+++|++|+++++ .++.++.           ..+++|++|+++++.
T Consensus       140 ----~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n-~l~~l~~-----------~~~~~L~~L~l~~n~  203 (330)
T 1xku_A          140 ----VFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADT-NITTIPQ-----------GLPPSLTELHLDGNK  203 (330)
T ss_dssp             ----HHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSS-CCCSCCS-----------SCCTTCSEEECTTSC
T ss_pred             ----HhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCC-ccccCCc-----------cccccCCEEECCCCc
Confidence                122355566666655432110012233455666666666664 3444321           123566666666654


Q ss_pred             cccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHhhcC
Q 040040          385 KLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFL  464 (869)
Q Consensus       385 ~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~  464 (869)
                       ++.+.......+++|+.|+++++. ++.++...               ...+++|++|++++|. +.. +|.+ +..++
T Consensus       204 -l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~---------------~~~l~~L~~L~L~~N~-l~~-lp~~-l~~l~  263 (330)
T 1xku_A          204 -ITKVDAASLKGLNNLAKLGLSFNS-ISAVDNGS---------------LANTPHLRELHLNNNK-LVK-VPGG-LADHK  263 (330)
T ss_dssp             -CCEECTGGGTTCTTCCEEECCSSC-CCEECTTT---------------GGGSTTCCEEECCSSC-CSS-CCTT-TTTCS
T ss_pred             -CCccCHHHhcCCCCCCEEECCCCc-CceeChhh---------------ccCCCCCCEEECCCCc-Ccc-CChh-hccCC
Confidence             544443334445666666665532 22222110               1225667777777664 332 3443 45677


Q ss_pred             CccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEec
Q 040040          465 KLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFE  534 (869)
Q Consensus       465 ~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~  534 (869)
                      +|++|++++ +.++.++..........  ...++|+.|++.+.+- ... ...|..+..+++++.+++++
T Consensus       264 ~L~~L~l~~-N~i~~~~~~~f~~~~~~--~~~~~l~~l~l~~N~~-~~~-~i~~~~f~~~~~l~~l~L~~  328 (330)
T 1xku_A          264 YIQVVYLHN-NNISAIGSNDFCPPGYN--TKKASYSGVSLFSNPV-QYW-EIQPSTFRCVYVRAAVQLGN  328 (330)
T ss_dssp             SCCEEECCS-SCCCCCCTTSSSCSSCC--TTSCCCSEEECCSSSS-CGG-GSCGGGGTTCCCGGGEEC--
T ss_pred             CcCEEECCC-CcCCccChhhcCCcccc--cccccccceEeecCcc-ccc-ccCccccccccceeEEEecc
Confidence            777777777 34554432111000000  1235666666666542 211 11244556666666666654

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=99.71  E-value=1.4e-16  Score=169.82  Aligned_cols=229  Identities=19%  Similarity=0.267  Sum_probs=125.5

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      ..+++++|+++++ .++.++..+     ..+++|++|+++++ .++.++..   .+.+++|++|++++| .++.+|.  .
T Consensus        79 ~~~~l~~L~L~~n-~l~~lp~~l-----~~l~~L~~L~L~~n-~l~~lp~~---~~~l~~L~~L~Ls~n-~l~~lp~--~  145 (328)
T 4fcg_A           79 TQPGRVALELRSV-PLPQFPDQA-----FRLSHLQHMTIDAA-GLMELPDT---MQQFAGLETLTLARN-PLRALPA--S  145 (328)
T ss_dssp             TSTTCCEEEEESS-CCSSCCSCG-----GGGTTCSEEEEESS-CCCCCCSC---GGGGTTCSEEEEESC-CCCCCCG--G
T ss_pred             cccceeEEEccCC-CchhcChhh-----hhCCCCCEEECCCC-CccchhHH---HhccCCCCEEECCCC-ccccCcH--H
Confidence            3577888888887 677776554     46888888888887 56666544   567889999999888 4666654  6


Q ss_pred             hcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc-cccCCCcCEEEeccccccc
Q 040040          222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS-VVAFPNLETLKLSAINSET  300 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~l~~L~~L~L~~~~l~~  300 (869)
                      ++++++|++|++++|..+..+|.......    ....+..+++|++|+++++ .+..+|. +..+++|++|++++|.+..
T Consensus       146 l~~l~~L~~L~L~~n~~~~~~p~~~~~~~----~~~~~~~l~~L~~L~L~~n-~l~~lp~~l~~l~~L~~L~L~~N~l~~  220 (328)
T 4fcg_A          146 IASLNRLRELSIRACPELTELPEPLASTD----ASGEHQGLVNLQSLRLEWT-GIRSLPASIANLQNLKSLKIRNSPLSA  220 (328)
T ss_dssp             GGGCTTCCEEEEEEETTCCCCCSCSEEEC-----CCCEEESTTCCEEEEEEE-CCCCCCGGGGGCTTCCEEEEESSCCCC
T ss_pred             HhcCcCCCEEECCCCCCccccChhHhhcc----chhhhccCCCCCEEECcCC-CcCcchHhhcCCCCCCEEEccCCCCCc
Confidence            88889999999998887777662211000    0011223555555555543 2333332 3344555555555554332


Q ss_pred             cccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeec
Q 040040          301 IWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKM  380 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l  380 (869)
                           +|..++.+++|++|++++|.....+ | ..++.+++|++|++++|.....++..         ...+++|+.|++
T Consensus       221 -----l~~~l~~l~~L~~L~Ls~n~~~~~~-p-~~~~~l~~L~~L~L~~n~~~~~~p~~---------~~~l~~L~~L~L  284 (328)
T 4fcg_A          221 -----LGPAIHHLPKLEELDLRGCTALRNY-P-PIFGGRAPLKRLILKDCSNLLTLPLD---------IHRLTQLEKLDL  284 (328)
T ss_dssp             -----CCGGGGGCTTCCEEECTTCTTCCBC-C-CCTTCCCCCCEEECTTCTTCCBCCTT---------GGGCTTCCEEEC
T ss_pred             -----CchhhccCCCCCEEECcCCcchhhh-H-HHhcCCCCCCEEECCCCCchhhcchh---------hhcCCCCCEEeC
Confidence                 2222334555555555554444332 2 22344555555555554443333221         334455555555


Q ss_pred             ccCccccccCCCcccCCCCccEEEE
Q 040040          381 KDLAKLTRFCSGNCIELPSLKQLRM  405 (869)
Q Consensus       381 ~~~~~L~~l~~~~~~~l~~L~~L~l  405 (869)
                      ++|+.+..+|.. ...+++|+.+.+
T Consensus       285 ~~n~~~~~iP~~-l~~L~~L~~l~l  308 (328)
T 4fcg_A          285 RGCVNLSRLPSL-IAQLPANCIILV  308 (328)
T ss_dssp             TTCTTCCCCCGG-GGGSCTTCEEEC
T ss_pred             CCCCchhhccHH-HhhccCceEEeC
Confidence            555444444432 223444444443

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=99.70  E-value=1.7e-16  Score=169.21  Aligned_cols=222  Identities=23%  Similarity=0.364  Sum_probs=176.1

Q ss_pred             hccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccc
Q 040040          117 LKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRA  196 (869)
Q Consensus       117 l~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~  196 (869)
                      .++++.|++++. .+..++..+  ..+++|++|+++++ .+..+|..+     ..+++|++|+++++ .++.++..   .
T Consensus        80 ~~~l~~L~L~~n-~l~~lp~~l--~~l~~L~~L~L~~n-~l~~lp~~~-----~~l~~L~~L~Ls~n-~l~~lp~~---l  146 (328)
T 4fcg_A           80 QPGRVALELRSV-PLPQFPDQA--FRLSHLQHMTIDAA-GLMELPDTM-----QQFAGLETLTLARN-PLRALPAS---I  146 (328)
T ss_dssp             STTCCEEEEESS-CCSSCCSCG--GGGTTCSEEEEESS-CCCCCCSCG-----GGGTTCSEEEEESC-CCCCCCGG---G
T ss_pred             ccceeEEEccCC-CchhcChhh--hhCCCCCEEECCCC-CccchhHHH-----hccCCCCEEECCCC-ccccCcHH---H
Confidence            478899999884 455666555  56899999999998 677777654     68999999999998 67777654   6


Q ss_pred             cccCCCCEEEecCCCCCcccCChhhh---------cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccE
Q 040040          197 ESFLRLRNLKVESCEKLTHIFSFSIS---------RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRK  267 (869)
Q Consensus       197 ~~l~~L~~L~L~~c~~l~~l~~~~~~---------~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~  267 (869)
                      +.+++|++|++++|..+..+|.  .+         +++++|++|+++++. +..+|             ..+..+++|++
T Consensus       147 ~~l~~L~~L~L~~n~~~~~~p~--~~~~~~~~~~~~~l~~L~~L~L~~n~-l~~lp-------------~~l~~l~~L~~  210 (328)
T 4fcg_A          147 ASLNRLRELSIRACPELTELPE--PLASTDASGEHQGLVNLQSLRLEWTG-IRSLP-------------ASIANLQNLKS  210 (328)
T ss_dssp             GGCTTCCEEEEEEETTCCCCCS--CSEEEC-CCCEEESTTCCEEEEEEEC-CCCCC-------------GGGGGCTTCCE
T ss_pred             hcCcCCCEEECCCCCCccccCh--hHhhccchhhhccCCCCCEEECcCCC-cCcch-------------HhhcCCCCCCE
Confidence            7899999999999987777765  33         359999999999985 55776             45677999999


Q ss_pred             EeccCCCCccccc-ccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEE
Q 040040          268 LTLKSLPQLRSFC-SVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLE  346 (869)
Q Consensus       268 L~l~~~~~l~~~~-~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~  346 (869)
                      |+++++. +..++ .+..+++|++|++++|.+..    .+|..++.+++|++|++++|.....+ |. .+..+++|++|+
T Consensus       211 L~L~~N~-l~~l~~~l~~l~~L~~L~Ls~n~~~~----~~p~~~~~l~~L~~L~L~~n~~~~~~-p~-~~~~l~~L~~L~  283 (328)
T 4fcg_A          211 LKIRNSP-LSALGPAIHHLPKLEELDLRGCTALR----NYPPIFGGRAPLKRLILKDCSNLLTL-PL-DIHRLTQLEKLD  283 (328)
T ss_dssp             EEEESSC-CCCCCGGGGGCTTCCEEECTTCTTCC----BCCCCTTCCCCCCEEECTTCTTCCBC-CT-TGGGCTTCCEEE
T ss_pred             EEccCCC-CCcCchhhccCCCCCEEECcCCcchh----hhHHHhcCCCCCCEEECCCCCchhhc-ch-hhhcCCCCCEEe
Confidence            9999875 44443 46788999999999998433    24555667999999999999887775 53 378999999999


Q ss_pred             EeccccccccccccccccccccccccCccceeecccC
Q 040040          347 IRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDL  383 (869)
Q Consensus       347 l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~  383 (869)
                      +++|+.+..++..         +..+++|+.+.+...
T Consensus       284 L~~n~~~~~iP~~---------l~~L~~L~~l~l~~~  311 (328)
T 4fcg_A          284 LRGCVNLSRLPSL---------IAQLPANCIILVPPH  311 (328)
T ss_dssp             CTTCTTCCCCCGG---------GGGSCTTCEEECCGG
T ss_pred             CCCCCchhhccHH---------HhhccCceEEeCCHH
Confidence            9999888777643         667888888887753

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=99.69  E-value=1.8e-15  Score=162.01  Aligned_cols=294  Identities=16%  Similarity=0.161  Sum_probs=166.2

Q ss_pred             cCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccc
Q 040040          119 GLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAES  198 (869)
Q Consensus       119 ~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~  198 (869)
                      +++.+++++. .+..++..+    .+++++|+++++ .++.++...    +..+++|++|+++++ .++.+....  .+.
T Consensus        32 ~l~~l~~~~~-~l~~lp~~~----~~~l~~L~L~~n-~i~~~~~~~----~~~l~~L~~L~L~~n-~l~~~~~~~--~~~   98 (330)
T 1xku_A           32 HLRVVQCSDL-GLEKVPKDL----PPDTALLDLQNN-KITEIKDGD----FKNLKNLHTLILINN-KISKISPGA--FAP   98 (330)
T ss_dssp             ETTEEECTTS-CCCSCCCSC----CTTCCEEECCSS-CCCCBCTTT----TTTCTTCCEEECCSS-CCCCBCTTT--TTT
T ss_pred             CCeEEEecCC-CccccCccC----CCCCeEEECCCC-cCCEeChhh----hccCCCCCEEECCCC-cCCeeCHHH--hcC
Confidence            3455555542 233333222    367788888777 566555422    356777888888776 555553222  446


Q ss_pred             cCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcc-
Q 040040          199 FLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLR-  277 (869)
Q Consensus       199 l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~-  277 (869)
                      +++|++|+++++. ++.+|.  .+  .++|++|+++++. +..++.            ..+..+++|++|+++++.--. 
T Consensus        99 l~~L~~L~Ls~n~-l~~l~~--~~--~~~L~~L~l~~n~-l~~~~~------------~~~~~l~~L~~L~l~~n~l~~~  160 (330)
T 1xku_A           99 LVKLERLYLSKNQ-LKELPE--KM--PKTLQELRVHENE-ITKVRK------------SVFNGLNQMIVVELGTNPLKSS  160 (330)
T ss_dssp             CTTCCEEECCSSC-CSBCCS--SC--CTTCCEEECCSSC-CCBBCH------------HHHTTCTTCCEEECCSSCCCGG
T ss_pred             CCCCCEEECCCCc-CCccCh--hh--cccccEEECCCCc-ccccCH------------hHhcCCccccEEECCCCcCCcc
Confidence            7788888887773 666644  22  2678888887764 344331            224457778888877754211 


Q ss_pred             -c-ccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccc
Q 040040          278 -S-FCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEG  355 (869)
Q Consensus       278 -~-~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~  355 (869)
                       . ...+..+++|++|++++|.+..+...       ..++|++|+++++ .++.+ +...+..+++|++|+++++ .++.
T Consensus       161 ~~~~~~~~~l~~L~~L~l~~n~l~~l~~~-------~~~~L~~L~l~~n-~l~~~-~~~~~~~l~~L~~L~Ls~n-~l~~  230 (330)
T 1xku_A          161 GIENGAFQGMKKLSYIRIADTNITTIPQG-------LPPSLTELHLDGN-KITKV-DAASLKGLNNLAKLGLSFN-SISA  230 (330)
T ss_dssp             GBCTTGGGGCTTCCEEECCSSCCCSCCSS-------CCTTCSEEECTTS-CCCEE-CTGGGTTCTTCCEEECCSS-CCCE
T ss_pred             CcChhhccCCCCcCEEECCCCccccCCcc-------ccccCCEEECCCC-cCCcc-CHHHhcCCCCCCEEECCCC-cCce
Confidence             1 12245677888888888875543221       1257888888775 35554 3345677888888888875 4554


Q ss_pred             cccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCccc
Q 040040          356 IVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEK  435 (869)
Q Consensus       356 i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~  435 (869)
                      +...        ....+++|+.|+++++. ++.++.. ...+++|+.|++.++ .++.++...+.         ......
T Consensus       231 ~~~~--------~~~~l~~L~~L~L~~N~-l~~lp~~-l~~l~~L~~L~l~~N-~i~~~~~~~f~---------~~~~~~  290 (330)
T 1xku_A          231 VDNG--------SLANTPHLRELHLNNNK-LVKVPGG-LADHKYIQVVYLHNN-NISAIGSNDFC---------PPGYNT  290 (330)
T ss_dssp             ECTT--------TGGGSTTCCEEECCSSC-CSSCCTT-TTTCSSCCEEECCSS-CCCCCCTTSSS---------CSSCCT
T ss_pred             eChh--------hccCCCCCCEEECCCCc-CccCChh-hccCCCcCEEECCCC-cCCccChhhcC---------Cccccc
Confidence            4321        24467788888888875 6666553 234677777777663 34444322110         000001


Q ss_pred             ccccccEEEEeccCCcccccchhHHhhcCCccEEEEcc
Q 040040          436 SFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGA  473 (869)
Q Consensus       436 ~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~  473 (869)
                      ...+++.|++.+++.....++...+..+++++.+++++
T Consensus       291 ~~~~l~~l~l~~N~~~~~~i~~~~f~~~~~l~~l~L~~  328 (330)
T 1xku_A          291 KKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLGN  328 (330)
T ss_dssp             TSCCCSEEECCSSSSCGGGSCGGGGTTCCCGGGEEC--
T ss_pred             ccccccceEeecCcccccccCccccccccceeEEEecc
Confidence            13556666666655332223334455566666666654

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.68  E-value=9.3e-18  Score=195.74  Aligned_cols=59  Identities=22%  Similarity=0.201  Sum_probs=25.5

Q ss_pred             cCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEe
Q 040040          284 AFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIR  348 (869)
Q Consensus       284 ~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~  348 (869)
                      .+++|+.|.++++.     ...+|.....+++|++|++++|. ++.......+..+++|++|++.
T Consensus       268 ~~~~L~~L~l~~~~-----~~~l~~~~~~~~~L~~L~Ls~~~-l~~~~~~~~~~~~~~L~~L~L~  326 (592)
T 3ogk_B          268 FPRKLCRLGLSYMG-----PNEMPILFPFAAQIRKLDLLYAL-LETEDHCTLIQKCPNLEVLETR  326 (592)
T ss_dssp             CCTTCCEEEETTCC-----TTTGGGGGGGGGGCCEEEETTCC-CCHHHHHHHHTTCTTCCEEEEE
T ss_pred             ccccccccCccccc-----hhHHHHHHhhcCCCcEEecCCCc-CCHHHHHHHHHhCcCCCEEecc
Confidence            34455555554432     12233333445555555555544 3221111223445555555555

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.67  E-value=1.5e-15  Score=162.81  Aligned_cols=294  Identities=14%  Similarity=0.129  Sum_probs=167.6

Q ss_pred             cCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccc
Q 040040          119 GLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAES  198 (869)
Q Consensus       119 ~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~  198 (869)
                      +++.+++++. .++.++..+    .++|++|+++++ .++.++...    +..+++|++|+++++ .++.+....  .+.
T Consensus        34 ~l~~l~~~~~-~l~~ip~~~----~~~l~~L~l~~n-~i~~~~~~~----~~~l~~L~~L~L~~n-~l~~~~~~~--~~~  100 (332)
T 2ft3_A           34 HLRVVQCSDL-GLKAVPKEI----SPDTTLLDLQNN-DISELRKDD----FKGLQHLYALVLVNN-KISKIHEKA--FSP  100 (332)
T ss_dssp             ETTEEECCSS-CCSSCCSCC----CTTCCEEECCSS-CCCEECTTT----TTTCTTCCEEECCSS-CCCEECGGG--STT
T ss_pred             cCCEEECCCC-CccccCCCC----CCCCeEEECCCC-cCCccCHhH----hhCCCCCcEEECCCC-ccCccCHhH--hhC
Confidence            3555665553 333333322    467788888777 566554321    356777888888777 565553322  446


Q ss_pred             cCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcc-
Q 040040          199 FLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLR-  277 (869)
Q Consensus       199 l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~-  277 (869)
                      +++|++|+++++ .++.+|.  .+.  ++|++|+++++. +..++.            ..+..+++|++|+++++.--. 
T Consensus       101 l~~L~~L~L~~n-~l~~l~~--~~~--~~L~~L~l~~n~-i~~~~~------------~~~~~l~~L~~L~l~~n~l~~~  162 (332)
T 2ft3_A          101 LRKLQKLYISKN-HLVEIPP--NLP--SSLVELRIHDNR-IRKVPK------------GVFSGLRNMNCIEMGGNPLENS  162 (332)
T ss_dssp             CTTCCEEECCSS-CCCSCCS--SCC--TTCCEEECCSSC-CCCCCS------------GGGSSCSSCCEEECCSCCCBGG
T ss_pred             cCCCCEEECCCC-cCCccCc--ccc--ccCCEEECCCCc-cCccCH------------hHhCCCccCCEEECCCCccccC
Confidence            778888888777 3666654  222  678888887754 444441            124457778888887754211 


Q ss_pred             -cccc-cccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccc
Q 040040          278 -SFCS-VVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEG  355 (869)
Q Consensus       278 -~~~~-~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~  355 (869)
                       ..+. ...+ +|++|++++|.+..+...       ..++|++|+++++ .++.+ +...+..+++|++|+++++ .++.
T Consensus       163 ~~~~~~~~~l-~L~~L~l~~n~l~~l~~~-------~~~~L~~L~l~~n-~i~~~-~~~~l~~l~~L~~L~L~~N-~l~~  231 (332)
T 2ft3_A          163 GFEPGAFDGL-KLNYLRISEAKLTGIPKD-------LPETLNELHLDHN-KIQAI-ELEDLLRYSKLYRLGLGHN-QIRM  231 (332)
T ss_dssp             GSCTTSSCSC-CCSCCBCCSSBCSSCCSS-------SCSSCSCCBCCSS-CCCCC-CTTSSTTCTTCSCCBCCSS-CCCC
T ss_pred             CCCcccccCC-ccCEEECcCCCCCccCcc-------ccCCCCEEECCCC-cCCcc-CHHHhcCCCCCCEEECCCC-cCCc
Confidence             1111 2223 778888888775553221       1257888888774 45554 3344667788888888875 4554


Q ss_pred             cccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCccc
Q 040040          356 IVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEK  435 (869)
Q Consensus       356 i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~  435 (869)
                      +...        ....+++|+.|+++++. ++.++.. ...+++|+.|++.++ .++.++...+.         ......
T Consensus       232 ~~~~--------~~~~l~~L~~L~L~~N~-l~~lp~~-l~~l~~L~~L~l~~N-~l~~~~~~~~~---------~~~~~~  291 (332)
T 2ft3_A          232 IENG--------SLSFLPTLRELHLDNNK-LSRVPAG-LPDLKLLQVVYLHTN-NITKVGVNDFC---------PVGFGV  291 (332)
T ss_dssp             CCTT--------GGGGCTTCCEEECCSSC-CCBCCTT-GGGCTTCCEEECCSS-CCCBCCTTSSS---------CSSCCS
T ss_pred             CChh--------HhhCCCCCCEEECCCCc-CeecChh-hhcCccCCEEECCCC-CCCccChhHcc---------cccccc
Confidence            4321        24467788888888775 6666654 345677777777663 34444432110         000001


Q ss_pred             ccccccEEEEeccCCcccccchhHHhhcCCccEEEEccc
Q 040040          436 SFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGAC  474 (869)
Q Consensus       436 ~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c  474 (869)
                      .+.+|+.|++.+++.....++...+..+++|+.++++++
T Consensus       292 ~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L~~l~l~~n  330 (332)
T 2ft3_A          292 KRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQFGNY  330 (332)
T ss_dssp             SSCCBSEEECCSSSSCGGGSCGGGGTTBCCSTTEEC---
T ss_pred             ccccccceEeecCcccccccCcccccccchhhhhhcccc
Confidence            145677777777664322234445666777777777664

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.67  E-value=2.4e-15  Score=172.86  Aligned_cols=256  Identities=21%  Similarity=0.166  Sum_probs=161.0

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhc
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISR  223 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~  223 (869)
                      .++++|+++++ .++.+|...       +++|++|+++++ +++.++.      .+++|++|++++|. ++.+|.     
T Consensus        40 ~~l~~L~ls~n-~L~~lp~~l-------~~~L~~L~L~~N-~l~~lp~------~l~~L~~L~Ls~N~-l~~lp~-----   98 (622)
T 3g06_A           40 NGNAVLNVGES-GLTTLPDCL-------PAHITTLVIPDN-NLTSLPA------LPPELRTLEVSGNQ-LTSLPV-----   98 (622)
T ss_dssp             HCCCEEECCSS-CCSCCCSCC-------CTTCSEEEECSC-CCSCCCC------CCTTCCEEEECSCC-CSCCCC-----
T ss_pred             CCCcEEEecCC-CcCccChhh-------CCCCcEEEecCC-CCCCCCC------cCCCCCEEEcCCCc-CCcCCC-----
Confidence            35899999988 777887543       378999999988 6776654      46899999999984 777754     


Q ss_pred             CCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEecccccccccc
Q 040040          224 GLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWH  303 (869)
Q Consensus       224 ~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~  303 (869)
                      .+++|++|+++++. +..++.                .+++|++|+++++ .+..++..  +++|++|++++|.+..+. 
T Consensus        99 ~l~~L~~L~Ls~N~-l~~l~~----------------~l~~L~~L~L~~N-~l~~lp~~--l~~L~~L~Ls~N~l~~l~-  157 (622)
T 3g06_A           99 LPPGLLELSIFSNP-LTHLPA----------------LPSGLCKLWIFGN-QLTSLPVL--PPGLQELSVSDNQLASLP-  157 (622)
T ss_dssp             CCTTCCEEEECSCC-CCCCCC----------------CCTTCCEEECCSS-CCSCCCCC--CTTCCEEECCSSCCSCCC-
T ss_pred             CCCCCCEEECcCCc-CCCCCC----------------CCCCcCEEECCCC-CCCcCCCC--CCCCCEEECcCCcCCCcC-
Confidence            67889999998764 555551                3567777777764 35555542  467777777777644321 


Q ss_pred             CCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccC
Q 040040          304 NQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDL  383 (869)
Q Consensus       304 ~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~  383 (869)
                          .   .+++|+.|+++++ .++.+ |    ..+++|+.|+++++ .++.++.            .+++|+.|.++++
T Consensus       158 ----~---~~~~L~~L~L~~N-~l~~l-~----~~~~~L~~L~Ls~N-~l~~l~~------------~~~~L~~L~L~~N  211 (622)
T 3g06_A          158 ----A---LPSELCKLWAYNN-QLTSL-P----MLPSGLQELSVSDN-QLASLPT------------LPSELYKLWAYNN  211 (622)
T ss_dssp             ----C---CCTTCCEEECCSS-CCSCC-C----CCCTTCCEEECCSS-CCSCCCC------------CCTTCCEEECCSS
T ss_pred             ----C---ccCCCCEEECCCC-CCCCC-c----ccCCCCcEEECCCC-CCCCCCC------------ccchhhEEECcCC
Confidence                1   2446666666663 34443 2    33556666666653 3433311            2345555555554


Q ss_pred             ccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHhhc
Q 040040          384 AKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARF  463 (869)
Q Consensus       384 ~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l  463 (869)
                      . ++.++.                                            .+++|+.|++++|. ++. +|    ..+
T Consensus       212 ~-l~~l~~--------------------------------------------~~~~L~~L~Ls~N~-L~~-lp----~~l  240 (622)
T 3g06_A          212 R-LTSLPA--------------------------------------------LPSGLKELIVSGNR-LTS-LP----VLP  240 (622)
T ss_dssp             C-CSSCCC--------------------------------------------CCTTCCEEECCSSC-CSC-CC----CCC
T ss_pred             c-ccccCC--------------------------------------------CCCCCCEEEccCCc-cCc-CC----CCC
Confidence            3 333221                                            13566666666553 333 34    245


Q ss_pred             CCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCC
Q 040040          464 LKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQ  536 (869)
Q Consensus       464 ~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~  536 (869)
                      ++|++|++++| .++.++.            .+++|+.|+++++ .++.+    |..+.++++|+.|++++++
T Consensus       241 ~~L~~L~Ls~N-~L~~lp~------------~~~~L~~L~Ls~N-~L~~l----p~~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          241 SELKELMVSGN-RLTSLPM------------LPSGLLSLSVYRN-QLTRL----PESLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             TTCCEEECCSS-CCSCCCC------------CCTTCCEEECCSS-CCCSC----CGGGGGSCTTCEEECCSCC
T ss_pred             CcCcEEECCCC-CCCcCCc------------ccccCcEEeCCCC-CCCcC----CHHHhhccccCEEEecCCC
Confidence            67777777773 5555543            4567777887775 56666    6678888888888888753

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.63  E-value=3.2e-15  Score=171.72  Aligned_cols=255  Identities=20%  Similarity=0.132  Sum_probs=179.3

Q ss_pred             ccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccC
Q 040040          438 CKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKD  517 (869)
Q Consensus       438 ~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~  517 (869)
                      .+++.|+++++. ++. +|...   .++|++|++++| .++.++.            .+++|++|+++++ +++.+    
T Consensus        40 ~~l~~L~ls~n~-L~~-lp~~l---~~~L~~L~L~~N-~l~~lp~------------~l~~L~~L~Ls~N-~l~~l----   96 (622)
T 3g06_A           40 NGNAVLNVGESG-LTT-LPDCL---PAHITTLVIPDN-NLTSLPA------------LPPELRTLEVSGN-QLTSL----   96 (622)
T ss_dssp             HCCCEEECCSSC-CSC-CCSCC---CTTCSEEEECSC-CCSCCCC------------CCTTCCEEEECSC-CCSCC----
T ss_pred             CCCcEEEecCCC-cCc-cChhh---CCCCcEEEecCC-CCCCCCC------------cCCCCCEEEcCCC-cCCcC----
Confidence            468888887765 443 46533   278899999884 5666643            5678888888886 46666    


Q ss_pred             CCCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceee
Q 040040          518 PRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLI  597 (869)
Q Consensus       518 p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~  597 (869)
                      |.   .+++|++|++++ +++..+ |.                  .+++|+.|+++++. +..++..     .++|++|+
T Consensus        97 p~---~l~~L~~L~Ls~-N~l~~l-~~------------------~l~~L~~L~L~~N~-l~~lp~~-----l~~L~~L~  147 (622)
T 3g06_A           97 PV---LPPGLLELSIFS-NPLTHL-PA------------------LPSGLCKLWIFGNQ-LTSLPVL-----PPGLQELS  147 (622)
T ss_dssp             CC---CCTTCCEEEECS-CCCCCC-CC------------------CCTTCCEEECCSSC-CSCCCCC-----CTTCCEEE
T ss_pred             CC---CCCCCCEEECcC-CcCCCC-CC------------------CCCCcCEEECCCCC-CCcCCCC-----CCCCCEEE
Confidence            44   678888888887 466665 42                  25788888888764 4555443     37888888


Q ss_pred             ecc-ccCccccccceeeEeeecceeccccceeeeecccceeeeccccccceEEEeecCCCccchHHHHHhccccceEEEE
Q 040040          598 FQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLK  676 (869)
Q Consensus       598 l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~  676 (869)
                      +++ ++..++.             .+++|+.|++++|.+..++ ..+++|+.|++++|....+|.               
T Consensus       148 Ls~N~l~~l~~-------------~~~~L~~L~L~~N~l~~l~-~~~~~L~~L~Ls~N~l~~l~~---------------  198 (622)
T 3g06_A          148 VSDNQLASLPA-------------LPSELCKLWAYNNQLTSLP-MLPSGLQELSVSDNQLASLPT---------------  198 (622)
T ss_dssp             CCSSCCSCCCC-------------CCTTCCEEECCSSCCSCCC-CCCTTCCEEECCSSCCSCCCC---------------
T ss_pred             CcCCcCCCcCC-------------ccCCCCEEECCCCCCCCCc-ccCCCCcEEECCCCCCCCCCC---------------
Confidence            888 7776654             2577888888888887765 557788888886555555552               


Q ss_pred             EEecccccccccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhhcccceeEecccchhccccCCCcceeec
Q 040040          677 VEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLISLRIEIVFSKLKWLFLESSGSITSFCS  756 (869)
Q Consensus       677 ~~~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~~l~~~~~~~~L~~L~l~~l~~l~~~~~  756 (869)
                            .+++|+.|+++++ .++ .+.       ..+++|+.|++++|.  +..+|  ..+++|+.|.+.++ +++.++.
T Consensus       199 ------~~~~L~~L~L~~N-~l~-~l~-------~~~~~L~~L~Ls~N~--L~~lp--~~l~~L~~L~Ls~N-~L~~lp~  258 (622)
T 3g06_A          199 ------LPSELYKLWAYNN-RLT-SLP-------ALPSGLKELIVSGNR--LTSLP--VLPSELKELMVSGN-RLTSLPM  258 (622)
T ss_dssp             ------CCTTCCEEECCSS-CCS-SCC-------CCCTTCCEEECCSSC--CSCCC--CCCTTCCEEECCSS-CCSCCCC
T ss_pred             ------ccchhhEEECcCC-ccc-ccC-------CCCCCCCEEEccCCc--cCcCC--CCCCcCcEEECCCC-CCCcCCc
Confidence                  2456777777764 344 331       235788888888885  77777  35678888888775 4555544


Q ss_pred             CCeeeeCCCcceEeeccCCCccccCCCCcCCCcceEEEccCCC
Q 040040          757 GNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLD  799 (869)
Q Consensus       757 ~~~~~~~~~L~~L~i~~c~~~~~~~~~~~~~~~L~~l~~s~~~  799 (869)
                           .+++|+.|++++| .++.+|.++...++|+.|++++|.
T Consensus       259 -----~~~~L~~L~Ls~N-~L~~lp~~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          259 -----LPSGLLSLSVYRN-QLTRLPESLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             -----CCTTCCEEECCSS-CCCSCCGGGGGSCTTCEEECCSCC
T ss_pred             -----ccccCcEEeCCCC-CCCcCCHHHhhccccCEEEecCCC
Confidence                 4578999999999 566888888889999999998544

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.63  E-value=9.6e-15  Score=163.02  Aligned_cols=224  Identities=19%  Similarity=0.194  Sum_probs=163.0

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      .+++++|+++++ .++.++...    +..+++|++|+++++ .++.+....  ...+++|++|+++++ +++.+++ ..+
T Consensus        63 ~~~l~~L~L~~n-~i~~~~~~~----~~~l~~L~~L~Ls~n-~i~~i~~~~--~~~l~~L~~L~L~~n-~l~~~~~-~~~  132 (440)
T 3zyj_A           63 STNTRLLNLHEN-QIQIIKVNS----FKHLRHLEILQLSRN-HIRTIEIGA--FNGLANLNTLELFDN-RLTTIPN-GAF  132 (440)
T ss_dssp             CTTCSEEECCSC-CCCEECTTT----TSSCSSCCEEECCSS-CCCEECGGG--GTTCSSCCEEECCSS-CCSSCCT-TTS
T ss_pred             CCCCcEEEccCC-cCCeeCHHH----hhCCCCCCEEECCCC-cCCccChhh--ccCCccCCEEECCCC-cCCeeCH-hHh
Confidence            478899999888 676665432    367889999999988 576665443  347889999999988 5777765 467


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEeccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINSET  300 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l~~  300 (869)
                      ..+++|++|+++++. +..++.            ..+..+++|++|+++++..+..++.  +..+++|++|++++|.+..
T Consensus       133 ~~l~~L~~L~L~~N~-i~~~~~------------~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~  199 (440)
T 3zyj_A          133 VYLSKLKELWLRNNP-IESIPS------------YAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLRE  199 (440)
T ss_dssp             CSCSSCCEEECCSCC-CCEECT------------TTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSS
T ss_pred             hccccCceeeCCCCc-ccccCH------------HHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCcc
Confidence            888999999998865 555552            2345688899999988887777664  5667889999999888665


Q ss_pred             cccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeec
Q 040040          301 IWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKM  380 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l  380 (869)
                      +.     . +..+++|++|+++++ .++.+ +...+..+++|++|+++++ .++.+...        ....+++|+.|++
T Consensus       200 ~~-----~-~~~l~~L~~L~Ls~N-~l~~~-~~~~~~~l~~L~~L~L~~n-~l~~~~~~--------~~~~l~~L~~L~L  262 (440)
T 3zyj_A          200 IP-----N-LTPLIKLDELDLSGN-HLSAI-RPGSFQGLMHLQKLWMIQS-QIQVIERN--------AFDNLQSLVEINL  262 (440)
T ss_dssp             CC-----C-CTTCSSCCEEECTTS-CCCEE-CTTTTTTCTTCCEEECTTC-CCCEECTT--------SSTTCTTCCEEEC
T ss_pred             cc-----c-cCCCcccCEEECCCC-ccCcc-ChhhhccCccCCEEECCCC-ceeEEChh--------hhcCCCCCCEEEC
Confidence            42     2 345788899999886 56665 3355778888999988885 56554332        2456788888888


Q ss_pred             ccCccccccCCCcccCCCCccEEEEcc
Q 040040          381 KDLAKLTRFCSGNCIELPSLKQLRMAK  407 (869)
Q Consensus       381 ~~~~~L~~l~~~~~~~l~~L~~L~l~~  407 (869)
                      +++. ++.++......+++|+.|++.+
T Consensus       263 ~~N~-l~~~~~~~~~~l~~L~~L~L~~  288 (440)
T 3zyj_A          263 AHNN-LTLLPHDLFTPLHHLERIHLHH  288 (440)
T ss_dssp             TTSC-CCCCCTTTTSSCTTCCEEECCS
T ss_pred             CCCC-CCccChhHhccccCCCEEEcCC
Confidence            8874 7777766666677777777766

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.63  E-value=1.3e-14  Score=162.67  Aligned_cols=225  Identities=18%  Similarity=0.161  Sum_probs=162.6

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      .+++++|+++++ .++.++...    +..+++|++|+++++ .++.++...  ...+++|++|+++++ +++.+++ ..+
T Consensus        74 ~~~l~~L~L~~n-~i~~~~~~~----~~~l~~L~~L~Ls~n-~i~~~~~~~--~~~l~~L~~L~L~~n-~l~~~~~-~~~  143 (452)
T 3zyi_A           74 PSNTRYLNLMEN-NIQMIQADT----FRHLHHLEVLQLGRN-SIRQIEVGA--FNGLASLNTLELFDN-WLTVIPS-GAF  143 (452)
T ss_dssp             CTTCSEEECCSS-CCCEECTTT----TTTCTTCCEEECCSS-CCCEECTTT--TTTCTTCCEEECCSS-CCSBCCT-TTS
T ss_pred             CCCccEEECcCC-cCceECHHH----cCCCCCCCEEECCCC-ccCCcChhh--ccCcccCCEEECCCC-cCCccCh-hhh
Confidence            368899999888 666664332    367888999999888 676665443  347889999999888 4777765 467


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEeccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINSET  300 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l~~  300 (869)
                      +++++|++|+++++. +..++.            ..+..+++|++|+++++..+..++.  +..+++|++|++++|.+..
T Consensus       144 ~~l~~L~~L~L~~N~-l~~~~~------------~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~  210 (452)
T 3zyi_A          144 EYLSKLRELWLRNNP-IESIPS------------YAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKD  210 (452)
T ss_dssp             SSCTTCCEEECCSCC-CCEECT------------TTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSS
T ss_pred             cccCCCCEEECCCCC-cceeCH------------hHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCcccc
Confidence            888999999998865 556652            2345688899999988888877764  5577889999999888665


Q ss_pred             cccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeec
Q 040040          301 IWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKM  380 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l  380 (869)
                      +     |. +..+++|++|+++++ .++.+ ++..+..+++|+.|+++++ .++.+...        ....+++|+.|++
T Consensus       211 ~-----~~-~~~l~~L~~L~Ls~N-~l~~~-~~~~~~~l~~L~~L~L~~n-~l~~~~~~--------~~~~l~~L~~L~L  273 (452)
T 3zyi_A          211 M-----PN-LTPLVGLEELEMSGN-HFPEI-RPGSFHGLSSLKKLWVMNS-QVSLIERN--------AFDGLASLVELNL  273 (452)
T ss_dssp             C-----CC-CTTCTTCCEEECTTS-CCSEE-CGGGGTTCTTCCEEECTTS-CCCEECTT--------TTTTCTTCCEEEC
T ss_pred             c-----cc-ccccccccEEECcCC-cCccc-CcccccCccCCCEEEeCCC-cCceECHH--------HhcCCCCCCEEEC
Confidence            4     22 345788999999885 45655 3455788889999998885 45554322        2456788888888


Q ss_pred             ccCccccccCCCcccCCCCccEEEEccC
Q 040040          381 KDLAKLTRFCSGNCIELPSLKQLRMAKC  408 (869)
Q Consensus       381 ~~~~~L~~l~~~~~~~l~~L~~L~l~~c  408 (869)
                      +++. ++.++......+++|+.|++.+.
T Consensus       274 ~~N~-l~~~~~~~~~~l~~L~~L~L~~N  300 (452)
T 3zyi_A          274 AHNN-LSSLPHDLFTPLRYLVELHLHHN  300 (452)
T ss_dssp             CSSC-CSCCCTTSSTTCTTCCEEECCSS
T ss_pred             CCCc-CCccChHHhccccCCCEEEccCC
Confidence            8874 77777666666777777777663

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.62  E-value=9.7e-15  Score=163.59  Aligned_cols=227  Identities=17%  Similarity=0.177  Sum_probs=178.8

Q ss_pred             ccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccccc
Q 040040          118 KGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAE  197 (869)
Q Consensus       118 ~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~  197 (869)
                      ++++.|++++. .+..+.+... ..+++|++|+++++ .+..++...    +..+++|++|+++++ .++.++...  .+
T Consensus        75 ~~l~~L~L~~n-~i~~~~~~~~-~~l~~L~~L~Ls~n-~i~~~~~~~----~~~l~~L~~L~L~~n-~l~~~~~~~--~~  144 (452)
T 3zyi_A           75 SNTRYLNLMEN-NIQMIQADTF-RHLHHLEVLQLGRN-SIRQIEVGA----FNGLASLNTLELFDN-WLTVIPSGA--FE  144 (452)
T ss_dssp             TTCSEEECCSS-CCCEECTTTT-TTCTTCCEEECCSS-CCCEECTTT----TTTCTTCCEEECCSS-CCSBCCTTT--SS
T ss_pred             CCccEEECcCC-cCceECHHHc-CCCCCCCEEECCCC-ccCCcChhh----ccCcccCCEEECCCC-cCCccChhh--hc
Confidence            57889999884 4544433322 67999999999998 677776432    467899999999998 677776554  34


Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcc
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLR  277 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~  277 (869)
                      .+++|++|+++++. ++.+++ ..+.++++|++|++++|..+..++..            .+..+++|++|+++++ .+.
T Consensus       145 ~l~~L~~L~L~~N~-l~~~~~-~~~~~l~~L~~L~l~~~~~l~~i~~~------------~~~~l~~L~~L~L~~n-~l~  209 (452)
T 3zyi_A          145 YLSKLRELWLRNNP-IESIPS-YAFNRVPSLMRLDLGELKKLEYISEG------------AFEGLFNLKYLNLGMC-NIK  209 (452)
T ss_dssp             SCTTCCEEECCSCC-CCEECT-TTTTTCTTCCEEECCCCTTCCEECTT------------TTTTCTTCCEEECTTS-CCS
T ss_pred             ccCCCCEEECCCCC-cceeCH-hHHhcCCcccEEeCCCCCCccccChh------------hccCCCCCCEEECCCC-ccc
Confidence            79999999999995 887765 57899999999999999988888732            3456899999999986 577


Q ss_pred             cccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccc
Q 040040          278 SFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIV  357 (869)
Q Consensus       278 ~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~  357 (869)
                      .++.+..+++|++|++++|.+..+...    .+..+++|++|+++++ .++.+ +...+..+++|+.|+++++ .++.++
T Consensus       210 ~~~~~~~l~~L~~L~Ls~N~l~~~~~~----~~~~l~~L~~L~L~~n-~l~~~-~~~~~~~l~~L~~L~L~~N-~l~~~~  282 (452)
T 3zyi_A          210 DMPNLTPLVGLEELEMSGNHFPEIRPG----SFHGLSSLKKLWVMNS-QVSLI-ERNAFDGLASLVELNLAHN-NLSSLP  282 (452)
T ss_dssp             SCCCCTTCTTCCEEECTTSCCSEECGG----GGTTCTTCCEEECTTS-CCCEE-CTTTTTTCTTCCEEECCSS-CCSCCC
T ss_pred             ccccccccccccEEECcCCcCcccCcc----cccCccCCCEEEeCCC-cCceE-CHHHhcCCCCCCEEECCCC-cCCccC
Confidence            788888999999999999997765333    3455899999999985 56665 3455788999999999996 676654


Q ss_pred             cccccccccccccccCccceeecccCc
Q 040040          358 FPEEMIEEERKDIVFPQLNFLKMKDLA  384 (869)
Q Consensus       358 ~~~~~~~~~~~~~~~~~L~~L~l~~~~  384 (869)
                      ..        ....+++|+.|++++++
T Consensus       283 ~~--------~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          283 HD--------LFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             TT--------SSTTCTTCCEEECCSSC
T ss_pred             hH--------HhccccCCCEEEccCCC
Confidence            32        24568999999999987

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.62  E-value=7.4e-15  Score=163.91  Aligned_cols=227  Identities=17%  Similarity=0.195  Sum_probs=179.1

Q ss_pred             ccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccccc
Q 040040          118 KGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAE  197 (869)
Q Consensus       118 ~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~  197 (869)
                      ++++.|++++. .+..+..... ..+++|++|+++++ .+..++...    +..+++|++|+++++ +++.++...  ..
T Consensus        64 ~~l~~L~L~~n-~i~~~~~~~~-~~l~~L~~L~Ls~n-~i~~i~~~~----~~~l~~L~~L~L~~n-~l~~~~~~~--~~  133 (440)
T 3zyj_A           64 TNTRLLNLHEN-QIQIIKVNSF-KHLRHLEILQLSRN-HIRTIEIGA----FNGLANLNTLELFDN-RLTTIPNGA--FV  133 (440)
T ss_dssp             TTCSEEECCSC-CCCEECTTTT-SSCSSCCEEECCSS-CCCEECGGG----GTTCSSCCEEECCSS-CCSSCCTTT--SC
T ss_pred             CCCcEEEccCC-cCCeeCHHHh-hCCCCCCEEECCCC-cCCccChhh----ccCCccCCEEECCCC-cCCeeCHhH--hh
Confidence            57888999874 4555443322 67899999999998 677665332    367899999999998 788776544  34


Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcc
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLR  277 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~  277 (869)
                      .+++|++|+++++. ++.+++ ..+.++++|++|++++|..+..++..            .+..+++|++|+++++ .++
T Consensus       134 ~l~~L~~L~L~~N~-i~~~~~-~~~~~l~~L~~L~l~~~~~l~~i~~~------------~~~~l~~L~~L~L~~n-~l~  198 (440)
T 3zyj_A          134 YLSKLKELWLRNNP-IESIPS-YAFNRIPSLRRLDLGELKRLSYISEG------------AFEGLSNLRYLNLAMC-NLR  198 (440)
T ss_dssp             SCSSCCEEECCSCC-CCEECT-TTTTTCTTCCEEECCCCTTCCEECTT------------TTTTCSSCCEEECTTS-CCS
T ss_pred             ccccCceeeCCCCc-ccccCH-HHhhhCcccCEeCCCCCCCcceeCcc------------hhhcccccCeecCCCC-cCc
Confidence            79999999999995 777765 57889999999999999888887732            3456899999999986 577


Q ss_pred             cccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccc
Q 040040          278 SFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIV  357 (869)
Q Consensus       278 ~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~  357 (869)
                      .++.+..+++|++|+|++|.+..+....+    ..+++|++|+++++ .++.+ +...+..+++|++|+++++ .++.++
T Consensus       199 ~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~----~~l~~L~~L~L~~n-~l~~~-~~~~~~~l~~L~~L~L~~N-~l~~~~  271 (440)
T 3zyj_A          199 EIPNLTPLIKLDELDLSGNHLSAIRPGSF----QGLMHLQKLWMIQS-QIQVI-ERNAFDNLQSLVEINLAHN-NLTLLP  271 (440)
T ss_dssp             SCCCCTTCSSCCEEECTTSCCCEECTTTT----TTCTTCCEEECTTC-CCCEE-CTTSSTTCTTCCEEECTTS-CCCCCC
T ss_pred             cccccCCCcccCEEECCCCccCccChhhh----ccCccCCEEECCCC-ceeEE-ChhhhcCCCCCCEEECCCC-CCCccC
Confidence            88888899999999999999776644434    45899999999985 56666 4456788999999999995 676654


Q ss_pred             cccccccccccccccCccceeecccCc
Q 040040          358 FPEEMIEEERKDIVFPQLNFLKMKDLA  384 (869)
Q Consensus       358 ~~~~~~~~~~~~~~~~~L~~L~l~~~~  384 (869)
                      ..        ....+++|+.|++++++
T Consensus       272 ~~--------~~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          272 HD--------LFTPLHHLERIHLHHNP  290 (440)
T ss_dssp             TT--------TTSSCTTCCEEECCSSC
T ss_pred             hh--------HhccccCCCEEEcCCCC
Confidence            32        24568999999999987

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.61  E-value=1.1e-14  Score=157.33  Aligned_cols=176  Identities=16%  Similarity=0.140  Sum_probs=101.3

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      .|+.....+.+++ .++.+|..       .+++|++|+++++ +++.++...  ...+++|++|+++++ .++.+++ ..
T Consensus        29 ~C~~~~~c~~~~~-~l~~iP~~-------~~~~L~~L~l~~n-~i~~~~~~~--~~~l~~L~~L~L~~n-~l~~~~~-~~   95 (353)
T 2z80_A           29 SCDRNGICKGSSG-SLNSIPSG-------LTEAVKSLDLSNN-RITYISNSD--LQRCVNLQALVLTSN-GINTIEE-DS   95 (353)
T ss_dssp             EECTTSEEECCST-TCSSCCTT-------CCTTCCEEECTTS-CCCEECTTT--TTTCTTCCEEECTTS-CCCEECT-TT
T ss_pred             CCCCCeEeeCCCC-Cccccccc-------ccccCcEEECCCC-cCcccCHHH--hccCCCCCEEECCCC-ccCccCH-hh
Confidence            3555556666655 66777653       3468888888887 576665533  347888888888887 4666654 35


Q ss_pred             hcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc---cccCCCcCEEEecccc-
Q 040040          222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS---VVAFPNLETLKLSAIN-  297 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~---~~~l~~L~~L~L~~~~-  297 (869)
                      ++++++|++|+++++. +..++.            ..+..+++|++|+++++ .+..++.   +..+++|++|++++|. 
T Consensus        96 ~~~l~~L~~L~Ls~n~-l~~~~~------------~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~~l~~L~~L~l~~n~~  161 (353)
T 2z80_A           96 FSSLGSLEHLDLSYNY-LSNLSS------------SWFKPLSSLTFLNLLGN-PYKTLGETSLFSHLTKLQILRVGNMDT  161 (353)
T ss_dssp             TTTCTTCCEEECCSSC-CSSCCH------------HHHTTCTTCSEEECTTC-CCSSSCSSCSCTTCTTCCEEEEEESSS
T ss_pred             cCCCCCCCEEECCCCc-CCcCCH------------hHhCCCccCCEEECCCC-CCcccCchhhhccCCCCcEEECCCCcc
Confidence            7778888888888764 444441            11344666777777664 2334433   3445566666666653 


Q ss_pred             ccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecc
Q 040040          298 SETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       298 l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  350 (869)
                      +..+...    .++.+++|++|+++++. ++...+ ..+..+++|++|+++++
T Consensus       162 ~~~~~~~----~~~~l~~L~~L~l~~n~-l~~~~~-~~l~~l~~L~~L~l~~n  208 (353)
T 2z80_A          162 FTKIQRK----DFAGLTFLEELEIDASD-LQSYEP-KSLKSIQNVSHLILHMK  208 (353)
T ss_dssp             CCEECTT----TTTTCCEEEEEEEEETT-CCEECT-TTTTTCSEEEEEEEECS
T ss_pred             ccccCHH----HccCCCCCCEEECCCCC-cCccCH-HHHhccccCCeecCCCC
Confidence            3332211    12235556666665542 333322 33455555666665554

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.59  E-value=1.7e-14  Score=155.94  Aligned_cols=259  Identities=19%  Similarity=0.194  Sum_probs=174.5

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      .++|++|+++++ .++.++...    +..+++|++|+++++ .++++....  .+.+++|++|+++++ +++.+++ ..+
T Consensus        51 ~~~L~~L~l~~n-~i~~~~~~~----~~~l~~L~~L~L~~n-~l~~~~~~~--~~~l~~L~~L~Ls~n-~l~~~~~-~~~  120 (353)
T 2z80_A           51 TEAVKSLDLSNN-RITYISNSD----LQRCVNLQALVLTSN-GINTIEEDS--FSSLGSLEHLDLSYN-YLSNLSS-SWF  120 (353)
T ss_dssp             CTTCCEEECTTS-CCCEECTTT----TTTCTTCCEEECTTS-CCCEECTTT--TTTCTTCCEEECCSS-CCSSCCH-HHH
T ss_pred             cccCcEEECCCC-cCcccCHHH----hccCCCCCEEECCCC-ccCccCHhh--cCCCCCCCEEECCCC-cCCcCCH-hHh
Confidence            468999999988 677776532    367899999999988 677665433  447899999999988 4777754 457


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccc--ccccCCCcCEEEeccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFC--SVVAFPNLETLKLSAINSET  300 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~--~~~~l~~L~~L~L~~~~l~~  300 (869)
                      +++++|++|+++++. +..++..           ..+..+++|++|+++++..+..++  .+..+++|++|++++|.+..
T Consensus       121 ~~l~~L~~L~L~~n~-l~~l~~~-----------~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~  188 (353)
T 2z80_A          121 KPLSSLTFLNLLGNP-YKTLGET-----------SLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQS  188 (353)
T ss_dssp             TTCTTCSEEECTTCC-CSSSCSS-----------CSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCE
T ss_pred             CCCccCCEEECCCCC-CcccCch-----------hhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCc
Confidence            889999999998864 5555520           134568899999999886666654  35678899999999998665


Q ss_pred             cccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeec
Q 040040          301 IWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKM  380 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l  380 (869)
                      +.    |..++.+++|++|+++++. ++.+ +...+..+++|+.|+++++ .++.+....-.     .....+.++.+++
T Consensus       189 ~~----~~~l~~l~~L~~L~l~~n~-l~~~-~~~~~~~~~~L~~L~L~~n-~l~~~~~~~l~-----~~~~~~~l~~l~L  256 (353)
T 2z80_A          189 YE----PKSLKSIQNVSHLILHMKQ-HILL-LEIFVDVTSSVECLELRDT-DLDTFHFSELS-----TGETNSLIKKFTF  256 (353)
T ss_dssp             EC----TTTTTTCSEEEEEEEECSC-STTH-HHHHHHHTTTEEEEEEESC-BCTTCCCC-----------CCCCCCEEEE
T ss_pred             cC----HHHHhccccCCeecCCCCc-cccc-hhhhhhhcccccEEECCCC-ccccccccccc-----cccccchhhcccc
Confidence            42    3344558899999999864 5554 5555667899999999986 45543221100     1123445666666


Q ss_pred             ccCc----cccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcc
Q 040040          381 KDLA----KLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLW  452 (869)
Q Consensus       381 ~~~~----~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~  452 (869)
                      .++.    .+..++. ....+++|+.|+++++ +++.+|...+               +.+++|++|++++|+-..
T Consensus       257 ~~~~l~~~~l~~l~~-~l~~l~~L~~L~Ls~N-~l~~i~~~~~---------------~~l~~L~~L~L~~N~~~~  315 (353)
T 2z80_A          257 RNVKITDESLFQVMK-LLNQISGLLELEFSRN-QLKSVPDGIF---------------DRLTSLQKIWLHTNPWDC  315 (353)
T ss_dssp             ESCBCCHHHHHHHHH-HHHTCTTCCEEECCSS-CCCCCCTTTT---------------TTCTTCCEEECCSSCBCC
T ss_pred             ccccccCcchhhhHH-HHhcccCCCEEECCCC-CCCccCHHHH---------------hcCCCCCEEEeeCCCccC
Confidence            5543    1112221 1235788888888775 5556654211               226888999998887765

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.58  E-value=1.8e-14  Score=152.63  Aligned_cols=251  Identities=17%  Similarity=0.097  Sum_probs=132.1

Q ss_pred             CCccEeeccccccccc---cccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeecccccc
Q 040040          173 PLLESLSLSNLMNLEK---ISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGRED  249 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~---l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~  249 (869)
                      .++++|+++++ ++.+   ++..   .+.+++|++|+++++.++....+ ..++++++|++|+++++.....+|      
T Consensus        50 ~~l~~L~L~~~-~l~~~~~~~~~---l~~l~~L~~L~L~~~n~l~~~~p-~~l~~l~~L~~L~Ls~n~l~~~~p------  118 (313)
T 1ogq_A           50 YRVNNLDLSGL-NLPKPYPIPSS---LANLPYLNFLYIGGINNLVGPIP-PAIAKLTQLHYLYITHTNVSGAIP------  118 (313)
T ss_dssp             CCEEEEEEECC-CCSSCEECCGG---GGGCTTCSEEEEEEETTEESCCC-GGGGGCTTCSEEEEEEECCEEECC------
T ss_pred             ceEEEEECCCC-CccCCcccChh---HhCCCCCCeeeCCCCCcccccCC-hhHhcCCCCCEEECcCCeeCCcCC------
Confidence            57888888877 4543   3332   55788888888886434554333 367788888888888776433444      


Q ss_pred             ccCCccccccccCCcccEEeccCCCCccccc-ccccCCCcCEEEeccccccccccCCCCCcccccC-CceEEEEecCCCC
Q 040040          250 DINNTEVIDKIEFSQLRKLTLKSLPQLRSFC-SVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQ-NLTRLIVHGCNNL  327 (869)
Q Consensus       250 ~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~-~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~-~L~~L~l~~c~~l  327 (869)
                             ..+..+++|++|+++++.--..++ .+..+++|++|++++|.+...    +|..++.++ +|++|+++++. +
T Consensus       119 -------~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~----~p~~l~~l~~~L~~L~L~~N~-l  186 (313)
T 1ogq_A          119 -------DFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGA----IPDSYGSFSKLFTSMTISRNR-L  186 (313)
T ss_dssp             -------GGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEE----CCGGGGCCCTTCCEEECCSSE-E
T ss_pred             -------HHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCc----CCHHHhhhhhcCcEEECcCCe-e
Confidence                   334456666666666543221222 234455555555555543311    222233343 55555555432 2


Q ss_pred             ccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEcc
Q 040040          328 KFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAK  407 (869)
Q Consensus       328 ~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~  407 (869)
                      +...| ..+..++ |++|++++                                 +. ++.........+++|+.|++.+
T Consensus       187 ~~~~~-~~~~~l~-L~~L~Ls~---------------------------------N~-l~~~~~~~~~~l~~L~~L~L~~  230 (313)
T 1ogq_A          187 TGKIP-PTFANLN-LAFVDLSR---------------------------------NM-LEGDASVLFGSDKNTQKIHLAK  230 (313)
T ss_dssp             EEECC-GGGGGCC-CSEEECCS---------------------------------SE-EEECCGGGCCTTSCCSEEECCS
T ss_pred             eccCC-hHHhCCc-ccEEECcC---------------------------------Cc-ccCcCCHHHhcCCCCCEEECCC
Confidence            22212 2233333 55555554                                 32 2222222222344444444444


Q ss_pred             CCccccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccC
Q 040040          408 CPELKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELN  487 (869)
Q Consensus       408 c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~  487 (869)
                      +.--...+.                 ...+++|++|++++|. +...+|. .+..+++|++|+++++.-...+|..    
T Consensus       231 N~l~~~~~~-----------------~~~l~~L~~L~Ls~N~-l~~~~p~-~l~~l~~L~~L~Ls~N~l~~~ip~~----  287 (313)
T 1ogq_A          231 NSLAFDLGK-----------------VGLSKNLNGLDLRNNR-IYGTLPQ-GLTQLKFLHSLNVSFNNLCGEIPQG----  287 (313)
T ss_dssp             SEECCBGGG-----------------CCCCTTCCEEECCSSC-CEECCCG-GGGGCTTCCEEECCSSEEEEECCCS----
T ss_pred             CceeeecCc-----------------ccccCCCCEEECcCCc-ccCcCCh-HHhcCcCCCEEECcCCcccccCCCC----
Confidence            221111110                 0225778888887775 4434454 3567888888888885433355432    


Q ss_pred             ccccccccccccceeecccccccc
Q 040040          488 SEETHSGAVSRLRELHVFCLPKLT  511 (869)
Q Consensus       488 ~~~~~~~~~~~L~~L~l~~~~~L~  511 (869)
                            +.+++|+.|++.+++.+.
T Consensus       288 ------~~l~~L~~l~l~~N~~lc  305 (313)
T 1ogq_A          288 ------GNLQRFDVSAYANNKCLC  305 (313)
T ss_dssp             ------TTGGGSCGGGTCSSSEEE
T ss_pred             ------ccccccChHHhcCCCCcc
Confidence                  367778888887766543

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.58  E-value=6.3e-17  Score=182.38  Aligned_cols=212  Identities=17%  Similarity=0.132  Sum_probs=96.6

Q ss_pred             ccCceeeeccccCccccccccCCCCCCCccEEEEecCCCce-----ecCCCCCCCCCCCCCCccEeeccccccccccccc
Q 040040          118 KGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLL-----CINDSTELVPRDAFPLLESLSLSNLMNLEKISCS  192 (869)
Q Consensus       118 ~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~-----~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~  192 (869)
                      ++++.|++++.. +......-....+++|++|++++| .+.     .++..     ...+++|++|+++++ .+.+....
T Consensus         3 ~~l~~L~Ls~~~-l~~~~~~~~~~~~~~L~~L~L~~~-~l~~~~~~~l~~~-----l~~~~~L~~L~Ls~n-~l~~~~~~   74 (461)
T 1z7x_W            3 LDIQSLDIQCEE-LSDARWAELLPLLQQCQVVRLDDC-GLTEARCKDISSA-----LRVNPALAELNLRSN-ELGDVGVH   74 (461)
T ss_dssp             EEEEEEEEESCC-CCHHHHHHHHHHHTTCSEEEEESS-CCCHHHHHHHHHH-----HHTCTTCCEEECTTC-CCHHHHHH
T ss_pred             ccceehhhhhcc-cCchhHHHHHhhcCCccEEEccCC-CCCHHHHHHHHHH-----HHhCCCcCEEeCCCC-cCChHHHH
Confidence            456677776533 222211100145677777777777 333     12211     134577777777776 34331111


Q ss_pred             cccccccC----CCCEEEecCCCCCcccC---ChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccc-cccCCc
Q 040040          193 QLRAESFL----RLRNLKVESCEKLTHIF---SFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVID-KIEFSQ  264 (869)
Q Consensus       193 ~~~~~~l~----~L~~L~L~~c~~l~~l~---~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~-~~~l~~  264 (869)
                      .+ ...++    +|++|++++|. ++...   ....+..+++|++|+++++. +.........        .. ....++
T Consensus        75 ~l-~~~l~~~~~~L~~L~L~~n~-i~~~~~~~l~~~l~~~~~L~~L~Ls~n~-i~~~~~~~l~--------~~l~~~~~~  143 (461)
T 1z7x_W           75 CV-LQGLQTPSCKIQKLSLQNCC-LTGAGCGVLSSTLRTLPTLQELHLSDNL-LGDAGLQLLC--------EGLLDPQCR  143 (461)
T ss_dssp             HH-HHTTCSTTCCCCEEECTTSC-CBGGGHHHHHHHTTSCTTCCEEECCSSB-CHHHHHHHHH--------HHHTSTTCC
T ss_pred             HH-HHHHhhCCCceeEEEccCCC-CCHHHHHHHHHHHccCCceeEEECCCCc-CchHHHHHHH--------HHHhcCCCc
Confidence            10 01233    57777777774 44210   01356677777777777665 2211100000        00 011345


Q ss_pred             ccEEeccCCCCcccc-----c-ccccCCCcCEEEeccccccccccCCCCCc-ccccCCceEEEEecCCCCcccc---Chh
Q 040040          265 LRKLTLKSLPQLRSF-----C-SVVAFPNLETLKLSAINSETIWHNQLPAM-SSCIQNLTRLIVHGCNNLKFLF---STS  334 (869)
Q Consensus       265 L~~L~l~~~~~l~~~-----~-~~~~l~~L~~L~L~~~~l~~i~~~~~~~~-~~~l~~L~~L~l~~c~~l~~l~---~~~  334 (869)
                      |++|++++|. +...     + .+..+++|++|++++|.+.......+... ....++|++|++++|. ++...   -..
T Consensus       144 L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~l~~  221 (461)
T 1z7x_W          144 LEKLQLEYCS-LSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCG-VTSDNCRDLCG  221 (461)
T ss_dssp             CCEEECTTSC-CBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSC-CBTTHHHHHHH
T ss_pred             ceEEECCCCC-CCHHHHHHHHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCC-CcHHHHHHHHH
Confidence            6677766653 2221     1 12334666666666665332111111100 0113466666666653 33210   012


Q ss_pred             hHhccCCccEEEEecc
Q 040040          335 LVRSFVQLQHLEIRKC  350 (869)
Q Consensus       335 ~~~~L~~L~~L~l~~c  350 (869)
                      .+..+++|++|++++|
T Consensus       222 ~l~~~~~L~~L~Ls~n  237 (461)
T 1z7x_W          222 IVASKASLRELALGSN  237 (461)
T ss_dssp             HHHHCTTCCEEECCSS
T ss_pred             HHHhCCCccEEeccCC
Confidence            3445566666666664

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.57  E-value=2.5e-14  Score=151.35  Aligned_cols=229  Identities=21%  Similarity=0.218  Sum_probs=118.6

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      .++|++|+++++ .++.++...    +..+++|++|+++++ .++.+...+.....+++|++|+++++. ++.++.  .+
T Consensus        27 ~~~l~~L~L~~n-~l~~i~~~~----~~~l~~L~~L~L~~n-~l~~~~~~~~~~~~~~~L~~L~Ls~n~-i~~l~~--~~   97 (306)
T 2z66_A           27 PSSATRLELESN-KLQSLPHGV----FDKLTQLTKLSLSSN-GLSFKGCCSQSDFGTTSLKYLDLSFNG-VITMSS--NF   97 (306)
T ss_dssp             CTTCCEEECCSS-CCCCCCTTT----TTTCTTCSEEECCSS-CCCEEEEEEHHHHSCSCCCEEECCSCS-EEEEEE--EE
T ss_pred             CCCCCEEECCCC-ccCccCHhH----hhccccCCEEECCCC-ccCcccCcccccccccccCEEECCCCc-cccChh--hc
Confidence            357777777776 555555432    246677777777766 444332111113356777777777773 555543  46


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc-cccCCCcCEEEecccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS-VVAFPNLETLKLSAINSETI  301 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~l~~L~~L~L~~~~l~~i  301 (869)
                      .++++|++|+++++. +..++..           ..+..+++|++|+++++.--...+. +..+++|++|++++|.+.. 
T Consensus        98 ~~l~~L~~L~l~~n~-l~~~~~~-----------~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~-  164 (306)
T 2z66_A           98 LGLEQLEHLDFQHSN-LKQMSEF-----------SVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQE-  164 (306)
T ss_dssp             ETCTTCCEEECTTSE-EESSTTT-----------TTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGG-
T ss_pred             CCCCCCCEEECCCCc-ccccccc-----------hhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCcccc-
Confidence            667777777777643 3333310           1234466677777766542222221 3445666777776665332 


Q ss_pred             ccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecc
Q 040040          302 WHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMK  381 (869)
Q Consensus       302 ~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~  381 (869)
                        ...|..+..+++|++|++++| .++.+ ++..+..+++|++|+++++ .++.+...        ....+++|+.|+++
T Consensus       165 --~~~~~~~~~l~~L~~L~Ls~n-~l~~~-~~~~~~~l~~L~~L~L~~N-~l~~~~~~--------~~~~l~~L~~L~L~  231 (306)
T 2z66_A          165 --NFLPDIFTELRNLTFLDLSQC-QLEQL-SPTAFNSLSSLQVLNMSHN-NFFSLDTF--------PYKCLNSLQVLDYS  231 (306)
T ss_dssp             --GEECSCCTTCTTCCEEECTTS-CCCEE-CTTTTTTCTTCCEEECTTS-CCSBCCSG--------GGTTCTTCCEEECT
T ss_pred             --ccchhHHhhCcCCCEEECCCC-CcCCc-CHHHhcCCCCCCEEECCCC-ccCccChh--------hccCcccCCEeECC
Confidence              112333444666666666664 34443 2233556666666666664 34333211        12345566666666


Q ss_pred             cCccccccCCCcccCCC-CccEEEEcc
Q 040040          382 DLAKLTRFCSGNCIELP-SLKQLRMAK  407 (869)
Q Consensus       382 ~~~~L~~l~~~~~~~l~-~L~~L~l~~  407 (869)
                      ++. +..........++ +|+.|++.+
T Consensus       232 ~N~-l~~~~~~~~~~~~~~L~~L~L~~  257 (306)
T 2z66_A          232 LNH-IMTSKKQELQHFPSSLAFLNLTQ  257 (306)
T ss_dssp             TSC-CCBCSSSSCCCCCTTCCEEECTT
T ss_pred             CCC-CcccCHHHHHhhhccCCEEEccC
Confidence            654 4433332222332 444444443

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.57  E-value=6.8e-15  Score=155.90  Aligned_cols=62  Identities=18%  Similarity=0.196  Sum_probs=27.9

Q ss_pred             CCCCCccEeecccccccc-ccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecC
Q 040040          170 DAFPLLESLSLSNLMNLE-KISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       170 ~~~~~L~~L~L~~~~~l~-~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  237 (869)
                      ..+++|++|+++++ .+. .++..   .+.+++|++|+++++. ++...+ ..++.+++|++|+++++.
T Consensus        98 ~~l~~L~~L~Ls~n-~l~~~~p~~---~~~l~~L~~L~Ls~N~-l~~~~p-~~~~~l~~L~~L~L~~N~  160 (313)
T 1ogq_A           98 AKLTQLHYLYITHT-NVSGAIPDF---LSQIKTLVTLDFSYNA-LSGTLP-PSISSLPNLVGITFDGNR  160 (313)
T ss_dssp             GGCTTCSEEEEEEE-CCEEECCGG---GGGCTTCCEEECCSSE-EESCCC-GGGGGCTTCCEEECCSSC
T ss_pred             hcCCCCCEEECcCC-eeCCcCCHH---HhCCCCCCEEeCCCCc-cCCcCC-hHHhcCCCCCeEECcCCc
Confidence            34555555555554 233 22221   3345555555555553 332212 244555555555555543

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.56  E-value=4e-15  Score=158.16  Aligned_cols=88  Identities=14%  Similarity=0.121  Sum_probs=47.2

Q ss_pred             cccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCc-cccccccccCccccccccccccceeecccccccccccc
Q 040040          437 FCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSL-EEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWN  515 (869)
Q Consensus       437 ~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l-~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~  515 (869)
                      +++|+.|++++|. +.. +|.. +..+++|+.|+++++.-. ..++..       .  ..+++|+.|++.+++.++..  
T Consensus       213 l~~L~~L~L~~N~-l~~-l~~~-~~~l~~L~~L~l~~N~~~~~~~~~~-------~--~~~~~L~~l~l~~~~~l~~~--  278 (317)
T 3o53_A          213 AAGVTWISLRNNK-LVL-IEKA-LRFSQNLEHFDLRGNGFHCGTLRDF-------F--SKNQRVQTVAKQTVKKLTGQ--  278 (317)
T ss_dssp             GTTCSEEECTTSC-CCE-ECTT-CCCCTTCCEEECTTCCCBHHHHHHH-------H--HTCHHHHHHHHHHHHHHHSS--
T ss_pred             cCcccEEECcCCc-ccc-hhhH-hhcCCCCCEEEccCCCccCcCHHHH-------H--hccccceEEECCCchhccCC--
Confidence            5667777776664 433 3443 456778888888775433 122211       1  35677777777776666544  


Q ss_pred             cCCCCcccCCCccEEEEecCCCccc
Q 040040          516 KDPRGKLIFPNLVLVRIFECQRLKS  540 (869)
Q Consensus       516 ~~p~~~~~l~~L~~L~l~~c~~L~~  540 (869)
                        ...-...+.+....-..|..+..
T Consensus       279 --~~~~~~~~~~~~~~~~cc~~l~~  301 (317)
T 3o53_A          279 --NEEECTVPTLGHYGAYCCEDLPA  301 (317)
T ss_dssp             --SSCCCSSTTCEEETTEEEBCCTT
T ss_pred             --chhccCCCceecccceeeccCCh
Confidence              11222233333333334666654

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.55  E-value=5.6e-14  Score=142.68  Aligned_cols=177  Identities=15%  Similarity=0.178  Sum_probs=100.2

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhc
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISR  223 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~  223 (869)
                      ++|++|+++++ .++.++...    +..+++|++|+++++..++.++...  ...+++|++|++++|.+++.+++ ..+.
T Consensus        31 ~~l~~L~l~~n-~l~~i~~~~----~~~l~~L~~L~l~~n~~l~~i~~~~--f~~l~~L~~L~l~~~n~l~~i~~-~~f~  102 (239)
T 2xwt_C           31 PSTQTLKLIET-HLRTIPSHA----FSNLPNISRIYVSIDVTLQQLESHS--FYNLSKVTHIEIRNTRNLTYIDP-DALK  102 (239)
T ss_dssp             TTCCEEEEESC-CCSEECTTT----TTTCTTCCEEEEECCSSCCEECTTT--EESCTTCCEEEEEEETTCCEECT-TSEE
T ss_pred             CcccEEEEeCC-cceEECHHH----ccCCCCCcEEeCCCCCCcceeCHhH--cCCCcCCcEEECCCCCCeeEcCH-HHhC
Confidence            47888888877 566666532    3567778888888774466665443  33677888888877556777654 3567


Q ss_pred             CCCCCcEEEEeecCCceeeeccccccccCCccccccccCCccc---EEeccCCCCcccccc--cccCCCcC-EEEecccc
Q 040040          224 GLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLR---KLTLKSLPQLRSFCS--VVAFPNLE-TLKLSAIN  297 (869)
Q Consensus       224 ~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~---~L~l~~~~~l~~~~~--~~~l~~L~-~L~L~~~~  297 (869)
                      ++++|++|+++++. ++.+|.              +..+++|+   +|++++++.+..++.  +..+++|+ +|++++|.
T Consensus       103 ~l~~L~~L~l~~n~-l~~lp~--------------~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~  167 (239)
T 2xwt_C          103 ELPLLKFLGIFNTG-LKMFPD--------------LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNG  167 (239)
T ss_dssp             CCTTCCEEEEEEEC-CCSCCC--------------CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCC
T ss_pred             CCCCCCEEeCCCCC-Cccccc--------------cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCC
Confidence            77788888887764 444441              22234444   666666544554443  33455555 55555555


Q ss_pred             ccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhcc-CCccEEEEec
Q 040040          298 SETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSF-VQLQHLEIRK  349 (869)
Q Consensus       298 l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L-~~L~~L~l~~  349 (869)
                      ++.+....+.     .++|++|+++++..++.+ +...+..+ ++|+.|++++
T Consensus       168 l~~i~~~~~~-----~~~L~~L~L~~n~~l~~i-~~~~~~~l~~~L~~L~l~~  214 (239)
T 2xwt_C          168 FTSVQGYAFN-----GTKLDAVYLNKNKYLTVI-DKDAFGGVYSGPSLLDVSQ  214 (239)
T ss_dssp             CCEECTTTTT-----TCEEEEEECTTCTTCCEE-CTTTTTTCSBCCSEEECTT
T ss_pred             CcccCHhhcC-----CCCCCEEEcCCCCCcccC-CHHHhhccccCCcEEECCC
Confidence            4433222111     245555555554334443 22334444 5555555555

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.54  E-value=9.3e-14  Score=145.23  Aligned_cols=108  Identities=18%  Similarity=0.174  Sum_probs=46.2

Q ss_pred             cCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccc
Q 040040          284 AFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMI  363 (869)
Q Consensus       284 ~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~  363 (869)
                      .+++|++|++++|.+..+...    .++.+++|++|+++++ .++.+ +...+..+++|++|+++++ .+..+...    
T Consensus       127 ~l~~L~~L~l~~n~l~~~~~~----~~~~l~~L~~L~l~~n-~l~~~-~~~~~~~l~~L~~L~l~~n-~l~~~~~~----  195 (285)
T 1ozn_A          127 GLAALQYLYLQDNALQALPDD----TFRDLGNLTHLFLHGN-RISSV-PERAFRGLHSLDRLLLHQN-RVAHVHPH----  195 (285)
T ss_dssp             TCTTCCEEECCSSCCCCCCTT----TTTTCTTCCEEECCSS-CCCEE-CTTTTTTCTTCCEEECCSS-CCCEECTT----
T ss_pred             CCcCCCEEECCCCcccccCHh----HhccCCCccEEECCCC-ccccc-CHHHhcCccccCEEECCCC-cccccCHh----
Confidence            344555555555543332211    1223455555555553 33433 2233445555555555553 23332111    


Q ss_pred             cccccccccCccceeecccCccccccCCCcccCCCCccEEEEcc
Q 040040          364 EEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAK  407 (869)
Q Consensus       364 ~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~  407 (869)
                          ....+++|+.|+++++. ++.++......+++|+.|++.+
T Consensus       196 ----~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~  234 (285)
T 1ozn_A          196 ----AFRDLGRLMTLYLFANN-LSALPTEALAPLRALQYLRLND  234 (285)
T ss_dssp             ----TTTTCTTCCEEECCSSC-CSCCCHHHHTTCTTCCEEECCS
T ss_pred             ----HccCcccccEeeCCCCc-CCcCCHHHcccCcccCEEeccC
Confidence                12344555555555543 4433332223344444444433

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.53  E-value=5.4e-14  Score=148.75  Aligned_cols=227  Identities=19%  Similarity=0.152  Sum_probs=165.5

Q ss_pred             hccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecC---CCCCCCCCCCCCCccEeecccccccccccccc
Q 040040          117 LKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCIN---DSTELVPRDAFPLLESLSLSNLMNLEKISCSQ  193 (869)
Q Consensus       117 l~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~---~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~  193 (869)
                      .++++.|++++. .+..++.... ..+++|++|+++++ .+..+.   ..+     ..+++|++|+++++ .+..++.. 
T Consensus        27 ~~~l~~L~L~~n-~l~~i~~~~~-~~l~~L~~L~L~~n-~l~~~~~~~~~~-----~~~~~L~~L~Ls~n-~i~~l~~~-   96 (306)
T 2z66_A           27 PSSATRLELESN-KLQSLPHGVF-DKLTQLTKLSLSSN-GLSFKGCCSQSD-----FGTTSLKYLDLSFN-GVITMSSN-   96 (306)
T ss_dssp             CTTCCEEECCSS-CCCCCCTTTT-TTCTTCSEEECCSS-CCCEEEEEEHHH-----HSCSCCCEEECCSC-SEEEEEEE-
T ss_pred             CCCCCEEECCCC-ccCccCHhHh-hccccCCEEECCCC-ccCcccCccccc-----ccccccCEEECCCC-ccccChhh-
Confidence            357889999874 4555544322 67899999999998 555431   211     35799999999998 67766654 


Q ss_pred             ccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCC
Q 040040          194 LRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSL  273 (869)
Q Consensus       194 ~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~  273 (869)
                        ...+++|++|+++++. ++.+++...+..+++|++|+++++.. ...+.            ..+..+++|++|+++++
T Consensus        97 --~~~l~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~l~~n~l-~~~~~------------~~~~~l~~L~~L~l~~n  160 (306)
T 2z66_A           97 --FLGLEQLEHLDFQHSN-LKQMSEFSVFLSLRNLIYLDISHTHT-RVAFN------------GIFNGLSSLEVLKMAGN  160 (306)
T ss_dssp             --EETCTTCCEEECTTSE-EESSTTTTTTTTCTTCCEEECTTSCC-EECST------------TTTTTCTTCCEEECTTC
T ss_pred             --cCCCCCCCEEECCCCc-ccccccchhhhhccCCCEEECCCCcC-Cccch------------hhcccCcCCCEEECCCC
Confidence              5579999999999984 77776545789999999999999763 33331            23456899999999987


Q ss_pred             CCcc-ccc-ccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccc
Q 040040          274 PQLR-SFC-SVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCM  351 (869)
Q Consensus       274 ~~l~-~~~-~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  351 (869)
                      .-.. .++ .+..+++|++|++++|.+..+.    |..+..+++|++|+++++ .++.+ +...+..+++|++|+++++ 
T Consensus       161 ~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~----~~~~~~l~~L~~L~L~~N-~l~~~-~~~~~~~l~~L~~L~L~~N-  233 (306)
T 2z66_A          161 SFQENFLPDIFTELRNLTFLDLSQCQLEQLS----PTAFNSLSSLQVLNMSHN-NFFSL-DTFPYKCLNSLQVLDYSLN-  233 (306)
T ss_dssp             EEGGGEECSCCTTCTTCCEEECTTSCCCEEC----TTTTTTCTTCCEEECTTS-CCSBC-CSGGGTTCTTCCEEECTTS-
T ss_pred             ccccccchhHHhhCcCCCEEECCCCCcCCcC----HHHhcCCCCCCEEECCCC-ccCcc-ChhhccCcccCCEeECCCC-
Confidence            5322 133 3567899999999999876653    333455899999999986 46665 3345788999999999996 


Q ss_pred             ccccccccccccccccccccc-CccceeecccCc
Q 040040          352 DLEGIVFPEEMIEEERKDIVF-PQLNFLKMKDLA  384 (869)
Q Consensus       352 ~l~~i~~~~~~~~~~~~~~~~-~~L~~L~l~~~~  384 (869)
                      .+......        ....+ ++|+.|++++++
T Consensus       234 ~l~~~~~~--------~~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          234 HIMTSKKQ--------ELQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             CCCBCSSS--------SCCCCCTTCCEEECTTCC
T ss_pred             CCcccCHH--------HHHhhhccCCEEEccCCC
Confidence            45544322        23455 489999999987

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.53  E-value=4.8e-16  Score=175.14  Aligned_cols=62  Identities=18%  Similarity=0.231  Sum_probs=30.8

Q ss_pred             CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccC---ChhhhcCCCCCcEEEEeecC
Q 040040          173 PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIF---SFSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~---~~~~~~~L~~L~~L~l~~c~  237 (869)
                      ++|++|+++++ ++........ ...+++|++|++++|. ++...   -...+..+++|++|+++++.
T Consensus         3 ~~l~~L~Ls~~-~l~~~~~~~~-~~~~~~L~~L~L~~~~-l~~~~~~~l~~~l~~~~~L~~L~Ls~n~   67 (461)
T 1z7x_W            3 LDIQSLDIQCE-ELSDARWAEL-LPLLQQCQVVRLDDCG-LTEARCKDISSALRVNPALAELNLRSNE   67 (461)
T ss_dssp             EEEEEEEEESC-CCCHHHHHHH-HHHHTTCSEEEEESSC-CCHHHHHHHHHHHHTCTTCCEEECTTCC
T ss_pred             ccceehhhhhc-ccCchhHHHH-HhhcCCccEEEccCCC-CCHHHHHHHHHHHHhCCCcCEEeCCCCc
Confidence            45666666655 3433221110 2356666777776664 43210   00234556666666666643

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.52  E-value=2.2e-13  Score=142.32  Aligned_cols=204  Identities=17%  Similarity=0.204  Sum_probs=148.9

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      .++|++|+++++ .++.++...    +..+++|++|+++++ .++.+....  .+.+++|++|+++++..++.+++ ..+
T Consensus        31 ~~~l~~L~l~~n-~i~~~~~~~----~~~~~~L~~L~l~~n-~l~~~~~~~--~~~l~~L~~L~l~~n~~l~~~~~-~~~  101 (285)
T 1ozn_A           31 PAASQRIFLHGN-RISHVPAAS----FRACRNLTILWLHSN-VLARIDAAA--FTGLALLEQLDLSDNAQLRSVDP-ATF  101 (285)
T ss_dssp             CTTCSEEECTTS-CCCEECTTT----TTTCTTCCEEECCSS-CCCEECTTT--TTTCTTCCEEECCSCTTCCCCCT-TTT
T ss_pred             CCCceEEEeeCC-cCCccCHHH----cccCCCCCEEECCCC-ccceeCHhh--cCCccCCCEEeCCCCCCccccCH-HHh
Confidence            578999999988 677766432    367889999999987 566664332  45789999999999876777754 468


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEeccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINSET  300 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l~~  300 (869)
                      ..+++|++|+++++. +..++.            ..+..+++|++|+++++. +..++.  +..+++|++|++++|.+..
T Consensus       102 ~~l~~L~~L~l~~n~-l~~~~~------------~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~  167 (285)
T 1ozn_A          102 HGLGRLHTLHLDRCG-LQELGP------------GLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGNRISS  167 (285)
T ss_dssp             TTCTTCCEEECTTSC-CCCCCT------------TTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCE
T ss_pred             cCCcCCCEEECCCCc-CCEECH------------hHhhCCcCCCEEECCCCc-ccccCHhHhccCCCccEEECCCCcccc
Confidence            889999999999876 344431            234568899999998864 444443  4678899999999998766


Q ss_pred             cccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeec
Q 040040          301 IWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKM  380 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l  380 (869)
                      +....+    ..+++|++|+++++ .++.+.+ ..+..+++|+.|+++++ .++.++..        ....+++|+.|++
T Consensus       168 ~~~~~~----~~l~~L~~L~l~~n-~l~~~~~-~~~~~l~~L~~L~l~~n-~l~~~~~~--------~~~~l~~L~~L~l  232 (285)
T 1ozn_A          168 VPERAF----RGLHSLDRLLLHQN-RVAHVHP-HAFRDLGRLMTLYLFAN-NLSALPTE--------ALAPLRALQYLRL  232 (285)
T ss_dssp             ECTTTT----TTCTTCCEEECCSS-CCCEECT-TTTTTCTTCCEEECCSS-CCSCCCHH--------HHTTCTTCCEEEC
T ss_pred             cCHHHh----cCccccCEEECCCC-cccccCH-hHccCcccccEeeCCCC-cCCcCCHH--------HcccCcccCEEec
Confidence            543333    34889999999986 4565533 45778999999999986 56554322        2456889999999


Q ss_pred             ccCc
Q 040040          381 KDLA  384 (869)
Q Consensus       381 ~~~~  384 (869)
                      ++++
T Consensus       233 ~~N~  236 (285)
T 1ozn_A          233 NDNP  236 (285)
T ss_dssp             CSSC
T ss_pred             cCCC
Confidence            9887

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.52  E-value=8.8e-14  Score=141.20  Aligned_cols=217  Identities=20%  Similarity=0.177  Sum_probs=130.5

Q ss_pred             CCcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccc
Q 040040          274 PQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDL  353 (869)
Q Consensus       274 ~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l  353 (869)
                      ..++.+|.  ..++|++|+++++.++.+....+    ..+++|++|+++++..++.+ +...+..+++|++|++++|+.+
T Consensus        21 ~~l~~ip~--~~~~l~~L~l~~n~l~~i~~~~~----~~l~~L~~L~l~~n~~l~~i-~~~~f~~l~~L~~L~l~~~n~l   93 (239)
T 2xwt_C           21 KDIQRIPS--LPPSTQTLKLIETHLRTIPSHAF----SNLPNISRIYVSIDVTLQQL-ESHSFYNLSKVTHIEIRNTRNL   93 (239)
T ss_dssp             CSCSSCCC--CCTTCCEEEEESCCCSEECTTTT----TTCTTCCEEEEECCSSCCEE-CTTTEESCTTCCEEEEEEETTC
T ss_pred             cCccccCC--CCCcccEEEEeCCcceEECHHHc----cCCCCCcEEeCCCCCCccee-CHhHcCCCcCCcEEECCCCCCe
Confidence            33555554  34578888888887666544333    34778888888876556665 4344677788888888876667


Q ss_pred             cccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCc
Q 040040          354 EGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFN  433 (869)
Q Consensus       354 ~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~  433 (869)
                      +.+...        ....+++|+.|+++++. ++.++.  ...+++|                                 
T Consensus        94 ~~i~~~--------~f~~l~~L~~L~l~~n~-l~~lp~--~~~l~~L---------------------------------  129 (239)
T 2xwt_C           94 TYIDPD--------ALKELPLLKFLGIFNTG-LKMFPD--LTKVYST---------------------------------  129 (239)
T ss_dssp             CEECTT--------SEECCTTCCEEEEEEEC-CCSCCC--CTTCCBC---------------------------------
T ss_pred             eEcCHH--------HhCCCCCCCEEeCCCCC-Cccccc--ccccccc---------------------------------
Confidence            665422        13356667777776654 433332  1111111                                 


Q ss_pred             ccccccccEEEEeccCCcccccchhHHhhcCCcc-EEEEcccCCccccccccccCccccccccccccceeeccccccccc
Q 040040          434 EKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQ-SLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTK  512 (869)
Q Consensus       434 ~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~-~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~  512 (869)
                          ..|+.|++++|..+.. ++...++.+++|+ +|++++ +.++.++...      .   ..++|++|++++++.++.
T Consensus       130 ----~~L~~L~l~~N~~l~~-i~~~~~~~l~~L~~~L~l~~-n~l~~i~~~~------~---~~~~L~~L~L~~n~~l~~  194 (239)
T 2xwt_C          130 ----DIFFILEITDNPYMTS-IPVNAFQGLCNETLTLKLYN-NGFTSVQGYA------F---NGTKLDAVYLNKNKYLTV  194 (239)
T ss_dssp             ----CSEEEEEEESCTTCCE-ECTTTTTTTBSSEEEEECCS-CCCCEECTTT------T---TTCEEEEEECTTCTTCCE
T ss_pred             ----ccccEEECCCCcchhh-cCcccccchhcceeEEEcCC-CCCcccCHhh------c---CCCCCCEEEcCCCCCccc
Confidence                1233777776644544 3555566777788 888877 4455554311      1   226788888887655666


Q ss_pred             ccccCCCCcccC-CCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCC
Q 040040          513 IWNKDPRGKLIF-PNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYL  578 (869)
Q Consensus       513 l~~~~p~~~~~l-~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l  578 (869)
                      +   .+..+..+ ++|++|++++ +.++.+ |...                 +++|+.|++.++..|
T Consensus       195 i---~~~~~~~l~~~L~~L~l~~-N~l~~l-~~~~-----------------~~~L~~L~l~~~~~l  239 (239)
T 2xwt_C          195 I---DKDAFGGVYSGPSLLDVSQ-TSVTAL-PSKG-----------------LEHLKELIARNTWTL  239 (239)
T ss_dssp             E---CTTTTTTCSBCCSEEECTT-CCCCCC-CCTT-----------------CTTCSEEECTTC---
T ss_pred             C---CHHHhhccccCCcEEECCC-CccccC-ChhH-----------------hccCceeeccCccCC
Confidence            6   24556777 7888888887 567766 5322                 678888888777643

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.51  E-value=4e-13  Score=144.79  Aligned_cols=233  Identities=18%  Similarity=0.176  Sum_probs=171.3

Q ss_pred             CccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecC
Q 040040          130 GVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVES  209 (869)
Q Consensus       130 ~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~  209 (869)
                      +++.++..+    .+++++|+++++ .++.++...    +..+++|++|+|+++.-++.++.+.  ...+++|+++.+.+
T Consensus        20 ~Lt~iP~~l----~~~l~~L~Ls~N-~i~~i~~~~----f~~l~~L~~L~Ls~N~i~~~i~~~~--f~~L~~l~~~l~~~   88 (350)
T 4ay9_X           20 KVTEIPSDL----PRNAIELRFVLT-KLRVIQKGA----FSGFGDLEKIEISQNDVLEVIEADV--FSNLPKLHEIRIEK   88 (350)
T ss_dssp             TCCSCCTTC----CTTCSEEEEESC-CCSEECTTS----STTCTTCCEEEEECCTTCCEECTTS--BCSCTTCCEEEEEE
T ss_pred             CCCccCcCc----CCCCCEEEccCC-cCCCcCHHH----HcCCCCCCEEECcCCCCCCccChhH--hhcchhhhhhhccc
Confidence            344554433    468999999998 788888643    3688999999999985455565543  23678888877777


Q ss_pred             CCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccccc--cc-CC
Q 040040          210 CEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSV--VA-FP  286 (869)
Q Consensus       210 c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~--~~-l~  286 (869)
                      +.+++.+++ ..++.+++|++|+++++. +..++..            ......++..|++.++..+..++..  .. ..
T Consensus        89 ~N~l~~l~~-~~f~~l~~L~~L~l~~n~-l~~~~~~------------~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~  154 (350)
T 4ay9_X           89 ANNLLYINP-EAFQNLPNLQYLLISNTG-IKHLPDV------------HKIHSLQKVLLDIQDNINIHTIERNSFVGLSF  154 (350)
T ss_dssp             ETTCCEECT-TSBCCCTTCCEEEEEEEC-CSSCCCC------------TTCCBSSCEEEEEESCTTCCEECTTSSTTSBS
T ss_pred             CCcccccCc-hhhhhccccccccccccc-cccCCch------------hhcccchhhhhhhccccccccccccchhhcch
Confidence            778988876 578999999999999875 5555521            1223557788888888777776642  22 34


Q ss_pred             CcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecccccccccccccccccc
Q 040040          287 NLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEE  366 (869)
Q Consensus       287 ~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~  366 (869)
                      .++.|++++|.++.+....+.     ..+|++|.+.+++.++.+ |...++.+++|++|+++++ .++.++.        
T Consensus       155 ~l~~L~L~~N~i~~i~~~~f~-----~~~L~~l~l~~~n~l~~i-~~~~f~~l~~L~~LdLs~N-~l~~lp~--------  219 (350)
T 4ay9_X          155 ESVILWLNKNGIQEIHNSAFN-----GTQLDELNLSDNNNLEEL-PNDVFHGASGPVILDISRT-RIHSLPS--------  219 (350)
T ss_dssp             SCEEEECCSSCCCEECTTSST-----TEEEEEEECTTCTTCCCC-CTTTTTTEECCSEEECTTS-CCCCCCS--------
T ss_pred             hhhhhccccccccCCChhhcc-----ccchhHHhhccCCcccCC-CHHHhccCcccchhhcCCC-CcCccCh--------
Confidence            688999999988876554443     568999999988888887 6566788999999999985 6777643        


Q ss_pred             ccccccCccceeecccCccccccCCCcccCCCCccEEEEcc
Q 040040          367 RKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAK  407 (869)
Q Consensus       367 ~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~  407 (869)
                         ..|.+|+.|.+.++.+++.+|.  ...+++|+.+++.+
T Consensus       220 ---~~~~~L~~L~~l~~~~l~~lP~--l~~l~~L~~l~l~~  255 (350)
T 4ay9_X          220 ---YGLENLKKLRARSTYNLKKLPT--LEKLVALMEASLTY  255 (350)
T ss_dssp             ---SSCTTCCEEECTTCTTCCCCCC--TTTCCSCCEEECSC
T ss_pred             ---hhhccchHhhhccCCCcCcCCC--chhCcChhhCcCCC
Confidence               2577888888888888888874  34577888887754

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.49  E-value=4.5e-13  Score=144.36  Aligned_cols=154  Identities=14%  Similarity=0.088  Sum_probs=91.5

Q ss_pred             ccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhcc-CCccEEEEeccccccccccccc
Q 040040          283 VAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSF-VQLQHLEIRKCMDLEGIVFPEE  361 (869)
Q Consensus       283 ~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L-~~L~~L~l~~c~~l~~i~~~~~  361 (869)
                      ..+++|++|++++|.+..+....+.    ...++..|++.++..+..+.+ ..+..+ ..++.|+++++ .++.+...  
T Consensus       101 ~~l~~L~~L~l~~n~l~~~~~~~~~----~~~~l~~l~l~~~~~i~~l~~-~~f~~~~~~l~~L~L~~N-~i~~i~~~--  172 (350)
T 4ay9_X          101 QNLPNLQYLLISNTGIKHLPDVHKI----HSLQKVLLDIQDNINIHTIER-NSFVGLSFESVILWLNKN-GIQEIHNS--  172 (350)
T ss_dssp             CCCTTCCEEEEEEECCSSCCCCTTC----CBSSCEEEEEESCTTCCEECT-TSSTTSBSSCEEEECCSS-CCCEECTT--
T ss_pred             hhccccccccccccccccCCchhhc----ccchhhhhhhccccccccccc-cchhhcchhhhhhccccc-cccCCChh--
Confidence            3456666777766665443322222    245677777777777776633 333333 45777777773 56655432  


Q ss_pred             cccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCccccccccc
Q 040040          362 MIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNEKSFCKLK  441 (869)
Q Consensus       362 ~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~  441 (869)
                             ....++|+.|.+.++..++.++.+.+..+++|+.|+++++ +++.+|.                  +.+.+|+
T Consensus       173 -------~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N-~l~~lp~------------------~~~~~L~  226 (350)
T 4ay9_X          173 -------AFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRT-RIHSLPS------------------YGLENLK  226 (350)
T ss_dssp             -------SSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTS-CCCCCCS------------------SSCTTCC
T ss_pred             -------hccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCC-CcCccCh------------------hhhccch
Confidence                   2244567777777766777777766666677777777653 4555543                  2256666


Q ss_pred             EEEEeccCCcccccchhHHhhcCCccEEEEcc
Q 040040          442 LMEVIFCKSLWTIFPHNMFARFLKLQSLIVGA  473 (869)
Q Consensus       442 ~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~  473 (869)
                      +|.+.++..++. +|.  +..+++|+.+++.+
T Consensus       227 ~L~~l~~~~l~~-lP~--l~~l~~L~~l~l~~  255 (350)
T 4ay9_X          227 KLRARSTYNLKK-LPT--LEKLVALMEASLTY  255 (350)
T ss_dssp             EEECTTCTTCCC-CCC--TTTCCSCCEEECSC
T ss_pred             HhhhccCCCcCc-CCC--chhCcChhhCcCCC
Confidence            666666666654 343  45566777776654

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.45  E-value=5.1e-14  Score=149.57  Aligned_cols=216  Identities=16%  Similarity=0.090  Sum_probs=117.5

Q ss_pred             cccccceeecccccccccccccCCCCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecC
Q 040040          495 AVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRD  574 (869)
Q Consensus       495 ~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~  574 (869)
                      .+++|++|+++++ +++.+   .|..+..+++|++|++++| .+..+.|  +               ..+++|++|++++
T Consensus        32 ~~~~L~~L~L~~n-~l~~~---~~~~~~~l~~L~~L~Ls~n-~l~~~~~--~---------------~~l~~L~~L~Ls~   89 (317)
T 3o53_A           32 SAWNVKELDLSGN-PLSQI---SAADLAPFTKLELLNLSSN-VLYETLD--L---------------ESLSTLRTLDLNN   89 (317)
T ss_dssp             TGGGCSEEECTTS-CCCCC---CHHHHTTCTTCCEEECTTS-CCEEEEE--E---------------TTCTTCCEEECCS
T ss_pred             cCCCCCEEECcCC-ccCcC---CHHHhhCCCcCCEEECCCC-cCCcchh--h---------------hhcCCCCEEECcC
Confidence            4567777777774 44444   2345667777777777763 3443311  1               1134455555544


Q ss_pred             CCCCceecCCCCCCCCCCCceeeeccccCccccccceeeEeeecceeccccceeeeecccceeeeccccccceEEEeecC
Q 040040          575 LPYLTTFYSGMHTLECPERANLIFQLKNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKLKILHFISD  654 (869)
Q Consensus       575 ~~~l~~~~~~~~~~~~~~L~~L~l~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~L~~L~l~~~  654 (869)
                      +                         .+..++.              .++|++|++++|.+..+....+++|+.|++++|
T Consensus        90 n-------------------------~l~~l~~--------------~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~N  130 (317)
T 3o53_A           90 N-------------------------YVQELLV--------------GPSIETLHAANNNISRVSCSRGQGKKNIYLANN  130 (317)
T ss_dssp             S-------------------------EEEEEEE--------------CTTCCEEECCSSCCSEEEECCCSSCEEEECCSS
T ss_pred             C-------------------------ccccccC--------------CCCcCEEECCCCccCCcCccccCCCCEEECCCC
Confidence            3                         3333221              356666666666666655555666666666444


Q ss_pred             CCccchHHHHHhccccceEEEEEEecccccccccEEEcCccccccccccCCCCCcc-cccCCccEEEEecccchhhcccc
Q 040040          655 GSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLD-SFLQNLEFLEVKECALSLISLRI  733 (869)
Q Consensus       655 ~~~~~p~~~l~~l~~L~~L~l~~~~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~-~~l~~L~~L~l~~c~~~l~~l~~  733 (869)
                      ....++...+..+++                 |+.|+++++ .++ .+   .+... ..+++|++|++++|.  +..++.
T Consensus       131 ~l~~~~~~~~~~l~~-----------------L~~L~Ls~N-~l~-~~---~~~~~~~~l~~L~~L~L~~N~--l~~~~~  186 (317)
T 3o53_A          131 KITMLRDLDEGCRSR-----------------VQYLDLKLN-EID-TV---NFAELAASSDTLEHLNLQYNF--IYDVKG  186 (317)
T ss_dssp             CCCSGGGBCTGGGSS-----------------EEEEECTTS-CCC-EE---EGGGGGGGTTTCCEEECTTSC--CCEEEC
T ss_pred             CCCCccchhhhccCC-----------------CCEEECCCC-CCC-cc---cHHHHhhccCcCCEEECCCCc--Cccccc
Confidence            444443322333333                 333333332 111 11   01111 234555555555554  555444


Q ss_pred             eeEecccchhccccCCCcceeecCCeeeeCCCcceEeeccCCCccccCCCCcCCCcceEEEccCCC
Q 040040          734 EIVFSKLKWLFLESSGSITSFCSGNYAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLD  799 (869)
Q Consensus       734 ~~~~~~L~~L~l~~l~~l~~~~~~~~~~~~~~L~~L~i~~c~~~~~~~~~~~~~~~L~~l~~s~~~  799 (869)
                      ...+++|+.|++.++ +++.+...  ...+++|+.|++++| .++.+|..+...++|+.|+++.|.
T Consensus       187 ~~~l~~L~~L~Ls~N-~l~~l~~~--~~~l~~L~~L~L~~N-~l~~l~~~~~~l~~L~~L~l~~N~  248 (317)
T 3o53_A          187 QVVFAKLKTLDLSSN-KLAFMGPE--FQSAAGVTWISLRNN-KLVLIEKALRFSQNLEHFDLRGNG  248 (317)
T ss_dssp             CCCCTTCCEEECCSS-CCCEECGG--GGGGTTCSEEECTTS-CCCEECTTCCCCTTCCEEECTTCC
T ss_pred             ccccccCCEEECCCC-cCCcchhh--hcccCcccEEECcCC-cccchhhHhhcCCCCCEEEccCCC
Confidence            444555555555543 23333332  335688999999999 667888888888999999998654

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.43  E-value=3.4e-12  Score=132.65  Aligned_cols=109  Identities=17%  Similarity=0.172  Sum_probs=62.4

Q ss_pred             ccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCcc----EEEEecccccccccc
Q 040040          283 VAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQ----HLEIRKCMDLEGIVF  358 (869)
Q Consensus       283 ~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~----~L~l~~c~~l~~i~~  358 (869)
                      ..+++|++|++++|.+..+   .+|..++.+++|++|++++| .++.+ +...+..+++|+    +|+++++ .++.+..
T Consensus       121 ~~l~~L~~L~l~~n~l~~~---~l~~~~~~l~~L~~L~Ls~N-~l~~~-~~~~~~~l~~L~~l~l~L~ls~n-~l~~~~~  194 (276)
T 2z62_A          121 GHLKTLKELNVAHNLIQSF---KLPEYFSNLTNLEHLDLSSN-KIQSI-YCTDLRVLHQMPLLNLSLDLSLN-PMNFIQP  194 (276)
T ss_dssp             TTCTTCCEEECCSSCCCCC---CCCGGGGGCTTCCEEECCSS-CCCEE-CGGGGHHHHTCTTCCEEEECCSS-CCCEECT
T ss_pred             ccCCCCCEEECcCCcccee---cCchhhccCCCCCEEECCCC-CCCcC-CHHHhhhhhhccccceeeecCCC-cccccCc
Confidence            4456666666666654321   13444555677777777764 34444 333345555555    6677664 4544432


Q ss_pred             ccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEcc
Q 040040          359 PEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAK  407 (869)
Q Consensus       359 ~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~  407 (869)
                      .         .....+|+.|+++++. ++.++......+++|+.|++.+
T Consensus       195 ~---------~~~~~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~  233 (276)
T 2z62_A          195 G---------AFKEIRLKELALDTNQ-LKSVPDGIFDRLTSLQKIWLHT  233 (276)
T ss_dssp             T---------SSCSCCEEEEECCSSC-CSCCCTTTTTTCCSCCEEECCS
T ss_pred             c---------ccCCCcccEEECCCCc-eeecCHhHhcccccccEEEccC
Confidence            2         2233467777777765 6666665555677777777764

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.42  E-value=2.3e-12  Score=134.47  Aligned_cols=198  Identities=19%  Similarity=0.158  Sum_probs=104.9

Q ss_pred             CCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChh
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFS  220 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~  220 (869)
                      ..++++++++++++ +++.+|...       .+.+++|+++++ .+..+....  ...+++|++|+++++. ++.+++  
T Consensus         7 ~~l~~l~~l~~~~~-~l~~ip~~~-------~~~l~~L~L~~N-~l~~~~~~~--~~~l~~L~~L~L~~n~-l~~~~~--   72 (290)
T 1p9a_G            7 SKVASHLEVNCDKR-NLTALPPDL-------PKDTTILHLSEN-LLYTFSLAT--LMPYTRLTQLNLDRAE-LTKLQV--   72 (290)
T ss_dssp             ECSTTCCEEECTTS-CCSSCCSCC-------CTTCCEEECTTS-CCSEEEGGG--GTTCTTCCEEECTTSC-CCEEEC--
T ss_pred             cccCCccEEECCCC-CCCcCCCCC-------CCCCCEEEcCCC-cCCccCHHH--hhcCCCCCEEECCCCc-cCcccC--
Confidence            34566777777665 566665432       356777777766 455544332  3356777777777763 555543  


Q ss_pred             hhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEeccccc
Q 040040          221 ISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINS  298 (869)
Q Consensus       221 ~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l  298 (869)
                       .+.+++|++|+++++. +..+|             ..+..+++|++|+++++ .++.++.  +..+++|++|++++|.+
T Consensus        73 -~~~l~~L~~L~Ls~N~-l~~l~-------------~~~~~l~~L~~L~l~~N-~l~~l~~~~~~~l~~L~~L~L~~N~l  136 (290)
T 1p9a_G           73 -DGTLPVLGTLDLSHNQ-LQSLP-------------LLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLKGNEL  136 (290)
T ss_dssp             -CSCCTTCCEEECCSSC-CSSCC-------------CCTTTCTTCCEEECCSS-CCCCCCSSTTTTCTTCCEEECTTSCC
T ss_pred             -CCCCCcCCEEECCCCc-CCcCc-------------hhhccCCCCCEEECCCC-cCcccCHHHHcCCCCCCEEECCCCCC
Confidence             2566777777776653 44444             22334556666666553 2333332  34455666666666654


Q ss_pred             cccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCcccee
Q 040040          299 ETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFL  378 (869)
Q Consensus       299 ~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L  378 (869)
                      ..+....+    ..+++|+.|+++++ .++.+ +...+..+++|+.|+++++ .++.++..         ....++|+.|
T Consensus       137 ~~~~~~~~----~~l~~L~~L~L~~N-~l~~l-~~~~~~~l~~L~~L~L~~N-~l~~ip~~---------~~~~~~L~~l  200 (290)
T 1p9a_G          137 KTLPPGLL----TPTPKLEKLSLANN-NLTEL-PAGLLNGLENLDTLLLQEN-SLYTIPKG---------FFGSHLLPFA  200 (290)
T ss_dssp             CCCCTTTT----TTCTTCCEEECTTS-CCSCC-CTTTTTTCTTCCEEECCSS-CCCCCCTT---------TTTTCCCSEE
T ss_pred             CccChhhc----ccccCCCEEECCCC-cCCcc-CHHHhcCcCCCCEEECCCC-cCCccChh---------hcccccCCeE
Confidence            44322222    23556666666553 34444 3344455666666666653 34443321         2233455555


Q ss_pred             ecccCc
Q 040040          379 KMKDLA  384 (869)
Q Consensus       379 ~l~~~~  384 (869)
                      .+.+++
T Consensus       201 ~L~~Np  206 (290)
T 1p9a_G          201 FLHGNP  206 (290)
T ss_dssp             ECCSCC
T ss_pred             EeCCCC
Confidence            555544

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.42  E-value=3.6e-12  Score=131.87  Aligned_cols=173  Identities=18%  Similarity=0.175  Sum_probs=85.4

Q ss_pred             CccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcC
Q 040040          145 SLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRG  224 (869)
Q Consensus       145 ~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~  224 (869)
                      +.+++++++. .++.+|...       .+.+++|+++++ +++.++...  .+.+++|++|+++++ .++.+++ ..+.+
T Consensus        17 ~~~~l~~~~~-~l~~ip~~~-------~~~l~~L~l~~n-~l~~~~~~~--~~~l~~L~~L~l~~n-~l~~i~~-~~~~~   83 (270)
T 2o6q_A           17 NKNSVDCSSK-KLTAIPSNI-------PADTKKLDLQSN-KLSSLPSKA--FHRLTKLRLLYLNDN-KLQTLPA-GIFKE   83 (270)
T ss_dssp             TTTEEECTTS-CCSSCCSCC-------CTTCSEEECCSS-CCSCCCTTS--SSSCTTCCEEECCSS-CCSCCCT-TTTSS
T ss_pred             CCCEEEccCC-CCCccCCCC-------CCCCCEEECcCC-CCCeeCHHH--hcCCCCCCEEECCCC-ccCeeCh-hhhcC
Confidence            3556666555 455554322       245666666666 455544332  335667777777666 3555543 34466


Q ss_pred             CCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEeccccccccc
Q 040040          225 LPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINSETIW  302 (869)
Q Consensus       225 L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l~~i~  302 (869)
                      +++|++|+++++. +..++.            ..+..+++|++|+++++. +..++.  +..+++|++|++++|.+..+.
T Consensus        84 l~~L~~L~l~~n~-l~~~~~------------~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~  149 (270)
T 2o6q_A           84 LKNLETLWVTDNK-LQALPI------------GVFDQLVNLAELRLDRNQ-LKSLPPRVFDSLTKLTYLSLGYNELQSLP  149 (270)
T ss_dssp             CTTCCEEECCSSC-CCCCCT------------TTTTTCSSCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCCCC
T ss_pred             CCCCCEEECCCCc-CCcCCH------------hHcccccCCCEEECCCCc-cCeeCHHHhCcCcCCCEEECCCCcCCccC
Confidence            6677777766653 333331            112334555555555432 222222  234455555555555544332


Q ss_pred             cCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecc
Q 040040          303 HNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       303 ~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  350 (869)
                      ...    +..+++|++|+++++ .++.+ +...+..+++|++|+++++
T Consensus       150 ~~~----~~~l~~L~~L~L~~n-~l~~~-~~~~~~~l~~L~~L~L~~N  191 (270)
T 2o6q_A          150 KGV----FDKLTSLKELRLYNN-QLKRV-PEGAFDKLTELKTLKLDNN  191 (270)
T ss_dssp             TTT----TTTCTTCCEEECCSS-CCSCC-CTTTTTTCTTCCEEECCSS
T ss_pred             HhH----ccCCcccceeEecCC-cCcEe-ChhHhccCCCcCEEECCCC
Confidence            221    223555555555553 33333 2233445555555555553

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.42  E-value=4.1e-12  Score=131.39  Aligned_cols=197  Identities=16%  Similarity=0.168  Sum_probs=145.5

Q ss_pred             CceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccccccc
Q 040040          120 LEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESF  199 (869)
Q Consensus       120 l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l  199 (869)
                      .+.+++++ ..++.++..+    .+++++|+++++ .+..++...    +..+++|++|+++++ .++.++...  ...+
T Consensus        18 ~~~l~~~~-~~l~~ip~~~----~~~l~~L~l~~n-~l~~~~~~~----~~~l~~L~~L~l~~n-~l~~i~~~~--~~~l   84 (270)
T 2o6q_A           18 KNSVDCSS-KKLTAIPSNI----PADTKKLDLQSN-KLSSLPSKA----FHRLTKLRLLYLNDN-KLQTLPAGI--FKEL   84 (270)
T ss_dssp             TTEEECTT-SCCSSCCSCC----CTTCSEEECCSS-CCSCCCTTS----SSSCTTCCEEECCSS-CCSCCCTTT--TSSC
T ss_pred             CCEEEccC-CCCCccCCCC----CCCCCEEECcCC-CCCeeCHHH----hcCCCCCCEEECCCC-ccCeeChhh--hcCC
Confidence            45566665 3444444333    368999999998 677666432    467899999999998 677776553  2478


Q ss_pred             CCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccc
Q 040040          200 LRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSF  279 (869)
Q Consensus       200 ~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~  279 (869)
                      ++|++|+++++. ++.+++ ..+.++++|++|+++++. +..++.            ..+..+++|++|+++++ .+..+
T Consensus        85 ~~L~~L~l~~n~-l~~~~~-~~~~~l~~L~~L~l~~n~-l~~~~~------------~~~~~l~~L~~L~Ls~n-~l~~~  148 (270)
T 2o6q_A           85 KNLETLWVTDNK-LQALPI-GVFDQLVNLAELRLDRNQ-LKSLPP------------RVFDSLTKLTYLSLGYN-ELQSL  148 (270)
T ss_dssp             TTCCEEECCSSC-CCCCCT-TTTTTCSSCCEEECCSSC-CCCCCT------------TTTTTCTTCCEEECCSS-CCCCC
T ss_pred             CCCCEEECCCCc-CCcCCH-hHcccccCCCEEECCCCc-cCeeCH------------HHhCcCcCCCEEECCCC-cCCcc
Confidence            999999999984 777765 467899999999999865 555542            22456899999999986 46565


Q ss_pred             cc--cccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccc
Q 040040          280 CS--VVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCM  351 (869)
Q Consensus       280 ~~--~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  351 (869)
                      +.  +..+++|++|++++|.+..+....+    ..+++|++|+++++ .++.+ +...+..+++|+.|++++++
T Consensus       149 ~~~~~~~l~~L~~L~L~~n~l~~~~~~~~----~~l~~L~~L~L~~N-~l~~~-~~~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          149 PKGVFDKLTSLKELRLYNNQLKRVPEGAF----DKLTELKTLKLDNN-QLKRV-PEGAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCSCCCTTTT----TTCTTCCEEECCSS-CCSCC-CTTTTTTCTTCCEEECCSSC
T ss_pred             CHhHccCCcccceeEecCCcCcEeChhHh----ccCCCcCEEECCCC-cCCcC-CHHHhccccCCCEEEecCCC
Confidence            54  5678999999999998776544333    34899999999986 66665 55567788999999998753

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.42  E-value=1.8e-12  Score=136.72  Aligned_cols=168  Identities=15%  Similarity=0.227  Sum_probs=94.7

Q ss_pred             CCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChh
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFS  220 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~  220 (869)
                      ..+++|++|+++++ .+..++.      ...+++|++|+++++ .++.++.    ...+++|++|++++|. ++.+   +
T Consensus        38 ~~l~~L~~L~l~~~-~i~~l~~------~~~l~~L~~L~L~~n-~i~~~~~----~~~l~~L~~L~L~~n~-l~~~---~  101 (308)
T 1h6u_A           38 ADLDGITTLSAFGT-GVTTIEG------VQYLNNLIGLELKDN-QITDLAP----LKNLTKITELELSGNP-LKNV---S  101 (308)
T ss_dssp             HHHHTCCEEECTTS-CCCCCTT------GGGCTTCCEEECCSS-CCCCCGG----GTTCCSCCEEECCSCC-CSCC---G
T ss_pred             HHcCCcCEEEeeCC-CccCchh------hhccCCCCEEEccCC-cCCCChh----HccCCCCCEEEccCCc-CCCc---h
Confidence            34678888888877 5555542      246777888888777 5555543    3467778888887774 6655   3


Q ss_pred             hhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccc
Q 040040          221 ISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSET  300 (869)
Q Consensus       221 ~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~  300 (869)
                      .+..+++|++|++++|. +..++              .+..+++|++|+++++ .+..++.+..+++|++|++++|.+..
T Consensus       102 ~~~~l~~L~~L~l~~n~-l~~~~--------------~l~~l~~L~~L~l~~n-~l~~~~~l~~l~~L~~L~l~~n~l~~  165 (308)
T 1h6u_A          102 AIAGLQSIKTLDLTSTQ-ITDVT--------------PLAGLSNLQVLYLDLN-QITNISPLAGLTNLQYLSIGNAQVSD  165 (308)
T ss_dssp             GGTTCTTCCEEECTTSC-CCCCG--------------GGTTCTTCCEEECCSS-CCCCCGGGGGCTTCCEEECCSSCCCC
T ss_pred             hhcCCCCCCEEECCCCC-CCCch--------------hhcCCCCCCEEECCCC-ccCcCccccCCCCccEEEccCCcCCC
Confidence            56777777777777764 33333              1334566666666554 24444444455555555555554333


Q ss_pred             cccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecc
Q 040040          301 IWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  350 (869)
                      +..      +..+++|+.|++++| .++.+.+   +..+++|++|+++++
T Consensus       166 ~~~------l~~l~~L~~L~l~~n-~l~~~~~---l~~l~~L~~L~L~~N  205 (308)
T 1h6u_A          166 LTP------LANLSKLTTLKADDN-KISDISP---LASLPNLIEVHLKNN  205 (308)
T ss_dssp             CGG------GTTCTTCCEEECCSS-CCCCCGG---GGGCTTCCEEECTTS
T ss_pred             Chh------hcCCCCCCEEECCCC-ccCcChh---hcCCCCCCEEEccCC
Confidence            211      233455555555543 2333311   344555555555543

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.41  E-value=4.9e-13  Score=150.50  Aligned_cols=59  Identities=8%  Similarity=0.022  Sum_probs=31.5

Q ss_pred             cccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCc-cccccccccCccccccccccccceeecccc
Q 040040          437 FCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSL-EEIFNLQELNSEETHSGAVSRLRELHVFCL  507 (869)
Q Consensus       437 ~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l-~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~  507 (869)
                      +++|+.|++++|. +.. +|.. +..+++|+.|+++++... ..++...         ..++.|+.+.+..+
T Consensus       213 l~~L~~L~Ls~N~-l~~-lp~~-l~~l~~L~~L~l~~N~l~c~~~~~~~---------~~l~~L~~l~~~~~  272 (487)
T 3oja_A          213 AAGVTWISLRNNK-LVL-IEKA-LRFSQNLEHFDLRGNGFHCGTLRDFF---------SKNQRVQTVAKQTV  272 (487)
T ss_dssp             GTTCSEEECTTSC-CCE-ECTT-CCCCTTCCEEECTTCCBCHHHHHHHH---------TTCHHHHHHHHHHH
T ss_pred             CCCccEEEecCCc-Ccc-cchh-hccCCCCCEEEcCCCCCcCcchHHHH---------HhCCCCcEEecccc
Confidence            4566666666654 333 3443 456677777777775433 1222211         24566666666543

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.40  E-value=1.2e-13  Score=148.29  Aligned_cols=84  Identities=13%  Similarity=0.170  Sum_probs=45.6

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccc--cccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEK--ISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~--l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      +++++|++.++ .+...+..     ...+++|++|+++++. +..  ++..   ...+++|++|++++|. ++...+ ..
T Consensus        70 ~~l~~L~l~~n-~l~~~~~~-----~~~~~~L~~L~L~~~~-l~~~~~~~~---~~~~~~L~~L~L~~~~-l~~~~~-~~  137 (336)
T 2ast_B           70 QGVIAFRCPRS-FMDQPLAE-----HFSPFRVQHMDLSNSV-IEVSTLHGI---LSQCSKLQNLSLEGLR-LSDPIV-NT  137 (336)
T ss_dssp             TTCSEEECTTC-EECSCCCS-----CCCCBCCCEEECTTCE-ECHHHHHHH---HTTBCCCSEEECTTCB-CCHHHH-HH
T ss_pred             ccceEEEcCCc-cccccchh-----hccCCCCCEEEccCCC-cCHHHHHHH---HhhCCCCCEEeCcCcc-cCHHHH-HH
Confidence            66777777766 33332222     1356677777777662 332  2211   3456677777777663 432211 24


Q ss_pred             hcCCCCCcEEEEeecCCc
Q 040040          222 SRGLPQLQTIKVTACKNM  239 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~~l  239 (869)
                      ++.+++|++|++++|..+
T Consensus       138 l~~~~~L~~L~L~~~~~l  155 (336)
T 2ast_B          138 LAKNSNLVRLNLSGCSGF  155 (336)
T ss_dssp             HTTCTTCSEEECTTCBSC
T ss_pred             HhcCCCCCEEECCCCCCC
Confidence            556666666666666433

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.40  E-value=9.3e-13  Score=148.23  Aligned_cols=37  Identities=14%  Similarity=0.037  Sum_probs=27.1

Q ss_pred             eCCCcceEeeccCCCccccCCCCcCCCcceEEEccCCC
Q 040040          762 SFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLD  799 (869)
Q Consensus       762 ~~~~L~~L~i~~c~~~~~~~~~~~~~~~L~~l~~s~~~  799 (869)
                      .+++|+.|++++| .+..+|.++...+.|+.+++++|.
T Consensus       212 ~l~~L~~L~Ls~N-~l~~lp~~l~~l~~L~~L~l~~N~  248 (487)
T 3oja_A          212 SAAGVTWISLRNN-KLVLIEKALRFSQNLEHFDLRGNG  248 (487)
T ss_dssp             GGTTCSEEECTTS-CCCEECTTCCCCTTCCEEECTTCC
T ss_pred             CCCCccEEEecCC-cCcccchhhccCCCCCEEEcCCCC
Confidence            4567788888887 455677777777888888887554

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.39  E-value=4.7e-12  Score=133.51  Aligned_cols=193  Identities=17%  Similarity=0.230  Sum_probs=151.4

Q ss_pred             HhccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccc
Q 040040          116 QLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLR  195 (869)
Q Consensus       116 ~l~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~  195 (869)
                      .+++++.|++.++ .+..+. .+  ..+++|++|+++++ .+..++.      ...+++|++|+++++ .++.++.    
T Consensus        39 ~l~~L~~L~l~~~-~i~~l~-~~--~~l~~L~~L~L~~n-~i~~~~~------~~~l~~L~~L~L~~n-~l~~~~~----  102 (308)
T 1h6u_A           39 DLDGITTLSAFGT-GVTTIE-GV--QYLNNLIGLELKDN-QITDLAP------LKNLTKITELELSGN-PLKNVSA----  102 (308)
T ss_dssp             HHHTCCEEECTTS-CCCCCT-TG--GGCTTCCEEECCSS-CCCCCGG------GTTCCSCCEEECCSC-CCSCCGG----
T ss_pred             HcCCcCEEEeeCC-CccCch-hh--hccCCCCEEEccCC-cCCCChh------HccCCCCCEEEccCC-cCCCchh----
Confidence            4689999999885 444432 33  67899999999998 6666654      368999999999998 5777642    


Q ss_pred             ccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCC
Q 040040          196 AESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQ  275 (869)
Q Consensus       196 ~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~  275 (869)
                      ...+++|++|++++|. ++.++   .+..+++|++|+++++. +..++              .+..+++|++|+++++ .
T Consensus       103 ~~~l~~L~~L~l~~n~-l~~~~---~l~~l~~L~~L~l~~n~-l~~~~--------------~l~~l~~L~~L~l~~n-~  162 (308)
T 1h6u_A          103 IAGLQSIKTLDLTSTQ-ITDVT---PLAGLSNLQVLYLDLNQ-ITNIS--------------PLAGLTNLQYLSIGNA-Q  162 (308)
T ss_dssp             GTTCTTCCEEECTTSC-CCCCG---GGTTCTTCCEEECCSSC-CCCCG--------------GGGGCTTCCEEECCSS-C
T ss_pred             hcCCCCCCEEECCCCC-CCCch---hhcCCCCCCEEECCCCc-cCcCc--------------cccCCCCccEEEccCC-c
Confidence            5689999999999995 77763   48899999999999975 55554              2456899999999986 5


Q ss_pred             cccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccc
Q 040040          276 LRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEG  355 (869)
Q Consensus       276 l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~  355 (869)
                      +..++.+..+++|++|++++|.+..+..      +..+++|++|++++| .++.+.+   +..+++|+.|+++++ .++.
T Consensus       163 l~~~~~l~~l~~L~~L~l~~n~l~~~~~------l~~l~~L~~L~L~~N-~l~~~~~---l~~l~~L~~L~l~~N-~i~~  231 (308)
T 1h6u_A          163 VSDLTPLANLSKLTTLKADDNKISDISP------LASLPNLIEVHLKNN-QISDVSP---LANTSNLFIVTLTNQ-TITN  231 (308)
T ss_dssp             CCCCGGGTTCTTCCEEECCSSCCCCCGG------GGGCTTCCEEECTTS-CCCBCGG---GTTCTTCCEEEEEEE-EEEC
T ss_pred             CCCChhhcCCCCCCEEECCCCccCcChh------hcCCCCCCEEEccCC-ccCcccc---ccCCCCCCEEEccCC-eeec
Confidence            6667767889999999999998665432      456899999999996 5666532   688999999999996 3444

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.37  E-value=2.1e-13  Score=146.41  Aligned_cols=107  Identities=12%  Similarity=0.098  Sum_probs=58.3

Q ss_pred             CccEEEEecCCCceecCCCCCCCCCCCC--CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          145 SLKLLHIQNNPYLLCINDSTELVPRDAF--PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       145 ~L~~L~l~~~~~l~~i~~~~~~~~~~~~--~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      .++.++++++ .+.  +..     ...+  +.++.|++.++ .+.+.+..   ...+++|++|++++|. +........+
T Consensus        48 ~~~~l~l~~~-~~~--~~~-----~~~~~~~~l~~L~l~~n-~l~~~~~~---~~~~~~L~~L~L~~~~-l~~~~~~~~~  114 (336)
T 2ast_B           48 LWQTLDLTGK-NLH--PDV-----TGRLLSQGVIAFRCPRS-FMDQPLAE---HFSPFRVQHMDLSNSV-IEVSTLHGIL  114 (336)
T ss_dssp             TSSEEECTTC-BCC--HHH-----HHHHHHTTCSEEECTTC-EECSCCCS---CCCCBCCCEEECTTCE-ECHHHHHHHH
T ss_pred             hheeeccccc-cCC--HHH-----HHhhhhccceEEEcCCc-cccccchh---hccCCCCCEEEccCCC-cCHHHHHHHH
Confidence            3677777765 221  100     1233  67778887776 44444332   3467778888887774 4432011356


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLR  277 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~  277 (869)
                      +.+++|++|++++|..-...+             ..+..+++|++|++++|..+.
T Consensus       115 ~~~~~L~~L~L~~~~l~~~~~-------------~~l~~~~~L~~L~L~~~~~l~  156 (336)
T 2ast_B          115 SQCSKLQNLSLEGLRLSDPIV-------------NTLAKNSNLVRLNLSGCSGFS  156 (336)
T ss_dssp             TTBCCCSEEECTTCBCCHHHH-------------HHHTTCTTCSEEECTTCBSCC
T ss_pred             hhCCCCCEEeCcCcccCHHHH-------------HHHhcCCCCCEEECCCCCCCC
Confidence            677777777777764221222             233345666666666654443

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.36  E-value=9.6e-12  Score=129.78  Aligned_cols=197  Identities=15%  Similarity=0.092  Sum_probs=125.1

Q ss_pred             CCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeecccccc
Q 040040          170 DAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGRED  249 (869)
Q Consensus       170 ~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~  249 (869)
                      ..+++++++++.+. +++.+|.+     -.+++++|+++++. ++.+++ ..+.++++|++|+++++. +..++.     
T Consensus         7 ~~l~~l~~l~~~~~-~l~~ip~~-----~~~~l~~L~L~~N~-l~~~~~-~~~~~l~~L~~L~L~~n~-l~~~~~-----   72 (290)
T 1p9a_G            7 SKVASHLEVNCDKR-NLTALPPD-----LPKDTTILHLSENL-LYTFSL-ATLMPYTRLTQLNLDRAE-LTKLQV-----   72 (290)
T ss_dssp             ECSTTCCEEECTTS-CCSSCCSC-----CCTTCCEEECTTSC-CSEEEG-GGGTTCTTCCEEECTTSC-CCEEEC-----
T ss_pred             cccCCccEEECCCC-CCCcCCCC-----CCCCCCEEEcCCCc-CCccCH-HHhhcCCCCCEEECCCCc-cCcccC-----
Confidence            46778888988876 67777654     34788999998884 666654 468888999999998865 555552     


Q ss_pred             ccCCccccccccCCcccEEeccCCCCcccccc-cccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCc
Q 040040          250 DINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS-VVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLK  328 (869)
Q Consensus       250 ~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~  328 (869)
                               ...+++|++|+++++ .+..++. ...+++|++|++++|.++.+....    +..+++|++|+++++ .++
T Consensus        73 ---------~~~l~~L~~L~Ls~N-~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~----~~~l~~L~~L~L~~N-~l~  137 (290)
T 1p9a_G           73 ---------DGTLPVLGTLDLSHN-QLQSLPLLGQTLPALTVLDVSFNRLTSLPLGA----LRGLGELQELYLKGN-ELK  137 (290)
T ss_dssp             ---------CSCCTTCCEEECCSS-CCSSCCCCTTTCTTCCEEECCSSCCCCCCSST----TTTCTTCCEEECTTS-CCC
T ss_pred             ---------CCCCCcCCEEECCCC-cCCcCchhhccCCCCCEEECCCCcCcccCHHH----HcCCCCCCEEECCCC-CCC
Confidence                     134777888888774 3445543 345677777777777765543322    334677777777764 455


Q ss_pred             cccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEcc
Q 040040          329 FLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAK  407 (869)
Q Consensus       329 ~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~  407 (869)
                      .+ +...+..+++|+.|+++++ .++.++..        ....+++|+.|+++++. ++.++.+.. ..++|+.+.+.+
T Consensus       138 ~~-~~~~~~~l~~L~~L~L~~N-~l~~l~~~--------~~~~l~~L~~L~L~~N~-l~~ip~~~~-~~~~L~~l~L~~  204 (290)
T 1p9a_G          138 TL-PPGLLTPTPKLEKLSLANN-NLTELPAG--------LLNGLENLDTLLLQENS-LYTIPKGFF-GSHLLPFAFLHG  204 (290)
T ss_dssp             CC-CTTTTTTCTTCCEEECTTS-CCSCCCTT--------TTTTCTTCCEEECCSSC-CCCCCTTTT-TTCCCSEEECCS
T ss_pred             cc-ChhhcccccCCCEEECCCC-cCCccCHH--------HhcCcCCCCEEECCCCc-CCccChhhc-ccccCCeEEeCC
Confidence            54 4455566777777777764 45554332        12346677777777664 555554432 234555555544

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.36  E-value=3.9e-12  Score=131.68  Aligned_cols=176  Identities=17%  Similarity=0.191  Sum_probs=106.6

Q ss_pred             CCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChh
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFS  220 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~  220 (869)
                      ..+++|+.|.+.++ .++.++.      ...+++|++|+++++ .++.++    ..+.+++|++|++++| .++.+++ .
T Consensus        38 ~~l~~L~~L~l~~~-~i~~~~~------l~~l~~L~~L~l~~n-~l~~~~----~l~~l~~L~~L~L~~n-~l~~~~~-~  103 (272)
T 3rfs_A           38 NELNSIDQIIANNS-DIKSVQG------IQYLPNVRYLALGGN-KLHDIS----ALKELTNLTYLILTGN-QLQSLPN-G  103 (272)
T ss_dssp             HHHTTCCEEECTTS-CCCCCTT------GGGCTTCCEEECTTS-CCCCCG----GGTTCTTCCEEECTTS-CCCCCCT-T
T ss_pred             ccccceeeeeeCCC-Ccccccc------cccCCCCcEEECCCC-CCCCch----hhcCCCCCCEEECCCC-ccCccCh-h
Confidence            34567777777776 4444432      245777777777776 455543    1446777777777777 4666654 3


Q ss_pred             hhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEeccccc
Q 040040          221 ISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINS  298 (869)
Q Consensus       221 ~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l  298 (869)
                      .++++++|++|++++|. +..++.            ..+..+++|++|+++++ .+..++.  +..+++|++|++++|.+
T Consensus       104 ~~~~l~~L~~L~L~~n~-l~~~~~------------~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l  169 (272)
T 3rfs_A          104 VFDKLTNLKELVLVENQ-LQSLPD------------GVFDKLTNLTYLNLAHN-QLQSLPKGVFDKLTNLTELDLSYNQL  169 (272)
T ss_dssp             TTTTCTTCCEEECTTSC-CCCCCT------------TTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             HhcCCcCCCEEECCCCc-CCccCH------------HHhccCCCCCEEECCCC-ccCccCHHHhccCccCCEEECCCCCc
Confidence            46777777777777764 444431            12344667777777665 3444443  34567777777777765


Q ss_pred             cccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecc
Q 040040          299 ETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       299 ~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  350 (869)
                      ..+..    ..++.+++|++|++++| .++.+ +...+..+++|+.|+++++
T Consensus       170 ~~~~~----~~~~~l~~L~~L~L~~N-~l~~~-~~~~~~~l~~L~~L~l~~N  215 (272)
T 3rfs_A          170 QSLPE----GVFDKLTQLKDLRLYQN-QLKSV-PDGVFDRLTSLQYIWLHDN  215 (272)
T ss_dssp             CCCCT----TTTTTCTTCCEEECCSS-CCSCC-CTTTTTTCTTCCEEECCSS
T ss_pred             CccCH----HHhcCCccCCEEECCCC-cCCcc-CHHHHhCCcCCCEEEccCC
Confidence            54322    22334677777777775 45554 3344566777777777775

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.33  E-value=1.2e-11  Score=128.44  Aligned_cols=201  Identities=18%  Similarity=0.203  Sum_probs=141.7

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhc
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISR  223 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~  223 (869)
                      ++|++|+++++ .++.++...    +..+++|++|+++++ .++.++...  .+.+++|++|+++++. ++.+++ ..+.
T Consensus        28 ~~l~~L~ls~n-~l~~~~~~~----~~~l~~L~~L~l~~n-~l~~~~~~~--~~~l~~L~~L~L~~n~-l~~~~~-~~~~   97 (276)
T 2z62_A           28 FSTKNLDLSFN-PLRHLGSYS----FFSFPELQVLDLSRC-EIQTIEDGA--YQSLSHLSTLILTGNP-IQSLAL-GAFS   97 (276)
T ss_dssp             TTCCEEECTTC-CCCEECTTT----TTTCTTCSEEECTTC-CCCEECTTT--TTTCTTCCEEECTTCC-CCEECT-TTTT
T ss_pred             CCccEEECCCC-cccccCHhH----hccccCCcEEECCCC-cCCccCHHH--ccCCcCCCEEECCCCc-cCccCh-hhhc
Confidence            57999999888 677776432    367889999999988 677666543  3478999999999984 777654 4688


Q ss_pred             CCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccc--cc-ccccCCCcCEEEeccccccc
Q 040040          224 GLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRS--FC-SVVAFPNLETLKLSAINSET  300 (869)
Q Consensus       224 ~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~--~~-~~~~l~~L~~L~L~~~~l~~  300 (869)
                      ++++|++|+++++. +..++.            ..+..+++|++|+++++. +..  ++ .+..+++|++|++++|.+..
T Consensus        98 ~l~~L~~L~l~~n~-l~~~~~------------~~~~~l~~L~~L~l~~n~-l~~~~l~~~~~~l~~L~~L~Ls~N~l~~  163 (276)
T 2z62_A           98 GLSSLQKLVAVETN-LASLEN------------FPIGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLDLSSNKIQS  163 (276)
T ss_dssp             TCTTCCEEECTTSC-CCCSTT------------CCCTTCTTCCEEECCSSC-CCCCCCCGGGGGCTTCCEEECCSSCCCE
T ss_pred             CCccccEEECCCCC-ccccCc------------hhcccCCCCCEEECcCCc-cceecCchhhccCCCCCEEECCCCCCCc
Confidence            89999999998865 444431            234568899999998854 333  22 35678999999999998766


Q ss_pred             cccCCCCCcccccCCce----EEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccc
Q 040040          301 IWHNQLPAMSSCIQNLT----RLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLN  376 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~----~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~  376 (869)
                      +....+    ..+++|+    +|+++++ .++.+ +...+ ...+|++|+++++ .++.++..        ....+++|+
T Consensus       164 ~~~~~~----~~l~~L~~l~l~L~ls~n-~l~~~-~~~~~-~~~~L~~L~L~~n-~l~~~~~~--------~~~~l~~L~  227 (276)
T 2z62_A          164 IYCTDL----RVLHQMPLLNLSLDLSLN-PMNFI-QPGAF-KEIRLKELALDTN-QLKSVPDG--------IFDRLTSLQ  227 (276)
T ss_dssp             ECGGGG----HHHHTCTTCCEEEECCSS-CCCEE-CTTSS-CSCCEEEEECCSS-CCSCCCTT--------TTTTCCSCC
T ss_pred             CCHHHh----hhhhhccccceeeecCCC-ccccc-Ccccc-CCCcccEEECCCC-ceeecCHh--------Hhccccccc
Confidence            533322    2345555    7888874 56665 33322 3458999999986 47665432        235688999


Q ss_pred             eeecccCc
Q 040040          377 FLKMKDLA  384 (869)
Q Consensus       377 ~L~l~~~~  384 (869)
                      .|++++++
T Consensus       228 ~L~l~~N~  235 (276)
T 2z62_A          228 KIWLHTNP  235 (276)
T ss_dssp             EEECCSSC
T ss_pred             EEEccCCc
Confidence            99999876

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.32  E-value=7.4e-13  Score=140.21  Aligned_cols=61  Identities=20%  Similarity=0.172  Sum_probs=26.5

Q ss_pred             CCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCcccc-Chh-hHhccCCccEEEEecc
Q 040040          286 PNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLF-STS-LVRSFVQLQHLEIRKC  350 (869)
Q Consensus       286 ~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~-~~~-~~~~L~~L~~L~l~~c  350 (869)
                      ++|++|++++|.+..+..    ..++.+++|++|+++++....... +.. .++.+++|++|+++++
T Consensus       149 ~~L~~L~L~~N~l~~~~~----~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N  211 (312)
T 1wwl_A          149 PGLKVLSIAQAHSLNFSC----EQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNA  211 (312)
T ss_dssp             TTCCEEEEESCSCCCCCT----TTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTS
T ss_pred             CCCcEEEeeCCCCccchH----HHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCC
Confidence            455555555555433221    222335555666655543221110 001 0144555555655554

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.31  E-value=2e-11  Score=126.29  Aligned_cols=108  Identities=19%  Similarity=0.185  Sum_probs=46.7

Q ss_pred             cCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccc
Q 040040          284 AFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMI  363 (869)
Q Consensus       284 ~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~  363 (869)
                      .+++|++|++++|.+..+...    .++.+++|++|++++| .++.+ +...++.+++|++|++++| .++.++..    
T Consensus       107 ~l~~L~~L~L~~n~l~~~~~~----~~~~l~~L~~L~L~~n-~l~~~-~~~~~~~l~~L~~L~l~~n-~l~~~~~~----  175 (272)
T 3rfs_A          107 KLTNLKELVLVENQLQSLPDG----VFDKLTNLTYLNLAHN-QLQSL-PKGVFDKLTNLTELDLSYN-QLQSLPEG----  175 (272)
T ss_dssp             TCTTCCEEECTTSCCCCCCTT----TTTTCTTCCEEECCSS-CCCCC-CTTTTTTCTTCCEEECCSS-CCCCCCTT----
T ss_pred             CCcCCCEEECCCCcCCccCHH----HhccCCCCCEEECCCC-ccCcc-CHHHhccCccCCEEECCCC-CcCccCHH----
Confidence            344455555555443322111    1223455555555554 33333 2233445555555555554 33333211    


Q ss_pred             cccccccccCccceeecccCccccccCCCcccCCCCccEEEEcc
Q 040040          364 EEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAK  407 (869)
Q Consensus       364 ~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~  407 (869)
                          ....+++|+.|+++++. ++.++......+++|+.|++.+
T Consensus       176 ----~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~  214 (272)
T 3rfs_A          176 ----VFDKLTQLKDLRLYQNQ-LKSVPDGVFDRLTSLQYIWLHD  214 (272)
T ss_dssp             ----TTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCS
T ss_pred             ----HhcCCccCCEEECCCCc-CCccCHHHHhCCcCCCEEEccC
Confidence                12344555555555543 4444433333344455555444

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.30  E-value=6.1e-12  Score=133.11  Aligned_cols=87  Identities=17%  Similarity=0.192  Sum_probs=54.4

Q ss_pred             CCCCccEEEEecCCCce-ecCCCCCCCCCCCCCCccEeecccccccccccccccccccc-----CCCCEEEecCCCCCcc
Q 040040          142 GFPSLKLLHIQNNPYLL-CINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESF-----LRLRNLKVESCEKLTH  215 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~-~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l-----~~L~~L~L~~c~~l~~  215 (869)
                      .+++|++|+++++ .+. .++..+.   ...+++|++|+++++ .+++++..   .+.+     ++|++|+++++. +..
T Consensus        93 ~l~~L~~L~L~~n-~l~~~~~~~~~---~~~l~~L~~L~Ls~N-~l~~~~~~---~~~l~~~~~~~L~~L~L~~N~-l~~  163 (312)
T 1wwl_A           93 GISGLQELTLENL-EVTGTAPPPLL---EATGPDLNILNLRNV-SWATRDAW---LAELQQWLKPGLKVLSIAQAH-SLN  163 (312)
T ss_dssp             TTSCCCEEEEEEE-BCBSCCCCCSS---SCCSCCCSEEEEESC-BCSSSSSH---HHHHHTTCCTTCCEEEEESCS-CCC
T ss_pred             CcCCccEEEccCC-cccchhHHHHH---HhcCCCccEEEccCC-CCcchhHH---HHHHHHhhcCCCcEEEeeCCC-Ccc
Confidence            4678888888887 343 3443220   146777888888776 45554321   2233     777777777774 666


Q ss_pred             cCChhhhcCCCCCcEEEEeecCC
Q 040040          216 IFSFSISRGLPQLQTIKVTACKN  238 (869)
Q Consensus       216 l~~~~~~~~L~~L~~L~l~~c~~  238 (869)
                      +++ ..++++++|++|+++++..
T Consensus       164 ~~~-~~~~~l~~L~~L~Ls~N~l  185 (312)
T 1wwl_A          164 FSC-EQVRVFPALSTLDLSDNPE  185 (312)
T ss_dssp             CCT-TTCCCCSSCCEEECCSCTT
T ss_pred             chH-HHhccCCCCCEEECCCCCc
Confidence            654 4667777777777777653

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.22  E-value=1e-10  Score=119.36  Aligned_cols=59  Identities=19%  Similarity=0.240  Sum_probs=29.0

Q ss_pred             CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeec
Q 040040          173 PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTAC  236 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  236 (869)
                      +.+++|+++++ .+..++...  .+.+++|++|+++++ .++.+++ ..+.++++|++|+++++
T Consensus        35 ~~l~~L~L~~n-~l~~~~~~~--~~~l~~L~~L~L~~n-~l~~~~~-~~~~~l~~L~~L~L~~n   93 (251)
T 3m19_A           35 ADTEKLDLQST-GLATLSDAT--FRGLTKLTWLNLDYN-QLQTLSA-GVFDDLTELGTLGLANN   93 (251)
T ss_dssp             TTCCEEECTTS-CCCCCCTTT--TTTCTTCCEEECTTS-CCCCCCT-TTTTTCTTCCEEECTTS
T ss_pred             CCCCEEEccCC-CcCccCHhH--hcCcccCCEEECCCC-cCCccCH-hHhccCCcCCEEECCCC
Confidence            45555555555 344433322  234555555555555 3444433 23455555555555554

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.20  E-value=1.1e-10  Score=121.72  Aligned_cols=167  Identities=17%  Similarity=0.209  Sum_probs=98.9

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      .+++|++|+++++ .++.++.      ...+++|++|+++++ .++.++.    ...+++|++|++++|. ++.+   +.
T Consensus        44 ~l~~L~~L~l~~~-~i~~~~~------~~~l~~L~~L~L~~n-~l~~~~~----l~~l~~L~~L~l~~n~-l~~~---~~  107 (291)
T 1h6t_A           44 ELNSIDQIIANNS-DIKSVQG------IQYLPNVTKLFLNGN-KLTDIKP----LANLKNLGWLFLDENK-VKDL---SS  107 (291)
T ss_dssp             HHHTCCEEECTTS-CCCCCTT------GGGCTTCCEEECCSS-CCCCCGG----GTTCTTCCEEECCSSC-CCCG---GG
T ss_pred             hcCcccEEEccCC-CcccChh------HhcCCCCCEEEccCC-ccCCCcc----cccCCCCCEEECCCCc-CCCC---hh
Confidence            3566777777666 4554432      245677777777766 4555432    3467777777777763 5554   24


Q ss_pred             hcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEecccccccc
Q 040040          222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETI  301 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i  301 (869)
                      ++.+++|++|++++|. +..++              .+..+++|++|+++++ .+..++.+..+++|++|++++|.+..+
T Consensus       108 l~~l~~L~~L~L~~n~-i~~~~--------------~l~~l~~L~~L~l~~n-~l~~~~~l~~l~~L~~L~L~~N~l~~~  171 (291)
T 1h6t_A          108 LKDLKKLKSLSLEHNG-ISDIN--------------GLVHLPQLESLYLGNN-KITDITVLSRLTKLDTLSLEDNQISDI  171 (291)
T ss_dssp             GTTCTTCCEEECTTSC-CCCCG--------------GGGGCTTCCEEECCSS-CCCCCGGGGGCTTCSEEECCSSCCCCC
T ss_pred             hccCCCCCEEECCCCc-CCCCh--------------hhcCCCCCCEEEccCC-cCCcchhhccCCCCCEEEccCCccccc
Confidence            6677777777777654 33332              2334666666666664 344445555666777777777765443


Q ss_pred             ccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecc
Q 040040          302 WHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       302 ~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  350 (869)
                      ..      +..+++|+.|++++| .++.+ +  .+..+++|+.|+++++
T Consensus       172 ~~------l~~l~~L~~L~L~~N-~i~~l-~--~l~~l~~L~~L~l~~n  210 (291)
T 1h6t_A          172 VP------LAGLTKLQNLYLSKN-HISDL-R--ALAGLKNLDVLELFSQ  210 (291)
T ss_dssp             GG------GTTCTTCCEEECCSS-CCCBC-G--GGTTCTTCSEEEEEEE
T ss_pred             hh------hcCCCccCEEECCCC-cCCCC-h--hhccCCCCCEEECcCC
Confidence            21      344667777777664 45554 2  2566777777777764

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.18  E-value=1e-10  Score=122.06  Aligned_cols=145  Identities=19%  Similarity=0.265  Sum_probs=84.3

Q ss_pred             CCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccc
Q 040040          171 AFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDD  250 (869)
Q Consensus       171 ~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~  250 (869)
                      .+++|++|+++++ .++.++.    .+.+++|++|++++| +++.+++   +.++++|++|+++++. +..++       
T Consensus        44 ~l~~L~~L~l~~~-~i~~~~~----~~~l~~L~~L~L~~n-~l~~~~~---l~~l~~L~~L~l~~n~-l~~~~-------  106 (291)
T 1h6t_A           44 ELNSIDQIIANNS-DIKSVQG----IQYLPNVTKLFLNGN-KLTDIKP---LANLKNLGWLFLDENK-VKDLS-------  106 (291)
T ss_dssp             HHHTCCEEECTTS-CCCCCTT----GGGCTTCCEEECCSS-CCCCCGG---GTTCTTCCEEECCSSC-CCCGG-------
T ss_pred             hcCcccEEEccCC-CcccChh----HhcCCCCCEEEccCC-ccCCCcc---cccCCCCCEEECCCCc-CCCCh-------
Confidence            4566777777776 4555432    346777777777777 3555532   6677777777777654 33333       


Q ss_pred             cCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccc
Q 040040          251 INNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFL  330 (869)
Q Consensus       251 ~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l  330 (869)
                             .+..+++|++|+++++ .+..++.+..+++|++|++++|.+..+      ..+..+++|+.|++++| .++.+
T Consensus       107 -------~l~~l~~L~~L~L~~n-~i~~~~~l~~l~~L~~L~l~~n~l~~~------~~l~~l~~L~~L~L~~N-~l~~~  171 (291)
T 1h6t_A          107 -------SLKDLKKLKSLSLEHN-GISDINGLVHLPQLESLYLGNNKITDI------TVLSRLTKLDTLSLEDN-QISDI  171 (291)
T ss_dssp             -------GGTTCTTCCEEECTTS-CCCCCGGGGGCTTCCEEECCSSCCCCC------GGGGGCTTCSEEECCSS-CCCCC
T ss_pred             -------hhccCCCCCEEECCCC-cCCCChhhcCCCCCCEEEccCCcCCcc------hhhccCCCCCEEEccCC-ccccc
Confidence                   2344666677776664 344455555666666666666654443      12334566666666654 34443


Q ss_pred             cChhhHhccCCccEEEEecc
Q 040040          331 FSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       331 ~~~~~~~~L~~L~~L~l~~c  350 (869)
                      .+   +..+++|++|+++++
T Consensus       172 ~~---l~~l~~L~~L~L~~N  188 (291)
T 1h6t_A          172 VP---LAGLTKLQNLYLSKN  188 (291)
T ss_dssp             GG---GTTCTTCCEEECCSS
T ss_pred             hh---hcCCCccCEEECCCC
Confidence            22   455666666666654

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=99.17  E-value=1e-10  Score=134.12  Aligned_cols=168  Identities=17%  Similarity=0.206  Sum_probs=112.3

Q ss_pred             CCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChh
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFS  220 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~  220 (869)
                      ..+++|+.|+++++ .+..++.      +..+++|+.|+|+++ .+..++.    ...+++|++|+|++| .+..++   
T Consensus        40 ~~L~~L~~L~l~~n-~i~~l~~------l~~l~~L~~L~Ls~N-~l~~~~~----l~~l~~L~~L~Ls~N-~l~~l~---  103 (605)
T 1m9s_A           40 NELNSIDQIIANNS-DIKSVQG------IQYLPNVTKLFLNGN-KLTDIKP----LTNLKNLGWLFLDEN-KIKDLS---  103 (605)
T ss_dssp             HHHTTCCCCBCTTC-CCCCCTT------GGGCTTCCEEECTTS-CCCCCGG----GGGCTTCCEEECCSS-CCCCCT---
T ss_pred             hcCCCCCEEECcCC-CCCCChH------HccCCCCCEEEeeCC-CCCCChh----hccCCCCCEEECcCC-CCCCCh---
Confidence            45678888888877 5665542      256788888888887 5665543    447888888888888 466653   


Q ss_pred             hhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccc
Q 040040          221 ISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSET  300 (869)
Q Consensus       221 ~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~  300 (869)
                      .+..+++|++|++++|. +..++              .+..+++|+.|+++++ .+..++.+..+++|+.|+|++|.+..
T Consensus       104 ~l~~l~~L~~L~Ls~N~-l~~l~--------------~l~~l~~L~~L~Ls~N-~l~~l~~l~~l~~L~~L~Ls~N~l~~  167 (605)
T 1m9s_A          104 SLKDLKKLKSLSLEHNG-ISDIN--------------GLVHLPQLESLYLGNN-KITDITVLSRLTKLDTLSLEDNQISD  167 (605)
T ss_dssp             TSTTCTTCCEEECTTSC-CCCCG--------------GGGGCTTCSEEECCSS-CCCCCGGGGSCTTCSEEECCSSCCCC
T ss_pred             hhccCCCCCEEEecCCC-CCCCc--------------cccCCCccCEEECCCC-ccCCchhhcccCCCCEEECcCCcCCC
Confidence            57778888888888765 33333              3445777888887775 35555666677777777777776544


Q ss_pred             cccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecc
Q 040040          301 IWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  350 (869)
                      +..      +..+++|+.|++++| .+..+ +  .+..+++|+.|++++|
T Consensus       168 ~~~------l~~l~~L~~L~Ls~N-~i~~l-~--~l~~l~~L~~L~L~~N  207 (605)
T 1m9s_A          168 IVP------LAGLTKLQNLYLSKN-HISDL-R--ALAGLKNLDVLELFSQ  207 (605)
T ss_dssp             CGG------GTTCTTCCEEECCSS-CCCBC-G--GGTTCTTCSEEECCSE
T ss_pred             chh------hccCCCCCEEECcCC-CCCCC-h--HHccCCCCCEEEccCC
Confidence            321      345677777777775 45554 2  2566777777777775

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.16  E-value=2.9e-10  Score=115.94  Aligned_cols=175  Identities=14%  Similarity=0.136  Sum_probs=101.1

Q ss_pred             CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccC
Q 040040          173 PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDIN  252 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~  252 (869)
                      ...+++++++. .++.+|.+     -.+++++|+++++. +..+++ ..++++++|++|+++++. +..++.        
T Consensus        14 ~~~~~l~~~~~-~l~~~p~~-----~~~~l~~L~L~~n~-l~~~~~-~~~~~l~~L~~L~L~~n~-l~~~~~--------   76 (251)
T 3m19_A           14 EGKKEVDCQGK-SLDSVPSG-----IPADTEKLDLQSTG-LATLSD-ATFRGLTKLTWLNLDYNQ-LQTLSA--------   76 (251)
T ss_dssp             GGGTEEECTTC-CCSSCCSC-----CCTTCCEEECTTSC-CCCCCT-TTTTTCTTCCEEECTTSC-CCCCCT--------
T ss_pred             CCCeEEecCCC-CccccCCC-----CCCCCCEEEccCCC-cCccCH-hHhcCcccCCEEECCCCc-CCccCH--------
Confidence            34667777766 66666654     23688999998884 666655 467888899999988864 444441        


Q ss_pred             CccccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccc
Q 040040          253 NTEVIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFL  330 (869)
Q Consensus       253 ~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l  330 (869)
                          ..+..+++|++|+++++. +..++.  +..+++|++|++++|.+..+....    +..+++|++|+++++ .++.+
T Consensus        77 ----~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~----~~~l~~L~~L~Ls~N-~l~~~  146 (251)
T 3m19_A           77 ----GVFDDLTELGTLGLANNQ-LASLPLGVFDHLTQLDKLYLGGNQLKSLPSGV----FDRLTKLKELRLNTN-QLQSI  146 (251)
T ss_dssp             ----TTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTT----TTTCTTCCEEECCSS-CCCCC
T ss_pred             ----hHhccCCcCCEEECCCCc-ccccChhHhcccCCCCEEEcCCCcCCCcChhH----hccCCcccEEECcCC-cCCcc
Confidence                123456777777776643 444332  245566666666666654432221    233566666666654 44544


Q ss_pred             cChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCc
Q 040040          331 FSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLA  384 (869)
Q Consensus       331 ~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~  384 (869)
                       +...++.+++|++|+++++ .++.++..        ....+++|+.|++++++
T Consensus       147 -~~~~~~~l~~L~~L~L~~N-~l~~~~~~--------~~~~l~~L~~L~l~~N~  190 (251)
T 3m19_A          147 -PAGAFDKLTNLQTLSLSTN-QLQSVPHG--------AFDRLGKLQTITLFGNQ  190 (251)
T ss_dssp             -CTTTTTTCTTCCEEECCSS-CCSCCCTT--------TTTTCTTCCEEECCSCC
T ss_pred             -CHHHcCcCcCCCEEECCCC-cCCccCHH--------HHhCCCCCCEEEeeCCc
Confidence             3334555666666666663 34433221        12345555555555554

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.14  E-value=1.6e-10  Score=112.94  Aligned_cols=129  Identities=12%  Similarity=0.198  Sum_probs=64.8

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      .+++|++|+++++ .+..++ .     ...+++|++|+++++ .++.++    ....+++|++|++++|. ++...+ ..
T Consensus        42 ~l~~L~~L~l~~n-~i~~l~-~-----l~~l~~L~~L~l~~n-~~~~~~----~l~~l~~L~~L~l~~n~-l~~~~~-~~  107 (197)
T 4ezg_A           42 QMNSLTYITLANI-NVTDLT-G-----IEYAHNIKDLTINNI-HATNYN----PISGLSNLERLRIMGKD-VTSDKI-PN  107 (197)
T ss_dssp             HHHTCCEEEEESS-CCSCCT-T-----GGGCTTCSEEEEESC-CCSCCG----GGTTCTTCCEEEEECTT-CBGGGS-CC
T ss_pred             hcCCccEEeccCC-CccChH-H-----HhcCCCCCEEEccCC-CCCcch----hhhcCCCCCEEEeECCc-cCcccC-hh
Confidence            3556666666665 444443 1     135566666666665 343332    13356666666666653 443211 24


Q ss_pred             hcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEecccc
Q 040040          222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAIN  297 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~  297 (869)
                      ++.+++|++|++++|......+             ..+..+++|++|++++|..+..++.+..+++|++|++++|.
T Consensus       108 l~~l~~L~~L~Ls~n~i~~~~~-------------~~l~~l~~L~~L~L~~n~~i~~~~~l~~l~~L~~L~l~~n~  170 (197)
T 4ezg_A          108 LSGLTSLTLLDISHSAHDDSIL-------------TKINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFDG  170 (197)
T ss_dssp             CTTCTTCCEEECCSSBCBGGGH-------------HHHTTCSSCCEEECCSCTBCCCCGGGGGCSSCCEEECTTBC
T ss_pred             hcCCCCCCEEEecCCccCcHhH-------------HHHhhCCCCCEEEccCCCCccccHhhcCCCCCCEEECCCCC
Confidence            5566666666666654221122             22334555555555555444444444444555555555544

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.12  E-value=1.1e-10  Score=123.28  Aligned_cols=138  Identities=15%  Similarity=0.159  Sum_probs=69.2

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCC-CCCCCccEeecccccccccccc--ccccccccCCCCEEEecCCCCCcccCCh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPR-DAFPLLESLSLSNLMNLEKISC--SQLRAESFLRLRNLKVESCEKLTHIFSF  219 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~-~~~~~L~~L~L~~~~~l~~l~~--~~~~~~~l~~L~~L~L~~c~~l~~l~~~  219 (869)
                      +++|++|+++++.-....+..+    . ..+++|++|+++++ .+.....  .......+++|++|++++|. +..+++ 
T Consensus        90 ~~~L~~L~l~~n~l~~~~~~~~----~~~~~~~L~~L~Ls~n-~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~-l~~~~~-  162 (310)
T 4glp_A           90 YSRLKELTLEDLKITGTMPPLP----LEATGLALSSLRLRNV-SWATGRSWLAELQQWLKPGLKVLSIAQAH-SPAFSC-  162 (310)
T ss_dssp             HSCCCEEEEESCCCBSCCCCCS----SSCCCBCCSSCEEESC-CCSSTTSSHHHHHTTBCSCCCEEEEECCS-SCCCCT-
T ss_pred             cCceeEEEeeCCEeccchhhhh----hhccCCCCCEEEeecc-cccchhhhhHHHHhhhccCCCEEEeeCCC-cchhhH-
Confidence            3567777777773222222211    1 45677777777776 3332110  00112356777777777764 555543 


Q ss_pred             hhhcCCCCCcEEEEeecCCcee--eeccccccccCCccccccccCCcccEEeccCCCCcccccc-----cccCCCcCEEE
Q 040040          220 SISRGLPQLQTIKVTACKNMKV--IFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS-----VVAFPNLETLK  292 (869)
Q Consensus       220 ~~~~~L~~L~~L~l~~c~~l~~--l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-----~~~l~~L~~L~  292 (869)
                      ..++.+++|++|+++++.....  ++..           .....+++|++|+++++. ++.++.     ...+++|++|+
T Consensus       163 ~~~~~l~~L~~L~Ls~N~l~~~~~~~~~-----------~~~~~l~~L~~L~Ls~N~-l~~l~~~~~~l~~~l~~L~~L~  230 (310)
T 4glp_A          163 EQVRAFPALTSLDLSDNPGLGERGLMAA-----------LCPHKFPAIQNLALRNTG-METPTGVCAALAAAGVQPHSLD  230 (310)
T ss_dssp             TSCCCCTTCCEEECCSCTTCHHHHHHTT-----------SCTTSSCCCCSCBCCSSC-CCCHHHHHHHHHHHTCCCSSEE
T ss_pred             HHhccCCCCCEEECCCCCCccchhhhHH-----------HhhhcCCCCCEEECCCCC-CCchHHHHHHHHhcCCCCCEEE
Confidence            3566677777777776653211  1100           011235566666666542 333332     13445566666


Q ss_pred             ecccccc
Q 040040          293 LSAINSE  299 (869)
Q Consensus       293 L~~~~l~  299 (869)
                      +++|.+.
T Consensus       231 Ls~N~l~  237 (310)
T 4glp_A          231 LSHNSLR  237 (310)
T ss_dssp             CTTSCCC
T ss_pred             CCCCCCC
Confidence            6655533

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.12  E-value=4.7e-12  Score=138.55  Aligned_cols=193  Identities=13%  Similarity=0.049  Sum_probs=92.8

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccc--cccc-ccccc----ccccccCCCCEEEecCCCCCc
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLM--NLEK-ISCSQ----LRAESFLRLRNLKVESCEKLT  214 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~--~l~~-l~~~~----~~~~~l~~L~~L~L~~c~~l~  214 (869)
                      .+++|++|++++| .+.......-......+++|++|+++++.  .+.. ++.+.    .....+++|++|++++|. +.
T Consensus        30 ~~~~L~~L~L~~n-~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~-l~  107 (386)
T 2ca6_A           30 EDDSVKEIVLSGN-TIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNA-FG  107 (386)
T ss_dssp             HCSCCCEEECTTS-EECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCC-CC
T ss_pred             cCCCccEEECCCC-CCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCc-CC
Confidence            4566777777766 33221000000012456677777777651  1111 11110    001356778888887774 44


Q ss_pred             c-----cCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccC---------CcccEEeccCCCCc-ccc
Q 040040          215 H-----IFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEF---------SQLRKLTLKSLPQL-RSF  279 (869)
Q Consensus       215 ~-----l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l---------~~L~~L~l~~~~~l-~~~  279 (869)
                      .     ++  ..+..+++|++|++++|.. .........        ..+..+         ++|++|+++++.-- ..+
T Consensus       108 ~~~~~~l~--~~l~~~~~L~~L~L~~n~l-~~~~~~~l~--------~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~  176 (386)
T 2ca6_A          108 PTAQEPLI--DFLSKHTPLEHLYLHNNGL-GPQAGAKIA--------RALQELAVNKKAKNAPPLRSIICGRNRLENGSM  176 (386)
T ss_dssp             TTTHHHHH--HHHHHCTTCCEEECCSSCC-HHHHHHHHH--------HHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGH
T ss_pred             HHHHHHHH--HHHHhCCCCCEEECcCCCC-CHHHHHHHH--------HHHHHHhhhhhcccCCCCcEEECCCCCCCcHHH
Confidence            3     21  2566777888888877653 211100000        011112         66777777665421 122


Q ss_pred             c----ccccCCCcCEEEeccccccccccC-CCCCcccccCCceEEEEecCCCC-----ccccChhhHhccCCccEEEEec
Q 040040          280 C----SVVAFPNLETLKLSAINSETIWHN-QLPAMSSCIQNLTRLIVHGCNNL-----KFLFSTSLVRSFVQLQHLEIRK  349 (869)
Q Consensus       280 ~----~~~~l~~L~~L~L~~~~l~~i~~~-~~~~~~~~l~~L~~L~l~~c~~l-----~~l~~~~~~~~L~~L~~L~l~~  349 (869)
                      +    .+..+++|++|++++|.+...... ..+..+..+++|++|++++|. +     ..+ + ..+..+++|++|++++
T Consensus       177 ~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~-l~~~g~~~l-~-~~l~~~~~L~~L~L~~  253 (386)
T 2ca6_A          177 KEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNT-FTHLGSSAL-A-IALKSWPNLRELGLND  253 (386)
T ss_dssp             HHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSC-CHHHHHHHH-H-HHGGGCTTCCEEECTT
T ss_pred             HHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCC-CCcHHHHHH-H-HHHccCCCcCEEECCC
Confidence            2    123456777777777664421000 011123446677777776654 3     222 2 2345666777777766


Q ss_pred             c
Q 040040          350 C  350 (869)
Q Consensus       350 c  350 (869)
                      |
T Consensus       254 n  254 (386)
T 2ca6_A          254 C  254 (386)
T ss_dssp             C
T ss_pred             C
Confidence            5

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=99.10  E-value=2.5e-10  Score=130.97  Aligned_cols=167  Identities=19%  Similarity=0.286  Sum_probs=79.6

Q ss_pred             HhccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccc
Q 040040          116 QLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLR  195 (869)
Q Consensus       116 ~l~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~  195 (869)
                      .+++++.|.+.++. +..+ +.+  ..+++|++|++++| .+..++.      +..+++|+.|+|+++ .+..++.    
T Consensus        41 ~L~~L~~L~l~~n~-i~~l-~~l--~~l~~L~~L~Ls~N-~l~~~~~------l~~l~~L~~L~Ls~N-~l~~l~~----  104 (605)
T 1m9s_A           41 ELNSIDQIIANNSD-IKSV-QGI--QYLPNVTKLFLNGN-KLTDIKP------LTNLKNLGWLFLDEN-KIKDLSS----  104 (605)
T ss_dssp             HHTTCCCCBCTTCC-CCCC-TTG--GGCTTCCEEECTTS-CCCCCGG------GGGCTTCCEEECCSS-CCCCCTT----
T ss_pred             cCCCCCEEECcCCC-CCCC-hHH--ccCCCCCEEEeeCC-CCCCChh------hccCCCCCEEECcCC-CCCCChh----
Confidence            34555555555422 2222 122  34555666666555 3333322      235555666666555 3444331    


Q ss_pred             ccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCC
Q 040040          196 AESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQ  275 (869)
Q Consensus       196 ~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~  275 (869)
                      ...+++|++|++++|. +..+   +.+..+++|+.|++++|. +..++              .+..+++|+.|+++++. 
T Consensus       105 l~~l~~L~~L~Ls~N~-l~~l---~~l~~l~~L~~L~Ls~N~-l~~l~--------------~l~~l~~L~~L~Ls~N~-  164 (605)
T 1m9s_A          105 LKDLKKLKSLSLEHNG-ISDI---NGLVHLPQLESLYLGNNK-ITDIT--------------VLSRLTKLDTLSLEDNQ-  164 (605)
T ss_dssp             STTCTTCCEEECTTSC-CCCC---GGGGGCTTCSEEECCSSC-CCCCG--------------GGGSCTTCSEEECCSSC-
T ss_pred             hccCCCCCEEEecCCC-CCCC---ccccCCCccCEEECCCCc-cCCch--------------hhcccCCCCEEECcCCc-
Confidence            3355556666665553 4443   235555566666665543 22221              23345555666555542 


Q ss_pred             cccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecC
Q 040040          276 LRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGC  324 (869)
Q Consensus       276 l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c  324 (869)
                      +..++.+..+++|+.|+|++|.+..+     +. +..+++|+.|++++|
T Consensus       165 l~~~~~l~~l~~L~~L~Ls~N~i~~l-----~~-l~~l~~L~~L~L~~N  207 (605)
T 1m9s_A          165 ISDIVPLAGLTKLQNLYLSKNHISDL-----RA-LAGLKNLDVLELFSQ  207 (605)
T ss_dssp             CCCCGGGTTCTTCCEEECCSSCCCBC-----GG-GTTCTTCSEEECCSE
T ss_pred             CCCchhhccCCCCCEEECcCCCCCCC-----hH-HccCCCCCEEEccCC
Confidence            33333345555566666655554432     11 233555556655554

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.10  E-value=1.8e-10  Score=121.60  Aligned_cols=203  Identities=19%  Similarity=0.185  Sum_probs=121.6

Q ss_pred             CCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCC-h--hhhcCCCCCcEEEEeecCCceeeeccccc
Q 040040          172 FPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFS-F--SISRGLPQLQTIKVTACKNMKVIFEVGRE  248 (869)
Q Consensus       172 ~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~-~--~~~~~L~~L~~L~l~~c~~l~~l~~~~~~  248 (869)
                      +++|++|+++++ .+.+.....+..+.+++|++|+++++. +....+ .  ..+..+++|++|+++++.. ..++.    
T Consensus        90 ~~~L~~L~l~~n-~l~~~~~~~~~~~~~~~L~~L~Ls~n~-i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l-~~~~~----  162 (310)
T 4glp_A           90 YSRLKELTLEDL-KITGTMPPLPLEATGLALSSLRLRNVS-WATGRSWLAELQQWLKPGLKVLSIAQAHS-PAFSC----  162 (310)
T ss_dssp             HSCCCEEEEESC-CCBSCCCCCSSSCCCBCCSSCEEESCC-CSSTTSSHHHHHTTBCSCCCEEEEECCSS-CCCCT----
T ss_pred             cCceeEEEeeCC-EeccchhhhhhhccCCCCCEEEeeccc-ccchhhhhHHHHhhhccCCCEEEeeCCCc-chhhH----
Confidence            456888888887 444332222100567888888888875 443211 1  1335688888888887763 33331    


Q ss_pred             cccCCccccccccCCcccEEeccCCCCccc--cc---ccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEec
Q 040040          249 DDINNTEVIDKIEFSQLRKLTLKSLPQLRS--FC---SVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHG  323 (869)
Q Consensus       249 ~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~--~~---~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~  323 (869)
                              ..+..+++|++|+++++.-...  ++   ....+++|++|++++|.++.+... .....+.+++|++|++++
T Consensus       163 --------~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~-~~~l~~~l~~L~~L~Ls~  233 (310)
T 4glp_A          163 --------EQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGV-CAALAAAGVQPHSLDLSH  233 (310)
T ss_dssp             --------TSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHH-HHHHHHHTCCCSSEECTT
T ss_pred             --------HHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHH-HHHHHhcCCCCCEEECCC
Confidence                    2344578888888888653221  11   124677888888888875432111 011134567888888887


Q ss_pred             CCCCccccChhhHhcc---CCccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCc
Q 040040          324 CNNLKFLFSTSLVRSF---VQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSL  400 (869)
Q Consensus       324 c~~l~~l~~~~~~~~L---~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L  400 (869)
                      + .++...|.. +..+   ++|++|+++++ .++.++..           .+++|+.|+++++. ++.++.  ...+++|
T Consensus       234 N-~l~~~~p~~-~~~~~~~~~L~~L~Ls~N-~l~~lp~~-----------~~~~L~~L~Ls~N~-l~~~~~--~~~l~~L  296 (310)
T 4glp_A          234 N-SLRATVNPS-APRCMWSSALNSLNLSFA-GLEQVPKG-----------LPAKLRVLDLSSNR-LNRAPQ--PDELPEV  296 (310)
T ss_dssp             S-CCCCCCCSC-CSSCCCCTTCCCEECCSS-CCCSCCSC-----------CCSCCSCEECCSCC-CCSCCC--TTSCCCC
T ss_pred             C-CCCccchhh-HHhccCcCcCCEEECCCC-CCCchhhh-----------hcCCCCEEECCCCc-CCCCch--hhhCCCc
Confidence            5 455543322 2333   68888888875 56655322           34788888888775 666644  3457888


Q ss_pred             cEEEEcc
Q 040040          401 KQLRMAK  407 (869)
Q Consensus       401 ~~L~l~~  407 (869)
                      +.|++.+
T Consensus       297 ~~L~L~~  303 (310)
T 4glp_A          297 DNLTLDG  303 (310)
T ss_dssp             SCEECSS
T ss_pred             cEEECcC
Confidence            8888866

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.08  E-value=2.6e-11  Score=132.69  Aligned_cols=38  Identities=8%  Similarity=0.031  Sum_probs=25.9

Q ss_pred             cccccEEEEeccCCccc----ccchhHHhhcCCccEEEEcccC
Q 040040          437 FCKLKLMEVIFCKSLWT----IFPHNMFARFLKLQSLIVGACG  475 (869)
Q Consensus       437 ~~~L~~L~l~~c~~l~~----~~~~~~~~~l~~L~~L~l~~c~  475 (869)
                      +++|++|++++|. +..    .+|.....++++|++|++++|.
T Consensus       273 ~~~L~~L~L~~n~-i~~~g~~~l~~~l~~~l~~L~~L~l~~N~  314 (386)
T 2ca6_A          273 NIGLQTLRLQYNE-IELDAVRTLKTVIDEKMPDLLFLELNGNR  314 (386)
T ss_dssp             SCCCCEEECCSSC-CBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             CCCeEEEECcCCc-CCHHHHHHHHHHHHhcCCCceEEEccCCc
Confidence            5778888887775 433    2455554667888888888854

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.06  E-value=8.6e-10  Score=107.76  Aligned_cols=127  Identities=9%  Similarity=0.125  Sum_probs=66.6

Q ss_pred             ccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCC
Q 040040          196 AESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQ  275 (869)
Q Consensus       196 ~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~  275 (869)
                      .+.+++|++|+++++ .++.++   .+..+++|++|++++| .+..++              .+..+++|++|+++++. 
T Consensus        40 ~~~l~~L~~L~l~~n-~i~~l~---~l~~l~~L~~L~l~~n-~~~~~~--------------~l~~l~~L~~L~l~~n~-   99 (197)
T 4ezg_A           40 EAQMNSLTYITLANI-NVTDLT---GIEYAHNIKDLTINNI-HATNYN--------------PISGLSNLERLRIMGKD-   99 (197)
T ss_dssp             HHHHHTCCEEEEESS-CCSCCT---TGGGCTTCSEEEEESC-CCSCCG--------------GGTTCTTCCEEEEECTT-
T ss_pred             hhhcCCccEEeccCC-CccChH---HHhcCCCCCEEEccCC-CCCcch--------------hhhcCCCCCEEEeECCc-
Confidence            347888899999887 466664   5778888888888887 333332              23345666666665533 


Q ss_pred             ccc--ccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEec
Q 040040          276 LRS--FCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRK  349 (869)
Q Consensus       276 l~~--~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~  349 (869)
                      +..  ...+..+++|++|++++|.+...    .+..++.+++|++|++++|..++.+ +  .+..+++|++|++++
T Consensus       100 l~~~~~~~l~~l~~L~~L~Ls~n~i~~~----~~~~l~~l~~L~~L~L~~n~~i~~~-~--~l~~l~~L~~L~l~~  168 (197)
T 4ezg_A          100 VTSDKIPNLSGLTSLTLLDISHSAHDDS----ILTKINTLPKVNSIDLSYNGAITDI-M--PLKTLPELKSLNIQF  168 (197)
T ss_dssp             CBGGGSCCCTTCTTCCEEECCSSBCBGG----GHHHHTTCSSCCEEECCSCTBCCCC-G--GGGGCSSCCEEECTT
T ss_pred             cCcccChhhcCCCCCCEEEecCCccCcH----hHHHHhhCCCCCEEEccCCCCcccc-H--hhcCCCCCCEEECCC
Confidence            222  22334445555555555543221    1111223444555555444333333 1  134444444444444

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.04  E-value=1.7e-09  Score=122.63  Aligned_cols=180  Identities=18%  Similarity=0.212  Sum_probs=107.9

Q ss_pred             cCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccc
Q 040040          119 GLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAES  198 (869)
Q Consensus       119 ~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~  198 (869)
                      +++.|+++++ .+..++..+    +++|++|++++| .++.+|        ..+++|++|+++++ +++.++.  +.   
T Consensus        60 ~L~~L~Ls~n-~L~~lp~~l----~~~L~~L~Ls~N-~l~~ip--------~~l~~L~~L~Ls~N-~l~~ip~--l~---  119 (571)
T 3cvr_A           60 QFSELQLNRL-NLSSLPDNL----PPQITVLEITQN-ALISLP--------ELPASLEYLDACDN-RLSTLPE--LP---  119 (571)
T ss_dssp             TCSEEECCSS-CCSCCCSCC----CTTCSEEECCSS-CCSCCC--------CCCTTCCEEECCSS-CCSCCCC--CC---
T ss_pred             CccEEEeCCC-CCCccCHhH----cCCCCEEECcCC-CCcccc--------cccCCCCEEEccCC-CCCCcch--hh---
Confidence            6778888764 344443322    467888888887 566555        24678888888877 5666554  11   


Q ss_pred             cCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccc
Q 040040          199 FLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRS  278 (869)
Q Consensus       199 l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~  278 (869)
                       .+|++|++++| +++.+|.     .+++|++|+++++. +..+|.                .+++|++|+++++. +..
T Consensus       120 -~~L~~L~Ls~N-~l~~lp~-----~l~~L~~L~Ls~N~-l~~lp~----------------~l~~L~~L~Ls~N~-L~~  174 (571)
T 3cvr_A          120 -ASLKHLDVDNN-QLTMLPE-----LPALLEYINADNNQ-LTMLPE----------------LPTSLEVLSVRNNQ-LTF  174 (571)
T ss_dssp             -TTCCEEECCSS-CCSCCCC-----CCTTCCEEECCSSC-CSCCCC----------------CCTTCCEEECCSSC-CSC
T ss_pred             -cCCCEEECCCC-cCCCCCC-----cCccccEEeCCCCc-cCcCCC----------------cCCCcCEEECCCCC-CCC
Confidence             27888888877 4666543     57788888887764 444551                25677777777753 555


Q ss_pred             ccccccCCCcCEEEeccccccccccCCCCC-cccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecc
Q 040040          279 FCSVVAFPNLETLKLSAINSETIWHNQLPA-MSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       279 ~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~-~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  350 (869)
                      +|.+ . ++|+.|+|++|.++.+..  ++. .....+.|+.|++++| .++.+ |.. +..+++|+.|+++++
T Consensus       175 lp~l-~-~~L~~L~Ls~N~L~~lp~--~~~~L~~~~~~L~~L~Ls~N-~l~~l-p~~-l~~l~~L~~L~L~~N  240 (571)
T 3cvr_A          175 LPEL-P-ESLEALDVSTNLLESLPA--VPVRNHHSEETEIFFRCREN-RITHI-PEN-ILSLDPTCTIILEDN  240 (571)
T ss_dssp             CCCC-C-TTCCEEECCSSCCSSCCC--CC--------CCEEEECCSS-CCCCC-CGG-GGGSCTTEEEECCSS
T ss_pred             cchh-h-CCCCEEECcCCCCCchhh--HHHhhhcccccceEEecCCC-cceec-CHH-HhcCCCCCEEEeeCC
Confidence            5552 2 677777777777554322  211 0001112277777664 45554 433 344777777777764

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.00  E-value=5.8e-10  Score=114.35  Aligned_cols=77  Identities=21%  Similarity=0.286  Sum_probs=41.7

Q ss_pred             CcccEEeccCCCCcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCc
Q 040040          263 SQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQL  342 (869)
Q Consensus       263 ~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L  342 (869)
                      ++|++|+++++ .+..++.+..+++|++|++++|.++.+     + .++.+++|+.|+++++ .++.+   ..+..+++|
T Consensus       106 ~~L~~L~L~~N-~l~~~~~l~~l~~L~~L~Ls~N~i~~~-----~-~l~~l~~L~~L~L~~N-~i~~~---~~l~~l~~L  174 (263)
T 1xeu_A          106 ACLSRLFLDNN-ELRDTDSLIHLKNLEILSIRNNKLKSI-----V-MLGFLSKLEVLDLHGN-EITNT---GGLTRLKKV  174 (263)
T ss_dssp             SSCCEEECCSS-CCSBSGGGTTCTTCCEEECTTSCCCBC-----G-GGGGCTTCCEEECTTS-CCCBC---TTSTTCCCC
T ss_pred             CcccEEEccCC-ccCCChhhcCcccccEEECCCCcCCCC-----h-HHccCCCCCEEECCCC-cCcch---HHhccCCCC
Confidence            44444444443 233344445556666666666654443     1 1344666677776664 34443   235667777


Q ss_pred             cEEEEecc
Q 040040          343 QHLEIRKC  350 (869)
Q Consensus       343 ~~L~l~~c  350 (869)
                      +.|+++++
T Consensus       175 ~~L~l~~N  182 (263)
T 1xeu_A          175 NWIDLTGQ  182 (263)
T ss_dssp             CEEEEEEE
T ss_pred             CEEeCCCC
Confidence            77777764

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=98.95  E-value=3.5e-09  Score=108.55  Aligned_cols=100  Identities=14%  Similarity=0.227  Sum_probs=47.2

Q ss_pred             CCcccEEeccCCCCcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCC
Q 040040          262 FSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQ  341 (869)
Q Consensus       262 l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~  341 (869)
                      +++|++|+++++ .++.++.... ++|++|++++|.++.+     + .+..+++|+.|+++++ .++.+ +  .+..+++
T Consensus        84 l~~L~~L~L~~N-~l~~l~~~~~-~~L~~L~L~~N~l~~~-----~-~l~~l~~L~~L~Ls~N-~i~~~-~--~l~~l~~  151 (263)
T 1xeu_A           84 LTKLEELSVNRN-RLKNLNGIPS-ACLSRLFLDNNELRDT-----D-SLIHLKNLEILSIRNN-KLKSI-V--MLGFLSK  151 (263)
T ss_dssp             CSSCCEEECCSS-CCSCCTTCCC-SSCCEEECCSSCCSBS-----G-GGTTCTTCCEEECTTS-CCCBC-G--GGGGCTT
T ss_pred             CCCCCEEECCCC-ccCCcCcccc-CcccEEEccCCccCCC-----h-hhcCcccccEEECCCC-cCCCC-h--HHccCCC
Confidence            444455554443 2333333333 5566666665554432     1 1233555666666553 34443 1  2455556


Q ss_pred             ccEEEEeccccccccccccccccccccccccCccceeecccCc
Q 040040          342 LQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLA  384 (869)
Q Consensus       342 L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~  384 (869)
                      |+.|+++++ .++.+ .         ....+++|+.|++++++
T Consensus       152 L~~L~L~~N-~i~~~-~---------~l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          152 LEVLDLHGN-EITNT-G---------GLTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             CCEEECTTS-CCCBC-T---------TSTTCCCCCEEEEEEEE
T ss_pred             CCEEECCCC-cCcch-H---------HhccCCCCCEEeCCCCc
Confidence            666666553 33333 0         13345556666655544

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.95  E-value=2e-10  Score=124.15  Aligned_cols=117  Identities=15%  Similarity=0.051  Sum_probs=51.7

Q ss_pred             CCcCEEEeccccccccccCCCCCcccccC-CceEEEEecCCCCccccChh---hHhcc-CCccEEEEecccccccccccc
Q 040040          286 PNLETLKLSAINSETIWHNQLPAMSSCIQ-NLTRLIVHGCNNLKFLFSTS---LVRSF-VQLQHLEIRKCMDLEGIVFPE  360 (869)
Q Consensus       286 ~~L~~L~L~~~~l~~i~~~~~~~~~~~l~-~L~~L~l~~c~~l~~l~~~~---~~~~L-~~L~~L~l~~c~~l~~i~~~~  360 (869)
                      ++|++|++++|.+.......++..+..++ +|++|++++| .++...+..   .+... ++|++|++++|. +...... 
T Consensus       138 ~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-i~~~~~~-  214 (362)
T 3goz_A          138 ASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGN-NLASKNCAELAKFLASIPASVTSLDLSANL-LGLKSYA-  214 (362)
T ss_dssp             TTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTS-CGGGSCHHHHHHHHHTSCTTCCEEECTTSC-GGGSCHH-
T ss_pred             CceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCC-CCchhhHHHHHHHHHhCCCCCCEEECCCCC-CChhHHH-
Confidence            35666666666544221112222222233 6666666665 343332211   12233 467777776652 3321000 


Q ss_pred             ccccccccccc-cCccceeecccCccccccCC----CcccCCCCccEEEEccCC
Q 040040          361 EMIEEERKDIV-FPQLNFLKMKDLAKLTRFCS----GNCIELPSLKQLRMAKCP  409 (869)
Q Consensus       361 ~~~~~~~~~~~-~~~L~~L~l~~~~~L~~l~~----~~~~~l~~L~~L~l~~c~  409 (869)
                         .-...... .++|++|+++++. +...+.    .....+++|+.|++.+|.
T Consensus       215 ---~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~l~~~~~~l~~L~~L~L~~n~  264 (362)
T 3goz_A          215 ---ELAYIFSSIPNHVVSLNLCLNC-LHGPSLENLKLLKDSLKHLQTVYLDYDI  264 (362)
T ss_dssp             ---HHHHHHHHSCTTCCEEECCSSC-CCCCCHHHHHHTTTTTTTCSEEEEEHHH
T ss_pred             ---HHHHHHhcCCCCceEEECcCCC-CCcHHHHHHHHHHhcCCCccEEEeccCC
Confidence               00000112 2467777777664 433322    112345667777776653

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=98.92  E-value=1.8e-09  Score=122.46  Aligned_cols=180  Identities=16%  Similarity=0.072  Sum_probs=113.0

Q ss_pred             cccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCccccccceeeEeeecceeccccceeeeecccceeeecccc
Q 040040          565 PSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQF  643 (869)
Q Consensus       565 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~  643 (869)
                      .+|+.|+++++. ++.++...    .++|+.|++++ ++..+| .            .+++|++|++++|.+.+++. ..
T Consensus        59 ~~L~~L~Ls~n~-L~~lp~~l----~~~L~~L~Ls~N~l~~ip-~------------~l~~L~~L~Ls~N~l~~ip~-l~  119 (571)
T 3cvr_A           59 NQFSELQLNRLN-LSSLPDNL----PPQITVLEITQNALISLP-E------------LPASLEYLDACDNRLSTLPE-LP  119 (571)
T ss_dssp             TTCSEEECCSSC-CSCCCSCC----CTTCSEEECCSSCCSCCC-C------------CCTTCCEEECCSSCCSCCCC-CC
T ss_pred             CCccEEEeCCCC-CCccCHhH----cCCCCEEECcCCCCcccc-c------------ccCCCCEEEccCCCCCCcch-hh
Confidence            489999999874 55666543    37899999999 888777 2            36899999999999988665 44


Q ss_pred             ccceEEEeecCCCccchHHHHHhccccceEEEEEEecccccccccEEEcCccccccccccCCCCCcccccCCccEEEEec
Q 040040          644 HKLKILHFISDGSDFFQVGLLQNIHNLEKLVLKVEEHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKE  723 (869)
Q Consensus       644 ~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~~~~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~  723 (869)
                      .+|+.|++++|....+|.    .+++|+.|++                 +++ .++ .++    .   .+++|+.|++++
T Consensus       120 ~~L~~L~Ls~N~l~~lp~----~l~~L~~L~L-----------------s~N-~l~-~lp----~---~l~~L~~L~Ls~  169 (571)
T 3cvr_A          120 ASLKHLDVDNNQLTMLPE----LPALLEYINA-----------------DNN-QLT-MLP----E---LPTSLEVLSVRN  169 (571)
T ss_dssp             TTCCEEECCSSCCSCCCC----CCTTCCEEEC-----------------CSS-CCS-CCC----C---CCTTCCEEECCS
T ss_pred             cCCCEEECCCCcCCCCCC----cCccccEEeC-----------------CCC-ccC-cCC----C---cCCCcCEEECCC
Confidence            489999996666666774    4555555554                 442 122 221    1   345555555555


Q ss_pred             ccchhhcccceeEecccchhccccCCCcceeecCC--eeeeCCCcceEeeccCCCccccCCCCcCCCcceEEEccCCC
Q 040040          724 CALSLISLRIEIVFSKLKWLFLESSGSITSFCSGN--YAISFPSLEVLIVENCPKLNTFSAGVLKTPRLRAVQNWKLD  799 (869)
Q Consensus       724 c~~~l~~l~~~~~~~~L~~L~l~~l~~l~~~~~~~--~~~~~~~L~~L~i~~c~~~~~~~~~~~~~~~L~~l~~s~~~  799 (869)
                      |.  +..+|. . .++|+.|++.++ +++.++.-.  .....+.|+.|++++| .++.+|.++...++|+.|++++|.
T Consensus       170 N~--L~~lp~-l-~~~L~~L~Ls~N-~L~~lp~~~~~L~~~~~~L~~L~Ls~N-~l~~lp~~l~~l~~L~~L~L~~N~  241 (571)
T 3cvr_A          170 NQ--LTFLPE-L-PESLEALDVSTN-LLESLPAVPVRNHHSEETEIFFRCREN-RITHIPENILSLDPTCTIILEDNP  241 (571)
T ss_dssp             SC--CSCCCC-C-CTTCCEEECCSS-CCSSCCCCC--------CCEEEECCSS-CCCCCCGGGGGSCTTEEEECCSSS
T ss_pred             CC--CCCcch-h-hCCCCEEECcCC-CCCchhhHHHhhhcccccceEEecCCC-cceecCHHHhcCCCCCEEEeeCCc
Confidence            54  555554 2 245555555443 233332200  0001123388888888 666788888888888888888443

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.90  E-value=8.4e-09  Score=101.70  Aligned_cols=132  Identities=14%  Similarity=0.147  Sum_probs=64.6

Q ss_pred             CCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeecccccccc
Q 040040          172 FPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDI  251 (869)
Q Consensus       172 ~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~  251 (869)
                      .++|++|+++++ +++.++...  .+.+++|++|+++++ +++.+++ ..+..+++|++|+++++. +..++.       
T Consensus        27 ~~~l~~L~l~~n-~l~~~~~~~--~~~l~~L~~L~l~~n-~l~~~~~-~~~~~l~~L~~L~Ls~n~-l~~~~~-------   93 (208)
T 2o6s_A           27 PAQTTYLDLETN-SLKSLPNGV--FDELTSLTQLYLGGN-KLQSLPN-GVFNKLTSLTYLNLSTNQ-LQSLPN-------   93 (208)
T ss_dssp             CTTCSEEECCSS-CCCCCCTTT--TTTCTTCSEEECCSS-CCCCCCT-TTTTTCTTCCEEECCSSC-CCCCCT-------
T ss_pred             CCCCcEEEcCCC-ccCcCChhh--hcccccCcEEECCCC-ccCccCh-hhcCCCCCcCEEECCCCc-CCccCH-------
Confidence            345666666655 444443322  234556666666555 3444433 234555555555555543 222220       


Q ss_pred             CCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCcccc
Q 040040          252 NNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLF  331 (869)
Q Consensus       252 ~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~  331 (869)
                           ..                       +..+++|++|++++|.+..+...    .+..+++|++|+++++ .++.+ 
T Consensus        94 -----~~-----------------------~~~l~~L~~L~L~~N~l~~~~~~----~~~~l~~L~~L~l~~N-~l~~~-  139 (208)
T 2o6s_A           94 -----GV-----------------------FDKLTQLKELALNTNQLQSLPDG----VFDKLTQLKDLRLYQN-QLKSV-  139 (208)
T ss_dssp             -----TT-----------------------TTTCTTCCEEECCSSCCCCCCTT----TTTTCTTCCEEECCSS-CCSCC-
T ss_pred             -----hH-----------------------hcCccCCCEEEcCCCcCcccCHh----HhccCCcCCEEECCCC-cccee-
Confidence                 00                       23345555555555554432221    1233566666666664 34443 


Q ss_pred             ChhhHhccCCccEEEEecc
Q 040040          332 STSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       332 ~~~~~~~L~~L~~L~l~~c  350 (869)
                      +...+..+++|++|+++++
T Consensus       140 ~~~~~~~l~~L~~L~l~~N  158 (208)
T 2o6s_A          140 PDGVFDRLTSLQYIWLHDN  158 (208)
T ss_dssp             CTTTTTTCTTCCEEECCSC
T ss_pred             CHHHhccCCCccEEEecCC
Confidence            3344556666777766664

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.88  E-value=1.3e-08  Score=101.03  Aligned_cols=59  Identities=12%  Similarity=0.277  Sum_probs=28.2

Q ss_pred             CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeec
Q 040040          173 PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTAC  236 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  236 (869)
                      +.+++|+++++ +++.++...  ...+++|++|+++++. ++.+.+ ..+.++++|++|+++++
T Consensus        32 ~~l~~L~l~~n-~i~~i~~~~--~~~l~~L~~L~Ls~N~-i~~~~~-~~~~~l~~L~~L~Ls~N   90 (220)
T 2v9t_B           32 ETITEIRLEQN-TIKVIPPGA--FSPYKKLRRIDLSNNQ-ISELAP-DAFQGLRSLNSLVLYGN   90 (220)
T ss_dssp             TTCCEEECCSS-CCCEECTTS--STTCTTCCEEECCSSC-CCEECT-TTTTTCSSCCEEECCSS
T ss_pred             cCCCEEECCCC-cCCCcCHhH--hhCCCCCCEEECCCCc-CCCcCH-HHhhCCcCCCEEECCCC
Confidence            45555555555 444444322  2245555555555552 444422 24455555555555543

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=98.88  E-value=1.3e-08  Score=101.12  Aligned_cols=78  Identities=17%  Similarity=0.183  Sum_probs=36.4

Q ss_pred             cEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCC
Q 040040          147 KLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLP  226 (869)
Q Consensus       147 ~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~  226 (869)
                      ++++++++ .++.+|..       ..+.+++|+++++ +++.++... ..+.+++|++|+++++. ++.+++ ..+++++
T Consensus        14 ~~l~~s~n-~l~~iP~~-------~~~~~~~L~L~~N-~l~~~~~~~-~~~~l~~L~~L~L~~N~-i~~i~~-~~~~~l~   81 (220)
T 2v70_A           14 TTVDCSNQ-KLNKIPEH-------IPQYTAELRLNNN-EFTVLEATG-IFKKLPQLRKINFSNNK-ITDIEE-GAFEGAS   81 (220)
T ss_dssp             TEEECCSS-CCSSCCSC-------CCTTCSEEECCSS-CCCEECCCC-CGGGCTTCCEEECCSSC-CCEECT-TTTTTCT
T ss_pred             CEeEeCCC-CcccCccC-------CCCCCCEEEcCCC-cCCccCchh-hhccCCCCCEEECCCCc-CCEECH-HHhCCCC
Confidence            35555554 44444432       1334555666555 444432110 02345555555555552 444433 2455555


Q ss_pred             CCcEEEEeec
Q 040040          227 QLQTIKVTAC  236 (869)
Q Consensus       227 ~L~~L~l~~c  236 (869)
                      +|++|+++++
T Consensus        82 ~L~~L~Ls~N   91 (220)
T 2v70_A           82 GVNEILLTSN   91 (220)
T ss_dssp             TCCEEECCSS
T ss_pred             CCCEEECCCC
Confidence            5555555553

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.87  E-value=5.2e-10  Score=120.94  Aligned_cols=64  Identities=19%  Similarity=-0.005  Sum_probs=28.5

Q ss_pred             CCcCEEEeccccccccccCCCCCcccc-cCCceEEEEecCCCCccccC---hhhHhccCCccEEEEecc
Q 040040          286 PNLETLKLSAINSETIWHNQLPAMSSC-IQNLTRLIVHGCNNLKFLFS---TSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       286 ~~L~~L~L~~~~l~~i~~~~~~~~~~~-l~~L~~L~l~~c~~l~~l~~---~~~~~~L~~L~~L~l~~c  350 (869)
                      ++|++|+|++|.+.......++..+.. .++|++|++++| .++...+   ...+..+++|++|++++|
T Consensus       196 ~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~~~~l~~L~~L~L~~n  263 (362)
T 3goz_A          196 ASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLN-CLHGPSLENLKLLKDSLKHLQTVYLDYD  263 (362)
T ss_dssp             TTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSS-CCCCCCHHHHHHTTTTTTTCSEEEEEHH
T ss_pred             CCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCC-CCCcHHHHHHHHHHhcCCCccEEEeccC
Confidence            366666666665443211112222222 235666666654 3333211   111244556666666654

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=98.86  E-value=1.1e-08  Score=110.30  Aligned_cols=84  Identities=18%  Similarity=0.212  Sum_probs=49.0

Q ss_pred             cEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCC
Q 040040          147 KLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLP  226 (869)
Q Consensus       147 ~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~  226 (869)
                      ++++++++ .++.+|..       ..+.++.|+++++ +++.++...+. ..+++|++|+++++ +++.+++ ..+.+++
T Consensus        21 ~~l~c~~~-~l~~iP~~-------~~~~l~~L~Ls~N-~l~~l~~~~~~-~~l~~L~~L~L~~N-~i~~i~~-~~~~~l~   88 (361)
T 2xot_A           21 NILSCSKQ-QLPNVPQS-------LPSYTALLDLSHN-NLSRLRAEWTP-TRLTNLHSLLLSHN-HLNFISS-EAFVPVP   88 (361)
T ss_dssp             TEEECCSS-CCSSCCSS-------CCTTCSEEECCSS-CCCEECTTSSS-SCCTTCCEEECCSS-CCCEECT-TTTTTCT
T ss_pred             CEEEeCCC-CcCccCcc-------CCCCCCEEECCCC-CCCccChhhhh-hcccccCEEECCCC-cCCccCh-hhccCCC
Confidence            45666655 56656542       2345777777776 56665544211 15677777777776 3666654 3566677


Q ss_pred             CCcEEEEeecCCceeee
Q 040040          227 QLQTIKVTACKNMKVIF  243 (869)
Q Consensus       227 ~L~~L~l~~c~~l~~l~  243 (869)
                      +|++|+++++. +..++
T Consensus        89 ~L~~L~Ls~N~-l~~~~  104 (361)
T 2xot_A           89 NLRYLDLSSNH-LHTLD  104 (361)
T ss_dssp             TCCEEECCSSC-CCEEC
T ss_pred             CCCEEECCCCc-CCcCC
Confidence            77777776643 44444

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.86  E-value=1.4e-08  Score=108.11  Aligned_cols=102  Identities=21%  Similarity=0.205  Sum_probs=57.2

Q ss_pred             CCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCcc-EEEEeccccccccccccccc
Q 040040          285 FPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQ-HLEIRKCMDLEGIVFPEEMI  363 (869)
Q Consensus       285 l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~-~L~l~~c~~l~~i~~~~~~~  363 (869)
                      +++|++++|+++.+..+....+..    +++|+.+++.+  +++.+ +...+.++++|+ .+.+.+  .++.+...    
T Consensus       225 ~~~L~~l~L~~n~i~~I~~~aF~~----~~~L~~l~l~~--ni~~I-~~~aF~~~~~L~~~l~l~~--~l~~I~~~----  291 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPDFTFAQ----KKYLLKIKLPH--NLKTI-GQRVFSNCGRLAGTLELPA--SVTAIEFG----  291 (329)
T ss_dssp             CTTCCEEECTTBCCCEECTTTTTT----CTTCCEEECCT--TCCEE-CTTTTTTCTTCCEEEEECT--TCCEECTT----
T ss_pred             cCCCeEEECCCCCcceecHhhhhC----CCCCCEEECCc--cccee-hHHHhhCChhccEEEEEcc--cceEEchh----
Confidence            566666666666666555554443    66666666655  25554 445566666666 666655  44444221    


Q ss_pred             cccccccccCccceeecccCccccccCCCcccCCCCccEEE
Q 040040          364 EEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLR  404 (869)
Q Consensus       364 ~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~  404 (869)
                          ....+++|+.+++.+. +++.++...+..+++|+.++
T Consensus       292 ----aF~~c~~L~~l~l~~n-~i~~I~~~aF~~~~~L~~ly  327 (329)
T 3sb4_A          292 ----AFMGCDNLRYVLATGD-KITTLGDELFGNGVPSKLIY  327 (329)
T ss_dssp             ----TTTTCTTEEEEEECSS-CCCEECTTTTCTTCCCCEEE
T ss_pred             ----hhhCCccCCEEEeCCC-ccCccchhhhcCCcchhhhc
Confidence                2334566666666543 25566555555555555543

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=98.83  E-value=1.9e-08  Score=108.51  Aligned_cols=84  Identities=23%  Similarity=0.188  Sum_probs=45.9

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCC-CCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRD-AFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~-~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      +.+++|+++++ .++.++...    +. .+++|++|+++++ +++.++...  ...+++|++|+++++. ++.+++ ..+
T Consensus        39 ~~l~~L~Ls~N-~l~~l~~~~----~~~~l~~L~~L~L~~N-~i~~i~~~~--~~~l~~L~~L~Ls~N~-l~~~~~-~~~  108 (361)
T 2xot_A           39 SYTALLDLSHN-NLSRLRAEW----TPTRLTNLHSLLLSHN-HLNFISSEA--FVPVPNLRYLDLSSNH-LHTLDE-FLF  108 (361)
T ss_dssp             TTCSEEECCSS-CCCEECTTS----SSSCCTTCCEEECCSS-CCCEECTTT--TTTCTTCCEEECCSSC-CCEECT-TTT
T ss_pred             CCCCEEECCCC-CCCccChhh----hhhcccccCEEECCCC-cCCccChhh--ccCCCCCCEEECCCCc-CCcCCH-HHh
Confidence            44666666665 455554332    12 5566666666665 455554332  2356666666666653 555543 345


Q ss_pred             cCCCCCcEEEEeecC
Q 040040          223 RGLPQLQTIKVTACK  237 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~  237 (869)
                      .++++|++|+++++.
T Consensus       109 ~~l~~L~~L~L~~N~  123 (361)
T 2xot_A          109 SDLQALEVLLLYNNH  123 (361)
T ss_dssp             TTCTTCCEEECCSSC
T ss_pred             CCCcCCCEEECCCCc
Confidence            566666666666543

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.81  E-value=5.2e-08  Score=96.76  Aligned_cols=90  Identities=19%  Similarity=0.260  Sum_probs=70.5

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      .++|++|+++++ .++.++...    +..+++|++|+++++ .++.+....  ...+++|++|+++++ .++.+++ ..+
T Consensus        31 ~~~l~~L~l~~n-~i~~i~~~~----~~~l~~L~~L~Ls~N-~i~~~~~~~--~~~l~~L~~L~Ls~N-~l~~l~~-~~f  100 (220)
T 2v9t_B           31 PETITEIRLEQN-TIKVIPPGA----FSPYKKLRRIDLSNN-QISELAPDA--FQGLRSLNSLVLYGN-KITELPK-SLF  100 (220)
T ss_dssp             CTTCCEEECCSS-CCCEECTTS----STTCTTCCEEECCSS-CCCEECTTT--TTTCSSCCEEECCSS-CCCCCCT-TTT
T ss_pred             CcCCCEEECCCC-cCCCcCHhH----hhCCCCCCEEECCCC-cCCCcCHHH--hhCCcCCCEEECCCC-cCCccCH-hHc
Confidence            378999999998 777776532    367899999999998 677664433  457999999999998 5888866 457


Q ss_pred             cCCCCCcEEEEeecCCceeee
Q 040040          223 RGLPQLQTIKVTACKNMKVIF  243 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~  243 (869)
                      .++++|++|+++++. +..++
T Consensus       101 ~~l~~L~~L~L~~N~-l~~~~  120 (220)
T 2v9t_B          101 EGLFSLQLLLLNANK-INCLR  120 (220)
T ss_dssp             TTCTTCCEEECCSSC-CCCCC
T ss_pred             cCCCCCCEEECCCCC-CCEeC
Confidence            889999999999865 44443

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.80  E-value=3.3e-08  Score=98.91  Aligned_cols=59  Identities=19%  Similarity=0.203  Sum_probs=26.9

Q ss_pred             cCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEec
Q 040040          284 AFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRK  349 (869)
Q Consensus       284 ~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~  349 (869)
                      .+++|++|++++|.+..     +|..+..+++|++|+++++ .++.+ +...+..+++|+.|++.+
T Consensus       110 ~l~~L~~L~Ls~N~l~~-----lp~~~~~l~~L~~L~L~~N-~l~~~-~~~~~~~l~~L~~L~l~~  168 (229)
T 3e6j_A          110 RLVHLKELFMCCNKLTE-----LPRGIERLTHLTHLALDQN-QLKSI-PHGAFDRLSSLTHAYLFG  168 (229)
T ss_dssp             TCTTCCEEECCSSCCCS-----CCTTGGGCTTCSEEECCSS-CCCCC-CTTTTTTCTTCCEEECTT
T ss_pred             cchhhCeEeccCCcccc-----cCcccccCCCCCEEECCCC-cCCcc-CHHHHhCCCCCCEEEeeC
Confidence            34455555555554332     2222334555555555552 34443 223344455555555554

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.79  E-value=4.3e-08  Score=98.06  Aligned_cols=58  Identities=19%  Similarity=0.254  Sum_probs=28.3

Q ss_pred             CCcccEEeccCCCCccccc-ccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecC
Q 040040          262 FSQLRKLTLKSLPQLRSFC-SVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGC  324 (869)
Q Consensus       262 l~~L~~L~l~~~~~l~~~~-~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c  324 (869)
                      +++|++|+++++ .+..+| .+..+++|++|++++|.+..+....    +..+++|+.|++.++
T Consensus       111 l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~~~----~~~l~~L~~L~l~~N  169 (229)
T 3e6j_A          111 LVHLKELFMCCN-KLTELPRGIERLTHLTHLALDQNQLKSIPHGA----FDRLSSLTHAYLFGN  169 (229)
T ss_dssp             CTTCCEEECCSS-CCCSCCTTGGGCTTCSEEECCSSCCCCCCTTT----TTTCTTCCEEECTTS
T ss_pred             chhhCeEeccCC-cccccCcccccCCCCCEEECCCCcCCccCHHH----HhCCCCCCEEEeeCC
Confidence            444444444442 233332 2334556666666666554432222    233667777777663

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.79  E-value=5.2e-08  Score=95.95  Aligned_cols=92  Identities=15%  Similarity=0.207  Sum_probs=71.3

Q ss_pred             CCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChh
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFS  220 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~  220 (869)
                      ...++|++|+++++ .++.++...    +..+++|++|+++++ +++.++...  ...+++|++|+++++ +++.+++ .
T Consensus        25 ~~~~~l~~L~l~~n-~l~~~~~~~----~~~l~~L~~L~l~~n-~l~~~~~~~--~~~l~~L~~L~Ls~n-~l~~~~~-~   94 (208)
T 2o6s_A           25 GIPAQTTYLDLETN-SLKSLPNGV----FDELTSLTQLYLGGN-KLQSLPNGV--FNKLTSLTYLNLSTN-QLQSLPN-G   94 (208)
T ss_dssp             CCCTTCSEEECCSS-CCCCCCTTT----TTTCTTCSEEECCSS-CCCCCCTTT--TTTCTTCCEEECCSS-CCCCCCT-T
T ss_pred             CCCCCCcEEEcCCC-ccCcCChhh----hcccccCcEEECCCC-ccCccChhh--cCCCCCcCEEECCCC-cCCccCH-h
Confidence            34579999999998 677666533    367899999999998 677766543  347899999999999 4877765 4


Q ss_pred             hhcCCCCCcEEEEeecCCceeee
Q 040040          221 ISRGLPQLQTIKVTACKNMKVIF  243 (869)
Q Consensus       221 ~~~~L~~L~~L~l~~c~~l~~l~  243 (869)
                      .++++++|++|+++++. +..++
T Consensus        95 ~~~~l~~L~~L~L~~N~-l~~~~  116 (208)
T 2o6s_A           95 VFDKLTQLKELALNTNQ-LQSLP  116 (208)
T ss_dssp             TTTTCTTCCEEECCSSC-CCCCC
T ss_pred             HhcCccCCCEEEcCCCc-CcccC
Confidence            57899999999999864 44444

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=98.79  E-value=5.3e-08  Score=96.72  Aligned_cols=148  Identities=18%  Similarity=0.163  Sum_probs=75.7

Q ss_pred             cEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCcc
Q 040040          176 ESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTE  255 (869)
Q Consensus       176 ~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~  255 (869)
                      +++++++. .++.+|..     -...+++|+++++ .++.+++...++.+++|++|+++++. +..++.           
T Consensus        14 ~~l~~s~n-~l~~iP~~-----~~~~~~~L~L~~N-~l~~~~~~~~~~~l~~L~~L~L~~N~-i~~i~~-----------   74 (220)
T 2v70_A           14 TTVDCSNQ-KLNKIPEH-----IPQYTAELRLNNN-EFTVLEATGIFKKLPQLRKINFSNNK-ITDIEE-----------   74 (220)
T ss_dssp             TEEECCSS-CCSSCCSC-----CCTTCSEEECCSS-CCCEECCCCCGGGCTTCCEEECCSSC-CCEECT-----------
T ss_pred             CEeEeCCC-CcccCccC-----CCCCCCEEEcCCC-cCCccCchhhhccCCCCCEEECCCCc-CCEECH-----------
Confidence            35555554 44444432     2334566666665 35555332345566666666666543 444431           


Q ss_pred             ccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccCh
Q 040040          256 VIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFST  333 (869)
Q Consensus       256 ~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~  333 (869)
                       ..+..+++|++|+++++. +..++.  +..+++|++|++++|.+..+....    +..+++|++|+++++ .++.+ ++
T Consensus        75 -~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~----~~~l~~L~~L~L~~N-~l~~~-~~  146 (220)
T 2v70_A           75 -GAFEGASGVNEILLTSNR-LENVQHKMFKGLESLKTLMLRSNRITCVGNDS----FIGLSSVRLLSLYDN-QITTV-AP  146 (220)
T ss_dssp             -TTTTTCTTCCEEECCSSC-CCCCCGGGGTTCSSCCEEECTTSCCCCBCTTS----STTCTTCSEEECTTS-CCCCB-CT
T ss_pred             -HHhCCCCCCCEEECCCCc-cCccCHhHhcCCcCCCEEECCCCcCCeECHhH----cCCCccCCEEECCCC-cCCEE-CH
Confidence             123445666666666532 333332  345566666666666654432222    223566666666653 44444 22


Q ss_pred             hhHhccCCccEEEEecc
Q 040040          334 SLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       334 ~~~~~L~~L~~L~l~~c  350 (869)
                      ..+..+++|+.|+++++
T Consensus       147 ~~~~~l~~L~~L~L~~N  163 (220)
T 2v70_A          147 GAFDTLHSLSTLNLLAN  163 (220)
T ss_dssp             TTTTTCTTCCEEECCSC
T ss_pred             HHhcCCCCCCEEEecCc
Confidence            34556666666666653

>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=98.78  E-value=2.3e-10  Score=130.55  Aligned_cols=204  Identities=18%  Similarity=0.158  Sum_probs=113.0

Q ss_pred             CCCCCccEeeccccccccccccccccccccCCCCEEEecCCCC------------CcccCChhhhcCCCCCcEEEEeecC
Q 040040          170 DAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEK------------LTHIFSFSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       170 ~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~------------l~~l~~~~~~~~L~~L~~L~l~~c~  237 (869)
                      ...+.|+.|+++++ .++.+|..   ++.+++|+.|+++++..            ....++ ..++.+++|+.|+...+.
T Consensus       346 ~~~~~L~~L~Ls~n-~L~~Lp~~---i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~-~~l~~l~~L~~L~~l~~n  420 (567)
T 1dce_A          346 ATDEQLFRCELSVE-KSTVLQSE---LESCKELQELEPENKWCLLTIILLMRALDPLLYEK-ETLQYFSTLKAVDPMRAA  420 (567)
T ss_dssp             STTTTSSSCCCCHH-HHHHHHHH---HHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHH-HHHHHHHHHHHHCGGGHH
T ss_pred             ccCccceeccCChh-hHHhhHHH---HHHHHHHHHhccccchhhhhHHHHHHhcccccCCH-HHHHHHHhcccCcchhhc
Confidence            35677778888876 56666655   66777888877755431            111111 245666666666622222


Q ss_pred             CceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccccCCCCCcccccCCce
Q 040040          238 NMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLT  317 (869)
Q Consensus       238 ~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~  317 (869)
                      .+..++.......    .... .....|+.|+++++ .++.+|.+..+++|+.|++++|.+..     +|..++.+++|+
T Consensus       421 ~~~~L~~l~l~~n----~i~~-l~~~~L~~L~Ls~n-~l~~lp~~~~l~~L~~L~Ls~N~l~~-----lp~~~~~l~~L~  489 (567)
T 1dce_A          421 YLDDLRSKFLLEN----SVLK-MEYADVRVLHLAHK-DLTVLCHLEQLLLVTHLDLSHNRLRA-----LPPALAALRCLE  489 (567)
T ss_dssp             HHHHHHHHHHHHH----HHHH-HHHTTCSEEECTTS-CCSSCCCGGGGTTCCEEECCSSCCCC-----CCGGGGGCTTCC
T ss_pred             ccchhhhhhhhcc----cccc-cCccCceEEEecCC-CCCCCcCccccccCcEeecCcccccc-----cchhhhcCCCCC
Confidence            1222211000000    0000 01235777777764 46666666677777777777776553     344456677777


Q ss_pred             EEEEecCCCCccccChhhHhccCCccEEEEeccccccccc-cccccccccccccccCccceeecccCccccccCCCc---
Q 040040          318 RLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIV-FPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGN---  393 (869)
Q Consensus       318 ~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~-~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~---  393 (869)
                      .|+++++ .++.+ |  .++.+++|+.|+++++ .++.+. ..        .+..+++|+.|++++++ ++.++...   
T Consensus       490 ~L~Ls~N-~l~~l-p--~l~~l~~L~~L~Ls~N-~l~~~~~p~--------~l~~l~~L~~L~L~~N~-l~~~~~~~~~l  555 (567)
T 1dce_A          490 VLQASDN-ALENV-D--GVANLPRLQELLLCNN-RLQQSAAIQ--------PLVSCPRLVLLNLQGNS-LCQEEGIQERL  555 (567)
T ss_dssp             EEECCSS-CCCCC-G--GGTTCSSCCEEECCSS-CCCSSSTTG--------GGGGCTTCCEEECTTSG-GGGSSSCTTHH
T ss_pred             EEECCCC-CCCCC-c--ccCCCCCCcEEECCCC-CCCCCCCcH--------HHhcCCCCCEEEecCCc-CCCCccHHHHH
Confidence            7777764 45554 3  3667777777777774 455542 11        24567777777777765 55554321   


Q ss_pred             ccCCCCccEE
Q 040040          394 CIELPSLKQL  403 (869)
Q Consensus       394 ~~~l~~L~~L  403 (869)
                      ...+|+|+.|
T Consensus       556 ~~~lp~L~~L  565 (567)
T 1dce_A          556 AEMLPSVSSI  565 (567)
T ss_dssp             HHHCTTCSEE
T ss_pred             HHHCcccCcc
Confidence            1224555554

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.76  E-value=2.1e-08  Score=94.99  Aligned_cols=81  Identities=21%  Similarity=0.262  Sum_probs=39.4

Q ss_pred             CCCccEEEEecCCCce--ecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChh
Q 040040          143 FPSLKLLHIQNNPYLL--CINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFS  220 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~--~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~  220 (869)
                      .++|++|++++| .+.  .++..+     ..+++|++|+++++ .++.+ .   ..+.+++|++|++++|. ++..++ .
T Consensus        23 ~~~L~~L~l~~n-~l~~~~i~~~~-----~~l~~L~~L~l~~n-~l~~~-~---~~~~l~~L~~L~Ls~N~-l~~~~~-~   89 (168)
T 2ell_A           23 PAAVRELVLDNC-KSNDGKIEGLT-----AEFVNLEFLSLINV-GLISV-S---NLPKLPKLKKLELSENR-IFGGLD-M   89 (168)
T ss_dssp             TTSCSEEECCSC-BCBTTBCSSCC-----GGGGGCCEEEEESS-CCCCC-S---SCCCCSSCCEEEEESCC-CCSCCC-H
T ss_pred             cccCCEEECCCC-CCChhhHHHHH-----HhCCCCCEEeCcCC-CCCCh-h---hhccCCCCCEEECcCCc-CchHHH-H
Confidence            355666666655 333  343322     34555555555555 34443 1   13345556666665553 444222 2


Q ss_pred             hhcCCCCCcEEEEeec
Q 040040          221 ISRGLPQLQTIKVTAC  236 (869)
Q Consensus       221 ~~~~L~~L~~L~l~~c  236 (869)
                      .++.+++|++|+++++
T Consensus        90 ~~~~l~~L~~L~Ls~N  105 (168)
T 2ell_A           90 LAEKLPNLTHLNLSGN  105 (168)
T ss_dssp             HHHHCTTCCEEECBSS
T ss_pred             HHhhCCCCCEEeccCC
Confidence            3444555555555554

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.73  E-value=2.5e-08  Score=94.51  Aligned_cols=135  Identities=21%  Similarity=0.213  Sum_probs=74.2

Q ss_pred             CCCCccEeecccccccc--ccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccc
Q 040040          171 AFPLLESLSLSNLMNLE--KISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGRE  248 (869)
Q Consensus       171 ~~~~L~~L~L~~~~~l~--~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~  248 (869)
                      ..++|++|+++++ .+.  .++..   ...+++|++|++++|. ++.+   ..++.+++|++|++++|.. ..       
T Consensus        22 ~~~~L~~L~l~~n-~l~~~~i~~~---~~~l~~L~~L~l~~n~-l~~~---~~~~~l~~L~~L~Ls~N~l-~~-------   85 (168)
T 2ell_A           22 TPAAVRELVLDNC-KSNDGKIEGL---TAEFVNLEFLSLINVG-LISV---SNLPKLPKLKKLELSENRI-FG-------   85 (168)
T ss_dssp             CTTSCSEEECCSC-BCBTTBCSSC---CGGGGGCCEEEEESSC-CCCC---SSCCCCSSCCEEEEESCCC-CS-------
T ss_pred             CcccCCEEECCCC-CCChhhHHHH---HHhCCCCCEEeCcCCC-CCCh---hhhccCCCCCEEECcCCcC-ch-------
Confidence            3456666666666 344  33322   3456666666666663 5544   2455666666666665542 22       


Q ss_pred             cccCCccccccccCCcccEEeccCCCCccccccc-ccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCC
Q 040040          249 DDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSV-VAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNL  327 (869)
Q Consensus       249 ~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~-~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l  327 (869)
                                                   .++.. ..+++|++|++++|.+..+..   +..+..+++|++|++++| .+
T Consensus        86 -----------------------------~~~~~~~~l~~L~~L~Ls~N~l~~~~~---~~~l~~l~~L~~L~l~~N-~l  132 (168)
T 2ell_A           86 -----------------------------GLDMLAEKLPNLTHLNLSGNKLKDIST---LEPLKKLECLKSLDLFNC-EV  132 (168)
T ss_dssp             -----------------------------CCCHHHHHCTTCCEEECBSSSCCSSGG---GGGGSSCSCCCEEECCSS-GG
T ss_pred             -----------------------------HHHHHHhhCCCCCEEeccCCccCcchh---HHHHhcCCCCCEEEeeCC-cC
Confidence                                         12221 125566666666665443211   022344777888888775 34


Q ss_pred             ccccCh---hhHhccCCccEEEEecccccccc
Q 040040          328 KFLFST---SLVRSFVQLQHLEIRKCMDLEGI  356 (869)
Q Consensus       328 ~~l~~~---~~~~~L~~L~~L~l~~c~~l~~i  356 (869)
                      +.+ +.   ..+..+++|++|++++|. ++++
T Consensus       133 ~~~-~~~~~~~~~~l~~L~~L~l~~n~-~~~~  162 (168)
T 2ell_A          133 TNL-NDYRESVFKLLPQLTYLDGYDRE-DQEA  162 (168)
T ss_dssp             GTS-TTHHHHHHTTCSSCCEETTEETT-SCBC
T ss_pred             cch-HHHHHHHHHhCccCcEecCCCCC-hhhc
Confidence            444 32   356788888888888863 4444

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.66  E-value=4e-08  Score=104.45  Aligned_cols=34  Identities=24%  Similarity=0.359  Sum_probs=21.7

Q ss_pred             cCCceEEEEecCCCCccccChhhHhccCCccEEEEec
Q 040040          313 IQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRK  349 (869)
Q Consensus       313 l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~  349 (869)
                      +++|+.|.+.+  .++.+ +...+.++++|+.+++.+
T Consensus       100 ~~~L~~l~L~~--~i~~I-~~~aF~~~~~L~~l~l~~  133 (329)
T 3sb4_A          100 KQTLEKVILSE--KIKNI-EDAAFKGCDNLKICQIRK  133 (329)
T ss_dssp             CTTCCC-CBCT--TCCEE-CTTTTTTCTTCCEEEBCC
T ss_pred             cCCCcEEECCc--cccch-hHHHhhcCcccceEEcCC
Confidence            66777777765  55555 445566777777777766

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.64  E-value=3e-08  Score=91.82  Aligned_cols=36  Identities=22%  Similarity=0.304  Sum_probs=18.7

Q ss_pred             ccCCceEEEEecCCCCccccC--hhhHhccCCccEEEEe
Q 040040          312 CIQNLTRLIVHGCNNLKFLFS--TSLVRSFVQLQHLEIR  348 (869)
Q Consensus       312 ~l~~L~~L~l~~c~~l~~l~~--~~~~~~L~~L~~L~l~  348 (869)
                      .+++|++|++++| .++.+.+  ...+..+++|+.|+++
T Consensus       111 ~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A          111 KLENLKSLDLFNC-EVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             GCTTCCEEECTTC-GGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             hCCCCCEEeCcCC-cccchHHHHHHHHHHCCCcccccCC
Confidence            3555666666554 3344311  1345666666666654

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.64  E-value=3.6e-08  Score=91.28  Aligned_cols=59  Identities=20%  Similarity=0.330  Sum_probs=25.5

Q ss_pred             CCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeec
Q 040040          171 AFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTAC  236 (869)
Q Consensus       171 ~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  236 (869)
                      .+++|++|+++++ .++.+ .   ..+.+++|++|++++|. ++...+ ..++.+++|++|+++++
T Consensus        40 ~l~~L~~L~l~~n-~l~~~-~---~~~~l~~L~~L~Ls~n~-i~~~~~-~~~~~l~~L~~L~ls~N   98 (149)
T 2je0_A           40 EFEELEFLSTINV-GLTSI-A---NLPKLNKLKKLELSDNR-VSGGLE-VLAEKCPNLTHLNLSGN   98 (149)
T ss_dssp             TCTTCCEEECTTS-CCCCC-T---TCCCCTTCCEEECCSSC-CCSCTH-HHHHHCTTCCEEECTTS
T ss_pred             hcCCCcEEECcCC-CCCCc-h---hhhcCCCCCEEECCCCc-ccchHH-HHhhhCCCCCEEECCCC
Confidence            4445555555544 33333 1   12344555555555542 333111 23334555555555544

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=98.63  E-value=5.2e-08  Score=93.00  Aligned_cols=84  Identities=15%  Similarity=0.248  Sum_probs=50.4

Q ss_pred             CCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChh
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFS  220 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~  220 (869)
                      ..+++|++|+++++ .++.++...     ...++|++|+++++ .++.+ . .  .+.+++|++|++++| .++.+++ .
T Consensus        16 ~~~~~L~~L~l~~n-~l~~i~~~~-----~~~~~L~~L~Ls~N-~l~~~-~-~--l~~l~~L~~L~Ls~N-~l~~~~~-~   82 (176)
T 1a9n_A           16 TNAVRDRELDLRGY-KIPVIENLG-----ATLDQFDAIDFSDN-EIRKL-D-G--FPLLRRLKTLLVNNN-RICRIGE-G   82 (176)
T ss_dssp             ECTTSCEEEECTTS-CCCSCCCGG-----GGTTCCSEEECCSS-CCCEE-C-C--CCCCSSCCEEECCSS-CCCEECS-C
T ss_pred             CCcCCceEEEeeCC-CCchhHHhh-----hcCCCCCEEECCCC-CCCcc-c-c--cccCCCCCEEECCCC-cccccCc-c
Confidence            34567777777776 555553211     22347777777776 55554 1 1  346777777777776 3666644 2


Q ss_pred             hhcCCCCCcEEEEeecC
Q 040040          221 ISRGLPQLQTIKVTACK  237 (869)
Q Consensus       221 ~~~~L~~L~~L~l~~c~  237 (869)
                      .++.+++|++|+++++.
T Consensus        83 ~~~~l~~L~~L~L~~N~   99 (176)
T 1a9n_A           83 LDQALPDLTELILTNNS   99 (176)
T ss_dssp             HHHHCTTCCEEECCSCC
T ss_pred             hhhcCCCCCEEECCCCc
Confidence            34667777777777654

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=98.61  E-value=3.3e-09  Score=120.96  Aligned_cols=97  Identities=13%  Similarity=0.040  Sum_probs=65.5

Q ss_pred             CCcchhHHHHhhhcCCChhhHHHHHHHhcCCCccchhhHHHHhhccceecccccCcccccchhe-----------ecccC
Q 040040            1 SPFLALTTITRALKNKSVPEWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKLKKIFL-----------LCSCH   69 (869)
Q Consensus         1 ~~PLAi~~ig~~L~~k~~~~W~~~l~~l~~~~~~~~~~~~~~i~~~L~lSY~~Lp~~~lK~CFl-----------ycs~F   69 (869)
                      |+||||+++|+.|+.++   |+.+ +.+.+ ..++..  .++|.++|++||++||+ ++|.||+           |||+|
T Consensus       328 GlPLAl~~~g~~l~~~~---w~~~-~~l~~-~l~~~~--~~~i~~~l~~Sy~~L~~-~lk~~f~~Ls~~er~l~~~ls~f  399 (549)
T 2a5y_B          328 GNPATLMMFFKSCEPKT---FEKM-AQLNN-KLESRG--LVGVECITPYSYKSLAM-ALQRCVEVLSDEDRSALAFAVVM  399 (549)
T ss_dssp             TCHHHHHHHHTTCCSSS---HHHH-HHHHH-HHHHHC--SSTTCCCSSSSSSSHHH-HHHHHHHTSCHHHHHHTTGGGSS
T ss_pred             CChHHHHHHHHHhccch---HHHH-HHhHH-Hhhccc--HHHHHHHHhcccccccH-HHHHHHhccchhhhhHhhheeee
Confidence            78999999999998873   5444 33332 111111  23588999999999985 8999999           99999


Q ss_pred             CCc-------cccc--hhhhccc------------------cccc-c------cCCCchhHHHHHHhhhc
Q 040040           70 DPT-------QTCH--DIRDSAC------------------PLKR-C------LDKPQEKTNDISLKLNA  105 (869)
Q Consensus        70 ped-------w~~~--g~~~~~~------------------~~~~-~------~~~~~~~~r~l~~~~~~  105 (869)
                      |++       |+|+  ||+....                  .+.+ .      ...+||.+|++|..++.
T Consensus       400 p~~~~i~i~~w~a~~~G~i~~~~~~~~~~~~~~~l~~L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~  469 (549)
T 2a5y_B          400 PPGVDIPVKLWSCVIPVDICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVD  469 (549)
T ss_dssp             CTTCCEEHHHHHHHSCC-------CCCTHHHHHHHHHTTTBSSCSEEECSSSCEEECCHHHHHHHHTTSC
T ss_pred             CCCCeeeeeeeeeeccceeccCCCCCCHHHHHHHHHHHHHcCCeeEecCCCceEEEeChHHHHHHHHHHH
Confidence            986       8999  7663211                  0000 0      12478999999987664

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=98.54  E-value=1.5e-07  Score=89.86  Aligned_cols=129  Identities=14%  Similarity=0.165  Sum_probs=66.2

Q ss_pred             CCcccEEeccCCCCcccccccccCC-CcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccC
Q 040040          262 FSQLRKLTLKSLPQLRSFCSVVAFP-NLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFV  340 (869)
Q Consensus       262 l~~L~~L~l~~~~~l~~~~~~~~l~-~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~  340 (869)
                      +++|++|+++++ .+..++....+. +|+.|++++|.++.+  ..    ++.+++|++|+++++ .++.+ +...+..++
T Consensus        18 ~~~L~~L~l~~n-~l~~i~~~~~~~~~L~~L~Ls~N~l~~~--~~----l~~l~~L~~L~Ls~N-~l~~~-~~~~~~~l~   88 (176)
T 1a9n_A           18 AVRDRELDLRGY-KIPVIENLGATLDQFDAIDFSDNEIRKL--DG----FPLLRRLKTLLVNNN-RICRI-GEGLDQALP   88 (176)
T ss_dssp             TTSCEEEECTTS-CCCSCCCGGGGTTCCSEEECCSSCCCEE--CC----CCCCSSCCEEECCSS-CCCEE-CSCHHHHCT
T ss_pred             cCCceEEEeeCC-CCchhHHhhhcCCCCCEEECCCCCCCcc--cc----cccCCCCCEEECCCC-ccccc-CcchhhcCC
Confidence            445555555554 233444333333 666666666665543  11    233666777777664 44554 334446666


Q ss_pred             CccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCC---cccCCCCccEEEEccC
Q 040040          341 QLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSG---NCIELPSLKQLRMAKC  408 (869)
Q Consensus       341 ~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~---~~~~l~~L~~L~l~~c  408 (869)
                      +|++|+++++ .+..++...       ....+++|+.|++++++ +..++..   ....+|+|+.|++.++
T Consensus        89 ~L~~L~L~~N-~i~~~~~~~-------~l~~l~~L~~L~l~~N~-i~~~~~~~~~~~~~l~~L~~Ld~~~n  150 (176)
T 1a9n_A           89 DLTELILTNN-SLVELGDLD-------PLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDFQKV  150 (176)
T ss_dssp             TCCEEECCSC-CCCCGGGGG-------GGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETTEEC
T ss_pred             CCCEEECCCC-cCCcchhhH-------hhhcCCCCCEEEecCCC-CCCcHhHHHHHHHHCCccceeCCCcC
Confidence            7777777664 344433210       13456666677766665 4444332   1233555555555443

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.47  E-value=8.1e-07  Score=85.96  Aligned_cols=77  Identities=10%  Similarity=0.140  Sum_probs=42.4

Q ss_pred             cEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCC
Q 040040          147 KLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLP  226 (869)
Q Consensus       147 ~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~  226 (869)
                      ++++++++ .++.+|..       .++.|++|+++++ .++.++..   ...+++|++|+++++ .++.+++ ..+.+++
T Consensus        13 ~~l~~~~~-~l~~ip~~-------~~~~l~~L~L~~n-~i~~ip~~---~~~l~~L~~L~Ls~N-~i~~i~~-~~f~~l~   78 (193)
T 2wfh_A           13 TVVRCSNK-GLKVLPKG-------IPRDVTELYLDGN-QFTLVPKE---LSNYKHLTLIDLSNN-RISTLSN-QSFSNMT   78 (193)
T ss_dssp             TEEECTTS-CCSSCCSC-------CCTTCCEEECCSS-CCCSCCGG---GGGCTTCCEEECCSS-CCCCCCT-TTTTTCT
T ss_pred             CEEEcCCC-CCCcCCCC-------CCCCCCEEECCCC-cCchhHHH---hhcccCCCEEECCCC-cCCEeCH-hHccCCC
Confidence            34555444 45555432       2356666666665 45555422   345666666666666 3555543 3456666


Q ss_pred             CCcEEEEeecC
Q 040040          227 QLQTIKVTACK  237 (869)
Q Consensus       227 ~L~~L~l~~c~  237 (869)
                      +|++|+++++.
T Consensus        79 ~L~~L~Ls~N~   89 (193)
T 2wfh_A           79 QLLTLILSYNR   89 (193)
T ss_dssp             TCCEEECCSSC
T ss_pred             CCCEEECCCCc
Confidence            66666666643

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=98.41  E-value=1.3e-06  Score=84.49  Aligned_cols=78  Identities=18%  Similarity=0.138  Sum_probs=38.4

Q ss_pred             cEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCC
Q 040040          147 KLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLP  226 (869)
Q Consensus       147 ~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~  226 (869)
                      ++++++++ +++.+|...       ++.+++|+++++ +++.++... ..+.+++|++|+++++ .++.+++ ..+++++
T Consensus        11 ~~l~~s~~-~l~~ip~~~-------~~~l~~L~l~~n-~i~~~~~~~-~~~~l~~L~~L~Ls~N-~l~~~~~-~~~~~l~   78 (192)
T 1w8a_A           11 TTVDCTGR-GLKEIPRDI-------PLHTTELLLNDN-ELGRISSDG-LFGRLPHLVKLELKRN-QLTGIEP-NAFEGAS   78 (192)
T ss_dssp             TEEECTTS-CCSSCCSCC-------CTTCSEEECCSC-CCCSBCCSC-SGGGCTTCCEEECCSS-CCCCBCT-TTTTTCT
T ss_pred             CEEEcCCC-CcCcCccCC-------CCCCCEEECCCC-cCCccCCcc-ccccCCCCCEEECCCC-CCCCcCH-hHcCCcc
Confidence            45555554 455554322       235666666655 444443211 0234556666666555 2444433 2455555


Q ss_pred             CCcEEEEeec
Q 040040          227 QLQTIKVTAC  236 (869)
Q Consensus       227 ~L~~L~l~~c  236 (869)
                      +|++|+++++
T Consensus        79 ~L~~L~Ls~N   88 (192)
T 1w8a_A           79 HIQELQLGEN   88 (192)
T ss_dssp             TCCEEECCSC
T ss_pred             cCCEEECCCC
Confidence            5555555554

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.40  E-value=2.9e-05  Score=84.26  Aligned_cols=212  Identities=11%  Similarity=0.120  Sum_probs=119.9

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      +..++.+.+.+  .++.|+...    +.. .+|+.+.+.+  +++.+....+.  . .+|+.+.+.+  .++.+.. ..+
T Consensus       112 ~~~l~~i~ip~--~i~~I~~~a----F~~-~~L~~i~l~~--~i~~I~~~aF~--~-~~L~~i~lp~--~l~~I~~-~aF  176 (401)
T 4fdw_A          112 LKGYNEIILPN--SVKSIPKDA----FRN-SQIAKVVLNE--GLKSIGDMAFF--N-STVQEIVFPS--TLEQLKE-DIF  176 (401)
T ss_dssp             CSSCSEEECCT--TCCEECTTT----TTT-CCCSEEECCT--TCCEECTTTTT--T-CCCCEEECCT--TCCEECS-STT
T ss_pred             cCCccEEEECC--ccCEehHhh----ccc-CCccEEEeCC--CccEECHHhcC--C-CCceEEEeCC--CccEehH-HHh
Confidence            35666666654  456665443    223 2577777764  36666555443  2 3577777765  4666644 467


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEeccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINSET  300 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l~~  300 (869)
                      .++++|+.+++.+. .+..++..             .....+|+.+.+..  +++.+..  ...+++|+.+++..+ ++.
T Consensus       177 ~~c~~L~~l~l~~n-~l~~I~~~-------------aF~~~~L~~l~lp~--~l~~I~~~aF~~~~~L~~l~l~~~-l~~  239 (401)
T 4fdw_A          177 YYCYNLKKADLSKT-KITKLPAS-------------TFVYAGIEEVLLPV--TLKEIGSQAFLKTSQLKTIEIPEN-VST  239 (401)
T ss_dssp             TTCTTCCEEECTTS-CCSEECTT-------------TTTTCCCSEEECCT--TCCEECTTTTTTCTTCCCEECCTT-CCE
T ss_pred             hCcccCCeeecCCC-cceEechh-------------hEeecccCEEEeCC--chheehhhHhhCCCCCCEEecCCC-ccC
Confidence            77888888888653 35556522             12245667776643  2443332  345567777777653 444


Q ss_pred             cccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecccccc-----ccccccccccccccccccCcc
Q 040040          301 IWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLE-----GIVFPEEMIEEERKDIVFPQL  375 (869)
Q Consensus       301 i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~-----~i~~~~~~~~~~~~~~~~~~L  375 (869)
                      +....+..     .+|+.+.+.+  .++.+ +...+.++++|+.+.+.+.. +.     .+...        ....+++|
T Consensus       240 I~~~aF~~-----~~L~~i~lp~--~i~~I-~~~aF~~c~~L~~l~l~~~~-~~~~~~~~I~~~--------aF~~c~~L  302 (401)
T 4fdw_A          240 IGQEAFRE-----SGITTVKLPN--GVTNI-ASRAFYYCPELAEVTTYGST-FNDDPEAMIHPY--------CLEGCPKL  302 (401)
T ss_dssp             ECTTTTTT-----CCCSEEEEET--TCCEE-CTTTTTTCTTCCEEEEESSC-CCCCTTCEECTT--------TTTTCTTC
T ss_pred             cccccccc-----CCccEEEeCC--CccEE-ChhHhhCCCCCCEEEeCCcc-ccCCcccEECHH--------HhhCCccC
Confidence            44443332     4778887743  45655 44567778888888876631 11     11111        23355666


Q ss_pred             ceeecccCccccccCCCcccCCCCccEEEE
Q 040040          376 NFLKMKDLAKLTRFCSGNCIELPSLKQLRM  405 (869)
Q Consensus       376 ~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l  405 (869)
                      +.+.+.+  +++.+....+..+++|+.+.+
T Consensus       303 ~~l~l~~--~i~~I~~~aF~~c~~L~~l~l  330 (401)
T 4fdw_A          303 ARFEIPE--SIRILGQGLLGGNRKVTQLTI  330 (401)
T ss_dssp             CEECCCT--TCCEECTTTTTTCCSCCEEEE
T ss_pred             CeEEeCC--ceEEEhhhhhcCCCCccEEEE
Confidence            7666663  366666665555566666665

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.39  E-value=1.9e-06  Score=83.38  Aligned_cols=58  Identities=12%  Similarity=0.118  Sum_probs=40.1

Q ss_pred             cEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeee
Q 040040          176 ESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIF  243 (869)
Q Consensus       176 ~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~  243 (869)
                      +++++++. .++.+|.+     -.++|++|+++++ .++.+|  ..+.++++|++|+++++. +..++
T Consensus        13 ~~l~~~~~-~l~~ip~~-----~~~~l~~L~L~~n-~i~~ip--~~~~~l~~L~~L~Ls~N~-i~~i~   70 (193)
T 2wfh_A           13 TVVRCSNK-GLKVLPKG-----IPRDVTELYLDGN-QFTLVP--KELSNYKHLTLIDLSNNR-ISTLS   70 (193)
T ss_dssp             TEEECTTS-CCSSCCSC-----CCTTCCEEECCSS-CCCSCC--GGGGGCTTCCEEECCSSC-CCCCC
T ss_pred             CEEEcCCC-CCCcCCCC-----CCCCCCEEECCCC-cCchhH--HHhhcccCCCEEECCCCc-CCEeC
Confidence            56677765 56666643     2468888888888 477765  377888888888888754 44443

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.38  E-value=2.1e-06  Score=81.75  Aligned_cols=59  Identities=12%  Similarity=0.197  Sum_probs=29.3

Q ss_pred             CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeec
Q 040040          173 PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTAC  236 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  236 (869)
                      ++|++|+++++ .++.++...  .+.+++|++|+++++ .++.+++ ..++.+++|++|+++++
T Consensus        28 ~~l~~L~l~~n-~l~~~~~~~--~~~l~~L~~L~l~~n-~l~~~~~-~~~~~l~~L~~L~l~~N   86 (177)
T 2o6r_A           28 SSATRLELESN-KLQSLPHGV--FDKLTQLTKLSLSQN-QIQSLPD-GVFDKLTKLTILYLHEN   86 (177)
T ss_dssp             TTCSEEECCSS-CCCCCCTTT--TTTCTTCSEEECCSS-CCCCCCT-TTTTTCTTCCEEECCSS
T ss_pred             CCCcEEEeCCC-cccEeCHHH--hcCcccccEEECCCC-cceEeCh-hHccCCCccCEEECCCC
Confidence            45555555554 344433321  134555666666555 3554433 23455555555555554

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=98.38  E-value=1.5e-06  Score=84.01  Aligned_cols=107  Identities=19%  Similarity=0.219  Sum_probs=77.8

Q ss_pred             ceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccC
Q 040040          121 EELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFL  200 (869)
Q Consensus       121 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~  200 (869)
                      +.+++++ .+++.++..+    ..+|++|+++++ .++.++...   .+..+++|++|+++++ .++.+....  .+.++
T Consensus        11 ~~l~~s~-~~l~~ip~~~----~~~l~~L~l~~n-~i~~~~~~~---~~~~l~~L~~L~Ls~N-~l~~~~~~~--~~~l~   78 (192)
T 1w8a_A           11 TTVDCTG-RGLKEIPRDI----PLHTTELLLNDN-ELGRISSDG---LFGRLPHLVKLELKRN-QLTGIEPNA--FEGAS   78 (192)
T ss_dssp             TEEECTT-SCCSSCCSCC----CTTCSEEECCSC-CCCSBCCSC---SGGGCTTCCEEECCSS-CCCCBCTTT--TTTCT
T ss_pred             CEEEcCC-CCcCcCccCC----CCCCCEEECCCC-cCCccCCcc---ccccCCCCCEEECCCC-CCCCcCHhH--cCCcc
Confidence            4566665 3445554433    359999999998 677666431   1367899999999998 677764333  45799


Q ss_pred             CCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceee
Q 040040          201 RLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVI  242 (869)
Q Consensus       201 ~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l  242 (869)
                      +|++|+++++ +++.+++ ..++++++|++|+++++. +..+
T Consensus        79 ~L~~L~Ls~N-~l~~~~~-~~~~~l~~L~~L~L~~N~-l~~~  117 (192)
T 1w8a_A           79 HIQELQLGEN-KIKEISN-KMFLGLHQLKTLNLYDNQ-ISCV  117 (192)
T ss_dssp             TCCEEECCSC-CCCEECS-SSSTTCTTCCEEECCSSC-CCEE
T ss_pred             cCCEEECCCC-cCCccCH-HHhcCCCCCCEEECCCCc-CCee
Confidence            9999999999 4888765 457889999999999865 4433

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.35  E-value=2.1e-05  Score=85.34  Aligned_cols=238  Identities=13%  Similarity=0.137  Sum_probs=148.6

Q ss_pred             ccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccccc
Q 040040          118 KGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAE  197 (869)
Q Consensus       118 ~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~  197 (869)
                      ..++...+-.  .++.+....+ .++ +|+.+.+.+  +++.|+...    +.. .+|+.+.+.+  +++.+....+  .
T Consensus       113 ~~l~~i~ip~--~i~~I~~~aF-~~~-~L~~i~l~~--~i~~I~~~a----F~~-~~L~~i~lp~--~l~~I~~~aF--~  177 (401)
T 4fdw_A          113 KGYNEIILPN--SVKSIPKDAF-RNS-QIAKVVLNE--GLKSIGDMA----FFN-STVQEIVFPS--TLEQLKEDIF--Y  177 (401)
T ss_dssp             SSCSEEECCT--TCCEECTTTT-TTC-CCSEEECCT--TCCEECTTT----TTT-CCCCEEECCT--TCCEECSSTT--T
T ss_pred             CCccEEEECC--ccCEehHhhc-ccC-CccEEEeCC--CccEECHHh----cCC-CCceEEEeCC--CccEehHHHh--h
Confidence            3444444432  3444443332 334 688888865  477777654    223 3688888875  5666665543  3


Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcc
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLR  277 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~  277 (869)
                      .+.+|+.+++.++ +++.++. ..+. ..+|+.+.+..  .++.+...            ....+++|+.+.+.+  +++
T Consensus       178 ~c~~L~~l~l~~n-~l~~I~~-~aF~-~~~L~~l~lp~--~l~~I~~~------------aF~~~~~L~~l~l~~--~l~  238 (401)
T 4fdw_A          178 YCYNLKKADLSKT-KITKLPA-STFV-YAGIEEVLLPV--TLKEIGSQ------------AFLKTSQLKTIEIPE--NVS  238 (401)
T ss_dssp             TCTTCCEEECTTS-CCSEECT-TTTT-TCCCSEEECCT--TCCEECTT------------TTTTCTTCCCEECCT--TCC
T ss_pred             CcccCCeeecCCC-cceEech-hhEe-ecccCEEEeCC--chheehhh------------HhhCCCCCCEEecCC--Ccc
Confidence            6888999999876 4777765 3444 57888888863  36666532            234467788888864  344


Q ss_pred             ccccc-ccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCC----CccccChhhHhccCCccEEEEecccc
Q 040040          278 SFCSV-VAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNN----LKFLFSTSLVRSFVQLQHLEIRKCMD  352 (869)
Q Consensus       278 ~~~~~-~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~----l~~l~~~~~~~~L~~L~~L~l~~c~~  352 (869)
                      .+... ..-.+|+.+.+. +.+..+....+..    +++|+.+.+.+...    ...+ +...+.++++|+.+.+.+  +
T Consensus       239 ~I~~~aF~~~~L~~i~lp-~~i~~I~~~aF~~----c~~L~~l~l~~~~~~~~~~~~I-~~~aF~~c~~L~~l~l~~--~  310 (401)
T 4fdw_A          239 TIGQEAFRESGITTVKLP-NGVTNIASRAFYY----CPELAEVTTYGSTFNDDPEAMI-HPYCLEGCPKLARFEIPE--S  310 (401)
T ss_dssp             EECTTTTTTCCCSEEEEE-TTCCEECTTTTTT----CTTCCEEEEESSCCCCCTTCEE-CTTTTTTCTTCCEECCCT--T
T ss_pred             CccccccccCCccEEEeC-CCccEEChhHhhC----CCCCCEEEeCCccccCCcccEE-CHHHhhCCccCCeEEeCC--c
Confidence            43321 112678888884 3355555554543    88899998876321    1233 456678888999888874  4


Q ss_pred             ccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccC
Q 040040          353 LEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKC  408 (869)
Q Consensus       353 l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c  408 (869)
                      ++.+...        ....+++|+.+.+.+  +++.+....+..+ +|+.+.+.+.
T Consensus       311 i~~I~~~--------aF~~c~~L~~l~lp~--~l~~I~~~aF~~~-~L~~l~l~~n  355 (401)
T 4fdw_A          311 IRILGQG--------LLGGNRKVTQLTIPA--NVTQINFSAFNNT-GIKEVKVEGT  355 (401)
T ss_dssp             CCEECTT--------TTTTCCSCCEEEECT--TCCEECTTSSSSS-CCCEEEECCS
T ss_pred             eEEEhhh--------hhcCCCCccEEEECc--cccEEcHHhCCCC-CCCEEEEcCC
Confidence            5555322        244567888888854  4777877777777 8888888663

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.34  E-value=1.3e-07  Score=111.48  Aligned_cols=109  Identities=18%  Similarity=0.146  Sum_probs=83.3

Q ss_pred             CCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeecccccc
Q 040040          170 DAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGRED  249 (869)
Q Consensus       170 ~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~  249 (869)
                      ..++.|++|+|+++ .+..++..   ...+++|++|+|++| .++.+|.  .+++|++|++|+++++. +..+|      
T Consensus       221 ~~l~~L~~L~Ls~n-~l~~l~~~---~~~l~~L~~L~Ls~N-~l~~lp~--~~~~l~~L~~L~Ls~N~-l~~lp------  286 (727)
T 4b8c_D          221 YDDQLWHALDLSNL-QIFNISAN---IFKYDFLTRLYLNGN-SLTELPA--EIKNLSNLRVLDLSHNR-LTSLP------  286 (727)
T ss_dssp             -CCCCCCEEECTTS-CCSCCCGG---GGGCCSCSCCBCTTS-CCSCCCG--GGGGGTTCCEEECTTSC-CSSCC------
T ss_pred             ccCCCCcEEECCCC-CCCCCChh---hcCCCCCCEEEeeCC-cCcccCh--hhhCCCCCCEEeCcCCc-CCccC------
Confidence            56788999999888 56666655   457889999999888 4777754  67889999999998876 55676      


Q ss_pred             ccCCccccccccCCcccEEeccCCCCcccccc-cccCCCcCEEEeccccccc
Q 040040          250 DINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS-VVAFPNLETLKLSAINSET  300 (869)
Q Consensus       250 ~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~-~~~l~~L~~L~L~~~~l~~  300 (869)
                             ..+..+++|++|+++++ .+..+|. +..+++|++|+|++|.+..
T Consensus       287 -------~~~~~l~~L~~L~L~~N-~l~~lp~~~~~l~~L~~L~L~~N~l~~  330 (727)
T 4b8c_D          287 -------AELGSCFQLKYFYFFDN-MVTTLPWEFGNLCNLQFLGVEGNPLEK  330 (727)
T ss_dssp             -------SSGGGGTTCSEEECCSS-CCCCCCSSTTSCTTCCCEECTTSCCCS
T ss_pred             -------hhhcCCCCCCEEECCCC-CCCccChhhhcCCCccEEeCCCCccCC
Confidence                   45667888999999886 4566664 6678899999999988553

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.33  E-value=3.2e-06  Score=80.52  Aligned_cols=60  Identities=13%  Similarity=0.158  Sum_probs=38.3

Q ss_pred             ccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeee
Q 040040          175 LESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIF  243 (869)
Q Consensus       175 L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~  243 (869)
                      .+.+++++. +++.++..     ..++|++|+++++. ++.+++ ..++.+++|++|+++++. +..++
T Consensus         9 ~~~l~~~~~-~l~~~p~~-----~~~~l~~L~l~~n~-l~~~~~-~~~~~l~~L~~L~l~~n~-l~~~~   68 (177)
T 2o6r_A            9 GTEIRCNSK-GLTSVPTG-----IPSSATRLELESNK-LQSLPH-GVFDKLTQLTKLSLSQNQ-IQSLP   68 (177)
T ss_dssp             TTEEECCSS-CCSSCCTT-----CCTTCSEEECCSSC-CCCCCT-TTTTTCTTCSEEECCSSC-CCCCC
T ss_pred             CCEEEecCC-CCccCCCC-----CCCCCcEEEeCCCc-ccEeCH-HHhcCcccccEEECCCCc-ceEeC
Confidence            355666655 45555533     34688888888874 666654 356778888888887754 44444

>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=98.29  E-value=1.9e-06  Score=98.18  Aligned_cols=204  Identities=15%  Similarity=0.115  Sum_probs=121.7

Q ss_pred             CCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccc----------cccccccccCCCCEEE-ecC
Q 040040          141 EGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKIS----------CSQLRAESFLRLRNLK-VES  209 (869)
Q Consensus       141 ~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~----------~~~~~~~~l~~L~~L~-L~~  209 (869)
                      ..+++|+.|+++++ .++.+|...     +.+++|+.|+++++..+..++          ..+..++.+++|+.|+ ++.
T Consensus       346 ~~~~~L~~L~Ls~n-~L~~Lp~~i-----~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~  419 (567)
T 1dce_A          346 ATDEQLFRCELSVE-KSTVLQSEL-----ESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRA  419 (567)
T ss_dssp             STTTTSSSCCCCHH-HHHHHHHHH-----HHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGH
T ss_pred             ccCccceeccCChh-hHHhhHHHH-----HHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhh
Confidence            34677888888887 677777654     567888888886642111100          0011134567777776 332


Q ss_pred             CCCCcccCCh----hhhcC--CCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccc-cc
Q 040040          210 CEKLTHIFSF----SISRG--LPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFC-SV  282 (869)
Q Consensus       210 c~~l~~l~~~----~~~~~--L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~-~~  282 (869)
                      . .+..++..    ..+..  ...|++|+++++. +..+|              .+..+++|+.|+++++ .++.+| .+
T Consensus       420 n-~~~~L~~l~l~~n~i~~l~~~~L~~L~Ls~n~-l~~lp--------------~~~~l~~L~~L~Ls~N-~l~~lp~~~  482 (567)
T 1dce_A          420 A-YLDDLRSKFLLENSVLKMEYADVRVLHLAHKD-LTVLC--------------HLEQLLLVTHLDLSHN-RLRALPPAL  482 (567)
T ss_dssp             H-HHHHHHHHHHHHHHHHHHHHTTCSEEECTTSC-CSSCC--------------CGGGGTTCCEEECCSS-CCCCCCGGG
T ss_pred             c-ccchhhhhhhhcccccccCccCceEEEecCCC-CCCCc--------------CccccccCcEeecCcc-cccccchhh
Confidence            2 22222110    00111  1257888888763 55555              2456778888888775 355554 35


Q ss_pred             ccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecccccccccccccc
Q 040040          283 VAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEM  362 (869)
Q Consensus       283 ~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~  362 (869)
                      ..+++|+.|+|++|.++.+     | .++.+++|+.|+++++ .++.+..+..++.+++|+.|+++++ .++.++.....
T Consensus       483 ~~l~~L~~L~Ls~N~l~~l-----p-~l~~l~~L~~L~Ls~N-~l~~~~~p~~l~~l~~L~~L~L~~N-~l~~~~~~~~~  554 (567)
T 1dce_A          483 AALRCLEVLQASDNALENV-----D-GVANLPRLQELLLCNN-RLQQSAAIQPLVSCPRLVLLNLQGN-SLCQEEGIQER  554 (567)
T ss_dssp             GGCTTCCEEECCSSCCCCC-----G-GGTTCSSCCEEECCSS-CCCSSSTTGGGGGCTTCCEEECTTS-GGGGSSSCTTH
T ss_pred             hcCCCCCEEECCCCCCCCC-----c-ccCCCCCCcEEECCCC-CCCCCCCcHHHhcCCCCCEEEecCC-cCCCCccHHHH
Confidence            6778888888888876653     3 3556888888888875 5666531344778888999998885 46554432111


Q ss_pred             ccccccccccCccceeec
Q 040040          363 IEEERKDIVFPQLNFLKM  380 (869)
Q Consensus       363 ~~~~~~~~~~~~L~~L~l  380 (869)
                           -...+|+|+.|++
T Consensus       555 -----l~~~lp~L~~L~l  567 (567)
T 1dce_A          555 -----LAEMLPSVSSILT  567 (567)
T ss_dssp             -----HHHHCTTCSEEEC
T ss_pred             -----HHHHCcccCccCC
Confidence                 1234788888753

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.26  E-value=4.8e-08  Score=95.33  Aligned_cols=36  Identities=11%  Similarity=0.239  Sum_probs=19.5

Q ss_pred             cccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeec
Q 040040          197 ESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTAC  236 (869)
Q Consensus       197 ~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  236 (869)
                      +.+++|++|++++| .++.+|   .++++++|++|++++|
T Consensus        45 ~~l~~L~~L~ls~n-~l~~l~---~~~~l~~L~~L~l~~n   80 (198)
T 1ds9_A           45 STLKACKHLALSTN-NIEKIS---SLSGMENLRILSLGRN   80 (198)
T ss_dssp             HHTTTCSEEECSEE-EESCCC---CHHHHTTCCEEEEEEE
T ss_pred             hcCCCCCEEECCCC-CCcccc---ccccCCCCCEEECCCC
Confidence            34556666666555 244442   4455556666666554

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.24  E-value=1.2e-06  Score=103.15  Aligned_cols=113  Identities=19%  Similarity=0.084  Sum_probs=86.3

Q ss_pred             ccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCC
Q 040040          196 AESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQ  275 (869)
Q Consensus       196 ~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~  275 (869)
                      ...+++|+.|+|+++. +..++.  .+.++++|++|+++++. +..+|             ..+..+++|++|+|+++. 
T Consensus       220 ~~~l~~L~~L~Ls~n~-l~~l~~--~~~~l~~L~~L~Ls~N~-l~~lp-------------~~~~~l~~L~~L~Ls~N~-  281 (727)
T 4b8c_D          220 KYDDQLWHALDLSNLQ-IFNISA--NIFKYDFLTRLYLNGNS-LTELP-------------AEIKNLSNLRVLDLSHNR-  281 (727)
T ss_dssp             --CCCCCCEEECTTSC-CSCCCG--GGGGCCSCSCCBCTTSC-CSCCC-------------GGGGGGTTCCEEECTTSC-
T ss_pred             hccCCCCcEEECCCCC-CCCCCh--hhcCCCCCCEEEeeCCc-CcccC-------------hhhhCCCCCCEEeCcCCc-
Confidence            4478999999999985 777765  56789999999999875 55777             456779999999998865 


Q ss_pred             cccccc-cccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccC
Q 040040          276 LRSFCS-VVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFS  332 (869)
Q Consensus       276 l~~~~~-~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~  332 (869)
                      +..+|. +..+++|++|+|++|.+..     +|..++.+++|+.|+++++ .+....|
T Consensus       282 l~~lp~~~~~l~~L~~L~L~~N~l~~-----lp~~~~~l~~L~~L~L~~N-~l~~~~p  333 (727)
T 4b8c_D          282 LTSLPAELGSCFQLKYFYFFDNMVTT-----LPWEFGNLCNLQFLGVEGN-PLEKQFL  333 (727)
T ss_dssp             CSSCCSSGGGGTTCSEEECCSSCCCC-----CCSSTTSCTTCCCEECTTS-CCCSHHH
T ss_pred             CCccChhhcCCCCCCEEECCCCCCCc-----cChhhhcCCCccEEeCCCC-ccCCCCh
Confidence            556654 6778999999999998654     4444667999999999986 4554433

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.10  E-value=7e-08  Score=94.15  Aligned_cols=127  Identities=20%  Similarity=0.213  Sum_probs=76.9

Q ss_pred             CCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeecccccc
Q 040040          170 DAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGRED  249 (869)
Q Consensus       170 ~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~  249 (869)
                      ..+++|++|+++++ .++.++ .   .+.+++|++|++++| .++.+|.  .+..+++|++|+++++. +..++      
T Consensus        45 ~~l~~L~~L~ls~n-~l~~l~-~---~~~l~~L~~L~l~~n-~l~~l~~--~~~~~~~L~~L~L~~N~-l~~l~------  109 (198)
T 1ds9_A           45 STLKACKHLALSTN-NIEKIS-S---LSGMENLRILSLGRN-LIKKIEN--LDAVADTLEELWISYNQ-IASLS------  109 (198)
T ss_dssp             HHTTTCSEEECSEE-EESCCC-C---HHHHTTCCEEEEEEE-EECSCSS--HHHHHHHCSEEEEEEEE-CCCHH------
T ss_pred             hcCCCCCEEECCCC-CCcccc-c---cccCCCCCEEECCCC-Ccccccc--hhhcCCcCCEEECcCCc-CCcCC------
Confidence            35667777777766 455554 1   446777777777777 3666654  45566777777777764 44443      


Q ss_pred             ccCCccccccccCCcccEEeccCCCCccccc---ccccCCCcCEEEeccccccccccC------CCCCcccccCCceEEE
Q 040040          250 DINNTEVIDKIEFSQLRKLTLKSLPQLRSFC---SVVAFPNLETLKLSAINSETIWHN------QLPAMSSCIQNLTRLI  320 (869)
Q Consensus       250 ~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~---~~~~l~~L~~L~L~~~~l~~i~~~------~~~~~~~~l~~L~~L~  320 (869)
                              .+..+++|++|+++++. +..++   .+..+++|++|++++|.+......      .....+..+++|+.|+
T Consensus       110 --------~~~~l~~L~~L~l~~N~-i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld  180 (198)
T 1ds9_A          110 --------GIEKLVNLRVLYMSNNK-ITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             --------HHHHHHHSSEEEESEEE-CCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCSEEC
T ss_pred             --------ccccCCCCCEEECCCCc-CCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhCCCcEEEC
Confidence                    23446777777777643 33332   356678888888888874332110      0011245578888886

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.02  E-value=1.7e-05  Score=75.06  Aligned_cols=77  Identities=23%  Similarity=0.235  Sum_probs=37.8

Q ss_pred             cEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCC
Q 040040          147 KLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLP  226 (869)
Q Consensus       147 ~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~  226 (869)
                      +.++++++ .++.+|...       .++|++|+++++ .++.++...  .+.+++|++|+++++ +++.+|+ ..+.+++
T Consensus        15 ~~l~~~~n-~l~~iP~~~-------~~~L~~L~Ls~N-~l~~~~~~~--~~~l~~L~~L~Ls~N-~l~~i~~-~~~~~l~   81 (174)
T 2r9u_A           15 TLVNCQNI-RLASVPAGI-------PTDKQRLWLNNN-QITKLEPGV--FDHLVNLQQLYFNSN-KLTAIPT-GVFDKLT   81 (174)
T ss_dssp             SEEECCSS-CCSSCCSCC-------CTTCSEEECCSS-CCCCCCTTT--TTTCTTCCEEECCSS-CCCCCCT-TTTTTCT
T ss_pred             cEEEeCCC-CCCccCCCc-------CCCCcEEEeCCC-CccccCHHH--hcCCcCCCEEECCCC-CCCccCh-hHhCCcc
Confidence            44555554 444444322       255566666555 444443222  234555666666555 3555543 2345555


Q ss_pred             CCcEEEEeec
Q 040040          227 QLQTIKVTAC  236 (869)
Q Consensus       227 ~L~~L~l~~c  236 (869)
                      +|++|+++++
T Consensus        82 ~L~~L~L~~N   91 (174)
T 2r9u_A           82 QLTQLDLNDN   91 (174)
T ss_dssp             TCCEEECCSS
T ss_pred             hhhEEECCCC
Confidence            5555555543

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=98.01  E-value=6.3e-07  Score=104.64  Aligned_cols=57  Identities=21%  Similarity=0.338  Sum_probs=49.2

Q ss_pred             CCcchhHHHHhhhcCC--ChhhHHHHHHHhcCCCccchhhHHHHhhccceecccccCcccc-cchheecccCCCc
Q 040040            1 SPFLALTTITRALKNK--SVPEWENVLQELQRPSMKNFQGVLKEACSTIELHYKYLKGEKL-KKIFLLCSCHDPT   72 (869)
Q Consensus         1 ~~PLAi~~ig~~L~~k--~~~~W~~~l~~l~~~~~~~~~~~~~~i~~~L~lSY~~Lp~~~l-K~CFlycs~Fped   72 (869)
                      |+||||+++|+.|+++  +.++|+.+          .    ...|..+|++||+.||+ +. |+||+|||+||++
T Consensus       325 GLPLALkLaGs~Lr~k~~s~eeW~~~----------~----~~~I~aaLelSYd~Lp~-eelK~cFL~LAIFPed  384 (1221)
T 1vt4_I          325 TNPRRLSIIAESIRDGLATWDNWKHV----------N----CDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPS  384 (1221)
T ss_dssp             CCHHHHHHHHHHHHHSCSSHHHHHHC----------S----CHHHHHHHHHHHHHSCT-THHHHHHHHTTSSCTT
T ss_pred             CCHHHHHHHHHHHhCCCCCHHHHhcC----------C----hhHHHHHHHHHHHhCCH-HHHHHHHHHHhCCCCC
Confidence            7899999999999998  67899863          0    13588999999999986 67 9999999999985

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.00  E-value=0.00021  Score=77.66  Aligned_cols=80  Identities=18%  Similarity=0.112  Sum_probs=51.3

Q ss_pred             cccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeeccccccccccccc
Q 040040          437 FCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNK  516 (869)
Q Consensus       437 ~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~  516 (869)
                      ..+|+.+.+.+.  ++. +....+.++++|+.+.+.+  .++.|.+       ..+ ..+++|+.+.+..  +++.+   
T Consensus       296 ~~~L~~i~l~~~--i~~-I~~~aF~~c~~L~~i~lp~--~v~~I~~-------~aF-~~c~~L~~i~lp~--~l~~I---  357 (394)
T 4fs7_A          296 CSSLTEVKLLDS--VKF-IGEEAFESCTSLVSIDLPY--LVEEIGK-------RSF-RGCTSLSNINFPL--SLRKI---  357 (394)
T ss_dssp             CTTCCEEEECTT--CCE-ECTTTTTTCTTCCEECCCT--TCCEECT-------TTT-TTCTTCCEECCCT--TCCEE---
T ss_pred             cccccccccccc--cce-echhhhcCCCCCCEEEeCC--cccEEhH-------Hhc-cCCCCCCEEEECc--cccEe---
Confidence            467777777532  332 4566777888888888853  3555522       111 3567788888754  36666   


Q ss_pred             CCCCcccCCCccEEEEec
Q 040040          517 DPRGKLIFPNLVLVRIFE  534 (869)
Q Consensus       517 ~p~~~~~l~~L~~L~l~~  534 (869)
                      ....+.++++|+++++..
T Consensus       358 ~~~aF~~C~~L~~i~lp~  375 (394)
T 4fs7_A          358 GANAFQGCINLKKVELPK  375 (394)
T ss_dssp             CTTTBTTCTTCCEEEEEG
T ss_pred             hHHHhhCCCCCCEEEECC
Confidence            346788888888888864

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.98  E-value=4.6e-05  Score=82.95  Aligned_cols=51  Identities=18%  Similarity=0.167  Sum_probs=22.8

Q ss_pred             cccceeeeecccceeeeccc---cccceEEEeecCCCccchHHHHHhccccceEEE
Q 040040          623 PNLEELTLSKYIFTTWRQAQ---FHKLKILHFISDGSDFFQVGLLQNIHNLEKLVL  675 (869)
Q Consensus       623 ~~L~~L~l~~~~~~~~~~~~---~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l  675 (869)
                      .+|+.+++..+ +..+....   +.+|+.+++..+ ...++...+.+|++|+++++
T Consensus       320 ~~L~~i~lp~~-v~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~l  373 (394)
T 4fs7_A          320 TSLVSIDLPYL-VEEIGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINLKKVEL  373 (394)
T ss_dssp             TTCCEECCCTT-CCEECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTCCEEEE
T ss_pred             CCCCEEEeCCc-ccEEhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCCCEEEE
Confidence            45555555422 33333333   344555554222 23333444555555555554

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.98  E-value=4.6e-06  Score=77.60  Aligned_cols=37  Identities=5%  Similarity=0.190  Sum_probs=15.5

Q ss_pred             CceEEEEecCCCCccccChhhHhccCCccEEEEeccccc
Q 040040          315 NLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDL  353 (869)
Q Consensus       315 ~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l  353 (869)
                      +|+.|++++|. +++. ....+..+++|++|++++|..+
T Consensus        62 ~L~~LDLs~~~-Itd~-GL~~L~~~~~L~~L~L~~C~~I   98 (176)
T 3e4g_A           62 KIQAIDATDSC-IMSI-GFDHMEGLQYVEKIRLCKCHYI   98 (176)
T ss_dssp             CEEEEEEESCC-CCGG-GGGGGTTCSCCCEEEEESCTTC
T ss_pred             eEeEEeCcCCC-ccHH-HHHHhcCCCCCCEEEeCCCCcc
Confidence            34444444443 3332 1122334445555555554444

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=97.96  E-value=1.6e-06  Score=110.13  Aligned_cols=70  Identities=16%  Similarity=0.234  Sum_probs=56.8

Q ss_pred             CCcchhHHHHhhhcCCChhhHHHHHHHhcCCCccchh----hHHHHhhccceecccccCcccccchheecccCCCc
Q 040040            1 SPFLALTTITRALKNKSVPEWENVLQELQRPSMKNFQ----GVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPT   72 (869)
Q Consensus         1 ~~PLAi~~ig~~L~~k~~~~W~~~l~~l~~~~~~~~~----~~~~~i~~~L~lSY~~Lp~~~lK~CFlycs~Fped   72 (869)
                      |+||||+++|+.|+.+. .+|+..++.+.......+.    ...+.+..+|++||+.||+ ++|.||+|||+||++
T Consensus       319 glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~-~~~~~~~~l~~f~~~  392 (1249)
T 3sfz_A          319 GSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKD  392 (1249)
T ss_dssp             TCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCT-TTHHHHHHGGGSCTT
T ss_pred             CCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhhhhhcccccccchHHHHHHHHHHHHhCCH-HHHHHHHHhCccCCC
Confidence            68999999999999886 5899999998764322221    1124588999999999986 799999999999986

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=97.96  E-value=2.9e-05  Score=73.13  Aligned_cols=65  Identities=18%  Similarity=0.246  Sum_probs=31.6

Q ss_pred             CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeee
Q 040040          173 PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIF  243 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~  243 (869)
                      +.|++|+++++ .++.++...  .+.+++|++|+++++ +++.+++ ..+.++++|++|+++++. ++.++
T Consensus        30 ~~l~~L~L~~N-~i~~~~~~~--~~~l~~L~~L~Ls~N-~l~~l~~-~~f~~l~~L~~L~L~~N~-l~~~~   94 (170)
T 3g39_A           30 TTTQVLYLYDN-QITKLEPGV--FDRLTQLTRLDLDNN-QLTVLPA-GVFDKLTQLTQLSLNDNQ-LKSIP   94 (170)
T ss_dssp             TTCSEEECCSS-CCCCCCTTT--TTTCTTCSEEECCSS-CCCCCCT-TTTTTCTTCCEEECCSSC-CCCCC
T ss_pred             CCCcEEEcCCC-cCCccChhh--hcCcccCCEEECCCC-CcCccCh-hhccCCCCCCEEECCCCc-cCEeC
Confidence            45555555555 444443222  234555555555555 3555443 234555555555555532 34443

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.95  E-value=6e-06  Score=76.87  Aligned_cols=90  Identities=11%  Similarity=0.165  Sum_probs=53.8

Q ss_pred             CCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhcc----CCccEEEEeccccccccccccc
Q 040040          286 PNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSF----VQLQHLEIRKCMDLEGIVFPEE  361 (869)
Q Consensus       286 ~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L----~~L~~L~l~~c~~l~~i~~~~~  361 (869)
                      ..|++|++++|.+..   ..+.. +..+++|++|++++|..+++- ....+..+    ++|++|+|++|.++++--..  
T Consensus        61 ~~L~~LDLs~~~Itd---~GL~~-L~~~~~L~~L~L~~C~~ItD~-gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~--  133 (176)
T 3e4g_A           61 YKIQAIDATDSCIMS---IGFDH-MEGLQYVEKIRLCKCHYIEDG-CLERLSQLENLQKSMLEMEIISCGNVTDKGII--  133 (176)
T ss_dssp             CCEEEEEEESCCCCG---GGGGG-GTTCSCCCEEEEESCTTCCHH-HHHHHHTCHHHHHHCCEEEEESCTTCCHHHHH--
T ss_pred             ceEeEEeCcCCCccH---HHHHH-hcCCCCCCEEEeCCCCccCHH-HHHHHHhcccccCCCCEEEcCCCCcCCHHHHH--
Confidence            357778887776432   22332 245888999999999888764 22223332    36888888888877652111  


Q ss_pred             cccccccccccCccceeecccCccccc
Q 040040          362 MIEEERKDIVFPQLNFLKMKDLAKLTR  388 (869)
Q Consensus       362 ~~~~~~~~~~~~~L~~L~l~~~~~L~~  388 (869)
                            .+..+++|++|++++|+.++.
T Consensus       134 ------~L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          134 ------ALHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             ------HGGGCTTCCEEEEESCTTCCC
T ss_pred             ------HHhcCCCCCEEECCCCCCCCc
Confidence                  123455566666555554443

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=97.94  E-value=3.4e-05  Score=72.93  Aligned_cols=102  Identities=16%  Similarity=0.133  Sum_probs=76.9

Q ss_pred             ceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccC
Q 040040          121 EELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFL  200 (869)
Q Consensus       121 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~  200 (869)
                      +.+++++ ..+..++..+    .++|++|+++++ .++.++...    +..+++|++|+++++ +++.++...  .+.++
T Consensus        15 ~~l~~~~-n~l~~iP~~~----~~~L~~L~Ls~N-~l~~~~~~~----~~~l~~L~~L~Ls~N-~l~~i~~~~--~~~l~   81 (174)
T 2r9u_A           15 TLVNCQN-IRLASVPAGI----PTDKQRLWLNNN-QITKLEPGV----FDHLVNLQQLYFNSN-KLTAIPTGV--FDKLT   81 (174)
T ss_dssp             SEEECCS-SCCSSCCSCC----CTTCSEEECCSS-CCCCCCTTT----TTTCTTCCEEECCSS-CCCCCCTTT--TTTCT
T ss_pred             cEEEeCC-CCCCccCCCc----CCCCcEEEeCCC-CccccCHHH----hcCCcCCCEEECCCC-CCCccChhH--hCCcc
Confidence            3455555 3444454433    489999999998 677664332    368999999999998 788877653  24789


Q ss_pred             CCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecC
Q 040040          201 RLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       201 ~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  237 (869)
                      +|++|+++++ +++.+++ ..+..+++|++|+++++.
T Consensus        82 ~L~~L~L~~N-~l~~l~~-~~~~~l~~L~~L~L~~N~  116 (174)
T 2r9u_A           82 QLTQLDLNDN-HLKSIPR-GAFDNLKSLTHIYLYNNP  116 (174)
T ss_dssp             TCCEEECCSS-CCCCCCT-TTTTTCTTCSEEECCSSC
T ss_pred             hhhEEECCCC-ccceeCH-HHhccccCCCEEEeCCCC
Confidence            9999999998 5888866 458899999999999864

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=97.93  E-value=3e-05  Score=73.04  Aligned_cols=102  Identities=17%  Similarity=0.127  Sum_probs=69.4

Q ss_pred             CccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCC
Q 040040          174 LLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINN  253 (869)
Q Consensus       174 ~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~  253 (869)
                      ..++++++++ .++.+|..     -.++|++|+++++ +++.+++ ..++++++|++|+++++. +..++..        
T Consensus        10 ~~~~l~~s~n-~l~~ip~~-----~~~~l~~L~L~~N-~i~~~~~-~~~~~l~~L~~L~Ls~N~-l~~l~~~--------   72 (170)
T 3g39_A           10 SGTTVDCSGK-SLASVPTG-----IPTTTQVLYLYDN-QITKLEP-GVFDRLTQLTRLDLDNNQ-LTVLPAG--------   72 (170)
T ss_dssp             ETTEEECTTS-CCSSCCSC-----CCTTCSEEECCSS-CCCCCCT-TTTTTCTTCSEEECCSSC-CCCCCTT--------
T ss_pred             CCCEEEeCCC-CcCccCcc-----CCCCCcEEEcCCC-cCCccCh-hhhcCcccCCEEECCCCC-cCccChh--------
Confidence            3466777766 56666643     2477888888887 4777654 467788888888888754 5566521        


Q ss_pred             ccccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEecccc
Q 040040          254 TEVIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAIN  297 (869)
Q Consensus       254 ~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~  297 (869)
                          .+..+++|++|++++. .++.++.  +..+++|++|+|++|.
T Consensus        73 ----~f~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~  113 (170)
T 3g39_A           73 ----VFDKLTQLTQLSLNDN-QLKSIPRGAFDNLKSLTHIWLLNNP  113 (170)
T ss_dssp             ----TTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             ----hccCCCCCCEEECCCC-ccCEeCHHHhcCCCCCCEEEeCCCC
Confidence                1245778888888774 4656554  4567888888888886

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.65  E-value=5.6e-06  Score=88.93  Aligned_cols=11  Identities=27%  Similarity=0.380  Sum_probs=5.3

Q ss_pred             CccceeecccC
Q 040040          373 PQLNFLKMKDL  383 (869)
Q Consensus       373 ~~L~~L~l~~~  383 (869)
                      ++|++|+++++
T Consensus       239 ~~L~~L~Ls~N  249 (372)
T 3un9_A          239 PSLELLHLYFN  249 (372)
T ss_dssp             SSCCEEECTTS
T ss_pred             CCCCEEeccCC
Confidence            44444554444

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.60  E-value=3.1e-05  Score=82.39  Aligned_cols=65  Identities=15%  Similarity=0.196  Sum_probs=31.1

Q ss_pred             cCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccC---hhhHhccCCccEEEEecc
Q 040040          284 AFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFS---TSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       284 ~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~---~~~~~~L~~L~~L~l~~c  350 (869)
                      .+|+|++|++.+|.+.......+.. ...+++|++|+++. +.+.+...   ...+..+++|+.|++++|
T Consensus       250 ~~p~Lr~L~L~~~~i~~~~~~~la~-a~~~~~L~~LdLs~-n~L~d~G~~~L~~~L~~l~~L~~L~L~~n  317 (362)
T 2ra8_A          250 RFPNLKWLGIVDAEEQNVVVEMFLE-SDILPQLETMDISA-GVLTDEGARLLLDHVDKIKHLKFINMKYN  317 (362)
T ss_dssp             TCTTCCEEEEESCTTHHHHHHHHHH-CSSGGGCSEEECCS-SCCBHHHHHHHHTTHHHHTTCSEEECCSB
T ss_pred             CCCCcCEEeCCCCCCchHHHHHHHh-CccCCCCCEEECCC-CCCChHHHHHHHhhcccCCcceEEECCCC
Confidence            3566666666665532110000000 01256777777754 34444211   011245677777777765

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.53  E-value=0.00012  Score=77.85  Aligned_cols=143  Identities=21%  Similarity=0.189  Sum_probs=74.5

Q ss_pred             CCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh--cCCCCCcEEEEeecCCceeeeccccc
Q 040040          171 AFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS--RGLPQLQTIKVTACKNMKVIFEVGRE  248 (869)
Q Consensus       171 ~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~--~~L~~L~~L~l~~c~~l~~l~~~~~~  248 (869)
                      .+|+|+.|.+.++..+ .++  .  + ..++|++|++..|. +..- ....+  ..+++|++|+++.+..... ......
T Consensus       170 ~~P~L~~L~L~g~~~l-~l~--~--~-~~~~L~~L~L~~~~-l~~~-~l~~l~~~~lp~L~~L~L~~~~~~~~-~~~~~~  240 (362)
T 2ra8_A          170 AMPLLNNLKIKGTNNL-SIG--K--K-PRPNLKSLEIISGG-LPDS-VVEDILGSDLPNLEKLVLYVGVEDYG-FDGDMN  240 (362)
T ss_dssp             TCTTCCEEEEECCBTC-BCC--S--C-BCTTCSEEEEECSB-CCHH-HHHHHHHSBCTTCCEEEEECBCGGGT-CCSCGG
T ss_pred             cCCCCcEEEEeCCCCc-eec--c--c-cCCCCcEEEEecCC-CChH-HHHHHHHccCCCCcEEEEeccccccc-cchhHH
Confidence            4567777777665222 111  1  1 36778888887664 3221 01122  3678888888753211100 000000


Q ss_pred             cccCCccccccccCCcccEEeccCCCCccc----ccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecC
Q 040040          249 DDINNTEVIDKIEFSQLRKLTLKSLPQLRS----FCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGC  324 (869)
Q Consensus       249 ~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~----~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c  324 (869)
                      .   .........+++|++|.+.+|..-..    +.....+++|++|+|+.|.+...-...++..+..+++|+.|++++|
T Consensus       241 ~---l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n  317 (362)
T 2ra8_A          241 V---FRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYN  317 (362)
T ss_dssp             G---TGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSB
T ss_pred             H---HHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCC
Confidence            0   00001113478888888877653211    1112357889999998887554211123332345889999999887


Q ss_pred             C
Q 040040          325 N  325 (869)
Q Consensus       325 ~  325 (869)
                      .
T Consensus       318 ~  318 (362)
T 2ra8_A          318 Y  318 (362)
T ss_dssp             B
T ss_pred             c
Confidence            3

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.49  E-value=0.012  Score=63.62  Aligned_cols=83  Identities=16%  Similarity=0.174  Sum_probs=39.5

Q ss_pred             CCCCCccEEEEecC--CCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCC
Q 040040          141 EGFPSLKLLHIQNN--PYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFS  218 (869)
Q Consensus       141 ~~~~~L~~L~l~~~--~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~  218 (869)
                      .+|.+|+.+.+..+  ..++.|+...    +..+.+|+.+.+.+  +++.+....+  ..+.+|+.+.+...  ++.+..
T Consensus        84 ~~C~~L~~i~~~~n~p~~l~~Ig~~a----F~~c~~L~~i~~~~--~~~~I~~~aF--~~c~~L~~i~lp~~--~~~I~~  153 (394)
T 4gt6_A           84 YNCTSLKRVTIQDNKPSCVKKIGRQA----FMFCSELTDIPILD--SVTEIDSEAF--HHCEELDTVTIPEG--VTSVAD  153 (394)
T ss_dssp             TTCTTCCEEEEGGGCCCCCCEECTTT----TTTCTTCCBCGGGT--TCSEECTTTT--TTCTTCCEEECCTT--CCEECT
T ss_pred             hCCccCceEeecCCCCCeeeEechhh----chhcccceeeccCC--ccceehhhhh--hhhcccccccccce--eeeecc
Confidence            45666666666543  2355554432    23444555544432  2334433322  24556666666432  333322


Q ss_pred             hhhhcCCCCCcEEEEe
Q 040040          219 FSISRGLPQLQTIKVT  234 (869)
Q Consensus       219 ~~~~~~L~~L~~L~l~  234 (869)
                       ..+..+.+|+.+.+.
T Consensus       154 -~~F~~c~~L~~i~~~  168 (394)
T 4gt6_A          154 -GMFSYCYSLHTVTLP  168 (394)
T ss_dssp             -TTTTTCTTCCEEECC
T ss_pred             -cceeccccccccccc
Confidence             345555666666554

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.42  E-value=1.1e-05  Score=86.75  Aligned_cols=13  Identities=15%  Similarity=0.069  Sum_probs=7.1

Q ss_pred             ccCCccEEEEecc
Q 040040          338 SFVQLQHLEIRKC  350 (869)
Q Consensus       338 ~L~~L~~L~l~~c  350 (869)
                      ..++|++|+++++
T Consensus       237 ~~~~L~~L~Ls~N  249 (372)
T 3un9_A          237 EHPSLELLHLYFN  249 (372)
T ss_dssp             HCSSCCEEECTTS
T ss_pred             hCCCCCEEeccCC
Confidence            3455566665554

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.38  E-value=0.00046  Score=73.49  Aligned_cols=61  Identities=18%  Similarity=0.236  Sum_probs=28.0

Q ss_pred             CCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEee
Q 040040          171 AFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTA  235 (869)
Q Consensus       171 ~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~  235 (869)
                      .+++|++|+|++...++.++...  .+.+++|++|+|+++ +++.+++ ..+++|++|++|++++
T Consensus        29 ~~~~L~~L~l~~~n~l~~~~~~~--~~~l~~L~~L~l~~N-~l~~~~~-~~~~~l~~L~~L~l~~   89 (347)
T 2ifg_A           29 GAENLTELYIENQQHLQHLELRD--LRGLGELRNLTIVKS-GLRFVAP-DAFHFTPRLSRLNLSF   89 (347)
T ss_dssp             SCSCCSEEECCSCSSCCEECGGG--SCSCCCCSEEECCSS-CCCEECT-TGGGSCSCCCEEECCS
T ss_pred             CCCCeeEEEccCCCCCCCcChhH--hccccCCCEEECCCC-ccceeCH-HHhcCCcCCCEEeCCC
Confidence            34445555554311444443322  224555555555554 3444443 2445555555555554

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.37  E-value=0.0004  Score=74.00  Aligned_cols=85  Identities=22%  Similarity=0.208  Sum_probs=45.2

Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcc
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLR  277 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~  277 (869)
                      .+.+|++|+|+++.+++.+++ ..+++|++|++|+++++. +..++.            ..+..+++|++|+|++ +.+.
T Consensus        29 ~~~~L~~L~l~~~n~l~~~~~-~~~~~l~~L~~L~l~~N~-l~~~~~------------~~~~~l~~L~~L~l~~-N~l~   93 (347)
T 2ifg_A           29 GAENLTELYIENQQHLQHLEL-RDLRGLGELRNLTIVKSG-LRFVAP------------DAFHFTPRLSRLNLSF-NALE   93 (347)
T ss_dssp             SCSCCSEEECCSCSSCCEECG-GGSCSCCCCSEEECCSSC-CCEECT------------TGGGSCSCCCEEECCS-SCCS
T ss_pred             CCCCeeEEEccCCCCCCCcCh-hHhccccCCCEEECCCCc-cceeCH------------HHhcCCcCCCEEeCCC-Cccc
Confidence            456666666665335665544 346666666666666643 444441            1234466666666665 3344


Q ss_pred             cccc-cccCCCcCEEEecccc
Q 040040          278 SFCS-VVAFPNLETLKLSAIN  297 (869)
Q Consensus       278 ~~~~-~~~l~~L~~L~L~~~~  297 (869)
                      .++. ......|+.|+|.+|.
T Consensus        94 ~~~~~~~~~~~L~~l~l~~N~  114 (347)
T 2ifg_A           94 SLSWKTVQGLSLQELVLSGNP  114 (347)
T ss_dssp             CCCSTTTCSCCCCEEECCSSC
T ss_pred             eeCHHHcccCCceEEEeeCCC
Confidence            4442 1112226666666665

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.11  E-value=9.9e-05  Score=85.14  Aligned_cols=70  Identities=17%  Similarity=0.251  Sum_probs=55.2

Q ss_pred             CCcchhHHHHhhhcCCChhhHHHHHHHhcCCCccchh----hHHHHhhccceecccccCcccccchheecccCCCc
Q 040040            1 SPFLALTTITRALKNKSVPEWENVLQELQRPSMKNFQ----GVLKEACSTIELHYKYLKGEKLKKIFLLCSCHDPT   72 (869)
Q Consensus         1 ~~PLAi~~ig~~L~~k~~~~W~~~l~~l~~~~~~~~~----~~~~~i~~~L~lSY~~Lp~~~lK~CFlycs~Fped   72 (869)
                      |.||||+++|+.|+.+. .+|+.+++.+.......+.    .....+..++..||+.||+ +.|.||+|||+||++
T Consensus       319 G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~-~~~~~l~~la~f~~~  392 (591)
T 1z6t_A          319 GSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKD  392 (591)
T ss_dssp             TCHHHHHHHHHHHHHST-TCHHHHHHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCT-TTHHHHHHGGGCCTT
T ss_pred             CCcHHHHHHHHHHhcCc-hhHHHHHHHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCH-HHHHHHHHccccCCC
Confidence            68999999999998873 4799999998764322111    1123588899999999986 699999999999985

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.01  E-value=0.047  Score=58.87  Aligned_cols=79  Identities=15%  Similarity=0.163  Sum_probs=43.0

Q ss_pred             CccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccc--ccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          145 SLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNL--MNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       145 ~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~--~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      .|+.+.+-.  .++.|++..    +..+.+|+.+.+.+.  ..++.+....+  ..+.+|+.+.+.+  .++.+.. ..+
T Consensus        65 ~L~sI~iP~--svt~Ig~~A----F~~C~~L~~i~~~~n~p~~l~~Ig~~aF--~~c~~L~~i~~~~--~~~~I~~-~aF  133 (394)
T 4gt6_A           65 VLTSVQIPD--TVTEIGSNA----FYNCTSLKRVTIQDNKPSCVKKIGRQAF--MFCSELTDIPILD--SVTEIDS-EAF  133 (394)
T ss_dssp             CCCEEEECT--TCCEECTTT----TTTCTTCCEEEEGGGCCCCCCEECTTTT--TTCTTCCBCGGGT--TCSEECT-TTT
T ss_pred             cCEEEEECC--CeeEEhHHH----hhCCccCceEeecCCCCCeeeEechhhc--hhcccceeeccCC--ccceehh-hhh
Confidence            477777765  466676543    456677777777653  23555544432  2445555554432  2344432 345


Q ss_pred             cCCCCCcEEEEe
Q 040040          223 RGLPQLQTIKVT  234 (869)
Q Consensus       223 ~~L~~L~~L~l~  234 (869)
                      .++.+|+.+.+.
T Consensus       134 ~~c~~L~~i~lp  145 (394)
T 4gt6_A          134 HHCEELDTVTIP  145 (394)
T ss_dssp             TTCTTCCEEECC
T ss_pred             hhhccccccccc
Confidence            556666666664

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.73  E-value=0.24  Score=52.88  Aligned_cols=79  Identities=16%  Similarity=0.146  Sum_probs=42.9

Q ss_pred             cCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCC
Q 040040          313 IQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSG  392 (869)
Q Consensus       313 l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~  392 (869)
                      +.+|+.+.+..  .++.+ ....+..+..|+.+.+..  .++.+...        ....+.+|+.+.+..  +++.++..
T Consensus       216 ~~~l~~i~~~~--~~~~i-~~~~f~~~~~L~~i~lp~--~v~~I~~~--------aF~~~~~l~~i~l~~--~i~~i~~~  280 (379)
T 4h09_A          216 GKNLKKITITS--GVTTL-GDGAFYGMKALDEIAIPK--NVTSIGSF--------LLQNCTALKTLNFYA--KVKTVPYL  280 (379)
T ss_dssp             CSSCSEEECCT--TCCEE-CTTTTTTCSSCCEEEECT--TCCEECTT--------TTTTCTTCCEEEECC--CCSEECTT
T ss_pred             ccccceeeecc--ceeEE-ccccccCCccceEEEcCC--CccEeCcc--------ccceeehhccccccc--cceecccc
Confidence            55666666643  34443 334455667777777654  24433211        123455666666643  45666665


Q ss_pred             cccCCCCccEEEEc
Q 040040          393 NCIELPSLKQLRMA  406 (869)
Q Consensus       393 ~~~~l~~L~~L~l~  406 (869)
                      .+..+++|+.+.+.
T Consensus       281 aF~~c~~L~~i~l~  294 (379)
T 4h09_A          281 LCSGCSNLTKVVMD  294 (379)
T ss_dssp             TTTTCTTCCEEEEC
T ss_pred             cccccccccccccc
Confidence            55566666666664

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.62  E-value=0.051  Score=58.25  Aligned_cols=33  Identities=6%  Similarity=0.190  Sum_probs=18.9

Q ss_pred             cCCceEEEEecCCCCccccChhhHhccCCccEEEEe
Q 040040          313 IQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIR  348 (869)
Q Consensus       313 l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~  348 (869)
                      ..+|+.+.+..  .++.+ +..++.++.+|+.+.+.
T Consensus        45 ~~~i~~v~ip~--~vt~I-g~~aF~~C~~L~~I~lp   77 (379)
T 4h09_A           45 RDRISEVRVNS--GITSI-GEANFNSCYNMTKVTVA   77 (379)
T ss_dssp             GGGCSEEEECT--TEEEE-CTTTTTTCTTCCEEEEC
T ss_pred             ccCCEEEEeCC--CccCh-HHHHhhCCCCCCEEEeC
Confidence            45566666642  45554 34445666666666664

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=95.36  E-value=0.013  Score=58.79  Aligned_cols=63  Identities=22%  Similarity=0.240  Sum_probs=25.6

Q ss_pred             CCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecC
Q 040040          172 FPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       172 ~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  237 (869)
                      +++|++|+|+++ ++..+...+...+.+++|++|+|+++ +++.+.....+..+ +|++|++++++
T Consensus       169 l~~L~~L~Ls~N-~l~~l~~l~~~~~~l~~L~~L~Ls~N-~i~~~~~l~~l~~l-~L~~L~L~~Np  231 (267)
T 3rw6_A          169 IPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERELDKIKGL-KLEELWLDGNS  231 (267)
T ss_dssp             CTTCCEEECTTS-CCCCCGGGTTHHHHSTTCCEEECTTS-CCCSGGGGGGGTTS-CCSEEECTTST
T ss_pred             CCCCCEEECCCC-CCCCCccchhHHhhCCCCCEEECCCC-ccCCchhhhhcccC-CcceEEccCCc
Confidence            445555555544 33333211111224555555555554 24433221222222 55555555443

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=95.09  E-value=0.012  Score=58.99  Aligned_cols=60  Identities=23%  Similarity=0.236  Sum_probs=27.5

Q ss_pred             CCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccC--CccEEEEecc
Q 040040          285 FPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFV--QLQHLEIRKC  350 (869)
Q Consensus       285 l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~--~L~~L~l~~c  350 (869)
                      +++|++|+|++|.+..+.  .++.....+++|+.|+|++ +.++.+..   +..+.  +|++|+++++
T Consensus       169 l~~L~~L~Ls~N~l~~l~--~l~~~~~~l~~L~~L~Ls~-N~i~~~~~---l~~l~~l~L~~L~L~~N  230 (267)
T 3rw6_A          169 IPELLSLNLSNNRLYRLD--DMSSIVQKAPNLKILNLSG-NELKSERE---LDKIKGLKLEELWLDGN  230 (267)
T ss_dssp             CTTCCEEECTTSCCCCCG--GGTTHHHHSTTCCEEECTT-SCCCSGGG---GGGGTTSCCSEEECTTS
T ss_pred             CCCCCEEECCCCCCCCCc--cchhHHhhCCCCCEEECCC-CccCCchh---hhhcccCCcceEEccCC
Confidence            455555555555543321  1233333455566666654 33443311   22222  5666666554

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=94.41  E-value=0.022  Score=53.96  Aligned_cols=64  Identities=11%  Similarity=0.002  Sum_probs=27.9

Q ss_pred             CCcCEEEeccccccccccCCCCCcccccCCceEEEE--ecCCCCccccC---hhhHhccCCccEEEEecc
Q 040040          286 PNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIV--HGCNNLKFLFS---TSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       286 ~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l--~~c~~l~~l~~---~~~~~~L~~L~~L~l~~c  350 (869)
                      ++|++|+|++|.+...-...+...+...++|++|++  +++ .+.+-..   ...+...++|++|+++++
T Consensus        93 ~~L~~L~L~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N-~i~~~g~~~l~~~L~~n~~L~~L~L~~n  161 (185)
T 1io0_A           93 NTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQ-PLGNNVEMEIANMLEKNTTLLKFGYHFT  161 (185)
T ss_dssp             SSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSS-CCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             CCcCEEECcCCcCCHHHHHHHHHHHHhCCCceEEEecCCCC-CCCHHHHHHHHHHHHhCCCcCEEeccCC
Confidence            455566666555332111111222233456666666  332 3332100   112334456666666654

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=93.75  E-value=0.023  Score=53.75  Aligned_cols=63  Identities=16%  Similarity=0.043  Sum_probs=32.5

Q ss_pred             cCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccC---hhhHhccCCccEEEE
Q 040040          284 AFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFS---TSLVRSFVQLQHLEI  347 (869)
Q Consensus       284 ~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~---~~~~~~L~~L~~L~l  347 (869)
                      ..++|++|+|++|.+..--...+...+...++|++|++++|. +.+-..   ...+...++|++|++
T Consensus        63 ~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~-i~~~g~~~l~~~L~~n~~L~~L~L  128 (185)
T 1io0_A           63 TNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNF-ISGSGILALVEALQSNTSLIELRI  128 (185)
T ss_dssp             TCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSC-CCHHHHHHHHHGGGGCSSCCEEEC
T ss_pred             hCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCc-CCHHHHHHHHHHHHhCCCceEEEe
Confidence            346677777777764331111122222335678888887753 332100   122344567777777

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=81.85  E-value=1.1  Score=39.02  Aligned_cols=33  Identities=18%  Similarity=0.178  Sum_probs=23.0

Q ss_pred             ccccceeeeecccceeeeccc---cccceEEEeecC
Q 040040          622 FPNLEELTLSKYIFTTWRQAQ---FHKLKILHFISD  654 (869)
Q Consensus       622 ~~~L~~L~l~~~~~~~~~~~~---~~~L~~L~l~~~  654 (869)
                      +++|++|+|++|.+..+..+.   +++|+.|+|.+|
T Consensus        30 p~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           30 PVDTTELVLTGNNLTALPPGLLDALPALRTAHLGAN   65 (130)
T ss_dssp             CTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSS
T ss_pred             CcCCCEEECCCCcCCccChhhhhhccccCEEEecCC
Confidence            567888888888887776654   456777777444

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=80.38  E-value=0.64  Score=40.65  Aligned_cols=50  Identities=16%  Similarity=0.090  Sum_probs=37.8

Q ss_pred             ceeeeecccce--eeeccccccceEEEeecCCCccchHHHHHhccccceEEE
Q 040040          626 EELTLSKYIFT--TWRQAQFHKLKILHFISDGSDFFQVGLLQNIHNLEKLVL  675 (869)
Q Consensus       626 ~~L~l~~~~~~--~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l  675 (869)
                      ..++-+++.++  .++.+...+|+.|+|++|....+|...+..+++|+.|++
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L   62 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFPVDTTELVLTGNNLTALPPGLLDALPALRTAHL   62 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCCTTCSEEECTTSCCSSCCTTTGGGCTTCCEEEC
T ss_pred             CEEEeCCCCCccccCCCCCCcCCCEEECCCCcCCccChhhhhhccccCEEEe
Confidence            35677777776  666566778999999888888888877777776666654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	869
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.65
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.63
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.52
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.5
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.41
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.39
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.39
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.35
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.34
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.3
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.3
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.29
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.27
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.21
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.21
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.19
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.19
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.18
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.18
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.17
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.11
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.1
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.68
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.64
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.63
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.57
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.39
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.39
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.37
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.2
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.15
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.0
d2ifga3	156	High affinity nerve growth factor receptor, N-term	97.87
d2ifga3	156	High affinity nerve growth factor receptor, N-term	97.81
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.62
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.61
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	94.83
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	94.21
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	88.96
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	86.95
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	84.81
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	84.2
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	82.85

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.65  E-value=1.9e-14  Score=155.24  Aligned_cols=80  Identities=14%  Similarity=0.201  Sum_probs=53.4

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      .+.+|++|+++++ +++.+. +     ...+++|++|+++++ ++++++.    .+.+++|++|++++|. ++.++   .
T Consensus        42 ~l~~l~~L~l~~~-~I~~l~-g-----l~~L~nL~~L~Ls~N-~l~~l~~----l~~L~~L~~L~L~~n~-i~~i~---~  105 (384)
T d2omza2          42 DLDQVTTLQADRL-GIKSID-G-----VEYLNNLTQINFSNN-QLTDITP----LKNLTKLVDILMNNNQ-IADIT---P  105 (384)
T ss_dssp             HHTTCCEEECCSS-CCCCCT-T-----GGGCTTCCEEECCSS-CCCCCGG----GTTCTTCCEEECCSSC-CCCCG---G
T ss_pred             HhCCCCEEECCCC-CCCCcc-c-----cccCCCCCEEeCcCC-cCCCCcc----ccCCcccccccccccc-ccccc---c
Confidence            3567888888877 565552 2     246777888888777 5666542    4467778888887774 55553   4


Q ss_pred             hcCCCCCcEEEEeecC
Q 040040          222 SRGLPQLQTIKVTACK  237 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~  237 (869)
                      ++++++|+.|+++++.
T Consensus       106 l~~l~~L~~L~~~~~~  121 (384)
T d2omza2         106 LANLTNLTGLTLFNNQ  121 (384)
T ss_dssp             GTTCTTCCEEECCSSC
T ss_pred             cccccccccccccccc
Confidence            6677777777776643

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.63  E-value=1.9e-14  Score=155.10  Aligned_cols=150  Identities=22%  Similarity=0.208  Sum_probs=74.3

Q ss_pred             hhcCCccEEEEcccCCccccccccccCccccccccccccceeecccccccccccccCCCCcccCCCccEEEEecCCCccc
Q 040040          461 ARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNKDPRGKLIFPNLVLVRIFECQRLKS  540 (869)
Q Consensus       461 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~p~~~~~l~~L~~L~l~~c~~L~~  540 (869)
                      ..+++++.++++++ .+..++..          ...++|++|++.++ .++.+     ..+..+++|+.|++++| .+..
T Consensus       194 ~~l~~~~~l~l~~n-~i~~~~~~----------~~~~~L~~L~l~~n-~l~~~-----~~l~~l~~L~~L~l~~n-~l~~  255 (384)
T d2omza2         194 AKLTNLESLIATNN-QISDITPL----------GILTNLDELSLNGN-QLKDI-----GTLASLTNLTDLDLANN-QISN  255 (384)
T ss_dssp             GGCTTCSEEECCSS-CCCCCGGG----------GGCTTCCEEECCSS-CCCCC-----GGGGGCTTCSEEECCSS-CCCC
T ss_pred             ccccccceeeccCC-ccCCCCcc----------cccCCCCEEECCCC-CCCCc-----chhhcccccchhccccC-ccCC
Confidence            45566666666653 33333221          24456666666664 34333     34556666666666664 3444


Q ss_pred             ccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCceeeecc-ccCccccccceeeEeeecc
Q 040040          541 IFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERANLIFQL-KNPSFGSKSLVMLLCLIGQ  619 (869)
Q Consensus       541 l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~-~l~~~~~~~~~~~~~~~~~  619 (869)
                      +.|.                 ..+++|++|+++++.. ...+.   ...++.++.+.+.+ .+..++...          
T Consensus       256 ~~~~-----------------~~~~~L~~L~l~~~~l-~~~~~---~~~~~~l~~l~~~~n~l~~~~~~~----------  304 (384)
T d2omza2         256 LAPL-----------------SGLTKLTELKLGANQI-SNISP---LAGLTALTNLELNENQLEDISPIS----------  304 (384)
T ss_dssp             CGGG-----------------TTCTTCSEEECCSSCC-CCCGG---GTTCTTCSEEECCSSCCSCCGGGG----------
T ss_pred             CCcc-----------------cccccCCEeeccCccc-CCCCc---cccccccccccccccccccccccc----------
Confidence            3121                 1145666666655432 11111   01235555555555 444333211          


Q ss_pred             eeccccceeeeecccceeeec-cccccceEEEeecCCCccch
Q 040040          620 QVFPNLEELTLSKYIFTTWRQ-AQFHKLKILHFISDGSDFFQ  660 (869)
Q Consensus       620 ~~~~~L~~L~l~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~p  660 (869)
                       .+++++.|++++|++.++.+ ..+++|++|++++|....+|
T Consensus       305 -~~~~l~~L~ls~n~l~~l~~l~~l~~L~~L~L~~n~l~~l~  345 (384)
T d2omza2         305 -NLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKVSDVS  345 (384)
T ss_dssp             -GCTTCSEEECCSSCCSCCGGGGGCTTCCEEECCSSCCCCCG
T ss_pred             -hhcccCeEECCCCCCCCCcccccCCCCCEEECCCCCCCCCh
Confidence             24667777777776666543 33666666666444444444

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.52  E-value=1.5e-13  Score=142.62  Aligned_cols=274  Identities=15%  Similarity=0.092  Sum_probs=151.7

Q ss_pred             CcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecccccc
Q 040040          275 QLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLE  354 (869)
Q Consensus       275 ~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~  354 (869)
                      +++++|.. -.+++++|+|++|.++.+....+..    +++|++|++++|.. ..+ ++..+.++++|+.|+++++ .++
T Consensus        21 ~L~~lP~~-l~~~l~~L~Ls~N~i~~l~~~~f~~----l~~L~~L~l~~n~~-~~i-~~~~f~~l~~L~~L~l~~n-~l~   92 (305)
T d1xkua_          21 GLEKVPKD-LPPDTALLDLQNNKITEIKDGDFKN----LKNLHTLILINNKI-SKI-SPGAFAPLVKLERLYLSKN-QLK   92 (305)
T ss_dssp             CCCSCCCS-CCTTCCEEECCSSCCCCBCTTTTTT----CTTCCEEECCSSCC-CCB-CTTTTTTCTTCCEEECCSS-CCS
T ss_pred             CCCccCCC-CCCCCCEEECcCCcCCCcChhHhhc----cccccccccccccc-ccc-chhhhhCCCccCEecccCC-ccC
Confidence            35666542 2467888888888877765544443    78888888888654 444 3355778888888888885 566


Q ss_pred             ccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCccccccccccCCCceEeeeeccCcc
Q 040040          355 GIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPELKAFILQNINTDMTVVGIQSFFNE  434 (869)
Q Consensus       355 ~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~  434 (869)
                      .++.           ..++.++.|.+.++. +..++.......                                     
T Consensus        93 ~l~~-----------~~~~~l~~L~~~~n~-l~~l~~~~~~~~-------------------------------------  123 (305)
T d1xkua_          93 ELPE-----------KMPKTLQELRVHENE-ITKVRKSVFNGL-------------------------------------  123 (305)
T ss_dssp             BCCS-----------SCCTTCCEEECCSSC-CCBBCHHHHTTC-------------------------------------
T ss_pred             cCcc-----------chhhhhhhhhccccc-hhhhhhhhhhcc-------------------------------------
Confidence            6532           245667777776653 333332221112                                     


Q ss_pred             cccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeeccccccccccc
Q 040040          435 KSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIW  514 (869)
Q Consensus       435 ~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~  514 (869)
                         ..+..+....+...........+..+++|+.+++++| .+..++.           ..+++|++|++.++...... 
T Consensus       124 ---~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n-~l~~l~~-----------~~~~~L~~L~l~~n~~~~~~-  187 (305)
T d1xkua_         124 ---NQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADT-NITTIPQ-----------GLPPSLTELHLDGNKITKVD-  187 (305)
T ss_dssp             ---TTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSS-CCCSCCS-----------SCCTTCSEEECTTSCCCEEC-
T ss_pred             ---ccccccccccccccccCCCccccccccccCccccccC-CccccCc-----------ccCCccCEEECCCCcCCCCC-
Confidence               2233333333222221122233455666777776663 3333332           24566777777665433332 


Q ss_pred             ccCCCCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCc
Q 040040          515 NKDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERA  594 (869)
Q Consensus       515 ~~~p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~  594 (869)
                         +..+..++.++.|+++++ .+..+.|..+               ..+++|++|+++++ .++.++.+...  +++|+
T Consensus       188 ---~~~~~~~~~l~~L~~s~n-~l~~~~~~~~---------------~~l~~L~~L~L~~N-~L~~lp~~l~~--l~~L~  245 (305)
T d1xkua_         188 ---AASLKGLNNLAKLGLSFN-SISAVDNGSL---------------ANTPHLRELHLNNN-KLVKVPGGLAD--HKYIQ  245 (305)
T ss_dssp             ---TGGGTTCTTCCEEECCSS-CCCEECTTTG---------------GGSTTCCEEECCSS-CCSSCCTTTTT--CSSCC
T ss_pred             ---hhHhhccccccccccccc-cccccccccc---------------cccccceeeecccc-ccccccccccc--ccCCC
Confidence               455666677777777663 5555523222               12566777777766 45555544433  36777


Q ss_pred             eeeecc-ccCccccccceeeEeeecceeccccceeeeeccccee--eeccccccc
Q 040040          595 NLIFQL-KNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTT--WRQAQFHKL  646 (869)
Q Consensus       595 ~L~l~~-~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~--~~~~~~~~L  646 (869)
                      .|++++ +++.++.....  +. ......++|+.|++++|.+..  +++..|+.+
T Consensus       246 ~L~Ls~N~i~~i~~~~f~--~~-~~~~~~~~L~~L~L~~N~~~~~~~~~~~f~~~  297 (305)
T d1xkua_         246 VVYLHNNNISAIGSNDFC--PP-GYNTKKASYSGVSLFSNPVQYWEIQPSTFRCV  297 (305)
T ss_dssp             EEECCSSCCCCCCTTSSS--CS-SCCTTSCCCSEEECCSSSSCGGGSCGGGGTTC
T ss_pred             EEECCCCccCccChhhcc--Cc-chhcccCCCCEEECCCCcCccCcCCHhHhccc
Confidence            777777 66665442210  00 000125678888888887642  444444433

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.50  E-value=5.8e-13  Score=138.15  Aligned_cols=59  Identities=17%  Similarity=0.200  Sum_probs=31.3

Q ss_pred             CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeec
Q 040040          173 PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTAC  236 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  236 (869)
                      +.+++|+++++ ++++++...  ...+++|++|++++|. +..+++ ..+.++++|++|+++++
T Consensus        31 ~~l~~L~Ls~N-~i~~l~~~~--f~~l~~L~~L~l~~n~-~~~i~~-~~f~~l~~L~~L~l~~n   89 (305)
T d1xkua_          31 PDTALLDLQNN-KITEIKDGD--FKNLKNLHTLILINNK-ISKISP-GAFAPLVKLERLYLSKN   89 (305)
T ss_dssp             TTCCEEECCSS-CCCCBCTTT--TTTCTTCCEEECCSSC-CCCBCT-TTTTTCTTCCEEECCSS
T ss_pred             CCCCEEECcCC-cCCCcChhH--hhcccccccccccccc-ccccch-hhhhCCCccCEecccCC
Confidence            45666666665 455554432  2245566666666653 334433 24555666666666554

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.41  E-value=2.7e-11  Score=128.10  Aligned_cols=77  Identities=22%  Similarity=0.225  Sum_probs=46.0

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhc
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISR  223 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~  223 (869)
                      .++++|+++++ +++.+|+        ..++|++|+++++ +++++|.      .+.+|+.|++.++. ++.++..    
T Consensus        38 ~~l~~LdLs~~-~L~~lp~--------~~~~L~~L~Ls~N-~l~~lp~------~~~~L~~L~l~~n~-l~~l~~l----   96 (353)
T d1jl5a_          38 RQAHELELNNL-GLSSLPE--------LPPHLESLVASCN-SLTELPE------LPQSLKSLLVDNNN-LKALSDL----   96 (353)
T ss_dssp             HTCSEEECTTS-CCSCCCS--------CCTTCSEEECCSS-CCSSCCC------CCTTCCEEECCSSC-CSCCCSC----
T ss_pred             cCCCEEEeCCC-CCCCCCC--------CCCCCCEEECCCC-CCccccc------chhhhhhhhhhhcc-cchhhhh----
Confidence            36778888777 5666653        3467777777765 6666543      24577777777763 5444221    


Q ss_pred             CCCCCcEEEEeecCCceeee
Q 040040          224 GLPQLQTIKVTACKNMKVIF  243 (869)
Q Consensus       224 ~L~~L~~L~l~~c~~l~~l~  243 (869)
                       .+.|++|+++++. +..+|
T Consensus        97 -p~~L~~L~L~~n~-l~~lp  114 (353)
T d1jl5a_          97 -PPLLEYLGVSNNQ-LEKLP  114 (353)
T ss_dssp             -CTTCCEEECCSSC-CSSCC
T ss_pred             -ccccccccccccc-ccccc
Confidence             1346666666543 44444

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.39  E-value=1.4e-12  Score=135.62  Aligned_cols=251  Identities=16%  Similarity=0.092  Sum_probs=127.6

Q ss_pred             CccEeeccccccccccccccccccccCCCCEEEecCCCCCc-ccCChhhhcCCCCCcEEEEeecCCceeeeccccccccC
Q 040040          174 LLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLT-HIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDIN  252 (869)
Q Consensus       174 ~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~-~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~  252 (869)
                      +++.|+|+++ ++......+..++++++|++|++++|.++. .+|+  .+++|++|++|+++++.. ..++.        
T Consensus        51 ~v~~L~L~~~-~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~--~i~~L~~L~~L~Ls~N~l-~~~~~--------  118 (313)
T d1ogqa_          51 RVNNLDLSGL-NLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPP--AIAKLTQLHYLYITHTNV-SGAIP--------  118 (313)
T ss_dssp             CEEEEEEECC-CCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCG--GGGGCTTCSEEEEEEECC-EEECC--------
T ss_pred             EEEEEECCCC-CCCCCCCCChHHhcCcccccccccccccccccccc--ccccccccchhhhccccc-ccccc--------
Confidence            4556666655 333211111125677888888887765665 3443  677888888888887653 33331        


Q ss_pred             CccccccccCCcccEEeccCCCCccccc-ccccCCCcCEEEeccccccccccCCCCCcccccCCc-eEEEEecCCCCccc
Q 040040          253 NTEVIDKIEFSQLRKLTLKSLPQLRSFC-SVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNL-TRLIVHGCNNLKFL  330 (869)
Q Consensus       253 ~~~~~~~~~l~~L~~L~l~~~~~l~~~~-~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L-~~L~l~~c~~l~~l  330 (869)
                          .....+.+|+++++.++.....+| .+..++.|+.++++++.+..    .+|.....+.++ +.+.+++ +.++..
T Consensus       119 ----~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~----~ip~~~~~l~~l~~~l~~~~-n~l~~~  189 (313)
T d1ogqa_         119 ----DFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISG----AIPDSYGSFSKLFTSMTISR-NRLTGK  189 (313)
T ss_dssp             ----GGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEE----ECCGGGGCCCTTCCEEECCS-SEEEEE
T ss_pred             ----ccccchhhhcccccccccccccCchhhccCcccceeecccccccc----cccccccccccccccccccc-cccccc
Confidence                223445666666666654333332 24455566666666655321    123333334443 4444433 233333


Q ss_pred             cChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEccCCc
Q 040040          331 FSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAKCPE  410 (869)
Q Consensus       331 ~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~c~~  410 (869)
                      .+ ..+..+.. ..+++.++.....++.         ....                         +++++.+.+.++.-
T Consensus       190 ~~-~~~~~l~~-~~l~l~~~~~~~~~~~---------~~~~-------------------------~~~l~~l~~~~~~l  233 (313)
T d1ogqa_         190 IP-PTFANLNL-AFVDLSRNMLEGDASV---------LFGS-------------------------DKNTQKIHLAKNSL  233 (313)
T ss_dssp             CC-GGGGGCCC-SEEECCSSEEEECCGG---------GCCT-------------------------TSCCSEEECCSSEE
T ss_pred             cc-cccccccc-cccccccccccccccc---------cccc-------------------------cccccccccccccc
Confidence            22 22233222 2344443321111110         1223                         33444444433321


Q ss_pred             cccccccccCCCceEeeeeccCcccccccccEEEEeccCCcccccchhHHhhcCCccEEEEcccCCcc-ccccccccCcc
Q 040040          411 LKAFILQNINTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIFPHNMFARFLKLQSLIVGACGSLE-EIFNLQELNSE  489 (869)
Q Consensus       411 l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~-~i~~~~~~~~~  489 (869)
                      -..++.                 .+.+++|+.|++++|. +++.+|.+ ++++++|++|+++++ .++ .+|+.      
T Consensus       234 ~~~~~~-----------------~~~~~~L~~L~Ls~N~-l~g~iP~~-l~~L~~L~~L~Ls~N-~l~g~iP~~------  287 (313)
T d1ogqa_         234 AFDLGK-----------------VGLSKNLNGLDLRNNR-IYGTLPQG-LTQLKFLHSLNVSFN-NLCGEIPQG------  287 (313)
T ss_dssp             CCBGGG-----------------CCCCTTCCEEECCSSC-CEECCCGG-GGGCTTCCEEECCSS-EEEEECCCS------
T ss_pred             cccccc-----------------cccccccccccCccCe-ecccCChH-HhCCCCCCEEECcCC-cccccCCCc------
Confidence            111110                 1225788888887765 55456765 568899999999984 444 55532      


Q ss_pred             ccccccccccceeecccccccc
Q 040040          490 ETHSGAVSRLRELHVFCLPKLT  511 (869)
Q Consensus       490 ~~~~~~~~~L~~L~l~~~~~L~  511 (869)
                          +.+++|+.+++.+.+.+.
T Consensus       288 ----~~L~~L~~l~l~~N~~l~  305 (313)
T d1ogqa_         288 ----GNLQRFDVSAYANNKCLC  305 (313)
T ss_dssp             ----TTGGGSCGGGTCSSSEEE
T ss_pred             ----ccCCCCCHHHhCCCcccc
Confidence                366777777777765443

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.39  E-value=1.4e-11  Score=130.43  Aligned_cols=49  Identities=33%  Similarity=0.398  Sum_probs=27.8

Q ss_pred             cccEEeccCCCCcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEec
Q 040040          264 QLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHG  323 (869)
Q Consensus       264 ~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~  323 (869)
                      ++++|+++++ .++.+|.  .+++|++|++++|.++.+     |.   .+++|+.|++.+
T Consensus        39 ~l~~LdLs~~-~L~~lp~--~~~~L~~L~Ls~N~l~~l-----p~---~~~~L~~L~l~~   87 (353)
T d1jl5a_          39 QAHELELNNL-GLSSLPE--LPPHLESLVASCNSLTEL-----PE---LPQSLKSLLVDN   87 (353)
T ss_dssp             TCSEEECTTS-CCSCCCS--CCTTCSEEECCSSCCSSC-----CC---CCTTCCEEECCS
T ss_pred             CCCEEEeCCC-CCCCCCC--CCCCCCEEECCCCCCccc-----cc---chhhhhhhhhhh
Confidence            5667777664 3555654  245666676666655443     21   134566666665

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.35  E-value=8.9e-13  Score=137.26  Aligned_cols=245  Identities=14%  Similarity=0.098  Sum_probs=126.6

Q ss_pred             ccccEEEEeccCCccc-ccchhHHhhcCCccEEEEcccCCcc-ccccccccCccccccccccccceeecccccccccccc
Q 040040          438 CKLKLMEVIFCKSLWT-IFPHNMFARFLKLQSLIVGACGSLE-EIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWN  515 (869)
Q Consensus       438 ~~L~~L~l~~c~~l~~-~~~~~~~~~l~~L~~L~l~~c~~l~-~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~  515 (869)
                      .+++.|+++++..-.. .+|. .++++++|++|++++|+.+. .+|.       ++  +.+++|++|+++++. +..+  
T Consensus        50 ~~v~~L~L~~~~l~g~~~lp~-~l~~L~~L~~L~Ls~~N~l~g~iP~-------~i--~~L~~L~~L~Ls~N~-l~~~--  116 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPS-SLANLPYLNFLYIGGINNLVGPIPP-------AI--AKLTQLHYLYITHTN-VSGA--  116 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCG-GGGGCTTCSEEEEEEETTEESCCCG-------GG--GGCTTCSEEEEEEEC-CEEE--
T ss_pred             EEEEEEECCCCCCCCCCCCCh-HHhcCcccccccccccccccccccc-------cc--ccccccchhhhcccc-cccc--
Confidence            3577777777642211 1344 35678888888887766655 4433       12  366777777777743 3333  


Q ss_pred             cCCCCcccCCCccEEEEecCCCcccccCccEEEEEeccCCCCCcceeeccccceEeecCCCCCceecCCCCCCCCCCCce
Q 040040          516 KDPRGKLIFPNLVLVRIFECQRLKSIFPTSVEIVANDVRGNDAATKFIFPSLTFLKLRDLPYLTTFYSGMHTLECPERAN  595 (869)
Q Consensus       516 ~~p~~~~~l~~L~~L~l~~c~~L~~l~p~s~ei~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~  595 (869)
                       .+..+..+++|+.++++++..... +|.++               ..++.|+.++++++.....++......  ..+  
T Consensus       117 -~~~~~~~~~~L~~l~l~~N~~~~~-~p~~l---------------~~l~~L~~l~l~~n~l~~~ip~~~~~l--~~l--  175 (313)
T d1ogqa_         117 -IPDFLSQIKTLVTLDFSYNALSGT-LPPSI---------------SSLPNLVGITFDGNRISGAIPDSYGSF--SKL--  175 (313)
T ss_dssp             -CCGGGGGCTTCCEEECCSSEEESC-CCGGG---------------GGCTTCCEEECCSSCCEEECCGGGGCC--CTT--
T ss_pred             -ccccccchhhhccccccccccccc-Cchhh---------------ccCcccceeeccccccccccccccccc--ccc--
Confidence             245566677777777776433333 25433               235566666666554433333322221  221  


Q ss_pred             eeeccccCccccccceeeEeeecceeccccceeeeecccceeeeccccccc--eEEEe-ecCCCccchHHHHHhccccce
Q 040040          596 LIFQLKNPSFGSKSLVMLLCLIGQQVFPNLEELTLSKYIFTTWRQAQFHKL--KILHF-ISDGSDFFQVGLLQNIHNLEK  672 (869)
Q Consensus       596 L~l~~~l~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~L--~~L~l-~~~~~~~~p~~~l~~l~~L~~  672 (869)
                                                   ++.+++++|++.+..+..+.++  ..+++ .++..+.+|.. +..+++|+.
T Consensus       176 -----------------------------~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~~~~~~~~~-~~~~~~l~~  225 (313)
T d1ogqa_         176 -----------------------------FTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVL-FGSDKNTQK  225 (313)
T ss_dssp             -----------------------------CCEEECCSSEEEEECCGGGGGCCCSEEECCSSEEEECCGGG-CCTTSCCSE
T ss_pred             -----------------------------ccccccccccccccccccccccccccccccccccccccccc-ccccccccc
Confidence                                         2334444444443333222211  12333 22222222322 334444444


Q ss_pred             EEEE---EE---ecccccccccEEEcCccccccccccCCCCCcccccCCccEEEEecccchhh-cccceeEecccchhcc
Q 040040          673 LVLK---VE---EHAEGIAQIKSLKLNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECALSLI-SLRIEIVFSKLKWLFL  745 (869)
Q Consensus       673 L~l~---~~---~~~~~~~~L~~L~l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~~~l~-~l~~~~~~~~L~~L~l  745 (869)
                      ++++   +.   .....+++|+.|+++++.     +.+..|..+..+++|++|++++|.  +. .+|+   +.+|++|+.
T Consensus       226 l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~-----l~g~iP~~l~~L~~L~~L~Ls~N~--l~g~iP~---~~~L~~L~~  295 (313)
T d1ogqa_         226 IHLAKNSLAFDLGKVGLSKNLNGLDLRNNR-----IYGTLPQGLTQLKFLHSLNVSFNN--LCGEIPQ---GGNLQRFDV  295 (313)
T ss_dssp             EECCSSEECCBGGGCCCCTTCCEEECCSSC-----CEECCCGGGGGCTTCCEEECCSSE--EEEECCC---STTGGGSCG
T ss_pred             cccccccccccccccccccccccccCccCe-----ecccCChHHhCCCCCCEEECcCCc--ccccCCC---cccCCCCCH
Confidence            4444   11   011236778888888863     323446668899999999999996  66 5664   344555555


Q ss_pred             ccCCCcceeec
Q 040040          746 ESSGSITSFCS  756 (869)
Q Consensus       746 ~~l~~l~~~~~  756 (869)
                      .++.+...+|.
T Consensus       296 l~l~~N~~l~g  306 (313)
T d1ogqa_         296 SAYANNKCLCG  306 (313)
T ss_dssp             GGTCSSSEEES
T ss_pred             HHhCCCccccC
Confidence            44444444444

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=6.7e-12  Score=126.83  Aligned_cols=175  Identities=19%  Similarity=0.160  Sum_probs=86.0

Q ss_pred             CCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccC
Q 040040          173 PLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDIN  252 (869)
Q Consensus       173 ~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~  252 (869)
                      +++++|+|+++ +++.++.+.+  ..+++|++|+++++ +++.++.   .+.+++|++|+++++. +...+         
T Consensus        31 ~~l~~L~Ls~N-~i~~l~~~~f--~~l~~L~~L~L~~N-~l~~l~~---~~~l~~L~~L~Ls~N~-l~~~~---------   93 (266)
T d1p9ag_          31 KDTTILHLSEN-LLYTFSLATL--MPYTRLTQLNLDRA-ELTKLQV---DGTLPVLGTLDLSHNQ-LQSLP---------   93 (266)
T ss_dssp             TTCCEEECTTS-CCSEEEGGGG--TTCTTCCEEECTTS-CCCEEEC---CSCCTTCCEEECCSSC-CSSCC---------
T ss_pred             cCCCEEECcCC-cCCCcCHHHh--hccccccccccccc-ccccccc---cccccccccccccccc-ccccc---------
Confidence            34555555555 4544443322  24555666666555 3554432   3455556666655543 33222         


Q ss_pred             CccccccccCCcccEEeccCCCCcccc-cccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCcccc
Q 040040          253 NTEVIDKIEFSQLRKLTLKSLPQLRSF-CSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLF  331 (869)
Q Consensus       253 ~~~~~~~~~l~~L~~L~l~~~~~l~~~-~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~  331 (869)
                          .....+++|+.|+++++...... .....++++++|+++++.+..+....+    ..+++|+.++++++ .++.+ 
T Consensus        94 ----~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~----~~l~~l~~l~l~~N-~l~~~-  163 (266)
T d1p9ag_          94 ----LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLL----TPTPKLEKLSLANN-NLTEL-  163 (266)
T ss_dssp             ----CCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTT----TTCTTCCEEECTTS-CCSCC-
T ss_pred             ----cccccccccccccccccccceeeccccccccccccccccccccceeccccc----cccccchhcccccc-ccccc-
Confidence                12233455555555543321111 112344566666666665444332222    23566666666653 45554 


Q ss_pred             ChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCc
Q 040040          332 STSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLA  384 (869)
Q Consensus       332 ~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~  384 (869)
                      +...+..+++|++|+++++ .++.++..         ...+++|+.|+++++|
T Consensus       164 ~~~~~~~l~~L~~L~Ls~N-~L~~lp~~---------~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         164 PAGLLNGLENLDTLLLQEN-SLYTIPKG---------FFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             CTTTTTTCTTCCEEECCSS-CCCCCCTT---------TTTTCCCSEEECCSCC
T ss_pred             CccccccccccceeecccC-CCcccChh---------HCCCCCCCEEEecCCC
Confidence            3344556666666666663 45554322         3345566666666655

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=2.2e-11  Score=124.41  Aligned_cols=203  Identities=17%  Similarity=0.204  Sum_probs=112.7

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhc
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISR  223 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~  223 (869)
                      +++++|+++++ .++.++...    +..++.|++|+++++ ++..+....  ...+..++++.+.....++.+++ ..++
T Consensus        32 ~~~~~L~Ls~N-~i~~i~~~~----f~~l~~L~~L~ls~n-~l~~i~~~~--~~~~~~~~~l~~~~~~~~~~l~~-~~~~  102 (284)
T d1ozna_          32 AASQRIFLHGN-RISHVPAAS----FRACRNLTILWLHSN-VLARIDAAA--FTGLALLEQLDLSDNAQLRSVDP-ATFH  102 (284)
T ss_dssp             TTCSEEECTTS-CCCEECTTT----TTTCTTCCEEECCSS-CCCEECTTT--TTTCTTCCEEECCSCTTCCCCCT-TTTT
T ss_pred             CCCCEEECcCC-cCCCCCHHH----hhccccccccccccc-ccccccccc--ccccccccccccccccccccccc-hhhc
Confidence            46777777776 566666432    356677777777766 555554433  23566777777766666666654 4567


Q ss_pred             CCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccc--cccCCCcCEEEecccccccc
Q 040040          224 GLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCS--VVAFPNLETLKLSAINSETI  301 (869)
Q Consensus       224 ~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~--~~~l~~L~~L~L~~~~l~~i  301 (869)
                      ++++|++|+++++.. ..++.            ......++|+.+++.+. .++.++.  +...++|++|++++|.++.+
T Consensus       103 ~l~~L~~L~l~~n~~-~~~~~------------~~~~~~~~L~~l~l~~N-~l~~i~~~~f~~~~~L~~L~l~~N~l~~l  168 (284)
T d1ozna_         103 GLGRLHTLHLDRCGL-QELGP------------GLFRGLAALQYLYLQDN-ALQALPDDTFRDLGNLTHLFLHGNRISSV  168 (284)
T ss_dssp             TCTTCCEEECTTSCC-CCCCT------------TTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCEE
T ss_pred             ccccCCEEecCCccc-ccccc------------cccchhcccchhhhccc-cccccChhHhccccchhhcccccCccccc
Confidence            777777777776542 22221            12233556666666553 3444432  23455666666666665554


Q ss_pred             ccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecc
Q 040040          302 WHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMK  381 (869)
Q Consensus       302 ~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~  381 (869)
                      ....+..    +++|+++.++++ .+..+.| ..+..+++|++|+++++ .+..++..        ....+++|+.|+++
T Consensus       169 ~~~~f~~----l~~L~~l~l~~N-~l~~i~~-~~f~~l~~L~~L~l~~N-~i~~~~~~--------~~~~~~~L~~L~l~  233 (284)
T d1ozna_         169 PERAFRG----LHSLDRLLLHQN-RVAHVHP-HAFRDLGRLMTLYLFAN-NLSALPTE--------ALAPLRALQYLRLN  233 (284)
T ss_dssp             CTTTTTT----CTTCCEEECCSS-CCCEECT-TTTTTCTTCCEEECCSS-CCSCCCHH--------HHTTCTTCCEEECC
T ss_pred             chhhhcc----ccccchhhhhhc-cccccCh-hHhhhhhhccccccccc-cccccccc--------ccccccccCEEEec
Confidence            4433332    566666666654 3344423 34556666666666653 34333221        12345556666665


Q ss_pred             cCc
Q 040040          382 DLA  384 (869)
Q Consensus       382 ~~~  384 (869)
                      +.+
T Consensus       234 ~N~  236 (284)
T d1ozna_         234 DNP  236 (284)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            544

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=6.9e-13  Score=135.42  Aligned_cols=92  Identities=16%  Similarity=0.155  Sum_probs=48.3

Q ss_pred             CCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccc
Q 040040          171 AFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDD  250 (869)
Q Consensus       171 ~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~  250 (869)
                      ...+|++|+++++ .+..-....+ ...+++|++|++++|. +.... ...+.++++|++|++++|..+......     
T Consensus        44 ~~~~L~~LdLs~~-~i~~~~l~~l-~~~c~~L~~L~L~~~~-l~~~~-~~~l~~~~~L~~L~Ls~c~~itd~~l~-----  114 (284)
T d2astb2          44 SPFRVQHMDLSNS-VIEVSTLHGI-LSQCSKLQNLSLEGLR-LSDPI-VNTLAKNSNLVRLNLSGCSGFSEFALQ-----  114 (284)
T ss_dssp             CCBCCCEEECTTC-EECHHHHHHH-HTTBCCCSEEECTTCB-CCHHH-HHHHTTCTTCSEEECTTCBSCCHHHHH-----
T ss_pred             cCCCCCEEECCCC-ccCHHHHHHH-HHhCCCcccccccccC-CCcHH-HHHHhcCCCCcCccccccccccccccc-----
Confidence            3456777777776 3322111001 2356777777777774 43321 135566777777777777654321100     


Q ss_pred             cCCccccccccCCcccEEeccCCCCcc
Q 040040          251 INNTEVIDKIEFSQLRKLTLKSLPQLR  277 (869)
Q Consensus       251 ~~~~~~~~~~~l~~L~~L~l~~~~~l~  277 (869)
                            .-...+++|++|++++|..+.
T Consensus       115 ------~l~~~~~~L~~L~ls~c~~~~  135 (284)
T d2astb2         115 ------TLLSSCSRLDELNLSWCFDFT  135 (284)
T ss_dssp             ------HHHHHCTTCCEEECCCCTTCC
T ss_pred             ------hhhHHHHhccccccccccccc
Confidence                  001235666666666665543

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=2.7e-11  Score=122.27  Aligned_cols=193  Identities=16%  Similarity=0.101  Sum_probs=125.8

Q ss_pred             CccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCC
Q 040040          174 LLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINN  253 (869)
Q Consensus       174 ~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~  253 (869)
                      .+.+.+.++. +++.+|.+   +  .+++++|+|+++ +++.+++ ..+.++++|++|+++++. ++.++.         
T Consensus        11 ~~~~v~C~~~-~L~~iP~~---l--p~~l~~L~Ls~N-~i~~l~~-~~f~~l~~L~~L~L~~N~-l~~l~~---------   72 (266)
T d1p9ag_          11 SHLEVNCDKR-NLTALPPD---L--PKDTTILHLSEN-LLYTFSL-ATLMPYTRLTQLNLDRAE-LTKLQV---------   72 (266)
T ss_dssp             TCCEEECTTS-CCSSCCSC---C--CTTCCEEECTTS-CCSEEEG-GGGTTCTTCCEEECTTSC-CCEEEC---------
T ss_pred             CCeEEEccCC-CCCeeCcC---c--CcCCCEEECcCC-cCCCcCH-HHhhcccccccccccccc-cccccc---------
Confidence            3444455544 56666643   1  257999999988 5887765 568889999999998874 666662         


Q ss_pred             ccccccccCCcccEEeccCCCCccccc-ccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccC
Q 040040          254 TEVIDKIEFSQLRKLTLKSLPQLRSFC-SVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFS  332 (869)
Q Consensus       254 ~~~~~~~~l~~L~~L~l~~~~~l~~~~-~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~  332 (869)
                           ...+++|++|+++++. +...+ ....+++|+.|+++++.+..+....+    ..+.++++|.+.++ .++.+ +
T Consensus        73 -----~~~l~~L~~L~Ls~N~-l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~----~~l~~l~~L~l~~n-~l~~l-~  140 (266)
T d1p9ag_          73 -----DGTLPVLGTLDLSHNQ-LQSLPLLGQTLPALTVLDVSFNRLTSLPLGAL----RGLGELQELYLKGN-ELKTL-P  140 (266)
T ss_dssp             -----CSCCTTCCEEECCSSC-CSSCCCCTTTCTTCCEEECCSSCCCCCCSSTT----TTCTTCCEEECTTS-CCCCC-C
T ss_pred             -----cccccccccccccccc-ccccccccccccccccccccccccceeecccc----cccccccccccccc-cccee-c
Confidence                 2347888888888754 44333 34567788888888877555433333    33777888888764 55554 4


Q ss_pred             hhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEcc
Q 040040          333 TSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMAK  407 (869)
Q Consensus       333 ~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~~  407 (869)
                      ...+..+++|+.|+++++ .++.++..        ....+++|++|+++++. ++++|.+.. .+++|+.|++.+
T Consensus       141 ~~~~~~l~~l~~l~l~~N-~l~~~~~~--------~~~~l~~L~~L~Ls~N~-L~~lp~~~~-~~~~L~~L~L~~  204 (266)
T d1p9ag_         141 PGLLTPTPKLEKLSLANN-NLTELPAG--------LLNGLENLDTLLLQENS-LYTIPKGFF-GSHLLPFAFLHG  204 (266)
T ss_dssp             TTTTTTCTTCCEEECTTS-CCSCCCTT--------TTTTCTTCCEEECCSSC-CCCCCTTTT-TTCCCSEEECCS
T ss_pred             cccccccccchhcccccc-cccccCcc--------ccccccccceeecccCC-CcccChhHC-CCCCCCEEEecC
Confidence            455667788888888774 56555332        23456778888887765 777765432 355666666654

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=3.6e-11  Score=122.79  Aligned_cols=210  Identities=15%  Similarity=0.146  Sum_probs=118.0

Q ss_pred             CceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEee
Q 040040          156 YLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTA  235 (869)
Q Consensus       156 ~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~  235 (869)
                      +++.+|...       .+.+++|+|+++ +++.++...  ...+++|++|+++++ +++.+++ .....+..++.+.+..
T Consensus        22 ~L~~iP~~i-------p~~~~~L~Ls~N-~i~~i~~~~--f~~l~~L~~L~ls~n-~l~~i~~-~~~~~~~~~~~l~~~~   89 (284)
T d1ozna_          22 GLQAVPVGI-------PAASQRIFLHGN-RISHVPAAS--FRACRNLTILWLHSN-VLARIDA-AAFTGLALLEQLDLSD   89 (284)
T ss_dssp             CCSSCCTTC-------CTTCSEEECTTS-CCCEECTTT--TTTCTTCCEEECCSS-CCCEECT-TTTTTCTTCCEEECCS
T ss_pred             CCCccCCCC-------CCCCCEEECcCC-cCCCCCHHH--hhccccccccccccc-ccccccc-cccccccccccccccc
Confidence            456665432       356778888877 677776543  336777888888776 3666644 3566677777777766


Q ss_pred             cCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccc--ccccCCCcCEEEeccccccccccCCCCCccccc
Q 040040          236 CKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFC--SVVAFPNLETLKLSAINSETIWHNQLPAMSSCI  313 (869)
Q Consensus       236 c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~--~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l  313 (869)
                      ...+..++.            ..+..+++|++|+++++.. ..++  .....++|+.++++++.++.+....+    ..+
T Consensus        90 ~~~~~~l~~------------~~~~~l~~L~~L~l~~n~~-~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f----~~~  152 (284)
T d1ozna_          90 NAQLRSVDP------------ATFHGLGRLHTLHLDRCGL-QELGPGLFRGLAALQYLYLQDNALQALPDDTF----RDL  152 (284)
T ss_dssp             CTTCCCCCT------------TTTTTCTTCCEEECTTSCC-CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTT----TTC
T ss_pred             ccccccccc------------hhhcccccCCEEecCCccc-ccccccccchhcccchhhhccccccccChhHh----ccc
Confidence            665655542            2234466777777766542 2221  23345666777777666555433322    235


Q ss_pred             CCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCc
Q 040040          314 QNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGN  393 (869)
Q Consensus       314 ~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~  393 (869)
                      ++|+.|+++++ .++.+ +...+..+++|+.+++.++ .+..+...        ....+++|+.|+++++. +..++...
T Consensus       153 ~~L~~L~l~~N-~l~~l-~~~~f~~l~~L~~l~l~~N-~l~~i~~~--------~f~~l~~L~~L~l~~N~-i~~~~~~~  220 (284)
T d1ozna_         153 GNLTHLFLHGN-RISSV-PERAFRGLHSLDRLLLHQN-RVAHVHPH--------AFRDLGRLMTLYLFANN-LSALPTEA  220 (284)
T ss_dssp             TTCCEEECCSS-CCCEE-CTTTTTTCTTCCEEECCSS-CCCEECTT--------TTTTCTTCCEEECCSSC-CSCCCHHH
T ss_pred             cchhhcccccC-ccccc-chhhhccccccchhhhhhc-cccccChh--------Hhhhhhhcccccccccc-cccccccc
Confidence            66667776664 45554 3344556666676666664 34333221        23455666666666654 44444333


Q ss_pred             ccCCCCccEEEEc
Q 040040          394 CIELPSLKQLRMA  406 (869)
Q Consensus       394 ~~~l~~L~~L~l~  406 (869)
                      ...+++|++|++.
T Consensus       221 ~~~~~~L~~L~l~  233 (284)
T d1ozna_         221 LAPLRALQYLRLN  233 (284)
T ss_dssp             HTTCTTCCEEECC
T ss_pred             cccccccCEEEec
Confidence            3334444444443

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.21  E-value=6.2e-11  Score=116.48  Aligned_cols=171  Identities=14%  Similarity=0.217  Sum_probs=87.5

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      .+.+|++|.+.++ +++.+. .     ...+++|++|+++++ .+.++..    ...+++|+++++++|. ++.+   +.
T Consensus        39 ~l~~L~~L~l~~~-~i~~l~-~-----l~~l~~L~~L~ls~n-~i~~~~~----l~~l~~l~~l~~~~n~-~~~i---~~  102 (227)
T d1h6ua2          39 DLDGITTLSAFGT-GVTTIE-G-----VQYLNNLIGLELKDN-QITDLAP----LKNLTKITELELSGNP-LKNV---SA  102 (227)
T ss_dssp             HHHTCCEEECTTS-CCCCCT-T-----GGGCTTCCEEECCSS-CCCCCGG----GTTCCSCCEEECCSCC-CSCC---GG
T ss_pred             HcCCcCEEECCCC-CCCcch-h-----HhcCCCCcEeecCCc-eeecccc----cccccccccccccccc-cccc---cc
Confidence            3566777777766 455542 2     245677777777766 4444321    3466777777777663 5544   34


Q ss_pred             hcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEecccccccc
Q 040040          222 SRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETI  301 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i  301 (869)
                      +.++++|+.+++++|... .+.              .+...+.++.+.+.++. +.........++|++|++++|.+...
T Consensus       103 l~~l~~L~~l~l~~~~~~-~~~--------------~~~~~~~~~~l~~~~~~-~~~~~~~~~~~~L~~L~l~~n~~~~~  166 (227)
T d1h6ua2         103 IAGLQSIKTLDLTSTQIT-DVT--------------PLAGLSNLQVLYLDLNQ-ITNISPLAGLTNLQYLSIGNAQVSDL  166 (227)
T ss_dssp             GTTCTTCCEEECTTSCCC-CCG--------------GGTTCTTCCEEECCSSC-CCCCGGGGGCTTCCEEECCSSCCCCC
T ss_pred             cccccccccccccccccc-ccc--------------hhccccchhhhhchhhh-hchhhhhccccccccccccccccccc
Confidence            566777777777665422 111              12234555555554433 22222334455555555555543221


Q ss_pred             ccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccc
Q 040040          302 WHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEG  355 (869)
Q Consensus       302 ~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~  355 (869)
                      .     . ++.+++|++|++++| .++++.+   +.++++|++|++++| .+++
T Consensus       167 ~-----~-l~~l~~L~~L~Ls~n-~l~~l~~---l~~l~~L~~L~Ls~N-~lt~  209 (227)
T d1h6ua2         167 T-----P-LANLSKLTTLKADDN-KISDISP---LASLPNLIEVHLKNN-QISD  209 (227)
T ss_dssp             G-----G-GTTCTTCCEEECCSS-CCCCCGG---GGGCTTCCEEECTTS-CCCB
T ss_pred             h-----h-hcccccceecccCCC-ccCCChh---hcCCCCCCEEECcCC-cCCC
Confidence            1     0 223555555555554 3444311   345555555555554 3443

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.21  E-value=2.9e-12  Score=130.67  Aligned_cols=87  Identities=13%  Similarity=0.015  Sum_probs=49.6

Q ss_pred             ccccEEEEeccC-CcccccchhHHhhcCCccEEEEcccCCccccccccccCccccccccccccceeeccccccccccccc
Q 040040          438 CKLKLMEVIFCK-SLWTIFPHNMFARFLKLQSLIVGACGSLEEIFNLQELNSEETHSGAVSRLRELHVFCLPKLTKIWNK  516 (869)
Q Consensus       438 ~~L~~L~l~~c~-~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~  516 (869)
                      ++|+.|++++|. .+++......+.++++|++|++++|..++.-.      ...+  ..+++|++|++++|+.++.-   
T Consensus       148 ~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~------~~~l--~~~~~L~~L~L~~C~~i~~~---  216 (284)
T d2astb2         148 ETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDC------FQEF--FQLNYLQHLSLSRCYDIIPE---  216 (284)
T ss_dssp             TTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGG------GGGG--GGCTTCCEEECTTCTTCCGG---
T ss_pred             cccchhhhcccccccccccccccccccccccccccccccCCCchh------hhhh--cccCcCCEEECCCCCCCChH---
Confidence            566677776653 23222122344567777777777776654311      0111  35667777777777666432   


Q ss_pred             CCCCcccCCCccEEEEecC
Q 040040          517 DPRGKLIFPNLVLVRIFEC  535 (869)
Q Consensus       517 ~p~~~~~l~~L~~L~l~~c  535 (869)
                      ....+.++++|++|++++|
T Consensus       217 ~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         217 TLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             GGGGGGGCTTCCEEECTTS
T ss_pred             HHHHHhcCCCCCEEeeeCC
Confidence            1234566777777777776

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=1.5e-10  Score=115.07  Aligned_cols=86  Identities=21%  Similarity=0.236  Sum_probs=49.2

Q ss_pred             CCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhc
Q 040040          144 PSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISR  223 (869)
Q Consensus       144 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~  223 (869)
                      +++++|+++++ .++.++...    +..+++|++|+++++.....++...  ...+++++++.+..+.++...++ ..+.
T Consensus        29 ~~l~~L~Ls~n-~i~~l~~~~----f~~l~~L~~L~ls~n~~~~~i~~~~--f~~l~~l~~l~~~~~n~l~~~~~-~~~~  100 (242)
T d1xwdc1          29 RNAIELRFVLT-KLRVIQKGA----FSGFGDLEKIEISQNDVLEVIEADV--FSNLPKLHEIRIEKANNLLYINP-EAFQ  100 (242)
T ss_dssp             SCCSEEEEESC-CCCEECTTT----TTTCTTCCEEEEESCTTCCEECSSS--EESCTTCCEEEEECCTTCCEECT-TSEE
T ss_pred             CCCCEEECcCC-cCCccChhH----hhccchhhhhhhccccccceeeccc--ccccccccccccccccccccccc-cccc
Confidence            46677777766 566665432    2456667777776663333333222  22456666666666655655544 3456


Q ss_pred             CCCCCcEEEEeecC
Q 040040          224 GLPQLQTIKVTACK  237 (869)
Q Consensus       224 ~L~~L~~L~l~~c~  237 (869)
                      ++++|++++++++.
T Consensus       101 ~l~~L~~l~l~~~~  114 (242)
T d1xwdc1         101 NLPNLQYLLISNTG  114 (242)
T ss_dssp             CCTTCCEEEEESCC
T ss_pred             ccccccccccchhh
Confidence            66677777776653

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.19  E-value=1.8e-10  Score=113.06  Aligned_cols=189  Identities=16%  Similarity=0.234  Sum_probs=142.3

Q ss_pred             HHhccCceeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccc
Q 040040          115 TQLKGLEELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQL  194 (869)
Q Consensus       115 ~~l~~l~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~  194 (869)
                      ..+.+++.|++.++ +++.+ ..+  ..+++|++|+++++ .+..+..      ...+++|++++++++ .++.++.   
T Consensus        38 ~~l~~L~~L~l~~~-~i~~l-~~l--~~l~~L~~L~ls~n-~i~~~~~------l~~l~~l~~l~~~~n-~~~~i~~---  102 (227)
T d1h6ua2          38 ADLDGITTLSAFGT-GVTTI-EGV--QYLNNLIGLELKDN-QITDLAP------LKNLTKITELELSGN-PLKNVSA---  102 (227)
T ss_dssp             HHHHTCCEEECTTS-CCCCC-TTG--GGCTTCCEEECCSS-CCCCCGG------GTTCCSCCEEECCSC-CCSCCGG---
T ss_pred             HHcCCcCEEECCCC-CCCcc-hhH--hcCCCCcEeecCCc-eeecccc------ccccccccccccccc-ccccccc---
Confidence            34688999999885 45544 334  67999999999998 5554432      368999999999988 4555542   


Q ss_pred             cccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCC
Q 040040          195 RAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLP  274 (869)
Q Consensus       195 ~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  274 (869)
                       ...+++|+++++++|. ....   ..+...+.++.+.++++.. ....              .+...++|++|++.++.
T Consensus       103 -l~~l~~L~~l~l~~~~-~~~~---~~~~~~~~~~~l~~~~~~~-~~~~--------------~~~~~~~L~~L~l~~n~  162 (227)
T d1h6ua2         103 -IAGLQSIKTLDLTSTQ-ITDV---TPLAGLSNLQVLYLDLNQI-TNIS--------------PLAGLTNLQYLSIGNAQ  162 (227)
T ss_dssp             -GTTCTTCCEEECTTSC-CCCC---GGGTTCTTCCEEECCSSCC-CCCG--------------GGGGCTTCCEEECCSSC
T ss_pred             -cccccccccccccccc-cccc---chhccccchhhhhchhhhh-chhh--------------hhccccccccccccccc
Confidence             4578999999999985 4443   3567788999999987653 2222              34557899999998864


Q ss_pred             CcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEec
Q 040040          275 QLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRK  349 (869)
Q Consensus       275 ~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~  349 (869)
                       +...+.+..+++|++|++++|.++.+     +. ++.+++|++|++++| .++.+.+   ++++++|+.|++++
T Consensus       163 -~~~~~~l~~l~~L~~L~Ls~n~l~~l-----~~-l~~l~~L~~L~Ls~N-~lt~i~~---l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         163 -VSDLTPLANLSKLTTLKADDNKISDI-----SP-LASLPNLIEVHLKNN-QISDVSP---LANTSNLFIVTLTN  226 (227)
T ss_dssp             -CCCCGGGTTCTTCCEEECCSSCCCCC-----GG-GGGCTTCCEEECTTS-CCCBCGG---GTTCTTCCEEEEEE
T ss_pred             -cccchhhcccccceecccCCCccCCC-----hh-hcCCCCCCEEECcCC-cCCCCcc---cccCCCCCEEEeeC
Confidence             55556677899999999999986653     22 456899999999997 6888733   78999999999975

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.18  E-value=1.5e-10  Score=111.95  Aligned_cols=165  Identities=18%  Similarity=0.214  Sum_probs=96.2

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      +.+|++|++.++ .++.+..      ...+++|++|+++++ ++++++.    .+.+++|++|++++| +++.+   +.+
T Consensus        45 L~~L~~L~l~~~-~i~~l~~------l~~l~~L~~L~L~~n-~i~~l~~----~~~l~~L~~L~l~~n-~i~~l---~~l  108 (210)
T d1h6ta2          45 LNSIDQIIANNS-DIKSVQG------IQYLPNVTKLFLNGN-KLTDIKP----LANLKNLGWLFLDEN-KVKDL---SSL  108 (210)
T ss_dssp             HHTCCEEECTTS-CCCCCTT------GGGCTTCCEEECCSS-CCCCCGG----GTTCTTCCEEECCSS-CCCCG---GGG
T ss_pred             hcCccEEECcCC-CCCCchh------HhhCCCCCEEeCCCc-cccCccc----cccCccccccccccc-ccccc---ccc
Confidence            456677777666 4444431      245677777777776 4555432    346777777777776 46655   246


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIW  302 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~  302 (869)
                      ..+++|+.|+++++.. ..++              .+..+++++.++++++ .+...+....+++|+++++++|.+..+.
T Consensus       109 ~~l~~L~~L~l~~~~~-~~~~--------------~l~~l~~l~~l~~~~n-~l~~~~~~~~l~~L~~l~l~~n~l~~i~  172 (210)
T d1h6ta2         109 KDLKKLKSLSLEHNGI-SDIN--------------GLVHLPQLESLYLGNN-KITDITVLSRLTKLDTLSLEDNQISDIV  172 (210)
T ss_dssp             TTCTTCCEEECTTSCC-CCCG--------------GGGGCTTCCEEECCSS-CCCCCGGGGGCTTCSEEECCSSCCCCCG
T ss_pred             cccccccccccccccc-cccc--------------cccccccccccccccc-cccccccccccccccccccccccccccc
Confidence            6777777777776642 2222              2334566666666553 3444444555666777777666644321


Q ss_pred             cCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEec
Q 040040          303 HNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRK  349 (869)
Q Consensus       303 ~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~  349 (869)
                           . +..+++|++|++++| .++++ +  .+.++++|++|+|++
T Consensus       173 -----~-l~~l~~L~~L~Ls~N-~i~~l-~--~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         173 -----P-LAGLTKLQNLYLSKN-HISDL-R--ALAGLKNLDVLELFS  209 (210)
T ss_dssp             -----G-GTTCTTCCEEECCSS-CCCBC-G--GGTTCTTCSEEEEEE
T ss_pred             -----c-ccCCCCCCEEECCCC-CCCCC-h--hhcCCCCCCEEEccC
Confidence                 1 234666777777664 45554 2  255666777776654

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.18  E-value=3.5e-10  Score=112.31  Aligned_cols=226  Identities=16%  Similarity=0.134  Sum_probs=150.7

Q ss_pred             cEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCC
Q 040040          147 KLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLP  226 (869)
Q Consensus       147 ~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~  226 (869)
                      ++++.++. +++.+|...       ++++++|+++++ +++.++.+.+  ..+++|++|+++++.....+++ ..+.+++
T Consensus        11 ~~i~c~~~-~l~~iP~~l-------~~~l~~L~Ls~n-~i~~l~~~~f--~~l~~L~~L~ls~n~~~~~i~~-~~f~~l~   78 (242)
T d1xwdc1          11 RVFLCQES-KVTEIPSDL-------PRNAIELRFVLT-KLRVIQKGAF--SGFGDLEKIEISQNDVLEVIEA-DVFSNLP   78 (242)
T ss_dssp             SEEEEESC-SCSSCCSCS-------CSCCSEEEEESC-CCCEECTTTT--TTCTTCCEEEEESCTTCCEECS-SSEESCT
T ss_pred             CEEEEeCC-CCCCcCCCC-------CCCCCEEECcCC-cCCccChhHh--hccchhhhhhhccccccceeec-ccccccc
Confidence            56666664 677777532       468999999988 6888876543  4789999999999975554433 5678899


Q ss_pred             CCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEE---ecccccccccc
Q 040040          227 QLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLK---LSAINSETIWH  303 (869)
Q Consensus       227 ~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~---L~~~~l~~i~~  303 (869)
                      +++++.+..+..+..++.            ..+..+++|+++++.++ .+...+....+.+++.+.   ..++.+..+..
T Consensus        79 ~l~~l~~~~~n~l~~~~~------------~~~~~l~~L~~l~l~~~-~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~  145 (242)
T d1xwdc1          79 KLHEIRIEKANNLLYINP------------EAFQNLPNLQYLLISNT-GIKHLPDVHKIHSLQKVLLDIQDNINIHTIER  145 (242)
T ss_dssp             TCCEEEEECCTTCCEECT------------TSEECCTTCCEEEEESC-CCCSCCCCTTTCBSSCEEEEEESCTTCCEECT
T ss_pred             cccccccccccccccccc------------ccccccccccccccchh-hhcccccccccccccccccccccccccccccc
Confidence            999999998877776662            22456889999999885 455555544445555444   44444555544


Q ss_pred             CCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEeccccccccccccccccccccccccCccceeecccC
Q 040040          304 NQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDL  383 (869)
Q Consensus       304 ~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~  383 (869)
                      ..+..   ....++.|++.+ +.++.+ +.. +...++++++....+..+++++..        ....+++|+.|+++++
T Consensus       146 ~~~~~---~~~~l~~L~l~~-n~l~~i-~~~-~~~~~~l~~~~~l~~n~l~~l~~~--------~f~~l~~L~~L~Ls~N  211 (242)
T d1xwdc1         146 NSFVG---LSFESVILWLNK-NGIQEI-HNC-AFNGTQLDELNLSDNNNLEELPND--------VFHGASGPVILDISRT  211 (242)
T ss_dssp             TSSTT---SBSSCEEEECCS-SCCCEE-CTT-TTTTCCEEEEECTTCTTCCCCCTT--------TTTTSCCCSEEECTTS
T ss_pred             ccccc---ccccceeeeccc-cccccc-ccc-cccchhhhccccccccccccccHH--------HhcCCCCCCEEECCCC
Confidence            44433   124788888876 466665 323 334567777766666678776532        2456899999999987


Q ss_pred             ccccccCCCcccCCCCccEEEEccCCcccccc
Q 040040          384 AKLTRFCSGNCIELPSLKQLRMAKCPELKAFI  415 (869)
Q Consensus       384 ~~L~~l~~~~~~~l~~L~~L~l~~c~~l~~l~  415 (869)
                      . ++.++...+..++.|+.+++   .+++.+|
T Consensus       212 ~-l~~l~~~~~~~l~~L~~l~~---~~l~~lp  239 (242)
T d1xwdc1         212 R-IHSLPSYGLENLKKLRARST---YNLKKLP  239 (242)
T ss_dssp             C-CCCCCSSSCTTCCEEESSSE---ESSSCSC
T ss_pred             c-CCccCHHHHcCCcccccCcC---CCCCcCC
Confidence            6 88888765544555554444   4455555

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.17  E-value=1.5e-10  Score=110.85  Aligned_cols=161  Identities=16%  Similarity=0.222  Sum_probs=91.2

Q ss_pred             CCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhh
Q 040040          143 FPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSIS  222 (869)
Q Consensus       143 ~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~  222 (869)
                      ++++++|++.++ +++.+..      ...+++|++|+++++ .++.++.    ++.+++|++|++++|. +..++   .+
T Consensus        39 l~~l~~L~l~~~-~i~~l~~------l~~l~nL~~L~Ls~N-~l~~~~~----l~~l~~L~~L~l~~n~-~~~~~---~l  102 (199)
T d2omxa2          39 LDQVTTLQADRL-GIKSIDG------VEYLNNLTQINFSNN-QLTDITP----LKNLTKLVDILMNNNQ-IADIT---PL  102 (199)
T ss_dssp             HTTCCEEECTTS-CCCCCTT------GGGCTTCCEEECCSS-CCCCCGG----GTTCTTCCEEECCSSC-CCCCG---GG
T ss_pred             hcCCCEEECCCC-CCCCccc------cccCCCcCcCccccc-cccCccc----ccCCcccccccccccc-ccccc---cc
Confidence            567777887776 5554421      245777777777776 5655432    4467777777777774 44442   46


Q ss_pred             cCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccc
Q 040040          223 RGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIW  302 (869)
Q Consensus       223 ~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~  302 (869)
                      +++++|+.|+++++... .+.              .+..+++|+.|+++++. +..++.+..+++|++|++.+|.++.+.
T Consensus       103 ~~l~~L~~L~l~~~~~~-~~~--------------~~~~l~~L~~L~l~~n~-l~~~~~l~~~~~L~~L~l~~n~l~~l~  166 (199)
T d2omxa2         103 ANLTNLTGLTLFNNQIT-DID--------------PLKNLTNLNRLELSSNT-ISDISALSGLTSLQQLNFSSNQVTDLK  166 (199)
T ss_dssp             TTCTTCSEEECCSSCCC-CCG--------------GGTTCTTCSEEECCSSC-CCCCGGGTTCTTCSEEECCSSCCCCCG
T ss_pred             ccccccccccccccccc-ccc--------------ccchhhhhHHhhhhhhh-hcccccccccccccccccccccccCCc
Confidence            67777777777765532 111              23346666666666543 444444555566666666665543321


Q ss_pred             cCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEE
Q 040040          303 HNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHL  345 (869)
Q Consensus       303 ~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L  345 (869)
                           . ++.+++|++|++++| .++++ +  .+..+++|++|
T Consensus       167 -----~-l~~l~~L~~L~ls~N-~i~~i-~--~l~~L~~L~~L  199 (199)
T d2omxa2         167 -----P-LANLTTLERLDISSN-KVSDI-S--VLAKLTNLESL  199 (199)
T ss_dssp             -----G-GTTCTTCCEEECCSS-CCCCC-G--GGGGCTTCSEE
T ss_pred             -----c-ccCCCCCCEEECCCC-CCCCC-c--cccCCCCCCcC
Confidence                 1 233555666666554 34443 1  14455555543

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.11  E-value=3.8e-10  Score=109.04  Aligned_cols=120  Identities=16%  Similarity=0.217  Sum_probs=52.1

Q ss_pred             CCcccEEeccCCCCcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCC
Q 040040          262 FSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQ  341 (869)
Q Consensus       262 l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~  341 (869)
                      +++|++|+++++ .++.++....+++|+.|+++++.+..+     + ....+++++.++++++ .+++.   .....+++
T Consensus        89 l~~L~~L~l~~n-~i~~l~~l~~l~~L~~L~l~~~~~~~~-----~-~l~~l~~l~~l~~~~n-~l~~~---~~~~~l~~  157 (210)
T d1h6ta2          89 LKNLGWLFLDEN-KVKDLSSLKDLKKLKSLSLEHNGISDI-----N-GLVHLPQLESLYLGNN-KITDI---TVLSRLTK  157 (210)
T ss_dssp             CTTCCEEECCSS-CCCCGGGGTTCTTCCEEECTTSCCCCC-----G-GGGGCTTCCEEECCSS-CCCCC---GGGGGCTT
T ss_pred             Cccccccccccc-ccccccccccccccccccccccccccc-----c-cccccccccccccccc-ccccc---cccccccc
Confidence            444444444443 233344444445555555554442221     1 1223445555555443 23322   12344555


Q ss_pred             ccEEEEeccccccccccccccccccccccccCccceeecccCccccccCCCcccCCCCccEEEEc
Q 040040          342 LQHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSGNCIELPSLKQLRMA  406 (869)
Q Consensus       342 L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~~~~~l~~L~~L~l~  406 (869)
                      |+.++++++ .++.+.          ....+++|++|+++++. +++++.  ...+++|+.|+++
T Consensus       158 L~~l~l~~n-~l~~i~----------~l~~l~~L~~L~Ls~N~-i~~l~~--l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         158 LDTLSLEDN-QISDIV----------PLAGLTKLQNLYLSKNH-ISDLRA--LAGLKNLDVLELF  208 (210)
T ss_dssp             CSEEECCSS-CCCCCG----------GGTTCTTCCEEECCSSC-CCBCGG--GTTCTTCSEEEEE
T ss_pred             ccccccccc-cccccc----------cccCCCCCCEEECCCCC-CCCChh--hcCCCCCCEEEcc
Confidence            555555553 333321          12345555555555543 444431  2234555555553

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.10  E-value=4e-10  Score=107.83  Aligned_cols=145  Identities=20%  Similarity=0.227  Sum_probs=79.4

Q ss_pred             CCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccc
Q 040040          171 AFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDD  250 (869)
Q Consensus       171 ~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~  250 (869)
                      .++++++|+++++ +++.+..    +..+++|++|++++| +++.++   .++++++|++|+++++. +..++       
T Consensus        38 ~l~~l~~L~l~~~-~i~~l~~----l~~l~nL~~L~Ls~N-~l~~~~---~l~~l~~L~~L~l~~n~-~~~~~-------  100 (199)
T d2omxa2          38 DLDQVTTLQADRL-GIKSIDG----VEYLNNLTQINFSNN-QLTDIT---PLKNLTKLVDILMNNNQ-IADIT-------  100 (199)
T ss_dssp             HHTTCCEEECTTS-CCCCCTT----GGGCTTCCEEECCSS-CCCCCG---GGTTCTTCCEEECCSSC-CCCCG-------
T ss_pred             HhcCCCEEECCCC-CCCCccc----cccCCCcCcCccccc-cccCcc---cccCCcccccccccccc-ccccc-------
Confidence            3556777777776 4554421    346777777777776 466553   36677777777777654 23332       


Q ss_pred             cCCccccccccCCcccEEeccCCCCcccccccccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccc
Q 040040          251 INNTEVIDKIEFSQLRKLTLKSLPQLRSFCSVVAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFL  330 (869)
Q Consensus       251 ~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l  330 (869)
                             .+..+++|+.|+++++.. ........+++|+.|++++|.+..+     + .+..+++|+.|++.+| .++++
T Consensus       101 -------~l~~l~~L~~L~l~~~~~-~~~~~~~~l~~L~~L~l~~n~l~~~-----~-~l~~~~~L~~L~l~~n-~l~~l  165 (199)
T d2omxa2         101 -------PLANLTNLTGLTLFNNQI-TDIDPLKNLTNLNRLELSSNTISDI-----S-ALSGLTSLQQLNFSSN-QVTDL  165 (199)
T ss_dssp             -------GGTTCTTCSEEECCSSCC-CCCGGGTTCTTCSEEECCSSCCCCC-----G-GGTTCTTCSEEECCSS-CCCCC
T ss_pred             -------cccccccccccccccccc-ccccccchhhhhHHhhhhhhhhccc-----c-cccccccccccccccc-cccCC
Confidence                   233466666666665443 2333344556666666666653321     1 1223556666666553 34443


Q ss_pred             cChhhHhccCCccEEEEecc
Q 040040          331 FSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       331 ~~~~~~~~L~~L~~L~l~~c  350 (869)
                      .   .++++++|++|+++++
T Consensus       166 ~---~l~~l~~L~~L~ls~N  182 (199)
T d2omxa2         166 K---PLANLTTLERLDISSN  182 (199)
T ss_dssp             G---GGTTCTTCCEEECCSS
T ss_pred             c---cccCCCCCCEEECCCC
Confidence            1   1455566666666554

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.68  E-value=1.7e-08  Score=92.12  Aligned_cols=83  Identities=16%  Similarity=0.253  Sum_probs=50.4

Q ss_pred             CCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhh
Q 040040          142 GFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSI  221 (869)
Q Consensus       142 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  221 (869)
                      ++.++|.|+++++ +++.++..+     ..+++|++|+++++ .++.++.    ...+++|++|++++|. ++.+++ ..
T Consensus        16 n~~~lr~L~L~~n-~I~~i~~~~-----~~l~~L~~L~Ls~N-~i~~l~~----~~~l~~L~~L~ls~N~-i~~l~~-~~   82 (162)
T d1a9na_          16 NAVRDRELDLRGY-KIPVIENLG-----ATLDQFDAIDFSDN-EIRKLDG----FPLLRRLKTLLVNNNR-ICRIGE-GL   82 (162)
T ss_dssp             CTTSCEEEECTTS-CCCSCCCGG-----GGTTCCSEEECCSS-CCCEECC----CCCCSSCCEEECCSSC-CCEECS-CH
T ss_pred             CcCcCcEEECCCC-CCCccCccc-----cccccCCEEECCCC-CCCccCC----cccCcchhhhhccccc-ccCCCc-cc
Confidence            4556777777776 566664322     35667777777776 5555531    3356777777777763 666544 23


Q ss_pred             hcCCCCCcEEEEeecC
Q 040040          222 SRGLPQLQTIKVTACK  237 (869)
Q Consensus       222 ~~~L~~L~~L~l~~c~  237 (869)
                      +..+++|++|+++++.
T Consensus        83 ~~~l~~L~~L~L~~N~   98 (162)
T d1a9na_          83 DQALPDLTELILTNNS   98 (162)
T ss_dssp             HHHCTTCCEEECCSCC
T ss_pred             cccccccccceecccc
Confidence            4566677777776653

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.64  E-value=6.4e-08  Score=83.69  Aligned_cols=53  Identities=17%  Similarity=0.249  Sum_probs=29.5

Q ss_pred             cEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeec
Q 040040          176 ESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTAC  236 (869)
Q Consensus       176 ~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  236 (869)
                      |+|+++++ +++.++.    .+.+++|++|+++++ +++.+|+  .++.+++|++|+++++
T Consensus         1 R~L~Ls~n-~l~~l~~----l~~l~~L~~L~ls~N-~l~~lp~--~~~~l~~L~~L~l~~N   53 (124)
T d1dcea3           1 RVLHLAHK-DLTVLCH----LEQLLLVTHLDLSHN-RLRALPP--ALAALRCLEVLQASDN   53 (124)
T ss_dssp             SEEECTTS-CCSSCCC----GGGGTTCCEEECCSS-CCCCCCG--GGGGCTTCCEEECCSS
T ss_pred             CEEEcCCC-CCCCCcc----cccCCCCCEEECCCC-ccCcchh--hhhhhhcccccccccc
Confidence            34555555 4444432    335666666666665 3565543  4566666666666653

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.63  E-value=6e-08  Score=83.89  Aligned_cols=99  Identities=16%  Similarity=0.139  Sum_probs=63.8

Q ss_pred             CEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCccccccc
Q 040040          203 RNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLRSFCSV  282 (869)
Q Consensus       203 ~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~  282 (869)
                      |+|+++++ +++.++   .++++++|++|+++++. ++.+|             ..+..+++|+.|++++ ..++.++.+
T Consensus         1 R~L~Ls~n-~l~~l~---~l~~l~~L~~L~ls~N~-l~~lp-------------~~~~~l~~L~~L~l~~-N~i~~l~~~   61 (124)
T d1dcea3           1 RVLHLAHK-DLTVLC---HLEQLLLVTHLDLSHNR-LRALP-------------PALAALRCLEVLQASD-NALENVDGV   61 (124)
T ss_dssp             SEEECTTS-CCSSCC---CGGGGTTCCEEECCSSC-CCCCC-------------GGGGGCTTCCEEECCS-SCCCCCGGG
T ss_pred             CEEEcCCC-CCCCCc---ccccCCCCCEEECCCCc-cCcch-------------hhhhhhhccccccccc-ccccccCcc
Confidence            68899988 577764   47788999999998754 66776             3345577777777777 356666666


Q ss_pred             ccCCCcCEEEeccccccccccCCCCCcccccCCceEEEEec
Q 040040          283 VAFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHG  323 (869)
Q Consensus       283 ~~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~  323 (869)
                      ..+++|++|++++|.+..+..   ....+.+++|+.|++++
T Consensus        62 ~~l~~L~~L~l~~N~i~~~~~---~~~l~~~~~L~~L~l~~   99 (124)
T d1dcea3          62 ANLPRLQELLLCNNRLQQSAA---IQPLVSCPRLVLLNLQG   99 (124)
T ss_dssp             TTCSSCCEEECCSSCCCSSST---TGGGGGCTTCCEEECTT
T ss_pred             ccccccCeEECCCCccCCCCC---chhhcCCCCCCEEECCC
Confidence            666677777776665443211   01123355555665554

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.57  E-value=2.9e-08  Score=90.56  Aligned_cols=82  Identities=18%  Similarity=0.231  Sum_probs=44.7

Q ss_pred             ccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcc
Q 040040          198 SFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLR  277 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~  277 (869)
                      +..+||+|+++++ +++.++.  ....+++|++|+++++. ++.++              .+..+++|++|+++++. +.
T Consensus        16 n~~~lr~L~L~~n-~I~~i~~--~~~~l~~L~~L~Ls~N~-i~~l~--------------~~~~l~~L~~L~ls~N~-i~   76 (162)
T d1a9na_          16 NAVRDRELDLRGY-KIPVIEN--LGATLDQFDAIDFSDNE-IRKLD--------------GFPLLRRLKTLLVNNNR-IC   76 (162)
T ss_dssp             CTTSCEEEECTTS-CCCSCCC--GGGGTTCCSEEECCSSC-CCEEC--------------CCCCCSSCCEEECCSSC-CC
T ss_pred             CcCcCcEEECCCC-CCCccCc--cccccccCCEEECCCCC-CCccC--------------CcccCcchhhhhccccc-cc
Confidence            4567788888877 4776643  44667777777777753 44443              12335555555555543 33


Q ss_pred             cccc--cccCCCcCEEEeccccc
Q 040040          278 SFCS--VVAFPNLETLKLSAINS  298 (869)
Q Consensus       278 ~~~~--~~~l~~L~~L~L~~~~l  298 (869)
                      .++.  ...+++|++|++++|.+
T Consensus        77 ~l~~~~~~~l~~L~~L~L~~N~i   99 (162)
T d1a9na_          77 RIGEGLDQALPDLTELILTNNSL   99 (162)
T ss_dssp             EECSCHHHHCTTCCEEECCSCCC
T ss_pred             CCCccccccccccccceeccccc
Confidence            3322  12344555555555443

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.39  E-value=7.4e-09  Score=98.27  Aligned_cols=38  Identities=11%  Similarity=0.197  Sum_probs=22.7

Q ss_pred             ccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecC
Q 040040          196 AESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       196 ~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  237 (869)
                      ...+++|++|+++++ +++.++   .++++++|++|++++|.
T Consensus        44 l~~L~~L~~L~Ls~n-~I~~i~---~l~~l~~L~~L~Ls~N~   81 (198)
T d1m9la_          44 LSTLKACKHLALSTN-NIEKIS---SLSGMENLRILSLGRNL   81 (198)
T ss_dssp             HHHTTTCCEEECSEE-EESCCC---CHHHHTTCCEEECCEEE
T ss_pred             HhcccccceeECccc-CCCCcc---cccCCccccChhhcccc
Confidence            345666667776666 355552   35566666777766653

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.39  E-value=7.6e-07  Score=83.81  Aligned_cols=36  Identities=19%  Similarity=0.259  Sum_probs=17.6

Q ss_pred             cCCCcCEEEeccccccccccCCCCCcccccCCceEEEEec
Q 040040          284 AFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHG  323 (869)
Q Consensus       284 ~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~  323 (869)
                      .+++|++|+|++|.++.+..+.+..    +++|++|++++
T Consensus       100 ~l~~L~~L~L~~N~l~~i~~~~f~~----l~~L~~l~L~~  135 (192)
T d1w8aa_         100 GLHQLKTLNLYDNQISCVMPGSFEH----LNSLTSLNLAS  135 (192)
T ss_dssp             TCTTCCEEECCSSCCCEECTTSSTT----CTTCCEEECTT
T ss_pred             CCCcccccccCCccccccCHHHhcC----Ccccccccccc
Confidence            3455555555555544443333322    55555555554

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.37  E-value=2.3e-07  Score=87.52  Aligned_cols=98  Identities=16%  Similarity=0.159  Sum_probs=51.6

Q ss_pred             cccceeeeecccceeee-ccc---cccceEEEeecCCCccchHHHHHhccccceEEEE------EE-ecccccccccEEE
Q 040040          623 PNLEELTLSKYIFTTWR-QAQ---FHKLKILHFISDGSDFFQVGLLQNIHNLEKLVLK------VE-EHAEGIAQIKSLK  691 (869)
Q Consensus       623 ~~L~~L~l~~~~~~~~~-~~~---~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~------~~-~~~~~~~~L~~L~  691 (869)
                      +++++|+|++|.+.... ...   +++|+.|++.+|....++...+..+++|++|+++      +. ..+.++++|++|+
T Consensus        29 ~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~  108 (192)
T d1w8aa_          29 LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLN  108 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEE
T ss_pred             CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccccccCHHHHhCCCcccccc
Confidence            44555555555554322 111   3445555553333333333444455555555554      11 2234466777777


Q ss_pred             cCccccccccccCCCCCcccccCCccEEEEeccc
Q 040040          692 LNKLWFIKEHLWNPDSKLDSFLQNLEFLEVKECA  725 (869)
Q Consensus       692 l~~~~~L~~~l~~~~~~~~~~l~~L~~L~l~~c~  725 (869)
                      |+++ .++ .+.   +.....+++|++|++++++
T Consensus       109 L~~N-~l~-~i~---~~~f~~l~~L~~l~L~~N~  137 (192)
T d1w8aa_         109 LYDN-QIS-CVM---PGSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             CCSS-CCC-EEC---TTSSTTCTTCCEEECTTCC
T ss_pred             cCCc-ccc-ccC---HHHhcCCcccccccccccc
Confidence            7774 455 442   2335678888899998886

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.20  E-value=3.4e-08  Score=107.77  Aligned_cols=61  Identities=18%  Similarity=0.257  Sum_probs=32.2

Q ss_pred             CccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCC---hhhhcCCCCCcEEEEeecC
Q 040040          174 LLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFS---FSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       174 ~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~---~~~~~~L~~L~~L~l~~c~  237 (869)
                      +|++|++++. ++.+...... ...++++|+|+|++|. ++....   ...+..+++|++|+++++.
T Consensus         3 ~l~~ld~~~~-~i~~~~~~~l-~~~l~~l~~L~L~~~~-i~~~~~~~l~~~L~~~~~L~~LdLs~N~   66 (460)
T d1z7xw1           3 DIQSLDIQCE-ELSDARWAEL-LPLLQQCQVVRLDDCG-LTEARCKDISSALRVNPALAELNLRSNE   66 (460)
T ss_dssp             EEEEEEEESC-CCCHHHHHHH-HHHHTTCSEEEEESSC-CCHHHHHHHHHHHHTCTTCCEEECTTCC
T ss_pred             CCCEEEeeCC-cCChHHHHHH-HHhCCCCCEEEeCCCC-CCHHHHHHHHHHHhcCCCCCEEECcCCc
Confidence            5677777654 4544221111 2356777777777773 442100   0134566677777776653

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.15  E-value=8.7e-08  Score=90.65  Aligned_cols=127  Identities=12%  Similarity=0.096  Sum_probs=64.9

Q ss_pred             cCCCCEEEecC-CCCCcccCChhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCCCCcc
Q 040040          199 FLRLRNLKVES-CEKLTHIFSFSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSLPQLR  277 (869)
Q Consensus       199 l~~L~~L~L~~-c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~  277 (869)
                      ....+.+++.+ .+.++.++  ..++.+++|++|+++++. ++.++              .+..+++|++|+++++ .++
T Consensus        22 ~~~~~~~~l~~~~~~i~~l~--~sl~~L~~L~~L~Ls~n~-I~~i~--------------~l~~l~~L~~L~Ls~N-~i~   83 (198)
T d1m9la_          22 ATEAEKVELHGMIPPIEKMD--ATLSTLKACKHLALSTNN-IEKIS--------------SLSGMENLRILSLGRN-LIK   83 (198)
T ss_dssp             CTTCSCEECCBCCTTCCCCH--HHHHHTTTCCEEECSEEE-ESCCC--------------CHHHHTTCCEEECCEE-EEC
T ss_pred             ccccceeeeecccCchhhhh--hHHhcccccceeECcccC-CCCcc--------------cccCCccccChhhccc-ccc
Confidence            34455566654 33455443  367778888888887754 44333              2334666666666654 244


Q ss_pred             cccccc-cCCCcCEEEeccccccccccCCCCCcccccCCceEEEEecCCCCccccChhhHhccCCccEEEEecc
Q 040040          278 SFCSVV-AFPNLETLKLSAINSETIWHNQLPAMSSCIQNLTRLIVHGCNNLKFLFSTSLVRSFVQLQHLEIRKC  350 (869)
Q Consensus       278 ~~~~~~-~l~~L~~L~L~~~~l~~i~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~~L~l~~c  350 (869)
                      .++... .+++|++|++++|.++.+.     . +..+++|+.|+++++ .++++.....+..+++|+.|+++++
T Consensus        84 ~i~~~~~~~~~L~~L~l~~N~i~~l~-----~-~~~l~~L~~L~L~~N-~i~~~~~~~~l~~l~~L~~L~L~~N  150 (198)
T d1m9la_          84 KIENLDAVADTLEELWISYNQIASLS-----G-IEKLVNLRVLYMSNN-KITNWGEIDKLAALDKLEDLLLAGN  150 (198)
T ss_dssp             SCSSHHHHHHHCCEEECSEEECCCHH-----H-HHHHHHSSEEEESEE-ECCCHHHHHHHTTTTTCSEEEECSS
T ss_pred             cccccccccccccccccccccccccc-----c-ccccccccccccccc-hhccccccccccCCCccceeecCCC
Confidence            443322 2345666666665544321     0 223555666666553 3333211123455555666665553

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.00  E-value=1.3e-07  Score=102.86  Aligned_cols=383  Identities=16%  Similarity=0.056  Sum_probs=172.2

Q ss_pred             cCceeeeccccCccccc-cccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeecccccccccccccccc--
Q 040040          119 GLEELWLDEVQGVENVV-YELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLR--  195 (869)
Q Consensus       119 ~l~~L~l~~~~~~~~~~-~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~--  195 (869)
                      +++.|++++ ..+.+.. .++. +.++++++|++.+| +++.-.-..-.......++|++|+++++ .+.......+.  
T Consensus         3 ~l~~ld~~~-~~i~~~~~~~l~-~~l~~l~~L~L~~~-~i~~~~~~~l~~~L~~~~~L~~LdLs~N-~i~~~~~~~l~~~   78 (460)
T d1z7xw1           3 DIQSLDIQC-EELSDARWAELL-PLLQQCQVVRLDDC-GLTEARCKDISSALRVNPALAELNLRSN-ELGDVGVHCVLQG   78 (460)
T ss_dssp             EEEEEEEES-CCCCHHHHHHHH-HHHTTCSEEEEESS-CCCHHHHHHHHHHHHTCTTCCEEECTTC-CCHHHHHHHHHHT
T ss_pred             CCCEEEeeC-CcCChHHHHHHH-HhCCCCCEEEeCCC-CCCHHHHHHHHHHHhcCCCCCEEECcCC-cCChHHHHHHHHH
Confidence            567777765 3443321 1111 45688889999888 4431100000001246788999999887 45331110100  


Q ss_pred             -ccccCCCCEEEecCCCCCcccCC---hhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccc-cCCcccEEec
Q 040040          196 -AESFLRLRNLKVESCEKLTHIFS---FSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKI-EFSQLRKLTL  270 (869)
Q Consensus       196 -~~~l~~L~~L~L~~c~~l~~l~~---~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~-~l~~L~~L~l  270 (869)
                       .....+|++|++++|. ++....   ...+..+++|++|+++++. +.........        ..+. ..........
T Consensus        79 l~~~~~~L~~L~L~~n~-it~~~~~~l~~~l~~~~~L~~L~L~~N~-i~~~~~~~l~--------~~l~~~~~~~~~~~~  148 (460)
T d1z7xw1          79 LQTPSCKIQKLSLQNCC-LTGAGCGVLSSTLRTLPTLQELHLSDNL-LGDAGLQLLC--------EGLLDPQCRLEKLQL  148 (460)
T ss_dssp             TCSTTCCCCEEECTTSC-CBGGGHHHHHHHTTSCTTCCEEECCSSB-CHHHHHHHHH--------HHHTSTTCCCCEEEC
T ss_pred             HhcCCCCCCEEECCCCC-ccccccccccchhhcccccccccccccc-chhhhhhhhh--------hcccccccccccccc
Confidence             0123579999999984 654311   1246778899999998865 2211100000        0000 0011112222


Q ss_pred             cCCCCccc-----ccccccCCCcCEEEeccccccccccCCCC-CcccccCCceEEEEecCCCCcccc--ChhhHhccCCc
Q 040040          271 KSLPQLRS-----FCSVVAFPNLETLKLSAINSETIWHNQLP-AMSSCIQNLTRLIVHGCNNLKFLF--STSLVRSFVQL  342 (869)
Q Consensus       271 ~~~~~l~~-----~~~~~~l~~L~~L~L~~~~l~~i~~~~~~-~~~~~l~~L~~L~l~~c~~l~~l~--~~~~~~~L~~L  342 (869)
                      ........     .......+.++.+.++++........... .....-.....+.+.+|.....-.  ....+...+.+
T Consensus       149 ~~~~~~~~~~~~~~~~l~~~~~~~~~~ls~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~  228 (460)
T d1z7xw1         149 EYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASL  228 (460)
T ss_dssp             TTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTC
T ss_pred             cccccchhhhcccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhcccccccccccc
Confidence            11110000     00022345666666666542110000000 000011234455665543221100  01223455677


Q ss_pred             cEEEEeccccccccccccccccccccccccCccceeecccCccccccCCC----cccCCCCccEEEEccCCccccccccc
Q 040040          343 QHLEIRKCMDLEGIVFPEEMIEEERKDIVFPQLNFLKMKDLAKLTRFCSG----NCIELPSLKQLRMAKCPELKAFILQN  418 (869)
Q Consensus       343 ~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~l~~~----~~~~l~~L~~L~l~~c~~l~~l~~~~  418 (869)
                      +.+.+.++......... .   ........+.++.++++++. +......    .....+.++.+++.+++ +.......
T Consensus       229 ~~l~~~~n~~~~~~~~~-~---~~~~~~~~~~l~~l~l~~n~-i~~~~~~~~~~~l~~~~~l~~l~l~~n~-i~~~~~~~  302 (460)
T d1z7xw1         229 RELALGSNKLGDVGMAE-L---CPGLLHPSSRLRTLWIWECG-ITAKGCGDLCRVLRAKESLKELSLAGNE-LGDEGARL  302 (460)
T ss_dssp             CEEECCSSBCHHHHHHH-H---HHHHTSTTCCCCEEECTTSC-CCHHHHHHHHHHHHHCTTCCEEECTTCC-CHHHHHHH
T ss_pred             cccchhhccccccccch-h---hccccccccccccccccccc-cccccccccccccccccccccccccccc-ccccccch
Confidence            77777664321110000 0   00012245667777777764 2211110    11235667777776543 22111000


Q ss_pred             cCCCceEeeeeccCcccccccccEEEEeccCCccccc--chhHHhhcCCccEEEEcccCCcccc--ccccccCccccccc
Q 040040          419 INTDMTVVGIQSFFNEKSFCKLKLMEVIFCKSLWTIF--PHNMFARFLKLQSLIVGACGSLEEI--FNLQELNSEETHSG  494 (869)
Q Consensus       419 ~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~--~~~~~~~l~~L~~L~l~~c~~l~~i--~~~~~~~~~~~~~~  494 (869)
                      +         ...+ ......|+.+.+++|..-....  ........++|++|+++++ .+...  ..+    .+.. ..
T Consensus       303 l---------~~~l-~~~~~~L~~l~l~~~~l~~~~~~~l~~~~~~~~~L~~L~Ls~N-~i~~~g~~~l----~~~l-~~  366 (460)
T d1z7xw1         303 L---------CETL-LEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNN-RLEDAGVREL----CQGL-GQ  366 (460)
T ss_dssp             H---------HHHH-TSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSS-BCHHHHHHHH----HHHH-TS
T ss_pred             h---------hccc-cccccccccccccccchhhhhhhhcccccccccchhhhheeee-cccCcccchh----hhhh-hc
Confidence            0         0000 0113578888888775322110  0123445678999999885 44321  000    0000 01


Q ss_pred             cccccceeecccccccccccc-cCCCCcccCCCccEEEEecCCCcc
Q 040040          495 AVSRLRELHVFCLPKLTKIWN-KDPRGKLIFPNLVLVRIFECQRLK  539 (869)
Q Consensus       495 ~~~~L~~L~l~~~~~L~~l~~-~~p~~~~~l~~L~~L~l~~c~~L~  539 (869)
                      ..+.|++|++++| .++.... ..+..+...++|++|+++++ .+.
T Consensus       367 ~~~~L~~L~Ls~n-~i~~~~~~~l~~~l~~~~~L~~L~Ls~N-~i~  410 (460)
T d1z7xw1         367 PGSVLRVLWLADC-DVSDSSCSSLAATLLANHSLRELDLSNN-CLG  410 (460)
T ss_dssp             TTCCCCEEECTTS-CCCHHHHHHHHHHHHHCCCCCEEECCSS-SCC
T ss_pred             ccCCCCEEECCCC-CCChHHHHHHHHHHhcCCCCCEEECCCC-cCC
Confidence            3467999999998 4532100 00234566789999999874 554

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=2.5e-05  Score=69.96  Aligned_cols=60  Identities=20%  Similarity=0.266  Sum_probs=25.4

Q ss_pred             CCCccEeeccccccccccccccccccccCCCCEEEecCCCCCcccCChhhhcCCCCCcEEEEee
Q 040040          172 FPLLESLSLSNLMNLEKISCSQLRAESFLRLRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTA  235 (869)
Q Consensus       172 ~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~  235 (869)
                      +++|++|++.+...++.++...+  ..+++|+.|+++++ +++.+++ ..+.++++|++|++++
T Consensus        30 l~~l~~L~l~~n~~l~~i~~~~f--~~l~~L~~L~Ls~N-~l~~i~~-~~f~~l~~L~~L~Ls~   89 (156)
T d2ifga3          30 AENLTELYIENQQHLQHLELRDL--RGLGELRNLTIVKS-GLRFVAP-DAFHFTPRLSRLNLSF   89 (156)
T ss_dssp             CSCCSEEECCSCSSCCEECGGGS--CSCCCCSEEECCSS-CCCEECT-TGGGSCSCCCEEECCS
T ss_pred             ccccCeeecCCCccccccCchhh--ccccccCcceeecc-ccCCccc-ccccccccccceeccC
Confidence            34444444443333444433322  13444444444444 2444433 2344444444444444

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.81  E-value=4.2e-05  Score=68.44  Aligned_cols=103  Identities=18%  Similarity=0.182  Sum_probs=76.1

Q ss_pred             eeeeccccCccccccccCCCCCCCccEEEEecCCCceecCCCCCCCCCCCCCCccEeeccccccccccccccccccccCC
Q 040040          122 ELWLDEVQGVENVVYELDREGFPSLKLLHIQNNPYLLCINDSTELVPRDAFPLLESLSLSNLMNLEKISCSQLRAESFLR  201 (869)
Q Consensus       122 ~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~l~~~~~~~~~l~~  201 (869)
                      .++..+ .+..+++..+  .++++|++|++.++..++.++...    +..+++|+.|+++++ +++.++.+.+  ..+++
T Consensus        12 ~l~c~~-~~~~~~p~~l--~~l~~l~~L~l~~n~~l~~i~~~~----f~~l~~L~~L~Ls~N-~l~~i~~~~f--~~l~~   81 (156)
T d2ifga3          12 GLRCTR-DGALDSLHHL--PGAENLTELYIENQQHLQHLELRD----LRGLGELRNLTIVKS-GLRFVAPDAF--HFTPR   81 (156)
T ss_dssp             CEECCS-SCCCTTTTTS--CSCSCCSEEECCSCSSCCEECGGG----SCSCCCCSEEECCSS-CCCEECTTGG--GSCSC
T ss_pred             eEEecC-CCCccCcccc--cCccccCeeecCCCccccccCchh----hccccccCcceeecc-ccCCcccccc--ccccc
Confidence            344444 3333444444  567899999998887788887543    467999999999998 7888876643  47899


Q ss_pred             CCEEEecCCCCCcccCChhhhcCCCCCcEEEEeecC
Q 040040          202 LRNLKVESCEKLTHIFSFSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       202 L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~  237 (869)
                      |++|+|+++ +++.+++ ..+.. .+|+.|++++.+
T Consensus        82 L~~L~Ls~N-~l~~l~~-~~~~~-~~l~~L~L~~Np  114 (156)
T d2ifga3          82 LSRLNLSFN-ALESLSW-KTVQG-LSLQELVLSGNP  114 (156)
T ss_dssp             CCEEECCSS-CCSCCCS-TTTCS-CCCCEEECCSSC
T ss_pred             ccceeccCC-CCcccCh-hhhcc-ccccccccCCCc
Confidence            999999999 4888876 34444 479999998743

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.62  E-value=1.1e-05  Score=83.68  Aligned_cols=96  Identities=7%  Similarity=-0.026  Sum_probs=47.3

Q ss_pred             cccCCCCEEEecCCCCCcccCC---hhhhcCCCCCcEEEEeecCCceeeeccccccccCCccccccccCCcccEEeccCC
Q 040040          197 ESFLRLRNLKVESCEKLTHIFS---FSISRGLPQLQTIKVTACKNMKVIFEVGREDDINNTEVIDKIEFSQLRKLTLKSL  273 (869)
Q Consensus       197 ~~l~~L~~L~L~~c~~l~~l~~---~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~  273 (869)
                      .....|+.|+++++. +..-..   ...+...++|+.|+++++..- .......  .........+...++|++|+++++
T Consensus        28 ~~~~~l~~L~Ls~n~-i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~-~~~~~~~--~~~~~l~~~l~~~~~L~~L~L~~n  103 (344)
T d2ca6a1          28 LEDDSVKEIVLSGNT-IGTEAARWLSENIASKKDLEIAEFSDIFTG-RVKDEIP--EALRLLLQALLKCPKLHTVRLSDN  103 (344)
T ss_dssp             HHCSCCCEEECTTSE-ECHHHHHHHHHTTTTCTTCCEEECCSCCTT-SCGGGSH--HHHHHHHHHHTTCTTCCEEECCSC
T ss_pred             hhCCCCCEEECcCCc-CCHHHHHHHHHHHHhCCCCCEEECCCCccc-ccccccc--hHHHHHHHHHhhCCCccccccccc
Confidence            356788888888873 322100   013556788888888765421 1110000  000001122344567777777765


Q ss_pred             CCccc-----cc-ccccCCCcCEEEecccc
Q 040040          274 PQLRS-----FC-SVVAFPNLETLKLSAIN  297 (869)
Q Consensus       274 ~~l~~-----~~-~~~~l~~L~~L~L~~~~  297 (869)
                      . +..     +. .+...++|++|++++|.
T Consensus       104 ~-i~~~~~~~l~~~l~~~~~L~~L~l~~n~  132 (344)
T d2ca6a1         104 A-FGPTAQEPLIDFLSKHTPLEHLYLHNNG  132 (344)
T ss_dssp             C-CCTTTHHHHHHHHHHCTTCCEEECCSSC
T ss_pred             c-cccccccchhhhhcccccchheeccccc
Confidence            3 211     11 12245667777777665

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.61  E-value=6.3e-06  Score=85.47  Aligned_cols=36  Identities=8%  Similarity=0.041  Sum_probs=20.8

Q ss_pred             ccccEEEEeccCCcccc----cchhHHhhcCCccEEEEccc
Q 040040          438 CKLKLMEVIFCKSLWTI----FPHNMFARFLKLQSLIVGAC  474 (869)
Q Consensus       438 ~~L~~L~l~~c~~l~~~----~~~~~~~~l~~L~~L~l~~c  474 (869)
                      .+|++|++++|. +...    +...+..+.++|+.|+++++
T Consensus       273 ~~L~~L~ls~N~-i~~~~~~~l~~~l~~~~~~L~~L~l~~N  312 (344)
T d2ca6a1         273 IGLQTLRLQYNE-IELDAVRTLKTVIDEKMPDLLFLELNGN  312 (344)
T ss_dssp             CCCCEEECCSSC-CBHHHHHHHHHHHHHHCTTCCEEECTTS
T ss_pred             CCCCEEECCCCc-CChHHHHHHHHHHHccCCCCCEEECCCC
Confidence            567777777764 3321    11112235678888888773

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.83  E-value=0.0018  Score=57.78  Aligned_cols=36  Identities=25%  Similarity=0.237  Sum_probs=15.9

Q ss_pred             cCCceEEEEecCCCCccccC-hhhHhccCCccEEEEec
Q 040040          313 IQNLTRLIVHGCNNLKFLFS-TSLVRSFVQLQHLEIRK  349 (869)
Q Consensus       313 l~~L~~L~l~~c~~l~~l~~-~~~~~~L~~L~~L~l~~  349 (869)
                      +++|++|+++++ .++.+.+ ...++.+++|+.|++++
T Consensus        64 ~~~L~~L~Ls~N-~i~~l~~~~~~~~~l~~L~~L~Ls~  100 (162)
T d1koha1          64 IPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSG  100 (162)
T ss_dssp             CTTCCCCCCCSS-CCCCCSGGGTHHHHSTTCCCCCCTT
T ss_pred             CCCCCEeeCCCc-cccCCchhHHHHhhCCccccccccc
Confidence            444555555442 3333211 12234455555555555

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.21  E-value=0.0052  Score=54.64  Aligned_cols=7  Identities=57%  Similarity=0.970  Sum_probs=3.3

Q ss_pred             CCCcCEE
Q 040040          285 FPNLETL  291 (869)
Q Consensus       285 l~~L~~L  291 (869)
                      +|+|+.|
T Consensus       145 ~P~L~~L  151 (162)
T d1koha1         145 FPKLLRL  151 (162)
T ss_dssp             STTCCEE
T ss_pred             CCCCCEE
Confidence            4445444

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=88.96  E-value=0.095  Score=46.21  Aligned_cols=12  Identities=17%  Similarity=0.365  Sum_probs=5.8

Q ss_pred             CCcCEEEecccc
Q 040040          286 PNLETLKLSAIN  297 (869)
Q Consensus       286 ~~L~~L~L~~~~  297 (869)
                      ++|++|+|++|.
T Consensus        44 ~~L~~L~Ls~n~   55 (167)
T d1pgva_          44 KHIEKFSLANTA   55 (167)
T ss_dssp             SCCCEEECTTSC
T ss_pred             Cccceeeccccc
Confidence            344555555444

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=86.95  E-value=0.15  Score=44.78  Aligned_cols=40  Identities=3%  Similarity=0.115  Sum_probs=21.8

Q ss_pred             ccCCCCEEEecCCCCCcccC---ChhhhcCCCCCcEEEEeecC
Q 040040          198 SFLRLRNLKVESCEKLTHIF---SFSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~---~~~~~~~L~~L~~L~l~~c~  237 (869)
                      +.++|++|+|+++..+..-.   -...+...++|++|++++|.
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~   55 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTA   55 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSC
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccc
Confidence            45777777777654443210   01234555666666666653

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=84.81  E-value=0.14  Score=44.90  Aligned_cols=13  Identities=0%  Similarity=0.074  Sum_probs=6.6

Q ss_pred             CCCcCEEEecccc
Q 040040          285 FPNLETLKLSAIN  297 (869)
Q Consensus       285 l~~L~~L~L~~~~  297 (869)
                      .++|++|++++|.
T Consensus        45 n~~L~~L~Ls~n~   57 (166)
T d1io0a_          45 NTYVKKFSIVGTR   57 (166)
T ss_dssp             CCSCCEEECTTSC
T ss_pred             CCccCeeeccCCc
Confidence            3445555555554

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=84.20  E-value=0.063  Score=52.01  Aligned_cols=24  Identities=17%  Similarity=0.110  Sum_probs=21.4

Q ss_pred             HHhhccceecccccCcccccchhee
Q 040040           41 KEACSTIELHYKYLKGEKLKKIFLL   65 (869)
Q Consensus        41 ~~i~~~L~lSY~~Lp~~~lK~CFly   65 (869)
                      ++|.++|++||++||+ ++|+||-+
T Consensus       253 ~~v~~il~~sY~~L~~-~lk~c~~~  276 (277)
T d2a5yb3         253 VGVECITPYSYKSLAM-ALQRCVEV  276 (277)
T ss_dssp             STTCCCSSSSSSSHHH-HHHHHHHT
T ss_pred             HHHHHHHHHHHhcccH-HHHHHHHh
Confidence            3599999999999986 79999976

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=82.85  E-value=0.19  Score=44.03  Aligned_cols=40  Identities=3%  Similarity=0.015  Sum_probs=22.6

Q ss_pred             ccCCCCEEEecCCCCCcccC---ChhhhcCCCCCcEEEEeecC
Q 040040          198 SFLRLRNLKVESCEKLTHIF---SFSISRGLPQLQTIKVTACK  237 (869)
Q Consensus       198 ~l~~L~~L~L~~c~~l~~l~---~~~~~~~L~~L~~L~l~~c~  237 (869)
                      ..++|++|+++++..+..-.   -...+...++|++|++++|.
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~   57 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTR   57 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSC
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCc
Confidence            45777778777655443211   01134456677777777653