Citrus Sinensis ID: 003328

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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-------83
Protein Sequence
MFNIPNVADVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENFLLVHQVQPLFNEKVGEEAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMKIFSQGGVDAPKLNKVKPTEEEDGDEVDDDDDDEEGCWEGNLNDTIKKLFNEMVSINEVLALSSKLFL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccEEEEcccccccccccccccccccEEEccccccccccccccHHHHcccccccEEEccccccccccccccccccccEEEcccccccccccccccccccEEEEcccccccccccccccccccEEEccccccccEEccccccccccccEEEccccccccccccccccccHHHccccccccEEEEEEcccccccccccccccccEEEEEcccccccccccccccEEEEcccccccccccccHHHHccccccEEEEEccccccccccccccccccccccEEEEccccccEEEcccccccccccccccccEEcccccccHHccccccccccccccccEEEEEcccccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccccccEEEEcccccHHHHHHHHcccccccccccccccEEEcccccccccccccccccccccccEEEEEccccccccccccccccccccEEEccccccccccccccccccHHHHHcccccccccccEEEEccccccccccccccccccccccccEEEEEEccccccccccccccccccccEEEEEccccccEEcccccccccccccccccccccEEEccccccccccccccccccccccccEEEEEcccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccEEEcccccccccccccccccccccccEEEEEcccccccccccccccccccEEEcccccccccccccccccccccccccHHHHHHHHHHHHccccEEcccccccc
Secondary Structure Prediction (SSPRO)
ccEEccccccccccccccccccEEEEEEcccHHHccccccccccEEEEEEEcccccccccccHHHHHcccccEEEEcccccccccccHHHHHHcccEEEcccccccccHHHHHHcccEEEEEcccccHcccHHHHHcccccEEEccccccccEccHHHHHHHHHHcEEEEcccccccccccccccccHHHHHHcccccEEEEEcccccccccccccHHHEEEEEEccccccccccccccccHHHHcccccccccccccccHHHHccccEEEEccccccccccccccHccccccccEEEEcccccEEEcccccccccccccccccEEEcccHHHHHHHcccccccccccccccEEEEccccccccccccHHHHccHcccEEEEcccccHHHHcccccccccHHHHHHHcccccccccccccccccccccEEccccHHHHHccccccccccccccccccEEEEcccccHcHccccccccccccccEEEEEccccEEEcccccccccHccEEEEEcccHHHHHHHHHcccccccccccccccccccccEEEEcccccHHHcccccccccccccccEEEEEEccccccEccccHHHHHHHcccEEEEcccccHHHHHccccccccccccccccHHEEHHcccccccHHcHccccccccccccccEEEEEcccccHHcccccHHHHHcccHHccEEEEcccHcHHEEEEccccccccccccccEEcccccEEEEccccccccccccccccccccccEEEEEcccccEEcccccccccccEEEEEEccccccEcccccccccccccccHHHHHHHHHHHcccccccccccccccc
Coil and Loop (DISEMBL)
MFNIPNVADVEKKMEETIrkdpiaislpqrdiqelperlqcpnlQLFLLITkgiapvsmqISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILsfrgsdikqlpleigqltrlqlldlsncsslvviapnviskfsrleelymgdsfsqwdkveggsnaslaelkglsklttlEIHVwdaqilpqdwvSVELQRYKICigearriwpvnsetSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNvvhelddgegfprlKHLWVERCSEILHIVGsvgrvrctIFPLLESLSLWFLSNLETICdsqltedqsfsnlriIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFfcddlemmvgpdrekpttslgfneitadddaapkvgipgilvnlnvsrcDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLptltsfclenytlefpslervslthcpnmktfshrilsipkpckvqvtekeegelhhwegnnlnSTIQKCYEEMIgfrdiehlqlshfprlreiwhgqalpvsffnnlsdlvvddctnmssaipanLLRCFNNLVLlevrncdsleevlhleelnadkehigPLFLELSllglidlpklkrfcnftgniiemPVLCSLAIENCTDMETFISNSVvhattdnkepqkltseENFLLVHQVQplfnekvgeeakDCIVFRELEyltldclpsltsfslgnyalefpslehvvvrqcptmkifsqggvdapklnkvkpteeedgdevddddddeegcwegnLNDTIKKLFNEMVSINEVLALSSKLFL
Flexible Loop (DISEMBL)
mfnipnvadveKKMEetirkdpiaislPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICigearriwpvnsETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGIlvnlnvsrcDKIEEIIrhvgeevkenriafGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFshrilsipkpCKVQVTEKEEgelhhwegnnlnSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENFLLVHQVQPLFNEKVGEEAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMKifsqggvdapklnkvkpteeedgdevddddddeegCWEGNLNDTIKKLFNEMVSINEVLALSSKLFL
Low Complexity Region (SEG)
MFNIPNVADVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPlflelsllglidlPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENFLLVHQVQPLFNEKVGEEAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMKIFSQGGVDAPKLNKVKPTeeedgdevddddddeegCWEGNLNDTIKKLFNEMVSINEVLALSSKLFL
Disordered region (IsUnstruct)
*******************************IQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLT*********************LFSFSMAKNLLRLQKVEVFFCDDLEMMVG*********LGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFISNSVVHA*************ENFLLVHQVQPLFNEKVGEEAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMKIFSQG******************************CWEGNLNDTIKKLFNEMVSINEVLAL******
Disordered Region (DISOPRED)
MFNI***ADVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSL*********KFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGP**********FNEIT**************LVNLNVSRCDKIEEI***********RIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRIL***KP**VQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLE************FLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFISN*V************L*SE***L********************IVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMKI*S***********VKPTEEEDGDEVDDDDDDEEGCWEGNLNDTIKKLFNEMVSINEVLALSSKLFL
Disordered Region (DISEMBL)
MFNIPNVADVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENFLLVHQVQPLFNEKVGEEAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMKIFSQGGVDAPKLNKV******************EGCWEGNLNDTIKKLFNEMVSINEVLALSSKLFL
Disordered Region (DISPRO)
MFNIPNVADVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENFLLVHQVQPLFN*****EAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMKIFSQGGVDAPKLNKVKPTEEEDGDEVDDDDDDEEGCWEGNLNDTIKKLFNEMVSINEVLALSSKLFL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFNIPNVADVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENFLLVHQVQPLFNEKVGEEAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMKIFSQGGVDAPKLNKVKPTEEEDGDEVDDDDDDEEGCWEGNLNDTIKKLFNEMVSINEVLALSSKLFL
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	829	2.2.26 [Sep-21-2011]
Q9T048	985	Disease resistance protei	yes	no	0.439	0.369	0.270	2e-18
O81825	919	Probable disease resistan	no	no	0.480	0.433	0.246	1e-14
Q42484	909	Disease resistance protei	no	no	0.436	0.398	0.230	1e-12
Q96RT1	1412	Protein LAP2 OS=Homo sapi	no	no	0.164	0.096	0.324	5e-06
Q80TH2	1402	Protein LAP2 OS=Mus muscu	yes	no	0.164	0.097	0.324	5e-06
Q9LRR4	1054	Putative disease resistan	no	no	0.371	0.292	0.236	6e-05
Q5F4C4	529	Leucine-rich repeat prote	no	no	0.133	0.209	0.336	0.0001
C0LGP4	1010	Probable LRR receptor-lik	no	no	0.166	0.136	0.335	0.0002
Q96CX6	371	Leucine-rich repeat-conta	no	no	0.125	0.280	0.355	0.0003
Q6UWE0	723	E3 ubiquitin-protein liga	no	no	0.166	0.190	0.290	0.0003

>sp|Q9T048|DRL27_ARATH Disease resistance protein At4g27190 OS=Arabidopsis thaliana GN=At4g27190 PE=2 SV=1

 Score = 95.1 bits (235), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 107/395 (27%), Positives = 188/395 (47%), Gaps = 31/395 (7%)

Query: 16  ETIRKDPIA-----ISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTE 70
           + IR+D +A     +SL    ++ LP+ ++   ++  +L+ +G   +  ++   F +   
Sbjct: 492 QDIRQDKLAPSLRRVSLMNNKLESLPDLVEEFCVKTSVLLLQGNFLLK-EVPIGFLQAFP 550

Query: 71  ELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWC-QLEDVAAIGQLKKLEILSFRGSDIK 128
            L++L+L G    S PS SL RL +L +L L  C +L  + ++  L KLE+L   G+ I 
Sbjct: 551 TLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCFKLVKLPSLETLAKLELLDLCGTHIL 610

Query: 129 QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGS---N 185
           + P  + +L R + LDLS    L  I   V+S+ S LE L M  S  +W  V+G +    
Sbjct: 611 EFPRGLEELKRFRHLDLSRTLHLESIPARVVSRLSSLETLDMTSSHYRWS-VQGETQKGQ 669

Query: 186 ASLAELKGLSKLTTLEIHVWDAQIL---PQDWVSVELQRYKICIGEARRIWPVNSETSRL 242
           A++ E+  L +L  L I +  +  L      W+   L+++++ +G +R I     +  RL
Sbjct: 670 ATVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWIK-RLKKFQLVVG-SRYILRTRHDKRRL 727

Query: 243 VWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHEL-DDGEGFPRLKHLWVER 301
              H   NVS +     +  LL     + L   +G++ ++ +L  D +GF  LK L +E 
Sbjct: 728 TISHL--NVSQV----SIGWLLAYTTSLALNHCQGIEAMMKKLVSDNKGFKNLKSLTIEN 781

Query: 302 C-----SEILHIVGSVGRVRCTIFPLLESLSLWFLS--NLETICDSQLTEDQSFSNLRII 354
                 S +  +  +  +    I  LL +L    L   +LET  + Q         L+II
Sbjct: 782 VIINTNSWVEMVSTNTSKQSSDILDLLPNLEELHLRRVDLETFSELQTHLGLKLETLKII 841

Query: 355 EVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLE 389
           E+  C KL+ L        +  L+++E+ +CD L+
Sbjct: 842 EITMCRKLRTLLDKRNFLTIPNLEEIEISYCDSLQ 876

Disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

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

 Score = 82.8 bits (203), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 122/495 (24%), Positives = 203/495 (41%), Gaps = 97/495 (19%)

Query: 25  ISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS 84
           +SL    ++ LP  +    ++  +L+ +G + V  ++ + F +    L++L L G+   +
Sbjct: 475 VSLMANKLERLPNNV-IEGVETLVLLLQGNSHVK-EVPNGFLQAFPNLRILDLSGVRIRT 532

Query: 85  LPSSLGRLINLQTLCLDWCQ-LEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLL 143
           LP S   L +L++L L  C+ L ++ ++  L KL+ L    S I++LP  +  L+ L+ +
Sbjct: 533 LPDSFSNLHSLRSLVLRNCKKLRNLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYI 592

Query: 144 DLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQW--DKVEGGSNASLAELKGLSKLTTLE 201
            +SN   L  I    I + S LE L M  S   W     E    A+L E+  L  L  L 
Sbjct: 593 CVSNTYQLQSIPAGTILQLSSLEVLDMAGSAYSWGIKGEEREGQATLDEVTCLPHLQFLA 652

Query: 202 IHVWDAQILPQDWVSV--ELQRYKICIGEARRIWP------------VNSETSRLVWLHG 247
           I + D      ++ S+   L +++      R + P            VN   + + WL  
Sbjct: 653 IKLLDVLSFSYEFDSLTKRLTKFQFLFSPIRSVSPPGTGEGCLAISDVNVSNASIGWL-- 710

Query: 248 LENVSTLLENY-----GMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERC 302
           L++V++L  NY     GM   L    +   + +K +   +H       FP L        
Sbjct: 711 LQHVTSLDLNYCEGLNGMFENLVTKSKSSFVAMKALS--IHY------FPSLS------- 755

Query: 303 SEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKL 362
                 + S    +  +FP LE LSL  + NLE+I +           L++++V  C +L
Sbjct: 756 ------LASGCESQLDLFPNLEELSLDNV-NLESIGELNGFLGMRLQKLKLLQVSGCRQL 808

Query: 363 KHLFSFS-MAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIP 421
           K LFS   +A  L  LQ+++V  C  LE +             FN  +   D   +  +P
Sbjct: 809 KRLFSDQILAGTLPNLQEIKVVSCLRLEEL-------------FNFSSVPVDFCAESLLP 855

Query: 422 GILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPS 481
                                            KL V+ L YLP L S C +   LE  S
Sbjct: 856 ---------------------------------KLTVIKLKYLPQLRSLCNDRVVLE--S 880

Query: 482 LERVSLTHCPNMKTF 496
           LE + +  C ++K  
Sbjct: 881 LEHLEVESCESLKNL 895

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q42484|RPS2_ARATH Disease resistance protein RPS2 OS=Arabidopsis thaliana GN=RPS2 PE=1 SV=1

 Score = 75.9 bits (185), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 107/465 (23%), Positives = 184/465 (39%), Gaps = 103/465 (22%)

Query: 5   PNVADVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDL 64
           P++   E    E  R+  + ISL    IQ LPE+L CP L   +L          +I   
Sbjct: 497 PSMGHTEAPKAENWRQ-ALVISLLDNRIQTLPEKLICPKLTTLMLQQNSSLK---KIPTG 552

Query: 65  FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRG 124
           FF     L+VL L     + +P S+  L+ L  L                      S  G
Sbjct: 553 FFMHMPVLRVLDLSFTSITEIPLSIKYLVELYHL----------------------SMSG 590

Query: 125 SDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGS 184
           + I  LP E+G L +L+ LDL     L  I  + I   S+LE L +  S++ W+    G 
Sbjct: 591 TKISVLPQELGNLRKLKHLDLQRTQFLQTIPRDAICWLSKLEVLNLYYSYAGWELQSFGE 650

Query: 185 NAS----LAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETS 240
           + +     A+L+ L  LTTL I V                              ++ ET 
Sbjct: 651 DEAEELGFADLEYLENLTTLGITV------------------------------LSLETL 680

Query: 241 RLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVE 300
           + ++  G       L  +   + ++E  E+    L  + N       G    RL    ++
Sbjct: 681 KTLFEFG------ALHKHIQHLHVEECNELLYFNLPSLTN------HGRNLRRLS---IK 725

Query: 301 RCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCD 360
            C ++ ++V +         P LE L+L  L NL  +  + +++D    N+R I +  C+
Sbjct: 726 SCHDLEYLV-TPADFENDWLPSLEVLTLHSLHNLTRVWGNSVSQD-CLRNIRCINISHCN 783

Query: 361 KLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGI 420
           KLK++   S  + L +L+ +E+F C ++E ++                   +  +P V  
Sbjct: 784 KLKNV---SWVQKLPKLEVIELFDCREIEELI------------------SEHESPSVED 822

Query: 421 PGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLP 465
           P +  +L   R   + E+       +  +R +F K++ L++   P
Sbjct: 823 PTLFPSLKTLRTRDLPEL-----NSILPSRFSFQKVETLVITNCP 862

Disease resistance (R) protein that specifically recognizes the AvrRpt2 type III effector avirulence protein from Pseudomonas syringae. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Acts via its interaction with RIN4, and probably triggers the plant resistance when RIN4 is degraded by AvrRpt2.

Arabidopsis thaliana (taxid: 3702)

>sp|Q96RT1|LAP2_HUMAN Protein LAP2 OS=Homo sapiens GN=ERBB2IP PE=1 SV=2

 Score = 53.9 bits (128), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 75/151 (49%), Gaps = 15/151 (9%)

Query: 25  ISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIH-- 81
           +SLP  D+  LP  +    NL+   +   GI          F E  +  KVL+++     
Sbjct: 74  LSLPDNDLTTLPASIANLINLRELDVSKNGIQ--------EFPENIKNCKVLTIVEASVN 125

Query: 82  -FSSLPSSLGRLINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRGSDIKQLPLEIGQLTR 139
             S LP    +L+NL  L L+   LE + A  G+L KL+IL  R + +K LP  + +LT+
Sbjct: 126 PISKLPDGFSQLLNLTQLYLNDAFLEFLPANFGRLTKLQILELRENQLKMLPKTMNRLTQ 185

Query: 140 LQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
           L+ LDL   S+     P V+ + S L+E +M
Sbjct: 186 LERLDLG--SNEFTEVPEVLEQLSGLKEFWM 214

Acts as an adapter for the receptor ERBB2, in epithelia. By binding the unphosphorylated 'Tyr-1248' of receptor ERBB2, it may contribute to stabilize this unphosphorylated state.

Homo sapiens (taxid: 9606)

>sp|Q80TH2|LAP2_MOUSE Protein LAP2 OS=Mus musculus GN=Erbb2ip PE=1 SV=3

 Score = 53.9 bits (128), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 15/151 (9%)

Query: 25  ISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIH-- 81
           +SLP  D+  LP  +    NL+   +   GI          F E  +  KVL+++     
Sbjct: 74  LSLPDNDLTTLPASIANLINLRELDVSKNGIQ--------EFPENIKNCKVLTIVEASVN 125

Query: 82  -FSSLPSSLGRLINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRGSDIKQLPLEIGQLTR 139
             S LP    +L+NL  L L+   LE + A  G+L KL+IL  R + +K LP  + +LT+
Sbjct: 126 PISKLPDGFSQLLNLTQLYLNDAFLEFLPANFGRLTKLQILELRENQLKMLPKTMNRLTQ 185

Query: 140 LQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
           L+ LDL   S+     P V+ + S L E +M
Sbjct: 186 LERLDLG--SNEFTEVPEVLEQLSGLREFWM 214

Acts as an adapter for the receptor ERBB2, in epithelia. By binding the unphosphorylated ERBB2 'Tyr-1248' receptor, it may contribute to stabilize this unphosphorylated state.

Mus musculus (taxid: 10090)

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

 Score = 50.4 bits (119), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 95/401 (23%), Positives = 158/401 (39%), Gaps = 93/401 (23%)

Query: 65  FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWC-QLEDVAA-IGQLKKLEILSF 122
           FF+     + L L       LP SL  + NLQTL L +C  L+++   I  L  L  L  
Sbjct: 597 FFKNISHARFLDLSRTELEKLPKSLCYMYNLQTLLLSYCSSLKELPTDISNLINLRYLDL 656

Query: 123 RGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPN--VISKFSRLEELYMGDSFSQWDKV 180
            G+ ++Q+P   G+L  LQ L     ++  V A +   IS+   L +L+      +  +V
Sbjct: 657 IGTKLRQMPRRFGRLKSLQTL-----TTFFVSASDGSRISELGGLHDLHGKLKIVELQRV 711

Query: 181 EGGSNASLAELKGLSKLTTLEIHVW------------------DAQILPQDWVSVELQRY 222
              ++A+ A L     L  ++  VW                  +A++  +      +++ 
Sbjct: 712 VDVADAAEANLNSKKHLREIDF-VWRTGSSSSENNTNPHRTQNEAEVFEKLRPHRHIEKL 770

Query: 223 KICIGEARRI--WPVNSETSRLVWLHGLE-NVSTLLENYGMKMLLKEAEEIHLIKLKGVQ 279
            I   + RR   W  +   SR+V +   E    T L + G    LK   E+H+  + G+Q
Sbjct: 771 AIERYKGRRFPDWLSDPSFSRIVCIRLRECQYCTSLPSLGQLPCLK---ELHISGMVGLQ 827

Query: 280 NVVHE-------------------------------------LDDGEGFPRLKHLWVERC 302
           ++  +                                     +  G+ FP LK L++ RC
Sbjct: 828 SIGRKFYFSDQQLRDQDQQPFRSLETLRFDNLPDWQEWLDVRVTRGDLFPSLKKLFILRC 887

Query: 303 SEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVK-SCDK 361
            E   + G++     T  P L SL ++    L+   D     + S+ NL+ + +K SCD 
Sbjct: 888 PE---LTGTLP----TFLPSLISLHIYKCGLLDFQPDHH---EYSYRNLQTLSIKSSCDT 937

Query: 362 LKHLFSFSMAKNLLRLQKVEVFFCDDL-------EMMVGPD 395
           L   F  +   N   L K+EV  C  L       E + GP+
Sbjct: 938 LVK-FPLNHFAN---LDKLEVDQCTSLYSLELSNEHLRGPN 974

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q5F4C4|SHOC2_CHICK Leucine-rich repeat protein SHOC-2 OS=Gallus gallus GN=SHOC2 PE=2 SV=1

 Score = 49.3 bits (116), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 39/116 (33%), Positives = 61/116 (52%), Gaps = 5/116 (4%)

Query: 32  IQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGR 91
           +Q LP  + C    L  L+T  ++  S+       +  ++L++L L       +PS + R
Sbjct: 135 LQSLPAEVGC----LVNLVTLALSENSLTSLPDSLDNLKKLRMLDLRHNKLREIPSVVYR 190

Query: 92  LINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLS 146
           L +L TL L + ++  V   I  L KL +LS R + IKQLP EIG+L  L  LD++
Sbjct: 191 LTSLATLYLRFNRITTVEKDIKTLSKLTMLSIRENKIKQLPAEIGELCNLITLDVA 246

Regulatory subunit of protein phosphatase 1 (PP1c) that acts as a M-Ras/MRAS effector and participates in MAPK pathway activation. Upon M-Ras/MRAS activation, targets PP1c to specifically dephosphorylate the 'Ser-259' inhibitory site of RAF1 kinase and stimulate RAF1 activity at specialized signaling complexes.

Gallus gallus (taxid: 9031)

>sp|C0LGP4|Y3475_ARATH Probable LRR receptor-like serine/threonine-protein kinase At3g47570 OS=Arabidopsis thaliana GN=At3g47570 PE=1 SV=1

 Score = 48.5 bits (114), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 73/152 (48%), Gaps = 14/152 (9%)

Query: 29  QRDIQELPERLQCPNLQLFLLITK---GIAPVSMQISDLFFEGTEELKVLSLIGIHFS-S 84
            RD++ L     C  L+   +      G  P+S  I++L    + +L  L L G   S S
Sbjct: 323 SRDLEFLTSLTNCTQLETLGIGRNRLGGDLPIS--IANL----SAKLVTLDLGGTLISGS 376

Query: 85  LPSSLGRLINLQTLCLDWCQLED--VAAIGQLKKLEILS-FRGSDIKQLPLEIGQLTRLQ 141
           +P  +G LINLQ L LD   L      ++G+L  L  LS F       +P  IG +T L+
Sbjct: 377 IPYDIGNLINLQKLILDQNMLSGPLPTSLGKLLNLRYLSLFSNRLSGGIPAFIGNMTMLE 436

Query: 142 LLDLSNCSSLVVIAPNVISKFSRLEELYMGDS 173
            LDLSN +    I P  +   S L EL++GD+
Sbjct: 437 TLDLSN-NGFEGIVPTSLGNCSHLLELWIGDN 467

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|Q96CX6|LRC58_HUMAN Leucine-rich repeat-containing protein 58 OS=Homo sapiens GN=LRRC58 PE=1 SV=2

 Score = 48.1 bits (113), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 38/107 (35%), Positives = 57/107 (53%), Gaps = 3/107 (2%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRGSDIKQL 130
           L+VL+L G  F  +P+SL  L  LQTL L   QL+ + A I  L+ LE L   G+ IK++
Sbjct: 122 LQVLNLSGNCFQEVPASLLELRALQTLSLGGNQLQSIPAEIENLQSLECLYLGGNFIKEI 181

Query: 131 PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQW 177
           P E+G L  L  L L  C + +   P  +S+   L  L + ++   +
Sbjct: 182 PPELGNLPSLNYLVL--CDNKIQSIPPQLSQLHSLRSLSLHNNLLTY 226

Homo sapiens (taxid: 9606)

>sp|Q6UWE0|LRSM1_HUMAN E3 ubiquitin-protein ligase LRSAM1 OS=Homo sapiens GN=LRSAM1 PE=1 SV=1

 Score = 48.1 bits (113), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 41/141 (29%), Positives = 72/141 (51%), Gaps = 3/141 (2%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVA-AIGQLKKLEILSFRGSDIKQL 130
           +KVL L     ++LP  LG+L  LQ L ++  QL  +  +IG L +L+ L+ + + +K+L
Sbjct: 83  IKVLDLHDNQLTALPDDLGQLTALQVLNVERNQLMQLPRSIGNLTQLQTLNVKDNKLKEL 142

Query: 131 PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAE 190
           P  +G+L  L+ L++S     +   P +++    LE L +  S   +   E     + A 
Sbjct: 143 PDTVGELRSLRTLNISGNE--IQRLPQMLAHVRTLEMLSLDASAMVYPPREVCGAGTAAI 200

Query: 191 LKGLSKLTTLEIHVWDAQILP 211
           L+ L K + LE +     +LP
Sbjct: 201 LQFLCKESGLEYYPPSQYLLP 221

E3 ubiquitin-protein ligase that mediates monoubiquitination of TSG101 at multiple sites, leading to inactivate the ability of TSG101 to sort endocytic (EGF receptors) and exocytic (HIV-1 viral proteins) cargos.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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	829
255563252	1603	Disease resistance protein RPS5, putativ	0.749	0.387	0.376	1e-96
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.686	0.432	0.388	8e-96
359488288	1340	PREDICTED: LOW QUALITY PROTEIN: probable	0.849	0.525	0.349	7e-92
255542484	2460	phosphoprotein phosphatase, putative [Ri	0.889	0.299	0.335	9e-92
359488027	1520	PREDICTED: disease resistance protein At	0.804	0.438	0.344	3e-90
255574526	1232	Disease resistance protein RFL1, putativ	0.846	0.569	0.331	4e-89
224111284	1340	cc-nbs-lrr resistance protein [Populus t	0.675	0.417	0.385	4e-88
224110992	2359	cc-nbs-lrr resistance protein [Populus t	0.715	0.251	0.374	2e-86
224143316	1337	cc-nbs-lrr resistance protein [Populus t	0.675	0.418	0.377	5e-84
296087872	1152	unnamed protein product [Vitis vinifera]	0.746	0.537	0.348	1e-81

>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 =  360 bits (925), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 271/719 (37%), Positives = 389/719 (54%), Gaps = 98/719 (13%)

Query: 1    MFNIPNVADVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQ 60
            +F + N A +++   + + K    ISLP  DI  LPE L+CP L+LFLL T+ I   S++
Sbjct: 484  LFTVRNGALLKEWPNKDVCKSCTRISLPYNDIHGLPEVLECPELELFLLFTQDI---SLK 540

Query: 61   ISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEIL 120
            + DL FE T+ L+VL+  G+HFSSLP SLG L NL TLCLDWC L DVA IG+L  L IL
Sbjct: 541  VPDLCFELTKNLRVLNFTGMHFSSLPPSLGFLKNLFTLCLDWCALRDVAIIGELTGLTIL 600

Query: 121  SFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD-- 178
            SF+ SDI +LP EI QLT+L+ LDLS+C  L VI   +IS+ ++LEELYM +SF  WD  
Sbjct: 601  SFKHSDIVELPREIRQLTKLKFLDLSHCLKLKVIPAKIISELTQLEELYMNNSFDLWDVQ 660

Query: 179  KVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSE 238
             +    NASLAEL+ L  LTTLEI V DA+ILP+D    +L+R++I IG+   +W    +
Sbjct: 661  GINNQRNASLAELECLPYLTTLEICVLDAKILPKDLFFRKLERFRIFIGD---VWSGTGD 717

Query: 239  --TSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKH 296
              TSR + L    N S++   +G+ +LL+  E+++L ++KG+++V+++LD  +GF +LKH
Sbjct: 718  YGTSRTLKLK--LNTSSIHLEHGLSILLEVTEDLYLAEVKGIKSVLYDLD-SQGFTQLKH 774

Query: 297  LWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEV 356
            L V+   EI +I+    R  C  FP+LESL L  L +LE IC  +LT   SFS LR + V
Sbjct: 775  LDVQNDPEIQYIIDPNRRSPCNAFPILESLYLDNLMSLEKICCGKLTTG-SFSKLRSLTV 833

Query: 357  KSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAP 416
              CD+LK+LFSFSM + LL+LQ+++V                                  
Sbjct: 834  VKCDRLKNLFSFSMMRCLLQLQQMKVV--------------------------------- 860

Query: 417  KVGIPGILVNLNVSRCDKIEEIIRHVGEEVKEN---RIAFGKLKVLILNYLPTLTSFCLE 473
                           C  +EEI+   G E  +N    +   +L  L L  LP   SFC +
Sbjct: 861  --------------DCANLEEIV-ACGSEDTDNDYEAVKLTQLCSLTLKRLPMFKSFCSK 905

Query: 474  NYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQK 533
                      +  LT    +K  +      PK           GEL    G+ L      
Sbjct: 906  KKVSPISLRVQKQLTTDTGLKEIA------PK-----------GEL----GDPL-----P 939

Query: 534  CYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLR 593
             + EM  F ++E+L+LS      +I   Q   +S  +NL  L+V+ C N+     ++L++
Sbjct: 940  LFNEMFCFPNLENLELSSIA-CEKICDDQLSAIS--SNLMSLIVERCWNLKYLFTSSLVK 996

Query: 594  CFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNI 653
                L  LEV +C S+E ++  EEL  ++ +   LF EL  L L +LP + RFC+  G  
Sbjct: 997  NLLLLKRLEVFDCMSVEGIIVAEELVEEERNRKKLFPELDFLKLKNLPHITRFCD--GYP 1054

Query: 654  IEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENFLLVHQVQPLFNEKVG 712
            +E   L  L IENC  +  F+S S      +++E + + SE+N     + QPLFNEKV 
Sbjct: 1055 VEFSSLRKLLIENCPALNMFVSKSPSADMIESREAKGMNSEKNHH--TETQPLFNEKVA 1111

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 =  358 bits (918), Expect = 8e-96,   Method: Compositional matrix adjust.
 Identities = 256/659 (38%), Positives = 371/659 (56%), Gaps = 90/659 (13%)

Query: 24   AISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFS 83
            AISLP R I +LP  L+CPNL  FLL+ K     S+QI D FF   +ELK+L L  ++ S
Sbjct: 499  AISLPFRKIPDLPAILECPNLNSFLLLNKD---PSLQIPDSFFREMKELKILDLTEVNLS 555

Query: 84   SLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLL 143
             LPSSL  L NLQTLCLD C LED++ IG+L KL++LS   S+I +LP EIG++TRLQLL
Sbjct: 556  PLPSSLQFLENLQTLCLDHCVLEDISIIGELNKLKVLSLMSSNIVRLPREIGKVTRLQLL 615

Query: 144  DLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGS----NASLAELKGLSKLTT 199
            DLSNC  L VI+PN +S  +RLE+LYMG+SF +W+  EG S    NA L+ELK LS L+T
Sbjct: 616  DLSNCERLEVISPNALSSLTRLEDLYMGNSFVKWE-TEGSSSQRNNACLSELKHLSNLST 674

Query: 200  LEIHVWDAQILPQDWVSV--ELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLEN 257
            L + + DA  +P+D  S    L+R++I IG+    W V   TSR + L  L  V  L E 
Sbjct: 675  LHMQITDADNMPKDLFSSFQNLERFRIFIGDGWD-WSVKDATSRTLKLK-LNTVIQLEE- 731

Query: 258  YGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRC 317
             G+  LLK  EE+HL +L GV++++++L DGEGFP+L+HL V+ C  + +I+ S+     
Sbjct: 732  -GVNTLLKITEELHLQELNGVKSILNDL-DGEGFPQLRHLHVQNCPGVQYIINSIRMGPR 789

Query: 318  TIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRL 377
            T F  L+SL L  L NLE IC  QL   +S  NLRI++V+SC +LK+LFS SMA+ L+RL
Sbjct: 790  TAFLNLDSLFLENLDNLEKICHGQLMA-ESLGNLRILKVESCHRLKNLFSVSMARRLVRL 848

Query: 378  QKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEE 437
            +++ +  C  +E +V  + E              +DAA                      
Sbjct: 849  EEITIIDCKIMEEVVAEESE--------------NDAAD--------------------- 873

Query: 438  IIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFS 497
                 GE +    I F +L+ L L  LP  TSF          ++E  S +         
Sbjct: 874  -----GEPI----IEFTQLRRLTLQCLPQFTSF--------HSNVEESSDSQ-------- 908

Query: 498  HRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLRE 557
                   +  K+  +E    E+    GN L +++   +   I F ++E L+LS   ++ +
Sbjct: 909  -------RRQKLLASEARSKEI--VAGNELGTSMS-LFNTKILFPNLEDLKLSSI-KVEK 957

Query: 558  IWHGQ-ALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLE 616
            IWH Q ++      NL+ + V++C N++  + ++++     L  LE+ NC S+EE++  E
Sbjct: 958  IWHDQPSVQSPCVKNLASIAVENCRNLNYLLTSSMVESLAQLKKLEICNCKSMEEIVVPE 1017

Query: 617  ELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFIS 675
            ++   K     LF +L +L LI LPKL RFC  T N++E   L  L + NC +++ FIS
Sbjct: 1018 DIGEGKMMSKMLFPKLLILSLIRLPKLTRFC--TSNLLECHSLKVLTVGNCPELKEFIS 1074

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488288|ref|XP_003633735.1| PREDICTED: LOW QUALITY PROTEIN: probable disease resistance protein At1g61310-like [Vitis vinifera]

 Score =  345 bits (884), Expect = 7e-92,   Method: Compositional matrix adjust.
 Identities = 292/836 (34%), Positives = 417/836 (49%), Gaps = 132/836 (15%)

Query: 31   DIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLG 90
            DI+ELPE L   +              S++I + FFEG ++LKVL    +H  SLPSSL 
Sbjct: 515  DIRELPEGLNHNS--------------SLKIPNTFFEGMKQLKVLDFTNMHLPSLPSSLH 560

Query: 91   RLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSS 150
             L NL+TLCLD C+L D+  I +LKKLEILS   SDI+QLP E+ QLT L+LLDL   S 
Sbjct: 561  CLANLRTLCLDACKLGDITIIAELKKLEILSLMDSDIEQLPRELSQLTHLRLLDLKGSSK 620

Query: 151  LVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQIL 210
            L VI P+VIS  S+LE+L M +S++QW+ VEG SNA LAELK LS LTTL+I + DA++ 
Sbjct: 621  LKVIPPDVISSLSQLEDLCMENSYTQWE-VEGKSNAYLAELKHLSYLTTLDIQIPDAKLF 679

Query: 211  PQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEI 270
            P+D V   L +Y+I +G+    W  N ET++ + L+  +    L+E  G+  LL+  E++
Sbjct: 680  PKDVVFDNLMKYRIFVGDVWS-WEENCETNKTLKLNEFDTSLHLVE--GISKLLRXTEDL 736

Query: 271  HLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRC-TIFPLLESLSLW 329
            HL  L+G  N++ +LD  + F +LKHL VE   EI  I+ S+        FP++E+L L 
Sbjct: 737  HLHDLRGTTNILSKLDR-QCFLKLKHLNVESSPEIRSIMNSMDLTPSHHAFPVMETLFLR 795

Query: 330  FLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLE 389
             L NL+ +C  Q     SF  LR +EV+ CD LK LFS SMA+ L RL+++ +  C  + 
Sbjct: 796  QLINLQEVCHGQFPSG-SFGFLRKVEVEDCDSLKFLFSLSMARGLSRLKEITMTRCKSMG 854

Query: 390  MMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKEN 449
             +V   R+         EI   DDA   V +P                            
Sbjct: 855  EIVPQGRK---------EIKDGDDA---VNVP---------------------------- 874

Query: 450  RIAFGKLKVLILNYLPTLTSFCLE----------------------------NYTLEFPS 481
               F +L+ L L  LP L +FC E                              +L F +
Sbjct: 875  --LFPELRYLTLQDLPKLINFCFEENLMLSKPVSTIAGRSTSLFNQAEVWNGQLSLSFGN 932

Query: 482  LERVSLTHCPN-MKTFSHRILSIPKPCKVQVTE--KEEGELHHWEGNNLNS---TIQKCY 535
            L  + + +C + +K F   +    +  +V   E   +  E+   EG N++     +    
Sbjct: 933  LRSLMMQNCMSLLKVFPSSLFQSLQNLEVLKVENCNQLEEIFDLEGLNVDGGHVGLLPKL 992

Query: 536  EEM--IGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLR 593
            EEM   G   +E L L    R+ EIW  Q  PV  F  L  L + +  ++   IP+++L+
Sbjct: 993  EEMCLTGCIPLEELILDG-SRIIEIWQEQ-FPVESFCRLRVLSICEYRDILVVIPSSMLQ 1050

Query: 594  CFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNI 653
              + L  L VR+C S++EV+ LE L  ++ H   L   L  L L DLP+LK       N+
Sbjct: 1051 RLHTLEKLTVRSCGSVKEVVQLEGLVDEENHFRAL-ARLRELELNDLPELKYLWKENSNV 1109

Query: 654  -IEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENFLLVHQVQPLFNEKV- 711
                  L  L I +C ++   + +SV      + +     S  N L     + L   K+ 
Sbjct: 1110 GPHFQNLEILKIWDCDNLMNLVPSSVSFHNLASLDISYCCSLINLLPPLIAKSLVQHKIF 1169

Query: 712  ---------------GEEAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVR 756
                           GE A D I F +LE + L  LP+LTSF  G Y+L FP LE VVV 
Sbjct: 1170 KIGRSDMMKEVVANEGENAGDEITFCKLEEIELCVLPNLTSFCSGVYSLSFPVLERVVVE 1229

Query: 757  QCPTMKIFSQGGVDAPKLNKVKPTEEEDGDEVDDDDDDEEGCWEGNLNDTIKKLFN 812
            +CP MKIFSQG +  P+L++V         EV ++ +     W+ +LN TI  LFN
Sbjct: 1230 ECPKMKIFSQGLLVTPRLDRV---------EVGNNKEH----WKDDLNTTIHLLFN 1272

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  344 bits (883), Expect = 9e-92,   Method: Compositional matrix adjust.
 Identities = 287/856 (33%), Positives = 439/856 (51%), Gaps = 119/856 (13%)

Query: 1    MFNIPNVADVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQ 60
            +F +   + +E+  E+ I +   AISLP   I +LPE  +CP+LQ FLL  K     S++
Sbjct: 433  VFAVACDSGLEEWPEKDILEQFTAISLPDCKIPKLPEVFECPDLQSFLLYNKD---SSLK 489

Query: 61   ISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEIL 120
            I D FF   ++LK++ L  +H S +P SL  L NLQTLCLD C LED+AAIG+LKKL++L
Sbjct: 490  IPDNFFSRMKKLKLMDLSNVHLSPMPLSLQCLENLQTLCLDRCTLEDIAAIGELKKLQVL 549

Query: 121  SFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKV 180
            SF GS + QLP E+G+LTRLQLLDLS C  L VI   V+S  ++LEELYMG+SF QW+  
Sbjct: 550  SFIGSTMVQLPREVGKLTRLQLLDLSRCQKLEVIPKGVLSCLTKLEELYMGNSFVQWESE 609

Query: 181  EGG---SNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNS 237
            E     +NASL ELK L  L TLE+H+ +A+ILP+D  S +L  YK+ IGE    W    
Sbjct: 610  EHDGDRNNASLDELKLLPNLVTLELHIINAEILPRDVFSEKLDLYKVFIGEEWS-WFGKY 668

Query: 238  ETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHL 297
            E SR + L     +++ +E   +K+LL   E+++L +L+GV+NV++EL DG+GFP+LKHL
Sbjct: 669  EASRTLKL----KLNSSIEIEKVKVLLMTTEDLYLDELEGVRNVLYEL-DGQGFPQLKHL 723

Query: 298  WVERCSEILHIVGSVGRVRCTI-FPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEV 356
             ++  SEI +IV  +      I FP LESL +  L+NL  IC  QL    SFS LR ++V
Sbjct: 724  HIQNSSEIQYIVDCLSMGNHYIAFPRLESLLVDNLNNLGQICYGQLMSG-SFSKLRKLKV 782

Query: 357  KSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDL--------------EMMVGPDREKPTT- 401
            + C+ LK+LF FSM + L++L++++V  C+ +              + ++ P R +  T 
Sbjct: 783  EHCNALKNLFYFSMFRGLVQLEEIDVSSCNIMEEIVVEEIEDDSGRDEIIKPIRLRTLTL 842

Query: 402  ----------SLGFNEITADDDAAPKV--GIPGI----------LVNLNVSRCDKIEEII 439
                      S    ++   D    ++    P +          L+NL +S  + +E+I 
Sbjct: 843  EYLPRFTSFCSQRMQKLAGLDAGCAQIISETPSVLFGQKIEFSNLLNLKLSSINNMEKIW 902

Query: 440  RHVGEEVKENRIAFGKLKVLI------LNYLPTLT----------------SFCLE---- 473
            R+   +VKE   +   L  LI      L+YL T +                SF  E    
Sbjct: 903  RN---QVKEPPSSVQNLTSLIVEGCGKLSYLFTSSMVENLSQLEYLEISDCSFMEEIIVA 959

Query: 474  ------NYTLEFPSLERVSLTHCPNMKTF------------SHRILSIPKPCKVQVTEKE 515
                  N  L FP L  + L   PN+  F            + RI + P+  K   +   
Sbjct: 960  EGLTKHNSKLHFPILHTLKLKSLPNLIRFCFGNLIECPSLNALRIENCPRLLKFISSSAS 1019

Query: 516  EGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDL 575
                 +  G   NST+   ++E + F  +E L++ +   LR IW  +    SF   L  +
Sbjct: 1020 TNMEANRGGRETNSTL---FDEKVSFPILEKLEIVYMNNLRMIWESEDRGDSFC-KLKIV 1075

Query: 576  VVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNA---DKEHIGPLFLEL 632
             + +C  + +  P+ +LR    L  + V NCD LEEV +L+EL A    +  + P+  +L
Sbjct: 1076 KIQNCKELVTIFPSKMLRALQKLEDVVVTNCDLLEEVFNLQELMATEGKQNRVLPVVAQL 1135

Query: 633  SLLGLIDLPKLKRFCNFTGN---IIEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQ 689
              L + +LP LK    ++G+   +     L SL+ ENC  ++     S+  +        
Sbjct: 1136 RDLTIENLPSLKHV--WSGDPQGVFSFDNLRSLSAENCPSLKNLFPASIAKS-------- 1185

Query: 690  KLTSEENFLLVHQVQPLFNEKVGEEAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPS 749
             L+  E+  +V+        K   EA    VF +L+ + L  L  + +F  G + L+ P 
Sbjct: 1186 -LSQLEDLSIVNCGLQEIVAKDRVEATPRFVFPQLKSMKLWILEEVKNFYPGRHILDCPK 1244

Query: 750  LEHVVVRQCPTMKIFS 765
            LE + +  C  +++F+
Sbjct: 1245 LEKLTIHDCDNLELFT 1260

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 =  340 bits (871), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 270/783 (34%), Positives = 392/783 (50%), Gaps = 116/783 (14%)

Query: 25   ISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS 84
            +SL   DI ELP  L CP L+LFL          ++I + FFE  ++LKVL L  +HF+S
Sbjct: 508  MSLAYNDICELPIELVCPELELFLFYH--TIDYHLKIPETFFEEMKKLKVLDLSNMHFTS 565

Query: 85   LPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLD 144
            LPSSL  L NL+TL L+WC+L D++ I +LKKLE  SF GS+I++LP EI QLT L+L D
Sbjct: 566  LPSSLRCLTNLRTLSLNWCKLGDISIIVELKKLEFFSFMGSNIEKLPREIAQLTHLRLFD 625

Query: 145  LSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHV 204
            L +CS L  I PNVIS  S+LE L M +SF+ W+ VEG SNAS+AE K L  LTTL+I +
Sbjct: 626  LRDCSKLREIPPNVISSLSKLENLCMENSFTLWE-VEGKSNASIAEFKYLPYLTTLDIQI 684

Query: 205  WDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLL 264
             DA++L  D +  +L RY+I IG+    W  N  T++ + L+ L+    L +  G+ +LL
Sbjct: 685  PDAELLLTDVLFEKLIRYRIFIGDVWS-WDKNCPTTKTLKLNKLDTSLRLAD--GISLLL 741

Query: 265  KEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRC-TIFPLL 323
            K A+++HL +L G  NV  +LD  EGF +LK L VER  E+ HI+ S+  +     FP+L
Sbjct: 742  KGAKDLHLRELSGAANVFPKLDR-EGFLQLKCLHVERSPEMQHIMNSMDPILSPCAFPVL 800

Query: 324  ESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVF 383
            ESL L  L NL+ +C  QL    SFS LRI++V+ CD LK LFS SMA+ L RL+K+E+ 
Sbjct: 801  ESLFLNQLINLQEVCHGQLLVG-SFSYLRIVKVEYCDGLKFLFSMSMARGLSRLEKIEIT 859

Query: 384  FCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVG 443
             C ++  MV   +E              DDA                             
Sbjct: 860  RCKNMYKMVAQGKED------------GDDAV---------------------------- 879

Query: 444  EEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSI 503
                 + I F +L+ L L +LP L +FCLE  T+  PS  + S        T + R   I
Sbjct: 880  -----DAILFAELRYLTLQHLPKLRNFCLEGKTM--PSTTKRS-------PTTNVRFNGI 925

Query: 504  PKPCKVQVTEKEEGELHHWEGN------NLNS-TIQKC---------------------- 534
                ++        +L  W G       NL S  I+ C                      
Sbjct: 926  CSEGELDNQTSVFNQLEGWHGQLLLSFCNLQSLKIKNCASLLKVLPPSLLQNLQNLEVLI 985

Query: 535  -----------YEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNM 583
                       + E      +E L +S    +++IWH Q LP   F  L D+ V  C  +
Sbjct: 986  VENYDIPVAVLFNEKAALPSLELLNISGLDNVKKIWHNQ-LPQDSFTKLKDVKVASCGQL 1044

Query: 584  SSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKL 643
             +  P+++L+   +L  L+  +C SLEEV  +E +N  KE +     +LS L L  LPK+
Sbjct: 1045 LNIFPSSMLKRLQSLQFLKAVDCSSLEEVFDMEGINV-KEAVA--VTQLSKLILQFLPKV 1101

Query: 644  KRFCNF-TGNIIEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENFLLVHQ 702
            K+  N     I+    L S+ I+ C  ++     S+V      +E Q  +          
Sbjct: 1102 KQIWNKEPRGILTFQNLKSVMIDQCQSLKNLFPASLVRDLVQLQELQVWSC--------G 1153

Query: 703  VQPLFNEKVGEEAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMK 762
            ++ +  +  G +     VF ++  L L  L  L SF  G +  ++P L+ + V +CP + 
Sbjct: 1154 IEVIVAKDNGVKTAAKFVFPKVTSLRLSHLHQLRSFYPGAHTSQWPLLKELKVHECPEVD 1213

Query: 763  IFS 765
            +F+
Sbjct: 1214 LFA 1216

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255574526|ref|XP_002528174.1| Disease resistance protein RFL1, putative [Ricinus communis] gi|223532386|gb|EEF34181.1| Disease resistance protein RFL1, putative [Ricinus communis]

 Score =  336 bits (861), Expect = 4e-89,   Method: Compositional matrix adjust.
 Identities = 292/882 (33%), Positives = 435/882 (49%), Gaps = 180/882 (20%)

Query: 1    MFNIPNVADVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQ 60
            +F I N   +E   +E   K    ISLP  ++ +LPE L+ PNL+  LL T+     S++
Sbjct: 472  VFTINNYIRLEVWPDEDALKSCTRISLPCLNVVKLPEVLESPNLEFLLLSTE---EPSLR 528

Query: 61   ISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEIL 120
            I   FF+G   LKVL   G+ FSSLP SLG L +L+TLCLD C L D+A IG+LKKLEIL
Sbjct: 529  IPGSFFQGIPILKVLDFCGMSFSSLPPSLGCLEHLRTLCLDHCLLHDIAIIGELKKLEIL 588

Query: 121  SFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKV 180
            +F  SDI +LP EIG+L+RL+LLDLS+CS L V   NV+S+   LEELYM +SF +W K+
Sbjct: 589  TFAHSDIVELPREIGELSRLKLLDLSHCSKLNVFPANVLSRLCLLEELYMANSFVRW-KI 647

Query: 181  EG---GSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNS 237
            EG    SNASL EL  LS LT+LEI + DA+ILP+D  + +LQRYKI IG+    W  + 
Sbjct: 648  EGLMNQSNASLDELVLLSHLTSLEIQILDARILPRDLFTKKLQRYKILIGDEWD-WNGHD 706

Query: 238  ETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHL 297
            ETSR++    L+  +++   Y +   L+  +++ L   +GV ++++ L+  EGFP+LK L
Sbjct: 707  ETSRVL---KLKLNTSIHSEYEVNQFLEGTDDLSLADARGVNSILYNLN-SEGFPQLKRL 762

Query: 298  WVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVK 357
             V+ C EI  +V +   V    FPLL+SL L  L NLE  C  +L    SFS LR I+V+
Sbjct: 763  IVQNCPEIHCLVNASESVPTVAFPLLKSLLLENLMNLEKFCHGELV-GGSFSELRSIKVR 821

Query: 358  SCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPK 417
            SC++LK+L SFSM + L++LQ++EV                                   
Sbjct: 822  SCNELKNLLSFSMVRFLMQLQEMEVI---------------------------------- 847

Query: 418  VGIPGILVNLNVSRCDKIEEIIRHVG--EEVKENRIAFGKLKVLILNYLPTLTSFC--LE 473
                          C  + EI ++ G   ++++   A  +L+ L L  LP L SFC   E
Sbjct: 848  -------------DCRNVMEIFKYEGADSDIEDKAAALTRLRSLTLERLPKLNSFCSIKE 894

Query: 474  NYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQK 533
              T++ P LE +                         V+E + G                
Sbjct: 895  PLTID-PGLEEI-------------------------VSESDYGP--------------- 913

Query: 534  CYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLR 593
                +     +E L LS  P    IWHG+       ++L  L+V++C +       +++R
Sbjct: 914  -SVPLFQVPTLEDLILSSIP-CETIWHGELSTAC--SHLKSLIVENCRDWKYLFTLSMIR 969

Query: 594  CFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLL---------------GLI 638
             F  L  LE+ NC+ +E ++  EE + ++  I  +F  L+ L               GLI
Sbjct: 970  SFIRLEKLEICNCEFMEGIIRTEEFSEEEGMIKLMFPRLNFLKLKNLSDVSSLRIGHGLI 1029

Query: 639  DLPKLK--------------------------------RFCNFTGNIIEMPVLCSLAIEN 666
            + P L+                                +FC    N+  MP   S + +N
Sbjct: 1030 ECPSLRHLELNRLNDLKNIWSRNIHFDPFLQNVEILKVQFCENLTNL-AMP---SASFQN 1085

Query: 667  CTDMETFISNSVVHATTDNKEPQ-----KLTSEENFLLVHQVQPLFNEKVGEEAKDCIVF 721
             T +E    + V++  T +          +  E+  +L   V    +E  GE     I+F
Sbjct: 1086 LTCLEVLHCSKVINLVTSSVATSMVQLVTMHIEDCDMLTGIVADEKDETAGE-----IIF 1140

Query: 722  RELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMKIFSQGGVDAPKLNKVKPTE 781
             +L+ L L  L +LTSF L      FPSLE V V +CP +++FS G   A KL +V    
Sbjct: 1141 TKLKTLALVRLQNLTSFCLRGNTFNFPSLEEVTVAKCPKLRVFSPGITIASKLERV---- 1196

Query: 782  EEDGDEVDDDDDDEEGCWEGNLNDTIKKLFNEMVSINEVLAL 823
                  + +   +++  WEGNLN TI+++++EMV++++ L L
Sbjct: 1197 ------LIEFPSEDKWRWEGNLNATIEQMYSEMVNVHQKLML 1232

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

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 =  332 bits (852), Expect = 4e-88,   Method: Compositional matrix adjust.
 Identities = 254/659 (38%), Positives = 359/659 (54%), Gaps = 99/659 (15%)

Query: 24   AISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFS 83
            AISLP R I +LP  L+CPNL  F+L+ K     S+QI D FF   +ELKVL L  ++ S
Sbjct: 499  AISLPYRKIPDLPAILECPNLNSFILLNKD---PSLQIPDNFFREMKELKVLDLTRVNLS 555

Query: 84   SLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLL 143
             LPSSL  L NLQTLCLD C LED++ +G+LKKL++LS   SDI  LP EIG+LTRL LL
Sbjct: 556  PLPSSLQFLENLQTLCLDGCVLEDISIVGELKKLKVLSLISSDIVCLPREIGKLTRLLLL 615

Query: 144  DLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGS----NASLAELKGLSKLTT 199
            DLSNC  L VI+PNV+S  +RLEELYMG+SF +W+  EG S    NA L+ELK LS L T
Sbjct: 616  DLSNCERLEVISPNVLSSLTRLEELYMGNSFVKWE-TEGSSSQRNNACLSELKRLSNLIT 674

Query: 200  LEIHVWDAQILPQD--WVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLEN 257
            L + + DA  + +D  ++  +L+R++I IG+    W V   TSR + L    N    LE 
Sbjct: 675  LHMQITDADNMLKDLSFLFQKLERFRIFIGDGWD-WSVKYATSRTLKLK--LNTVIQLEE 731

Query: 258  YGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRC 317
            + +  LLK  EE+HL +LKGV++++++L DGE FPRLKHL V+ C  + +I+ S+     
Sbjct: 732  W-VNTLLKSTEELHLQELKGVKSILNDL-DGEDFPRLKHLHVQNCPGVQYIINSIRMGPR 789

Query: 318  TIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRL 377
            T F  L+SL L  L NLE IC  QL   +S   LRI++V+SC +LK+LFS SMA+ L+RL
Sbjct: 790  TAFLNLDSLFLENLDNLEKICHGQLMA-ESLGKLRILKVESCHRLKNLFSVSMARRLVRL 848

Query: 378  QKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEE 437
            +++ +  C  +E +V  + E  T            D  P                     
Sbjct: 849  EEITIIDCKIMEEVVAEESENDTA-----------DGEP--------------------- 876

Query: 438  IIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFS 497
                         I F +L+ L L  LP  TSF                           
Sbjct: 877  -------------IEFAQLRRLTLQCLPQFTSF----------------------HSNRR 901

Query: 498  HRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLRE 557
             ++L+     K  V            GN L +++   +   I F ++E L+LS   ++ +
Sbjct: 902  QKLLASDVRSKEIVA-----------GNELGTSMS-LFNTKILFPNLEDLKLSSI-KVEK 948

Query: 558  IWHGQ-ALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLE 616
            IWH Q A+      NL+ +VV+ C+N++  + ++++     L  LE+ NC+S+EE++  E
Sbjct: 949  IWHDQPAVQPPCVKNLASMVVESCSNLNYLLTSSMVESLAQLERLEICNCESMEEIVVPE 1008

Query: 617  ELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFIS 675
             +   K     LF +L LL L  LPKL RFC  T N++E   L  L + NC +++ FIS
Sbjct: 1009 GIGEGKMMSKMLFPKLHLLELSGLPKLTRFC--TSNLLECHSLKVLMVGNCPELKEFIS 1065

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>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 =  327 bits (837), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 256/684 (37%), Positives = 372/684 (54%), Gaps = 91/684 (13%)

Query: 31   DIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLG 90
            +I ELP  L+CP L LF +         ++I+D FF    +L+VL L  +  SSLPSS+ 
Sbjct: 504  NISELPADLECPQLDLFQIFNDNHY---LKIADNFFSRMHKLRVLGLSNLSLSSLPSSVS 560

Query: 91   RLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSS 150
             L NLQTLCLD   L+D++AIG LK+LEILSF  S+IKQLP EI QLT+L+LLDLS+C  
Sbjct: 561  LLENLQTLCLDRSTLDDISAIGDLKRLEILSFFQSNIKQLPREIAQLTKLRLLDLSDCFE 620

Query: 151  LVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQIL 210
            L VI P+V SK S LEELYM +SF QWD  EG +NASLAEL+ LS LT  EIH+ D+Q+L
Sbjct: 621  LEVIPPDVFSKLSMLEELYMRNSFHQWD-AEGKNNASLAELENLSHLTNAEIHIQDSQVL 679

Query: 211  PQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEI 270
            P   +   L++Y++CIG+    W  +     L       N      NYG++MLL   E++
Sbjct: 680  PYGIIFERLKKYRVCIGDD---WDWDGAYEMLRTAKLKLNTKIDHRNYGIRMLLNRTEDL 736

Query: 271  HLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWF 330
            +L +++GV N++ ELD  EGFP LKHL +    EI +I+ ++  V    FP+LESL L+ 
Sbjct: 737  YLFEIEGV-NIIQELDR-EGFPHLKHLQLRNSFEIQYIISTMEMVSSNAFPILESLILYD 794

Query: 331  LSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEM 390
            LS+L+ IC   L   +SF+ LRII V+ C+KL +LFSF +A+ L +LQK+++ FC  +E 
Sbjct: 795  LSSLKKICHGAL-RVESFAKLRIIAVEHCNKLTNLFSFFVARGLSQLQKIKIAFCMKMEE 853

Query: 391  MVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENR 450
            +V  + +                   ++G    +V++                       
Sbjct: 854  VVAEESD-------------------ELGDQNEVVDV----------------------- 871

Query: 451  IAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQ 510
            I F +L  L L YLP L +F    Y+   PS    SL+             + PKP   +
Sbjct: 872  IQFTQLYSLSLQYLPHLMNF----YSKVKPS----SLSR------------TQPKPSITE 911

Query: 511  VTEKE---EGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVS 567
               +E   E EL          T  + + E I F ++E L L +   + ++W+ Q   +S
Sbjct: 912  ARSEEIISEDELR---------TPTQLFNEKILFPNLEDLNL-YAINIDKLWNDQHPSIS 961

Query: 568  F-FNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIG 626
                NL  LVV+ C ++    P++L+     L  L + NC S+EE++ +  L  ++E   
Sbjct: 962  VSIQNLQRLVVNQCGSLKYLFPSSLVNILVQLKHLSITNCMSVEEIIAIGGLK-EEETTS 1020

Query: 627  PLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFISNSVVHATTDNK 686
             +F +L  + L DLPKL+RFC   G+ IE P+L  + I  C + +TF ++       D  
Sbjct: 1021 TVFPKLEFMELSDLPKLRRFC--IGSSIECPLLKRMRICACPEFKTFAADFSCANINDGN 1078

Query: 687  EPQKLTSEENFLLVHQVQPLFNEK 710
            E +++ SEEN   V  +Q LF EK
Sbjct: 1079 ELEEVNSEENNNNV--IQSLFGEK 1100

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 =  319 bits (817), Expect = 5e-84,   Method: Compositional matrix adjust.
 Identities = 249/659 (37%), Positives = 355/659 (53%), Gaps = 99/659 (15%)

Query: 24   AISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFS 83
            AISLP R I +LP  L+CPNL  FLL++      S+QI + FF   +ELKVL L G++ S
Sbjct: 499  AISLPFRKIPDLPAILECPNLNSFLLLS---TDPSLQIPENFFREMKELKVLDLTGVNLS 555

Query: 84   SLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLL 143
             LPSSL  L NLQTLCLD+C LED++ +G+LKKL++LS  GSDI  LP EIG+LTRL LL
Sbjct: 556  PLPSSLQFLENLQTLCLDFCVLEDISIVGELKKLKVLSLMGSDIVCLPREIGKLTRLLLL 615

Query: 144  DLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGS----NASLAELKGLSKLTT 199
            DLSNC  L VI+PNV+S  +RLEELYMG+SF +W+  EG S    +A L+ELK L+ L T
Sbjct: 616  DLSNCERLEVISPNVLSSLTRLEELYMGNSFLKWE-AEGPSSERNSACLSELKLLANLIT 674

Query: 200  LEIHVWDAQILPQDWVSV--ELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLEN 257
            L++ + DA  +P+D      +L+R++I IG+    W V   TSR + L  L  V  L E 
Sbjct: 675  LDMQITDADHMPKDLFLCFQKLERFRIFIGDGWD-WSVKYATSRTLKLK-LNTVIQLEER 732

Query: 258  YGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRC 317
              +  LLK  EE+HL +L GV++++++LD+ EGF +LK L V+ C  + +I+ S+     
Sbjct: 733  --VNTLLKITEELHLQELNGVKSILNDLDE-EGFCQLKDLHVQNCPGVQYIINSMRMGPR 789

Query: 318  TIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRL 377
            T F  L+SL L  L NLE IC  QL   +S  NLRI++V+SC +LK+LFS S+A+ ++RL
Sbjct: 790  TAFLNLDSLFLENLDNLEKICHGQLMA-ESLGNLRILKVESCHRLKNLFSVSIARRVVRL 848

Query: 378  QKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEE 437
            +++ +  C  +E +V  + E  T            D  P                     
Sbjct: 849  EEITIIDCKIMEEVVAEESENDTA-----------DGEP--------------------- 876

Query: 438  IIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFS 497
                         I F +L+ L L  LP  TSF                           
Sbjct: 877  -------------IEFTQLRRLTLQCLPQFTSF----------------------HSNRR 901

Query: 498  HRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLRE 557
             ++L+     K  V   E G            T    +   I F  +E L LS   ++ +
Sbjct: 902  QKLLASDVRSKEIVAGNELG------------TSMSLFNTKILFPKLEDLMLSSI-KVEK 948

Query: 558  IWHGQ-ALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLE 616
            IWH Q A+      NL+ +VV+ C+N++  + ++++     L  LE+ NC S+EE++  E
Sbjct: 949  IWHDQHAVQPPCVKNLASIVVESCSNLNYLLTSSMVESLAQLKSLEICNCKSMEEIVVPE 1008

Query: 617  ELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFIS 675
             +   K     LF +L +L LI LPKL RFC  T N++E   L  L +  C +++ FIS
Sbjct: 1009 GIGEGKMMSKMLFPKLHILSLIRLPKLTRFC--TSNLLECHSLKVLTLGKCPELKEFIS 1065

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296087872|emb|CBI35155.3| unnamed protein product [Vitis vinifera]

 Score =  311 bits (796), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 257/737 (34%), Positives = 378/737 (51%), Gaps = 118/737 (16%)

Query: 25  ISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS 84
           +SL   DI ELP  L CP L+LFL          ++I + FFE  ++LKVL L  +HF+S
Sbjct: 328 MSLAYNDICELPIELVCPELELFLFY--HTIDYHLKIPETFFEEMKKLKVLDLSNMHFTS 385

Query: 85  LPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLD 144
           LPSSL  L NL+TL L+WC+L D++ I +LKKLE  SF GS+I++LP EI QLT L+L D
Sbjct: 386 LPSSLRCLTNLRTLSLNWCKLGDISIIVELKKLEFFSFMGSNIEKLPREIAQLTHLRLFD 445

Query: 145 LSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHV 204
           L +CS L  I PNVIS  S+LE L M +SF+ W+ VEG SNAS+AE K L  LTTL+I +
Sbjct: 446 LRDCSKLREIPPNVISSLSKLENLCMENSFTLWE-VEGKSNASIAEFKYLPYLTTLDIQI 504

Query: 205 WDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLL 264
            DA++L  D +  +L RY+I IG+    W  N  T++ + L+ L+    L +  G+ +LL
Sbjct: 505 PDAELLLTDVLFEKLIRYRIFIGDVWS-WDKNCPTTKTLKLNKLDTSLRLAD--GISLLL 561

Query: 265 KEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRC-TIFPLL 323
           K A+++HL +L G  NV  +LD  EGF +LK L VER  E+ HI+ S+  +     FP+L
Sbjct: 562 KGAKDLHLRELSGAANVFPKLDR-EGFLQLKCLHVERSPEMQHIMNSMDPILSPCAFPVL 620

Query: 324 ESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVF 383
           ESL L  L NL+ +C  QL    SFS LRI++V+ CD LK LFS SMA+ L RL+K+E+ 
Sbjct: 621 ESLFLNQLINLQEVCHGQLLVG-SFSYLRIVKVEYCDGLKFLFSMSMARGLSRLEKIEIT 679

Query: 384 FCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVG 443
            C ++  MV   +E              DDA                             
Sbjct: 680 RCKNMYKMVAQGKED------------GDDAV---------------------------- 699

Query: 444 EEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTH-------------- 489
                + I F +L+ L L +LP L +FCLE  T+  PS  + S T               
Sbjct: 700 -----DAILFAELRYLTLQHLPKLRNFCLEGKTM--PSTTKRSPTTNVRFNGICSEGELD 752

Query: 490 ----------CPNMKTFSH----RILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCY 535
                     C +    S+    R+ S+     V  +  E  E+   EG N+        
Sbjct: 753 NQTSVFNQLVCHSSIILSNYMLKRLQSLQFLKAVDCSSLE--EVFDMEGINV-------- 802

Query: 536 EEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCF 595
           +E +    +  L L   P++++IW+ +   +  F NL  +++D C ++ +  PA+L+R  
Sbjct: 803 KEAVAVTQLSKLILQFLPKVKQIWNKEPRGILTFQNLKSVMIDQCQSLKNLFPASLVRDL 862

Query: 596 NNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTG-NII 654
             L  L+V +C    EV+  ++ N  K     +F +++ L L  L +L+ F  + G +  
Sbjct: 863 VQLQELQVWSCGI--EVIVAKD-NGVKTAAKFVFPKVTSLRLSHLHQLRSF--YPGAHTS 917

Query: 655 EMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENF-LLVHQVQPLFNEKVGE 713
           + P+L  L +  C +++ F   +           Q++    N  +L+H  QPLF      
Sbjct: 918 QWPLLKELKVHECPEVDLFAFETPTF--------QQIHHMGNLDMLIH--QPLF------ 961

Query: 714 EAKDCIVFRELEYLTLD 730
                + F  LE LTLD
Sbjct: 962 -LVQQVAFPNLEELTLD 977

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	829
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.439	0.369	0.273	7.6e-20
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.425	0.384	0.254	2.5e-19
TAIR|locus:2205804	1556	AT1G27180 [Arabidopsis thalian	0.143	0.076	0.377	1.7e-08
TAIR|locus:2205824	1384	AT1G27170 [Arabidopsis thalian	0.121	0.072	0.398	2.1e-08
ZFIN|ZDB-GENE-040718-372	238	lrrc57 "leucine rich repeat co	0.174	0.609	0.296	5.7e-08
TAIR|locus:2163426	1187	TAO1 "target of AVRB operation	0.300	0.209	0.258	2.6e-07
TAIR|locus:2053405	1215	AT2G14080 [Arabidopsis thalian	0.312	0.213	0.264	1.3e-06
TAIR|locus:2094498	1981	AT3G25510 [Arabidopsis thalian	0.499	0.208	0.243	1.7e-06
TAIR|locus:2117149	1201	AT4G19050 [Arabidopsis thalian	0.436	0.301	0.235	2.3e-06
MGI|MGI:2676665	1490	Lrrc7 "leucine rich repeat con	0.297	0.165	0.278	4.5e-06

TAIR|locus:2136447 AT4G27190 [Arabidopsis thaliana (taxid:3702)]

 Score = 282 (104.3 bits), Expect = 7.6e-20, Sum P(2) = 7.6e-20
 Identities = 108/395 (27%), Positives = 189/395 (47%)

Query:    16 ETIRKDPIA-----ISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTE 70
             + IR+D +A     +SL    ++ LP+ ++   ++  +L+ +G   +  ++   F +   
Sbjct:   492 QDIRQDKLAPSLRRVSLMNNKLESLPDLVEEFCVKTSVLLLQGNFLLK-EVPIGFLQAFP 550

Query:    71 ELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWC-QLEDVAAIGQLKKLEILSFRGSDIK 128
              L++L+L G    S PS SL RL +L +L L  C +L  + ++  L KLE+L   G+ I 
Sbjct:   551 TLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCFKLVKLPSLETLAKLELLDLCGTHIL 610

Query:   129 QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSN--- 185
             + P  + +L R + LDLS    L  I   V+S+ S LE L M  S  +W  V+G +    
Sbjct:   611 EFPRGLEELKRFRHLDLSRTLHLESIPARVVSRLSSLETLDMTSSHYRWS-VQGETQKGQ 669

Query:   186 ASLAELKGLSKLTTLEIHVWDAQIL---PQDWVSVELQRYKICIGEARRIWPVNSETSRL 242
             A++ E+  L +L  L I +  +  L      W+   L+++++ +G +R I     +  RL
Sbjct:   670 ATVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWIK-RLKKFQLVVG-SRYILRTRHDKRRL 727

Query:   243 VWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHEL-DDGEGFPRLKHLWVER 301
                H   NVS +  + G   LL     + L   +G++ ++ +L  D +GF  LK L +E 
Sbjct:   728 TISH--LNVSQV--SIGW--LLAYTTSLALNHCQGIEAMMKKLVSDNKGFKNLKSLTIEN 781

Query:   302 C-----SEILHIVGSVGRVRCTIFPLLESLSLWFLS--NLETICDSQLTEDQSFSNLRII 354
                   S +  +  +  +    I  LL +L    L   +LET  + Q         L+II
Sbjct:   782 VIINTNSWVEMVSTNTSKQSSDILDLLPNLEELHLRRVDLETFSELQTHLGLKLETLKII 841

Query:   355 EVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLE 389
             E+  C KL+ L        +  L+++E+ +CD L+
Sbjct:   842 EITMCRKLRTLLDKRNFLTIPNLEEIEISYCDSLQ 876

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 241 (89.9 bits), Expect = 2.5e-19, Sum P(2) = 2.5e-19
 Identities = 95/374 (25%), Positives = 171/374 (45%)

Query:    25 ISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS 84
             +SL    ++ LP  +    ++  +L+ +G + V  ++ + F +    L++L L G+   +
Sbjct:   475 VSLMANKLERLPNNV-IEGVETLVLLLQGNSHVK-EVPNGFLQAFPNLRILDLSGVRIRT 532

Query:    85 LPSSLGRLINLQTLCLDWCQ-LEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLL 143
             LP S   L +L++L L  C+ L ++ ++  L KL+ L    S I++LP  +  L+ L+ +
Sbjct:   533 LPDSFSNLHSLRSLVLRNCKKLRNLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYI 592

Query:   144 DLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSN---ASLAELKGLSKLTTL 200
              +SN   L  I    I + S LE L M  S   W  ++G      A+L E+  L  L  L
Sbjct:   593 CVSNTYQLQSIPAGTILQLSSLEVLDMAGSAYSWG-IKGEEREGQATLDEVTCLPHLQFL 651

Query:   201 EIHVWDAQILPQDWVSV--ELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENY 258
              I + D      ++ S+   L +++      R + P  +    L     + +V+  + N 
Sbjct:   652 AIKLLDVLSFSYEFDSLTKRLTKFQFLFSPIRSVSPPGTGEGCLA----ISDVN--VSNA 705

Query:   259 GMKMLLKEAEEIHLIKLKGVQNVVHEL--DDGEGFPRLKHLWVERCSEILHIVGSVGRVR 316
              +  LL+    + L   +G+  +   L       F  +K L +     +    G   ++ 
Sbjct:   706 SIGWLLQHVTSLDLNYCEGLNGMFENLVTKSKSSFVAMKALSIHYFPSLSLASGCESQL- 764

Query:   317 CTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFS-MAKNLL 375
               +FP LE LSL  + NLE+I +           L++++V  C +LK LFS   +A  L 
Sbjct:   765 -DLFPNLEELSLDNV-NLESIGELNGFLGMRLQKLKLLQVSGCRQLKRLFSDQILAGTLP 822

Query:   376 RLQKVEVFFCDDLE 389
              LQ+++V  C  LE
Sbjct:   823 NLQEIKVVSCLRLE 836

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2205804 AT1G27180 [Arabidopsis thaliana (taxid:3702)]

 Score = 158 (60.7 bits), Expect = 1.7e-08, Sum P(2) = 1.7e-08
 Identities = 46/122 (37%), Positives = 66/122 (54%)

Query:    72 LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQ-LEDV-AAIGQLKKLEILSFRGSDIKQ 129
             LK L L G   S+LP S+ RL  L+ L L  C+ +E++ + +G L  LE L    + ++ 
Sbjct:   940 LKELLLDGTAISNLPYSIFRLQKLEKLSLMGCRSIEELPSCVGYLTSLEDLYLDDTALRN 999

Query:   130 LPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLA 189
             LP  IG L  LQ L L  C+SL  I P  I+K   L+EL++  S  +   +E GS   L 
Sbjct:  1000 LPSSIGDLKNLQKLHLMRCTSLSTI-PETINKLMSLKELFINGSAVEELPIETGSLLCLT 1058

Query:   190 EL 191
             +L
Sbjct:  1059 DL 1060

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2205824 AT1G27170 [Arabidopsis thaliana (taxid:3702)]

 Score = 156 (60.0 bits), Expect = 2.1e-08, Sum P(2) = 2.1e-08
 Identities = 41/103 (39%), Positives = 59/103 (57%)

Query:    72 LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVA-AIGQLKKLEILSFRGSDIKQL 130
             LK L L G    +LP S+ RL NL+ L L  C+++++   IG LK LE L    + +K L
Sbjct:   767 LKELLLDGTAIKNLPESINRLQNLEILSLRGCKIQELPLCIGTLKSLEKLYLDDTALKNL 826

Query:   131 PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS 173
             P  IG L  LQ L L  C+SL  I P+ I++   L++L++  S
Sbjct:   827 PSSIGDLKNLQDLHLVRCTSLSKI-PDSINELKSLKKLFINGS 868

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

ZFIN|ZDB-GENE-040718-372 lrrc57 "leucine rich repeat containing 57" [Danio rerio (taxid:7955)]

 Score = 150 (57.9 bits), Expect = 5.7e-08, P = 5.7e-08
 Identities = 45/152 (29%), Positives = 78/152 (51%)

Query:    16 ETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVL 75
             ET +K  +   L  + + E PE LQ     L    T  ++   ++    F    + LK  
Sbjct:    11 ETSQKTGV-FQLTGKGLTEFPEDLQKLTANLR---TVDLSNNKIEELPAFIGSFQHLKSF 66

Query:    76 SLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEI 134
             ++     +SLP+ +G+L  L+TL L+  QL+ + ++IGQLK L  LS  G+  K+ P  +
Sbjct:    67 TISCNKLTSLPNDIGKLKKLETLILNGNQLKQLPSSIGQLKSLRTLSLSGNQFKEFPSGL 126

Query:   135 GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLE 166
             G L +L +LDLS   + + + P  +++   +E
Sbjct:   127 GTLRQLDVLDLSK--NQIRVVPAEVAELQAIE 156

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

TAIR|locus:2163426 TAO1 "target of AVRB operation1" [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 2.6e-07, Sum P(2) = 2.6e-07
 Identities = 72/279 (25%), Positives = 131/279 (46%)

Query:    70 EELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQ--LEDVAAIGQLKKLEILSF-RGSD 126
             +EL++++ + +    LPSS+G   NL  L L  C   ++  ++IG L  L+ L   R S 
Sbjct:   683 QELRLINCLSL--VELPSSIGNATNLLELDLIDCSSLVKLPSSIGNLTNLKKLFLNRCSS 740

Query:   127 IKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEG--GS 184
             + +LP   G +T L+ L+LS CSSL+ I P+ I     L+++Y  D  S   ++    G+
Sbjct:   741 LVKLPSSFGNVTSLKELNLSGCSSLLEI-PSSIGNIVNLKKVY-ADGCSSLVQLPSSIGN 798

Query:   185 NASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVW 244
             N +L EL  L+  + +E     + +L  +   +E      C+   +   P       L  
Sbjct:   799 NTNLKELHLLNCSSLMEC---PSSML--NLTRLEDLNLSGCLSLVKL--PSIGNVINLQS 851

Query:   245 LHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSE 304
             L+ L + S+L+E   +   ++ A  +  + L G  N++           L+ L++  CS 
Sbjct:   852 LY-LSDCSSLME---LPFTIENATNLDTLYLDGCSNLLELPSSIWNITNLQSLYLNGCSS 907

Query:   305 ILHI---------VGSVGRVRCTIFPLLESLSLWFLSNL 334
             +  +         + S+  ++C+    L S S+W +SNL
Sbjct:   908 LKELPSLVENAINLQSLSLMKCSSLVELPS-SIWRISNL 945

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

TAIR|locus:2053405 AT2G14080 [Arabidopsis thaliana (taxid:3702)]

 Score = 151 (58.2 bits), Expect = 1.3e-06, P = 1.3e-06
 Identities = 79/299 (26%), Positives = 139/299 (46%)

Query:    85 LPSSLGRLINLQTLCLDWCQ-LEDV-AAIGQ---LKKLEILSFRGSDIKQLPLEIGQLTR 139
             LPSS+G   NL+ L L  C  L+++ ++IG    LKKL ++    S +K+LP  IG  T 
Sbjct:   761 LPSSIGNATNLKELDLSCCSSLKELPSSIGNCTNLKKLHLICC--SSLKELPSSIGNCTN 818

Query:   140 LQLLDLSNCSSLVVIAPNVISKFSRLEELYMG--DSFSQWDKVEG-GSNASLAELKGLSK 196
             L+ L L+ CSSL+ + P+ I     LE+L +   +S  +     G  +N  +  L  LS 
Sbjct:   819 LKELHLTCCSSLIKL-PSSIGNAINLEKLILAGCESLVELPSFIGKATNLKILNLGYLSC 877

Query:   197 LTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLE 256
             L  L   + +   L       EL R + C  +  ++ P N     L +L+ L+    +L 
Sbjct:   878 LVELPSFIGNLHKLS------EL-RLRGC--KKLQVLPTNIN---LEFLNELDLTDCIL- 924

Query:   257 NYGMKMLLKEAEEIHLIKLKGVQNVVHELDDG-EGFPRLKHL---WVERCSEILHIVGSV 312
                +K     +  I  + L+G Q  + E+      +PRL+ L   + E  SE  H++  +
Sbjct:   925 ---LKTFPVISTNIKRLHLRGTQ--IEEVPSSLRSWPRLEDLQMLYSENLSEFSHVLERI 979

Query:   313 GRVRCTIFPLLESLSLWF--LSNLETI----CDSQLTEDQSFSNLRIIEVKSCDKLKHL 365
               +  +   + E ++ W   ++ L  +    C   ++  Q   +L I++ ++C  L+ L
Sbjct:   980 TVLELSDINIRE-MTPWLNRITRLRRLKLSGCGKLVSLPQLSDSLIILDAENCGSLERL 1037

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2094498 AT3G25510 [Arabidopsis thaliana (taxid:3702)]

 Score = 143 (55.4 bits), Expect = 1.7e-06, Sum P(2) = 1.7e-06
 Identities = 120/492 (24%), Positives = 211/492 (42%)

Query:    66 FEGTEELKVLSLIGIHFS----SLPSSLGRLINLQTLCLDWC-QLEDV-AAIGQLKKLEI 119
             +EG++ L+ L  + + +S     LP  L    NL+ L L +C  L  V + +G+L KL++
Sbjct:   657 WEGSKALRNLKWMDLSYSISLKELPD-LSTATNLEELILKYCVSLVKVPSCVGKLGKLQV 715

Query:   120 LSFRG-SDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD 178
             L   G + I +LP     +T LQ LDL+ CSSLV + P+ I     L+ L +G    +  
Sbjct:   716 LCLHGCTSILELPSFTKNVTGLQSLDLNECSSLVEL-PSSIGNAINLQNLDLG--CLRLL 772

Query:   179 KVEGGSNASLAELKGLSKLTTLEIHVWDAQI-LPQDWVSVELQRYKICIGEARRIWPVNS 237
             K+      S+ +   L K     ++   + + LP    +  LQ   + +G    +  + S
Sbjct:   773 KLP----LSIVKFTNLKKFI---LNGCSSLVELPFMGNATNLQN--LDLGNCSSLVELPS 823

Query:   238 ETSRLVWLHGLE--NVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLK 295
                  + L  L+  N S+L++   +   +  A  + ++ L+   ++V E+    G   + 
Sbjct:   824 SIGNAINLQNLDLSNCSSLVK---LPSFIGNATNLEILDLRKCSSLV-EIPTSIG--HVT 877

Query:   296 HLW---VERCSEILHIVGSVGRV---------RCTIFPLLESLSLWFLSNLETI----CD 339
             +LW   +  CS ++ +  SVG +          C+    L S S    +NL  +    C 
Sbjct:   878 NLWRLDLSGCSSLVELPSSVGNISELQVLNLHNCSNLVKLPS-SFGHATNLWRLDLSGCS 936

Query:   340 SQLTEDQSF---SNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDR 396
             S +    S    +NL+ + + +C  L  L S S+  NL  L  + +  C  LE +     
Sbjct:   937 SLVELPSSIGNITNLQELNLCNCSNLVKLPS-SIG-NLHLLFTLSLARCQKLEALPSNIN 994

Query:   397 EKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKL 456
              K    L   ++T   D +     P I  N+     D          EEV  +  ++ +L
Sbjct:   995 LKSLERL---DLT---DCSQFKSFPEISTNIECLYLDGTAV------EEVPSSIKSWSRL 1042

Query:   457 KVLILNYLPTLTSFC--LENYT-LEF--------PSLERVSLTHCPNMKTFSHR-ILSIP 504
              VL ++Y   L  F   L+  T LEF        P ++ +S  H   ++ +  R +LS+P
Sbjct:  1043 TVLHMSYFEKLKEFSHVLDIITWLEFGEDIQEVAPWIKEISRLH--GLRLYKCRKLLSLP 1100

Query:   505 K-PCKVQVTEKE 515
             + P  + +   E
Sbjct:  1101 QLPESLSIINAE 1112

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2117149 AT4G19050 [Arabidopsis thaliana (taxid:3702)]

 Score = 117 (46.2 bits), Expect = 2.3e-06, Sum P(3) = 2.3e-06
 Identities = 99/421 (23%), Positives = 188/421 (44%)

Query:    46 LFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWC-Q 104
             L +L   G + + + I D FF+   +L+ L+L G+   S PS++ +L  L+   L  C +
Sbjct:   493 LHVLEVSGASSL-VNIPDDFFKNMTQLQSLNLSGLAIKSSPSTIEKLSMLRCFILRHCSE 551

Query:   105 LEDVAA-IGQLKKLEILSFRGS-----------DIKQLPLEIGQLTRLQLLDLSNCSSLV 152
             L+D+   I + +KLE++   G+           D K    +     +LQLL+  + S   
Sbjct:   552 LQDLPNFIVETRKLEVIDIHGARKLESYFDRVKDWKDYKGKNKNFAQLQLLEHLDFSETK 611

Query:   153 VIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQ 212
             +I         RL   ++ DS + +  +   +   L     L +L  L   + + QIL  
Sbjct:   612 II---------RLPIFHLKDSTNDFSTMPILTRLLLRNCTRLKRLPQLR-PLTNLQILDA 661

Query:   213 DWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHL 272
                +  ++  ++C+ E + +  ++   + L  L   + ++ ++ N   K+LL+    I  
Sbjct:   662 CGATDLVEMLEVCLEEKKELRILDMSKTSLPEL--ADTIADVV-NLN-KLLLRNCSLIE- 716

Query:   273 IKLKGVQNVVH-ELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFL 331
              +L  ++ + H E+ D  G  +LK++      E+ ++   V      +  L + +S   L
Sbjct:   717 -ELPSIEKLTHLEVFDVSGCIKLKNI-NGSFGEMSYL-HEVNLSETNLSELPDKISE--L 771

Query:   332 SNLETI----CDS--QLTEDQSFSNLRIIEVKSCDKLKHLF-SFSMAKNLLRLQKVEVFF 384
             SNL+ +    C     L   +  +NL I +V  C +L+ +  SF   +NL  L KV +  
Sbjct:   772 SNLKELIIRKCSKLKTLPNLEKLTNLEIFDVSGCTELETIEGSF---ENLSCLHKVNLSE 828

Query:   385 CDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGI-----LVNLNVSRC---DKIE 436
              +  E+   P++    ++L   E+   + +  K  +P +     LV  +VS C   DKIE
Sbjct:   829 TNLGEL---PNKISELSNL--KELILRNCSKLKA-LPNLEKLTHLVIFDVSGCTNLDKIE 882

Query:   437 E 437
             E
Sbjct:   883 E 883

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

MGI|MGI:2676665 Lrrc7 "leucine rich repeat containing 7" [Mus musculus (taxid:10090)]

 Score = 147 (56.8 bits), Expect = 4.5e-06, P = 4.5e-06
 Identities = 77/276 (27%), Positives = 135/276 (48%)

Query:     4 IPN-VADVEKKMEETIRKDPIAIS-LPQR--DIQELPERLQCPNLQLFLLITKGIAPVSM 59
             +P  V + E+ +EE +  D   I  LP++  + Q L  +L  P+  L  L T   + V++
Sbjct:    37 VPKEVFNFERTLEE-LYLDANQIEELPKQLFNCQAL-RKLSIPDNDLSSLPTSIASLVNL 94

Query:    60 QISDLFFEGTEEL-------KVLSLI--GIH-FSSLPSSLGRLINLQTLCLDWCQLEDVA 109
             +  D+   G +E        K L++I   ++  S LP    +L+NL  L L+   LE + 
Sbjct:    95 KELDISKNGVQEFPENIKCCKCLTIIEASVNPISKLPDGFTQLLNLTQLYLNDAFLEFLP 154

Query:   110 A-IGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEEL 168
             A  G+L KL IL  R + +K LP  + +L +L+ LDL N     +  P V+ +   L EL
Sbjct:   155 ANFGRLVKLRILELRENHLKTLPKSMHKLAQLERLDLGNNEFSEL--PEVLDQIQNLREL 212

Query:   169 YMGDSFSQWDKVEGGSNASLAELKGL----SKLTTLEIHVWDAQILPQDWVSVE-LQRYK 223
             +M ++  Q   V  GS   L  L  L    +++ T+++ +   + L    +S   LQ+  
Sbjct:   213 WMDNNALQ---VLPGSIGKLKMLVYLDMSKNRIETVDMDISGCEALEDLLLSSNMLQQLP 269

Query:   224 ICIGEARRIWPVNSETSRLVWL-HGLENVSTLLENY 258
               IG  +++  +  + ++L  L + + N+S LLE +
Sbjct:   270 DSIGLLKKLTTLKVDDNQLTMLPNTIGNLS-LLEEF 304

GO:0005737 "cytoplasm" evidence=ISO

GO:0005886 "plasma membrane" evidence=ISO

GO:0008022 "protein C-terminus binding" evidence=ISO

GO:0010976 "positive regulation of neuron projection development" evidence=ISO

GO:0014069 "postsynaptic density" evidence=ISO

GO:0015629 "actin cytoskeleton" evidence=ISO

GO:0016020 "membrane" evidence=IEA

GO:0030054 "cell junction" evidence=IEA

GO:0030175 "filopodium" evidence=ISO

GO:0043005 "neuron projection" evidence=ISO

GO:0043194 "axon initial segment" evidence=ISO

GO:0043197 "dendritic spine" evidence=ISO

GO:0045202 "synapse" evidence=ISO

GO:0045211 "postsynaptic membrane" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.03110007 cc-nbs-lrr resistance protein (1315 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	829
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	2e-06
PLN03210	1153	PLN03210, PLN03210, Resistant to P	0.001
pfam12799	43	pfam12799, LRR_4, Leucine Rich repeats (2 copies)	0.003

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

 Score = 50.4 bits (120), Expect = 2e-06
 Identities = 38/111 (34%), Positives = 49/111 (44%), Gaps = 3/111 (2%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAA-IGQLKKLE 118
            I  L       LK L L      SLPS L  L NL+ L L +  L D+   +  L  L 
Sbjct: 130 DIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLN 189

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELY 169
            L   G+ I  LP EI  L+ L+ LDLSN S + +   + +S    L  L 
Sbjct: 190 NLDLSGNKISDLPPEIELLSALEELDLSNNSIIEL--LSSLSNLKNLSGLE 238

Length = 394

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

 Score = 42.6 bits (100), Expect = 0.001
 Identities = 33/102 (32%), Positives = 56/102 (54%), Gaps = 5/102 (4%)

Query: 71  ELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGS-DIK 128
           +L++L         +PS+  R  NL  L +   +LE +   +  L  L  +  RGS ++K
Sbjct: 590 KLRLLRWDKYPLRCMPSNF-RPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLK 648

Query: 129 QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
           ++P ++   T L+ L LS+CSSLV + P+ I   ++LE+L M
Sbjct: 649 EIP-DLSMATNLETLKLSDCSSLVEL-PSSIQYLNKLEDLDM 688

syringae 6; Provisional. Length = 1153

>gnl|CDD|205079 pfam12799, LRR_4, Leucine Rich repeats (2 copies)

 Score = 35.5 bits (83), Expect = 0.003
 Identities = 14/38 (36%), Positives = 19/38 (50%)

Query: 94  NLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLP 131
           NL+TL L   Q+ D+  +  L  LE L   G+ I  L 
Sbjct: 2   NLETLDLSNNQITDLPPLSNLPNLETLDLSGNKITDLS 39

Leucine rich repeats are short sequence motifs present in a number of proteins with diverse functions and cellular locations. These repeats are usually involved in protein-protein interactions. Each Leucine Rich Repeat is composed of a beta-alpha unit. These units form elongated non-globular structures. Leucine Rich Repeats are often flanked by cysteine rich domains. Length = 43

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	829
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.97
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.87
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.87
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.77
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.77
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.76
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.75
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.73
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.71
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.69
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.69
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.68
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.65
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.57
KOG4341	483	consensus F-box protein containing LRR [General fu	99.39
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.34
KOG4341	483	consensus F-box protein containing LRR [General fu	99.34
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.34
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.33
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.32
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.27
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.12
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.11
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.09
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.03
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.02
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.95
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.93
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.92
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.88
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.86
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.76
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.72
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.63
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.57
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.36
PRK15386	426	type III secretion protein GogB; Provisional	98.33
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.32
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.3
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.27
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.27
PRK15386	426	type III secretion protein GogB; Provisional	98.25
PLN03150	623	hypothetical protein; Provisional	98.22
PLN03150	623	hypothetical protein; Provisional	98.2
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.19
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.14
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.09
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.01
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.98
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.96
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.92
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.89
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.79
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.78
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.67
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.58
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.53
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.48
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.28
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.27
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.18
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.1
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.57
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	96.52
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.38
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.33
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.88
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	95.66
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.5
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.43
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.0
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.43
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.27
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.66
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	91.74
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	86.93
smart00370	26	LRR Leucine-rich repeats, outliers.	86.93
KOG0473	326	consensus Leucine-rich repeat protein [Function un	85.37
KOG0473	326	consensus Leucine-rich repeat protein [Function un	83.2
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	82.22
smart00370	26	LRR Leucine-rich repeats, outliers.	81.95
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	81.95
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	80.14

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

Probab=100.00  E-value=3.7e-32  Score=334.62  Aligned_cols=204  Identities=24%  Similarity=0.356  Sum_probs=168.2

Q ss_pred             cccCCccccCC--CCCCcEEEcCCCCCCC-CCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCC
Q 003328            8 ADVEKKMEETI--RKDPIAISLPQRDIQE-LPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFS   83 (829)
Q Consensus         8 ~~~~~~~~~~~--~~~l~~L~l~~~~~~~-l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~   83 (829)
                      .+.+.|.++..  ..+++.|+++++.+.. ++..+ .+++|++|++++|.   ....+|..+|.++++||+|++++|.+.
T Consensus        55 ~~~c~w~gv~c~~~~~v~~L~L~~~~i~~~~~~~~~~l~~L~~L~Ls~n~---~~~~ip~~~~~~l~~L~~L~Ls~n~l~  131 (968)
T PLN00113         55 ADVCLWQGITCNNSSRVVSIDLSGKNISGKISSAIFRLPYIQTINLSNNQ---LSGPIPDDIFTTSSSLRYLNLSNNNFT  131 (968)
T ss_pred             CCCCcCcceecCCCCcEEEEEecCCCccccCChHHhCCCCCCEEECCCCc---cCCcCChHHhccCCCCCEEECcCCccc
Confidence            46788988753  4689999999998874 44444 89999999999998   456899988889999999999999987


Q ss_pred             C-CchhhcCCCCCcEEEccccCCC-Cc-ccccCCCCCcEEEccCCCCc-cchhhhcCCCCCCEEeccCCCCCCccChhhh
Q 003328           84 S-LPSSLGRLINLQTLCLDWCQLE-DV-AAIGQLKKLEILSFRGSDIK-QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVI  159 (829)
Q Consensus        84 ~-lp~~l~~l~~Lr~L~L~~~~l~-~l-~~i~~L~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l  159 (829)
                      . +|.  +.+++|++|++++|.+. .+ ..++++.+|++|++++|.+. .+|..++++++|++|++++|...+.+|.. +
T Consensus       132 ~~~p~--~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~-l  208 (968)
T PLN00113        132 GSIPR--GSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRE-L  208 (968)
T ss_pred             cccCc--cccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChH-H
Confidence            5 554  57899999999999987 44 78999999999999999876 78999999999999999999866778887 9


Q ss_pred             cCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCC-CcCCcc-ccccccEEEEE
Q 003328          160 SKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ-ILPQDW-VSVELQRYKIC  225 (829)
Q Consensus       160 ~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~-~~~~~~-~~~~L~~L~l~  225 (829)
                      +++++|++|++++|.+.        ......++++++|+.|++++|... .+|..+ .+++|+.|++.
T Consensus       209 ~~l~~L~~L~L~~n~l~--------~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~  268 (968)
T PLN00113        209 GQMKSLKWIYLGYNNLS--------GEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLY  268 (968)
T ss_pred             cCcCCccEEECcCCccC--------CcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECc
Confidence            99999999999998765        234456778899999999988765 344433 56677777664

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

Probab=99.97  E-value=4.7e-30  Score=316.02  Aligned_cols=518  Identities=17%  Similarity=0.105  Sum_probs=316.0

Q ss_pred             CCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCC-CCchhhc-CCCCCcEEEccccCCCCcccccCCCCCc
Q 003328           41 CPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFS-SLPSSLG-RLINLQTLCLDWCQLEDVAAIGQLKKLE  118 (829)
Q Consensus        41 ~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lp~~l~-~l~~Lr~L~L~~~~l~~l~~i~~L~~L~  118 (829)
                      ..+++.|+++++.   ..+.++.. |..+++|++|++++|++. .+|..+. .+++||+|++++|++...-..+.+.+|+
T Consensus        68 ~~~v~~L~L~~~~---i~~~~~~~-~~~l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~  143 (968)
T PLN00113         68 SSRVVSIDLSGKN---ISGKISSA-IFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLE  143 (968)
T ss_pred             CCcEEEEEecCCC---ccccCChH-HhCCCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCccccccCccccCCCC
Confidence            3579999999988   34445554 689999999999999987 5888765 9999999999999887553346789999


Q ss_pred             EEEccCCCCc-cchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCC
Q 003328          119 ILSFRGSDIK-QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKL  197 (829)
Q Consensus       119 ~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L  197 (829)
                      +|++++|.+. .+|..++++++|++|++++|...+.+|.. ++++++|++|++++|.+.        ...+..++++++|
T Consensus       144 ~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~-~~~l~~L~~L~L~~n~l~--------~~~p~~l~~l~~L  214 (968)
T PLN00113        144 TLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNS-LTNLTSLEFLTLASNQLV--------GQIPRELGQMKSL  214 (968)
T ss_pred             EEECcCCcccccCChHHhcCCCCCEEECccCcccccCChh-hhhCcCCCeeeccCCCCc--------CcCChHHcCcCCc
Confidence            9999999887 78999999999999999999866778887 899999999999998765        2345677888999


Q ss_pred             cEEEeecCCCC-CcCCcc-ccccccEEEEEEccccccCCCCCCCccEEEeccCCccccchhhhhHHHhhhhheeEeeccc
Q 003328          198 TTLEIHVWDAQ-ILPQDW-VSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKL  275 (829)
Q Consensus       198 ~~L~l~~~~~~-~~~~~~-~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~l~~L~~L~L~~~  275 (829)
                      +.|++++|... .+|..+ .+++|+.|++..                                                +
T Consensus       215 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~------------------------------------------------n  246 (968)
T PLN00113        215 KWIYLGYNNLSGEIPYEIGGLTSLNHLDLVY------------------------------------------------N  246 (968)
T ss_pred             cEEECcCCccCCcCChhHhcCCCCCEEECcC------------------------------------------------c
Confidence            99999988765 344433 455666665542                                                2


Q ss_pred             cCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceeccccccchhhhcCCCC-CCCCCCCccEE
Q 003328          276 KGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLT-EDQSFSNLRII  354 (829)
Q Consensus       276 ~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~-~~~~~~~L~~L  354 (829)
                      .-...+...+   +.+++|++|.++++.-...+   +  .....+++|+.|+++++.-...     +| ....+++|+.|
T Consensus       247 ~l~~~~p~~l---~~l~~L~~L~L~~n~l~~~~---p--~~l~~l~~L~~L~Ls~n~l~~~-----~p~~~~~l~~L~~L  313 (968)
T PLN00113        247 NLTGPIPSSL---GNLKNLQYLFLYQNKLSGPI---P--PSIFSLQKLISLDLSDNSLSGE-----IPELVIQLQNLEIL  313 (968)
T ss_pred             eeccccChhH---hCCCCCCEEECcCCeeeccC---c--hhHhhccCcCEEECcCCeeccC-----CChhHcCCCCCcEE
Confidence            2111112222   24555555555554321111   0  0112345555555554432111     11 02345566666


Q ss_pred             EEecCCCCccccchHHHHhhcccceEEEecccCcceecccCCCCCCCcccccccccCCCCCCCCCCCCceeeeeeccCcc
Q 003328          355 EVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDK  434 (829)
Q Consensus       355 ~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~l~~~~i~~~~~~~~~~~~~~~L~~L~i~~C~~  434 (829)
                      ++.++.-....|  ..+..+++|+.|++++|.-...++.. .                      +....|+.|+++++.-
T Consensus       314 ~l~~n~~~~~~~--~~~~~l~~L~~L~L~~n~l~~~~p~~-l----------------------~~~~~L~~L~Ls~n~l  368 (968)
T PLN00113        314 HLFSNNFTGKIP--VALTSLPRLQVLQLWSNKFSGEIPKN-L----------------------GKHNNLTVLDLSTNNL  368 (968)
T ss_pred             ECCCCccCCcCC--hhHhcCCCCCEEECcCCCCcCcCChH-H----------------------hCCCCCcEEECCCCee
Confidence            665553322222  22344566666666555321111100 0                      0012223333332221


Q ss_pred             hhhHHhhhcccccccccccCccceEeeccCCCcceeecCCccccCCCccEEeeccCCCcceecccccCCCCCccceeecc
Q 003328          435 IEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVTEK  514 (829)
Q Consensus       435 L~~l~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~~~~~~~~~~l~~~L~~Li~  514 (829)
                      -..+        +.....+++|+.|.+.++.-...++.  ....+++|+.|++.+|.--..+|         .       
T Consensus       369 ~~~~--------p~~~~~~~~L~~L~l~~n~l~~~~p~--~~~~~~~L~~L~L~~n~l~~~~p---------~-------  422 (968)
T PLN00113        369 TGEI--------PEGLCSSGNLFKLILFSNSLEGEIPK--SLGACRSLRRVRLQDNSFSGELP---------S-------  422 (968)
T ss_pred             EeeC--------ChhHhCcCCCCEEECcCCEecccCCH--HHhCCCCCCEEECcCCEeeeECC---------h-------
Confidence            1110        11223344555555555432222221  11244555555555543111111         0       


Q ss_pred             cccccccccCCCccchhhhhhhhccccCCcceEEeccCCCceeeccCCCCCCCcCCCCcEEEEecCCCCccccchhhHHh
Q 003328          515 EEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRC  594 (829)
Q Consensus       515 ~c~~l~~~~~~~~~~~~~~~l~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~~~p~~~~~~  594 (829)
                                            .+..+++|+.|+++++. +.....   .....+++|+.|++++|..... +|...  .
T Consensus       423 ----------------------~~~~l~~L~~L~Ls~N~-l~~~~~---~~~~~l~~L~~L~L~~n~~~~~-~p~~~--~  473 (968)
T PLN00113        423 ----------------------EFTKLPLVYFLDISNNN-LQGRIN---SRKWDMPSLQMLSLARNKFFGG-LPDSF--G  473 (968)
T ss_pred             ----------------------hHhcCCCCCEEECcCCc-ccCccC---hhhccCCCCcEEECcCceeeee-cCccc--c
Confidence                                  11227788888888854 332211   1122358899999998876654 45433  4


Q ss_pred             ccCCcEEEEecCcchhhhhccCccccccccccccccccceeecCCCCCcceeccCCCccccCCCcCeEEEeCCCCCcccc
Q 003328          595 FNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFI  674 (829)
Q Consensus       595 l~sL~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~~~~sL~~L~i~~C~~L~~l~  674 (829)
                      .++|+.|++++|.--..++....          .+++|++|+++++.-...+   +.....+++|+.|++++|.-...+ 
T Consensus       474 ~~~L~~L~ls~n~l~~~~~~~~~----------~l~~L~~L~Ls~N~l~~~~---p~~~~~l~~L~~L~Ls~N~l~~~~-  539 (968)
T PLN00113        474 SKRLENLDLSRNQFSGAVPRKLG----------SLSELMQLKLSENKLSGEI---PDELSSCKKLVSLDLSHNQLSGQI-  539 (968)
T ss_pred             cccceEEECcCCccCCccChhhh----------hhhccCEEECcCCcceeeC---ChHHcCccCCCEEECCCCcccccC-
Confidence            57899999988864334333222          4788899999887544444   445677888999999887644433 


Q ss_pred             cCCcccccccCCCCccccchhhhhhhhhhhhhhccccCcccccceeecccccccccCCCCcccccCCCCccccCcccEEe
Q 003328          675 SNSVVHATTDNKEPQKLTSEENFLLVHQVQPLFNEKVGEEAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVV  754 (829)
Q Consensus       675 ~~~~~p~~l~~~~~~~~~~~~~~~~l~~L~~L~~~~~~~~~~~~~~~~sL~~L~l~~c~~L~~l~~~~~~~~~~sL~~L~  754 (829)
                           |..+..                                   +++|+.|++++|.-...+|...  ..+++|+.|+
T Consensus       540 -----p~~~~~-----------------------------------l~~L~~L~Ls~N~l~~~~p~~l--~~l~~L~~l~  577 (968)
T PLN00113        540 -----PASFSE-----------------------------------MPVLSQLDLSQNQLSGEIPKNL--GNVESLVQVN  577 (968)
T ss_pred             -----ChhHhC-----------------------------------cccCCEEECCCCcccccCChhH--hcCcccCEEe
Confidence                 444433                                   7899999999987665666543  3478999999


Q ss_pred             eccCCcceeecCCC
Q 003328          755 VRQCPTMKIFSQGG  768 (829)
Q Consensus       755 i~~C~~l~~l~~~~  768 (829)
                      +++|+-...+|..+
T Consensus       578 ls~N~l~~~~p~~~  591 (968)
T PLN00113        578 ISHNHLHGSLPSTG  591 (968)
T ss_pred             ccCCcceeeCCCcc
Confidence            99998777777643

>PLN03210 Resistant to P

Probab=99.87  E-value=4.1e-21  Score=236.63  Aligned_cols=163  Identities=19%  Similarity=0.289  Sum_probs=99.0

Q ss_pred             CCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccC-CCCcccccCCCCCcEEE
Q 003328           43 NLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQ-LEDVAAIGQLKKLEILS  121 (829)
Q Consensus        43 ~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~-l~~l~~i~~L~~L~~L~  121 (829)
                      +||.|.+.++.    ...+|..+  ...+|+.|+++++.+..+|..+..+++|++|+++++. +..+..++.+++|++|+
T Consensus       590 ~Lr~L~~~~~~----l~~lP~~f--~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~  663 (1153)
T PLN03210        590 KLRLLRWDKYP----LRCMPSNF--RPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPDLSMATNLETLK  663 (1153)
T ss_pred             ccEEEEecCCC----CCCCCCcC--CccCCcEEECcCccccccccccccCCCCCEEECCCCCCcCcCCccccCCcccEEE
Confidence            46666666665    55566543  4566666666666666666666666667777766653 44555566666677777


Q ss_pred             ccCC-CCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEE
Q 003328          122 FRGS-DIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTL  200 (829)
Q Consensus       122 l~~~-~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L  200 (829)
                      +++| .+..+|..++++++|++|++++|..++.+|.. + ++++|++|++++|...     ..    +..  ...+|+.|
T Consensus       664 L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~-i-~l~sL~~L~Lsgc~~L-----~~----~p~--~~~nL~~L  730 (1153)
T PLN03210        664 LSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTG-I-NLKSLYRLNLSGCSRL-----KS----FPD--ISTNISWL  730 (1153)
T ss_pred             ecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCc-C-CCCCCCEEeCCCCCCc-----cc----ccc--ccCCcCee
Confidence            7665 45566666666677777777666666666654 2 5666666666666432     00    111  12356666


Q ss_pred             EeecCCCCCcCCccccccccEEEE
Q 003328          201 EIHVWDAQILPQDWVSVELQRYKI  224 (829)
Q Consensus       201 ~l~~~~~~~~~~~~~~~~L~~L~l  224 (829)
                      ++..+.+..+|....+++|+.|.+
T Consensus       731 ~L~~n~i~~lP~~~~l~~L~~L~l  754 (1153)
T PLN03210        731 DLDETAIEEFPSNLRLENLDELIL  754 (1153)
T ss_pred             ecCCCccccccccccccccccccc
Confidence            666666666665555556655544

syringae 6; Provisional

>PLN03210 Resistant to P

Probab=99.87  E-value=3.9e-21  Score=236.81  Aligned_cols=364  Identities=24%  Similarity=0.302  Sum_probs=218.1

Q ss_pred             CCcEEEcCCCCCCCC--CC--ccCCCCCcEEEeecCCCc---ccccccchhhhcCC-CCccEEEecCCCCCCCchhhcCC
Q 003328           21 DPIAISLPQRDIQEL--PE--RLQCPNLQLFLLITKGIA---PVSMQISDLFFEGT-EELKVLSLIGIHFSSLPSSLGRL   92 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l--~~--~~~~~~Lr~L~l~~~~~~---~~~~~lp~~~~~~l-~~Lr~L~L~~~~i~~lp~~l~~l   92 (829)
                      +++.+++.-..+.++  ..  ...+++|+.|.+.++...   .....+|..+ ..+ .+||+|++.++.++.+|..+ ..
T Consensus       533 ~v~~i~l~~~~~~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~-~~lp~~Lr~L~~~~~~l~~lP~~f-~~  610 (1153)
T PLN03210        533 KVLGITLDIDEIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGF-DYLPPKLRLLRWDKYPLRCMPSNF-RP  610 (1153)
T ss_pred             eeeEEEeccCccceeeecHHHHhcCccccEEEEecccccccccceeecCcch-hhcCcccEEEEecCCCCCCCCCcC-Cc
Confidence            455555544443322  11  126778888877554310   0123456554 343 46888888888888888776 56


Q ss_pred             CCCcEEEccccCCCCc-ccccCCCCCcEEEccCC-CCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEc
Q 003328           93 INLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGS-DIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM  170 (829)
Q Consensus        93 ~~Lr~L~L~~~~l~~l-~~i~~L~~L~~L~l~~~-~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l  170 (829)
                      .+|++|++.++.+..+ ..+..+.+|++|+++++ .++.+| .++.+++|++|++.+|..+..+|.. ++++++|++|++
T Consensus       611 ~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip-~ls~l~~Le~L~L~~c~~L~~lp~s-i~~L~~L~~L~L  688 (1153)
T PLN03210        611 ENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIP-DLSMATNLETLKLSDCSSLVELPSS-IQYLNKLEDLDM  688 (1153)
T ss_pred             cCCcEEECcCccccccccccccCCCCCEEECCCCCCcCcCC-ccccCCcccEEEecCCCCccccchh-hhccCCCCEEeC
Confidence            7888888888887777 77778888888888776 466666 4777888888888888777778776 788888888888


Q ss_pred             cCCccccccccCCCccchhhhcCCCCCcEEEeecCCC-CCcCCccccccccEEEEEEccccccCCCCCCCccEEEeccCC
Q 003328          171 GDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDA-QILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLE  249 (829)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~-~~~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~  249 (829)
                      ++|...     ...+..    .++++|+.|+++++.. ..+|..  ..+|+                             
T Consensus       689 ~~c~~L-----~~Lp~~----i~l~sL~~L~Lsgc~~L~~~p~~--~~nL~-----------------------------  728 (1153)
T PLN03210        689 SRCENL-----EILPTG----INLKSLYRLNLSGCSRLKSFPDI--STNIS-----------------------------  728 (1153)
T ss_pred             CCCCCc-----CccCCc----CCCCCCCEEeCCCCCCccccccc--cCCcC-----------------------------
Confidence            776543     111111    1566777777776532 222221  22333                             


Q ss_pred             ccccchhhhhHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccC--ccccccccccccee
Q 003328          250 NVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVG--RVRCTIFPLLESLS  327 (829)
Q Consensus       250 ~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~--~~~~~~~~~L~~L~  327 (829)
                                         .|++.+.. +..++.    ...+++|++|.+.++.....+.....  ......+++|+.|+
T Consensus       729 -------------------~L~L~~n~-i~~lP~----~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~  784 (1153)
T PLN03210        729 -------------------WLDLDETA-IEEFPS----NLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLF  784 (1153)
T ss_pred             -------------------eeecCCCc-cccccc----cccccccccccccccchhhccccccccchhhhhccccchhee
Confidence                               34433322 111111    11355666666655442211100000  00012346777777


Q ss_pred             ccccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecccCcceecccCCCCCCCcccccc
Q 003328          328 LWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNE  407 (829)
Q Consensus       328 L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~l~~~~  407 (829)
                      +++|+.+..++..    .+.+++|+.|+|.+|.+++.+|...   ++++|+.|++++|..+..++.              
T Consensus       785 Ls~n~~l~~lP~s----i~~L~~L~~L~Ls~C~~L~~LP~~~---~L~sL~~L~Ls~c~~L~~~p~--------------  843 (1153)
T PLN03210        785 LSDIPSLVELPSS----IQNLHKLEHLEIENCINLETLPTGI---NLESLESLDLSGCSRLRTFPD--------------  843 (1153)
T ss_pred             CCCCCCccccChh----hhCCCCCCEEECCCCCCcCeeCCCC---CccccCEEECCCCCccccccc--------------
Confidence            7777766554321    4567777888887777777776431   467777777777776654431              


Q ss_pred             cccCCCCCCCCCCCCceeeeeeccCcchhhHHhhhcccccccccccCccceEeeccCCCcceeecCCccccCCCccEEee
Q 003328          408 ITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSL  487 (829)
Q Consensus       408 i~~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i  487 (829)
                                  .+.+|+.|++++. .++.+        +..+..+++|+.|.+.+|++++.++..  ...+++|+.+.+
T Consensus       844 ------------~~~nL~~L~Ls~n-~i~~i--------P~si~~l~~L~~L~L~~C~~L~~l~~~--~~~L~~L~~L~l  900 (1153)
T PLN03210        844 ------------ISTNISDLNLSRT-GIEEV--------PWWIEKFSNLSFLDMNGCNNLQRVSLN--ISKLKHLETVDF  900 (1153)
T ss_pred             ------------cccccCEeECCCC-CCccC--------hHHHhcCCCCCEEECCCCCCcCccCcc--cccccCCCeeec
Confidence                        2345666666553 33333        334566788888888888888877653  236778888888


Q ss_pred             ccCCCccee
Q 003328          488 THCPNMKTF  496 (829)
Q Consensus       488 ~~C~~l~~~  496 (829)
                      ++|++++.+
T Consensus       901 ~~C~~L~~~  909 (1153)
T PLN03210        901 SDCGALTEA  909 (1153)
T ss_pred             CCCcccccc
Confidence            888888765

syringae 6; Provisional

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

Probab=99.77  E-value=1.6e-20  Score=206.70  Aligned_cols=463  Identities=19%  Similarity=0.209  Sum_probs=259.6

Q ss_pred             EEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccc
Q 003328           24 AISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDW  102 (829)
Q Consensus        24 ~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~  102 (829)
                      +++++.+.++-+|..+ .-..+..|++..|.    ....|-++..+.-+|+.|++++|.+..+|..+..+++|+.|+++.
T Consensus         2 ~vd~s~~~l~~ip~~i~~~~~~~~ln~~~N~----~l~~pl~~~~~~v~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~   77 (1081)
T KOG0618|consen    2 HVDASDEQLELIPEQILNNEALQILNLRRNS----LLSRPLEFVEKRVKLKSLDLSNNQISSFPIQITLLSHLRQLNLSR   77 (1081)
T ss_pred             CcccccccCcccchhhccHHHHHhhhccccc----cccCchHHhhheeeeEEeeccccccccCCchhhhHHHHhhcccch
Confidence            3566777777777654 33347778887777    444454445666668888888888888888888888888888888


Q ss_pred             cCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcccccccc
Q 003328          103 CQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVE  181 (829)
Q Consensus       103 ~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~  181 (829)
                      |.+..+ ..++++.+|++|.|.+|.+..+|.++..+++|++|++++|. ...+|.- +..++.+..+..++|..      
T Consensus        78 n~i~~vp~s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS~N~-f~~~Pl~-i~~lt~~~~~~~s~N~~------  149 (1081)
T KOG0618|consen   78 NYIRSVPSSCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLSFNH-FGPIPLV-IEVLTAEEELAASNNEK------  149 (1081)
T ss_pred             hhHhhCchhhhhhhcchhheeccchhhcCchhHHhhhcccccccchhc-cCCCchh-HHhhhHHHHHhhhcchh------
Confidence            888877 78888888888888888888888888888888888888876 6777775 77788888887777611      


Q ss_pred             CCCccchhhhcCCCCCcEEEeecCCCC-CcCCccccccccEEEEEEccccccCCCCCCCccEEEeccCCccccchhhhhH
Q 003328          182 GGSNASLAELKGLSKLTTLEIHVWDAQ-ILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGM  260 (829)
Q Consensus       182 ~~~~~~~~~L~~l~~L~~L~l~~~~~~-~~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~  260 (829)
                            +..++... .+.+++..+... .++.++  .++++                                       
T Consensus       150 ------~~~lg~~~-ik~~~l~~n~l~~~~~~~i--~~l~~---------------------------------------  181 (1081)
T KOG0618|consen  150 ------IQRLGQTS-IKKLDLRLNVLGGSFLIDI--YNLTH---------------------------------------  181 (1081)
T ss_pred             ------hhhhcccc-chhhhhhhhhcccchhcch--hhhhe---------------------------------------
Confidence                  11222221 344444433321 111111  11111                                       


Q ss_pred             HHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceeccccccchhhhcC
Q 003328          261 KMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDS  340 (829)
Q Consensus       261 ~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~  340 (829)
                              .|++.+..-.   .-.   +..+++|+.+......- ..+        ...-++|+.|+...++-.+. .. 
T Consensus       182 --------~ldLr~N~~~---~~d---ls~~~~l~~l~c~rn~l-s~l--------~~~g~~l~~L~a~~n~l~~~-~~-  236 (1081)
T KOG0618|consen  182 --------QLDLRYNEME---VLD---LSNLANLEVLHCERNQL-SEL--------EISGPSLTALYADHNPLTTL-DV-  236 (1081)
T ss_pred             --------eeecccchhh---hhh---hhhccchhhhhhhhccc-ceE--------EecCcchheeeeccCcceee-cc-
Confidence                    0111111110   000   11333333333322221 111        11234455555555544321 11 


Q ss_pred             CCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecccCcceecccCCCCCCCcccccccccCCCCCCCCCC
Q 003328          341 QLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGI  420 (829)
Q Consensus       341 ~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~l~~~~i~~~~~~~~~~~~  420 (829)
                          ...-.+|+.++|+. .+++.+|  .+...+++|+.+.+.... +..++.                           
T Consensus       237 ----~p~p~nl~~~dis~-n~l~~lp--~wi~~~~nle~l~~n~N~-l~~lp~---------------------------  281 (1081)
T KOG0618|consen  237 ----HPVPLNLQYLDISH-NNLSNLP--EWIGACANLEALNANHNR-LVALPL---------------------------  281 (1081)
T ss_pred             ----ccccccceeeecch-hhhhcch--HHHHhcccceEecccchh-HHhhHH---------------------------
Confidence                12335667777765 3566666  566667777777665432 222211                           


Q ss_pred             CCceeeeeeccCcchhhHHhhhcccccccccccCccceEeeccCCCcceeecCCccccCCCccEEeeccCCCcceecccc
Q 003328          421 PGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRI  500 (829)
Q Consensus       421 ~~~L~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~~~~~~  500 (829)
                                                  ......+|+.|.+..+ .+..++.  ....+.+|+.|++... +|.++|...
T Consensus       282 ----------------------------ri~~~~~L~~l~~~~n-el~yip~--~le~~~sL~tLdL~~N-~L~~lp~~~  329 (1081)
T KOG0618|consen  282 ----------------------------RISRITSLVSLSAAYN-ELEYIPP--FLEGLKSLRTLDLQSN-NLPSLPDNF  329 (1081)
T ss_pred             ----------------------------HHhhhhhHHHHHhhhh-hhhhCCC--cccccceeeeeeehhc-cccccchHH
Confidence                                        1112233333333333 1222221  1113555666666552 444443311


Q ss_pred             cCCCCCccceeecccccccccccCCCccchhhhhhhhccccCCcceEEeccCCCceeeccCCCCCCCcCCCCcEEEEecC
Q 003328          501 LSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDC  580 (829)
Q Consensus       501 ~~~~l~~~L~~Li~~c~~l~~~~~~~~~~~~~~~l~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~l~~L~~L~i~~C  580 (829)
                      +. ..+.+++.+=..|..+...+..           ....++.|+.|.+.+ +.+++-   ..+.+.++.+||.|++++.
T Consensus       330 l~-v~~~~l~~ln~s~n~l~~lp~~-----------~e~~~~~Lq~Lylan-N~Ltd~---c~p~l~~~~hLKVLhLsyN  393 (1081)
T KOG0618|consen  330 LA-VLNASLNTLNVSSNKLSTLPSY-----------EENNHAALQELYLAN-NHLTDS---CFPVLVNFKHLKVLHLSYN  393 (1081)
T ss_pred             Hh-hhhHHHHHHhhhhccccccccc-----------cchhhHHHHHHHHhc-Cccccc---chhhhccccceeeeeeccc
Confidence            10 1111122220011111111000           011266788888877 444432   1334456689999999987


Q ss_pred             CCCccccchhhHHhccCCcEEEEecCcchhhhhccCccccccccccccccccceeecCCCCCcceeccCCCccccCCCcC
Q 003328          581 TNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLC  660 (829)
Q Consensus       581 ~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~~~~sL~  660 (829)
                      + +.. ||+..++++..||+|+++|. +|+.+|....          .++.|++|... -..|.++   | ....++.|+
T Consensus       394 r-L~~-fpas~~~kle~LeeL~LSGN-kL~~Lp~tva----------~~~~L~tL~ah-sN~l~~f---P-e~~~l~qL~  455 (1081)
T KOG0618|consen  394 R-LNS-FPASKLRKLEELEELNLSGN-KLTTLPDTVA----------NLGRLHTLRAH-SNQLLSF---P-ELAQLPQLK  455 (1081)
T ss_pred             c-ccc-CCHHHHhchHHhHHHhcccc-hhhhhhHHHH----------hhhhhHHHhhc-CCceeec---h-hhhhcCcce
Confidence            5 343 78888889999999999995 5888886544          57778887763 3445555   3 578889999


Q ss_pred             eEEEeCCCCCccc
Q 003328          661 SLAIENCTDMETF  673 (829)
Q Consensus       661 ~L~i~~C~~L~~l  673 (829)
                      .+++ +|.+|+.+
T Consensus       456 ~lDl-S~N~L~~~  467 (1081)
T KOG0618|consen  456 VLDL-SCNNLSEV  467 (1081)
T ss_pred             EEec-ccchhhhh
Confidence            9999 77888765

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

Probab=99.77  E-value=5.3e-21  Score=200.68  Aligned_cols=321  Identities=17%  Similarity=0.209  Sum_probs=209.5

Q ss_pred             CCCCCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCC
Q 003328           17 TIRKDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINL   95 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~L   95 (829)
                      ..+++|.||++.+|++..+-..+ .++.||.+++..|+.  ....+|.++| .++.|.+|||++|++++.|..+.+-+++
T Consensus        52 ~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~L--KnsGiP~diF-~l~dLt~lDLShNqL~EvP~~LE~AKn~  128 (1255)
T KOG0444|consen   52 SRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNL--KNSGIPTDIF-RLKDLTILDLSHNQLREVPTNLEYAKNS  128 (1255)
T ss_pred             HHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhcccc--ccCCCCchhc-ccccceeeecchhhhhhcchhhhhhcCc
Confidence            45667777777777766555444 677888888877663  2446888875 7899999999999999999999999999


Q ss_pred             cEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCC
Q 003328           96 QTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  173 (829)
Q Consensus        96 r~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~  173 (829)
                      -+|+|++|+|..+  +-+-+|..|-+||+++|++..+|+.+.+|.+||+|.+++|. +..+....+-.+++|++|.++++
T Consensus       129 iVLNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NP-L~hfQLrQLPsmtsL~vLhms~T  207 (1255)
T KOG0444|consen  129 IVLNLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNP-LNHFQLRQLPSMTSLSVLHMSNT  207 (1255)
T ss_pred             EEEEcccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCCh-hhHHHHhcCccchhhhhhhcccc
Confidence            9999999999888  67788899999999999999999999999999999999887 33332222556777888888887


Q ss_pred             ccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc-ccccccEEEEEEccccccCCCCCCCccEEEeccCCccc
Q 003328          174 FSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW-VSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVS  252 (829)
Q Consensus       174 ~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~  252 (829)
                      ...       ....+..+..+.+|+.++++.|++..+|.-+ .+.+|++|+++++....             +..+    
T Consensus       208 qRT-------l~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~ite-------------L~~~----  263 (1255)
T KOG0444|consen  208 QRT-------LDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKITE-------------LNMT----  263 (1255)
T ss_pred             cch-------hhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhheeccCcCceee-------------eecc----
Confidence            654       2334556667778888999998888888764 78888888887554322             1110    


Q ss_pred             cchhhhhHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceeccccc
Q 003328          253 TLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLS  332 (829)
Q Consensus       253 ~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~  332 (829)
                              .....+++.|+++... ++..+..+.   .++.|+.|...+.. +.+ .+.|  .+.+.+.+|+.+...+. 
T Consensus       264 --------~~~W~~lEtLNlSrNQ-Lt~LP~avc---KL~kL~kLy~n~Nk-L~F-eGiP--SGIGKL~~Levf~aanN-  326 (1255)
T KOG0444|consen  264 --------EGEWENLETLNLSRNQ-LTVLPDAVC---KLTKLTKLYANNNK-LTF-EGIP--SGIGKLIQLEVFHAANN-  326 (1255)
T ss_pred             --------HHHHhhhhhhccccch-hccchHHHh---hhHHHHHHHhccCc-ccc-cCCc--cchhhhhhhHHHHhhcc-
Confidence                    0012456666665432 222222222   56666666555432 211 0001  01223444454444332 


Q ss_pred             cchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecccCcc
Q 003328          333 NLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLE  389 (829)
Q Consensus       333 ~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~  389 (829)
                      +++-.+.    ....|+.|+.|.+. |..+..+|  ..++-++.|+.|++...+++.
T Consensus       327 ~LElVPE----glcRC~kL~kL~L~-~NrLiTLP--eaIHlL~~l~vLDlreNpnLV  376 (1255)
T KOG0444|consen  327 KLELVPE----GLCRCVKLQKLKLD-HNRLITLP--EAIHLLPDLKVLDLRENPNLV  376 (1255)
T ss_pred             ccccCch----hhhhhHHHHHhccc-ccceeech--hhhhhcCCcceeeccCCcCcc
Confidence            2222111    13456777777764 45565565  445667778888887777664

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

Probab=99.76  E-value=7.6e-19  Score=183.74  Aligned_cols=175  Identities=15%  Similarity=0.198  Sum_probs=110.8

Q ss_pred             CCcEEEcCCCCCCCCCCc----cCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCc
Q 003328           21 DPIAISLPQRDIQELPER----LQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQ   96 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l~~~----~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr   96 (829)
                      +.+-|+.++..++.+...    +-.+.-++|++++|.    +..+...+|.++++|+.+++.+|.++.+|.......||+
T Consensus        53 ~~~lldcs~~~lea~~~~~l~g~lp~~t~~LdlsnNk----l~~id~~~f~nl~nLq~v~l~~N~Lt~IP~f~~~sghl~  128 (873)
T KOG4194|consen   53 NTRLLDCSDRELEAIDKSRLKGFLPSQTQTLDLSNNK----LSHIDFEFFYNLPNLQEVNLNKNELTRIPRFGHESGHLE  128 (873)
T ss_pred             CceeeecCccccccccccccCCcCccceeeeeccccc----cccCcHHHHhcCCcceeeeeccchhhhccccccccccee
Confidence            456666666666543211    112345667777776    455555556777777777777777777776666666777


Q ss_pred             EEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCC
Q 003328           97 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  173 (829)
Q Consensus        97 ~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~  173 (829)
                      .|+|.+|.|.++  +.+..+..||.|||+.|.|+++|.. +.+=.++++|++++|. ++.+..+.+..+.+|-.|.++.|
T Consensus       129 ~L~L~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~-It~l~~~~F~~lnsL~tlkLsrN  207 (873)
T KOG4194|consen  129 KLDLRHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNR-ITTLETGHFDSLNSLLTLKLSRN  207 (873)
T ss_pred             EEeeeccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeecccc-ccccccccccccchheeeecccC
Confidence            777777777766  6677777777777777777666543 4445667777777765 56655554666667777777766


Q ss_pred             ccccccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          174 FSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       174 ~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                      .+.        .-.+..++++++|+.|++..|.+.
T Consensus       208 rit--------tLp~r~Fk~L~~L~~LdLnrN~ir  234 (873)
T KOG4194|consen  208 RIT--------TLPQRSFKRLPKLESLDLNRNRIR  234 (873)
T ss_pred             ccc--------ccCHHHhhhcchhhhhhcccccee
Confidence            554        223445566667777777666654

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

Probab=99.75  E-value=2.3e-20  Score=195.91  Aligned_cols=176  Identities=18%  Similarity=0.235  Sum_probs=109.3

Q ss_pred             CCCCCCcEEEcCCCCCC--CCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCC
Q 003328           17 TIRKDPIAISLPQRDIQ--ELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLI   93 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~--~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~   93 (829)
                      +.++-+|-+++++|+++  .+|... .+++++-|-+....    ...+|+++ +.+.+|..|++.+|++..+...++.++
T Consensus         4 gVLpFVrGvDfsgNDFsg~~FP~~v~qMt~~~WLkLnrt~----L~~vPeEL-~~lqkLEHLs~~HN~L~~vhGELs~Lp   78 (1255)
T KOG0444|consen    4 GVLPFVRGVDFSGNDFSGDRFPHDVEQMTQMTWLKLNRTK----LEQVPEEL-SRLQKLEHLSMAHNQLISVHGELSDLP   78 (1255)
T ss_pred             cccceeecccccCCcCCCCcCchhHHHhhheeEEEechhh----hhhChHHH-HHHhhhhhhhhhhhhhHhhhhhhccch
Confidence            34556666666666665  566555 56666666666655    56666664 666666666666666666555666666


Q ss_pred             CCcEEEccccCCC--Cc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEc
Q 003328           94 NLQTLCLDWCQLE--DV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM  170 (829)
Q Consensus        94 ~Lr~L~L~~~~l~--~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l  170 (829)
                      .||.+.+..|+++  .+ ..|.+|..|.+||+++|.+++.|..+.+-+++-+|++++|. +..+|.....+|+.|-.|++
T Consensus        79 ~LRsv~~R~N~LKnsGiP~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~-IetIPn~lfinLtDLLfLDL  157 (1255)
T KOG0444|consen   79 RLRSVIVRDNNLKNSGIPTDIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNN-IETIPNSLFINLTDLLFLDL  157 (1255)
T ss_pred             hhHHHhhhccccccCCCCchhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccCc-cccCCchHHHhhHhHhhhcc
Confidence            6666666666554  34 56666666666666666666666666666666666666655 66666665556666666666


Q ss_pred             cCCccccccccCCCccchhhhcCCCCCcEEEeecCCC
Q 003328          171 GDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDA  207 (829)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~  207 (829)
                      ++|...         ..+..+..+.+|++|.+++|.+
T Consensus       158 S~NrLe---------~LPPQ~RRL~~LqtL~Ls~NPL  185 (1255)
T KOG0444|consen  158 SNNRLE---------MLPPQIRRLSMLQTLKLSNNPL  185 (1255)
T ss_pred             ccchhh---------hcCHHHHHHhhhhhhhcCCChh
Confidence            665443         3445555556666666666554

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

Probab=99.73  E-value=2.8e-21  Score=193.31  Aligned_cols=188  Identities=27%  Similarity=0.340  Sum_probs=158.4

Q ss_pred             CCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEE
Q 003328           21 DPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLC   99 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~   99 (829)
                      .+..+.+++|.++.+.+.. ++..+.+|.+++|.    ...+|.++ +++..+..|+.+++.+..+|+.++.+..|+.|+
T Consensus        46 ~l~~lils~N~l~~l~~dl~nL~~l~vl~~~~n~----l~~lp~ai-g~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~  120 (565)
T KOG0472|consen   46 DLQKLILSHNDLEVLREDLKNLACLTVLNVHDNK----LSQLPAAI-GELEALKSLNVSHNKLSELPEQIGSLISLVKLD  120 (565)
T ss_pred             chhhhhhccCchhhccHhhhcccceeEEEeccch----hhhCCHHH-HHHHHHHHhhcccchHhhccHHHhhhhhhhhhh
Confidence            4577889999888777666 88889999999998    67888886 889999999999999999999999999999999


Q ss_pred             ccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccc
Q 003328          100 LDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD  178 (829)
Q Consensus       100 L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~  178 (829)
                      .+++.+..+ ++++.+..|..|+..+|.+..+|.+++++.+|..|++.+++ +..+|+..+ +++.|++|+...+...  
T Consensus       121 ~s~n~~~el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~n~-l~~l~~~~i-~m~~L~~ld~~~N~L~--  196 (565)
T KOG0472|consen  121 CSSNELKELPDSIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEGNK-LKALPENHI-AMKRLKHLDCNSNLLE--  196 (565)
T ss_pred             ccccceeecCchHHHHhhhhhhhccccccccCchHHHHHHHHHHhhccccc-hhhCCHHHH-HHHHHHhcccchhhhh--
Confidence            999999888 89999999999999999999999999999999999999977 788888744 4999999987666443  


Q ss_pred             cccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEE
Q 003328          179 KVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKI  224 (829)
Q Consensus       179 ~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l  224 (829)
                             ..+.+++.+.+|..|++..|++..+|..-.+..|+++++
T Consensus       197 -------tlP~~lg~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~  235 (565)
T KOG0472|consen  197 -------TLPPELGGLESLELLYLRRNKIRFLPEFPGCSLLKELHV  235 (565)
T ss_pred             -------cCChhhcchhhhHHHHhhhcccccCCCCCccHHHHHHHh
Confidence                   567788888899999999998887775445555655543

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

Probab=99.71  E-value=1.3e-20  Score=188.61  Aligned_cols=154  Identities=21%  Similarity=0.305  Sum_probs=134.0

Q ss_pred             cCCCCCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCC
Q 003328           16 ETIRKDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLIN   94 (829)
Q Consensus        16 ~~~~~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~   94 (829)
                      +..+..+.++.+++|.+.++|+.+ +...+..++.+.|.    ...+|+++ ..+..|+.|+.+++.+.++|++++++..
T Consensus        64 l~nL~~l~vl~~~~n~l~~lp~aig~l~~l~~l~vs~n~----ls~lp~~i-~s~~~l~~l~~s~n~~~el~~~i~~~~~  138 (565)
T KOG0472|consen   64 LKNLACLTVLNVHDNKLSQLPAAIGELEALKSLNVSHNK----LSELPEQI-GSLISLVKLDCSSNELKELPDSIGRLLD  138 (565)
T ss_pred             hhcccceeEEEeccchhhhCCHHHHHHHHHHHhhcccch----HhhccHHH-hhhhhhhhhhccccceeecCchHHHHhh
Confidence            345668899999999999999877 78889999999998    78899886 8899999999999999999999999999


Q ss_pred             CcEEEccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCC
Q 003328           95 LQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  173 (829)
Q Consensus        95 Lr~L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~  173 (829)
                      |..|+..+|.+..+ .+++++.+|..|++.++.++.+|+..-+++.|++||...|- ++.+|++ ++.+.+|+.|++..+
T Consensus       139 l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~N~-L~tlP~~-lg~l~~L~~LyL~~N  216 (565)
T KOG0472|consen  139 LEDLDATNNQISSLPEDMVNLSKLSKLDLEGNKLKALPENHIAMKRLKHLDCNSNL-LETLPPE-LGGLESLELLYLRRN  216 (565)
T ss_pred             hhhhhccccccccCchHHHHHHHHHHhhccccchhhCCHHHHHHHHHHhcccchhh-hhcCChh-hcchhhhHHHHhhhc
Confidence            99999999999888 88899999999999999888888776668889999888765 8888888 888888888888887


Q ss_pred             ccc
Q 003328          174 FSQ  176 (829)
Q Consensus       174 ~~~  176 (829)
                      .+.
T Consensus       217 ki~  219 (565)
T KOG0472|consen  217 KIR  219 (565)
T ss_pred             ccc
Confidence            664

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.69  E-value=8.1e-17  Score=188.22  Aligned_cols=160  Identities=28%  Similarity=0.380  Sum_probs=107.2

Q ss_pred             ccccCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCC-CCCCCchhhcC
Q 003328           13 KMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGI-HFSSLPSSLGR   91 (829)
Q Consensus        13 ~~~~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~-~i~~lp~~l~~   91 (829)
                      .+++.....+|++++.++.+..++...++++|++|.+.+|..  ....++..+|..++.||+||+++| .+.++|++|+.
T Consensus       516 ~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~--~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~  593 (889)
T KOG4658|consen  516 IPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSD--WLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGE  593 (889)
T ss_pred             cccccchhheeEEEEeccchhhccCCCCCCccceEEEeecch--hhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhh
Confidence            444455568899999999998888888888999999988862  256777777888999999999976 35678877666


Q ss_pred             CCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEcc
Q 003328           92 LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG  171 (829)
Q Consensus        92 l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~  171 (829)
                      +.|||||                      +++++.++.+|.++++|.+|++|++..+..+..+|.. ...|.+||+|.+.
T Consensus       594 Li~LryL----------------------~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i-~~~L~~Lr~L~l~  650 (889)
T KOG4658|consen  594 LVHLRYL----------------------DLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPGI-LLELQSLRVLRLP  650 (889)
T ss_pred             hhhhhcc----------------------cccCCCccccchHHHHHHhhheeccccccccccccch-hhhcccccEEEee
Confidence            5555555                      5555556666666666666666666665545455432 4456777776665


Q ss_pred             CCccccccccCCCccchhhhcCCCCCcEEEee
Q 003328          172 DSFSQWDKVEGGSNASLAELKGLSKLTTLEIH  203 (829)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~  203 (829)
                      ....      ......+.++.++++|+.+...
T Consensus       651 ~s~~------~~~~~~l~el~~Le~L~~ls~~  676 (889)
T KOG4658|consen  651 RSAL------SNDKLLLKELENLEHLENLSIT  676 (889)
T ss_pred             cccc------ccchhhHHhhhcccchhhheee
Confidence            4431      1223445555666666665554

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

Probab=99.69  E-value=5.5e-18  Score=177.38  Aligned_cols=150  Identities=20%  Similarity=0.236  Sum_probs=76.4

Q ss_pred             CCCcEEEcCCCCCCCCCCcc--CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCc
Q 003328           20 KDPIAISLPQRDIQELPERL--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQ   96 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr   96 (829)
                      .++++|++.+|.|.++.+..  .++.||+|+++.|.    +..+|..-|..-.++++|+|++|+|+.+- ..|..+.+|-
T Consensus       125 ghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN~----is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~  200 (873)
T KOG4194|consen  125 GHLEKLDLRHNLISSVTSEELSALPALRSLDLSRNL----ISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLL  200 (873)
T ss_pred             cceeEEeeeccccccccHHHHHhHhhhhhhhhhhch----hhcccCCCCCCCCCceEEeeccccccccccccccccchhe
Confidence            45777777777666554322  45556666666665    44555444444455555555555555432 2344455555


Q ss_pred             EEEccccCCCCc--ccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCC
Q 003328           97 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  173 (829)
Q Consensus        97 ~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~  173 (829)
                      +|.|++|+++.+  ..|.+|.+|+.|+|..|.|+.. --.|..|.+||.|.+..|. +..+..+.+..|.++++|++..|
T Consensus       201 tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~-I~kL~DG~Fy~l~kme~l~L~~N  279 (873)
T KOG4194|consen  201 TLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRND-ISKLDDGAFYGLEKMEHLNLETN  279 (873)
T ss_pred             eeecccCcccccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcC-cccccCcceeeecccceeecccc
Confidence            555555555544  4455555555555555544433 1224444445544444433 44444443444444444444444


Q ss_pred             c
Q 003328          174 F  174 (829)
Q Consensus       174 ~  174 (829)
                      .
T Consensus       280 ~  280 (873)
T KOG4194|consen  280 R  280 (873)
T ss_pred             h
Confidence            3

>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=1.1e-18  Score=192.56  Aligned_cols=168  Identities=21%  Similarity=0.235  Sum_probs=133.3

Q ss_pred             CCCcEEEcCCCCCCCCCCcc--CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcE
Q 003328           20 KDPIAISLPQRDIQELPERL--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQT   97 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~   97 (829)
                      +.+.+|++..|.+-..|-.+  +.-+|+.|++++|.    ...+|..+ ..+.+|+.|+++.|.|.++|.++.++.+|++
T Consensus        21 ~~~~~ln~~~N~~l~~pl~~~~~~v~L~~l~lsnn~----~~~fp~~i-t~l~~L~~ln~s~n~i~~vp~s~~~~~~l~~   95 (1081)
T KOG0618|consen   21 EALQILNLRRNSLLSRPLEFVEKRVKLKSLDLSNNQ----ISSFPIQI-TLLSHLRQLNLSRNYIRSVPSSCSNMRNLQY   95 (1081)
T ss_pred             HHHHhhhccccccccCchHHhhheeeeEEeeccccc----cccCCchh-hhHHHHhhcccchhhHhhCchhhhhhhcchh
Confidence            45888889888776655222  44459999999999    78888876 8899999999999999999999999999999


Q ss_pred             EEccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328           98 LCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus        98 L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      |+|.++.+..+ .++..+++|++||+++|.+..+|..+..++.+..+..++|..+..++.     .. .+++++..+...
T Consensus        96 lnL~~n~l~~lP~~~~~lknl~~LdlS~N~f~~~Pl~i~~lt~~~~~~~s~N~~~~~lg~-----~~-ik~~~l~~n~l~  169 (1081)
T KOG0618|consen   96 LNLKNNRLQSLPASISELKNLQYLDLSFNHFGPIPLVIEVLTAEEELAASNNEKIQRLGQ-----TS-IKKLDLRLNVLG  169 (1081)
T ss_pred             heeccchhhcCchhHHhhhcccccccchhccCCCchhHHhhhHHHHHhhhcchhhhhhcc-----cc-chhhhhhhhhcc
Confidence            99999999988 899999999999999999999999999999999999998844444433     22 666666665443


Q ss_pred             cccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          177 WDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       177 ~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                              ...+.+...+++  .|++..|...
T Consensus       170 --------~~~~~~i~~l~~--~ldLr~N~~~  191 (1081)
T KOG0618|consen  170 --------GSFLIDIYNLTH--QLDLRYNEME  191 (1081)
T ss_pred             --------cchhcchhhhhe--eeecccchhh
Confidence                    223334444444  5788877765

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

Probab=99.65  E-value=2.7e-18  Score=152.38  Aligned_cols=161  Identities=20%  Similarity=0.332  Sum_probs=139.3

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS   87 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~   87 (829)
                      .+++.++...+.++++|.+++|++..+|+.+ ++.+|++|++++|.    +.++|.++ +.+++||.|+++-|++..+|.
T Consensus        22 sf~~~~gLf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnq----ie~lp~~i-ssl~klr~lnvgmnrl~~lpr   96 (264)
T KOG0617|consen   22 SFEELPGLFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQ----IEELPTSI-SSLPKLRILNVGMNRLNILPR   96 (264)
T ss_pred             cHhhcccccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccch----hhhcChhh-hhchhhhheecchhhhhcCcc
Confidence            4445555667889999999999999998877 89999999999998    88899886 899999999999888888999


Q ss_pred             hhcCCCCCcEEEccccCCC--Cc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCc
Q 003328           88 SLGRLINLQTLCLDWCQLE--DV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSR  164 (829)
Q Consensus        88 ~l~~l~~Lr~L~L~~~~l~--~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~  164 (829)
                      .|+.++-|++||+.+|++.  .+ ..|..+..||.|.++.|++.-+|.++++|++||.|.++.+. +-.+|.. ++.++.
T Consensus        97 gfgs~p~levldltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdnd-ll~lpke-ig~lt~  174 (264)
T KOG0617|consen   97 GFGSFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDND-LLSLPKE-IGDLTR  174 (264)
T ss_pred             ccCCCchhhhhhccccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCc-hhhCcHH-HHHHHH
Confidence            9999999999999999876  45 67778888999999999999999999999999999999876 7788887 899999


Q ss_pred             ccEEEccCCccc
Q 003328          165 LEELYMGDSFSQ  176 (829)
Q Consensus       165 L~~L~l~~~~~~  176 (829)
                      |++|++.++...
T Consensus       175 lrelhiqgnrl~  186 (264)
T KOG0617|consen  175 LRELHIQGNRLT  186 (264)
T ss_pred             HHHHhcccceee
Confidence            999998888664

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

Probab=99.57  E-value=4.1e-17  Score=144.92  Aligned_cols=168  Identities=23%  Similarity=0.352  Sum_probs=151.3

Q ss_pred             CCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc-c
Q 003328           31 DIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-A  109 (829)
Q Consensus        31 ~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l-~  109 (829)
                      .+.+++..+++.++..|.+++|.    +..+|+.+ ..+++|++|++.+|+++++|.+++.+++||.|++.-|++..+ .
T Consensus        22 sf~~~~gLf~~s~ITrLtLSHNK----l~~vppni-a~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lpr   96 (264)
T KOG0617|consen   22 SFEELPGLFNMSNITRLTLSHNK----LTVVPPNI-AELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPR   96 (264)
T ss_pred             cHhhcccccchhhhhhhhcccCc----eeecCCcH-HHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCcc
Confidence            34567777789999999999999    77888886 899999999999999999999999999999999999999888 9


Q ss_pred             cccCCCCCcEEEccCCCCc--cchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccc
Q 003328          110 AIGQLKKLEILSFRGSDIK--QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNAS  187 (829)
Q Consensus       110 ~i~~L~~L~~L~l~~~~l~--~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~  187 (829)
                      +|+.++.|++||+.+|.+.  .+|..+-.++.|+.|++..+. ...+|.+ ++++++|+.|.+.++...         ..
T Consensus        97 gfgs~p~levldltynnl~e~~lpgnff~m~tlralyl~dnd-fe~lp~d-vg~lt~lqil~lrdndll---------~l  165 (264)
T KOG0617|consen   97 GFGSFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDND-FEILPPD-VGKLTNLQILSLRDNDLL---------SL  165 (264)
T ss_pred             ccCCCchhhhhhccccccccccCCcchhHHHHHHHHHhcCCC-cccCChh-hhhhcceeEEeeccCchh---------hC
Confidence            9999999999999999876  789989899999999999976 8889998 999999999999988665         56


Q ss_pred             hhhhcCCCCCcEEEeecCCCCCcCCcc
Q 003328          188 LAELKGLSKLTTLEIHVWDAQILPQDW  214 (829)
Q Consensus       188 ~~~L~~l~~L~~L~l~~~~~~~~~~~~  214 (829)
                      +.+++.+..|++|.+.+|.+..+|.++
T Consensus       166 pkeig~lt~lrelhiqgnrl~vlppel  192 (264)
T KOG0617|consen  166 PKEIGDLTRLRELHIQGNRLTVLPPEL  192 (264)
T ss_pred             cHHHHHHHHHHHHhcccceeeecChhh
Confidence            677888889999999999998888764

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

Probab=99.39  E-value=4.5e-15  Score=150.56  Aligned_cols=94  Identities=19%  Similarity=0.270  Sum_probs=56.7

Q ss_pred             CCCcEEEEeecCCceEEecccCcccccccccccceeccccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHH
Q 003328          292 PRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMA  371 (829)
Q Consensus       292 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~  371 (829)
                      ..||.|.++||..+..   .+.......+|+++.|.+.+|.++++.....+  ...+++|++|.+..|+.+++.......
T Consensus       138 g~lk~LSlrG~r~v~~---sslrt~~~~CpnIehL~l~gc~~iTd~s~~sl--a~~C~~l~~l~L~~c~~iT~~~Lk~la  212 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGD---SSLRTFASNCPNIEHLALYGCKKITDSSLLSL--ARYCRKLRHLNLHSCSSITDVSLKYLA  212 (483)
T ss_pred             cccccccccccccCCc---chhhHHhhhCCchhhhhhhcceeccHHHHHHH--HHhcchhhhhhhcccchhHHHHHHHHH
Confidence            3577777777776553   12222244566666666666666554322212  235677777777777777776554556


Q ss_pred             HhhcccceEEEecccCcce
Q 003328          372 KNLLRLQKVEVFFCDDLEM  390 (829)
Q Consensus       372 ~~l~~L~~L~i~~c~~l~~  390 (829)
                      ..+++|++|.+++|+.+..
T Consensus       213 ~gC~kL~~lNlSwc~qi~~  231 (483)
T KOG4341|consen  213 EGCRKLKYLNLSWCPQISG  231 (483)
T ss_pred             HhhhhHHHhhhccCchhhc
Confidence            6677777777777776654

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.34  E-value=8.6e-13  Score=154.75  Aligned_cols=304  Identities=21%  Similarity=0.279  Sum_probs=181.0

Q ss_pred             CCCCcEEEcCCCC--CCCCCCc--cCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCC
Q 003328           19 RKDPIAISLPQRD--IQELPER--LQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLIN   94 (829)
Q Consensus        19 ~~~l~~L~l~~~~--~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~   94 (829)
                      .+++++|-+.++.  +..++..  ..++.||+|++++|.   ...++|..+ +++-+||||+++++.++.+|.++.+++.
T Consensus       544 ~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~---~l~~LP~~I-~~Li~LryL~L~~t~I~~LP~~l~~Lk~  619 (889)
T KOG4658|consen  544 NPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNS---SLSKLPSSI-GELVHLRYLDLSDTGISHLPSGLGNLKK  619 (889)
T ss_pred             CCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCC---ccCcCChHH-hhhhhhhcccccCCCccccchHHHHHHh
Confidence            4479999999986  6666653  379999999999998   688999987 9999999999999999999999999999


Q ss_pred             CcEEEccccC-CCCc-ccccCCCCCcEEEccCCCCcc---chhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEE
Q 003328           95 LQTLCLDWCQ-LEDV-AAIGQLKKLEILSFRGSDIKQ---LPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELY  169 (829)
Q Consensus        95 Lr~L~L~~~~-l~~l-~~i~~L~~L~~L~l~~~~l~~---lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~  169 (829)
                      |.+|++..+. +..+ ..+..|.+||+|.+.......   .-..+.+|.+|+.+.......  .+-.. +..+..|+.+.
T Consensus       620 L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~~~~~~l~el~~Le~L~~ls~~~~s~--~~~e~-l~~~~~L~~~~  696 (889)
T KOG4658|consen  620 LIYLNLEVTGRLESIPGILLELQSLRVLRLPRSALSNDKLLLKELENLEHLENLSITISSV--LLLED-LLGMTRLRSLL  696 (889)
T ss_pred             hheeccccccccccccchhhhcccccEEEeeccccccchhhHHhhhcccchhhheeecchh--HhHhh-hhhhHHHHHHh
Confidence            9999999885 5555 555669999999998765332   223344555555555433221  11111 23333443222


Q ss_pred             ccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEccccccCCCCCCCccEEEeccCC
Q 003328          170 MGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLE  249 (829)
Q Consensus       170 l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~  249 (829)
                      ..-....     ......++.+..+.+|+.|.+..+....+...                   |.......         
T Consensus       697 ~~l~~~~-----~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~-------------------~~~~~~~~---------  743 (889)
T KOG4658|consen  697 QSLSIEG-----CSKRTLISSLGSLGNLEELSILDCGISEIVIE-------------------WEESLIVL---------  743 (889)
T ss_pred             Hhhhhcc-----cccceeecccccccCcceEEEEcCCCchhhcc-------------------cccccchh---------
Confidence            1111000     11234455566666677766665554322110                   11000000         


Q ss_pred             ccccchhhhhHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcc-----ccccccccc
Q 003328          250 NVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRV-----RCTIFPLLE  324 (829)
Q Consensus       250 ~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~-----~~~~~~~L~  324 (829)
                                  ..++++..+.+.+|....+....    .-.|+|+.|.+..|..++.+.+...-.     ...+|.+++
T Consensus       744 ------------~~f~~l~~~~~~~~~~~r~l~~~----~f~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f~~~~  807 (889)
T KOG4658|consen  744 ------------LCFPNLSKVSILNCHMLRDLTWL----LFAPHLTSLSLVSCRLLEDIIPKLKALLELKELILPFNKLE  807 (889)
T ss_pred             ------------hhHHHHHHHHhhccccccccchh----hccCcccEEEEecccccccCCCHHHHhhhcccEEecccccc
Confidence                        01334444445555544432221    145677777777777666543211100     023455555


Q ss_pred             ce-eccccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecc-cCccee
Q 003328          325 SL-SLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFC-DDLEMM  391 (829)
Q Consensus       325 ~L-~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c-~~l~~~  391 (829)
                      .+ .+.+.+.+..+....+    .++.|+.+.+..||++..         +|.+.++.+.+| ..+...
T Consensus       808 ~l~~~~~l~~l~~i~~~~l----~~~~l~~~~ve~~p~l~~---------~P~~~~~~i~~~~~~~~~~  863 (889)
T KOG4658|consen  808 GLRMLCSLGGLPQLYWLPL----SFLKLEELIVEECPKLGK---------LPLLSTLTIVGCEEKLKEY  863 (889)
T ss_pred             cceeeecCCCCceeEeccc----CccchhheehhcCccccc---------Cccccccceeccccceeec
Confidence            55 3555555444433222    355588888888888876         466777788876 444443

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

Probab=99.34  E-value=9.6e-15  Score=148.17  Aligned_cols=272  Identities=18%  Similarity=0.163  Sum_probs=145.3

Q ss_pred             ccCccceEeeccCCCcceeecCCccccCCCccEEeeccCCCcceecccccCCCCCccceee-cccccccccccCCCccch
Q 003328          452 AFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVT-EKEEGELHHWEGNNLNST  530 (829)
Q Consensus       452 ~~~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~~~~~~~~~~l~~~L~~L-i~~c~~l~~~~~~~~~~~  530 (829)
                      .+++|+.+.+..|+++++.........|++|++|.++.|+.++.-.......+... ++++ ..+|.++..-.       
T Consensus       188 ~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~~gv~~~~rG~~~-l~~~~~kGC~e~~le~-------  259 (483)
T KOG4341|consen  188 YCRKLRHLNLHSCSSITDVSLKYLAEGCRKLKYLNLSWCPQISGNGVQALQRGCKE-LEKLSLKGCLELELEA-------  259 (483)
T ss_pred             hcchhhhhhhcccchhHHHHHHHHHHhhhhHHHhhhccCchhhcCcchHHhccchh-hhhhhhcccccccHHH-------
Confidence            35555555566666655555443334566666666666666654211111111111 2233 33443321000       


Q ss_pred             hhhhhhhccccCCcceEEeccCCCceeeccCCCCCCCcCCCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCcchh
Q 003328          531 IQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLE  610 (829)
Q Consensus       531 ~~~~l~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~  610 (829)
                         ......+.+-+.++++..|..+++.......  ..+..|+.|..++|.++++.....+.+++++|+.|.+.+|..+.
T Consensus       260 ---l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~--~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fs  334 (483)
T KOG4341|consen  260 ---LLKAAAYCLEILKLNLQHCNQLTDEDLWLIA--CGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFS  334 (483)
T ss_pred             ---HHHHhccChHhhccchhhhccccchHHHHHh--hhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhh
Confidence               0000011344556666677666654211111  12467788888888877775455555677888888888887655


Q ss_pred             hhhccCccccccccccccccccceeecCCCCCcceeccCCCccccCCCcCeEEEeCCCCCcccccCCcccccccCCCCcc
Q 003328          611 EVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQK  690 (829)
Q Consensus       611 ~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~~~~sL~~L~i~~C~~L~~l~~~~~~p~~l~~~~~~~  690 (829)
                      +.--        ...+...+.|+.+++.+|...++- .-.....++|.|+.+.++.|..++...        +.      
T Consensus       335 d~~f--------t~l~rn~~~Le~l~~e~~~~~~d~-tL~sls~~C~~lr~lslshce~itD~g--------i~------  391 (483)
T KOG4341|consen  335 DRGF--------TMLGRNCPHLERLDLEECGLITDG-TLASLSRNCPRLRVLSLSHCELITDEG--------IR------  391 (483)
T ss_pred             hhhh--------hhhhcCChhhhhhcccccceehhh-hHhhhccCCchhccCChhhhhhhhhhh--------hh------
Confidence            4211        011114667777777777655432 001114567777777777776665430        00      


Q ss_pred             ccchhhhhhhhhhhhhhccccCcccccceeecccccccccCCCCcccccCCCCccccCcccEEeeccCCcceeecC--CC
Q 003328          691 LTSEENFLLVHQVQPLFNEKVGEEAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMKIFSQ--GG  768 (829)
Q Consensus       691 ~~~~~~~~~l~~L~~L~~~~~~~~~~~~~~~~sL~~L~l~~c~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~l~~--~~  768 (829)
                              .+              .........|+.+++.+||.+++-....+ ..+++|+++++++|..+++-+.  .-
T Consensus       392 --------~l--------------~~~~c~~~~l~~lEL~n~p~i~d~~Le~l-~~c~~Leri~l~~~q~vtk~~i~~~~  448 (483)
T KOG4341|consen  392 --------HL--------------SSSSCSLEGLEVLELDNCPLITDATLEHL-SICRNLERIELIDCQDVTKEAISRFA  448 (483)
T ss_pred             --------hh--------------hhccccccccceeeecCCCCchHHHHHHH-hhCcccceeeeechhhhhhhhhHHHH
Confidence                    00              00011256778888888888877554433 3578888888888888775332  34


Q ss_pred             CCCCCceeeeccCC
Q 003328          769 VDAPKLNKVKPTEE  782 (829)
Q Consensus       769 ~~~p~L~~l~i~~~  782 (829)
                      .++|+++..-..+-
T Consensus       449 ~~lp~i~v~a~~a~  462 (483)
T KOG4341|consen  449 THLPNIKVHAYFAP  462 (483)
T ss_pred             hhCccceehhhccC
Confidence            66777776655543

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.34  E-value=4.2e-12  Score=146.77  Aligned_cols=164  Identities=17%  Similarity=0.236  Sum_probs=114.4

Q ss_pred             CCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEE
Q 003328           20 KDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLC   99 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~   99 (829)
                      .+.+.|.+.++++..+|..+ .++|++|++++|.    +..+|..++   .+|++|++++|.++.+|..+.  .+|+.|+
T Consensus       178 ~~~~~L~L~~~~LtsLP~~I-p~~L~~L~Ls~N~----LtsLP~~l~---~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~  247 (754)
T PRK15370        178 NNKTELRLKILGLTTIPACI-PEQITTLILDNNE----LKSLPENLQ---GNIKTLYANSNQLTSIPATLP--DTIQEME  247 (754)
T ss_pred             cCceEEEeCCCCcCcCCccc-ccCCcEEEecCCC----CCcCChhhc---cCCCEEECCCCccccCChhhh--ccccEEE
Confidence            45778888888888888654 2478888888887    667887653   478888888888888887654  3788888


Q ss_pred             ccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccc
Q 003328          100 LDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD  178 (829)
Q Consensus       100 L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~  178 (829)
                      +++|.+..+ ..+.  .+|++|++++|.++.+|..+.  .+|++|++++|. +..+|.. +.  .+|++|++++|.+.  
T Consensus       248 Ls~N~L~~LP~~l~--s~L~~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N~-Lt~LP~~-lp--~sL~~L~Ls~N~Lt--  317 (754)
T PRK15370        248 LSINRITELPERLP--SALQSLDLFHNKISCLPENLP--EELRYLSVYDNS-IRTLPAH-LP--SGITHLNVQSNSLT--  317 (754)
T ss_pred             CcCCccCcCChhHh--CCCCEEECcCCccCccccccC--CCCcEEECCCCc-cccCccc-ch--hhHHHHHhcCCccc--
Confidence            888888777 4443  478888888888888887654  478888888875 6667654 32  46777777776553  


Q ss_pred             cccCCCccchhhhcCCCCCcEEEeecCCCCCcCC
Q 003328          179 KVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQ  212 (829)
Q Consensus       179 ~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~  212 (829)
                             .....+  .++|+.|++..|.+..+|.
T Consensus       318 -------~LP~~l--~~sL~~L~Ls~N~Lt~LP~  342 (754)
T PRK15370        318 -------ALPETL--PPGLKTLEAGENALTSLPA  342 (754)
T ss_pred             -------cCCccc--cccceeccccCCccccCCh
Confidence                   011111  1356677777666655543

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.33  E-value=1.9e-11  Score=140.35  Aligned_cols=169  Identities=21%  Similarity=0.231  Sum_probs=125.8

Q ss_pred             CCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEE
Q 003328           20 KDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLC   99 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~   99 (829)
                      .+-..|+++.+.+..+|..+. ++|+.|.+.+|.    +..+|.    ..++|++|++++|+++.+|..   .++|+.|+
T Consensus       201 ~~~~~LdLs~~~LtsLP~~l~-~~L~~L~L~~N~----Lt~LP~----lp~~Lk~LdLs~N~LtsLP~l---p~sL~~L~  268 (788)
T PRK15387        201 NGNAVLNVGESGLTTLPDCLP-AHITTLVIPDNN----LTSLPA----LPPELRTLEVSGNQLTSLPVL---PPGLLELS  268 (788)
T ss_pred             CCCcEEEcCCCCCCcCCcchh-cCCCEEEccCCc----CCCCCC----CCCCCcEEEecCCccCcccCc---ccccceee
Confidence            346789999999999988653 479999999988    677774    367899999999999988853   46889999


Q ss_pred             ccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcccccc
Q 003328          100 LDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDK  179 (829)
Q Consensus       100 L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~  179 (829)
                      +++|.+..+..  -..+|+.|++++|.++.+|..   +++|++|++++|. +..+|..    ..+|+.|++++|.+.   
T Consensus       269 Ls~N~L~~Lp~--lp~~L~~L~Ls~N~Lt~LP~~---p~~L~~LdLS~N~-L~~Lp~l----p~~L~~L~Ls~N~L~---  335 (788)
T PRK15387        269 IFSNPLTHLPA--LPSGLCKLWIFGNQLTSLPVL---PPGLQELSVSDNQ-LASLPAL----PSELCKLWAYNNQLT---  335 (788)
T ss_pred             ccCCchhhhhh--chhhcCEEECcCCcccccccc---ccccceeECCCCc-cccCCCC----cccccccccccCccc---
Confidence            99998887732  235788999999999988863   5789999999986 6777652    245777888877654   


Q ss_pred             ccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEE
Q 003328          180 VEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKI  224 (829)
Q Consensus       180 ~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l  224 (829)
                         .    +..+  ..+|+.|+++.|.+..+|..  ..+|+.|++
T Consensus       336 ---~----LP~l--p~~Lq~LdLS~N~Ls~LP~l--p~~L~~L~L  369 (788)
T PRK15387        336 ---S----LPTL--PSGLQELSVSDNQLASLPTL--PSELYKLWA  369 (788)
T ss_pred             ---c----cccc--ccccceEecCCCccCCCCCC--Ccccceehh
Confidence               1    1111  13788999999888877653  245555544

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.32  E-value=5.2e-12  Score=146.00  Aligned_cols=180  Identities=19%  Similarity=0.288  Sum_probs=143.3

Q ss_pred             CCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcE
Q 003328           18 IRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQT   97 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~   97 (829)
                      .+++++.|++++|.+..+|... .++|++|++++|.    +..+|..+   ..+|+.|++++|.+..+|..+.  .+|++
T Consensus       197 Ip~~L~~L~Ls~N~LtsLP~~l-~~nL~~L~Ls~N~----LtsLP~~l---~~~L~~L~Ls~N~L~~LP~~l~--s~L~~  266 (754)
T PRK15370        197 IPEQITTLILDNNELKSLPENL-QGNIKTLYANSNQ----LTSIPATL---PDTIQEMELSINRITELPERLP--SALQS  266 (754)
T ss_pred             cccCCcEEEecCCCCCcCChhh-ccCCCEEECCCCc----cccCChhh---hccccEEECcCCccCcCChhHh--CCCCE
Confidence            4578999999999999998765 3589999999998    67888764   3479999999999999998775  58999


Q ss_pred             EEccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328           98 LCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus        98 L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      |++++|++..+ ..+.  .+|++|++++|.++.+|..+.  .+|++|++++|. +..+|.. +  ..+|+.|++++|.+.
T Consensus       267 L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N~Lt~LP~~lp--~sL~~L~Ls~N~-Lt~LP~~-l--~~sL~~L~Ls~N~Lt  338 (754)
T PRK15370        267 LDLFHNKISCLPENLP--EELRYLSVYDNSIRTLPAHLP--SGITHLNVQSNS-LTALPET-L--PPGLKTLEAGENALT  338 (754)
T ss_pred             EECcCCccCccccccC--CCCcEEECCCCccccCcccch--hhHHHHHhcCCc-cccCCcc-c--cccceeccccCCccc
Confidence            99999999887 5454  589999999999999987654  579999999987 7778764 3  368999999988764


Q ss_pred             cccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEc
Q 003328          177 WDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIG  227 (829)
Q Consensus       177 ~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~  227 (829)
                            .   ....+  .++|+.|+++.|.+..+|..+ .++|+.|+++.+
T Consensus       339 ------~---LP~~l--~~sL~~L~Ls~N~L~~LP~~l-p~~L~~LdLs~N  377 (754)
T PRK15370        339 ------S---LPASL--PPELQVLDVSKNQITVLPETL-PPTITTLDVSRN  377 (754)
T ss_pred             ------c---CChhh--cCcccEEECCCCCCCcCChhh-cCCcCEEECCCC
Confidence                  1   11222  258999999999988777654 357787777543

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.27  E-value=3.4e-11  Score=138.32  Aligned_cols=180  Identities=19%  Similarity=0.157  Sum_probs=132.4

Q ss_pred             cCCccccCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhh
Q 003328           10 VEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSL   89 (829)
Q Consensus        10 ~~~~~~~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l   89 (829)
                      +...|. ..+++++.|++.+|.++.+|..  .++|++|++++|.    +..+|.    ..++|+.|++++|.++.+|...
T Consensus       213 LtsLP~-~l~~~L~~L~L~~N~Lt~LP~l--p~~Lk~LdLs~N~----LtsLP~----lp~sL~~L~Ls~N~L~~Lp~lp  281 (788)
T PRK15387        213 LTTLPD-CLPAHITTLVIPDNNLTSLPAL--PPELRTLEVSGNQ----LTSLPV----LPPGLLELSIFSNPLTHLPALP  281 (788)
T ss_pred             CCcCCc-chhcCCCEEEccCCcCCCCCCC--CCCCcEEEecCCc----cCcccC----cccccceeeccCCchhhhhhch
Confidence            334443 2345899999999999999864  5799999999998    667774    2468999999999998887643


Q ss_pred             cCCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEE
Q 003328           90 GRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELY  169 (829)
Q Consensus        90 ~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~  169 (829)
                         .+|+.|++++|+++.+..  .+.+|++|++++|.++.+|...   .+|+.|++.+|. +..+|.  +  ..+|++|+
T Consensus       282 ---~~L~~L~Ls~N~Lt~LP~--~p~~L~~LdLS~N~L~~Lp~lp---~~L~~L~Ls~N~-L~~LP~--l--p~~Lq~Ld  348 (788)
T PRK15387        282 ---SGLCKLWIFGNQLTSLPV--LPPGLQELSVSDNQLASLPALP---SELCKLWAYNNQ-LTSLPT--L--PSGLQELS  348 (788)
T ss_pred             ---hhcCEEECcCCccccccc--cccccceeECCCCccccCCCCc---ccccccccccCc-cccccc--c--ccccceEe
Confidence               568899999999887732  2468999999999999887633   457778888876 667774  2  25788999


Q ss_pred             ccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEc
Q 003328          170 MGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIG  227 (829)
Q Consensus       170 l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~  227 (829)
                      +++|.+.      ..+    .+  ..+|+.|+++.|.+..+|..  ..+|+.|+++.+
T Consensus       349 LS~N~Ls------~LP----~l--p~~L~~L~Ls~N~L~~LP~l--~~~L~~LdLs~N  392 (788)
T PRK15387        349 VSDNQLA------SLP----TL--PSELYKLWAYNNRLTSLPAL--PSGLKELIVSGN  392 (788)
T ss_pred             cCCCccC------CCC----CC--CcccceehhhccccccCccc--ccccceEEecCC
Confidence            9988765      111    11  23677778888888777754  356777777543

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

Probab=99.12  E-value=6.1e-11  Score=111.59  Aligned_cols=126  Identities=24%  Similarity=0.284  Sum_probs=35.9

Q ss_pred             cccCCCCCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhh-cC
Q 003328           14 MEETIRKDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSL-GR   91 (829)
Q Consensus        14 ~~~~~~~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l-~~   91 (829)
                      ++...+.++|.|++.++.|+.+.... .+.+|++|++++|.    +..+..  +..+++|++|++++|+|+.++..+ ..
T Consensus        13 ~~~~n~~~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~----I~~l~~--l~~L~~L~~L~L~~N~I~~i~~~l~~~   86 (175)
T PF14580_consen   13 AQYNNPVKLRELNLRGNQISTIENLGATLDKLEVLDLSNNQ----ITKLEG--LPGLPRLKTLDLSNNRISSISEGLDKN   86 (175)
T ss_dssp             -----------------------S--TT-TT--EEE-TTS------S--TT------TT--EEE--SS---S-CHHHHHH
T ss_pred             cccccccccccccccccccccccchhhhhcCCCEEECCCCC----CccccC--ccChhhhhhcccCCCCCCccccchHHh
Confidence            33344445666666666666554433 45566666666666    455543  356666666666666666665444 24


Q ss_pred             CCCCcEEEccccCCCCc---ccccCCCCCcEEEccCCCCccchh----hhcCCCCCCEEec
Q 003328           92 LINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSDIKQLPL----EIGQLTRLQLLDL  145 (829)
Q Consensus        92 l~~Lr~L~L~~~~l~~l---~~i~~L~~L~~L~l~~~~l~~lp~----~i~~L~~L~~L~l  145 (829)
                      +++|++|++++|++.++   ..+..+++|++|++.+|.+...+.    -|..+++|+.||-
T Consensus        87 lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen   87 LPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             -TT--EEE-TTS---SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETT
T ss_pred             CCcCCEEECcCCcCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCC
Confidence            66666666666665533   455556666666666665543322    2444444444443

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

Probab=99.11  E-value=4.9e-11  Score=127.87  Aligned_cols=190  Identities=19%  Similarity=0.158  Sum_probs=111.3

Q ss_pred             Ccccc-CCCCCCcEEEcCCCCCC-----CCCCcc-CCCCCcEEEeecCCCc---ccccccchhhhcCCCCccEEEecCCC
Q 003328           12 KKMEE-TIRKDPIAISLPQRDIQ-----ELPERL-QCPNLQLFLLITKGIA---PVSMQISDLFFEGTEELKVLSLIGIH   81 (829)
Q Consensus        12 ~~~~~-~~~~~l~~L~l~~~~~~-----~l~~~~-~~~~Lr~L~l~~~~~~---~~~~~lp~~~~~~l~~Lr~L~L~~~~   81 (829)
                      .|..+ ....+++.+++.++.+.     .++..+ ..++++++++.++...   .....++. .+..+++|++|++++|.
T Consensus        14 ~~~~~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~-~l~~~~~L~~L~l~~~~   92 (319)
T cd00116          14 RATELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQ-GLTKGCGLQELDLSDNA   92 (319)
T ss_pred             chHHHHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHH-HHHhcCceeEEEccCCC
Confidence            34433 34556888888888763     233333 5666788888776622   00112222 34667788888888777


Q ss_pred             CCC-CchhhcCCC---CCcEEEccccCCCC-----c-ccccCC-CCCcEEEccCCCCc-----cchhhhcCCCCCCEEec
Q 003328           82 FSS-LPSSLGRLI---NLQTLCLDWCQLED-----V-AAIGQL-KKLEILSFRGSDIK-----QLPLEIGQLTRLQLLDL  145 (829)
Q Consensus        82 i~~-lp~~l~~l~---~Lr~L~L~~~~l~~-----l-~~i~~L-~~L~~L~l~~~~l~-----~lp~~i~~L~~L~~L~l  145 (829)
                      +.. .+..+..+.   +|++|++++|++..     + ..+..+ .+|+.|++++|.++     .++..+..+.+|++|++
T Consensus        93 ~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l  172 (319)
T cd00116          93 LGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNL  172 (319)
T ss_pred             CChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEEC
Confidence            653 344443333   38888888777652     2 455666 77888888887766     34455666777888888


Q ss_pred             cCCCCCC-----ccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          146 SNCSSLV-----VIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       146 ~~~~~l~-----~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                      ++|. ++     .++.. +..+++|++|++++|.+..    .........+..+++|+.|+++++.+.
T Consensus       173 ~~n~-l~~~~~~~l~~~-l~~~~~L~~L~L~~n~i~~----~~~~~l~~~~~~~~~L~~L~ls~n~l~  234 (319)
T cd00116         173 ANNG-IGDAGIRALAEG-LKANCNLEVLDLNNNGLTD----EGASALAETLASLKSLEVLNLGDNNLT  234 (319)
T ss_pred             cCCC-CchHHHHHHHHH-HHhCCCCCEEeccCCccCh----HHHHHHHHHhcccCCCCEEecCCCcCc
Confidence            7765 33     12222 4455677777777775530    000112233455667777777766543

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).

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

Probab=99.09  E-value=1.4e-11  Score=124.40  Aligned_cols=108  Identities=26%  Similarity=0.372  Sum_probs=68.5

Q ss_pred             CCCCCCcEEEcCCCCCCCCCCcc--CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecC-CCCCCCchh-hcCC
Q 003328           17 TIRKDPIAISLPQRDIQELPERL--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIG-IHFSSLPSS-LGRL   92 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~-~~i~~lp~~-l~~l   92 (829)
                      ..++....+.|..|.|+.+|+..  .+++||.|++++|.    +..|-+..|.+++.|..|-+.+ |+|+.+|.. |+.+
T Consensus        64 ~LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~----Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL  139 (498)
T KOG4237|consen   64 NLPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNN----ISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGL  139 (498)
T ss_pred             cCCCcceEEEeccCCcccCChhhccchhhhceecccccc----hhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhH
Confidence            45677888888888888888654  78888888888888    5666555677777776666655 677776653 4555


Q ss_pred             CCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCc
Q 003328           93 INLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIK  128 (829)
Q Consensus        93 ~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~  128 (829)
                      ..|+-|.+.-|++.-+  ..+..|++|+.|.+..|.+.
T Consensus       140 ~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~~q  177 (498)
T KOG4237|consen  140 SSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNKIQ  177 (498)
T ss_pred             HHHHHHhcChhhhcchhHHHHHHhhhcchhcccchhhh
Confidence            5555555554444433  44444444444444444333

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

Probab=99.03  E-value=1.4e-11  Score=129.88  Aligned_cols=179  Identities=23%  Similarity=0.278  Sum_probs=155.5

Q ss_pred             CCCCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCc
Q 003328           18 IRKDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQ   96 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr   96 (829)
                      .+......+++.|++.++|... .+..|..+.+..|.    +..+|..+ .++..|.+|+|+.|++..+|..++.|+ |+
T Consensus        73 ~ltdt~~aDlsrNR~~elp~~~~~f~~Le~liLy~n~----~r~ip~~i-~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lk  146 (722)
T KOG0532|consen   73 DLTDTVFADLSRNRFSELPEEACAFVSLESLILYHNC----IRTIPEAI-CNLEALTFLDLSSNQLSHLPDGLCDLP-LK  146 (722)
T ss_pred             cccchhhhhccccccccCchHHHHHHHHHHHHHHhcc----ceecchhh-hhhhHHHHhhhccchhhcCChhhhcCc-ce
Confidence            3456677889999999998766 67788999998888    78889886 899999999999999999999998887 99


Q ss_pred             EEEccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcc
Q 003328           97 TLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS  175 (829)
Q Consensus        97 ~L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~  175 (829)
                      +|.+++|+++.+ ..++.+.+|..||.+.|.+..+|..++.|.+|+.|++..|. +..+|.. +. --.|..|+++.|++
T Consensus       147 vli~sNNkl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~-l~~lp~E-l~-~LpLi~lDfScNki  223 (722)
T KOG0532|consen  147 VLIVSNNKLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNH-LEDLPEE-LC-SLPLIRLDFSCNKI  223 (722)
T ss_pred             eEEEecCccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhh-hhhCCHH-Hh-CCceeeeecccCce
Confidence            999999999998 89998999999999999999999999999999999999977 7888987 66 44588999998877


Q ss_pred             ccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc
Q 003328          176 QWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW  214 (829)
Q Consensus       176 ~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~  214 (829)
                      .         ..+..+.+|++|++|.|.+|.+..=|..+
T Consensus       224 s---------~iPv~fr~m~~Lq~l~LenNPLqSPPAqI  253 (722)
T KOG0532|consen  224 S---------YLPVDFRKMRHLQVLQLENNPLQSPPAQI  253 (722)
T ss_pred             e---------ecchhhhhhhhheeeeeccCCCCCChHHH
Confidence            5         56677888999999999999887666554

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

Probab=99.02  E-value=2.2e-10  Score=107.83  Aligned_cols=130  Identities=24%  Similarity=0.294  Sum_probs=37.1

Q ss_pred             cCCCCccEEEecCCCCCCCchhhc-CCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhh-cCCCCCCEEe
Q 003328           67 EGTEELKVLSLIGIHFSSLPSSLG-RLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEI-GQLTRLQLLD  144 (829)
Q Consensus        67 ~~l~~Lr~L~L~~~~i~~lp~~l~-~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i-~~L~~L~~L~  144 (829)
                      .+..++|.|+|.++.|+.+. .++ .+.+|+.|++++|.++.++.+..+.+|++|++++|.|+.++..+ ..+++|++|+
T Consensus        16 ~n~~~~~~L~L~~n~I~~Ie-~L~~~l~~L~~L~Ls~N~I~~l~~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~   94 (175)
T PF14580_consen   16 NNPVKLRELNLRGNQISTIE-NLGATLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELY   94 (175)
T ss_dssp             ---------------------S--TT-TT--EEE-TTS--S--TT----TT--EEE--SS---S-CHHHHHH-TT--EEE
T ss_pred             cccccccccccccccccccc-chhhhhcCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccccchHHhCCcCCEEE
Confidence            34445566666666555542 343 35566666666666666655666666666666666666554443 2456666666


Q ss_pred             ccCCCCCCccCh-hhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEee
Q 003328          145 LSNCSSLVVIAP-NVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIH  203 (829)
Q Consensus       145 l~~~~~l~~lp~-~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~  203 (829)
                      +++|. +.++.. ..++.+++|++|++.+|.+.     ........-+..+++|+.||-.
T Consensus        95 L~~N~-I~~l~~l~~L~~l~~L~~L~L~~NPv~-----~~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   95 LSNNK-ISDLNELEPLSSLPKLRVLSLEGNPVC-----EKKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             -TTS----SCCCCGGGGG-TT--EEE-TT-GGG-----GSTTHHHHHHHH-TT-SEETTE
T ss_pred             CcCCc-CCChHHhHHHHcCCCcceeeccCCccc-----chhhHHHHHHHHcChhheeCCE
Confidence            66554 322211 11555666666666666554     2223333334445555555443

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

Probab=98.95  E-value=1.9e-10  Score=116.29  Aligned_cols=144  Identities=20%  Similarity=0.254  Sum_probs=120.2

Q ss_pred             EEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-CchhhcCCCCCcEEEccc-
Q 003328           25 ISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-LPSSLGRLINLQTLCLDW-  102 (829)
Q Consensus        25 L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lp~~l~~l~~Lr~L~L~~-  102 (829)
                      ++-++.+++++|..+-. ....+.+..|.    +..+|+.+|+.+++||.|||+.|.|+. -|+.|..+..|-.|.+-+ 
T Consensus        51 VdCr~~GL~eVP~~LP~-~tveirLdqN~----I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~  125 (498)
T KOG4237|consen   51 VDCRGKGLTEVPANLPP-ETVEIRLDQNQ----ISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGN  125 (498)
T ss_pred             EEccCCCcccCcccCCC-cceEEEeccCC----cccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcC
Confidence            44455677788875522 45678999998    899999999999999999999999998 578899999988888877 


Q ss_pred             cCCCCc--ccccCCCCCcEEEccCCCCccch-hhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCc
Q 003328          103 CQLEDV--AAIGQLKKLEILSFRGSDIKQLP-LEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  174 (829)
Q Consensus       103 ~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~  174 (829)
                      |+|+++  ..|++|..|+-|.+.-+++.-++ +.+..|++|..|.+..+. +..++.+.+..+..++++.+..+.
T Consensus       126 NkI~~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~-~q~i~~~tf~~l~~i~tlhlA~np  199 (498)
T KOG4237|consen  126 NKITDLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNK-IQSICKGTFQGLAAIKTLHLAQNP  199 (498)
T ss_pred             CchhhhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccchh-hhhhccccccchhccchHhhhcCc
Confidence            789998  89999999999999999988665 458899999999999976 778887657788888888776554

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

Probab=98.93  E-value=1.2e-09  Score=117.20  Aligned_cols=199  Identities=22%  Similarity=0.211  Sum_probs=132.9

Q ss_pred             CCCCCCcEEEcCCCCCCCCC-------Ccc-CCCCCcEEEeecCCCcccccccchhhhcCCC---CccEEEecCCCCCC-
Q 003328           17 TIRKDPIAISLPQRDIQELP-------ERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTE---ELKVLSLIGIHFSS-   84 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~-------~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~---~Lr~L~L~~~~i~~-   84 (829)
                      ...+++++++++++.+..++       ..+ .+++|+.|++++|.   .....+.. |..+.   +|++|++++|++.. 
T Consensus        48 ~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~---~~~~~~~~-~~~l~~~~~L~~L~ls~~~~~~~  123 (319)
T cd00116          48 RPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNA---LGPDGCGV-LESLLRSSSLQELKLNNNGLGDR  123 (319)
T ss_pred             hhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCC---CChhHHHH-HHHHhccCcccEEEeeCCccchH
Confidence            34567899999888765322       122 57799999999888   22223322 34444   49999999988762 


Q ss_pred             ----CchhhcCC-CCCcEEEccccCCC-----Cc-ccccCCCCCcEEEccCCCCc-----cchhhhcCCCCCCEEeccCC
Q 003328           85 ----LPSSLGRL-INLQTLCLDWCQLE-----DV-AAIGQLKKLEILSFRGSDIK-----QLPLEIGQLTRLQLLDLSNC  148 (829)
Q Consensus        85 ----lp~~l~~l-~~Lr~L~L~~~~l~-----~l-~~i~~L~~L~~L~l~~~~l~-----~lp~~i~~L~~L~~L~l~~~  148 (829)
                          +...+..+ ++|+.|++++|.++     .+ ..+..+.+|++|++++|.++     .++..+..+++|++|++++|
T Consensus       124 ~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n  203 (319)
T cd00116         124 GLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNN  203 (319)
T ss_pred             HHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCC
Confidence                44556677 88999999999877     23 56777888999999998876     34555667789999999988


Q ss_pred             CCCCc-----cChhhhcCCCcccEEEccCCccccccccCCCccchhhhc-----CCCCCcEEEeecCCCCCc-----CCc
Q 003328          149 SSLVV-----IAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELK-----GLSKLTTLEIHVWDAQIL-----PQD  213 (829)
Q Consensus       149 ~~l~~-----lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~-----~l~~L~~L~l~~~~~~~~-----~~~  213 (829)
                      . +..     ++.. +.++++|++|++++|.+.        ...+..+.     ..+.|+.|++.++.+...     ...
T Consensus       204 ~-i~~~~~~~l~~~-~~~~~~L~~L~ls~n~l~--------~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~  273 (319)
T cd00116         204 G-LTDEGASALAET-LASLKSLEVLNLGDNNLT--------DAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAEV  273 (319)
T ss_pred             c-cChHHHHHHHHH-hcccCCCCEEecCCCcCc--------hHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHHH
Confidence            6 332     2222 567888999999988664        11122211     246899999998876421     111


Q ss_pred             -cccccccEEEEEEccc
Q 003328          214 -WVSVELQRYKICIGEA  229 (829)
Q Consensus       214 -~~~~~L~~L~l~~~~~  229 (829)
                       ..+++|+.+++..+..
T Consensus       274 ~~~~~~L~~l~l~~N~l  290 (319)
T cd00116         274 LAEKESLLELDLRGNKF  290 (319)
T ss_pred             HhcCCCccEEECCCCCC
Confidence             1346788888765443

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).

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

Probab=98.92  E-value=2.6e-10  Score=111.05  Aligned_cols=185  Identities=16%  Similarity=0.163  Sum_probs=131.8

Q ss_pred             CCCCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchh-------------------hhcCCCCccEEEe
Q 003328           18 IRKDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDL-------------------FFEGTEELKVLSL   77 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~-------------------~~~~l~~Lr~L~L   77 (829)
                      ...+++.+-++.++-..+.... .-|.|+++.+.+........-+|..                   .....+.|..+||
T Consensus       212 ~f~~l~~~~~s~~~~~~i~~~~~~kptl~t~~v~~s~~~~~~~l~pe~~~~D~~~~E~~t~~G~~~~~~dTWq~LtelDL  291 (490)
T KOG1259|consen  212 AFRNLKTLKFSALSTENIVDIELLKPTLQTICVHNTTIQDVPSLLPETILADPSGSEPSTSNGSALVSADTWQELTELDL  291 (490)
T ss_pred             HhhhhheeeeeccchhheeceeecCchhheeeeecccccccccccchhhhcCccCCCCCccCCceEEecchHhhhhhccc
Confidence            3456666666666544444332 3355666666543311101111111                   0234567889999


Q ss_pred             cCCCCCCCchhhcCCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChh
Q 003328           78 IGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPN  157 (829)
Q Consensus        78 ~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~  157 (829)
                      ++|.|+.+-+++.-.+.+|.|+++.|++..+..+..|++|++||+++|.++++...-.+|-|.+.|.+.+|. +..+.. 
T Consensus       292 S~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La~N~-iE~LSG-  369 (490)
T KOG1259|consen  292 SGNLITQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLAQNK-IETLSG-  369 (490)
T ss_pred             cccchhhhhhhhhhccceeEEeccccceeeehhhhhcccceEeecccchhHhhhhhHhhhcCEeeeehhhhh-Hhhhhh-
Confidence            999999888888888999999999999988866889999999999999888776666688889999999876 677664 


Q ss_pred             hhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCC
Q 003328          158 VISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQ  212 (829)
Q Consensus       158 ~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~  212 (829)
                       ++++-+|..|++++|.+.       .-.....+++++.|+.+.+.+|.+..+++
T Consensus       370 -L~KLYSLvnLDl~~N~Ie-------~ldeV~~IG~LPCLE~l~L~~NPl~~~vd  416 (490)
T KOG1259|consen  370 -LRKLYSLVNLDLSSNQIE-------ELDEVNHIGNLPCLETLRLTGNPLAGSVD  416 (490)
T ss_pred             -hHhhhhheeccccccchh-------hHHHhcccccccHHHHHhhcCCCccccch
Confidence             888999999999988775       22345667788888888888887765543

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

Probab=98.88  E-value=1.1e-10  Score=123.47  Aligned_cols=187  Identities=21%  Similarity=0.270  Sum_probs=159.1

Q ss_pred             EEEcCCCCCCCCCCcc---CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEc
Q 003328           24 AISLPQRDIQELPERL---QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCL  100 (829)
Q Consensus        24 ~L~l~~~~~~~l~~~~---~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L  100 (829)
                      .|.|++-.+.+||...   .+.--...+++.|.    ...+|..+ ..+..|..+.+..|.+..+|..+..+..|.+|+|
T Consensus        54 ~l~Ls~rrlk~fpr~a~~~~ltdt~~aDlsrNR----~~elp~~~-~~f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~l  128 (722)
T KOG0532|consen   54 RLLLSGRRLKEFPRGAASYDLTDTVFADLSRNR----FSELPEEA-CAFVSLESLILYHNCIRTIPEAICNLEALTFLDL  128 (722)
T ss_pred             ccccccchhhcCCCccccccccchhhhhccccc----cccCchHH-HHHHHHHHHHHHhccceecchhhhhhhHHHHhhh
Confidence            4566777777777432   44445678889998    67889885 7888999999999999999999999999999999


Q ss_pred             cccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcccccc
Q 003328          101 DWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDK  179 (829)
Q Consensus       101 ~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~  179 (829)
                      +.|.+..+ ..++.|. |++|-+++|+++.+|.+|+.+..|.+|+.+.|. +..+|.. ++.+.+|+.|++..|...   
T Consensus       129 s~NqlS~lp~~lC~lp-Lkvli~sNNkl~~lp~~ig~~~tl~~ld~s~ne-i~slpsq-l~~l~slr~l~vrRn~l~---  202 (722)
T KOG0532|consen  129 SSNQLSHLPDGLCDLP-LKVLIVSNNKLTSLPEEIGLLPTLAHLDVSKNE-IQSLPSQ-LGYLTSLRDLNVRRNHLE---  202 (722)
T ss_pred             ccchhhcCChhhhcCc-ceeEEEecCccccCCcccccchhHHHhhhhhhh-hhhchHH-hhhHHHHHHHHHhhhhhh---
Confidence            99999988 7787775 999999999999999999999999999999987 8889987 999999999999888665   


Q ss_pred             ccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc-ccccccEEEEEEcc
Q 003328          180 VEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW-VSVELQRYKICIGE  228 (829)
Q Consensus       180 ~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~  228 (829)
                            ..+.++..|+ |..||+++|++..+|-.+ .+..|+.|.+..+.
T Consensus       203 ------~lp~El~~Lp-Li~lDfScNkis~iPv~fr~m~~Lq~l~LenNP  245 (722)
T KOG0532|consen  203 ------DLPEELCSLP-LIRLDFSCNKISYLPVDFRKMRHLQVLQLENNP  245 (722)
T ss_pred             ------hCCHHHhCCc-eeeeecccCceeecchhhhhhhhheeeeeccCC
Confidence                  5566777665 899999999999999886 78889988776444

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

Probab=98.86  E-value=3e-10  Score=110.62  Aligned_cols=125  Identities=22%  Similarity=0.305  Sum_probs=87.0

Q ss_pred             CCCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcE
Q 003328           19 RKDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQT   97 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~   97 (829)
                      ++.++.+++++|.|..+..+. -.|++|.|++++|.    +..+..  +..+.+|..|||++|.++++-..-.++-|.++
T Consensus       283 Wq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~----i~~v~n--La~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKt  356 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQIDESVKLAPKLRRLILSQNR----IRTVQN--LAELPQLQLLDLSGNLLAECVGWHLKLGNIKT  356 (490)
T ss_pred             HhhhhhccccccchhhhhhhhhhccceeEEeccccc----eeeehh--hhhcccceEeecccchhHhhhhhHhhhcCEee
Confidence            346777777777777776655 46777777777777    444443  36677777777777776665444456667777


Q ss_pred             EEccccCCCCcccccCCCCCcEEEccCCCCccch--hhhcCCCCCCEEeccCCC
Q 003328           98 LCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLP--LEIGQLTRLQLLDLSNCS  149 (829)
Q Consensus        98 L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp--~~i~~L~~L~~L~l~~~~  149 (829)
                      |.|++|.+++++++++|++|.+||+++|+|..+.  .+||+|+-|+++.+.+|.
T Consensus       357 L~La~N~iE~LSGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NP  410 (490)
T KOG1259|consen  357 LKLAQNKIETLSGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNP  410 (490)
T ss_pred             eehhhhhHhhhhhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCC
Confidence            7777777777777777777777777777776553  357777777777776665

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

Probab=98.76  E-value=9.7e-09  Score=113.42  Aligned_cols=189  Identities=26%  Similarity=0.331  Sum_probs=137.1

Q ss_pred             EEEcCCCCC-CCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCC-CccEEEecCCCCCCCchhhcCCCCCcEEEcc
Q 003328           24 AISLPQRDI-QELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTE-ELKVLSLIGIHFSSLPSSLGRLINLQTLCLD  101 (829)
Q Consensus        24 ~L~l~~~~~-~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~-~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~  101 (829)
                      .+....+.+ .........+.++.|.+.++.    +.+++... ..++ +|+.|+++++.+..+|..++.+++|+.|+++
T Consensus        97 ~l~~~~~~~~~~~~~~~~~~~l~~L~l~~n~----i~~i~~~~-~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~  171 (394)
T COG4886          97 SLDLNLNRLRSNISELLELTNLTSLDLDNNN----ITDIPPLI-GLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLS  171 (394)
T ss_pred             eeeccccccccCchhhhcccceeEEecCCcc----cccCcccc-ccchhhcccccccccchhhhhhhhhccccccccccC
Confidence            456666655 233333356778888888887    67777654 4553 8888888888888887778888888888888


Q ss_pred             ccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccc
Q 003328          102 WCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKV  180 (829)
Q Consensus       102 ~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~  180 (829)
                      +|.+.++ ...+.+.+|+.|+++++.+..+|..++.+.+|++|.+.++.... .+.. +.++.++..+.+..+...    
T Consensus       172 ~N~l~~l~~~~~~~~~L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~-~~~~-~~~~~~l~~l~l~~n~~~----  245 (394)
T COG4886         172 FNDLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIE-LLSS-LSNLKNLSGLELSNNKLE----  245 (394)
T ss_pred             CchhhhhhhhhhhhhhhhheeccCCccccCchhhhhhhhhhhhhhcCCccee-cchh-hhhcccccccccCCceee----
Confidence            8888888 55558888888888888888888877777788888888875233 3333 677888888776666543    


Q ss_pred             cCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEcc
Q 003328          181 EGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGE  228 (829)
Q Consensus       181 ~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~  228 (829)
                           ..+..++.+..++.|+++.+.+..++......+++.+++.+..
T Consensus       246 -----~~~~~~~~l~~l~~L~~s~n~i~~i~~~~~~~~l~~L~~s~n~  288 (394)
T COG4886         246 -----DLPESIGNLSNLETLDLSNNQISSISSLGSLTNLRELDLSGNS  288 (394)
T ss_pred             -----eccchhccccccceeccccccccccccccccCccCEEeccCcc
Confidence                 2245566777788888888888887775577788888776443

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

Probab=98.72  E-value=1.2e-08  Score=112.60  Aligned_cols=178  Identities=25%  Similarity=0.287  Sum_probs=151.1

Q ss_pred             CCCCCCcEEEcCCCCCCCCCCccC-CC-CCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCC
Q 003328           17 TIRKDPIAISLPQRDIQELPERLQ-CP-NLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLIN   94 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~~~~-~~-~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~   94 (829)
                      ...+.++.+++.++.+.++++... .+ +|+.|++++|.    +..+|..+ ..++.|+.|++++|++..+|...+....
T Consensus       113 ~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~----i~~l~~~~-~~l~~L~~L~l~~N~l~~l~~~~~~~~~  187 (394)
T COG4886         113 LELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNK----IESLPSPL-RNLPNLKNLDLSFNDLSDLPKLLSNLSN  187 (394)
T ss_pred             hcccceeEEecCCcccccCccccccchhhcccccccccc----hhhhhhhh-hccccccccccCCchhhhhhhhhhhhhh
Confidence            344679999999999999998774 43 89999999999    78886554 8999999999999999999988889999


Q ss_pred             CcEEEccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCC
Q 003328           95 LQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  173 (829)
Q Consensus        95 Lr~L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~  173 (829)
                      |+.|+++++.+..+ ..++.+.+|++|.++++.+...+..+.++.++..+.+.++. +..++.. ++.+.+++.|+++++
T Consensus       188 L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~-~~~~~~~-~~~l~~l~~L~~s~n  265 (394)
T COG4886         188 LNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNK-LEDLPES-IGNLSNLETLDLSNN  265 (394)
T ss_pred             hhheeccCCccccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCce-eeeccch-hccccccceeccccc
Confidence            99999999999999 66678888999999999877888889999999999987766 5554554 899999999999998


Q ss_pred             ccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcC
Q 003328          174 FSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILP  211 (829)
Q Consensus       174 ~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~  211 (829)
                      .+.          .+..++.+.+++.|+++++.....+
T Consensus       266 ~i~----------~i~~~~~~~~l~~L~~s~n~~~~~~  293 (394)
T COG4886         266 QIS----------SISSLGSLTNLRELDLSGNSLSNAL  293 (394)
T ss_pred             ccc----------ccccccccCccCEEeccCccccccc
Confidence            775          2333778889999999988775544

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

Probab=98.63  E-value=4.3e-09  Score=108.26  Aligned_cols=212  Identities=21%  Similarity=0.132  Sum_probs=142.6

Q ss_pred             ccCCcccc-CCCCCCcEEEcCCCCCCCCCC--cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC
Q 003328            9 DVEKKMEE-TIRKDPIAISLPQRDIQELPE--RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS   84 (829)
Q Consensus         9 ~~~~~~~~-~~~~~l~~L~l~~~~~~~l~~--~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~   84 (829)
                      ++++..+. ...++||.+++.++.+...+.  .. .|+++|.|++++|-..  -......+...+++|+.|+++.|++..
T Consensus       109 GfDki~akQsn~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~--nw~~v~~i~eqLp~Le~LNls~Nrl~~  186 (505)
T KOG3207|consen  109 GFDKIAAKQSNLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFH--NWFPVLKIAEQLPSLENLNLSSNRLSN  186 (505)
T ss_pred             cHHHHHHHhhhHHhhhheeecCccccccchhhhhhhCCcceeecchhhhHH--hHHHHHHHHHhcccchhcccccccccC
Confidence            44443332 467889999999998876663  33 7999999999998721  111223456889999999999998765


Q ss_pred             Cchhh--cCCCCCcEEEccccCCC--Cc-ccccCCCCCcEEEccCC-CCccchhhhcCCCCCCEEeccCCCCCCccC-hh
Q 003328           85 LPSSL--GRLINLQTLCLDWCQLE--DV-AAIGQLKKLEILSFRGS-DIKQLPLEIGQLTRLQLLDLSNCSSLVVIA-PN  157 (829)
Q Consensus        85 lp~~l--~~l~~Lr~L~L~~~~l~--~l-~~i~~L~~L~~L~l~~~-~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp-~~  157 (829)
                      ..++.  ..+.||+.|.+++|.++  ++ .....+++|..|++.+| .+..--.+...+..|+.|++++|..+ +.+ ..
T Consensus       187 ~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li-~~~~~~  265 (505)
T KOG3207|consen  187 FISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLI-DFDQGY  265 (505)
T ss_pred             CccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCccc-cccccc
Confidence            33332  36789999999999877  55 67778899999999998 33322223345788999999998743 333 11


Q ss_pred             hhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCc---cccccccEEEEE
Q 003328          158 VISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQD---WVSVELQRYKIC  225 (829)
Q Consensus       158 ~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~---~~~~~L~~L~l~  225 (829)
                      .++.++.|+.|+++.+.+..-.  .............++|+.|++..|.+.+.+..   ...++|++|.+.
T Consensus       266 ~~~~l~~L~~Lnls~tgi~si~--~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~  334 (505)
T KOG3207|consen  266 KVGTLPGLNQLNLSSTGIASIA--EPDVESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRIT  334 (505)
T ss_pred             ccccccchhhhhccccCcchhc--CCCccchhhhcccccceeeecccCccccccccchhhccchhhhhhcc
Confidence            2788999999999888764100  01111223344677899999998887655432   245666666654

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

Probab=98.57  E-value=9.3e-09  Score=105.87  Aligned_cols=159  Identities=14%  Similarity=0.113  Sum_probs=110.6

Q ss_pred             CCCCCcEEEeecCCCcccccccch-hhhcCCCCccEEEecCCCCCC---CchhhcCCCCCcEEEccccCCCCc---cccc
Q 003328           40 QCPNLQLFLLITKGIAPVSMQISD-LFFEGTEELKVLSLIGIHFSS---LPSSLGRLINLQTLCLDWCQLEDV---AAIG  112 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~~~~~~~~lp~-~~~~~l~~Lr~L~L~~~~i~~---lp~~l~~l~~Lr~L~L~~~~l~~l---~~i~  112 (829)
                      ++++||...+.++.    ....+. .....++++|.|||++|-+.+   +-.-...+++|+.|+++.|++...   ..-.
T Consensus       119 n~kkL~~IsLdn~~----V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~  194 (505)
T KOG3207|consen  119 NLKKLREISLDNYR----VEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTL  194 (505)
T ss_pred             hHHhhhheeecCcc----ccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchh
Confidence            78889999998877    444442 234788999999999886554   444557889999999999987644   2334


Q ss_pred             CCCCCcEEEccCCCCc--cchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhh
Q 003328          113 QLKKLEILSFRGSDIK--QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAE  190 (829)
Q Consensus       113 ~L~~L~~L~l~~~~l~--~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~  190 (829)
                      .+.+|+.|.++.|+++  .+-......++|..|++.+|..+...... -.-+..|++|++++|.+.       .......
T Consensus       195 ~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~-~~i~~~L~~LdLs~N~li-------~~~~~~~  266 (505)
T KOG3207|consen  195 LLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATS-TKILQTLQELDLSNNNLI-------DFDQGYK  266 (505)
T ss_pred             hhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecch-hhhhhHHhhccccCCccc-------ccccccc
Confidence            6788899999999877  34444556788888988887533222222 355778888888888765       2233455


Q ss_pred             hcCCCCCcEEEeecCCCCCc
Q 003328          191 LKGLSKLTTLEIHVWDAQIL  210 (829)
Q Consensus       191 L~~l~~L~~L~l~~~~~~~~  210 (829)
                      .+.++.|+.|+++.+++..+
T Consensus       267 ~~~l~~L~~Lnls~tgi~si  286 (505)
T KOG3207|consen  267 VGTLPGLNQLNLSSTGIASI  286 (505)
T ss_pred             cccccchhhhhccccCcchh
Confidence            66777788888887776543

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

Probab=98.36  E-value=3.4e-07  Score=70.67  Aligned_cols=59  Identities=27%  Similarity=0.331  Sum_probs=35.0

Q ss_pred             CCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEccccC
Q 003328           42 PNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQ  104 (829)
Q Consensus        42 ~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~-~l~~l~~Lr~L~L~~~~  104 (829)
                      ++|++|++++|.    +..+|...|.++++|++|++++|.++.+|. .+..+++|++|++++|+
T Consensus         1 p~L~~L~l~~n~----l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNNK----LTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSST----ESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCC----CCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            355666666665    556665556666666666666666665443 44556666666665554

...

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.33  E-value=1.3e-06  Score=92.35  Aligned_cols=141  Identities=16%  Similarity=0.239  Sum_probs=88.9

Q ss_pred             ccccCCcceEEeccCCCceeeccCCCCCCCcCCCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCcchhhhhccCc
Q 003328          538 MIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEE  617 (829)
Q Consensus       538 ~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~~l~~~~~  617 (829)
                      +..+..++.|+|++| .+++++.       .+++|++|.+++|.+++. +|..+   .++|++|.|.+|..+..      
T Consensus        48 ~~~~~~l~~L~Is~c-~L~sLP~-------LP~sLtsL~Lsnc~nLts-LP~~L---P~nLe~L~Ls~Cs~L~s------  109 (426)
T PRK15386         48 IEEARASGRLYIKDC-DIESLPV-------LPNELTEITIENCNNLTT-LPGSI---PEGLEKLTVCHCPEISG------  109 (426)
T ss_pred             HHHhcCCCEEEeCCC-CCcccCC-------CCCCCcEEEccCCCCccc-CCchh---hhhhhheEccCcccccc------
Confidence            334688889999988 6777751       236789999988888876 56533   36788888888876654      


Q ss_pred             cccccccccccccccceeecCCCCCcceeccCCCccccCCCcCeEEEeCCCCCcccccCCcccccccCCCCccccchhhh
Q 003328          618 LNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENF  697 (829)
Q Consensus       618 ~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~~~~sL~~L~i~~C~~L~~l~~~~~~p~~l~~~~~~~~~~~~~~  697 (829)
                                .+++|+.|++. +..+..+      ....++|+.|.+.++......    ..|.                
T Consensus       110 ----------LP~sLe~L~L~-~n~~~~L------~~LPssLk~L~I~~~n~~~~~----~lp~----------------  152 (426)
T PRK15386        110 ----------LPESVRSLEIK-GSATDSI------KNVPNGLTSLSINSYNPENQA----RIDN----------------  152 (426)
T ss_pred             ----------cccccceEEeC-CCCCccc------ccCcchHhheecccccccccc----cccc----------------
Confidence                      35667777764 3332222      112346677776443211100    0010                


Q ss_pred             hhhhhhhhhhccccCcccccceeecccccccccCCCCcccccCCCCccccCcccEEeeccCC
Q 003328          698 LLVHQVQPLFNEKVGEEAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCP  759 (829)
Q Consensus       698 ~~l~~L~~L~~~~~~~~~~~~~~~~sL~~L~l~~c~~L~~l~~~~~~~~~~sL~~L~i~~C~  759 (829)
                                           ..+++|+.|.+.+|..+. +| +.+|   .+|+.|.+..+.
T Consensus       153 ---------------------~LPsSLk~L~Is~c~~i~-LP-~~LP---~SLk~L~ls~n~  188 (426)
T PRK15386        153 ---------------------LISPSLKTLSLTGCSNII-LP-EKLP---ESLQSITLHIEQ  188 (426)
T ss_pred             ---------------------ccCCcccEEEecCCCccc-Cc-cccc---ccCcEEEecccc
Confidence                                 125789999999998664 34 3456   789999987753

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

Probab=98.32  E-value=5.8e-09  Score=113.35  Aligned_cols=126  Identities=24%  Similarity=0.257  Sum_probs=103.5

Q ss_pred             CccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCC
Q 003328           71 ELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCS  149 (829)
Q Consensus        71 ~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~  149 (829)
                      .|.+-+.++|++..+-.++.-+++||.|+|+.|++.++..+..+.+|++||+++|.++.+|.- ...+ +|+.|++++|.
T Consensus       165 ~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc-~L~~L~lrnN~  243 (1096)
T KOG1859|consen  165 KLATASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVDNLRRLPKLKHLDLSYNCLRHVPQLSMVGC-KLQLLNLRNNA  243 (1096)
T ss_pred             hHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhHHHHhcccccccccccchhccccccchhhh-hheeeeecccH
Confidence            566777778888778788888999999999999999998999999999999999999988753 2233 39999999987


Q ss_pred             CCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCC
Q 003328          150 SLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDA  207 (829)
Q Consensus       150 ~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~  207 (829)
                       ++.+-.  +.+|++|++|++++|.+.       ....+.-|..+..|+.|.+.+|.+
T Consensus       244 -l~tL~g--ie~LksL~~LDlsyNll~-------~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  244 -LTTLRG--IENLKSLYGLDLSYNLLS-------EHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             -HHhhhh--HHhhhhhhccchhHhhhh-------cchhhhHHHHHHHHHHHhhcCCcc
Confidence             777755  899999999999998765       334566677777888889988765

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

Probab=98.30  E-value=3.3e-08  Score=96.74  Aligned_cols=173  Identities=24%  Similarity=0.295  Sum_probs=102.8

Q ss_pred             CCcEEEcCCCCCC--CCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCC-CCCC--CchhhcCCCC
Q 003328           21 DPIAISLPQRDIQ--ELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGI-HFSS--LPSSLGRLIN   94 (829)
Q Consensus        21 ~l~~L~l~~~~~~--~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~-~i~~--lp~~l~~l~~   94 (829)
                      ++++++++...|+  .+...+ .|.+|+-|.+.|+.   ....+-..+ .+-.+|+.|+++++ .+++  +--.+..|+.
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~---LdD~I~~~i-AkN~~L~~lnlsm~sG~t~n~~~ll~~scs~  261 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLR---LDDPIVNTI-AKNSNLVRLNLSMCSGFTENALQLLLSSCSR  261 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccc---cCcHHHHHH-hccccceeeccccccccchhHHHHHHHhhhh
Confidence            4677777766665  232223 57777777777776   333444443 66677777777776 3554  2234567777


Q ss_pred             CcEEEccccCCC-C-c-ccccCC-CCCcEEEccCCC----CccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCccc
Q 003328           95 LQTLCLDWCQLE-D-V-AAIGQL-KKLEILSFRGSD----IKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLE  166 (829)
Q Consensus        95 Lr~L~L~~~~l~-~-l-~~i~~L-~~L~~L~l~~~~----l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~  166 (829)
                      |..|++++|.+. . + -.+... .+|..|+++|+.    ...+..-..++++|.+||++.|..+..--...+.+++.|+
T Consensus       262 L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~  341 (419)
T KOG2120|consen  262 LDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQ  341 (419)
T ss_pred             HhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchhe
Confidence            777777777543 1 1 111111 356667777762    2233333556777777777777665543333366777777


Q ss_pred             EEEccCCccccccccCCCccchhhhcCCCCCcEEEeec
Q 003328          167 ELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHV  204 (829)
Q Consensus       167 ~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~  204 (829)
                      +|.++.|+..       .+..+-+++.++.|.+|++.+
T Consensus       342 ~lSlsRCY~i-------~p~~~~~l~s~psl~yLdv~g  372 (419)
T KOG2120|consen  342 HLSLSRCYDI-------IPETLLELNSKPSLVYLDVFG  372 (419)
T ss_pred             eeehhhhcCC-------ChHHeeeeccCcceEEEEecc
Confidence            7777777644       334455566677777777765

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

Probab=98.27  E-value=7e-07  Score=68.88  Aligned_cols=56  Identities=29%  Similarity=0.434  Sum_probs=31.7

Q ss_pred             CccEEEecCCCCCCCch-hhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCC
Q 003328           71 ELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSD  126 (829)
Q Consensus        71 ~Lr~L~L~~~~i~~lp~-~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~  126 (829)
                      +|++|++++|+++.+|. .+..+++|++|++++|.++.+  ..|.++++|++|++++|.
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            45666666666665553 345555566666555555554  445555555555555554

...

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

Probab=98.27  E-value=9.4e-08  Score=105.71  Aligned_cols=124  Identities=24%  Similarity=0.308  Sum_probs=67.1

Q ss_pred             CCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEE
Q 003328           20 KDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTL   98 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L   98 (829)
                      ..+..+++..+.+.++-..+ .+++|+.|++.+|.    +..+... +..+.+|++|++++|.|+.+. .+..+..|+.|
T Consensus        72 ~~l~~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~----i~~i~~~-l~~~~~L~~L~ls~N~I~~i~-~l~~l~~L~~L  145 (414)
T KOG0531|consen   72 TSLKELNLRQNLIAKILNHLSKLKSLEALDLYDNK----IEKIENL-LSSLVNLQVLDLSFNKITKLE-GLSTLTLLKEL  145 (414)
T ss_pred             HhHHhhccchhhhhhhhcccccccceeeeeccccc----hhhcccc-hhhhhcchheecccccccccc-chhhccchhhh
Confidence            34444445555554422222 45566666666665    4444332 245666666666666665552 44555556666


Q ss_pred             EccccCCCCcccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCC
Q 003328           99 CLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCS  149 (829)
Q Consensus        99 ~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~  149 (829)
                      ++.+|.+..+..+..+..|+.++++++.+..+... ...+.+++.+.+.++.
T Consensus       146 ~l~~N~i~~~~~~~~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~  197 (414)
T KOG0531|consen  146 NLSGNLISDISGLESLKSLKLLDLSYNRIVDIENDELSELISLEELDLGGNS  197 (414)
T ss_pred             eeccCcchhccCCccchhhhcccCCcchhhhhhhhhhhhccchHHHhccCCc
Confidence            66666666655555566666666666665555432 3555566666665544

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.25  E-value=7.4e-07  Score=94.26  Aligned_cols=131  Identities=18%  Similarity=0.308  Sum_probs=82.7

Q ss_pred             CCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCcchhhhhccCccccccccccccccccceeecCCCCCcceeccC
Q 003328          570 NNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNF  649 (829)
Q Consensus       570 ~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~  649 (829)
                      ..++.|+|++| .++. +|.    -..+|++|.|++|..++.+|..            .+++|++|.+.+|+++..+   
T Consensus        52 ~~l~~L~Is~c-~L~s-LP~----LP~sLtsL~Lsnc~nLtsLP~~------------LP~nLe~L~Ls~Cs~L~sL---  110 (426)
T PRK15386         52 RASGRLYIKDC-DIES-LPV----LPNELTEITIENCNNLTTLPGS------------IPEGLEKLTVCHCPEISGL---  110 (426)
T ss_pred             cCCCEEEeCCC-CCcc-cCC----CCCCCcEEEccCCCCcccCCch------------hhhhhhheEccCccccccc---
Confidence            66777788777 5665 452    2346777777777777666542            3567777777777777655   


Q ss_pred             CCccccCCCcCeEEEeC--CCCCcccccCCcccccccCCCCccccchhhhhhhhhhhhhhccccCcccccceeecccccc
Q 003328          650 TGNIIEMPVLCSLAIEN--CTDMETFISNSVVHATTDNKEPQKLTSEENFLLVHQVQPLFNEKVGEEAKDCIVFRELEYL  727 (829)
Q Consensus       650 ~~~~~~~~sL~~L~i~~--C~~L~~l~~~~~~p~~l~~~~~~~~~~~~~~~~l~~L~~L~~~~~~~~~~~~~~~~sL~~L  727 (829)
                            .++|+.|++.+  |..+..+                                               +++|++|
T Consensus       111 ------P~sLe~L~L~~n~~~~L~~L-----------------------------------------------PssLk~L  137 (426)
T PRK15386        111 ------PESVRSLEIKGSATDSIKNV-----------------------------------------------PNGLTSL  137 (426)
T ss_pred             ------ccccceEEeCCCCCcccccC-----------------------------------------------cchHhhe
Confidence                  23566666642  2223322                                               4677778


Q ss_pred             cccCCCCc--ccccCCCCccccCcccEEeeccCCcceeecCCCCCCCCceeeeccC
Q 003328          728 TLDCLPSL--TSFSLGNYALEFPSLEHVVVRQCPTMKIFSQGGVDAPKLNKVKPTE  781 (829)
Q Consensus       728 ~l~~c~~L--~~l~~~~~~~~~~sL~~L~i~~C~~l~~l~~~~~~~p~L~~l~i~~  781 (829)
                      .+.+....  ..++ ..+|   ++|++|.|.+|..+. +|.++-  ++|+.|.+..
T Consensus       138 ~I~~~n~~~~~~lp-~~LP---sSLk~L~Is~c~~i~-LP~~LP--~SLk~L~ls~  186 (426)
T PRK15386        138 SINSYNPENQARID-NLIS---PSLKTLSLTGCSNII-LPEKLP--ESLQSITLHI  186 (426)
T ss_pred             eccccccccccccc-cccC---CcccEEEecCCCccc-Cccccc--ccCcEEEecc
Confidence            77543211  1112 2345   889999999999774 454332  5899999874

>PLN03150 hypothetical protein; Provisional

Probab=98.22  E-value=3.2e-06  Score=97.91  Aligned_cols=105  Identities=20%  Similarity=0.356  Sum_probs=87.4

Q ss_pred             CccEEEecCCCCCC-CchhhcCCCCCcEEEccccCCC-Cc-ccccCCCCCcEEEccCCCCc-cchhhhcCCCCCCEEecc
Q 003328           71 ELKVLSLIGIHFSS-LPSSLGRLINLQTLCLDWCQLE-DV-AAIGQLKKLEILSFRGSDIK-QLPLEIGQLTRLQLLDLS  146 (829)
Q Consensus        71 ~Lr~L~L~~~~i~~-lp~~l~~l~~Lr~L~L~~~~l~-~l-~~i~~L~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~  146 (829)
                      .++.|+|+++.+.. +|..++.+++|++|+|++|.+. .+ ..++.+.+|++|++++|.+. .+|..++++++|++|+++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            47888999988874 8888999999999999999887 45 67899999999999999887 688889999999999999


Q ss_pred             CCCCCCccChhhhcC-CCcccEEEccCCccc
Q 003328          147 NCSSLVVIAPNVISK-FSRLEELYMGDSFSQ  176 (829)
Q Consensus       147 ~~~~l~~lp~~~l~~-L~~L~~L~l~~~~~~  176 (829)
                      +|...+.+|.. ++. ..++..+++.+|...
T Consensus       499 ~N~l~g~iP~~-l~~~~~~~~~l~~~~N~~l  528 (623)
T PLN03150        499 GNSLSGRVPAA-LGGRLLHRASFNFTDNAGL  528 (623)
T ss_pred             CCcccccCChH-HhhccccCceEEecCCccc
Confidence            98877788887 554 456778888777543

>PLN03150 hypothetical protein; Provisional

Probab=98.20  E-value=3.9e-06  Score=97.28  Aligned_cols=104  Identities=25%  Similarity=0.351  Sum_probs=85.3

Q ss_pred             CCcEEEccccCCC-Cc-ccccCCCCCcEEEccCCCCc-cchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEc
Q 003328           94 NLQTLCLDWCQLE-DV-AAIGQLKKLEILSFRGSDIK-QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM  170 (829)
Q Consensus        94 ~Lr~L~L~~~~l~-~l-~~i~~L~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l  170 (829)
                      .++.|+|+++.+. .+ ..++++++|++|++++|.+. .+|..++++++|++|++++|...+.+|.. ++++++|++|++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~-l~~L~~L~~L~L  497 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPES-LGQLTSLRILNL  497 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchH-HhcCCCCCEEEC
Confidence            4789999999987 44 88999999999999999987 78999999999999999999866788887 999999999999


Q ss_pred             cCCccccccccCCCccchhhhcC-CCCCcEEEeecCC
Q 003328          171 GDSFSQWDKVEGGSNASLAELKG-LSKLTTLEIHVWD  206 (829)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~L~~-l~~L~~L~l~~~~  206 (829)
                      ++|.+.     +..+   ..++. ..++..+++.+|.
T Consensus       498 s~N~l~-----g~iP---~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        498 NGNSLS-----GRVP---AALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             cCCccc-----ccCC---hHHhhccccCceEEecCCc
Confidence            998765     3333   33333 2356778887765

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

Probab=98.19  E-value=2.8e-07  Score=92.68  Aligned_cols=184  Identities=17%  Similarity=0.193  Sum_probs=112.8

Q ss_pred             CCCCcEEEcCCCCCC--CCCC---cc-CCCCCcEEEeecCCCccccccc---------chhhhcCCCCccEEEecCCCCC
Q 003328           19 RKDPIAISLPQRDIQ--ELPE---RL-QCPNLQLFLLITKGIAPVSMQI---------SDLFFEGTEELKVLSLIGIHFS   83 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~--~l~~---~~-~~~~Lr~L~l~~~~~~~~~~~l---------p~~~~~~l~~Lr~L~L~~~~i~   83 (829)
                      .++++.|+||.|-+.  .++.   .+ .+..|+.|.+.+|..++.-+..         -......-..||++....|++.
T Consensus        91 ~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrle  170 (382)
T KOG1909|consen   91 CPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLE  170 (382)
T ss_pred             CCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccc
Confidence            347888888888654  2221   22 5778888888887744321111         0011244567888888888765


Q ss_pred             C-----CchhhcCCCCCcEEEccccCCC-----Cc-ccccCCCCCcEEEccCCCCc-----cchhhhcCCCCCCEEeccC
Q 003328           84 S-----LPSSLGRLINLQTLCLDWCQLE-----DV-AAIGQLKKLEILSFRGSDIK-----QLPLEIGQLTRLQLLDLSN  147 (829)
Q Consensus        84 ~-----lp~~l~~l~~Lr~L~L~~~~l~-----~l-~~i~~L~~L~~L~l~~~~l~-----~lp~~i~~L~~L~~L~l~~  147 (829)
                      .     +...+...+.|+.+.+..|.+.     -+ ..+..++||++||++.|.++     .+-..+..+++|++|++.+
T Consensus       171 n~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~d  250 (382)
T KOG1909|consen  171 NGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGD  250 (382)
T ss_pred             cccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccc
Confidence            4     3345566778888888888654     12 67778888888888888665     2344456677888888888


Q ss_pred             CCCCCccC-----hhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCC
Q 003328          148 CSSLVVIA-----PNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDA  207 (829)
Q Consensus       148 ~~~l~~lp-----~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~  207 (829)
                      |. +..-.     ...-...++|++|.+.+|.+..+    ...+....+..++.|..|++.+|..
T Consensus       251 cl-l~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~d----a~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  251 CL-LENEGAIAFVDALKESAPSLEVLELAGNEITRD----AALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             cc-cccccHHHHHHHHhccCCCCceeccCcchhHHH----HHHHHHHHHhcchhhHHhcCCcccc
Confidence            76 33211     11123367788888887766511    1112233445577788888887776

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

Probab=98.14  E-value=1.5e-07  Score=92.26  Aligned_cols=85  Identities=25%  Similarity=0.156  Sum_probs=51.8

Q ss_pred             CCcEEEccCCCCc--cchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcC
Q 003328          116 KLEILSFRGSDIK--QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKG  193 (829)
Q Consensus       116 ~L~~L~l~~~~l~--~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~  193 (829)
                      .||+||++...|+  .+-.-+..+.+|+.|.+.|...-..+... |++=.+|+.|+++.|...      ...+.---+.+
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~-iAkN~~L~~lnlsm~sG~------t~n~~~ll~~s  258 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNT-IAKNSNLVRLNLSMCSGF------TENALQLLLSS  258 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHH-Hhccccceeecccccccc------chhHHHHHHHh
Confidence            4777777777665  44444566777777777776533334433 666777777777776533      11122233556


Q ss_pred             CCCCcEEEeecCCC
Q 003328          194 LSKLTTLEIHVWDA  207 (829)
Q Consensus       194 l~~L~~L~l~~~~~  207 (829)
                      ++.|..|+++|+..
T Consensus       259 cs~L~~LNlsWc~l  272 (419)
T KOG2120|consen  259 CSRLDELNLSWCFL  272 (419)
T ss_pred             hhhHhhcCchHhhc
Confidence            67777777777764

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

Probab=98.09  E-value=1.4e-06  Score=100.30  Aligned_cols=59  Identities=31%  Similarity=0.443  Sum_probs=29.6

Q ss_pred             hcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCC---cccccCCCCCcEEEccCC
Q 003328           66 FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLED---VAAIGQLKKLEILSFRGS  125 (829)
Q Consensus        66 ~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~---l~~i~~L~~L~~L~l~~~  125 (829)
                      +.++++|+.||+|+++++.+ ..++++++|++|.+.+-.+..   +..+.+|++|++||+|..
T Consensus       169 c~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~  230 (699)
T KOG3665|consen  169 CASFPNLRSLDISGTNISNL-SGISRLKNLQVLSMRNLEFESYQDLIDLFNLKKLRVLDISRD  230 (699)
T ss_pred             hhccCccceeecCCCCccCc-HHHhccccHHHHhccCCCCCchhhHHHHhcccCCCeeecccc
Confidence            34555555555555555554 445555555555555444331   244445555555555544

>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=98.01  E-value=8.6e-06  Score=57.41  Aligned_cols=38  Identities=34%  Similarity=0.483  Sum_probs=20.7

Q ss_pred             CccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc
Q 003328           71 ELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV  108 (829)
Q Consensus        71 ~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l  108 (829)
                      +|++|++++|+|+.+|..++++++|++|++++|+++++
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i   39 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDI   39 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBE
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCC
Confidence            45566666666655555555555555555555555544

...

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

Probab=97.98  E-value=1.1e-06  Score=97.15  Aligned_cols=174  Identities=23%  Similarity=0.304  Sum_probs=129.8

Q ss_pred             cCCCCCCcEEEcCCCCCCCCCC-ccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCC
Q 003328           16 ETIRKDPIAISLPQRDIQELPE-RLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLIN   94 (829)
Q Consensus        16 ~~~~~~l~~L~l~~~~~~~l~~-~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~   94 (829)
                      +..+++++.+++.+|.|..+.. ...+++|++|++++|.    +.++..  +..+..|+.|++++|.|+.+. .+..++.
T Consensus        91 l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~----I~~i~~--l~~l~~L~~L~l~~N~i~~~~-~~~~l~~  163 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNK----ITKLEG--LSTLTLLKELNLSGNLISDIS-GLESLKS  163 (414)
T ss_pred             cccccceeeeeccccchhhcccchhhhhcchheeccccc----cccccc--hhhccchhhheeccCcchhcc-CCccchh
Confidence            4567899999999999999988 4589999999999999    677765  478888999999999998874 4666999


Q ss_pred             CcEEEccccCCCCccc--ccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCc--ccEEEc
Q 003328           95 LQTLCLDWCQLEDVAA--IGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSR--LEELYM  170 (829)
Q Consensus        95 Lr~L~L~~~~l~~l~~--i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~--L~~L~l  170 (829)
                      |+.+++++|.+..+..  ...+.+++.+++.++.+..+. .+..+..+..+++..+. +..+..  +..+..  |+++++
T Consensus       164 L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i~~i~-~~~~~~~l~~~~l~~n~-i~~~~~--l~~~~~~~L~~l~l  239 (414)
T KOG0531|consen  164 LKLLDLSYNRIVDIENDELSELISLEELDLGGNSIREIE-GLDLLKKLVLLSLLDNK-ISKLEG--LNELVMLHLRELYL  239 (414)
T ss_pred             hhcccCCcchhhhhhhhhhhhccchHHHhccCCchhccc-chHHHHHHHHhhccccc-ceeccC--cccchhHHHHHHhc
Confidence            9999999999998855  699999999999999877552 23344455555666654 333322  344444  888888


Q ss_pred             cCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCC
Q 003328          171 GDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQI  209 (829)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~  209 (829)
                      .++.+.         .....+..+.++..|++..+.+..
T Consensus       240 ~~n~i~---------~~~~~~~~~~~l~~l~~~~n~~~~  269 (414)
T KOG0531|consen  240 SGNRIS---------RSPEGLENLKNLPVLDLSSNRISN  269 (414)
T ss_pred             ccCccc---------cccccccccccccccchhhccccc
Confidence            887664         111445556677777777666543

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

Probab=97.96  E-value=7.1e-07  Score=101.74  Aligned_cols=119  Identities=19%  Similarity=0.162  Sum_probs=67.7

Q ss_pred             hhhheeEeeccccCccc--cccccCCCCCCCCCcEEEEeec-CCceEEecccCcccccccccccceeccccccchhhhcC
Q 003328          264 LKEAEEIHLIKLKGVQN--VVHELDDGEGFPRLKHLWVERC-SEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDS  340 (829)
Q Consensus       264 l~~L~~L~L~~~~~~~~--~~~~l~~~~~~~~L~~L~l~~~-~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~  340 (829)
                      .+.++.+.+.+|..+.+  .....   ..+++|+.|.+.+| ...... ..........+++|+.|++..|..+.+....
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~---~~~~~L~~L~l~~~~~~~~~~-~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~  262 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALA---LKCPNLEELDLSGCCLLITLS-PLLLLLLLSICRKLKSLDLSGCGLVTDIGLS  262 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHH---hhCchhheecccCcccccccc-hhHhhhhhhhcCCcCccchhhhhccCchhHH
Confidence            46677777777766655  22222   26777777777773 222211 0001112344566777777776654443222


Q ss_pred             CCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecccCc
Q 003328          341 QLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDL  388 (829)
Q Consensus       341 ~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~~l  388 (829)
                      .+.  ..+++|++|.+.+|..+++.....+...++.|++|++++|..+
T Consensus       263 ~l~--~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  263 ALA--SRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             HHH--hhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccc
Confidence            111  2366777777777777666666666666777777777777665

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

Probab=97.92  E-value=5.8e-07  Score=102.45  Aligned_cols=170  Identities=19%  Similarity=0.262  Sum_probs=87.9

Q ss_pred             cCccceEeeccCCCcceeecCCccccCCCccEEeeccCCCcceecccccCCCCCccceeecccccccccccCCCccchhh
Q 003328          453 FGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQ  532 (829)
Q Consensus       453 ~~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~~~~~~~~~~l~~~L~~Li~~c~~l~~~~~~~~~~~~~  532 (829)
                      +++|+.|.+.+|..+++-........+++|++|++++|..+++..           +..+..+|                
T Consensus       268 c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~-----------l~~~~~~c----------------  320 (482)
T KOG1947|consen  268 CPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSG-----------LEALLKNC----------------  320 (482)
T ss_pred             CCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchHHH-----------HHHHHHhC----------------
Confidence            677888887777776655544444467778888888877764331           11111123                


Q ss_pred             hhhhhccccCCcceEEecc---CCCceeeccCCCCCCCcCCCCcEEEEecCCCCccccchhhHHhccCCc-EEEEecCcc
Q 003328          533 KCYEEMIGFRDIEHLQLSH---FPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLV-LLEVRNCDS  608 (829)
Q Consensus       533 ~~l~~~~~~~~L~~L~l~~---c~~l~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~-~L~i~~C~~  608 (829)
                               ++++.|.+..   |+.++............ ..+..+.+.+|+++++.... ... ..... .+.+.+|+.
T Consensus       321 ---------~~l~~l~~~~~~~c~~l~~~~l~~~~~~~~-d~~~~~~~~~~~~l~~~~l~-~~~-~~~~~~~~~l~gc~~  388 (482)
T KOG1947|consen  321 ---------PNLRELKLLSLNGCPSLTDLSLSGLLTLTS-DDLAELILRSCPKLTDLSLS-YCG-ISDLGLELSLRGCPN  388 (482)
T ss_pred             ---------cchhhhhhhhcCCCccHHHHHHHHhhccCc-hhHhHHHHhcCCCcchhhhh-hhh-ccCcchHHHhcCCcc
Confidence                     2222222222   23333322111110000 14555666666666653221 111 22223 466777887


Q ss_pred             h-hhhhccCccccccccccccccccceeecCCCCCcceeccCCCcccc-CCCcCeEEEeCCCCCccc
Q 003328          609 L-EEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIE-MPVLCSLAIENCTDMETF  673 (829)
Q Consensus       609 L-~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~~-~~sL~~L~i~~C~~L~~l  673 (829)
                      + ..+.....          ...+++.|.+..|...+..+-  ..... +..++.+.+.+|+.+..-
T Consensus       389 l~~~l~~~~~----------~~~~l~~L~l~~~~~~t~~~l--~~~~~~~~~~~~l~~~~~~~~~~~  443 (482)
T KOG1947|consen  389 LTESLELRLC----------RSDSLRVLNLSDCRLVTDKGL--RCLADSCSNLKDLDLSGCRVITLK  443 (482)
T ss_pred             cchHHHHHhc----------cCCccceEecccCccccccch--HHHhhhhhccccCCccCcccccch
Confidence            7 33332221          233488899988887765511  11111 677788888888777543

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

Probab=97.89  E-value=7.9e-06  Score=94.30  Aligned_cols=136  Identities=22%  Similarity=0.239  Sum_probs=93.9

Q ss_pred             CCCccEEEecCCCC-C-CCchhhc-CCCCCcEEEccccCCC--Cc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCE
Q 003328           69 TEELKVLSLIGIHF-S-SLPSSLG-RLINLQTLCLDWCQLE--DV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQL  142 (829)
Q Consensus        69 l~~Lr~L~L~~~~i-~-~lp~~l~-~l~~Lr~L~L~~~~l~--~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~  142 (829)
                      -.+|++|+++|... . .-|..++ .+++||.|.+++-.+.  ++ .-..++++|+.||+|++.++.+ .+|++|+|||+
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~  199 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQV  199 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHH
Confidence            46899999988643 2 3555664 6899999999987653  45 6778899999999999999888 78999999999


Q ss_pred             EeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCC
Q 003328          143 LDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDA  207 (829)
Q Consensus       143 L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~  207 (829)
                      |.+.+-.......-..+.+|++|++||++........  ......++.-..+++|+.||.++++.
T Consensus       200 L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~--~ii~qYlec~~~LpeLrfLDcSgTdi  262 (699)
T KOG3665|consen  200 LSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDT--KIIEQYLECGMVLPELRFLDCSGTDI  262 (699)
T ss_pred             HhccCCCCCchhhHHHHhcccCCCeeeccccccccch--HHHHHHHHhcccCccccEEecCCcch
Confidence            9887744221111112788999999999876543100  00111222233588999999997765

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

Probab=97.79  E-value=3.4e-05  Score=54.40  Aligned_cols=38  Identities=37%  Similarity=0.549  Sum_probs=19.7

Q ss_pred             CCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCcc
Q 003328          116 KLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVI  154 (829)
Q Consensus       116 ~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~l  154 (829)
                      +|++|++++|.|+.+|..+++|++|++|++++|. +.++
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~-i~~i   39 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNP-ISDI   39 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSC-CSBE
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCC-CCCC
Confidence            4555555555555555555555555555555554 4443

...

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

Probab=97.78  E-value=7e-07  Score=97.61  Aligned_cols=150  Identities=21%  Similarity=0.188  Sum_probs=108.0

Q ss_pred             CCCCCCcEEEcCCCCCCCCCCcc---------------------------------CCCCCcEEEeecCCCcccccccch
Q 003328           17 TIRKDPIAISLPQRDIQELPERL---------------------------------QCPNLQLFLLITKGIAPVSMQISD   63 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~~~---------------------------------~~~~Lr~L~l~~~~~~~~~~~lp~   63 (829)
                      .....||+|-+.++++..+....                                 ....|.+.++++|.    ...+..
T Consensus       106 fpF~sLr~LElrg~~L~~~~GL~~lr~qLe~LIC~~Sl~Al~~v~ascggd~~ns~~Wn~L~~a~fsyN~----L~~mD~  181 (1096)
T KOG1859|consen  106 FPFRSLRVLELRGCDLSTAKGLQELRHQLEKLICHNSLDALRHVFASCGGDISNSPVWNKLATASFSYNR----LVLMDE  181 (1096)
T ss_pred             ccccceeeEEecCcchhhhhhhHHHHHhhhhhhhhccHHHHHHHHHHhccccccchhhhhHhhhhcchhh----HHhHHH
Confidence            34578999999988765322111                                 12234444455554    333333


Q ss_pred             hhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCcccc--cCCCCCcEEEccCCCCccchhhhcCCCCCC
Q 003328           64 LFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAI--GQLKKLEILSFRGSDIKQLPLEIGQLTRLQ  141 (829)
Q Consensus        64 ~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l~~i--~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~  141 (829)
                      + +.-+++|+.|+|++|.++..- .+.+|.+|++|||++|.+..+.-+  ..+ +|+.|.+++|.++.+ .+|.+|.+|+
T Consensus       182 S-Lqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc-~L~~L~lrnN~l~tL-~gie~LksL~  257 (1096)
T KOG1859|consen  182 S-LQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYNCLRHVPQLSMVGC-KLQLLNLRNNALTTL-RGIENLKSLY  257 (1096)
T ss_pred             H-HHHHHHhhhhccchhhhhhhH-HHHhcccccccccccchhccccccchhhh-hheeeeecccHHHhh-hhHHhhhhhh
Confidence            3 467889999999999998874 788999999999999988876322  233 399999999998887 4788999999


Q ss_pred             EEeccCCCCC--CccChhhhcCCCcccEEEccCCccc
Q 003328          142 LLDLSNCSSL--VVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       142 ~L~l~~~~~l--~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      .||+++|-..  ..+.+  ++.|..|+.|++.||.+-
T Consensus       258 ~LDlsyNll~~hseL~p--LwsLs~L~~L~LeGNPl~  292 (1096)
T KOG1859|consen  258 GLDLSYNLLSEHSELEP--LWSLSSLIVLWLEGNPLC  292 (1096)
T ss_pred             ccchhHhhhhcchhhhH--HHHHHHHHHHhhcCCccc
Confidence            9999987522  23333  788899999999998654

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

Probab=97.67  E-value=6.3e-05  Score=70.28  Aligned_cols=122  Identities=18%  Similarity=0.229  Sum_probs=81.5

Q ss_pred             CCcEEEcCCCCCCCCCCc-cCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhc-CCCCCcEE
Q 003328           21 DPIAISLPQRDIQELPER-LQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLG-RLINLQTL   98 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l~~~-~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~-~l~~Lr~L   98 (829)
                      +=+.+++.+.++..+... .-..+...+++.+|.    +.+++.  |..++.|.+|.+..|+|+.+-..+. -+++|..|
T Consensus        20 ~e~e~~LR~lkip~ienlg~~~d~~d~iDLtdNd----l~~l~~--lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L   93 (233)
T KOG1644|consen   20 RERELDLRGLKIPVIENLGATLDQFDAIDLTDND----LRKLDN--LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTL   93 (233)
T ss_pred             cccccccccccccchhhccccccccceecccccc----hhhccc--CCCccccceEEecCCcceeeccchhhhccccceE
Confidence            345666666655433321 134456778888887    566655  6788888888888888887666664 45678888


Q ss_pred             EccccCCCCc---ccccCCCCCcEEEccCCCCccchh----hhcCCCCCCEEeccCC
Q 003328           99 CLDWCQLEDV---AAIGQLKKLEILSFRGSDIKQLPL----EIGQLTRLQLLDLSNC  148 (829)
Q Consensus        99 ~L~~~~l~~l---~~i~~L~~L~~L~l~~~~l~~lp~----~i~~L~~L~~L~l~~~  148 (829)
                      .|.+|++..+   ..+..++.|++|.+-+|.++.-..    -+.++++|++||..+.
T Consensus        94 ~LtnNsi~~l~dl~pLa~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen   94 ILTNNSIQELGDLDPLASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             EecCcchhhhhhcchhccCCccceeeecCCchhcccCceeEEEEecCcceEeehhhh
Confidence            8888876654   566777788888888776664432    2566666666666553

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

Probab=97.58  E-value=4.5e-05  Score=77.20  Aligned_cols=159  Identities=14%  Similarity=0.141  Sum_probs=118.3

Q ss_pred             CCCCCCcEEEcCCCCCCCCC--------------Ccc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCC
Q 003328           17 TIRKDPIAISLPQRDIQELP--------------ERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIH   81 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~--------------~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~   81 (829)
                      ....+|.+|++.+|++....              ... .-++||++...+|.............|...+.|..+.++.|.
T Consensus       117 ~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~  196 (382)
T KOG1909|consen  117 SSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNG  196 (382)
T ss_pred             HhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHHhccccceEEEeccc
Confidence            44779999999999876221              112 568899999999984433333344567888999999999998


Q ss_pred             CCC-----CchhhcCCCCCcEEEccccCCC-----Cc-ccccCCCCCcEEEccCCCCc-----cchhhh-cCCCCCCEEe
Q 003328           82 FSS-----LPSSLGRLINLQTLCLDWCQLE-----DV-AAIGQLKKLEILSFRGSDIK-----QLPLEI-GQLTRLQLLD  144 (829)
Q Consensus        82 i~~-----lp~~l~~l~~Lr~L~L~~~~l~-----~l-~~i~~L~~L~~L~l~~~~l~-----~lp~~i-~~L~~L~~L~  144 (829)
                      |..     +...+..++||++|||+.|.++     .+ ..+..+++|++|++++|.++     .+-..+ ...++|++|.
T Consensus       197 I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~  276 (382)
T KOG1909|consen  197 IRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLE  276 (382)
T ss_pred             ccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccccccccHHHHHHHHhccCCCCceec
Confidence            752     5567889999999999999876     34 78889999999999999776     222333 2468999999


Q ss_pred             ccCCCCCCc----cChhhhcCCCcccEEEccCCccc
Q 003328          145 LSNCSSLVV----IAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       145 l~~~~~l~~----lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +.+|..-.+    +... +...+.|+.|++++|...
T Consensus       277 l~gNeIt~da~~~la~~-~~ek~dL~kLnLngN~l~  311 (382)
T KOG1909|consen  277 LAGNEITRDAALALAAC-MAEKPDLEKLNLNGNRLG  311 (382)
T ss_pred             cCcchhHHHHHHHHHHH-HhcchhhHHhcCCccccc
Confidence            999873221    1111 566899999999999874

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

Probab=97.53  E-value=0.00019  Score=67.14  Aligned_cols=102  Identities=24%  Similarity=0.207  Sum_probs=85.7

Q ss_pred             CCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc--hhhcCCCCCcE
Q 003328           20 KDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP--SSLGRLINLQT   97 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp--~~l~~l~~Lr~   97 (829)
                      .+...+++++|++..++....++.|.+|.+.+|.    +..+.+.+-.-+++|.+|.+.+|+|.++-  +.+..|+.|++
T Consensus        42 d~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNr----It~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~  117 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNR----ITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEY  117 (233)
T ss_pred             cccceecccccchhhcccCCCccccceEEecCCc----ceeeccchhhhccccceEEecCcchhhhhhcchhccCCccce
Confidence            5788899999998887776689999999999999    77777666566788999999999988653  34678999999


Q ss_pred             EEccccCCCCc-----ccccCCCCCcEEEccCC
Q 003328           98 LCLDWCQLEDV-----AAIGQLKKLEILSFRGS  125 (829)
Q Consensus        98 L~L~~~~l~~l-----~~i~~L~~L~~L~l~~~  125 (829)
                      |.+-+|.++.-     -.+.++++|++||+..-
T Consensus       118 Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  118 LTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             eeecCCchhcccCceeEEEEecCcceEeehhhh
Confidence            99999987733     67899999999999874

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

Probab=97.48  E-value=9.7e-06  Score=70.58  Aligned_cols=90  Identities=23%  Similarity=0.309  Sum_probs=51.4

Q ss_pred             cCCCCccEEEecCCCCCCCchhhc-CCCCCcEEEccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEe
Q 003328           67 EGTEELKVLSLIGIHFSSLPSSLG-RLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLD  144 (829)
Q Consensus        67 ~~l~~Lr~L~L~~~~i~~lp~~l~-~l~~Lr~L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~  144 (829)
                      .+..+|...+|++|.++.+|..+. ..+-+.+|++.+|.+.++ ..+..++.||.|+++.|.+...|+-|..|.+|-.|+
T Consensus        50 ~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Ld  129 (177)
T KOG4579|consen   50 SKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLD  129 (177)
T ss_pred             hCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHhc
Confidence            344455555666666655555553 334556666666666555 446666666666666666666666666666666666


Q ss_pred             ccCCCCCCccChh
Q 003328          145 LSNCSSLVVIAPN  157 (829)
Q Consensus       145 l~~~~~l~~lp~~  157 (829)
                      ..++. ...+|.+
T Consensus       130 s~~na-~~eid~d  141 (177)
T KOG4579|consen  130 SPENA-RAEIDVD  141 (177)
T ss_pred             CCCCc-cccCcHH
Confidence            65544 4444443

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.28  E-value=5.6e-05  Score=74.58  Aligned_cols=196  Identities=17%  Similarity=0.150  Sum_probs=114.5

Q ss_pred             CCcEEEcCCCCCCCCCCc--c--CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhh-cCCCCC
Q 003328           21 DPIAISLPQRDIQELPER--L--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSL-GRLINL   95 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l~~~--~--~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l-~~l~~L   95 (829)
                      -+.-+.+.++.|......  +  .++.++.+++.+|..+. ..+ ..+++.++++|++|+++.|.+..--..+ ...++|
T Consensus        46 a~ellvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSd-Wse-I~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl  123 (418)
T KOG2982|consen   46 ALELLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISD-WSE-IGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNL  123 (418)
T ss_pred             chhhheecCCCCCcchhHHHHHHHhhhhhhhhcccchhcc-HHH-HHHHHhcCccceEeeccCCcCCCccccCcccccce
Confidence            444667778877755432  1  68899999999998432 112 2356789999999999999766422222 467899


Q ss_pred             cEEEccccCCC--Cc-ccccCCCCCcEEEccCCCCccch---hhhcCC-CCCCEEeccCCCCCCccChhhh-cCCCcccE
Q 003328           96 QTLCLDWCQLE--DV-AAIGQLKKLEILSFRGSDIKQLP---LEIGQL-TRLQLLDLSNCSSLVVIAPNVI-SKFSRLEE  167 (829)
Q Consensus        96 r~L~L~~~~l~--~l-~~i~~L~~L~~L~l~~~~l~~lp---~~i~~L-~~L~~L~l~~~~~l~~lp~~~l-~~L~~L~~  167 (829)
                      ++|.|.|..+.  .. ..+..++.++.|+++.|.++.+-   ..+..- +.+++|+...|....-.....+ ...+++..
T Consensus       124 ~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~s  203 (418)
T KOG2982|consen  124 RVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNS  203 (418)
T ss_pred             EEEEEcCCCCChhhhhhhhhcchhhhhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhcccchh
Confidence            99999999765  55 77888999999999988554221   112222 2455555555531111100002 22466666


Q ss_pred             EEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCC---ccccccccEEEEE
Q 003328          168 LYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQ---DWVSVELQRYKIC  225 (829)
Q Consensus       168 L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~---~~~~~~L~~L~l~  225 (829)
                      +.+..|.+.       ....-.....++.+-.|++..+++.....   ...++.|..+++.
T Consensus       204 v~v~e~PlK-------~~s~ek~se~~p~~~~LnL~~~~idswasvD~Ln~f~~l~dlRv~  257 (418)
T KOG2982|consen  204 VFVCEGPLK-------TESSEKGSEPFPSLSCLNLGANNIDSWASVDALNGFPQLVDLRVS  257 (418)
T ss_pred             eeeecCccc-------chhhcccCCCCCcchhhhhcccccccHHHHHHHcCCchhheeecc
Confidence            666666443       11111222234445556666655543322   1256666666654

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.27  E-value=5.2e-05  Score=74.83  Aligned_cols=99  Identities=21%  Similarity=0.300  Sum_probs=49.6

Q ss_pred             ccEEEecCCCCCCCc--hhh-cCCCCCcEEEccccCCC---Cc-ccccCCCCCcEEEccCCCCc----cchhhhcCCCCC
Q 003328           72 LKVLSLIGIHFSSLP--SSL-GRLINLQTLCLDWCQLE---DV-AAIGQLKKLEILSFRGSDIK----QLPLEIGQLTRL  140 (829)
Q Consensus        72 Lr~L~L~~~~i~~lp--~~l-~~l~~Lr~L~L~~~~l~---~l-~~i~~L~~L~~L~l~~~~l~----~lp~~i~~L~~L  140 (829)
                      +..|.+.++.|...-  ..+ ..+.+++.|||.+|.+.   ++ ..+.+|++|++|+++.|.+.    .+|   ..+.+|
T Consensus        47 ~ellvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp---~p~~nl  123 (418)
T KOG2982|consen   47 LELLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLP---LPLKNL  123 (418)
T ss_pred             hhhheecCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCc---ccccce
Confidence            334455555554321  122 24556666666666655   33 44556666666666666433    333   234566


Q ss_pred             CEEeccCCCCCCccChhhhcCCCcccEEEccCC
Q 003328          141 QLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  173 (829)
Q Consensus       141 ~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~  173 (829)
                      ++|-+.|...-..-....+..++++++|+++.|
T Consensus       124 ~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N  156 (418)
T KOG2982|consen  124 RVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDN  156 (418)
T ss_pred             EEEEEcCCCCChhhhhhhhhcchhhhhhhhccc
Confidence            666665543111111112455566666666555

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

Probab=97.18  E-value=5.4e-05  Score=66.08  Aligned_cols=109  Identities=17%  Similarity=0.232  Sum_probs=88.6

Q ss_pred             CCcEEEcCCCCCCCCCCcc----CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCc
Q 003328           21 DPIAISLPQRDIQELPERL----QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQ   96 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l~~~~----~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr   96 (829)
                      .+..++++.|.+..++...    .-..|...++++|.    .+++|+.+-.+++..+.|++++|.+..+|..+..++.||
T Consensus        28 E~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~----fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr  103 (177)
T KOG4579|consen   28 ELHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNG----FKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALR  103 (177)
T ss_pred             HhhhcccccchhhHHHHHHHHHhCCceEEEEecccch----hhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhh
Confidence            3556778888776555432    55677888999988    788888876777789999999999999999999999999


Q ss_pred             EEEccccCCCCc-ccccCCCCCcEEEccCCCCccchhh
Q 003328           97 TLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLE  133 (829)
Q Consensus        97 ~L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~  133 (829)
                      .|+++.|++... ..|..|.+|-+||..++.+..+|..
T Consensus       104 ~lNl~~N~l~~~p~vi~~L~~l~~Lds~~na~~eid~d  141 (177)
T KOG4579|consen  104 SLNLRFNPLNAEPRVIAPLIKLDMLDSPENARAEIDVD  141 (177)
T ss_pred             hcccccCccccchHHHHHHHhHHHhcCCCCccccCcHH
Confidence            999999988766 7777799999999999888887765

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

Probab=97.10  E-value=0.00049  Score=67.26  Aligned_cols=86  Identities=22%  Similarity=0.233  Sum_probs=45.3

Q ss_pred             CCCccEEEecCCCCCC-----CchhhcCCCCCcEEEccccCCC-----------Cc-ccccCCCCCcEEEccCCCCc-cc
Q 003328           69 TEELKVLSLIGIHFSS-----LPSSLGRLINLQTLCLDWCQLE-----------DV-AAIGQLKKLEILSFRGSDIK-QL  130 (829)
Q Consensus        69 l~~Lr~L~L~~~~i~~-----lp~~l~~l~~Lr~L~L~~~~l~-----------~l-~~i~~L~~L~~L~l~~~~l~-~l  130 (829)
                      +..+..++||||.|..     +...|.+-.+|+..+++.-...           -+ +.+-++++|+..++|.|.+. ..
T Consensus        29 ~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~~  108 (388)
T COG5238          29 MDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSEF  108 (388)
T ss_pred             hcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCccc
Confidence            4555555555555431     3333444455555555543211           12 45566677777777776543 22


Q ss_pred             h----hhhcCCCCCCEEeccCCCCCCccC
Q 003328          131 P----LEIGQLTRLQLLDLSNCSSLVVIA  155 (829)
Q Consensus       131 p----~~i~~L~~L~~L~l~~~~~l~~lp  155 (829)
                      |    +-|++-+.|.||.+++|. ++.+.
T Consensus       109 ~e~L~d~is~~t~l~HL~l~NnG-lGp~a  136 (388)
T COG5238         109 PEELGDLISSSTDLVHLKLNNNG-LGPIA  136 (388)
T ss_pred             chHHHHHHhcCCCceeEEeecCC-CCccc
Confidence            2    235666777777777665 44443

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

Probab=96.57  E-value=0.0016  Score=63.98  Aligned_cols=106  Identities=18%  Similarity=0.207  Sum_probs=51.4

Q ss_pred             CCCCcEEEccccCCCCcccccCCCCCcEEEccCC--CCc-cchhhhcCCCCCCEEeccCCCC--CCccChhhhcCCCccc
Q 003328           92 LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGS--DIK-QLPLEIGQLTRLQLLDLSNCSS--LVVIAPNVISKFSRLE  166 (829)
Q Consensus        92 l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~--~l~-~lp~~i~~L~~L~~L~l~~~~~--l~~lp~~~l~~L~~L~  166 (829)
                      +..|+.|.+.++.++.+..+-.|.+|++|+++.|  .+. .++.-+-++++|++|++++|+.  +..+++  +..+.+|.
T Consensus        42 ~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~p--l~~l~nL~  119 (260)
T KOG2739|consen   42 FVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRP--LKELENLK  119 (260)
T ss_pred             ccchhhhhhhccceeecccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccch--hhhhcchh
Confidence            3445555555555555555555566666666665  222 3333334446666666666541  122333  45555555


Q ss_pred             EEEccCCccccccccCCCccchhhhcCCCCCcEEEeec
Q 003328          167 ELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHV  204 (829)
Q Consensus       167 ~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~  204 (829)
                      .|++..|...     .-....-..+.-+++|++|+-..
T Consensus       120 ~Ldl~n~~~~-----~l~dyre~vf~ll~~L~~LD~~d  152 (260)
T KOG2739|consen  120 SLDLFNCSVT-----NLDDYREKVFLLLPSLKYLDGCD  152 (260)
T ss_pred             hhhcccCCcc-----ccccHHHHHHHHhhhhccccccc
Confidence            6666555443     11222223333445555554443

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

Probab=96.52  E-value=0.0088  Score=58.76  Aligned_cols=143  Identities=17%  Similarity=0.115  Sum_probs=99.0

Q ss_pred             hhhcCCCCCcEEEccccCCC-----Cc-ccccCCCCCcEEEccCCCC----ccchh-------hhcCCCCCCEEeccCCC
Q 003328           87 SSLGRLINLQTLCLDWCQLE-----DV-AAIGQLKKLEILSFRGSDI----KQLPL-------EIGQLTRLQLLDLSNCS  149 (829)
Q Consensus        87 ~~l~~l~~Lr~L~L~~~~l~-----~l-~~i~~L~~L~~L~l~~~~l----~~lp~-------~i~~L~~L~~L~l~~~~  149 (829)
                      ..+..+..+..++|+||.+.     .+ ..|.+-.+|++.+++.-..    .++|.       .+-++++|+..+++.|.
T Consensus        24 eel~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNA  103 (388)
T COG5238          24 EELEMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNA  103 (388)
T ss_pred             HHHHhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccc
Confidence            44556788999999999876     35 7788889999999987421    13443       46789999999999987


Q ss_pred             CCCccChh---hhcCCCcccEEEccCCccccccccCCCc------cchhhhcCCCCCcEEEeecCCCCCcCCcc------
Q 003328          150 SLVVIAPN---VISKFSRLEELYMGDSFSQWDKVEGGSN------ASLAELKGLSKLTTLEIHVWDAQILPQDW------  214 (829)
Q Consensus       150 ~l~~lp~~---~l~~L~~L~~L~l~~~~~~~~~~~~~~~------~~~~~L~~l~~L~~L~l~~~~~~~~~~~~------  214 (829)
                      .-...|..   .|++-+.|.||.+.+|.....- ++...      +...+..+.+.|+......|++.+.+...      
T Consensus       104 fg~~~~e~L~d~is~~t~l~HL~l~NnGlGp~a-G~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~l~  182 (388)
T COG5238         104 FGSEFPEELGDLISSSTDLVHLKLNNNGLGPIA-GGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAALLE  182 (388)
T ss_pred             cCcccchHHHHHHhcCCCceeEEeecCCCCccc-hhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHHHH
Confidence            54445542   4778899999999998764100 01111      12234556788999888888887776542      


Q ss_pred             ccccccEEEEEEcccc
Q 003328          215 VSVELQRYKICIGEAR  230 (829)
Q Consensus       215 ~~~~L~~L~l~~~~~~  230 (829)
                      ...+|+.++++.+...
T Consensus       183 sh~~lk~vki~qNgIr  198 (388)
T COG5238         183 SHENLKEVKIQQNGIR  198 (388)
T ss_pred             hhcCceeEEeeecCcC
Confidence            3468888888654443

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

Probab=96.38  E-value=0.0015  Score=64.02  Aligned_cols=60  Identities=23%  Similarity=0.261  Sum_probs=26.0

Q ss_pred             cCCCCccEEEecCC--CCC-CCchhhcCCCCCcEEEccccCCCCc---ccccCCCCCcEEEccCCC
Q 003328           67 EGTEELKVLSLIGI--HFS-SLPSSLGRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSD  126 (829)
Q Consensus        67 ~~l~~Lr~L~L~~~--~i~-~lp~~l~~l~~Lr~L~L~~~~l~~l---~~i~~L~~L~~L~l~~~~  126 (829)
                      ..+++|++|.++.|  ++. .++.....+++|++|++++|+++.+   ..+.++.+|..||+..|.
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 PKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKSLDLFNCS  127 (260)
T ss_pred             CCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchhhhhcccCC
Confidence            34445555555544  222 1333333445555555555544322   333444444444444443

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.33  E-value=0.00031  Score=68.88  Aligned_cols=78  Identities=27%  Similarity=0.215  Sum_probs=49.8

Q ss_pred             CCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc---ccccCCCCC
Q 003328           41 CPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV---AAIGQLKKL  117 (829)
Q Consensus        41 ~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l---~~i~~L~~L  117 (829)
                      +.+.+.|++.||.    +.++  +++.+|+.|.||.|+-|.|+.+ ..+.+|++|+.|+|..|.|.++   .-+.++++|
T Consensus        18 l~~vkKLNcwg~~----L~DI--sic~kMp~lEVLsLSvNkIssL-~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsL   90 (388)
T KOG2123|consen   18 LENVKKLNCWGCG----LDDI--SICEKMPLLEVLSLSVNKISSL-APLQRCTRLKELYLRKNCIESLDELEYLKNLPSL   90 (388)
T ss_pred             HHHhhhhcccCCC----ccHH--HHHHhcccceeEEeeccccccc-hhHHHHHHHHHHHHHhcccccHHHHHHHhcCchh
Confidence            3455666666666    4444  3456777777777777777776 3466777777777777766655   445555556


Q ss_pred             cEEEccCC
Q 003328          118 EILSFRGS  125 (829)
Q Consensus       118 ~~L~l~~~  125 (829)
                      |.|.|..|
T Consensus        91 r~LWL~EN   98 (388)
T KOG2123|consen   91 RTLWLDEN   98 (388)
T ss_pred             hhHhhccC
Confidence            66655554

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.88  E-value=0.0011  Score=62.38  Aligned_cols=61  Identities=16%  Similarity=0.234  Sum_probs=52.6

Q ss_pred             ecccccccccCCCCcccccCCCCccccCcccEEeeccCCcceeecC-CCCCCCCceeeeccC
Q 003328          721 FRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMKIFSQ-GGVDAPKLNKVKPTE  781 (829)
Q Consensus       721 ~~sL~~L~l~~c~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~l~~-~~~~~p~L~~l~i~~  781 (829)
                      +++++.|.+.+|..+.+++.+.+..-.++|+.|+|++||+|++.-. .+..+++|+.+.+.+
T Consensus       124 l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~  185 (221)
T KOG3864|consen  124 LRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYD  185 (221)
T ss_pred             cchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHHHHhcC
Confidence            5899999999999999998776555689999999999999997543 668899999999985

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

Probab=95.66  E-value=0.036  Score=49.96  Aligned_cols=114  Identities=14%  Similarity=0.297  Sum_probs=45.0

Q ss_pred             CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEccccCCCCc--ccccCCCC
Q 003328           40 QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKK  116 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~-~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~  116 (829)
                      .+++|+.+.+.. .    ...++...|.++.+|+.+.+.++ +..++. .+..+++|+.+.+.. .+..+  ..+..+.+
T Consensus        10 ~~~~l~~i~~~~-~----~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~   82 (129)
T PF13306_consen   10 NCSNLESITFPN-T----IKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTN   82 (129)
T ss_dssp             T-TT--EEEETS-T------EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TT
T ss_pred             CCCCCCEEEECC-C----eeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccccccccccc
Confidence            455666666653 2    34566555666666666666553 444333 345555666666654 33333  44555666


Q ss_pred             CcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCc
Q 003328          117 LEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSR  164 (829)
Q Consensus       117 L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~  164 (829)
                      |+.+++..+ ++.++.. +.+. +|+.+.+..  .+..++...+.++.+
T Consensus        83 l~~i~~~~~-~~~i~~~~f~~~-~l~~i~~~~--~~~~i~~~~F~~~~~  127 (129)
T PF13306_consen   83 LKNIDIPSN-ITEIGSSSFSNC-NLKEINIPS--NITKIEENAFKNCTK  127 (129)
T ss_dssp             ECEEEETTT--BEEHTTTTTT--T--EEE-TT--B-SS----GGG----
T ss_pred             ccccccCcc-ccEEchhhhcCC-CceEEEECC--CccEECCcccccccc
Confidence            666666543 4444332 4444 555555543  233444433333333

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.50  E-value=0.0013  Score=64.72  Aligned_cols=80  Identities=24%  Similarity=0.385  Sum_probs=44.3

Q ss_pred             CCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccCh-hhhcCCCcccEEEc
Q 003328           92 LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAP-NVISKFSRLEELYM  170 (829)
Q Consensus        92 l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~-~~l~~L~~L~~L~l  170 (829)
                      +.+.+.|+..||.+.++..+.++..|++|.|+-|+|+.+- .+..+++|++|+|..|. +.++.. .-+.++++|+.|.+
T Consensus        18 l~~vkKLNcwg~~L~DIsic~kMp~lEVLsLSvNkIssL~-pl~rCtrLkElYLRkN~-I~sldEL~YLknlpsLr~LWL   95 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDISICEKMPLLEVLSLSVNKISSLA-PLQRCTRLKELYLRKNC-IESLDELEYLKNLPSLRTLWL   95 (388)
T ss_pred             HHHhhhhcccCCCccHHHHHHhcccceeEEeeccccccch-hHHHHHHHHHHHHHhcc-cccHHHHHHHhcCchhhhHhh
Confidence            3445556666666666666666666666666666666552 34556666666666544 333322 11455566666655


Q ss_pred             cCC
Q 003328          171 GDS  173 (829)
Q Consensus       171 ~~~  173 (829)
                      ..|
T Consensus        96 ~EN   98 (388)
T KOG2123|consen   96 DEN   98 (388)
T ss_pred             ccC
Confidence            544

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

Probab=95.43  E-value=0.0066  Score=35.46  Aligned_cols=22  Identities=27%  Similarity=0.628  Sum_probs=14.9

Q ss_pred             CCcEEEccCCCCccchhhhcCC
Q 003328          116 KLEILSFRGSDIKQLPLEIGQL  137 (829)
Q Consensus       116 ~L~~L~l~~~~l~~lp~~i~~L  137 (829)
                      +|++||+++|.++.+|.++++|
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~l   22 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSNL   22 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT-
T ss_pred             CccEEECCCCcCEeCChhhcCC
Confidence            4677777777777777766543

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 ....

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.00  E-value=0.0059  Score=57.57  Aligned_cols=74  Identities=18%  Similarity=0.224  Sum_probs=51.7

Q ss_pred             hhhhccccCCcceEEeccCCCceeeccCCCCCCCcCCCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCcchh
Q 003328          534 CYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLE  610 (829)
Q Consensus       534 ~l~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~  610 (829)
                      .+..+..+++++.|.+.+|..+.+..-+.+..  ..++|+.|+|++|+.+|+- --..+..+++|+.|.+++-+.+.
T Consensus       117 Gle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~--~~~~L~~L~lsgC~rIT~~-GL~~L~~lknLr~L~l~~l~~v~  190 (221)
T KOG3864|consen  117 GLEHLRDLRSIKSLSLANCKYFDDWCLERLGG--LAPSLQDLDLSGCPRITDG-GLACLLKLKNLRRLHLYDLPYVA  190 (221)
T ss_pred             HHHHHhccchhhhheeccccchhhHHHHHhcc--cccchheeeccCCCeechh-HHHHHHHhhhhHHHHhcCchhhh
Confidence            33445557888888888888887765444433  2388888888888888873 33345578888888888766554

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

Probab=94.43  E-value=0.016  Score=33.88  Aligned_cols=20  Identities=40%  Similarity=0.660  Sum_probs=11.8

Q ss_pred             CccEEEecCCCCCCCchhhc
Q 003328           71 ELKVLSLIGIHFSSLPSSLG   90 (829)
Q Consensus        71 ~Lr~L~L~~~~i~~lp~~l~   90 (829)
                      +|++|++++|+++.+|.+++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~   20 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFS   20 (22)
T ss_dssp             TESEEEETSSEESEEGTTTT
T ss_pred             CccEEECCCCcCEeCChhhc
Confidence            35666666666666665544

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 ....

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

Probab=94.27  E-value=0.13  Score=46.35  Aligned_cols=107  Identities=17%  Similarity=0.304  Sum_probs=61.6

Q ss_pred             ccchhhhcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hc
Q 003328           60 QISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IG  135 (829)
Q Consensus        60 ~lp~~~~~~l~~Lr~L~L~~~~i~~lp~-~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~  135 (829)
                      .+++..|.++.+|+.+.+.. .+..++. .+..+.+|+.+.+.+. +..+  ..+.++.+|+.+.+.. .+..++.. +.
T Consensus         2 ~i~~~~F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~   78 (129)
T PF13306_consen    2 SIGNNAFYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFS   78 (129)
T ss_dssp             EE-TTTTTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTT
T ss_pred             EECHHHHhCCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccccccc
Confidence            35666788889999999874 4555543 4677878999988774 6666  6678887888888876 55555443 55


Q ss_pred             CCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccC
Q 003328          136 QLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  172 (829)
Q Consensus       136 ~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~  172 (829)
                      .+++|+.+.+...  +..++...+.+. +|+.+.+..
T Consensus        79 ~~~~l~~i~~~~~--~~~i~~~~f~~~-~l~~i~~~~  112 (129)
T PF13306_consen   79 NCTNLKNIDIPSN--ITEIGSSSFSNC-NLKEINIPS  112 (129)
T ss_dssp             T-TTECEEEETTT---BEEHTTTTTT--T--EEE-TT
T ss_pred             ccccccccccCcc--ccEEchhhhcCC-CceEEEECC
Confidence            6888888888652  555655546666 777777654

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

Probab=92.66  E-value=0.076  Score=28.70  Aligned_cols=16  Identities=25%  Similarity=0.555  Sum_probs=6.5

Q ss_pred             CCcEEEccCCCCccch
Q 003328          116 KLEILSFRGSDIKQLP  131 (829)
Q Consensus       116 ~L~~L~l~~~~l~~lp  131 (829)
                      +|++|++++|+++++|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            4555555555555444

...

>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=91.74  E-value=0.12  Score=27.99  Aligned_cols=16  Identities=38%  Similarity=0.621  Sum_probs=6.2

Q ss_pred             CccEEEecCCCCCCCc
Q 003328           71 ELKVLSLIGIHFSSLP   86 (829)
Q Consensus        71 ~Lr~L~L~~~~i~~lp   86 (829)
                      +||+|++++|+++++|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            4555555555554443

...

>smart00369 LRR_TYP Leucine-rich repeats, typical (most populated) subfamily

Probab=86.93  E-value=0.56  Score=28.50  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=13.7

Q ss_pred             CCCCcEEEccCCCCccchhhh
Q 003328          114 LKKLEILSFRGSDIKQLPLEI  134 (829)
Q Consensus       114 L~~L~~L~l~~~~l~~lp~~i  134 (829)
                      |.+|++|++++|.++.+|.++
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            356677777777777766653

>smart00370 LRR Leucine-rich repeats, outliers

Probab=86.93  E-value=0.56  Score=28.50  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=13.7

Q ss_pred             CCCCcEEEccCCCCccchhhh
Q 003328          114 LKKLEILSFRGSDIKQLPLEI  134 (829)
Q Consensus       114 L~~L~~L~l~~~~l~~lp~~i  134 (829)
                      |.+|++|++++|.++.+|.++
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            356677777777777766653

>KOG0473 consensus Leucine-rich repeat protein [Function unknown]

Probab=85.37  E-value=0.028  Score=54.08  Aligned_cols=84  Identities=8%  Similarity=-0.008  Sum_probs=61.3

Q ss_pred             CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc-ccccCCCCCc
Q 003328           40 QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLE  118 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l-~~i~~L~~L~  118 (829)
                      .++..++|+++.|.    ...+... |+.+..|..|+++.+.+..+|..++.+..++.+++..|..+.. .+++++++++
T Consensus        40 ~~kr~tvld~~s~r----~vn~~~n-~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k  114 (326)
T KOG0473|consen   40 SFKRVTVLDLSSNR----LVNLGKN-FSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKNNHSQQPKSQKKEPHPK  114 (326)
T ss_pred             ccceeeeehhhhhH----HHhhccc-hHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhccchhhCCccccccCCcc
Confidence            56667777777776    4455444 4667777778888777777887777777777777777777766 7778888888


Q ss_pred             EEEccCCCCc
Q 003328          119 ILSFRGSDIK  128 (829)
Q Consensus       119 ~L~l~~~~l~  128 (829)
                      ++++.++.+.
T Consensus       115 ~~e~k~~~~~  124 (326)
T KOG0473|consen  115 KNEQKKTEFF  124 (326)
T ss_pred             hhhhccCcch
Confidence            8888877643

>KOG0473 consensus Leucine-rich repeat protein [Function unknown]

Probab=83.20  E-value=0.035  Score=53.41  Aligned_cols=83  Identities=14%  Similarity=0.076  Sum_probs=45.9

Q ss_pred             cCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEec
Q 003328           67 EGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDL  145 (829)
Q Consensus        67 ~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l  145 (829)
                      ...+..++||++.++...+-..++-+..|.-|+++.+.+..+ ..++.+..++++++..|..+..|.+.++++++++++.
T Consensus        39 ~~~kr~tvld~~s~r~vn~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k~~e~  118 (326)
T KOG0473|consen   39 ASFKRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKNNHSQQPKSQKKEPHPKKNEQ  118 (326)
T ss_pred             hccceeeeehhhhhHHHhhccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhccchhhCCccccccCCcchhhh
Confidence            455556666666665555444444455555555555555555 5555555555555555555555555555555555555


Q ss_pred             cCCC
Q 003328          146 SNCS  149 (829)
Q Consensus       146 ~~~~  149 (829)
                      .++.
T Consensus       119 k~~~  122 (326)
T KOG0473|consen  119 KKTE  122 (326)
T ss_pred             ccCc
Confidence            5443

>smart00367 LRR_CC Leucine-rich repeat - CC (cysteine-containing) subfamily

Probab=82.22  E-value=0.77  Score=27.96  Aligned_cols=18  Identities=28%  Similarity=0.611  Sum_probs=14.9

Q ss_pred             CCCccEEeeccCCCccee
Q 003328          479 FPSLERVSLTHCPNMKTF  496 (829)
Q Consensus       479 ~~~L~~L~i~~C~~l~~~  496 (829)
                      +++|++|+|++|+++++.
T Consensus         1 c~~L~~L~l~~C~~itD~   18 (26)
T smart00367        1 CPNLRELDLSGCTNITDE   18 (26)
T ss_pred             CCCCCEeCCCCCCCcCHH
Confidence            578889999999888875

>smart00370 LRR Leucine-rich repeats, outliers

Probab=81.95  E-value=1.3  Score=26.93  Aligned_cols=21  Identities=33%  Similarity=0.430  Sum_probs=13.7

Q ss_pred             CCCccEEEecCCCCCCCchhh
Q 003328           69 TEELKVLSLIGIHFSSLPSSL   89 (829)
Q Consensus        69 l~~Lr~L~L~~~~i~~lp~~l   89 (829)
                      +++|++|++++|+++.+|...
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            356677777777777766543

>smart00369 LRR_TYP Leucine-rich repeats, typical (most populated) subfamily

Probab=81.95  E-value=1.3  Score=26.93  Aligned_cols=21  Identities=33%  Similarity=0.430  Sum_probs=13.7

Q ss_pred             CCCccEEEecCCCCCCCchhh
Q 003328           69 TEELKVLSLIGIHFSSLPSSL   89 (829)
Q Consensus        69 l~~Lr~L~L~~~~i~~lp~~l   89 (829)
                      +++|++|++++|+++.+|...
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            356677777777777766543

>smart00367 LRR_CC Leucine-rich repeat - CC (cysteine-containing) subfamily

Probab=80.14  E-value=0.96  Score=27.52  Aligned_cols=17  Identities=18%  Similarity=0.450  Sum_probs=13.1

Q ss_pred             cCcccEEeeccCCccee
Q 003328          747 FPSLEHVVVRQCPTMKI  763 (829)
Q Consensus       747 ~~sL~~L~i~~C~~l~~  763 (829)
                      +++|++|++++|++++.
T Consensus         1 c~~L~~L~l~~C~~itD   17 (26)
T smart00367        1 CPNLRELDLSGCTNITD   17 (26)
T ss_pred             CCCCCEeCCCCCCCcCH
Confidence            46788888888888763

---

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	829
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-17
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	5e-17
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-12
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-12
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-16
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-16
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-15
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	8e-05
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	6e-13
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-11
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-07
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	7e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-12
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-11
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-11
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-09
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-08
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	9e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-09
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-09
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-08
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-11
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-10
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-07
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-07
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-10
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	5e-06
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-08
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	8e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	4e-10
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-07
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	8e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-04
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	6e-10
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-08
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-09
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-07
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	6e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	7e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-07
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-09
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	4e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-07
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	7e-07
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-09
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	8e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-09
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	7e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	5e-09
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	7e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	8e-08
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-06
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	8e-09
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	3e-06
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	8e-06
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-09
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-08
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-04
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-08
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-08
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-08
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	4e-08
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-08
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	3e-08
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-07
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	4e-08
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-06
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	9e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	4e-08
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	5e-08
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	8e-08
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	5e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	9e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	4e-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	3e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-07
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	9e-07
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	1e-07
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	6e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-06
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	6e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-05
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	2e-07
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	5e-07
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	4e-06
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-06
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	6e-04
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	3e-07
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	4e-07
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	5e-04
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	5e-07
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	1e-06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	5e-04
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-06
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-06
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	2e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	8e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-04
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	9e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-04
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	3e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	3e-05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	8e-05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	6e-04
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	1e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	6e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	6e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	3e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	3e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	3e-04
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	4e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	4e-04

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 81.1 bits (201), Expect = 1e-16
 Identities = 41/153 (26%), Positives = 68/153 (44%), Gaps = 18/153 (11%)

Query: 32  IQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGI-HFSSLPSSL 89
           + ELP+ + Q   L+   L    +  +   I+ L       L+ LS+      + LP  L
Sbjct: 116 LMELPDTMQQFAGLETLTLARNPLRALPASIASL-----NRLRELSIRACPELTELPEPL 170

Query: 90  GR---------LINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTR 139
                      L+NLQ+L L+W  +  + A+I  L+ L+ L  R S +  L   I  L +
Sbjct: 171 ASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPK 230

Query: 140 LQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           L+ LDL  C++L    P +    + L+ L + D
Sbjct: 231 LEELDLRGCTALRNY-PPIFGGRAPLKRLILKD 262

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 79.2 bits (196), Expect = 4e-16
 Identities = 29/107 (27%), Positives = 51/107 (47%), Gaps = 4/107 (3%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWC-QLEDV-AAIGQLKKLEILSFRG-SDIK 128
           LK L +     S+L  ++  L  L+ L L  C  L +     G    L+ L  +  S++ 
Sbjct: 208 LKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLL 267

Query: 129 QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS 175
            LPL+I +LT+L+ LDL  C +L  + P++I++      + +     
Sbjct: 268 TLPLDIHRLTQLEKLDLRGCVNLSRL-PSLIAQLPANCIILVPPHLQ 313

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 78.1 bits (193), Expect = 1e-15
 Identities = 26/137 (18%), Positives = 52/137 (37%), Gaps = 8/137 (5%)

Query: 72  LKVLSLIGIHFSSLPSSLGRL--INLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIK 128
            ++ +  G    +    L          L L    L        +L  L+ ++   + + 
Sbjct: 58  PQIETRTGRALKATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLM 117

Query: 129 QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKV--EGGSNA 186
           +LP  + Q   L+ L L+    L  + P  I+  +RL EL +  +  +  ++     S  
Sbjct: 118 ELPDTMQQFAGLETLTLARN-PLRAL-PASIASLNRLRELSI-RACPELTELPEPLASTD 174

Query: 187 SLAELKGLSKLTTLEIH 203
           +  E +GL  L +L + 
Sbjct: 175 ASGEHQGLVNLQSLRLE 191

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 44.6 bits (106), Expect = 8e-05
 Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 3/63 (4%)

Query: 72  LKVLSLIGI-HFSSLPSSLGRLINLQTLCLDWC-QLEDV-AAIGQLKKLEILSFRGSDIK 128
           LK L L    +  +LP  + RL  L+ L L  C  L  + + I QL    I+        
Sbjct: 255 LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQA 314

Query: 129 QLP 131
           QL 
Sbjct: 315 QLD 317

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 67.3 bits (165), Expect = 6e-13
 Identities = 25/144 (17%), Positives = 55/144 (38%), Gaps = 15/144 (10%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEI 119
             +++       L  ++L  I+ + L + +    N++ L ++     +   I  L  LE 
Sbjct: 34  STANITEAQMNSLTYITLANINVTDL-TGIEYAHNIKDLTINNIHATNYNPISGLSNLER 92

Query: 120 LSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD 178
           L   G D+    +  +  LT L LLD+S+  +        I+   ++  + +        
Sbjct: 93  LRIMGKDVTSDKIPNLSGLTSLTLLDISHS-AHDDSILTKINTLPKVNSIDL-------- 143

Query: 179 KVEGGSNASLAELKGLSKLTTLEI 202
                 N ++ ++  L  L  L+ 
Sbjct: 144 ----SYNGAITDIMPLKTLPELKS 163

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 63.1 bits (154), Expect = 2e-11
 Identities = 30/150 (20%), Positives = 57/150 (38%), Gaps = 17/150 (11%)

Query: 58  SMQISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLED--VAAIGQL 114
           ++ ++DL   E    +K L++  IH ++  + +  L NL+ L +    +    +  +  L
Sbjct: 53  NINVTDLTGIEYAHNIKDLTINNIHATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGL 111

Query: 115 KKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS 173
             L +L    S      L  I  L ++  +DLS   ++  I P  +     L+ L +   
Sbjct: 112 TSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMP--LKTLPELKSLNI--Q 167

Query: 174 FSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
           F       G        ++   KL  L   
Sbjct: 168 FDGVHDYRG--------IEDFPKLNQLYAF 189

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 51.1 bits (123), Expect = 2e-07
 Identities = 24/121 (19%), Positives = 44/121 (36%), Gaps = 15/121 (12%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLED--VAAIGQLK 115
             ++     G   L+ L ++G   +S    +L  L +L  L +     +D  +  I  L 
Sbjct: 77  HATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLP 136

Query: 116 KLEILSFRG----SDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG 171
           K+  +        +DI  L      L  L+ L++     +       I  F +L +LY  
Sbjct: 137 KVNSIDLSYNGAITDIMPL----KTLPELKSLNIQFD-GVHDYRG--IEDFPKLNQLYAF 189

Query: 172 D 172
            
Sbjct: 190 S 190

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 43.8 bits (104), Expect = 7e-05
 Identities = 21/112 (18%), Positives = 38/112 (33%), Gaps = 13/112 (11%)

Query: 92  LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSL 151
                   L      ++    Q+  L  ++    ++  L   I     ++ L ++N    
Sbjct: 22  FKAYLNGLLGQSSTANIT-EAQMNSLTYITLANINVTDLT-GIEYAHNIKDLTINNIH-A 78

Query: 152 VVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
               P  IS  S LE L +             ++  +  L GL+ LT L+I 
Sbjct: 79  TNYNP--ISGLSNLERLRIMGK--------DVTSDKIPNLSGLTSLTLLDIS 120

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 68.0 bits (167), Expect = 3e-12
 Identities = 30/183 (16%), Positives = 64/183 (34%), Gaps = 28/183 (15%)

Query: 25  ISLPQRDIQELPERLQCPNLQ-LFLLITKGIAPVSMQISDL-FFEGTEELKVLSLIGIHF 82
           + +    +  +       NL+ L L           QI+D+       +L  L +     
Sbjct: 49  LVVAGEKVASIQGIEYLTNLEYLNL--------NGNQITDISPLSNLVKLTNLYIGTNKI 100

Query: 83  SSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQL 142
           + + + L  L NL+ L L+   + D++ +  L K+  L+   +        +  +T L  
Sbjct: 101 TDISA-LQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNY 159

Query: 143 LDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSN--ASLAELKGLSKLTTL 200
           L ++    +  + P  I+  + L  L +              N    ++ L  L+ L   
Sbjct: 160 LTVTES-KVKDVTP--IANLTDLYSLSLNY------------NQIEDISPLASLTSLHYF 204

Query: 201 EIH 203
             +
Sbjct: 205 TAY 207

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 66.0 bits (162), Expect = 1e-11
 Identities = 25/147 (17%), Positives = 56/147 (38%), Gaps = 20/147 (13%)

Query: 60  QISDLF-FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
            I+ +F      E     L     + + +    L ++  L +   ++  +  I  L  LE
Sbjct: 11  PINQIFPDADLAEGIRAVLQKASVTDVVT-QEELESITKLVVAGEKVASIQGIEYLTNLE 69

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD 178
            L+  G+ I  +   +  L +L  L +     +  I+   +   + L ELY+ +      
Sbjct: 70  YLNLNGNQITDIS-PLSNLVKLTNLYIGTN-KITDISA--LQNLTNLRELYLNE------ 119

Query: 179 KVEGGSN--ASLAELKGLSKLTTLEIH 203
                 +  + ++ L  L+K+ +L + 
Sbjct: 120 ------DNISDISPLANLTKMYSLNLG 140

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 65.6 bits (161), Expect = 2e-11
 Identities = 33/146 (22%), Positives = 57/146 (39%), Gaps = 18/146 (12%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           QI+D+        L  L +     + L   L  L  L  L +   Q+ D+ A+  L KL+
Sbjct: 210 QITDITPVANMTRLNSLKIGNNKITDLSP-LANLSQLTWLEIGTNQISDINAVKDLTKLK 268

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD 178
           +L+   + I  +   +  L++L  L L+N   L      VI   + L  L++        
Sbjct: 269 MLNVGSNQISDIS-VLNNLSQLNSLFLNNNQ-LGNEDMEVIGGLTNLTTLFLSQ------ 320

Query: 179 KVEGGSN--ASLAELKGLSKLTTLEI 202
                 N    +  L  LSK+ + + 
Sbjct: 321 ------NHITDIRPLASLSKMDSADF 340

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 57.6 bits (140), Expect = 7e-09
 Identities = 28/147 (19%), Positives = 57/147 (38%), Gaps = 20/147 (13%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           ++ D+       +L  LSL       + S L  L +L        Q+ D+  +  + +L 
Sbjct: 166 KVKDVTPIANLTDLYSLSLNYNQIEDI-SPLASLTSLHYFTAYVNQITDITPVANMTRLN 224

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD 178
            L    + I  L   +  L++L  L++       +   N +   ++L+ L +G       
Sbjct: 225 SLKIGNNKITDLS-PLANLSQLTWLEIGTNQ---ISDINAVKDLTKLKMLNVGS------ 274

Query: 179 KVEGGSNA--SLAELKGLSKLTTLEIH 203
                 N    ++ L  LS+L +L ++
Sbjct: 275 ------NQISDISVLNNLSQLNSLFLN 295

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 57.2 bits (139), Expect = 1e-08
 Identities = 26/115 (22%), Positives = 50/115 (43%), Gaps = 6/115 (5%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           +I+DL       +L  L +     S + + +  L  L+ L +   Q+ D++ +  L +L 
Sbjct: 232 KITDLSPLANLSQLTWLEIGTNQISDINA-VKDLTKLKMLNVGSNQISDISVLNNLSQLN 290

Query: 119 ILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
            L    + +    +E IG LT L  L LS    +  I P  ++  S+++     +
Sbjct: 291 SLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN-HITDIRP--LASLSKMDSADFAN 342

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 42.9 bits (102), Expect = 3e-04
 Identities = 17/109 (15%), Positives = 34/109 (31%), Gaps = 14/109 (12%)

Query: 95  LQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVI 154
             TL      +  +     L +      + + +  +     +L  +  L ++    +  I
Sbjct: 2   AATLATLPAPINQIFPDADLAEGIRAVLQKASVTDVV-TQEELESITKLVVAGE-KVASI 59

Query: 155 APNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
               I   + LE L +  +              ++ L  L KLT L I 
Sbjct: 60  QG--IEYLTNLEYLNLNGN----------QITDISPLSNLVKLTNLYIG 96

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

 Score = 68.7 bits (168), Expect = 5e-12
 Identities = 22/175 (12%), Positives = 55/175 (31%), Gaps = 8/175 (4%)

Query: 30  RDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSL 89
           +   +  +RL   +L L   I +   P    I        ++ + +  +    + +  ++
Sbjct: 389 KMFLDYDQRLNLSDL-LQDAINRN--PEMKPIKKDSRISLKDTQ-IGNLTNRITFISKAI 444

Query: 90  GRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCS 149
            RL  LQ +               +   +  S      +   L    L  L  ++L NC 
Sbjct: 445 QRLTKLQIIYFANSPFTYD--NIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCP 502

Query: 150 SLVVIAPNVISKFSRLEELYMGD-SFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
           ++  + P+ +     L+ L +         +++        +     K+    + 
Sbjct: 503 NMTQL-PDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMG 556

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

 Score = 62.2 bits (151), Expect = 5e-10
 Identities = 25/152 (16%), Positives = 55/152 (36%), Gaps = 13/152 (8%)

Query: 32  IQELPERL-QCPNLQLFLL----ITKGIAPVSMQISDL--FFEGTEELKVLSLIGIHFSS 84
           + +LP+ L   P LQ   +         A +    + L    +   ++++  +   +   
Sbjct: 504 MTQLPDFLYDLPELQSLNIACNRGI-SAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEE 562

Query: 85  LPSS--LGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTR-LQ 141
            P+S  L +++ L  L     ++  + A G   KL  L    + I+++P +    T  ++
Sbjct: 563 FPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVE 622

Query: 142 LLDLSNCSSLVVIAPNV-ISKFSRLEELYMGD 172
            L  S+   L  I           +  +    
Sbjct: 623 GLGFSHN-KLKYIPNIFNAKSVYVMGSVDFSY 653

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

 Score = 54.9 bits (132), Expect = 9e-08
 Identities = 13/99 (13%), Positives = 29/99 (29%), Gaps = 8/99 (8%)

Query: 82  FSSLPSSLGRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSDIKQLPLEIGQLT 138
                 +      L T+ L + +L  +        L  L  +    +     P +    +
Sbjct: 717 LKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSS 776

Query: 139 RLQLLDLSNCSSLVV-----IAPNVISKFSRLEELYMGD 172
           +L+   + +             P  I+    L +L +G 
Sbjct: 777 QLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGS 815

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

 Score = 43.3 bits (102), Expect = 3e-04
 Identities = 21/140 (15%), Positives = 48/140 (34%), Gaps = 16/140 (11%)

Query: 72  LKVLSLIGIHFS-SLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQL 130
           +  LSL G      +P ++G+L  L+ L            +   ++L           ++
Sbjct: 325 VTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEEL-TPDMSEERKHRI 383

Query: 131 PLEIGQLT-----RLQLLDLSNCSSLVV--IAPNVISKFSRLEELYMGDSFSQWDKVEGG 183
            +   ++      RL L DL   +      + P        L++  +G+  ++   +   
Sbjct: 384 RMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITFIS-- 441

Query: 184 SNASLAELKGLSKLTTLEIH 203
                  ++ L+KL  +   
Sbjct: 442 -----KAIQRLTKLQIIYFA 456

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 66.6 bits (163), Expect = 2e-11
 Identities = 32/148 (21%), Positives = 54/148 (36%), Gaps = 8/148 (5%)

Query: 60  QISDLFFEGTEELKVLSLIG--IHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLK 115
           +I    F     L+VL L    I           L N+  + L + +   +   +   + 
Sbjct: 395 KIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVP 454

Query: 116 KLEILSFRG---SDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
            L+ L  R     ++   P     L  L +LDLSN  ++  I  +++    +LE L +  
Sbjct: 455 SLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNN-NIANINDDMLEGLEKLEILDLQH 513

Query: 173 SFSQWDKVEGGSNASLAELKGLSKLTTL 200
           +              +  LKGLS L  L
Sbjct: 514 NNLARLWKHANPGGPIYFLKGLSHLHIL 541

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 66.6 bits (163), Expect = 2e-11
 Identities = 30/150 (20%), Positives = 53/150 (35%), Gaps = 12/150 (8%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKK 116
           Q+SD  F     L  L L+      +  +   +  NL TL L    L         QL+ 
Sbjct: 87  QLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLEN 146

Query: 117 LEILSFRG---SDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS 173
           L+ L         +K   L+I   + L+ L+LS+   +   +P       RL  L++ + 
Sbjct: 147 LQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQ-IKEFSPGCFHAIGRLFGLFLNNV 205

Query: 174 FSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
                ++       L      + +  L + 
Sbjct: 206 -----QLGPSLTEKLCLELANTSIRNLSLS 230

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 60.0 bits (146), Expect = 2e-09
 Identities = 22/105 (20%), Positives = 43/105 (40%), Gaps = 5/105 (4%)

Query: 72  LKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIK 128
           + VL+L       L  ++  R   L +L + +  +  +      +L  L++L+ + +++ 
Sbjct: 27  ITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELS 86

Query: 129 QLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           QL  +     T L  L L +  S+  I  N   K   L  L +  
Sbjct: 87  QLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITLDLSH 130

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 60.0 bits (146), Expect = 2e-09
 Identities = 27/127 (21%), Positives = 51/127 (40%), Gaps = 15/127 (11%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSL---PSSLGRLINLQTLCLDWCQLEDV--AAIGQL 114
           Q++   F     L+ L L  +   ++   PS    L NL  L L    + ++    +  L
Sbjct: 444 QLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGL 503

Query: 115 KKLEILSFRGSDIKQL---------PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRL 165
           +KLEIL  + +++ +L            +  L+ L +L+L +      I   V      L
Sbjct: 504 EKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESN-GFDEIPVEVFKDLFEL 562

Query: 166 EELYMGD 172
           + + +G 
Sbjct: 563 KIIDLGL 569

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 56.2 bits (136), Expect = 3e-08
 Identities = 33/142 (23%), Positives = 54/142 (38%), Gaps = 9/142 (6%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKK 116
           ++     +    LKVL+L     S L   +     NL  L L    ++ +      + K 
Sbjct: 63  KLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKN 122

Query: 117 LEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKF--SRLEELYMGDS 173
           L  L    + +    L    QL  LQ L LSN   +  +    +  F  S L++L +  S
Sbjct: 123 LITLDLSHNGLSSTKLGTQVQLENLQELLLSNN-KIQALKSEELDIFANSSLKKLEL--S 179

Query: 174 FSQWDKVEGGSNASLAELKGLS 195
            +Q  +   G   ++  L GL 
Sbjct: 180 SNQIKEFSPGCFHAIGRLFGLF 201

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 51.2 bits (123), Expect = 1e-06
 Identities = 25/153 (16%), Positives = 47/153 (30%), Gaps = 11/153 (7%)

Query: 61  ISDLFFEGTEELKVLSLIGIHFS-SLPSSLG---RLINLQTLCLDWCQLEDV--AAIGQL 114
            S   F     L  L L  +    SL   L       +++ L L   QL          L
Sbjct: 186 FSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGL 245

Query: 115 K--KLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG 171
           K   L +L    +++  +       L +L+   L    ++  +  + +     +  L + 
Sbjct: 246 KWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYN-NIQHLFSHSLHGLFNVRYLNLK 304

Query: 172 DSFSQWDKVEGG-SNASLAELKGLSKLTTLEIH 203
            SF++                + L  L  L + 
Sbjct: 305 RSFTKQSISLASLPKIDDFSFQWLKCLEHLNME 337

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 50.4 bits (121), Expect = 2e-06
 Identities = 28/125 (22%), Positives = 51/125 (40%), Gaps = 14/125 (11%)

Query: 61  ISDLFFEGTEELKVLSLIGIHFSSL---------PSSLGRLINLQTLCLDWCQLEDV--A 109
           I+D   EG E+L++L L   + + L            L  L +L  L L+    +++   
Sbjct: 495 INDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVE 554

Query: 110 AIGQLKKLEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISK-FSRLEE 167
               L +L+I+    +++  LP  +      L+ L+L   + +  +   V    F  L E
Sbjct: 555 VFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQK-NLITSVEKKVFGPAFRNLTE 613

Query: 168 LYMGD 172
           L M  
Sbjct: 614 LDMRF 618

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 46.9 bits (112), Expect = 2e-05
 Identities = 22/121 (18%), Positives = 43/121 (35%), Gaps = 8/121 (6%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDVAAIGQ----- 113
           +I D  F+  + L+ L++       +  +    LINL+ L L            +     
Sbjct: 319 KIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSL 378

Query: 114 -LKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG 171
               L IL+   + I ++  +    L  L++LDL        +          + E+Y+ 
Sbjct: 379 AHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLS 438

Query: 172 D 172
            
Sbjct: 439 Y 439

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 64.6 bits (158), Expect = 6e-11
 Identities = 30/147 (20%), Positives = 53/147 (36%), Gaps = 20/147 (13%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
            ++D       +++  L    +   S+   +  L NL  +     QL D+  +  L KL 
Sbjct: 35  NVTDTVSQTDLDQVTTLQADRLGIKSI-DGVEYLNNLTQINFSNNQLTDITPLKNLTKLV 93

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD 178
            +    + I  +   +  LT L  L L N   +  I P  +   + L  L +        
Sbjct: 94  DILMNNNQIADIT-PLANLTNLTGLTLFNN-QITDIDP--LKNLTNLNRLEL-------- 141

Query: 179 KVEGGSN--ASLAELKGLSKLTTLEIH 203
                SN  + ++ L GL+ L  L   
Sbjct: 142 ----SSNTISDISALSGLTSLQQLSFG 164

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 63.1 bits (154), Expect = 2e-10
 Identities = 45/175 (25%), Positives = 79/175 (45%), Gaps = 28/175 (16%)

Query: 32  IQELPERLQCPNLQLFLLITKGIAPVSMQISDLF-FEGTEELKVLSLIGIHFSSLPSSLG 90
           I ++       +LQ              Q++DL        L+ L +     S +   L 
Sbjct: 146 ISDISALSGLTSLQQLSF--------GNQVTDLKPLANLTTLERLDISSNKVSDISV-LA 196

Query: 91  RLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSS 150
           +L NL++L     Q+ D+  +G L  L+ LS  G+ +K +   +  LT L  LDL+N   
Sbjct: 197 KLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDIG-TLASLTNLTDLDLANN-Q 254

Query: 151 LVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSN--ASLAELKGLSKLTTLEIH 203
           +  +AP  +S  ++L EL +            G+N  ++++ L GL+ LT LE++
Sbjct: 255 ISNLAP--LSGLTKLTELKL------------GANQISNISPLAGLTALTNLELN 295

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 60.0 bits (146), Expect = 2e-09
 Identities = 39/147 (26%), Positives = 63/147 (42%), Gaps = 20/147 (13%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           QIS+L    G  +L  L L     S++   L  L  L  L L+  QLED++ I  LK L 
Sbjct: 254 QISNLAPLSGLTKLTELKLGANQISNISP-LAGLTALTNLELNENQLEDISPISNLKNLT 312

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD 178
            L+   ++I  +   +  LT+LQ L   N     V   + ++  + +  L  G       
Sbjct: 313 YLTLYFNNISDIS-PVSSLTKLQRLFFYNNK---VSDVSSLANLTNINWLSAGH------ 362

Query: 179 KVEGGSN--ASLAELKGLSKLTTLEIH 203
                 N  + L  L  L+++T L ++
Sbjct: 363 ------NQISDLTPLANLTRITQLGLN 383

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 60.0 bits (146), Expect = 2e-09
 Identities = 38/147 (25%), Positives = 61/147 (41%), Gaps = 21/147 (14%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           QI+D+        L  L+L     + +   L  L NL  L L    + D++A+  L  L+
Sbjct: 101 QIADITPLANLTNLTGLTLFNNQITDIDP-LKNLTNLNRLELSSNTISDISALSGLTSLQ 159

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD 178
            LSF        PL    LT L+ LD+S+     V   +V++K + LE L   +      
Sbjct: 160 QLSFGNQVTDLKPL--ANLTTLERLDISSNK---VSDISVLAKLTNLESLIATN------ 208

Query: 179 KVEGGSN--ASLAELKGLSKLTTLEIH 203
                 N  + +  L  L+ L  L ++
Sbjct: 209 ------NQISDITPLGILTNLDELSLN 229

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 54.2 bits (131), Expect = 1e-07
 Identities = 23/111 (20%), Positives = 37/111 (33%), Gaps = 4/111 (3%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
            ISD+       +L+ L       S + S L  L N+  L     Q+ D+  +  L ++ 
Sbjct: 320 NISDISPVSSLTKLQRLFFYNNKVSDVSS-LANLTNINWLSAGHNQISDLTPLANLTRIT 378

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELY 169
            L          P+       +     +   +L  IAP  IS      E  
Sbjct: 379 QLGLNDQAWTNAPVNYKANVSIPNTVKNVTGAL--IAPATISDGGSYTEPD 427

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 53.4 bits (129), Expect = 2e-07
 Identities = 23/119 (19%), Positives = 41/119 (34%), Gaps = 18/119 (15%)

Query: 87  SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLS 146
            +   L       L    + D  +   L ++  L      IK +   +  L  L  ++ S
Sbjct: 18  FTDTALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSID-GVEYLNNLTQINFS 76

Query: 147 NCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSN--ASLAELKGLSKLTTLEIH 203
           N   L  I P  +   ++L ++ M +            N  A +  L  L+ LT L + 
Sbjct: 77  NN-QLTDITP--LKNLTKLVDILMNN------------NQIADITPLANLTNLTGLTLF 120

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 62.3 bits (152), Expect = 1e-10
 Identities = 28/148 (18%), Positives = 53/148 (35%), Gaps = 12/148 (8%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIG---QLKK 116
                   GT  LK L L      ++ S+   L  L+ L      L+ ++       L+ 
Sbjct: 68  GCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRN 127

Query: 117 LEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS 175
           L  L    +  +     I   L+ L++L ++  S      P++ ++   L  L +  S  
Sbjct: 128 LIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDL--SQC 185

Query: 176 QWDKVEGGSNASLAELKGLSKLTTLEIH 203
           Q +++   +         LS L  L + 
Sbjct: 186 QLEQLSPTA------FNSLSSLQVLNMS 207

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 48.5 bits (116), Expect = 5e-06
 Identities = 27/138 (19%), Positives = 42/138 (30%), Gaps = 13/138 (9%)

Query: 71  ELKVLSLIGIHFSSLPSS-LGRLINLQTLCLDWCQLEDVAAIGQ----LKKLEILSFRGS 125
               L L      SLP     +L  L  L L    L       Q       L+ L    +
Sbjct: 29  SATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFN 88

Query: 126 DIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSN 185
            +  +      L +L+ LD  + +   +   +V      L  L +  S +       G  
Sbjct: 89  GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDI--SHTHTRVAFNGI- 145

Query: 186 ASLAELKGLSKLTTLEIH 203
                  GLS L  L++ 
Sbjct: 146 -----FNGLSSLEVLKMA 158

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 46.9 bits (112), Expect = 1e-05
 Identities = 33/118 (27%), Positives = 49/118 (41%), Gaps = 7/118 (5%)

Query: 61  ISDLFFEGTEELKVLSLIGIHFSS--LPSSLGRLINLQTLCLDWCQLEDVA--AIGQLKK 116
             +  F G   L+VL + G  F    LP     L NL  L L  CQLE ++  A   L  
Sbjct: 141 AFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSS 200

Query: 117 LEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKF-SRLEELYMGD 172
           L++L+   ++   L       L  LQ+LD S  + ++      +  F S L  L +  
Sbjct: 201 LQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSL-NHIMTSKKQELQHFPSSLAFLNLTQ 257

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 62.7 bits (153), Expect = 3e-10
 Identities = 27/105 (25%), Positives = 38/105 (36%), Gaps = 5/105 (4%)

Query: 72  LKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIK 128
            K L L       L   S      LQ L L  C+++ +   A   L  L  L   G+ I+
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ 89

Query: 129 QLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
            L L     L+ LQ L      +L  +    I     L+EL +  
Sbjct: 90  SLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAH 133

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 57.0 bits (138), Expect = 2e-08
 Identities = 21/111 (18%), Positives = 41/111 (36%), Gaps = 4/111 (3%)

Query: 66  FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLE---DVAAIGQLKKLEILSF 122
             GT  LK L L      ++ S+   L  L+ L      L+   + +    L+ L  L  
Sbjct: 369 DFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDI 428

Query: 123 RGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
             +  +         L+ L++L ++  S      P++ ++   L  L +  
Sbjct: 429 SHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQ 479

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 53.1 bits (128), Expect = 3e-07
 Identities = 26/146 (17%), Positives = 52/146 (35%), Gaps = 9/146 (6%)

Query: 61  ISDLFFEGTEELKVLSLIG--IHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKK 116
           + +      + LK L++    I    LP     L NL+ L L   +++ +    +  L +
Sbjct: 115 LENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQ 174

Query: 117 LEI----LSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM-G 171
           + +    L    + +  +     +  RL  L L N    + +    I   + LE   +  
Sbjct: 175 MPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVL 234

Query: 172 DSFSQWDKVEGGSNASLAELKGLSKL 197
             F     +E    ++L  L  L+  
Sbjct: 235 GEFRNEGNLEKFDKSALEGLCNLTIE 260

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 52.7 bits (127), Expect = 4e-07
 Identities = 30/121 (24%), Positives = 46/121 (38%), Gaps = 9/121 (7%)

Query: 60  QISDLF--FEGTEELKVLSLIGIHFSSL--PSSLGRLINLQTLCLDWCQLEDV--AAIGQ 113
            +  +   F G E+L+ L     +   +   S    L NL  L +               
Sbjct: 384 GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNG 443

Query: 114 LKKLEILSFRGSDIKQ--LPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG 171
           L  LE+L   G+  ++  LP    +L  L  LDLS C  L  ++P   +  S L+ L M 
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTAFNSLSSLQVLNMS 502

Query: 172 D 172
            
Sbjct: 503 H 503

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 51.6 bits (124), Expect = 8e-07
 Identities = 20/111 (18%), Positives = 39/111 (35%), Gaps = 6/111 (5%)

Query: 65  FFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV---AAIGQLKKLEIL 120
            F     L  L +   H           L +L+ L +     ++        +L+ L  L
Sbjct: 416 VFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFL 475

Query: 121 SFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
                 ++QL P     L+ LQ+L++S+  +   +        + L+ L  
Sbjct: 476 DLSQCQLEQLSPTAFNSLSSLQVLNMSHN-NFFSLDTFPYKCLNSLQVLDY 525

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 49.6 bits (119), Expect = 3e-06
 Identities = 23/151 (15%), Positives = 47/151 (31%), Gaps = 15/151 (9%)

Query: 58  SMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV----AAIGQ 113
           + +         + LK L+       +  S +  L +L+ L L    L        +   
Sbjct: 313 NCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVD-LPSLEFLDLSRNGLSFKGCCSQSDFG 371

Query: 114 LKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD- 172
              L+ L    + +  +      L +L+ LD  + +   +   +V      L  L +   
Sbjct: 372 TTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT 431

Query: 173 SFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
                      +   +    GLS L  L++ 
Sbjct: 432 HTR-------VAFNGI--FNGLSSLEVLKMA 453

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 61.2 bits (149), Expect = 4e-10
 Identities = 21/115 (18%), Positives = 37/115 (32%), Gaps = 4/115 (3%)

Query: 60  QISDLFFEGTEELKVLSLIG--IHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKL 117
            + DL       ++ L L    I   +          L+ L L +  + DV       KL
Sbjct: 134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKL 193

Query: 118 EILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           + L    + +  +  E      +  + L N   LV+I    +     LE   +  
Sbjct: 194 KTLDLSSNKLAFMGPEFQSAAGVTWISLRNN-KLVLI-EKALRFSQNLEHFDLRG 246

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 20/149 (13%), Positives = 52/149 (34%), Gaps = 15/149 (10%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           Q      +    +K L L G   S +  + L     L+ L L    L +   +  L  L 
Sbjct: 24  QALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLR 83

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD 178
            L    + +++L         ++ L  +N  ++  ++ +        + +Y+  + ++  
Sbjct: 84  TLDLNNNYVQELL----VGPSIETLHAANN-NISRVSCSR---GQGKKNIYL--ANNKIT 133

Query: 179 KVEGGSNASLAELKGLS----KLTTLEIH 203
            +        + ++ L     ++ T+   
Sbjct: 134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFA 162

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 44.2 bits (105), Expect = 1e-04
 Identities = 19/123 (15%), Positives = 40/123 (32%), Gaps = 19/123 (15%)

Query: 84  SLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRL 140
           ++          +   +    L+    +       ++ L   G+ + Q+    +   T+L
Sbjct: 1   AIHEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKL 60

Query: 141 QLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTL 200
           +LL+LS+   L       +   S L  L +             +N  + EL     + TL
Sbjct: 61  ELLNLSSN-VLYETLD--LESLSTLRTLDL-------------NNNYVQELLVGPSIETL 104

Query: 201 EIH 203
              
Sbjct: 105 HAA 107

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 62.0 bits (151), Expect = 5e-10
 Identities = 28/214 (13%), Positives = 67/214 (31%), Gaps = 36/214 (16%)

Query: 23  IAISLPQRDIQELPERLQCPNLQLFLL----ITKGIAPVSM--------------QISDL 64
           I+    + D Q L +      +Q+  +    +       S+              Q+   
Sbjct: 286 ISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGK 345

Query: 65  F--FEGTEELKVLSLIGIHFSSLPSSL-GRLINLQTLCLDWCQLE---DVAAIGQLKKLE 118
              F    +L  L+L     + +P++  G    ++ L     +L+   ++     +  + 
Sbjct: 346 LPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMS 405

Query: 119 IL--------SFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
            +        S  G +   L     +   +  ++LSN   +      + S  S L  + +
Sbjct: 406 AIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNN-QISKFPKELFSTGSPLSSINL 464

Query: 171 GD-SFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
                ++  K            K    LT++++ 
Sbjct: 465 MGNMLTEIPKNSLKD--ENENFKNTYLLTSIDLR 496

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 56.2 bits (136), Expect = 3e-08
 Identities = 14/131 (10%), Positives = 36/131 (27%), Gaps = 22/131 (16%)

Query: 82  FSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRG---------SDIKQL 130
           + +       L +L  + +  C         +  L ++++++             D  Q 
Sbjct: 238 YKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQA 297

Query: 131 PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD-SFSQWDKVEGGSNASLA 189
             +     ++Q++ +   +         + K  +L  L                    L 
Sbjct: 298 LADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLE----------GKLP 347

Query: 190 ELKGLSKLTTL 200
                 KL +L
Sbjct: 348 AFGSEIKLASL 358

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 55.0 bits (133), Expect = 8e-08
 Identities = 22/176 (12%), Positives = 54/176 (30%), Gaps = 25/176 (14%)

Query: 26  SLPQRDIQELPERL-QCPNLQLFLL----ITKGIAPVSMQISDLFFEGTEELKVLSLIGI 80
            +P+  +++  E       L    L    +T  +     + + L       L  + L   
Sbjct: 471 EIPKNSLKDENENFKNTYLLTSIDLRFNKLT-KL-SDDFRATTL-----PYLVGIDLSYN 523

Query: 81  HFSSLPSSLGRLINLQTLCLDWCQLEDV--------AAIGQLKKLEILSFRGSDIKQLPL 132
            FS  P+       L+   +   +              I     L  L    +DI+++  
Sbjct: 524 SFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKVNE 583

Query: 133 EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASL 188
           +I     + +LD+ +    + I  + +  +       +   + +   + G     +
Sbjct: 584 KI--TPNISVLDIKDN-PNISIDLSYVCPYIEAGMYML--FYDKTQDIRGCDALDI 634

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 44.6 bits (106), Expect = 1e-04
 Identities = 17/146 (11%), Positives = 41/146 (28%), Gaps = 18/146 (12%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKL 117
            IS    +  ++   +          P       +L   C++    +     +     K 
Sbjct: 128 GISANMSDEQKQKMRMHYQKTFVDYDP--REDFSDLIKDCINSDPQQKSIKKSSRITLKD 185

Query: 118 EILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQW 177
             +    ++I  +   + +LT+L+   + N    V        +    E      +    
Sbjct: 186 TQIGQLSNNITFVSKAVMRLTKLRQFYMGNS-PFVAENICEAWENENSEYAQQYKTED-- 242

Query: 178 DKVEGGSNASLAELKGLSKLTTLEIH 203
                       +   L  LT +E++
Sbjct: 243 -----------LKWDNLKDLTDVEVY 257

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 60.5 bits (147), Expect = 6e-10
 Identities = 24/147 (16%), Positives = 50/147 (34%), Gaps = 16/147 (10%)

Query: 58  SMQISDLF-FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKK 116
              I+ +F          ++    + +    +   L  + TL      +  +  +  L  
Sbjct: 6   PTAINVIFPDPALANAIKIAAGKSNVTDT-VTQADLDGITTLSAFGTGVTTIEGVQYLNN 64

Query: 117 LEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ 176
           L  L  + + I  L   +  LT++  L+LS    L  ++   I+    ++ L +  +   
Sbjct: 65  LIGLELKDNQITDLA-PLKNLTKITELELSGN-PLKNVSA--IAGLQSIKTLDLTST--- 117

Query: 177 WDKVEGGSNASLAELKGLSKLTTLEIH 203
                      +  L GLS L  L + 
Sbjct: 118 -------QITDVTPLAGLSNLQVLYLD 137

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 55.1 bits (133), Expect = 3e-08
 Identities = 29/114 (25%), Positives = 51/114 (44%), Gaps = 6/114 (5%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           QI+D+    G   L+VL L     +++ S L  L NLQ L +   Q+ D+  +  L KL 
Sbjct: 118 QITDVTPLAGLSNLQVLYLDLNQITNI-SPLAGLTNLQYLSIGNAQVSDLTPLANLSKLT 176

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
            L    + I  +   +  L  L  + L N   +  ++P  ++  S L  + + +
Sbjct: 177 TLKADDNKISDIS-PLASLPNLIEVHLKNN-QISDVSP--LANTSNLFIVTLTN 226

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 46.2 bits (110), Expect = 2e-05
 Identities = 27/102 (26%), Positives = 40/102 (39%), Gaps = 4/102 (3%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           Q+SDL       +L  L       S + S L  L NL  + L   Q+ DV+ +     L 
Sbjct: 162 QVSDLTPLANLSKLTTLKADDNKISDI-SPLASLPNLIEVHLKNNQISDVSPLANTSNLF 220

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVIS 160
           I++     I   P+       L + ++    S   IAP  IS
Sbjct: 221 IVTLTNQTITNQPVFY--NNNLVVPNVVKGPSGAPIAPATIS 260

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 58.9 bits (143), Expect = 2e-09
 Identities = 36/146 (24%), Positives = 63/146 (43%), Gaps = 20/146 (13%)

Query: 60  QISDLF-FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           +++D+      + L  L L       L SSL  L  L++L L+   + D+  +  L +LE
Sbjct: 79  KLTDIKPLANLKNLGWLFLDENKVKDL-SSLKDLKKLKSLSLEHNGISDINGLVHLPQLE 137

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD 178
            L    + I  +   + +LT+L  L L +   +  I P  ++  ++L+ LY+        
Sbjct: 138 SLYLGNNKITDIT-VLSRLTKLDTLSLEDN-QISDIVP--LAGLTKLQNLYLSK------ 187

Query: 179 KVEGGSN--ASLAELKGLSKLTTLEI 202
                 N  + L  L GL  L  LE+
Sbjct: 188 ------NHISDLRALAGLKNLDVLEL 207

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 52.4 bits (126), Expect = 2e-07
 Identities = 26/161 (16%), Positives = 56/161 (34%), Gaps = 18/161 (11%)

Query: 56  PVSMQISDLF-FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQL 114
            V   I  +F  +   E    +L     +    +   L ++  +  +   ++ V  I  L
Sbjct: 9   TVPTPIKQIFSDDAFAETIKDNLKKKSVTDA-VTQNELNSIDQIIANNSDIKSVQGIQYL 67

Query: 115 KKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG--- 171
             +  L   G+ +  +   +  L  L  L L     +  ++   +    +L+ L +    
Sbjct: 68  PNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDENK-VKDLSS--LKDLKKLKSLSLEHNG 123

Query: 172 ----DSFSQWDKVEG---GSN--ASLAELKGLSKLTTLEIH 203
               +      ++E    G+N    +  L  L+KL TL + 
Sbjct: 124 ISDINGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLE 164

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 44.7 bits (106), Expect = 6e-05
 Identities = 26/111 (23%), Positives = 45/111 (40%), Gaps = 6/111 (5%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           +I+D+       +L  LSL     S +   L  L  LQ L L    + D+ A+  LK L+
Sbjct: 145 KITDITVLSRLTKLDTLSLEDNQISDI-VPLAGLTKLQNLYLSKNHISDLRALAGLKNLD 203

Query: 119 ILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEEL 168
           +L     +    P+     L     +  ++ S   ++ P +IS     E+ 
Sbjct: 204 VLELFSQECLNKPINHQSNLVVPNTVKNTDGS---LVTPEIISDDGDYEKP 251

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 60.3 bits (147), Expect = 2e-09
 Identities = 26/124 (20%), Positives = 47/124 (37%), Gaps = 11/124 (8%)

Query: 82  FSSLPSSLGRLINLQTLCLDWCQLE-DVAAIGQLKKLEILSFRGSDIK-QLP--LEIGQL 137
           FS++ SSL  L  L++L L    +   V+       L  L    + +   +     +G  
Sbjct: 66  FSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSC 125

Query: 138 TRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD-SFSQWDKVEGGSNASLAELKGLSK 196
           + L+ L++S+ +       +   K + LE L +   S S      G +        G  +
Sbjct: 126 SGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSIS------GANVVGWVLSDGCGE 179

Query: 197 LTTL 200
           L  L
Sbjct: 180 LKHL 183

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 55.3 bits (134), Expect = 7e-08
 Identities = 23/81 (28%), Positives = 34/81 (41%), Gaps = 4/81 (4%)

Query: 71  ELKVLSLIGIHFS-SLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDI 127
            L+ L L     +  +PS L    NL  + L   +L       IG+L+ L IL    +  
Sbjct: 467 TLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSF 526

Query: 128 K-QLPLEIGQLTRLQLLDLSN 147
              +P E+G    L  LDL+ 
Sbjct: 527 SGNIPAELGDCRSLIWLDLNT 547

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 54.9 bits (133), Expect = 1e-07
 Identities = 29/168 (17%), Positives = 54/168 (32%), Gaps = 36/168 (21%)

Query: 34  ELPERLQCPNLQLFLL----ITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFS-SLPSS 88
           ++   L+  +L++  L    I+       +           ELK L++ G   S  +   
Sbjct: 143 KVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGC-----GELKHLAISGNKISGDVD-- 195

Query: 89  LGRLINLQTLCLDWCQLE-DVAAIGQLKKLEILSFRGSDIK-QLPLEIGQLTRLQLLDLS 146
           + R +NL+ L +        +  +G    L+ L   G+ +       I   T L+LL++S
Sbjct: 196 VSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNIS 255

Query: 147 -----------NCSSLVV-----------IAPNVISKFSRLEELYMGD 172
                         SL             I   +      L  L +  
Sbjct: 256 SNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSG 303

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 54.1 bits (131), Expect = 2e-07
 Identities = 21/128 (16%), Positives = 39/128 (30%), Gaps = 27/128 (21%)

Query: 72  LKVLSLIGIHFS-SLPSSLGRLINLQTLCLDWCQLE--------------DVAA------ 110
           L+ L + G   S     ++     L+ L +   Q                 +A       
Sbjct: 225 LQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGE 284

Query: 111 -----IGQLKKLEILSFRGSDIK-QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSR 164
                 G    L  L   G+     +P   G  + L+ L LS+ +    +  + + K   
Sbjct: 285 IPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRG 344

Query: 165 LEELYMGD 172
           L+ L +  
Sbjct: 345 LKVLDLSF 352

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 53.8 bits (130), Expect = 2e-07
 Identities = 23/146 (15%), Positives = 47/146 (32%), Gaps = 37/146 (25%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFS-SLPSSLGR--LINLQTLCLDWCQLEDV--AAIGQL 114
           ++ +     +  L  L L   +FS  +  +L +     LQ L L            +   
Sbjct: 358 ELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNC 417

Query: 115 KKLEIL-----SFRGSDIKQLPLEIGQLTRLQLLDLS-------------NCSSLVVIA- 155
            +L  L        G+    +P  +G L++L+ L L                 +L  +  
Sbjct: 418 SELVSLHLSFNYLSGT----IPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLIL 473

Query: 156 ---------PNVISKFSRLEELYMGD 172
                    P+ +S  + L  + + +
Sbjct: 474 DFNDLTGEIPSGLSNCTNLNWISLSN 499

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 52.2 bits (126), Expect = 6e-07
 Identities = 23/109 (21%), Positives = 42/109 (38%), Gaps = 8/109 (7%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLE----DVAAIGQLKKLEILSFRGSDI 127
           L+ L L   H +   S      +L +L L    L      + ++G    L+ L+   + +
Sbjct: 79  LESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTL 138

Query: 128 -KQLPLEIG-QLTRLQLLDLSNC--SSLVVIAPNVISKFSRLEELYMGD 172
                +  G +L  L++LDLS    S   V+   +      L+ L +  
Sbjct: 139 DFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISG 187

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

 Score = 59.8 bits (145), Expect = 2e-09
 Identities = 35/150 (23%), Positives = 55/150 (36%), Gaps = 18/150 (12%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKK 116
            I    F+    L++L L   H  ++   +   L NL TL L   +L  +   A   L K
Sbjct: 78  IIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSK 137

Query: 117 LEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS 175
           L+ L  R + I+ +P     ++  L+ LDL     L  I+       S L  L +     
Sbjct: 138 LKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAM--- 194

Query: 176 QWDKVEGGSN--ASLAELKGLSKLTTLEIH 203
                         +  L  L KL  L++ 
Sbjct: 195 ---------CNLREIPNLTPLIKLDELDLS 215

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

 Score = 58.6 bits (142), Expect = 4e-09
 Identities = 27/115 (23%), Positives = 43/115 (37%), Gaps = 4/115 (3%)

Query: 61  ISDLFFEGTEELKVLSLIGI-HFSSLPS-SLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           I    F     L+ L L  +   S +   +   L NL+ L L  C L ++  +  L KL+
Sbjct: 151 IPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLD 210

Query: 119 ILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
            L   G+ +  +       L  LQ L +     + VI  N       L E+ +  
Sbjct: 211 ELDLSGNHLSAIRPGSFQGLMHLQKLWMIQS-QIQVIERNAFDNLQSLVEINLAH 264

>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 = 60.1 bits (146), Expect = 2e-09
 Identities = 30/143 (20%), Positives = 53/143 (37%), Gaps = 13/143 (9%)

Query: 66  FEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSF 122
                 L+VL L     +++   +   L +L+ L L    L  +  +  G L  L+ L+ 
Sbjct: 46  LRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNL 105

Query: 123 RGSDIKQLPL--EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKV 180
            G+  + L +      LT LQ L + N  +   I     +  + L EL +          
Sbjct: 106 MGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEI--KALSLRNY 163

Query: 181 EGGSNASLAELKGLSKLTTLEIH 203
           +  S      LK +  +  L +H
Sbjct: 164 QSQS------LKSIRDIHHLTLH 180

>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 = 53.6 bits (129), Expect = 2e-07
 Identities = 30/136 (22%), Positives = 51/136 (37%), Gaps = 11/136 (8%)

Query: 72  LKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSDIK 128
           +K L L     + +    L    NLQ L L   ++  +   A   L  LE L    + + 
Sbjct: 28  MKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLS 87

Query: 129 QLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNAS 187
            L     G L+ L+ L+L       +   ++    + L+ L +G+  +        S   
Sbjct: 88  SLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETF-------SEIR 140

Query: 188 LAELKGLSKLTTLEIH 203
             +  GL+ L  LEI 
Sbjct: 141 RIDFAGLTSLNELEIK 156

>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 = 51.6 bits (124), Expect = 7e-07
 Identities = 19/122 (15%), Positives = 43/122 (35%), Gaps = 11/122 (9%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSLGR-LINLQTLCLDWCQLEDV-----AAIGQ 113
                 +   E++K +++       +P S  + L +L+ L L    + +      A  G 
Sbjct: 300 YDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGA 359

Query: 114 LKKLEILSFRGSDIKQLPLEIG---QLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
              L+ L    + ++ +         L  L  LD+S   +   + P+      ++  L +
Sbjct: 360 WPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRN-TFHPM-PDSCQWPEKMRFLNL 417

Query: 171 GD 172
             
Sbjct: 418 SS 419

>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 = 49.0 bits (117), Expect = 5e-06
 Identities = 19/89 (21%), Positives = 35/89 (39%), Gaps = 4/89 (4%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEI 119
            I  +     + L+VL +   +  S    L     LQ L +   +L+ +        L +
Sbjct: 421 GIRVVKTCIPQTLEVLDVSNNNLDSFSLFLP---RLQELYISRNKLKTLPDASLFPVLLV 477

Query: 120 LSFRGSDIKQLPLEI-GQLTRLQLLDLSN 147
           +    + +K +P  I  +LT LQ + L  
Sbjct: 478 MKISRNQLKSVPDGIFDRLTSLQKIWLHT 506

>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 = 48.2 bits (115), Expect = 8e-06
 Identities = 20/134 (14%), Positives = 46/134 (34%), Gaps = 21/134 (15%)

Query: 58  SMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKL 117
           SMQ +       + L  L +    F  +P S      ++ L L    +  V      + L
Sbjct: 375 SMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSSTGIRVVKT-CIPQTL 433

Query: 118 EILSFRGSDIKQLPLEIGQLTRLQL-------------------LDLSNCSSLVVIAPNV 158
           E+L    +++    L + +L  L +                   + +S    L  +   +
Sbjct: 434 EVLDVSNNNLDSFSLFLPRLQELYISRNKLKTLPDASLFPVLLVMKISRN-QLKSVPDGI 492

Query: 159 ISKFSRLEELYMGD 172
             + + L+++++  
Sbjct: 493 FDRLTSLQKIWLHT 506

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 59.1 bits (143), Expect = 3e-09
 Identities = 21/115 (18%), Positives = 37/115 (32%), Gaps = 4/115 (3%)

Query: 60  QISDLFFEGTEELKVLSLIG--IHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKL 117
            + DL       ++ L L    I   +          L+ L L +  + DV       KL
Sbjct: 134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKL 193

Query: 118 EILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           + L    + +  +  E      +  + L N   LV+I    +     LE   +  
Sbjct: 194 KTLDLSSNKLAFMGPEFQSAAGVTWISLRNN-KLVLI-EKALRFSQNLEHFDLRG 246

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 51.4 bits (123), Expect = 8e-07
 Identities = 20/128 (15%), Positives = 41/128 (32%), Gaps = 19/128 (14%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           Q      +    +K L L G   S +  + L     L+ L L    L +   +  L  L 
Sbjct: 24  QALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLR 83

Query: 119 ILSFRGSDIKQLP-----------------LEIGQLTRLQLLDLSNCSSLVVIAPNVISK 161
            L    + +++L                  +   +    + + L+N   + ++       
Sbjct: 84  TLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRGQGKKNIYLANN-KITMLRDLDEGC 142

Query: 162 FSRLEELY 169
            SR++ L 
Sbjct: 143 RSRVQYLD 150

>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 = 59.3 bits (144), Expect = 3e-09
 Identities = 23/121 (19%), Positives = 47/121 (38%), Gaps = 9/121 (7%)

Query: 60  QISDLFFEGTEELKVLSLIG--IHFSSLPSSLGRLINLQTLCLDWCQLEDVA--AIGQLK 115
            +    F+   +L++L L    +      S    L  L+ L L    L+  +      L 
Sbjct: 390 SLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLP 449

Query: 116 KLEILSFRGSDIKQLPLE----IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG 171
            L+ L+ +G+   +  ++    +  L RL++L LS C  L  I  +  +    +  + + 
Sbjct: 450 ALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFC-DLSSIDQHAFTSLKMMNHVDLS 508

Query: 172 D 172
            
Sbjct: 509 H 509

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

 Score = 57.3 bits (139), Expect = 1e-08
 Identities = 28/146 (19%), Positives = 56/146 (38%), Gaps = 11/146 (7%)

Query: 60  QISDLFFEGTEE--LKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV-AAIGQLK 115
            IS   FEG  E  ++ ++L   +F ++  ++      LQ L L    L ++ + +  L 
Sbjct: 242 DISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLS 301

Query: 116 KLEILSFRGSDIKQLP-LEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF 174
            L+ L    +  + L  +       L  L +   +  + +    +     L EL +  S 
Sbjct: 302 TLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDL--SH 359

Query: 175 SQWDKVEGGSNASLAELKGLSKLTTL 200
              +  +  +      L+ LS L +L
Sbjct: 360 DDIETSDCCNLQ----LRNLSHLQSL 381

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

 Score = 55.8 bits (135), Expect = 4e-08
 Identities = 30/154 (19%), Positives = 48/154 (31%), Gaps = 21/154 (13%)

Query: 60  QISDLFFEGTEELKVLSLIG--IHFSSLPSSLGRLINLQTLCLDWCQLEDV----AAIGQ 113
            +  +       L  LS+ G           L  L NL+ L L    +E        +  
Sbjct: 315 NLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRN 374

Query: 114 LKKLEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           L  L+ L+   ++   L  E   +  +L+LLDL+     V  A +       L+ L +  
Sbjct: 375 LSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSH 434

Query: 173 ---SFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
                S                 GL  L  L + 
Sbjct: 435 SLLDISSEQ-----------LFDGLPALQHLNLQ 457

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

 Score = 55.8 bits (135), Expect = 4e-08
 Identities = 25/136 (18%), Positives = 45/136 (33%), Gaps = 13/136 (9%)

Query: 72  LKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIK 128
            + L        ++  ++  RLINL  L L  CQ+  +         +L+ L    + + 
Sbjct: 35  TECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLI 94

Query: 129 QLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNAS 187
            +          L+ L       +  I    +     LE LY+G +          S+  
Sbjct: 95  FMAETALSGPKALKHLFFIQT-GISSIDFIPLHNQKTLESLYLGSN--------HISSIK 145

Query: 188 LAELKGLSKLTTLEIH 203
           L +     KL  L+  
Sbjct: 146 LPKGFPTEKLKVLDFQ 161

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

 Score = 55.4 bits (134), Expect = 6e-08
 Identities = 29/141 (20%), Positives = 57/141 (40%), Gaps = 6/141 (4%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDVA--AIGQLKK 116
            +++    G + LK L  I    SS+    L     L++L L    +  +        +K
Sbjct: 95  FMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEK 154

Query: 117 LEILSFRGSDIKQLPLE-IGQLTRLQLLDLS-NCSSLVVIAPNVISKFSRLEELYMGDSF 174
           L++L F+ + I  L  E +  L +   L L+ N + +  I P      +  + L  G + 
Sbjct: 155 LKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPG-AFDSAVFQSLNFGGTQ 213

Query: 175 SQWDKVEGGSNASLAELKGLS 195
           +     +G  N+++  L   +
Sbjct: 214 NLLVIFKGLKNSTIQSLWLGT 234

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

 Score = 55.0 bits (133), Expect = 7e-08
 Identities = 20/114 (17%), Positives = 40/114 (35%), Gaps = 5/114 (4%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKK 116
            I +  F+    L  L L       +   +L     L+ L      +  +    +   K 
Sbjct: 71  WIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKT 130

Query: 117 LEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELY 169
           LE L    + I  + L +     +L++LD  N  ++  ++   +S   +   L 
Sbjct: 131 LESLYLGSNHISSIKLPKGFPTEKLKVLDFQNN-AIHYLSKEDMSSLQQATNLS 183

>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 = 53.9 bits (130), Expect = 2e-07
 Identities = 16/115 (13%), Positives = 40/115 (34%), Gaps = 6/115 (5%)

Query: 61  ISDLFFEGTEELKVLSLIGIHFSSLPSSL---GRLINLQTLCLDWCQLEDV--AAIGQLK 115
              L     + L + +   +    +  ++      ++++++ L      ++         
Sbjct: 219 FKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFS 278

Query: 116 KLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
            L+ L    + + +LP  +  L+ L+ L LS       +     S F  L  L +
Sbjct: 279 GLQELDLTATHLSELPSGLVGLSTLKKLVLSAN-KFENLCQISASNFPSLTHLSI 332

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

 Score = 46.5 bits (111), Expect = 3e-05
 Identities = 28/151 (18%), Positives = 53/151 (35%), Gaps = 19/151 (12%)

Query: 61  ISDLFFEGTEELKVLSLI--GIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIG----QL 114
           +S       ++   LSL   G   + +          Q+L     Q   V   G     +
Sbjct: 168 LSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTI 227

Query: 115 KKLEILSFRGSDIKQLP---LEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG 171
           + L + +F   D + +     E      ++ ++L        I+ N    FS L+EL + 
Sbjct: 228 QSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKH-YFFNISSNTFHCFSGLQELDL- 285

Query: 172 DSFSQWDKVEGGSNASLAELKGLSKLTTLEI 202
            + +   ++        + L GLS L  L +
Sbjct: 286 -TATHLSELP-------SGLVGLSTLKKLVL 308

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

 Score = 58.6 bits (142), Expect = 5e-09
 Identities = 34/150 (22%), Positives = 49/150 (32%), Gaps = 18/150 (12%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKK 116
            I    F     L+VL L       +   +   L +L TL L    L  +   A   L K
Sbjct: 89  MIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSK 148

Query: 117 LEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS 175
           L  L  R + I+ +P     ++  L  LDL     L  I+         L+ L +G    
Sbjct: 149 LRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGM--- 205

Query: 176 QWDKVEGGSN--ASLAELKGLSKLTTLEIH 203
                         +  L  L  L  LE+ 
Sbjct: 206 ---------CNIKDMPNLTPLVGLEELEMS 226

>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 = 57.8 bits (140), Expect = 7e-09
 Identities = 32/151 (21%), Positives = 55/151 (36%), Gaps = 22/151 (14%)

Query: 61  ISDLFFEGTEELKVLSLIGI-HFSSLPS-SLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           I    F     L  L L  +     +   +   L NL+ L L  C ++D+  +  L  LE
Sbjct: 162 IPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLE 221

Query: 119 ILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQW 177
            L   G+   ++       L+ L+ L + N   + +I  N     + L EL +       
Sbjct: 222 ELEMSGNHFPEIRPGSFHGLSSLKKLWVMNS-QVSLIERNAFDGLASLVELNL------- 273

Query: 178 DKVEGGSNASLAEL-----KGLSKLTTLEIH 203
                 ++ +L+ L       L  L  L +H
Sbjct: 274 ------AHNNLSSLPHDLFTPLRYLVELHLH 298

>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 = 58.6 bits (142), Expect = 6e-09
 Identities = 26/143 (18%), Positives = 51/143 (35%), Gaps = 6/143 (4%)

Query: 32  IQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGR 91
                  +  P+L+   L   G++            GT  LK L L      ++ S+   
Sbjct: 337 GGNAFSEVDLPSLEFLDLSRNGLSFKG--CCSQSDFGTTSLKYLDLSFNGVITMSSNFLG 394

Query: 92  LINLQTLCLDWCQLEDVAAIG---QLKKLEILSFRGSDIKQLPLEI-GQLTRLQLLDLSN 147
           L  L+ L      L+ ++       L+ L  L    +  +     I   L+ L++L ++ 
Sbjct: 395 LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAG 454

Query: 148 CSSLVVIAPNVISKFSRLEELYM 170
            S      P++ ++   L  L +
Sbjct: 455 NSFQENFLPDIFTELRNLTFLDL 477

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

 Score = 58.2 bits (141), Expect = 6e-09
 Identities = 28/105 (26%), Positives = 39/105 (37%), Gaps = 5/105 (4%)

Query: 72  LKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIK 128
            K L L       L S S      LQ L L  C+++ +   A   L  L  L   G+ I+
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ 89

Query: 129 QLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
            L L     L+ LQ L      +L  +    I     L+EL +  
Sbjct: 90  SLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAH 133

>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 = 54.7 bits (132), Expect = 8e-08
 Identities = 30/182 (16%), Positives = 57/182 (31%), Gaps = 20/182 (10%)

Query: 26  SLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL 85
           SL    I+ + +       Q   L+       + +         + LK L+       + 
Sbjct: 288 SLVSVTIERVKDFSYNFGWQHLELV-------NCKFGQFPTLKLKSLKRLTFTSNKGGNA 340

Query: 86  PSSLGRLINLQTLCLDWCQLEDVA----AIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQ 141
            S +  L +L+ L L    L        +      L+ L    + +  +      L +L+
Sbjct: 341 FSEVD-LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLE 399

Query: 142 LLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLE 201
            LD  + +   +   +V      L  L +  S +       G         GLS L  L+
Sbjct: 400 HLDFQHSNLKQMSEFSVFLSLRNLIYLDI--SHTHTRVAFNGI------FNGLSSLEVLK 451

Query: 202 IH 203
           + 
Sbjct: 452 MA 453

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

 Score = 53.6 bits (129), Expect = 2e-07
 Identities = 57/357 (15%), Positives = 104/357 (29%), Gaps = 30/357 (8%)

Query: 32  IQELPERL--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIG--IHFSSLPS 87
           IQ L         +LQ  + +   +A     + +      + LK L++    I    LP 
Sbjct: 88  IQSLALGAFSGLSSLQKLVAVETNLA----SLENFPIGHLKTLKELNVAHNLIQSFKLPE 143

Query: 88  SLGRLINLQTLCLDWCQLEDVA--AIGQLKKLEI----LSFRGSDIKQLPLEIGQLTRLQ 141
               L NL+ L L   +++ +    +  L ++ +    L    + +  +     +  RL 
Sbjct: 144 YFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLH 203

Query: 142 LLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLE 201
            L L N    + +    I   + LE   +        +     N    +   L  L  L 
Sbjct: 204 KLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLG-----EFRNEGNLEKFDKSALEGLCNLT 258

Query: 202 IHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMK 261
           I  +    L  D+   ++     C+        V+    R+           L       
Sbjct: 259 IEEFRLAYL--DYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKF 316

Query: 262 MLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFP 321
                 +   L +L    N           P L+ L + R       +   G    + F 
Sbjct: 317 GQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNG-----LSFKGCCSQSDFG 371

Query: 322 LLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQ 378
                 L    N      S          L  ++ +    LK +  FS+  +L  L 
Sbjct: 372 TTSLKYLDLSFNGVITMSSNFL---GLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLI 424

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

 Score = 53.2 bits (128), Expect = 3e-07
 Identities = 30/116 (25%), Positives = 46/116 (39%), Gaps = 6/116 (5%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKK 116
            I D  ++    L  L L G    SL   +   L +LQ L      L  +    IG LK 
Sbjct: 66  TIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKT 125

Query: 117 LEILSFRGSDIKQLPL--EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
           L+ L+   + I+   L      LT L+ LDLS+   +  I    +    ++  L +
Sbjct: 126 LKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN-KIQSIYCTDLRVLHQMPLLNL 180

>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 = 4e-06
 Identities = 18/113 (15%), Positives = 44/113 (38%), Gaps = 6/113 (5%)

Query: 65  FFEGTEELKVLSLIGIHFSSLPSS-LGRLINLQTLCLDWCQLEDV---AAIGQLKKLEIL 120
            F     L  L +   H     +     L +L+ L +     ++        +L+ L  L
Sbjct: 416 VFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFL 475

Query: 121 SFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
                 ++QL       L+ LQ+L++++   L  +   +  + + L+++++  
Sbjct: 476 DLSQCQLEQLSPTAFNSLSSLQVLNMASNQ-LKSVPDGIFDRLTSLQKIWLHT 527

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 57.2 bits (139), Expect = 8e-09
 Identities = 20/104 (19%), Positives = 38/104 (36%), Gaps = 18/104 (17%)

Query: 53  GIAPVSMQISDLFFEGTEELKVLSLIGI-HFS-SLPSSLGRLINLQTLCLDWCQLEDV-- 108
              P+   +++L +     L  L + GI +    +P ++ +L  L  L +    +     
Sbjct: 64  KPYPIPSSLANLPY-----LNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIP 118

Query: 109 AAIGQLKKLEIL-----SFRGSDIKQLPLEIGQLTRLQLLDLSN 147
             + Q+K L  L     +  G+    LP  I  L  L  +    
Sbjct: 119 DFLSQIKTLVTLDFSYNALSGT----LPPSISSLPNLVGITFDG 158

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 49.1 bits (118), Expect = 3e-06
 Identities = 21/85 (24%), Positives = 30/85 (35%), Gaps = 16/85 (18%)

Query: 75  LSLIGIHFS------SLPSSLGRLINLQTLCLDWCQLE-DVAAIGQLKKLEIL-----SF 122
           L+L  +  S            G   N Q + L    L  D+  +G  K L  L       
Sbjct: 197 LNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRI 256

Query: 123 RGSDIKQLPLEIGQLTRLQLLDLSN 147
            G+    LP  + QL  L  L++S 
Sbjct: 257 YGT----LPQGLTQLKFLHSLNVSF 277

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 47.5 bits (114), Expect = 8e-06
 Identities = 19/96 (19%), Positives = 35/96 (36%), Gaps = 11/96 (11%)

Query: 85  LPSSLGRLINLQTLCLDWCQLEDV----AAIGQLKKLEILSFRGSDIKQL----PLEIGQ 136
           L  +  +   +  L L    L       +++  L  L  L      I  L    P  I +
Sbjct: 42  LCDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYI--GGINNLVGPIPPAIAK 99

Query: 137 LTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           LT+L  L +++  ++    P+ +S+   L  L    
Sbjct: 100 LTQLHYLYITHT-NVSGAIPDFLSQIKTLVTLDFSY 134

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 47.1 bits (113), Expect = 1e-05
 Identities = 26/136 (19%), Positives = 43/136 (31%), Gaps = 23/136 (16%)

Query: 72  LKVLSLIGIHFS-SLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEIL------SF 122
           L  L       S +LP S+  L NL  +  D  ++      + G   KL           
Sbjct: 127 LVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRL 186

Query: 123 RGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD-SFSQWDKVE 181
            G     +P     L  L  +DLS    L   A  +       +++++   S +      
Sbjct: 187 TGK----IPPTFANLN-LAFVDLSRN-MLEGDASVLFGSDKNTQKIHLAKNSLA------ 234

Query: 182 GGSNASLAELKGLSKL 197
                 +   K L+ L
Sbjct: 235 -FDLGKVGLSKNLNGL 249

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 57.7 bits (140), Expect = 9e-09
 Identities = 26/117 (22%), Positives = 42/117 (35%), Gaps = 6/117 (5%)

Query: 61  ISDLFFEGTEELKVLSLIG--IHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKK 116
             D  F G   L  L + G     ++L +      NL  L L  CQLE +       L +
Sbjct: 439 DFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHR 498

Query: 117 LEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           L++L+   +++  L      QL  L  LD S    +      +      L    + +
Sbjct: 499 LQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFN-RIETSKGILQHFPKSLAFFNLTN 554

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 57.3 bits (139), Expect = 1e-08
 Identities = 24/105 (22%), Positives = 36/105 (34%), Gaps = 5/105 (4%)

Query: 72  LKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIK 128
            K + L       L   S      LQ L L  C++E +   A   L  L  L   G+ I+
Sbjct: 34  TKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQ 93

Query: 129 QLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
                    LT L+ L       L  +    I +   L++L +  
Sbjct: 94  SFSPGSFSGLTSLENLVAVET-KLASLESFPIGQLITLKKLNVAH 137

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 54.3 bits (131), Expect = 1e-07
 Identities = 27/111 (24%), Positives = 40/111 (36%), Gaps = 4/111 (3%)

Query: 64  LFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVA---AIGQLKKLEIL 120
               GT  L+ L L       + ++   L  LQ L      L+ V    A   L+KL  L
Sbjct: 370 YSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYL 429

Query: 121 SFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
               ++ K     I   LT L  L ++  S       NV +  + L  L +
Sbjct: 430 DISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDL 480

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 52.3 bits (126), Expect = 4e-07
 Identities = 22/120 (18%), Positives = 43/120 (35%), Gaps = 10/120 (8%)

Query: 60  QISDL----FFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV---AAI 111
            +  +     F   E+L  L +   +           L +L TL +     +D       
Sbjct: 410 TLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVF 469

Query: 112 GQLKKLEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
                L  L      ++Q+   +   L RLQLL++S+  +L+ +  +  ++   L  L  
Sbjct: 470 ANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHN-NLLFLDSSHYNQLYSLSTLDC 528

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 51.2 bits (123), Expect = 1e-06
 Identities = 35/200 (17%), Positives = 68/200 (34%), Gaps = 43/200 (21%)

Query: 32  IQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSL------IGIHFSSL 85
           I+ L +  +    Q   +I         Q+          LK L+L      I     +L
Sbjct: 297 IKYLEDVPKHFKWQSLSII-------RCQLKQFPTLDLPFLKSLTLTMNKGSISFKKVAL 349

Query: 86  PS-------------------SLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGS 125
           PS                   S     +L+ L L +     + A    L++L+ L F+ S
Sbjct: 350 PSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHS 409

Query: 126 DIKQLP--LEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGG 183
            +K++        L +L  LD+S   +  +    +    + L  L M  +       +  
Sbjct: 410 TLKRVTEFSAFLSLEKLLYLDISYT-NTKIDFDGIFLGLTSLNTLKMAGN-----SFKDN 463

Query: 184 SNASLAELKGLSKLTTLEIH 203
           + +++      + LT L++ 
Sbjct: 464 TLSNV--FANTTNLTFLDLS 481

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 50.8 bits (122), Expect = 1e-06
 Identities = 26/182 (14%), Positives = 55/182 (30%), Gaps = 23/182 (12%)

Query: 32  IQELPERL--QCPNLQLFLL----ITKGIAPVSMQISDLFFEGTEELKVLSLIG--IHFS 83
           IQ           +L+  +     +          +          LK L++    IH  
Sbjct: 92  IQSFSPGSFSGLTSLENLVAVETKLAS--------LESFPIGQLITLKKLNVAHNFIHSC 143

Query: 84  SLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKL----EILSFRGSDIKQLPLEIGQL 137
            LP+    L NL  + L +  ++ +    +  L++       L    + I  +  +  Q 
Sbjct: 144 KLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQG 203

Query: 138 TRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM-GDSFSQWDKVEGGSNASLAELKGLSK 196
            +L  L L    +   I    +   + L    +    F     +E    + +  L  ++ 
Sbjct: 204 IKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTI 263

Query: 197 LT 198
             
Sbjct: 264 DE 265

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 49.6 bits (119), Expect = 3e-06
 Identities = 30/116 (25%), Positives = 44/116 (37%), Gaps = 6/116 (5%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKK 116
            I D  + G   L  L L G    S  P S   L +L+ L     +L  +    IGQL  
Sbjct: 70  TIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLIT 129

Query: 117 LEILSFRGSDIKQLPL--EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
           L+ L+   + I    L      LT L  +DLS    +  I  N +       ++ +
Sbjct: 130 LKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYN-YIQTITVNDLQFLRENPQVNL 184

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 43.9 bits (104), Expect = 2e-04
 Identities = 23/115 (20%), Positives = 41/115 (35%), Gaps = 6/115 (5%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEI 119
               + F     +  +SL G+    L   + +    Q+L +  CQL+    +  L  L+ 
Sbjct: 275 SDDIVKFHCLANVSAMSLAGVSIKYLE-DVPKHFKWQSLSIIRCQLKQFPTLD-LPFLKS 332

Query: 120 LSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVIS--KFSRLEELYMGD 172
           L+   +    +  +   L  L  LDLS   +L        S    + L  L +  
Sbjct: 333 LTLTMNKGS-ISFKKVALPSLSYLDLSRN-ALSFSGCCSYSDLGTNSLRHLDLSF 385

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 57.4 bits (138), Expect = 1e-08
 Identities = 24/117 (20%), Positives = 43/117 (36%), Gaps = 14/117 (11%)

Query: 87  SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLS 146
                        L    + D     +L  ++ +    SDIK +   I  L  +  L L+
Sbjct: 15  FPDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLN 73

Query: 147 NCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
               L  I P  ++    L  L++ ++     K++      L+ LK L KL +L + 
Sbjct: 74  GN-KLTDIKP--LTNLKNLGWLFLDEN-----KIK-----DLSSLKDLKKLKSLSLE 117

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 57.4 bits (138), Expect = 1e-08
 Identities = 30/112 (26%), Positives = 54/112 (48%), Gaps = 6/112 (5%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           +I DL   +  ++LK LSL     S + + L  L  L++L L   ++ D+  + +L KL+
Sbjct: 98  KIKDLSSLKDLKKLKSLSLEHNGISDI-NGLVHLPQLESLYLGNNKITDITVLSRLTKLD 156

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
            LS   + I  +   +  LT+LQ L LS    +  +    ++    L+ L +
Sbjct: 157 TLSLEDNQISDIV-PLAGLTKLQNLYLSKN-HISDLRA--LAGLKNLDVLEL 204

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 55.9 bits (135), Expect = 1e-08
 Identities = 32/140 (22%), Positives = 53/140 (37%), Gaps = 8/140 (5%)

Query: 72  LKVLSLIGIHFSSLPSS-LGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQL 130
             +L L      +   + L     L  L LD  +L  +   G L  L  L    + ++ L
Sbjct: 33  TTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSL 92

Query: 131 PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAE 190
           PL    L  L +LD+S    L  +    +     L+ELY+    ++   +  G      +
Sbjct: 93  PLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLKG--NELKTLPPGLLTPTPK 149

Query: 191 LKGLS----KLTTLEIHVWD 206
           L+ LS     LT L   + +
Sbjct: 150 LEKLSLANNNLTELPAGLLN 169

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 54.7 bits (132), Expect = 4e-08
 Identities = 26/115 (22%), Positives = 52/115 (45%), Gaps = 5/115 (4%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVA--AIGQLKK 116
           +++ L        L  L L      SLP     L  L  L + + +L  +   A+  L +
Sbjct: 66  ELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGE 125

Query: 117 LEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
           L+ L  +G+++K LP  +     +L+ L L+N ++L  +   +++    L+ L +
Sbjct: 126 LQELYLKGNELKTLPPGLLTPTPKLEKLSLAN-NNLTELPAGLLNGLENLDTLLL 179

>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 = 56.3 bits (136), Expect = 2e-08
 Identities = 31/148 (20%), Positives = 58/148 (39%), Gaps = 13/148 (8%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKK 116
            + D  F+    LK L +       +   +   L +L+ L L+ C L  +   A+  L  
Sbjct: 118 ILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHG 177

Query: 117 LEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS 175
           L +L  R  +I  +      +L RL++L++S+   L  + PN +   + L  L +     
Sbjct: 178 LIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLN-LTSLSITH--C 234

Query: 176 QWDKVEGGSNASLAELKGLSKLTTLEIH 203
               V   +      ++ L  L  L + 
Sbjct: 235 NLTAVPYLA------VRHLVYLRFLNLS 256

>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 = 53.2 bits (128), Expect = 2e-07
 Identities = 31/150 (20%), Positives = 49/150 (32%), Gaps = 13/150 (8%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKK 116
            +    F     L+ L L       +P      L NL  L +   ++  +       L  
Sbjct: 70  AVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYN 129

Query: 117 LEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS 175
           L+ L    +D+  +       L  L+ L L  C +L  I    +S    L  L +     
Sbjct: 130 LKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKC-NLTSIPTEALSHLHGLIVLRL--RHL 186

Query: 176 QWDKVEGGSNASLAELKGLSKLTTLEIHVW 205
             + +   S       K L +L  LEI  W
Sbjct: 187 NINAIRDYS------FKRLYRLKVLEISHW 210

>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 = 50.5 bits (121), Expect = 2e-06
 Identities = 24/147 (16%), Positives = 58/147 (39%), Gaps = 11/147 (7%)

Query: 32  IQELPERL--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS-S 88
           I  + +    +   L++  +      P    ++     G   L  LS+   + +++P  +
Sbjct: 188 INAIRDYSFKRLYRLKVLEI---SHWPYLDTMTPNCLYGLN-LTSLSITHCNLTAVPYLA 243

Query: 89  LGRLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSDIKQLPLEI-GQLTRLQLLDL 145
           +  L+ L+ L L +  +  +    + +L +L+ +   G  +  +       L  L++L++
Sbjct: 244 VRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNV 303

Query: 146 SNCSSLVVIAPNVISKFSRLEELYMGD 172
           S    L  +  +V      LE L +  
Sbjct: 304 SGN-QLTTLEESVFHSVGNLETLILDS 329

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 56.3 bits (135), Expect = 3e-08
 Identities = 21/101 (20%), Positives = 37/101 (36%), Gaps = 4/101 (3%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLP 131
           +  L L      +LP +L  L  L+ L      LE+V  +  L +L+ L    + ++Q  
Sbjct: 465 VTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNRLQQSA 524

Query: 132 --LEIGQLTRLQLLDLSN--CSSLVVIAPNVISKFSRLEEL 168
               +    RL LL+L          I   +      +  +
Sbjct: 525 AIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI 565

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 53.2 bits (127), Expect = 2e-07
 Identities = 21/124 (16%), Positives = 45/124 (36%), Gaps = 12/124 (9%)

Query: 81  HFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRL 140
                        +++ L L    L  +  + QL  +  L    + ++ LP  +  L  L
Sbjct: 429 FLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCL 488

Query: 141 QLLDLSNCSSLVVIAPNVISKFSRLEELYMGD-SFSQWDKVEGGSNASLAELKGLSKLTT 199
           ++L  S+  +L  +    ++   RL+EL + +    Q   ++         L    +L  
Sbjct: 489 EVLQASDN-ALENVDG--VANLPRLQELLLCNNRLQQSAAIQ--------PLVSCPRLVL 537

Query: 200 LEIH 203
           L + 
Sbjct: 538 LNLQ 541

>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 = 55.0 bits (133), Expect = 4e-08
 Identities = 25/149 (16%), Positives = 58/149 (38%), Gaps = 9/149 (6%)

Query: 58  SMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLK 115
           S  I +  F+G ++L  + +   + +++P  L    +L  L LD  ++  V  A++  L 
Sbjct: 159 SSGIENGAFQGMKKLSYIRIADTNITTIPQGL--PPSLTELHLDGNKITKVDAASLKGLN 216

Query: 116 KLEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF 174
            L  L    + I  +          L+ L L+N   LV + P  ++    ++ +Y+ +  
Sbjct: 217 NLAKLGLSFNSISAVDNGSLANTPHLRELHLNNN-KLVKV-PGGLADHKYIQVVYLHN-- 272

Query: 175 SQWDKVEGGSNASLAELKGLSKLTTLEIH 203
           +    +              +  + + + 
Sbjct: 273 NNISAIGSNDFCPPGYNTKKASYSGVSLF 301

>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 = 50.8 bits (122), Expect = 1e-06
 Identities = 22/137 (16%), Positives = 50/137 (36%), Gaps = 14/137 (10%)

Query: 72  LKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSDIK 128
           L  L L G   + + + SL  L NL  L L +  +  V   ++     L  L    + + 
Sbjct: 194 LTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV 253

Query: 129 QLPLEIGQLTRLQLLDLSN-----CSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGG 183
           ++P  +     +Q++ L N       S     P   +K +    + +  +  Q+ +++  
Sbjct: 254 KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPS 313

Query: 184 SNASLAELKGLSKLTTL 200
           +       + +     +
Sbjct: 314 T------FRCVYVRAAV 324

>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 = 47.7 bits (114), Expect = 9e-06
 Identities = 30/148 (20%), Positives = 60/148 (40%), Gaps = 19/148 (12%)

Query: 61  ISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLE 118
           IS   F    +L+ L L       LP  +     LQ L +   ++  V  +    L ++ 
Sbjct: 91  ISPGAFAPLVKLERLYLSKNQLKELPEKM--PKTLQELRVHENEITKVRKSVFNGLNQMI 148

Query: 119 ILSFRGSDIKQLPLEIG---QLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS 175
           ++    + +K   +E G    + +L  + +++  ++  I   +      L EL++    +
Sbjct: 149 VVELGTNPLKSSGIENGAFQGMKKLSYIRIADT-NITTIPQGL---PPSLTELHLDG--N 202

Query: 176 QWDKVEGGSNASLAELKGLSKLTTLEIH 203
           +  KV+  S      LKGL+ L  L + 
Sbjct: 203 KITKVDAAS------LKGLNNLAKLGLS 224

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 55.1 bits (133), Expect = 4e-08
 Identities = 22/157 (14%), Positives = 53/157 (33%), Gaps = 15/157 (9%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKK 116
           ++     +   ++++L+L  +    + + +      +Q L + +  +  +       +  
Sbjct: 59  KLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPL 118

Query: 117 LEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD--- 172
           L +L    +D+  LP  I     +L  L +SN  +L  I  +     + L+ L +     
Sbjct: 119 LTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSLQNLQLSSNRL 177

Query: 173 ------SFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
                             N  L+ L     +  L+  
Sbjct: 178 THVDLSLIPSLFHANVSYN-LLSTLAIPIAVEELDAS 213

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 55.1 bits (133), Expect = 5e-08
 Identities = 17/116 (14%), Positives = 41/116 (35%), Gaps = 7/116 (6%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV-AAIGQLKK 116
            ++D  +      L  + L       +      ++  L+ L +   +L  +      +  
Sbjct: 237 NLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPT 296

Query: 117 LEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           L++L    + +  +     Q  RL+ L L +  S+V +  +       L+ L +  
Sbjct: 297 LKVLDLSHNHLLHVERNQPQFDRLENLYLDHN-SIVTLKLST---HHTLKNLTLSH 348

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 49.3 bits (118), Expect = 3e-06
 Identities = 33/164 (20%), Positives = 56/164 (34%), Gaps = 34/164 (20%)

Query: 32  IQELPERL--QCPNLQLFLL----ITKGIAPVSMQISDLFFEGTEELKVLSL-----IGI 80
           +  LP  +    P L    +    + +        I D  F+ T  L+ L L       +
Sbjct: 129 LSSLPRGIFHNTPKLTTLSMSNNNLER--------IEDDTFQATTSLQNLQLSSNRLTHV 180

Query: 81  HFSSLPS------------SLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIK 128
             S +PS            +L   I ++ L      +  V       +L IL  + +++ 
Sbjct: 181 DLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRG-PVNVELTILKLQHNNLT 239

Query: 129 QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
                +     L  +DLS    L  I  +   K  RLE LY+ +
Sbjct: 240 DTA-WLLNYPGLVEVDLSYN-ELEKIMYHPFVKMQRLERLYISN 281

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 46.2 bits (110), Expect = 3e-05
 Identities = 17/108 (15%), Positives = 39/108 (36%), Gaps = 5/108 (4%)

Query: 66  FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGS 125
                 ++ L       + +   +   + L  L L    L D A +     L  +    +
Sbjct: 201 LAIPIAVEELDASHNSINVVRGPV--NVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYN 258

Query: 126 DIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           +++++      ++ RL+ L +SN + LV +          L+ L +  
Sbjct: 259 ELEKIMYHPFVKMQRLERLYISN-NRLVAL-NLYGQPIPTLKVLDLSH 304

>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 = 54.7 bits (132), Expect = 8e-08
 Identities = 29/173 (16%), Positives = 62/173 (35%), Gaps = 20/173 (11%)

Query: 32  IQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGR 91
           I ++    +   L   +         S  I+ L       L  L+      ++L   +  
Sbjct: 54  ITDMTGIEKLTGLTKLIC-------TSNNITTLDLSQNTNLTYLACDSNKLTNLD--VTP 104

Query: 92  LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSL 151
           L  L  L  D  +L  +  + Q   L  L+   + + ++   +   T+L  LD      +
Sbjct: 105 LTKLTYLNCDTNKLTKL-DVSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKI 161

Query: 152 VVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLS--KLTTLEI 202
             +    ++  ++L  L    SF++  +++   N  L  L       +T L++
Sbjct: 162 TKLD---VTPQTQLTTLDC--SFNKITELDVSQNKLLNRLN-CDTNNITKLDL 208

>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 = 48.5 bits (116), Expect = 5e-06
 Identities = 26/145 (17%), Positives = 51/145 (35%), Gaps = 13/145 (8%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEI 119
           ++++L      +L  L+      + L   + +   L  L      L ++  +    +L  
Sbjct: 96  KLTNLDVTPLTKLTYLNCDTNKLTKLD--VSQNPLLTYLNCARNTLTEI-DVSHNTQLTE 152

Query: 120 LSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDK 179
           L    +       ++   T+L  LD S       I    +S+   L  L      +   K
Sbjct: 153 LDCHLNKKITKL-DVTPQTQLTTLDCSFNK----ITELDVSQNKLLNRLNCDT--NNITK 205

Query: 180 VEGGSNASLAELKGLS--KLTTLEI 202
           ++   N  L  L   S  KLT +++
Sbjct: 206 LDLNQNIQLTFL-DCSSNKLTEIDV 229

>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 = 48.1 bits (115), Expect = 9e-06
 Identities = 24/158 (15%), Positives = 48/158 (30%), Gaps = 26/158 (16%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEI 119
           +++ L       L  L+      + +   +     L  L     +      +    +L  
Sbjct: 117 KLTKLDVSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLDVTPQTQLTT 174

Query: 120 LSFRGSDIKQLPLEIGQLTRLQLLDLSNC--SSLVVIAPNVISKFSRLEELYMGDSFSQW 177
           L    + I +L   + Q   L  L+      + L       +++  +L  L    S ++ 
Sbjct: 175 LDCSFNKITELD--VSQNKLLNRLNCDTNNITKL------DLNQNIQLTFLDC--SSNKL 224

Query: 178 DKVEGGSNASLAEL------------KGLSKLTTLEIH 203
            +++      L                 LSKLTTL   
Sbjct: 225 TEIDVTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHCI 262

>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 = 46.2 bits (110), Expect = 4e-05
 Identities = 25/118 (21%), Positives = 46/118 (38%), Gaps = 9/118 (7%)

Query: 86  PSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDL 145
             S  +L  L +L      + D+  I +L  L  L    ++I  L L   Q T L  L  
Sbjct: 35  TISEEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLDL--SQNTNLTYLAC 92

Query: 146 SNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELK-GLSKLTTLEI 202
            +   L  +    ++  ++L  L      ++  K++   N  L  L    + LT +++
Sbjct: 93  DSN-KLTNLD---VTPLTKLTYLNC--DTNKLTKLDVSQNPLLTYLNCARNTLTEIDV 144

>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 = 44.3 bits (105), Expect = 1e-04
 Identities = 14/88 (15%), Positives = 31/88 (35%), Gaps = 2/88 (2%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEI 119
            I++L      +L  L L     + L   +     L++L      ++D +++G++  L  
Sbjct: 308 GITELDLSQNPKLVYLYLNNTELTELD--VSHNTKLKSLSCVNAHIQDFSSVGKIPALNN 365

Query: 120 LSFRGSDIKQLPLEIGQLTRLQLLDLSN 147
                     +P E      L +    +
Sbjct: 366 NFEAEGQTITMPKETLTNNSLTIAVSPD 393

>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 = 42.8 bits (101), Expect = 3e-04
 Identities = 24/144 (16%), Positives = 49/144 (34%), Gaps = 25/144 (17%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEI 119
            +++L      +L  L  I      +   L     L     + C+      +    +L +
Sbjct: 244 PLTELDVSTLSKLTTLHCIQTDLLEID--LTHNTQLIYFQAEGCRKIKELDVTHNTQLYL 301

Query: 120 LSFRGSDIKQLPLEIGQLTRLQLLDLSNC--SSLVVIAPNVISKFSRLEELYMGDSFSQW 177
           L  + + I +L   + Q  +L  L L+N   + L       +S  ++L+ L         
Sbjct: 302 LDCQAAGITELD--LSQNPKLVYLYLNNTELTEL------DVSHNTKLKSLSC------- 346

Query: 178 DKVEGGSNASLAELKGLSKLTTLE 201
                  NA + +   + K+  L 
Sbjct: 347 ------VNAHIQDFSSVGKIPALN 364

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 54.5 bits (131), Expect = 1e-07
 Identities = 17/116 (14%), Positives = 41/116 (35%), Gaps = 7/116 (6%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV-AAIGQLKK 116
            ++D  +      L  + L       +      ++  L+ L +   +L  +      +  
Sbjct: 243 NLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPT 302

Query: 117 LEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           L++L    + +  +     Q  RL+ L L +  S+V +  +       L+ L +  
Sbjct: 303 LKVLDLSHNHLLHVERNQPQFDRLENLYLDHN-SIVTLKLST---HHTLKNLTLSH 354

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 51.5 bits (123), Expect = 9e-07
 Identities = 27/143 (18%), Positives = 55/143 (38%), Gaps = 9/143 (6%)

Query: 38  RLQCPNLQLFLLITKGIAPVSMQISDLFFEGTE----ELKVLSLIGIHFSSLPSS-LGRL 92
             +C +  L          + MQ  D++F   +      K+++        LP++ L   
Sbjct: 15  EYKCIDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSF 74

Query: 93  INLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSDIKQLPLEIGQ-LTRLQLLDLSNCS 149
             ++ L L+  Q+E++   A      ++ L    + I+ LP  + Q +  L +L L    
Sbjct: 75  RQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN- 133

Query: 150 SLVVIAPNVISKFSRLEELYMGD 172
            L  +   +     +L  L M +
Sbjct: 134 DLSSLPRGIFHNTPKLTTLSMSN 156

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 44.9 bits (106), Expect = 1e-04
 Identities = 32/160 (20%), Positives = 51/160 (31%), Gaps = 32/160 (20%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSL-GRLINLQTLCLDWCQLEDV--AAIGQLKK 116
            +    F+    L VL L     SSLP  +      L TL +    LE +          
Sbjct: 113 YLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTS 172

Query: 117 LEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFS---RLEELYMGDS 173
           L+ L    + +  + L    +  L   ++S          N++S  +    +EEL    S
Sbjct: 173 LQNLQLSSNRLTHVDL--SLIPSLFHANVSY---------NLLSTLAIPIAVEELDA--S 219

Query: 174 FSQWDKVEGGSNASLAELK-------------GLSKLTTL 200
            +  + V G  N  L  LK                 L  +
Sbjct: 220 HNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEV 259

>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 = 53.6 bits (129), Expect = 1e-07
 Identities = 34/152 (22%), Positives = 61/152 (40%), Gaps = 16/152 (10%)

Query: 60  QISDL---FFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQ 113
           +I+ +     +    L+ L L     +++   S   L +L+ L L +  L ++  +    
Sbjct: 63  RITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKP 122

Query: 114 LKKLEILSFRGSDIKQLPLEI--GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG 171
           L  L  L+  G+  K L        LT+LQ+L + N  +   I     +  + LEEL + 
Sbjct: 123 LSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEID 182

Query: 172 DSFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
              S     E  S      LK +  ++ L +H
Sbjct: 183 A--SDLQSYEPKS------LKSIQNVSHLILH 206

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

 Score = 45.1 bits (107), Expect = 6e-05
 Identities = 13/123 (10%), Positives = 40/123 (32%), Gaps = 12/123 (9%)

Query: 61  ISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCL-----DWCQLEDVAAI--- 111
                 +  + +  L L       L    +    +++ L L     D     +++     
Sbjct: 189 YEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETN 248

Query: 112 --GQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELY 169
              +      +      + Q+   + Q++ L  L+ S    L  +   +  + + L++++
Sbjct: 249 SLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRN-QLKSVPDGIFDRLTSLQKIW 307

Query: 170 MGD 172
           +  
Sbjct: 308 LHT 310

>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 = 53.7 bits (128), Expect = 2e-07
 Identities = 117/689 (16%), Positives = 216/689 (31%), Gaps = 212/689 (30%)

Query: 6   NVADVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLF 65
           +  DV+   +  + K+ I        I    + +       + L++K       ++   F
Sbjct: 34  DCKDVQDMPKSILSKEEI------DHIIMSKDAVSGTLRLFWTLLSKQ-----EEMVQKF 82

Query: 66  FEGT-------------EELKVLSLIGIHFSSLPSSLGRLINLQTLCLDW--CQLEDVAA 110
            E                E +  S++   +        RL N   +   +   +L+    
Sbjct: 83  VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE---QRDRLYNDNQVFAKYNVSRLQPYLK 139

Query: 111 IGQ-LKKLEILSFRGSDI---------KQ-LPLEIGQLTRLQL--------LDLSNCSSL 151
           + Q L +L        ++         K  + L++    ++Q         L+L NC+S 
Sbjct: 140 LRQALLELR----PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNS- 194

Query: 152 VVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASL------AELKGLSKL----TTLE 201
               P  +     L++L      +   + +  SN  L      AEL+ L K       L 
Sbjct: 195 ----PETV--LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248

Query: 202 I--HVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLV----WLHGLENVSTLL 255
           +  +V +A+     W +  L     C     +I  +   T+R      +L         L
Sbjct: 249 VLLNVQNAKA----WNAFNLS----C-----KIL-L---TTRFKQVTDFLSAATTTHISL 291

Query: 256 ENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRV 315
           +++ M +   E + + L+K    +    +L      PR          E+          
Sbjct: 292 DHHSMTLTPDEVKSL-LLKYLDCR--PQDL------PR----------EV---------- 322

Query: 316 RCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLL 375
             T  P   S+ +      E+I D   T D    N + +    CDKL  +   S+     
Sbjct: 323 -LTTNPRRLSI-IA-----ESIRDGLATWD----NWKHVN---CDKLTTIIESSL----- 363

Query: 376 RLQKVEVFFCDDLEMMVGPDREKPT-TSLG-FNEITADDDAAPKVGIPGILVNLNVSRCD 433
                     + LE    P   +     L  F              IP IL  L++   D
Sbjct: 364 ----------NVLE----PAEYRKMFDRLSVFPP---S------AHIPTIL--LSLIWFD 398

Query: 434 KIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNM 493
            I+  +  V  ++ +  +   + K                  T+  PS+         N 
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPK----------------ESTISIPSIYLELKVKLENE 442

Query: 494 KTFSHRIL----SIPK--PCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHL 547
               HR +    +IPK       +    +   +   G++L +      E M  FR +  L
Sbjct: 443 YAL-HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEH--PERMTLFRMV-FL 498

Query: 548 QLSHF--PRLREIWHGQALPVSFFNNLSDL------VVDDC---TNMSSAIPANLLRCFN 596
               F   ++R          S  N L  L      + D+      + +AI   L +   
Sbjct: 499 DF-RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEE 557

Query: 597 NLVLLEVRNCDSLEEVLHLEELNADKEHI 625
           NL+  +  +      +L +  L A+ E I
Sbjct: 558 NLICSKYTD------LLRI-ALMAEDEAI 579

>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 = 49.1 bits (116), Expect = 5e-06
 Identities = 96/635 (15%), Positives = 179/635 (28%), Gaps = 186/635 (29%)

Query: 278 VQNVVHELD--DGEGFPRLKHLWVERCSEILHIVGSVGRVRCT--IFPLL---------- 323
               V   D  D +  P+     +    EI HI+ S   V  T  +F  L          
Sbjct: 26  EDAFVDNFDCKDVQDMPKS----ILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81

Query: 324 ---ESLSL---WFLSNLETIC--------------DSQLTEDQSFSNLRIIEVKSCDKLK 363
              E L +   + +S ++T                D    ++Q F+   +  ++   KL+
Sbjct: 82  FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR 141

Query: 364 HLFSFSMAKNLLRLQKVE-VFFCDDLEMMVGPDREKPTTSLGFNEITAD--DDAAPKVGI 420
                   + LL L+  + V     ++ ++G    K  T +       D       +  +
Sbjct: 142 --------QALLELRPAKNVL----IDGVLGSG--K--TWV-----ALDVCLSYKVQCKM 180

Query: 421 PGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFC--LENYTLE 478
              +  LN+  C+  E ++                L+ L+    P  TS      N  L 
Sbjct: 181 DFKIFWLNLKNCNSPETVLEM--------------LQKLLYQIDPNWTSRSDHSSNIKLR 226

Query: 479 FPSLERV--------SLTHC---------PN-MKTFSHRILSIPKPCKVQVTEKEEGELH 520
             S++             +C               F+         CK+ +T + +    
Sbjct: 227 IHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS-------CKILLTTRFKQVT- 278

Query: 521 HWEGNNLNSTIQKCY---EEMIGFRDIEHLQL-SHFPRLREIWHGQALPVSFFNNLSDLV 576
               + L++            +     E   L   +   R     Q LP       +   
Sbjct: 279 ----DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP----QDLPRE-VLTTNPRR 329

Query: 577 VDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLH--LEELNADKEHIGPLFLELSL 634
           +       S I  ++          +  NCD L  ++   L  L   +     +F  LS+
Sbjct: 330 L-------SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYR--KMFDRLSV 380

Query: 635 LGLIDLPKLKRFCNFTGNI-IEMPVLCSL---AIENCTD--METFISNSVVHATTDNKEP 688
                 P          +  I   +L  +    I++     +      S+V      K+P
Sbjct: 381 -----FPP---------SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV-----EKQP 421

Query: 689 QKLTSEENFLLVHQVQPLFNEKVGEEAKDCIVFREL--EYLTLDCLPS--LTSFSLGNYA 744
           ++ T       +  +      K+  E     + R +   Y       S  L    L  Y 
Sbjct: 422 KESTIS-----IPSIYLELKVKLENEYA---LHRSIVDHYNIPKTFDSDDLIPPYLDQYF 473

Query: 745 LEFPSLEH--VVVRQCPTMKIFSQGGVD----APKLNKVKPTEEEDGDEVDDDDD----- 793
                + H    +     M +F    +D      K+          G  ++         
Sbjct: 474 YSH--IGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYK 531

Query: 794 ----DEEGCWEGNLNDTIKKLFNEMVSINEVLALS 824
               D +  +E  +N  +  L      I E L  S
Sbjct: 532 PYICDNDPKYERLVNAILDFLPK----IEENLICS 562

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 53.4 bits (128), Expect = 2e-07
 Identities = 17/77 (22%), Positives = 30/77 (38%), Gaps = 7/77 (9%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQL 130
           LK L + G   +SLP        L+ L +   +L  +      L  L   S   + + +L
Sbjct: 223 LKELIVSGNRLTSLPVLPS---ELKELMVSGNRLTSLPMLPSGLLSL---SVYRNQLTRL 276

Query: 131 PLEIGQLTRLQLLDLSN 147
           P  +  L+    ++L  
Sbjct: 277 PESLIHLSSETTVNLEG 293

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 51.8 bits (124), Expect = 6e-07
 Identities = 17/77 (22%), Positives = 32/77 (41%), Gaps = 6/77 (7%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQL 130
             VL++     ++LP  L    ++ TL +    L  + A   +L+ LE+    G+ +  L
Sbjct: 42  NAVLNVGESGLTTLPDCLPA--HITTLVIPDNNLTSLPALPPELRTLEV---SGNQLTSL 96

Query: 131 PLEIGQLTRLQLLDLSN 147
           P+    L  L +     
Sbjct: 97  PVLPPGLLELSIFSNPL 113

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 47.6 bits (113), Expect = 2e-05
 Identities = 23/102 (22%), Positives = 40/102 (39%), Gaps = 15/102 (14%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQL 130
           L+ LS+     +SLP+       L  L     QL  +      L++L +     + +  L
Sbjct: 143 LQELSVSDNQLASLPALPS---ELCKLWAYNNQLTSLPMLPSGLQELSV---SDNQLASL 196

Query: 131 PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           P    +L +L   +    +SL    P + S    L+EL +  
Sbjct: 197 PTLPSELYKLWAYNN-RLTSL----PALPSG---LKELIVSG 230

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 51.9 bits (125), Expect = 2e-07
 Identities = 32/144 (22%), Positives = 53/144 (36%), Gaps = 20/144 (13%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
            ++DL   +    ++  +    +  SL + +    NL+ L L   Q+ D++ +  L KLE
Sbjct: 30  SVTDLVSQKELSGVQNFNGDNSNIQSL-AGMQFFTNLKELHLSHNQISDLSPLKDLTKLE 88

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD 178
            LS   + +K   L       L  L L N   L       +     LE L +        
Sbjct: 89  ELSVNRNRLKN--LNGIPSACLSRLFLDNN-ELRDTDS--LIHLKNLEILSI-------- 135

Query: 179 KVEGGSNASLAELKGLSKLTTLEI 202
                 N  L  +  L  L+ LE+
Sbjct: 136 -----RNNKLKSIVMLGFLSKLEV 154

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 51.2 bits (123), Expect = 5e-07
 Identities = 27/126 (21%), Positives = 52/126 (41%), Gaps = 16/126 (12%)

Query: 87  SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLS 146
                L N     L    + D+ +  +L  ++  +   S+I+ L   +   T L+ L LS
Sbjct: 13  FPDPGLANAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSNIQSLA-GMQFFTNLKELHLS 71

Query: 147 NCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAEL----------KGLSK 196
           +   +  ++P  +   ++LEEL +  + ++   + G  +A L+ L            L  
Sbjct: 72  HN-QISDLSP--LKDLTKLEELSV--NRNRLKNLNGIPSACLSRLFLDNNELRDTDSLIH 126

Query: 197 LTTLEI 202
           L  LEI
Sbjct: 127 LKNLEI 132

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 48.1 bits (115), Expect = 4e-06
 Identities = 21/102 (20%), Positives = 41/102 (40%), Gaps = 4/102 (3%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
           ++ D       + L++LS+      S+   LG L  L+ L L   ++ +   + +LKK+ 
Sbjct: 117 ELRDTDSLIHLKNLEILSIRNNKLKSI-VMLGFLSKLEVLDLHGNEITNTGGLTRLKKVN 175

Query: 119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVIS 160
            +   G      P++      L + +         I+P  IS
Sbjct: 176 WIDLTGQKCVNEPVKY--QPELYITNTVKDPDGRWISPYYIS 215

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 52.7 bits (127), Expect = 3e-07
 Identities = 17/98 (17%), Positives = 33/98 (33%), Gaps = 8/98 (8%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLP 131
           L  +         LP       +L+++      LE++  +  L  L  +    + +K LP
Sbjct: 197 LTAIYADNNSLKKLPDLPL---SLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLP 253

Query: 132 LEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELY 169
                L  L + D    + L    P +    + L+   
Sbjct: 254 DLPPSLEALNVRDNYL-TDL----PELPQSLTFLDVSE 286

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 52.3 bits (126), Expect = 4e-07
 Identities = 31/166 (18%), Positives = 49/166 (29%), Gaps = 45/166 (27%)

Query: 71  ELKVLSLIGIHFSSLPSSLGRLI-----------------NLQTLCLDWCQLEDVAAIGQ 113
            L+ L       + LP     L                   L+ L +   QLE +  +  
Sbjct: 92  HLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQN 151

Query: 114 LKKLEILSFRGSDIKQLPLEIGQLTRLQLLD--------LSNCSSLVVIA------PNVI 159
              L+I+    + +K+LP     L  +   +        L N   L  I         + 
Sbjct: 152 SSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLP 211

Query: 160 SKFSRLEELYMGDSFSQWDKVEGGSN--ASLAELKGLSKLTTLEIH 203
                LE +  G+            N    L EL+ L  LTT+   
Sbjct: 212 DLPLSLESIVAGN------------NILEELPELQNLPFLTTIYAD 245

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 49.2 bits (118), Expect = 4e-06
 Identities = 35/199 (17%), Positives = 61/199 (30%), Gaps = 48/199 (24%)

Query: 31  DIQELPERL-QCPNLQLFLLITKGIAP---------VSMQISDLFFEGTEELKVLSLIGI 80
           ++ E+P       +   +                    M +S L      +   L L  +
Sbjct: 22  NLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNL 81

Query: 81  HFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPL------- 132
             SSLP       +L++L      L ++      LK L + +     +  LP        
Sbjct: 82  GLSSLPELPP---HLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGV 138

Query: 133 ---------EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGG 183
                    E+   + L+++D+ N  SL  + P++      LE +               
Sbjct: 139 SNNQLEKLPELQNSSFLKIIDVDNN-SLKKL-PDLPPS---LEFIAA------------- 180

Query: 184 SNASLAELKGLSKLTTLEI 202
            N  L EL  L  L  L  
Sbjct: 181 GNNQLEELPELQNLPFLTA 199

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 46.5 bits (111), Expect = 2e-05
 Identities = 25/118 (21%), Positives = 38/118 (32%), Gaps = 11/118 (9%)

Query: 32  IQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGR 91
           ++ELPE    P L                +  L       L+ +         LP  L  
Sbjct: 185 LEELPELQNLPFLTAIYADNN-------SLKKLPDLPLS-LESIVAGNNILEELPE-LQN 235

Query: 92  LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCS 149
           L  L T+  D   L+ +        LE L+ R + +  LP     LT L + +     
Sbjct: 236 LPFLTTIYADNNLLKTLPD--LPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSG 291

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 41.9 bits (99), Expect = 6e-04
 Identities = 14/75 (18%), Positives = 28/75 (37%), Gaps = 5/75 (6%)

Query: 70  EELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQ 129
             L  L+       SL        +L+ L +   +L ++ A     +LE L    + + +
Sbjct: 297 PNLYYLNASSNEIRSLCDLPP---SLEELNVSNNKLIELPA--LPPRLERLIASFNHLAE 351

Query: 130 LPLEIGQLTRLQLLD 144
           +P     L +L +  
Sbjct: 352 VPELPQNLKQLHVEY 366

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 51.5 bits (124), Expect = 3e-07
 Identities = 38/140 (27%), Positives = 62/140 (44%), Gaps = 7/140 (5%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSL-GRLINLQTLCLDWCQLEDVAA--IGQLKK 116
            +    F    +L++L L      +LP+ +   L NL+TL +   +L+ +      QL  
Sbjct: 51  SLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVN 110

Query: 117 LEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS 175
           L  L    + +K LP  +   LT+L  L L     L  +   V  K + L+EL + +  +
Sbjct: 111 LAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYN-ELQSLPKGVFDKLTSLKELRLYN--N 167

Query: 176 QWDKVEGGSNASLAELKGLS 195
           Q  +V  G+   L ELK L 
Sbjct: 168 QLKRVPEGAFDKLTELKTLK 187

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 51.8 bits (124), Expect = 4e-07
 Identities = 23/111 (20%), Positives = 42/111 (37%), Gaps = 5/111 (4%)

Query: 62  SDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLE 118
           ++        L  L L   H + + S +   + NL+ L L    L  +       L+ LE
Sbjct: 56  AEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALE 115

Query: 119 ILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEEL 168
           +L    + I  +       + +LQ L LS    +      +I   ++L +L
Sbjct: 116 VLLLYNNHIVVVDRNAFEDMAQLQKLYLSQN-QISRFPVELIKDGNKLPKL 165

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 42.1 bits (99), Expect = 5e-04
 Identities = 28/117 (23%), Positives = 46/117 (39%), Gaps = 8/117 (6%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKK 116
            IS   F     L+ L L   H  +L       L  L+ L L    +  V   A   + +
Sbjct: 78  FISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQ 137

Query: 117 LEILSFRGSDIKQLPLEI----GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELY 169
           L+ L    + I + P+E+     +L +L LLDLS+ + L  +    + K     +  
Sbjct: 138 LQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSS-NKLKKLPLTDLQKLPAWVKNG 193

>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 = 52.3 bits (125), Expect = 5e-07
 Identities = 56/392 (14%), Positives = 111/392 (28%), Gaps = 73/392 (18%)

Query: 41  CPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCL 100
             +L++        A +S +  +        L  + +       L        NL+  C 
Sbjct: 191 NTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCG 250

Query: 101 DWCQLED-----VAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIA 155
                +         +   +KL  L        ++P+      +++ LDL          
Sbjct: 251 GSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDH 310

Query: 156 PNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAEL-KGLSKLTTLEIHVWDAQILPQDW 214
             +I K   LE L   +            +  L  L +   +L  L I     +   +D 
Sbjct: 311 CTLIQKCPNLEVLETRNVI---------GDRGLEVLAQYCKQLKRLRIERGADEQGMEDE 361

Query: 215 V-------------------SVELQRYKI------CIGEARRIWPVNSETSRLVWLHGLE 249
                                + +    I       IG   +    N    RLV L   E
Sbjct: 362 EGLVSQRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLK----NLCDFRLVLLDREE 417

Query: 250 NVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDD------GEGFPRLKHLWVERCS 303
            ++ L  + G++ LL   +++        Q     L D      G+  P ++ + +    
Sbjct: 418 RITDLPLDNGVRSLLIGCKKLRRFAFYLRQG---GLTDLGLSYIGQYSPNVRWMLLGYVG 474

Query: 304 EILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTED------QSFSNLRIIEVK 357
           E    +    R  C   P L+ L +              +E           +LR + V+
Sbjct: 475 ESDEGLMEFSR-GC---PNLQKLEM---------RGCCFSERAIAAAVTKLPSLRYLWVQ 521

Query: 358 SCD-KLKHLFSFSMAKNLLRLQKVEVFFCDDL 388
                +       MA+    ++ +      ++
Sbjct: 522 GYRASMTGQDLMQMARPYWNIELIPSRRVPEV 553

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 51.1 bits (122), Expect = 1e-06
 Identities = 18/81 (22%), Positives = 30/81 (37%), Gaps = 8/81 (9%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLE----ILSFRGSD 126
           L+VLS+     + LP       +L+ L +    LE + A   +    E        R + 
Sbjct: 162 LEVLSVRNNQLTFLPELPE---SLEALDVSTNLLESLPAVPVRNHHSEETEIFFRCRENR 218

Query: 127 IKQLPLEIGQLTRLQLLDLSN 147
           I  +P  I  L     + L +
Sbjct: 219 ITHIPENILSLDPTCTIILED 239

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 43.4 bits (102), Expect = 2e-04
 Identities = 22/120 (18%), Positives = 42/120 (35%), Gaps = 16/120 (13%)

Query: 26  SLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL 85
            L + ++  LP+ L  P + +  +           +  L  E    L+ L       S+L
Sbjct: 65  QLNRLNLSSLPDNL-PPQITVLEI-------TQNALISLP-ELPASLEYLDACDNRLSTL 115

Query: 86  PSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLD 144
           P       +L+ L +D  QL  +      L+ +       + +  LP     L  L + +
Sbjct: 116 PELPA---SLKHLDVDNNQLTMLPELPALLEYINA---DNNQLTMLPELPTSLEVLSVRN 169

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 42.7 bits (100), Expect = 5e-04
 Identities = 17/109 (15%), Positives = 34/109 (31%), Gaps = 5/109 (4%)

Query: 39  LQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSL--GRLINLQ 96
           +  P    F L               +F   ++ +  +L G + +   S L    +    
Sbjct: 3   IMLPINNNFSLSQNSFYNTISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFS 62

Query: 97  TLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLD 144
            L L+   L  +   +    ++ +L    + +  LP     L  L   D
Sbjct: 63  ELQLNRLNLSSLPDNLPP--QITVLEITQNALISLPELPASLEYLDACD 109

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 50.0 bits (120), Expect = 1e-06
 Identities = 29/119 (24%), Positives = 46/119 (38%), Gaps = 9/119 (7%)

Query: 60  QISDL---FFEGTEELKVLSLIGIHFSSLPSSL-GRLINLQTLCLDWCQLEDVA--AIGQ 113
           +I  +    ++    L  L L G    SL       L +LQ L      L  +    IG 
Sbjct: 63  EIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGH 122

Query: 114 LKKLEILSFRGSDIKQLPLE--IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
           LK L+ L+   + I+   L      LT L+ LDLS+   +  I    +    ++  L +
Sbjct: 123 LKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN-KIQSIYCTDLRVLHQMPLLNL 180

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 49.6 bits (119), Expect = 2e-06
 Identities = 28/105 (26%), Positives = 39/105 (37%), Gaps = 5/105 (4%)

Query: 72  LKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSDIK 128
            K L L       L S S      LQ L L  C+++ +   A   L  L  L   G+ I+
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ 89

Query: 129 QLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
            L L     L+ LQ L      +L  +    I     L+EL +  
Sbjct: 90  SLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAH 133

>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 Length = 198

 Score = 48.5 bits (116), Expect = 2e-06
 Identities = 30/139 (21%), Positives = 57/139 (41%), Gaps = 26/139 (18%)

Query: 71  ELKVLSLIGIH--FSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIK 128
           E + + L G+      + ++L  L   + L L    +E ++++  ++ L ILS   + IK
Sbjct: 24  EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIK 83

Query: 129 QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFS------RLEELYMGDSF-SQWDKVE 181
           ++         L+ L +S          N I+  S       L  LYM ++  + W +++
Sbjct: 84  KIENLDAVADTLEELWISY---------NQIASLSGIEKLVNLRVLYMSNNKITNWGEID 134

Query: 182 GGSNASLAELKGLSKLTTL 200
                   +L  L KL  L
Sbjct: 135 --------KLAALDKLEDL 145

>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 = 49.4 bits (118), Expect = 4e-06
 Identities = 22/112 (19%), Positives = 40/112 (35%), Gaps = 12/112 (10%)

Query: 72  LKVLSLIGIHFSSLP--SSLGRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSD 126
             ++ L      +L     L R+ +LQ L L+  +           +   LE L    + 
Sbjct: 403 ANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENM 462

Query: 127 IKQLPLE------IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           ++              L+ LQ+L L++   L  + P V S  + L  L +  
Sbjct: 463 LQLAWETELCWDVFEGLSHLQVLYLNHN-YLNSLPPGVFSHLTALRGLSLNS 513

>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 = 48.6 bits (116), Expect = 8e-06
 Identities = 28/164 (17%), Positives = 60/164 (36%), Gaps = 23/164 (14%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVAAIGQLKKL- 117
           ++    F G  ++  + L   H + +   +   L  LQTL L    L  +  I  +  + 
Sbjct: 328 ELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTTIHFIPSIPDIF 387

Query: 118 ----------------EILSFRGSDIKQLPLE--IGQLTRLQLLDLSNCSSLVVIAPNVI 159
                            ++    + ++ L +   + ++  LQ+L L+             
Sbjct: 388 LSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTP 447

Query: 160 SKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
           S+   LE+L++G++  Q       +       +GLS L  L ++
Sbjct: 448 SENPSLEQLFLGENMLQL---AWETELCWDVFEGLSHLQVLYLN 488

>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 = 47.9 bits (114), Expect = 1e-05
 Identities = 23/119 (19%), Positives = 40/119 (33%), Gaps = 7/119 (5%)

Query: 60  QISDLFFEGTEELKVLSLIG--IHFSSLPSSLGRLINLQTLCLDWCQLEDVA--AIGQLK 115
            ++   F   E+L++L L       +    +   L NL+ L L   ++  +   A   L 
Sbjct: 38  TVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLF 97

Query: 116 KLEILSFRGSDIKQLPLE---IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG 171
            L  L      +    L+      L  L  LDLS      +       K + L+ +   
Sbjct: 98  HLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFS 156

>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 = 46.7 bits (111), Expect = 3e-05
 Identities = 25/116 (21%), Positives = 50/116 (43%), Gaps = 10/116 (8%)

Query: 61  ISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKL 117
           ++   FE  ++LKVL+L     + +   +   L NLQ L L +  L ++  +    L K+
Sbjct: 281 LNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKV 340

Query: 118 EILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
             +  + + I  +  +    L +LQ LDL +       A   I     + ++++  
Sbjct: 341 AYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDN------ALTTIHFIPSIPDIFLSG 390

>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 = 44.0 bits (104), Expect = 2e-04
 Identities = 23/131 (17%), Positives = 49/131 (37%), Gaps = 12/131 (9%)

Query: 81  HFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQL--PLEIGQ 136
           + + +P  L      + L L +  +  V  ++   L++L++L                  
Sbjct: 15  NLTQVPQVLN---TTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRN 71

Query: 137 LTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLS- 195
           L  L++LDL +   +  + P+       L EL +         ++ G   +L  L  L  
Sbjct: 72  LPNLRILDLGSS-KIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDL 130

Query: 196 ---KLTTLEIH 203
              ++ +L +H
Sbjct: 131 SKNQIRSLYLH 141

>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 = 44.0 bits (104), Expect = 2e-04
 Identities = 27/116 (23%), Positives = 45/116 (38%), Gaps = 13/116 (11%)

Query: 65  FFEGTEELKVLSLIGIHFSSLPSS--LGRLINLQTLCLDWCQLEDVA-------AIGQLK 115
           F      L++L L    FSS           +L+ L L    L+              L 
Sbjct: 421 FLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLS 480

Query: 116 KLEILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 170
            L++L    + +  LP  +   LT L+ L L++   L V++ N +   + LE L +
Sbjct: 481 HLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSN-RLTVLSHNDL--PANLEILDI 533

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

 Score = 47.4 bits (113), Expect = 1e-05
 Identities = 32/147 (21%), Positives = 52/147 (35%), Gaps = 10/147 (6%)

Query: 66  FEGTEELKVLSLIGIHFSSLPSS-LGRLINLQTLCLDWCQLEDVA----AIGQLKKLEIL 120
           F G   L +L L    F  L +     L NL+ L L  C L+           L  LE+L
Sbjct: 75  FRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEML 134

Query: 121 SFRGSDIKQLPLEI--GQLTRLQLLDLSNCSSLVVIAPNVISKF--SRLEELYMGDSFSQ 176
             R ++IK++        + R  +LDL+  + +  I    +  F       L +     Q
Sbjct: 135 VLRDNNIKKIQPASFFLNMRRFHVLDLTF-NKVKSICEEDLLNFQGKHFTLLRLSSITLQ 193

Query: 177 WDKVEGGSNASLAELKGLSKLTTLEIH 203
                             + +TTL++ 
Sbjct: 194 DMNEYWLGWEKCGNPFKNTSITTLDLS 220

>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 = 44.0 bits (104), Expect = 2e-04
 Identities = 26/155 (16%), Positives = 56/155 (36%), Gaps = 13/155 (8%)

Query: 26  SLPQRDIQELPE----RLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIH 81
           S    + ++        L+   ++   L    I  +   +    F    +L+ L+L    
Sbjct: 255 SFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSV----FSHFTDLEQLTLAQNE 310

Query: 82  FSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLEI-GQL 137
            + +   +   L +L  L L    L  +       L KLE+L    + I+ L  +    L
Sbjct: 311 INKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGL 370

Query: 138 TRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
             L+ L L     L  +   +  + + L+++++  
Sbjct: 371 PNLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHT 404

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 47.6 bits (113), Expect = 2e-05
 Identities = 29/155 (18%), Positives = 53/155 (34%), Gaps = 24/155 (15%)

Query: 60  QISDL---FFEGTEELKVLSLIGIHFSSLPSSLG---RLINLQTLCLDWCQLEDVAAIG- 112
            ++D          EL+ L L       L        ++ +LQ L +    +      G 
Sbjct: 335 LLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGD 394

Query: 113 --QLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNC--SSLVVIAPNVISKFSRLEEL 168
               K L  L+   + +           R+++LDL +    S+    P  + K   L+EL
Sbjct: 395 CSWTKSLLSLNMSSNILTDTIFRCL-PPRIKVLDLHSNKIKSI----PKQVVKLEALQEL 449

Query: 169 YMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
            +  + +Q   V  G          L+ L  + +H
Sbjct: 450 NV--ASNQLKSVPDGI------FDRLTSLQKIWLH 476

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 44.9 bits (106), Expect = 9e-05
 Identities = 48/301 (15%), Positives = 94/301 (31%), Gaps = 18/301 (5%)

Query: 86  PSSLGRLINLQTLCLDWCQLE--DVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLL 143
            S +  L  L+ L +   +++  D++     ++LE L    + + ++         L+ L
Sbjct: 38  TSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKLVKIS--CHPTVNLKHL 95

Query: 144 DLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
           DLS  +   +         S+L+ L +  S +  +K      A L   K L  L      
Sbjct: 96  DLSFNAFDALPICKEFGNMSQLKFLGL--STTHLEKSSVLPIAHLNISKVLLVLGETYGE 153

Query: 204 VWDAQILPQDWVSVELQRYKICIGEARRI------WPVNSETSRLVWLHGLENVSTLLEN 257
             D + L QD+ +  L        E   I         N E S +  +      S  L  
Sbjct: 154 KEDPEGL-QDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSI 212

Query: 258 YGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRC 317
                   +   + L  ++   N    +        + +  +        +         
Sbjct: 213 LAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFD--- 269

Query: 318 TIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCD-KLKHLFSFSMAKNLLR 376
                L++LS+  + +           +  FSN+ I        ++ H+   S     L 
Sbjct: 270 YSGTSLKALSIHQVVSDVFGFPQSYIYEI-FSNMNIKNFTVSGTRMVHMLCPSKISPFLH 328

Query: 377 L 377
           L
Sbjct: 329 L 329

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 43.7 bits (103), Expect = 2e-04
 Identities = 16/109 (14%), Positives = 46/109 (42%), Gaps = 3/109 (2%)

Query: 66  FEGTEELKVLSLIG--IHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFR 123
               + L+ L +    + +           +L +L +    L D        ++++L   
Sbjct: 370 TTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLH 429

Query: 124 GSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
            + IK +P ++ +L  LQ L++++   L  +   +  + + L+++++  
Sbjct: 430 SNKIKSIPKQVVKLEALQELNVASN-QLKSVPDGIFDRLTSLQKIWLHT 477

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

 Score = 46.0 bits (109), Expect = 3e-05
 Identities = 36/167 (21%), Positives = 59/167 (35%), Gaps = 13/167 (7%)

Query: 36  PERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLIN 94
                 P+L +  L     A     +++L       LKVLS+   H  +     +     
Sbjct: 115 LLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPA 174

Query: 95  LQTLCLDWCQLEDVAAI------GQLKKLEILSFRGSDIKQLPLEIGQL----TRLQLLD 144
           L TL L          +       +   L++L+ R + ++        L     +LQ LD
Sbjct: 175 LSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLD 234

Query: 145 LSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAEL 191
           LS+ S             S+L  L +  SF+   +V  G  A L+ L
Sbjct: 235 LSHNSLRDAAGAPSCDWPSQLNSLNL--SFTGLKQVPKGLPAKLSVL 279

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 45.4 bits (108), Expect = 3e-05
 Identities = 26/116 (22%), Positives = 42/116 (36%), Gaps = 5/116 (4%)

Query: 61  ISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKKL 117
           +    F G   L+ L L      +LP  +   L NL  L L   ++  V   A   L  L
Sbjct: 120 LGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSL 179

Query: 118 EILSFRGSDIKQLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
           + L    + +  +       L RL  L L    +L  +    ++    L+ L + D
Sbjct: 180 DRLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN-NLSALPTEALAPLRALQYLRLND 234

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

 Score = 44.6 bits (106), Expect = 8e-05
 Identities = 28/147 (19%), Positives = 54/147 (36%), Gaps = 18/147 (12%)

Query: 61  ISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVA--AIGQLKKLE 118
           I +  F    +L+ L +   H   +P +L    +L  L +   ++  V       L+ + 
Sbjct: 93  IHEKAFSPLRKLQKLYISKNHLVEIPPNL--PSSLVELRIHDNRIRKVPKGVFSGLRNMN 150

Query: 119 ILSFRGSDIKQLPLEIGQLT--RLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ 176
            +   G+ ++    E G     +L  L +S    L  I  ++      L EL++    ++
Sbjct: 151 CIEMGGNPLENSGFEPGAFDGLKLNYLRISEA-KLTGIPKDL---PETLNELHLDH--NK 204

Query: 177 WDKVEGGSNASLAELKGLSKLTTLEIH 203
              +E         L   SKL  L + 
Sbjct: 205 IQAIELED------LLRYSKLYRLGLG 225

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

 Score = 41.9 bits (99), Expect = 6e-04
 Identities = 27/136 (19%), Positives = 49/136 (36%), Gaps = 15/136 (11%)

Query: 72  LKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDVA-AIGQLK--KLEILSFRGSDI 127
           L  L +       +P      L N+  + +    LE+     G     KL  L    + +
Sbjct: 125 LVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKL 184

Query: 128 KQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNAS 187
             +P ++     L  L L + + +  I    + ++S+L  L +    +Q   +E GS   
Sbjct: 185 TGIPKDL--PETLNELHLDH-NKIQAIELEDLLRYSKLYRLGL--GHNQIRMIENGS--- 236

Query: 188 LAELKGLSKLTTLEIH 203
              L  L  L  L + 
Sbjct: 237 ---LSFLPTLRELHLD 249

>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 Length = 220

 Score = 43.1 bits (102), Expect = 1e-04
 Identities = 26/143 (18%), Positives = 52/143 (36%), Gaps = 21/143 (14%)

Query: 73  KVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVAAIG---QLKKLEILSFRGSDIK 128
             + L       +P  +      L+ + L   Q+ ++A       L+ L  L   G+ I 
Sbjct: 35  TEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAP-DAFQGLRSLNSLVLYGNKIT 93

Query: 129 QLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNAS 187
           +LP  +   L  LQLL L+  + +  +  +       L  L + D+  Q          +
Sbjct: 94  ELPKSLFEGLFSLQLLLLNA-NKINCLRVDAFQDLHNLNLLSLYDNKLQ----------T 142

Query: 188 LAE--LKGLSKLTTLEIHV--WD 206
           +A+     L  + T+ +    + 
Sbjct: 143 IAKGTFSPLRAIQTMHLAQNPFI 165

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 43.7 bits (103), Expect = 2e-04
 Identities = 20/112 (17%), Positives = 46/112 (41%), Gaps = 6/112 (5%)

Query: 66  FEGTEELKVLSLIGIHFSSLPSSL-----GRLINLQTLCLDWCQLEDVAAIGQLKKLEIL 120
              T+ +  L  + +  +SL S           ++  L L    L          K+++L
Sbjct: 396 ALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKVL 455

Query: 121 SFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 172
               + I  +P ++  L  LQ L++++ + L  +   V  + + L+ +++ D
Sbjct: 456 DLHNNRIMSIPKDVTHLQALQELNVAS-NQLKSVPDGVFDRLTSLQYIWLHD 506

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 42.2 bits (99), Expect = 6e-04
 Identities = 22/128 (17%), Positives = 46/128 (35%), Gaps = 6/128 (4%)

Query: 86  PSSLGRLINLQTLCLDWCQLE--DVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLL 143
              +  L  L+ L L   ++   D       + LE L    + ++ +      +  L+ L
Sbjct: 69  MPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRLQNIS--CCPMASLRHL 126

Query: 144 DLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIH 203
           DLS     V+         ++L  L +    +++ +++    A L     L  L +  I 
Sbjct: 127 DLSFNDFDVLPVCKEFGNLTKLTFLGLSA--AKFRQLDLLPVAHLHLSCILLDLVSYHIK 184

Query: 204 VWDAQILP 211
             + + L 
Sbjct: 185 GGETESLQ 192

>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 = 43.7 bits (103), Expect = 2e-04
 Identities = 66/461 (14%), Positives = 139/461 (30%), Gaps = 107/461 (23%)

Query: 58  SMQISD----LFFEGTEELKVLSLIGI-HFS--SLPSSLGRLINLQTLCLDWCQLEDVAA 110
            M ++D    L  +  +  KVL L     FS   L +      NL+ L L    ++DV+ 
Sbjct: 114 RMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVS- 172

Query: 111 IGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIA--PNVISKFSRLEEL 168
                        G  +   P      T L  L++S  +S V  +    ++++   L+ L
Sbjct: 173 -------------GHWLSHFPD---TYTSLVSLNISCLASEVSFSALERLVTRCPNLKSL 216

Query: 169 YMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGE 228
            +  +                 L+   +L  L    + A++ P  +  + +         
Sbjct: 217 KLNRAVPLEK--------LATLLQRAPQLEELGTGGYTAEVRPDVYSGLSV--------- 259

Query: 229 ARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDD- 287
                   S    L  L G  +         +  +      +  + L       ++L   
Sbjct: 260 ------ALSGCKELRCLSGFWDAV----PAYLPAVYSVCSRLTTLNLSYATVQSYDLVKL 309

Query: 288 GEGFPRLKHLWVERC---SEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTE 344
               P+L+ LWV      + +  +  +           L  L ++         +  LT 
Sbjct: 310 LCQCPKLQRLWVLDYIEDAGLEVLAST--------CKDLRELRVFPSEPFVMEPNVALT- 360

Query: 345 DQSFSNLRIIEVKSCDKLKHLFSF----------SMAKNLLRLQKVEVFFCDDLEMMVGP 394
           +Q   ++       C KL+ +  F          ++A+N   + +  +   +        
Sbjct: 361 EQGLVSV----SMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPK------ 410

Query: 395 DREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRC---DKIEEIIRHVGEEVKENRI 451
             +  T         A  +          L  L++S        E I  +          
Sbjct: 411 APDYLTLEPLDIGFGAIVEHCKD------LRRLSLSGLLTDKVFEYIGTY---------- 454

Query: 452 AFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPN 492
              K+++L + +    +   + +      SL ++ +  CP 
Sbjct: 455 -AKKMEMLSVAFAG-DSDLGMHHVLSGCDSLRKLEIRDCPF 493

>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 = 43.3 bits (102), Expect = 3e-04
 Identities = 52/346 (15%), Positives = 101/346 (29%), Gaps = 70/346 (20%)

Query: 75  LSLIGIHFSSLPSSLGRLINLQTLCLDWC-QLEDVAAIGQLKKLEILSFRGSDIKQLPLE 133
           + +   +  S  + + R   ++++ L       D         L    + G     +   
Sbjct: 48  VFIGNCYAVSPATVIRRFPKVRSVELKGKPHFADFN-------LVPDGWGGYVYPWIEAM 100

Query: 134 IGQLTRLQLLDLSNC----SSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLA 189
               T L+ + L         L +IA +    F   + L +          EG S   LA
Sbjct: 101 SSSYTWLEEIRLKRMVVTDDCLELIAKS----FKNFKVLVL-------SSCEGFSTDGLA 149

Query: 190 EL-KGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGL 248
            +      L  L++   D   +   W+S     Y                   LV L+ +
Sbjct: 150 AIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYT-----------------SLVSLN-I 191

Query: 249 ENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHI 308
             +++ +    ++ L+     +  +KL     +       +  P+L+ L     +  +  
Sbjct: 192 SCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRP 251

Query: 309 VGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSF-SNLRIIE------------ 355
               G        L     L  LS       + L    S  S L  +             
Sbjct: 252 DVYSGL----SVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLV 307

Query: 356 --VKSCDKLKHLFSF---------SMAKNLLRLQKVEVFFCDDLEM 390
             +  C KL+ L+            +A     L+++ VF  +   M
Sbjct: 308 KLLCQCPKLQRLWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVM 353

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

 Score = 42.2 bits (99), Expect = 6e-04
 Identities = 30/183 (16%), Positives = 59/183 (32%), Gaps = 31/183 (16%)

Query: 40  QCPNLQLFLL--ITKGIAPVSMQISDLFFEGTEELKVLSLI-GIHFSSLPSSLGRLINLQ 96
           + P L+       T  + P       +   G +EL+ LS       + LP+       L 
Sbjct: 233 RAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLT 292

Query: 97  TLCLDWCQLED---VAAIGQLKKLEILSFRG----SDIKQLPLEIGQLTRLQLLDLSNCS 149
           TL L +  ++    V  + Q  KL+ L        + ++ L         L+ L +    
Sbjct: 293 TLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVL---ASTCKDLRELRVFPSE 349

Query: 150 SLVVIAPNVIS---------KFSRLEELYMGDSFSQWDKVEGGSNASLAEL-KGLSKLTT 199
             V+     ++            +LE +               +NA+L  + +    +T 
Sbjct: 350 PFVMEPNVALTEQGLVSVSMGCPKLESVLYFCR--------QMTNAALITIARNRPNMTR 401

Query: 200 LEI 202
             +
Sbjct: 402 FRL 404

>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 = 42.9 bits (101), Expect = 3e-04
 Identities = 21/106 (19%), Positives = 37/106 (34%), Gaps = 5/106 (4%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLED---VAAIGQLKKLEILSFRGSDIK 128
           +              +       +Q + L    +E       + Q  KL+ LS  G  + 
Sbjct: 72  VIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLS 131

Query: 129 QLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKF-SRLEELYMGD 172
              +  + + + L  L+LS CS     A   +    SRL+EL +  
Sbjct: 132 DPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSW 177

>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 Length = 168

 Score = 41.6 bits (98), Expect = 3e-04
 Identities = 24/116 (20%), Positives = 45/116 (38%), Gaps = 6/116 (5%)

Query: 60  QISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEI 119
           ++ +       EL VL     +   +       +NL+ L L    L  V+ + +L KL+ 
Sbjct: 17  ELRNRTPAAVREL-VLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKK 75

Query: 120 LSFRGSDIKQL-PLEIGQLTRLQLLDLSNC--SSLVVIAPNVISKFSRLEELYMGD 172
           L    + I     +   +L  L  L+LS      +  + P  + K   L+ L + +
Sbjct: 76  LELSENRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEP--LKKLECLKSLDLFN 129

>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 = 42.9 bits (101), Expect = 3e-04
 Identities = 34/164 (20%), Positives = 55/164 (33%), Gaps = 16/164 (9%)

Query: 32  IQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEG-TEELKVLSLIGIHFSSLPSSLG 90
           I+ LP+  +  +LQ  LL  +    +   I    F G + E  +L L       + +S  
Sbjct: 116 IKHLPDVHKIHSLQKVLLDIQDNINIH-TIERNSFVGLSFESVILWLNKNGIQEIHNSAF 174

Query: 91  RLINLQTLCL-DWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLEI-GQLTRLQLLDLS 146
               L  L L D   LE++            IL    + I  LP      L +L+     
Sbjct: 175 NGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTY 234

Query: 147 NCSSLVVIAPNVISKFSRLEELYMG-----DSFSQWDKVEGGSN 185
           N   L       + K   L E  +       +F+ W +     +
Sbjct: 235 NLKKL-----PTLEKLVALMEASLTYPSHCCAFANWRRQISELH 273

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 41.9 bits (99), Expect = 4e-04
 Identities = 22/141 (15%), Positives = 52/141 (36%), Gaps = 16/141 (11%)

Query: 73  KVLSLIGIHFSSLPSS--LGRLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSDIK 128
             L L    F+ L ++    +L  L+ +     ++ D+   A      +  +    + ++
Sbjct: 35  AELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLE 94

Query: 129 QLPLEI-GQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNAS 187
            +  ++   L  L+ L L +   +  +  +     S +  L + D  +Q   V  G+   
Sbjct: 95  NVQHKMFKGLESLKTLMLRSN-RITCVGNDSFIGLSSVRLLSLYD--NQITTVAPGA--- 148

Query: 188 LAELKGLSKLTTLEIHV--WD 206
                 L  L+TL +    ++
Sbjct: 149 ---FDTLHSLSTLNLLANPFN 166

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 41.9 bits (99), Expect = 4e-04
 Identities = 25/136 (18%), Positives = 52/136 (38%), Gaps = 25/136 (18%)

Query: 71  ELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQ 129
             + L LI  H  ++PS +   L N+  + +             L++LE  SF       
Sbjct: 32  STQTLKLIETHLRTIPSHAFSNLPNISRIYVSID--------VTLQQLESHSFYN----- 78

Query: 130 LPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD----SFSQWDKVEGGSN 185
                  L+++  +++ N  +L  I P+ + +   L+ L + +     F    KV     
Sbjct: 79  -------LSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDI 131

Query: 186 ASLAELKGLSKLTTLE 201
             + E+     +T++ 
Sbjct: 132 FFILEITDNPYMTSIP 147

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	829
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	100.0
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	100.0
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	100.0
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	100.0
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	100.0
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	100.0
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.97
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.97
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.97
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.96
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.96
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.96
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.95
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.95
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.95
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.94
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.94
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.94
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.93
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.92
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.92
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.92
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.92
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.91
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.91
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.91
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.9
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.9
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.89
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.89
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.89
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.88
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.88
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.88
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.87
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.86
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.86
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.85
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.84
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.84
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.84
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.83
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.82
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.82
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.81
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.81
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.8
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.8
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.8
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.79
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.79
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.77
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.77
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.77
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.76
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.76
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.76
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.76
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.76
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.75
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.74
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.74
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.73
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.73
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.73
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.73
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.73
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.72
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.72
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.71
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.7
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.7
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.7
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.69
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.68
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.68
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.67
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.66
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.66
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.64
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.64
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.64
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.63
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.61
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.61
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.6
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.6
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.6
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.6
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.6
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.59
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.59
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.58
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.57
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.57
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.57
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.56
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.56
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.54
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.54
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.53
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.53
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.53
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.51
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.51
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.5
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.49
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.49
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.47
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.46
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.46
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.44
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.44
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.43
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.41
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.4
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.39
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.37
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.37
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.35
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.35
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.35
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.33
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.32
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.31
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.31
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.27
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.21
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.2
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.19
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.18
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.14
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.1
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.07
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.07
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.06
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.97
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.81
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.75
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.73
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.65
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.6
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.49
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.48
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.18
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.16
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.1
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.07
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.04
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.01
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.93
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.77
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.64
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.3
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.3
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.22
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	95.66
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	95.44
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	94.81
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.34
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.29
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	94.15

>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=2.3e-35  Score=352.36  Aligned_cols=500  Identities=15%  Similarity=0.059  Sum_probs=338.6

Q ss_pred             cccCCccccCC-CCCCcEEEcCCCCCCC----CCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCC
Q 003328            8 ADVEKKMEETI-RKDPIAISLPQRDIQE----LPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIH   81 (829)
Q Consensus         8 ~~~~~~~~~~~-~~~l~~L~l~~~~~~~----l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~   81 (829)
                      .+.+.|.+|.. ..+++.|+++++.+..    +++.+ ++++|+.++++.+.    +..+|.. |+++++||+|++++|.
T Consensus        37 ~~~C~w~gv~C~~~~v~~L~L~~~~l~g~~~~l~~~l~~L~~L~~l~~~~~~----~~~l~~~-~~~l~~L~~L~Ls~n~  111 (768)
T 3rgz_A           37 KNPCTFDGVTCRDDKVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSH----INGSVSG-FKCSASLTSLDLSRNS  111 (768)
T ss_dssp             SCGGGSTTEEEETTEEEEEECTTSCCCEEHHHHHHHTTTCTTCCEEECTTSC----EEECCCC-CCCCTTCCEEECCSSE
T ss_pred             CCCcCCcceEECCCcEEEEECCCCCcCCccCccChhHhccCcccccCCcCCC----cCCCchh-hccCCCCCEEECCCCc
Confidence            46788988853 5689999999998874    66554 78889999988887    4455665 5899999999999999


Q ss_pred             CCC-Cch--hhcCCCCCcEEEccccCCCCc---ccccCCCCCcEEEccCCCCccc-hhh---hcCCCCCCEEeccCCCCC
Q 003328           82 FSS-LPS--SLGRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSDIKQL-PLE---IGQLTRLQLLDLSNCSSL  151 (829)
Q Consensus        82 i~~-lp~--~l~~l~~Lr~L~L~~~~l~~l---~~i~~L~~L~~L~l~~~~l~~l-p~~---i~~L~~L~~L~l~~~~~l  151 (829)
                      +.. +|.  .++++++||+|++++|.+...   ..+.++++|++|++++|.++.. |..   ++++++|++|++++|...
T Consensus       112 l~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~  191 (768)
T 3rgz_A          112 LSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKIS  191 (768)
T ss_dssp             EEEEGGGGGGGGGCTTCCEEECCSSEEECCSSCCSCCCCTTCSEEECCSSCCEEETHHHHHHTTCCTTCCEEECCSSEEE
T ss_pred             CCCcCCChHHHhCCCCCCEEECcCCccCCcCCHHHhccCCCCCEEECCCCccCCcCChhhhhhccCCCCCEEECCCCccc
Confidence            875 777  899999999999999987633   3348999999999999999855 444   789999999999998743


Q ss_pred             CccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCC-cCCcc-ccccccEEEEEEccc
Q 003328          152 VVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQI-LPQDW-VSVELQRYKICIGEA  229 (829)
Q Consensus       152 ~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~-~~~~~-~~~~L~~L~l~~~~~  229 (829)
                      +..+   .+++++|++|++++|.+.     +    .+..++++++|++|+++++.+.. ++..+ .+++|+.|+++.+..
T Consensus       192 ~~~~---~~~l~~L~~L~Ls~n~l~-----~----~~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~L~~L~Ls~n~l  259 (768)
T 3rgz_A          192 GDVD---VSRCVNLEFLDVSSNNFS-----T----GIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQF  259 (768)
T ss_dssp             SCCB---CTTCTTCCEEECCSSCCC-----S----CCCBCTTCCSCCEEECCSSCCCSCHHHHTTTCSSCCEEECCSSCC
T ss_pred             ccCC---cccCCcCCEEECcCCcCC-----C----CCcccccCCCCCEEECcCCcCCCcccHHHhcCCCCCEEECCCCcc
Confidence            3333   588999999999999775     1    22337888999999999998763 33333 678889888764432


Q ss_pred             cccCCCCCCCccEEEeccCCccccchhhhhHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEe
Q 003328          230 RRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIV  309 (829)
Q Consensus       230 ~~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~  309 (829)
                      .. .                     ++..    .+++|++|++.++.-...+...+.  ..+++|++|+++++.-...+ 
T Consensus       260 ~~-~---------------------~~~~----~l~~L~~L~L~~n~l~~~ip~~~~--~~~~~L~~L~Ls~n~l~~~~-  310 (768)
T 3rgz_A          260 VG-P---------------------IPPL----PLKSLQYLSLAENKFTGEIPDFLS--GACDTLTGLDLSGNHFYGAV-  310 (768)
T ss_dssp             EE-S---------------------CCCC----CCTTCCEEECCSSEEEESCCCCSC--TTCTTCSEEECCSSEEEECC-
T ss_pred             cC-c---------------------cCcc----ccCCCCEEECcCCccCCccCHHHH--hhcCcCCEEECcCCcCCCcc-
Confidence            11 0                     0000    147888888888754333333332  23489999999888632221 


Q ss_pred             cccCcccccccccccceeccccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhc-ccceEEEecccCc
Q 003328          310 GSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLL-RLQKVEVFFCDDL  388 (829)
Q Consensus       310 ~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~-~L~~L~i~~c~~l  388 (829)
                        +  .....+++|+.|++.++.-...+...   ..+.+++|++|++.+|.--..+|.  .+..++ +|+.|+++++.--
T Consensus       311 --p--~~~~~l~~L~~L~L~~n~l~~~ip~~---~l~~l~~L~~L~Ls~n~l~~~~p~--~l~~l~~~L~~L~Ls~N~l~  381 (768)
T 3rgz_A          311 --P--PFFGSCSLLESLALSSNNFSGELPMD---TLLKMRGLKVLDLSFNEFSGELPE--SLTNLSASLLTLDLSSNNFS  381 (768)
T ss_dssp             --C--GGGGGCTTCCEEECCSSEEEEECCHH---HHTTCTTCCEEECCSSEEEECCCT--THHHHTTTCSEEECCSSEEE
T ss_pred             --c--hHHhcCCCccEEECCCCcccCcCCHH---HHhcCCCCCEEeCcCCccCccccH--HHHhhhcCCcEEEccCCCcC
Confidence              1  12356788999999887643221110   035788999999988853324442  244555 8999999887532


Q ss_pred             ceecccCCCCCCCcccccccccCCCCCCCCCCCCceeeeeeccCcchhhHHhhhcccccccccccCccceEeeccCCCcc
Q 003328          389 EMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLT  468 (829)
Q Consensus       389 ~~~~~~~~~~~~~~l~~~~i~~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~  468 (829)
                      ..++.. ..                    ....+.|+.|++++|.-...+        +..+..+++|+.|++.++.--.
T Consensus       382 ~~~~~~-~~--------------------~~~~~~L~~L~L~~n~l~~~~--------p~~l~~l~~L~~L~Ls~N~l~~  432 (768)
T 3rgz_A          382 GPILPN-LC--------------------QNPKNTLQELYLQNNGFTGKI--------PPTLSNCSELVSLHLSFNYLSG  432 (768)
T ss_dssp             EECCTT-TT--------------------CSTTCCCCEEECCSSEEEEEC--------CGGGGGCTTCCEEECCSSEEES
T ss_pred             CCcChh-hh--------------------hcccCCccEEECCCCcccccc--------CHHHhcCCCCCEEECcCCcccC
Confidence            222211 11                    011457888888888644333        4456778899999998884332


Q ss_pred             eeecCCccccCCCccEEeeccCCCcceecccccCCCCCccceee-cccccccccccCCCccchhhhhhhhccccCCcceE
Q 003328          469 SFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVT-EKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHL  547 (829)
Q Consensus       469 ~~~~~~~~~~~~~L~~L~i~~C~~l~~~~~~~~~~~l~~~L~~L-i~~c~~l~~~~~~~~~~~~~~~l~~~~~~~~L~~L  547 (829)
                      ..+.  ....+++|+.|++++|.-...+|..+  ..++. |+.| +.+|.-....+         .   .+..+++|+.|
T Consensus       433 ~~p~--~l~~l~~L~~L~L~~n~l~~~~p~~~--~~l~~-L~~L~L~~N~l~~~~p---------~---~l~~l~~L~~L  495 (768)
T 3rgz_A          433 TIPS--SLGSLSKLRDLKLWLNMLEGEIPQEL--MYVKT-LETLILDFNDLTGEIP---------S---GLSNCTNLNWI  495 (768)
T ss_dssp             CCCG--GGGGCTTCCEEECCSSCCCSCCCGGG--GGCTT-CCEEECCSSCCCSCCC---------G---GGGGCTTCCEE
T ss_pred             cccH--HHhcCCCCCEEECCCCcccCcCCHHH--cCCCC-ceEEEecCCcccCcCC---------H---HHhcCCCCCEE
Confidence            3332  23478899999999986444454321  23455 8888 77774321111         1   12337889999


Q ss_pred             EeccCCCceeeccCCCCCCCcCCCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCcchhhhhc
Q 003328          548 QLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLH  614 (829)
Q Consensus       548 ~l~~c~~l~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~~l~~  614 (829)
                      +++++.-...+    +..+..+++|+.|++++|.-... +|..+ ..+++|+.|++++|+-...+|.
T Consensus       496 ~L~~N~l~~~~----p~~~~~l~~L~~L~L~~N~l~~~-~p~~l-~~l~~L~~L~Ls~N~l~g~ip~  556 (768)
T 3rgz_A          496 SLSNNRLTGEI----PKWIGRLENLAILKLSNNSFSGN-IPAEL-GDCRSLIWLDLNTNLFNGTIPA  556 (768)
T ss_dssp             ECCSSCCCSCC----CGGGGGCTTCCEEECCSSCCEEE-CCGGG-GGCTTCCEEECCSSEEESBCCG
T ss_pred             EccCCccCCcC----ChHHhcCCCCCEEECCCCcccCc-CCHHH-cCCCCCCEEECCCCccCCcCCh
Confidence            99887633233    22344568899999999865543 56554 5889999999998874444443

>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=7.8e-35  Score=347.81  Aligned_cols=197  Identities=15%  Similarity=0.062  Sum_probs=147.5

Q ss_pred             cCCCCCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccch--hhhcCCCCccEEEecCCCCCC-Cchhh-c
Q 003328           16 ETIRKDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISD--LFFEGTEELKVLSLIGIHFSS-LPSSL-G   90 (829)
Q Consensus        16 ~~~~~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~--~~~~~l~~Lr~L~L~~~~i~~-lp~~l-~   90 (829)
                      +..++.|+.++++.+.+..+|..+ .+++||+|++++|.   ..+.+|.  . ++++++|++|++++|.+.. .|..+ .
T Consensus        73 l~~L~~L~~l~~~~~~~~~l~~~~~~l~~L~~L~Ls~n~---l~~~~~~~~~-l~~l~~L~~L~Ls~n~l~~~~~~~~~~  148 (768)
T 3rgz_A           73 LLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNS---LSGPVTTLTS-LGSCSGLKFLNVSSNTLDFPGKVSGGL  148 (768)
T ss_dssp             TTTCTTCCEEECTTSCEEECCCCCCCCTTCCEEECCSSE---EEEEGGGGGG-GGGCTTCCEEECCSSEEECCSSCCSCC
T ss_pred             HhccCcccccCCcCCCcCCCchhhccCCCCCEEECCCCc---CCCcCCChHH-HhCCCCCCEEECcCCccCCcCCHHHhc
Confidence            455678888888888776666655 78889999998888   4555665  4 5888899999999887764 55554 7


Q ss_pred             CCCCCcEEEccccCCCCc--cc---ccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcc
Q 003328           91 RLINLQTLCLDWCQLEDV--AA---IGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRL  165 (829)
Q Consensus        91 ~l~~Lr~L~L~~~~l~~l--~~---i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L  165 (829)
                      ++++|++|++++|.+...  ..   ++++++|++|++++|.+..... ++++++|++|++++|...+.+|.  ++++++|
T Consensus       149 ~l~~L~~L~Ls~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls~n~l~~~~~~--l~~l~~L  225 (768)
T 3rgz_A          149 KLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVD-VSRCVNLEFLDVSSNNFSTGIPF--LGDCSAL  225 (768)
T ss_dssp             CCTTCSEEECCSSCCEEETHHHHHHTTCCTTCCEEECCSSEEESCCB-CTTCTTCCEEECCSSCCCSCCCB--CTTCCSC
T ss_pred             cCCCCCEEECCCCccCCcCChhhhhhccCCCCCEEECCCCcccccCC-cccCCcCCEEECcCCcCCCCCcc--cccCCCC
Confidence            888899999998888754  33   7888889999998887775432 37888899999988875454554  7888889


Q ss_pred             cEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEc
Q 003328          166 EELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIG  227 (829)
Q Consensus       166 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~  227 (829)
                      ++|++++|.+.        ......++++++|++|++++|.+........+++|+.|++..+
T Consensus       226 ~~L~Ls~n~l~--------~~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~L~~n  279 (768)
T 3rgz_A          226 QHLDISGNKLS--------GDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAEN  279 (768)
T ss_dssp             CEEECCSSCCC--------SCHHHHTTTCSSCCEEECCSSCCEESCCCCCCTTCCEEECCSS
T ss_pred             CEEECcCCcCC--------CcccHHHhcCCCCCEEECCCCcccCccCccccCCCCEEECcCC
Confidence            99988888664        2345667788888888888887754333347788888887543

>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=100.00  E-value=4.2e-33  Score=329.85  Aligned_cols=576  Identities=15%  Similarity=0.112  Sum_probs=274.7

Q ss_pred             CCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch-hhcCCCCCc
Q 003328           20 KDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQ   96 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~-~l~~l~~Lr   96 (829)
                      +++++|++++|.+..+++. + ++++|++|++++|.    +..++...|+++++|++|++++|.++.+|. .++.+++|+
T Consensus        25 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~----l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~  100 (680)
T 1ziw_A           25 TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNT----ISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLT  100 (680)
T ss_dssp             TTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSC----CCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCS
T ss_pred             CCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCc----cCccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCC
Confidence            4556666666555555542 2 55556666665555    333433334555566666665555555554 355555666


Q ss_pred             EEEccccCCCCc--ccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCCCCCccChhhhc--CCCcccEEEcc
Q 003328           97 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVIAPNVIS--KFSRLEELYMG  171 (829)
Q Consensus        97 ~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~l~~lp~~~l~--~L~~L~~L~l~  171 (829)
                      +|++++|.+..+  ..++++++|++|++++|.++.. |..++++++|++|++++|. +..++...++  .+++|++|+++
T Consensus       101 ~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~~~~~~L~~L~L~  179 (680)
T 1ziw_A          101 ELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNK-IQALKSEELDIFANSSLKKLELS  179 (680)
T ss_dssp             EEECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSC-CCCBCHHHHGGGTTCEESEEECT
T ss_pred             EEECCCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCc-ccccCHHHhhccccccccEEECC
Confidence            666665555544  3455555666666665555533 3335555566666655554 3334332222  34555555555


Q ss_pred             CCccccccccCCCccchhhhcCCCCCcEEEeecCCCCC-----cCCccccccccEEEEEEccccccCCCCCCCccEEEec
Q 003328          172 DSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQI-----LPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLH  246 (829)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~-----~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~  246 (829)
                      +|.+.        ......++.+.+|+.+++..+....     ++......+|+.|++..+...                
T Consensus       180 ~n~l~--------~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l~----------------  235 (680)
T 1ziw_A          180 SNQIK--------EFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLS----------------  235 (680)
T ss_dssp             TCCCC--------CBCTTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTSCCC----------------
T ss_pred             CCccc--------ccChhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCCccc----------------
Confidence            55433        1122233344445555554433210     000012234444443211110                


Q ss_pred             cCCccccchhhhhHHHh-hhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccc
Q 003328          247 GLENVSTLLENYGMKML-LKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLES  325 (829)
Q Consensus       247 ~~~~~~~~l~~~~~~~~-l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~  325 (829)
                             .+....+... .++|+.|+++++.-.......+   +.+++|++|+++++.-. .+..    .....+++|+.
T Consensus       236 -------~~~~~~~~~l~~~~L~~L~Ls~n~l~~~~~~~~---~~l~~L~~L~L~~n~l~-~~~~----~~~~~l~~L~~  300 (680)
T 1ziw_A          236 -------TTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSF---AWLPQLEYFFLEYNNIQ-HLFS----HSLHGLFNVRY  300 (680)
T ss_dssp             -------EECTTTTGGGGGSCCCEEECTTSCCCEECTTTT---TTCTTCCEEECCSCCBS-EECT----TTTTTCTTCCE
T ss_pred             -------ccChhHhhccCcCCCCEEECCCCCcCccCcccc---cCcccccEeeCCCCccC-ccCh----hhhcCCCCccE
Confidence                   0000000000 0235666665553221111122   25566666666655322 2111    01234555666


Q ss_pred             eeccccccchhhhcCCCC-----CCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecccC-cceecccCCCCC
Q 003328          326 LSLWFLSNLETICDSQLT-----EDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDD-LEMMVGPDREKP  399 (829)
Q Consensus       326 L~L~~~~~l~~~~~~~l~-----~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~~-l~~~~~~~~~~~  399 (829)
                      |++.++..-..+....+|     ..+.+++|++|++.++ +++.+++ ..+..+++|++|++++|.. +..+......  
T Consensus       301 L~L~~~~~~~~~~~~~lp~i~~~~~~~l~~L~~L~l~~n-~l~~~~~-~~~~~l~~L~~L~Ls~n~~~~~~l~~~~f~--  376 (680)
T 1ziw_A          301 LNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDN-DIPGIKS-NMFTGLINLKYLSLSNSFTSLRTLTNETFV--  376 (680)
T ss_dssp             EECTTCBCCC------CCEECTTTTTTCTTCCEEECCSC-CBCCCCT-TTTTTCTTCCEEECTTCBSCCCEECTTTTG--
T ss_pred             EeccchhhhcccccccccccChhhcccCCCCCEEECCCC-ccCCCCh-hHhccccCCcEEECCCCchhhhhcchhhhc--
Confidence            666543211110000011     1334556666666554 2333322 2234455566666555431 1111110000  


Q ss_pred             CCcccccccccCCCCCCCCCCCCceeeeeeccCcchhhHHhhhcccccccccccCccceEeeccCCCcceeecCCccccC
Q 003328          400 TTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEF  479 (829)
Q Consensus       400 ~~~l~~~~i~~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~~~~~~~~~~  479 (829)
                                                                        ....++|+.|++.++. ++.+.. .....+
T Consensus       377 --------------------------------------------------~~~~~~L~~L~L~~n~-l~~~~~-~~~~~l  404 (680)
T 1ziw_A          377 --------------------------------------------------SLAHSPLHILNLTKNK-ISKIES-DAFSWL  404 (680)
T ss_dssp             --------------------------------------------------GGTTSCCCEEECTTSC-CCEECT-TTTTTC
T ss_pred             --------------------------------------------------ccccCcCceEECCCCC-CCeECh-hhhhCC
Confidence                                                              0112355556655553 222222 112245


Q ss_pred             CCccEEeeccCCCcceecccccCCCCCccceee-cccccccccccCCCccchhhhhhhhccccCCcceEEeccCCCceee
Q 003328          480 PSLERVSLTHCPNMKTFSHRILSIPKPCKVQVT-EKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREI  558 (829)
Q Consensus       480 ~~L~~L~i~~C~~l~~~~~~~~~~~l~~~L~~L-i~~c~~l~~~~~~~~~~~~~~~l~~~~~~~~L~~L~l~~c~~l~~~  558 (829)
                      ++|+.|+++++.--..++.. ....++. |+.| +.+|.-......            .+..+++|+.|+++++. ++.+
T Consensus       405 ~~L~~L~L~~N~l~~~~~~~-~~~~l~~-L~~L~Ls~n~l~~~~~~------------~~~~~~~L~~L~l~~n~-l~~~  469 (680)
T 1ziw_A          405 GHLEVLDLGLNEIGQELTGQ-EWRGLEN-IFEIYLSYNKYLQLTRN------------SFALVPSLQRLMLRRVA-LKNV  469 (680)
T ss_dssp             TTCCEEECCSSCCEEECCSG-GGTTCTT-CCEEECCSCSEEECCTT------------TTTTCTTCCEEECTTSC-CBCT
T ss_pred             CCCCEEeCCCCcCccccCcc-cccCccc-ccEEecCCCCcceeChh------------hhhcCcccccchhcccc-cccc
Confidence            56666666665422223211 1123333 5555 554432110000            11237788888888754 2211


Q ss_pred             ccCCCCCCCcCCCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCcchhhhhccCccccccccccccccccceeecC
Q 003328          559 WHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLI  638 (829)
Q Consensus       559 ~~~~~~~~~~l~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~~~L~~L~l~  638 (829)
                      . .....+..+++|+.|+++++. ++. +|...+..+++|++|+++++. ++.++.... .......-..+++|++|++.
T Consensus       470 ~-~~p~~~~~l~~L~~L~Ls~N~-l~~-i~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~-~~~~~~~~~~l~~L~~L~L~  544 (680)
T 1ziw_A          470 D-SSPSPFQPLRNLTILDLSNNN-IAN-INDDMLEGLEKLEILDLQHNN-LARLWKHAN-PGGPIYFLKGLSHLHILNLE  544 (680)
T ss_dssp             T-CSSCTTTTCTTCCEEECCSSC-CCC-CCTTTTTTCTTCCEEECCSSC-CGGGGSTTS-TTSCCCTTTTCTTCCEEECC
T ss_pred             c-cCCcccccCCCCCEEECCCCC-CCc-CChhhhccccccCEEeCCCCC-ccccchhhc-cCCcchhhcCCCCCCEEECC
Confidence            1 112334556889999998875 444 455555688899999999875 555432110 00000001146888888887


Q ss_pred             CCCCcceeccCCCccccCCCcCeEEEeCCCCCcccccCCcccccccCCCCccccchhhhhhhhhhhhhhccccCcccccc
Q 003328          639 DLPKLKRFCNFTGNIIEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENFLLVHQVQPLFNEKVGEEAKDC  718 (829)
Q Consensus       639 ~c~~L~~l~~~~~~~~~~~sL~~L~i~~C~~L~~l~~~~~~p~~l~~~~~~~~~~~~~~~~l~~L~~L~~~~~~~~~~~~  718 (829)
                      ++ +++.+  ++.....+++|+.|++++ .+++.+      |.....                                 
T Consensus       545 ~N-~l~~i--~~~~~~~l~~L~~L~Ls~-N~l~~l------~~~~~~---------------------------------  581 (680)
T 1ziw_A          545 SN-GFDEI--PVEVFKDLFELKIIDLGL-NNLNTL------PASVFN---------------------------------  581 (680)
T ss_dssp             SS-CCCCC--CTTTTTTCTTCCEEECCS-SCCCCC------CTTTTT---------------------------------
T ss_pred             CC-CCCCC--CHHHcccccCcceeECCC-CCCCcC------CHhHhC---------------------------------
Confidence            76 46666  222367788888888865 466666      322211                                 


Q ss_pred             eeecccccccccCCCCcccccCCCCccccCcccEEeeccCCc
Q 003328          719 IVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPT  760 (829)
Q Consensus       719 ~~~~sL~~L~l~~c~~L~~l~~~~~~~~~~sL~~L~i~~C~~  760 (829)
                       .+++|+.|+++++ .|+.++.......+++|++|++.++|-
T Consensus       582 -~l~~L~~L~L~~N-~l~~~~~~~~~~~~~~L~~l~l~~N~~  621 (680)
T 1ziw_A          582 -NQVSLKSLNLQKN-LITSVEKKVFGPAFRNLTELDMRFNPF  621 (680)
T ss_dssp             -TCTTCCEEECTTS-CCCBCCHHHHHHHHTTCSEEECTTCCC
T ss_pred             -CCCCCCEEECCCC-cCCccChhHhcccccccCEEEccCCCc
Confidence             2678888888886 677765443222468888888887663

>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=100.00  E-value=2.1e-32  Score=319.34  Aligned_cols=528  Identities=14%  Similarity=0.147  Sum_probs=284.8

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEcc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLD  101 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L~  101 (829)
                      ++++.++++++++|..+. +++++|++++|.    +..++...|.++++||+|++++|.++.+ |..+.++++||+|+++
T Consensus        14 ~~~~c~~~~l~~ip~~~~-~~l~~L~Ls~n~----l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls   88 (606)
T 3vq2_A           14 ITYQCMDQKLSKVPDDIP-SSTKNIDLSFNP----LKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILT   88 (606)
T ss_dssp             TEEECTTSCCSSCCTTSC-TTCCEEECTTSC----CCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECT
T ss_pred             CceEccCCCcccCCCCCC-CCcCEEECCCCC----cCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECC
Confidence            456666666666665432 566666666666    4455544456666666666666666653 4456666666666666


Q ss_pred             ccCCCCc--ccccCCCCCcEEEccCCCCccch-hhhcCCCCCCEEeccCCCCCC-ccChhhhcCCCcccEEEccCCcccc
Q 003328          102 WCQLEDV--AAIGQLKKLEILSFRGSDIKQLP-LEIGQLTRLQLLDLSNCSSLV-VIAPNVISKFSRLEELYMGDSFSQW  177 (829)
Q Consensus       102 ~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~l~-~lp~~~l~~L~~L~~L~l~~~~~~~  177 (829)
                      +|.++.+  ..|+++++|++|++++|.++.+| ..++++++|++|++++|.... .+|.. ++++++|++|++++|.+. 
T Consensus        89 ~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~-~~~l~~L~~L~Ls~n~l~-  166 (606)
T 3vq2_A           89 GNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAY-FSNLTNLVHVDLSYNYIQ-  166 (606)
T ss_dssp             TCCCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGG-GGTCTTCCEEECCSSCCC-
T ss_pred             CCcccccChhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHh-HhhcCCCCEEEccCCcce-
Confidence            6666654  45666666666666666666554 446666666666666665222 34554 666666666666666544 


Q ss_pred             ccccCCCccchhhhcCCCC-CcEEEeecCCCCCcCCcc-ccccccEEEEEEccccccCCCCCCCccEEEeccCCccccch
Q 003328          178 DKVEGGSNASLAELKGLSK-LTTLEIHVWDAQILPQDW-VSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLL  255 (829)
Q Consensus       178 ~~~~~~~~~~~~~L~~l~~-L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~l  255 (829)
                          +.....++.+.+++. +..|+++++.+..++... ...+|+.+++..+....                      ..
T Consensus       167 ----~~~~~~~~~l~~L~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~n~~~~----------------------~~  220 (606)
T 3vq2_A          167 ----TITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSS----------------------NI  220 (606)
T ss_dssp             ----EECTTTTHHHHHCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESCCSCH----------------------HH
T ss_pred             ----ecChhhhhhhhccccccceeeccCCCcceeCcccccCceeeeeeccCCccch----------------------hH
Confidence                111223344444433 446666666665554432 33355555554322100                      00


Q ss_pred             hhhhHHHhhhhheeEeecc--ccCcccc---c-cccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceecc
Q 003328          256 ENYGMKMLLKEAEEIHLIK--LKGVQNV---V-HELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLW  329 (829)
Q Consensus       256 ~~~~~~~~l~~L~~L~L~~--~~~~~~~---~-~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~  329 (829)
                      ... .-..+++++.+.+..  +.....+   . ..+..+..+ .++.+.+.....+....     .....+++|+.|++.
T Consensus       221 ~~~-~~~~l~~L~~l~l~~~~~~~~~~l~~~~~~~~~~l~~l-~l~~l~l~~~~~~~~~~-----~~~~~l~~L~~L~l~  293 (606)
T 3vq2_A          221 MKT-CLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDV-TIDEFRLTYTNDFSDDI-----VKFHCLANVSAMSLA  293 (606)
T ss_dssp             HHH-HHHTTTTCEEEEEEEECCTTSCCCSCCCGGGGTTGGGS-EEEEEEECCCTTCCGGG-----GSCGGGTTCSEEEEE
T ss_pred             HHH-HhccccccccccccccccccCCcccccChHHhhhhhhc-cHhheeccccccccccc-----cccccCCCCCEEEec
Confidence            000 000122333322211  1110000   0 000000011 23444443333322110     012345556666665


Q ss_pred             ccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecccCcceecccCCCCCCCcccccccc
Q 003328          330 FLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEIT  409 (829)
Q Consensus       330 ~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~l~~~~i~  409 (829)
                      ++.- +.     ++....+++|++|++.+|.- +.+|..    .+++|++|+++++..+...                  
T Consensus       294 ~~~~-~~-----l~~l~~~~~L~~L~l~~n~l-~~lp~~----~l~~L~~L~l~~n~~~~~~------------------  344 (606)
T 3vq2_A          294 GVSI-KY-----LEDVPKHFKWQSLSIIRCQL-KQFPTL----DLPFLKSLTLTMNKGSISF------------------  344 (606)
T ss_dssp             SCCC-CC-----CCCCCTTCCCSEEEEESCCC-SSCCCC----CCSSCCEEEEESCSSCEEC------------------
T ss_pred             Cccc-hh-----hhhccccccCCEEEcccccC-cccccC----CCCccceeeccCCcCccch------------------
Confidence            5432 11     22244667777777777754 665532    5677777777776444322                  


Q ss_pred             cCCCCCCCCCCCCceeeeeeccCcchhhHHhhhcccccccccccCccceEeeccCCCcceee-cCCccccCCCccEEeec
Q 003328          410 ADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFC-LENYTLEFPSLERVSLT  488 (829)
Q Consensus       410 ~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~~-~~~~~~~~~~L~~L~i~  488 (829)
                                                             ....+++|+.|+++++. ++... .......+++|++|+++
T Consensus       345 ---------------------------------------~~~~l~~L~~L~ls~n~-l~~~~~~~~~~~~~~~L~~L~L~  384 (606)
T 3vq2_A          345 ---------------------------------------KKVALPSLSYLDLSRNA-LSFSGCCSYSDLGTNSLRHLDLS  384 (606)
T ss_dssp             ---------------------------------------CCCCCTTCCEEECCSSC-EEEEEECCHHHHCCSCCCEEECC
T ss_pred             ---------------------------------------hhccCCCCCEEECcCCc-cCCCcchhhhhccCCcccEeECC
Confidence                                                   12346667777776652 22221 11122356777777777


Q ss_pred             cCCCcceecccccCCCCCccceeecccccccccccCCCccchhhhhhhhccccCCcceEEeccCCCceeeccCCCCCCCc
Q 003328          489 HCPNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSF  568 (829)
Q Consensus       489 ~C~~l~~~~~~~~~~~l~~~L~~Li~~c~~l~~~~~~~~~~~~~~~l~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~  568 (829)
                      +|. ++.+|.     .                                 +..+++|++|+++++. +.....  ...+..
T Consensus       385 ~n~-l~~~~~-----~---------------------------------~~~l~~L~~L~l~~n~-l~~~~~--~~~~~~  422 (606)
T 3vq2_A          385 FNG-AIIMSA-----N---------------------------------FMGLEELQHLDFQHST-LKRVTE--FSAFLS  422 (606)
T ss_dssp             SCS-EEEECC-----C---------------------------------CTTCTTCCEEECTTSE-EESTTT--TTTTTT
T ss_pred             CCc-cccchh-----h---------------------------------ccCCCCCCeeECCCCc-cCCccC--hhhhhc
Confidence            764 444421     1                                 1126778888887754 333221  022344


Q ss_pred             CCCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCcchhh-hhccCccccccccccccccccceeecCCCCCcceec
Q 003328          569 FNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEE-VLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFC  647 (829)
Q Consensus       569 l~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~~-l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~  647 (829)
                      +++|+.|++++|.... ..|. .+..+++|++|++++|.--.. ++...+          .+++|++|++.+| +++.+ 
T Consensus       423 l~~L~~L~l~~n~l~~-~~~~-~~~~l~~L~~L~l~~n~l~~~~~~~~~~----------~l~~L~~L~Ls~n-~l~~~-  488 (606)
T 3vq2_A          423 LEKLLYLDISYTNTKI-DFDG-IFLGLTSLNTLKMAGNSFKDNTLSNVFA----------NTTNLTFLDLSKC-QLEQI-  488 (606)
T ss_dssp             CTTCCEEECTTSCCEE-CCTT-TTTTCTTCCEEECTTCEEGGGEECSCCT----------TCTTCCEEECTTS-CCCEE-
T ss_pred             cccCCEEECcCCCCCc-cchh-hhcCCCCCCEEECCCCcCCCcchHHhhc----------cCCCCCEEECCCC-cCCcc-
Confidence            6888888888887443 2343 345788888888888863322 233222          5788888888887 45555 


Q ss_pred             cCCCccccCCCcCeEEEeCCCCCcccccCCcccccccCCCCccccchhhhhhhhhhhhhhccccCcccccceeecccccc
Q 003328          648 NFTGNIIEMPVLCSLAIENCTDMETFISNSVVHATTDNKEPQKLTSEENFLLVHQVQPLFNEKVGEEAKDCIVFRELEYL  727 (829)
Q Consensus       648 ~~~~~~~~~~sL~~L~i~~C~~L~~l~~~~~~p~~l~~~~~~~~~~~~~~~~l~~L~~L~~~~~~~~~~~~~~~~sL~~L  727 (829)
                       .+.....+++|++|++++| .++.+     .|..+..                                   +++|+.|
T Consensus       489 -~~~~~~~l~~L~~L~Ls~N-~l~~~-----~~~~~~~-----------------------------------l~~L~~L  526 (606)
T 3vq2_A          489 -SWGVFDTLHRLQLLNMSHN-NLLFL-----DSSHYNQ-----------------------------------LYSLSTL  526 (606)
T ss_dssp             -CTTTTTTCTTCCEEECCSS-CCSCE-----EGGGTTT-----------------------------------CTTCCEE
T ss_pred             -ChhhhcccccCCEEECCCC-cCCCc-----CHHHccC-----------------------------------CCcCCEE
Confidence             2344778888999999887 44444     2444443                                   6788888


Q ss_pred             cccCCCCcccccCCCCccccC-cccEEeeccCCc
Q 003328          728 TLDCLPSLTSFSLGNYALEFP-SLEHVVVRQCPT  760 (829)
Q Consensus       728 ~l~~c~~L~~l~~~~~~~~~~-sL~~L~i~~C~~  760 (829)
                      +++++. ++.+|...  ..++ +|++|++.++|-
T Consensus       527 ~l~~N~-l~~~p~~~--~~l~~~L~~l~l~~N~~  557 (606)
T 3vq2_A          527 DCSFNR-IETSKGIL--QHFPKSLAFFNLTNNSV  557 (606)
T ss_dssp             ECTTSC-CCCEESCG--GGSCTTCCEEECCSCCC
T ss_pred             ECCCCc-CcccCHhH--hhhcccCcEEEccCCCc
Confidence            888874 88887662  3455 588898888764

>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=100.00  E-value=4.8e-32  Score=320.74  Aligned_cols=583  Identities=16%  Similarity=0.133  Sum_probs=354.6

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEcc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLD  101 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L~  101 (829)
                      +.++.+++++.++|..+. +++++|++++|.    +..+|...|.++++|++|++++|.++.+ |..++++++||+|+++
T Consensus         7 ~~~~cs~~~L~~ip~~~~-~~l~~L~Ls~n~----l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~   81 (680)
T 1ziw_A            7 EVADCSHLKLTQVPDDLP-TNITVLNLTHNQ----LRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQ   81 (680)
T ss_dssp             SEEECCSSCCSSCCSCSC-TTCSEEECCSSC----CCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECC
T ss_pred             CeeECCCCCccccccccC-CCCcEEECCCCC----CCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECC
Confidence            578899999999997654 789999999998    6778877789999999999999999885 6778999999999999


Q ss_pred             ccCCCCc--ccccCCCCCcEEEccCCCCccch-hhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccc
Q 003328          102 WCQLEDV--AAIGQLKKLEILSFRGSDIKQLP-LEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD  178 (829)
Q Consensus       102 ~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~  178 (829)
                      +|.+..+  ..|+++++|++|++++|.++.+| ..++++++|++|++++|. +...+...++++++|++|++++|.+.  
T Consensus        82 ~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~n~l~--  158 (680)
T 1ziw_A           82 HNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNG-LSSTKLGTQVQLENLQELLLSNNKIQ--  158 (680)
T ss_dssp             SSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCSSC-CSCCCCCSSSCCTTCCEEECCSSCCC--
T ss_pred             CCccCccChhhhccCCCCCEEECCCCccCccChhHccccCCCCEEECCCCc-ccccCchhhcccccCCEEEccCCccc--
Confidence            9999988  46999999999999999999886 569999999999999987 44444433889999999999998765  


Q ss_pred             cccCCCccchhhh--cCCCCCcEEEeecCCCCCcCCcc--ccccccEEEEEEccccccCCCCCCCccEEEeccCCccccc
Q 003328          179 KVEGGSNASLAEL--KGLSKLTTLEIHVWDAQILPQDW--VSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTL  254 (829)
Q Consensus       179 ~~~~~~~~~~~~L--~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~  254 (829)
                            ......+  ..+++|+.|+++++.+..++...  .+.+|+.+.+......+                     ..
T Consensus       159 ------~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~---------------------~~  211 (680)
T 1ziw_A          159 ------ALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGP---------------------SL  211 (680)
T ss_dssp             ------CBCHHHHGGGTTCEESEEECTTCCCCCBCTTGGGGSSEECEEECTTCCCHH---------------------HH
T ss_pred             ------ccCHHHhhccccccccEEECCCCcccccChhhhhhhhhhhhhhccccccCh---------------------hh
Confidence                  1122222  35678999999999887665432  45566665442111100                     00


Q ss_pred             hhhhhHHHhhhhheeEeeccccCccccccccCCCCCC--CCCcEEEEeecCCceEEecccCcccccccccccceeccccc
Q 003328          255 LENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGF--PRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLS  332 (829)
Q Consensus       255 l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~--~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~  332 (829)
                      ..........++++.|++.++.-.......+.   .+  ++|++|+++++.- ..+...    ....+++|+.|++.++.
T Consensus       212 ~~~~~~~l~~~~L~~L~L~~n~l~~~~~~~~~---~l~~~~L~~L~Ls~n~l-~~~~~~----~~~~l~~L~~L~L~~n~  283 (680)
T 1ziw_A          212 TEKLCLELANTSIRNLSLSNSQLSTTSNTTFL---GLKWTNLTMLDLSYNNL-NVVGND----SFAWLPQLEYFFLEYNN  283 (680)
T ss_dssp             HHHHHHHHTTSCCCEEECTTSCCCEECTTTTG---GGGGSCCCEEECTTSCC-CEECTT----TTTTCTTCCEEECCSCC
T ss_pred             HHHHHHHhhhccccEEEccCCcccccChhHhh---ccCcCCCCEEECCCCCc-CccCcc----cccCcccccEeeCCCCc
Confidence            00000000124566666665532221112221   22  3366666666542 222110    12335556666665543


Q ss_pred             cchhhhcCCCCCCCCCCCccEEEEecCCCCc-----cccch--HHHHhhcccceEEEecccCcceecccCCCCCCCcccc
Q 003328          333 NLETICDSQLTEDQSFSNLRIIEVKSCDKLK-----HLFSF--SMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGF  405 (829)
Q Consensus       333 ~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~-----~l~~~--~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~l~~  405 (829)
                      -- .....   ....+++|+.|++.++..-.     .+|..  ..+..+++|++|+++++. +..+.             
T Consensus       284 l~-~~~~~---~~~~l~~L~~L~L~~~~~~~~~~~~~lp~i~~~~~~~l~~L~~L~l~~n~-l~~~~-------------  345 (680)
T 1ziw_A          284 IQ-HLFSH---SLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDND-IPGIK-------------  345 (680)
T ss_dssp             BS-EECTT---TTTTCTTCCEEECTTCBCCC------CCEECTTTTTTCTTCCEEECCSCC-BCCCC-------------
T ss_pred             cC-ccChh---hhcCCCCccEEeccchhhhcccccccccccChhhcccCCCCCEEECCCCc-cCCCC-------------
Confidence            21 11110   12345555555555432110     00000  012233444444444332 11110             


Q ss_pred             cccccCCCCCCCCCCCCceeeeeeccCcchhhHHhhhcccccccccccCccceEeeccCC-CcceeecCCcc-ccCCCcc
Q 003328          406 NEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLP-TLTSFCLENYT-LEFPSLE  483 (829)
Q Consensus       406 ~~i~~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~L~~L~l~~c~-~L~~~~~~~~~-~~~~~L~  483 (829)
                                                               +..+..+++|+.|++.++. .+..++..... ...++|+
T Consensus       346 -----------------------------------------~~~~~~l~~L~~L~Ls~n~~~~~~l~~~~f~~~~~~~L~  384 (680)
T 1ziw_A          346 -----------------------------------------SNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLH  384 (680)
T ss_dssp             -----------------------------------------TTTTTTCTTCCEEECTTCBSCCCEECTTTTGGGTTSCCC
T ss_pred             -----------------------------------------hhHhccccCCcEEECCCCchhhhhcchhhhcccccCcCc
Confidence                                                     2234567888888888764 23333322111 1236788


Q ss_pred             EEeeccCCCcceecccccCCCCCccceee-cccccccccccCCCccchhhhhhhhccccCCcceEEeccCCCceeeccCC
Q 003328          484 RVSLTHCPNMKTFSHRILSIPKPCKVQVT-EKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQ  562 (829)
Q Consensus       484 ~L~i~~C~~l~~~~~~~~~~~l~~~L~~L-i~~c~~l~~~~~~~~~~~~~~~l~~~~~~~~L~~L~l~~c~~l~~~~~~~  562 (829)
                      .|++++|. ++.++.. ....++. |+.| +.++.-.....+.           .+.++++|++|+++++. +..+... 
T Consensus       385 ~L~L~~n~-l~~~~~~-~~~~l~~-L~~L~L~~N~l~~~~~~~-----------~~~~l~~L~~L~Ls~n~-l~~~~~~-  448 (680)
T 1ziw_A          385 ILNLTKNK-ISKIESD-AFSWLGH-LEVLDLGLNEIGQELTGQ-----------EWRGLENIFEIYLSYNK-YLQLTRN-  448 (680)
T ss_dssp             EEECTTSC-CCEECTT-TTTTCTT-CCEEECCSSCCEEECCSG-----------GGTTCTTCCEEECCSCS-EEECCTT-
T ss_pred             eEECCCCC-CCeEChh-hhhCCCC-CCEEeCCCCcCccccCcc-----------cccCcccccEEecCCCC-cceeChh-
Confidence            88888874 4444322 1234455 7777 6666432111110           12236778888887764 4444322 


Q ss_pred             CCCCCcCCCCcEEEEecCCCCc-cccchhhHHhccCCcEEEEecCcchhhhhcc-CccccccccccccccccceeecCCC
Q 003328          563 ALPVSFFNNLSDLVVDDCTNMS-SAIPANLLRCFNNLVLLEVRNCDSLEEVLHL-EELNADKEHIGPLFLELSLLGLIDL  640 (829)
Q Consensus       563 ~~~~~~l~~L~~L~i~~C~~L~-~~~p~~~~~~l~sL~~L~i~~C~~L~~l~~~-~~~~~~~~~~~~~~~~L~~L~l~~c  640 (829)
                        .+..+++|+.|+++++..-. ...|.. +..+++|+.|+++++. ++.++.. ..          .+++|++|+++++
T Consensus       449 --~~~~~~~L~~L~l~~n~l~~~~~~p~~-~~~l~~L~~L~Ls~N~-l~~i~~~~~~----------~l~~L~~L~Ls~N  514 (680)
T 1ziw_A          449 --SFALVPSLQRLMLRRVALKNVDSSPSP-FQPLRNLTILDLSNNN-IANINDDMLE----------GLEKLEILDLQHN  514 (680)
T ss_dssp             --TTTTCTTCCEEECTTSCCBCTTCSSCT-TTTCTTCCEEECCSSC-CCCCCTTTTT----------TCTTCCEEECCSS
T ss_pred             --hhhcCcccccchhccccccccccCCcc-cccCCCCCEEECCCCC-CCcCChhhhc----------cccccCEEeCCCC
Confidence              23345788888887765321 113433 3577788888888765 4444331 11          4677888888765


Q ss_pred             CCcceeccCC------CccccCCCcCeEEEeCCCCCcccccCCccccc-ccCCCCccccchhhhhhhhhhhhhhccccCc
Q 003328          641 PKLKRFCNFT------GNIIEMPVLCSLAIENCTDMETFISNSVVHAT-TDNKEPQKLTSEENFLLVHQVQPLFNEKVGE  713 (829)
Q Consensus       641 ~~L~~l~~~~------~~~~~~~sL~~L~i~~C~~L~~l~~~~~~p~~-l~~~~~~~~~~~~~~~~l~~L~~L~~~~~~~  713 (829)
                      . ++.++...      .....+++|+.|+++++ .++.+      |.. +.                             
T Consensus       515 ~-l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~N-~l~~i------~~~~~~-----------------------------  557 (680)
T 1ziw_A          515 N-LARLWKHANPGGPIYFLKGLSHLHILNLESN-GFDEI------PVEVFK-----------------------------  557 (680)
T ss_dssp             C-CGGGGSTTSTTSCCCTTTTCTTCCEEECCSS-CCCCC------CTTTTT-----------------------------
T ss_pred             C-ccccchhhccCCcchhhcCCCCCCEEECCCC-CCCCC------CHHHcc-----------------------------
Confidence            3 44443210      11466778888888765 45554      221 22                             


Q ss_pred             ccccceeecccccccccCCCCcccccCCCCccccCcccEEeeccCCcceeecCC-CC-CCCCceeeeccCCC
Q 003328          714 EAKDCIVFRELEYLTLDCLPSLTSFSLGNYALEFPSLEHVVVRQCPTMKIFSQG-GV-DAPKLNKVKPTEEE  783 (829)
Q Consensus       714 ~~~~~~~~~sL~~L~l~~c~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~l~~~-~~-~~p~L~~l~i~~~~  783 (829)
                            .+++|+.|+++++ +|+.++.+.. ..+++|++|+++++ +++.++.. .. .+++|+.+++.++.
T Consensus       558 ------~l~~L~~L~Ls~N-~l~~l~~~~~-~~l~~L~~L~L~~N-~l~~~~~~~~~~~~~~L~~l~l~~N~  620 (680)
T 1ziw_A          558 ------DLFELKIIDLGLN-NLNTLPASVF-NNQVSLKSLNLQKN-LITSVEKKVFGPAFRNLTELDMRFNP  620 (680)
T ss_dssp             ------TCTTCCEEECCSS-CCCCCCTTTT-TTCTTCCEEECTTS-CCCBCCHHHHHHHHTTCSEEECTTCC
T ss_pred             ------cccCcceeECCCC-CCCcCCHhHh-CCCCCCCEEECCCC-cCCccChhHhcccccccCEEEccCCC
Confidence                  3789999999874 7888876543 35799999999998 67766653 33 67899999998754

>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=100.00  E-value=1.8e-32  Score=320.00  Aligned_cols=187  Identities=17%  Similarity=0.138  Sum_probs=139.6

Q ss_pred             CcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-CchhhcCCCCCcEEEc
Q 003328           22 PIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-LPSSLGRLINLQTLCL  100 (829)
Q Consensus        22 l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lp~~l~~l~~Lr~L~L  100 (829)
                      -++++.++.++.++|..+. +++++|++++|.    +..++...|.++++||+|++++|.+.. .|..+.++++|++|++
T Consensus        14 ~~~~~c~~~~l~~iP~~l~-~~l~~L~Ls~n~----i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L   88 (606)
T 3t6q_A           14 NKTYNCENLGLNEIPGTLP-NSTECLEFSFNV----LPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVL   88 (606)
T ss_dssp             TTEEECTTSCCSSCCTTSC-TTCCEEECTTCC----CSEECTTTSTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEEC
T ss_pred             CceEECCCCCcccCcCCCC-CcCcEEEccCCc----cCcCChhHhccCccceEEECCCCccceeChhhccCccccCeeeC
Confidence            4577888888888887652 368899998888    566655557889999999999888876 4677888999999999


Q ss_pred             cccCCCCc--ccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCCCCCcc--ChhhhcCCCcccEEEccCCcc
Q 003328          101 DWCQLEDV--AAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVI--APNVISKFSRLEELYMGDSFS  175 (829)
Q Consensus       101 ~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~l~~l--p~~~l~~L~~L~~L~l~~~~~  175 (829)
                      ++|.+..+  ..++++++|++|++++|.++.+ |..++++++|++|++++|. +..+  |.  +..+++|++|++++|.+
T Consensus        89 s~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~l~~~~~~~l~~L~~L~L~~n~-l~~~~~~~--~~~l~~L~~L~L~~n~l  165 (606)
T 3t6q_A           89 TANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNH-ISSIKLPK--GFPTEKLKVLDFQNNAI  165 (606)
T ss_dssp             TTCCCSEECTTTTSSCTTCCEEECTTSCCSCGGGSCCTTCTTCCEEECCSSC-CCCCCCCT--TCCCTTCCEEECCSSCC
T ss_pred             CCCcccccChhhhcccccccEeeccccCcccCCcchhccCCcccEEECCCCc-ccccCccc--ccCCcccCEEEcccCcc
Confidence            99888766  6788899999999999888877 5668888999999998887 5554  43  45688899999888866


Q ss_pred             ccccccCCCccchhhhcCCCCCc--EEEeecCCCCCcCCc-cccccccEEEE
Q 003328          176 QWDKVEGGSNASLAELKGLSKLT--TLEIHVWDAQILPQD-WVSVELQRYKI  224 (829)
Q Consensus       176 ~~~~~~~~~~~~~~~L~~l~~L~--~L~l~~~~~~~~~~~-~~~~~L~~L~l  224 (829)
                      .        ......++.+++|+  .|+++++.+..++.. +...+|+.+++
T Consensus       166 ~--------~~~~~~~~~l~~L~~l~L~l~~n~l~~~~~~~~~~~~L~~L~l  209 (606)
T 3t6q_A          166 H--------YLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNF  209 (606)
T ss_dssp             C--------EECHHHHHTTTTCCSEEEECTTCCCCEECTTTTTTCEEEEEEC
T ss_pred             c--------ccChhhhhhhcccceeEEecCCCccCccChhHhhhcccccccc
Confidence            4        23345566677777  778888777655443 23334444443

>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=100.00  E-value=2.7e-31  Score=309.97  Aligned_cols=519  Identities=16%  Similarity=0.130  Sum_probs=327.9

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCC-cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPE-RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-   85 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-   85 (829)
                      ++..+|. ..++++++|++++|.+..+++ .+ ++++||+|++++|.    +..+++..|.++++||+|++++|.++.+ 
T Consensus        22 ~l~~ip~-~~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~----l~~i~~~~~~~l~~L~~L~Ls~n~l~~~~   96 (606)
T 3vq2_A           22 KLSKVPD-DIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCE----IETIEDKAWHGLHHLSNLILTGNPIQSFS   96 (606)
T ss_dssp             CCSSCCT-TSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC----CCEECTTTTTTCTTCCEEECTTCCCCCCC
T ss_pred             CcccCCC-CCCCCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCc----ccccCHHHhhchhhcCEeECCCCcccccC
Confidence            4455553 456899999999999998876 33 89999999999998    6677666679999999999999999986 


Q ss_pred             chhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCc--cchhhhcCCCCCCEEeccCCCCCCccChhhhcC
Q 003328           86 PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIK--QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISK  161 (829)
Q Consensus        86 p~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~--~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~  161 (829)
                      |..++++++|++|++++|.+..+  ..++++++|++|++++|.++  .+|..++++++|++|++++|. +..++...++.
T Consensus        97 p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~  175 (606)
T 3vq2_A           97 PGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNY-IQTITVNDLQF  175 (606)
T ss_dssp             TTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSC-CCEECTTTTHH
T ss_pred             hhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccCCc-ceecChhhhhh
Confidence            88899999999999999999876  68999999999999999998  579999999999999999987 66665443666


Q ss_pred             CCccc----EEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCC--CcCCc-cccccccEEEEEEccccccCC
Q 003328          162 FSRLE----ELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ--ILPQD-WVSVELQRYKICIGEARRIWP  234 (829)
Q Consensus       162 L~~L~----~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~--~~~~~-~~~~~L~~L~l~~~~~~~~w~  234 (829)
                      +.+|+    +|+++++.+.         ..........+|+.|+++++...  .++.. ..+.+|+.+.+..+.......
T Consensus       176 l~~L~~~l~~L~l~~n~l~---------~~~~~~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~  246 (606)
T 3vq2_A          176 LRENPQVNLSLDMSLNPID---------FIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERN  246 (606)
T ss_dssp             HHHCTTCCCEEECTTCCCC---------EECTTTTTTCEEEEEEEESCCSCHHHHHHHHHTTTTCEEEEEEEECCTTSCC
T ss_pred             hhccccccceeeccCCCcc---------eeCcccccCceeeeeeccCCccchhHHHHHhccccccccccccccccccCCc
Confidence            66655    8999998765         11122223337999999998764  12222 256777777765433211000


Q ss_pred             CCCCCccEEEeccCCccccchhhhhHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCc
Q 003328          235 VNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGR  314 (829)
Q Consensus       235 ~~~~~~~~~~l~~~~~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~  314 (829)
                      -          .....  ..  ..+...  -.++.+.+............+.   .+++|+.|.+.++.. ..+   +  
T Consensus       247 l----------~~~~~--~~--~~~l~~--l~l~~l~l~~~~~~~~~~~~~~---~l~~L~~L~l~~~~~-~~l---~--  301 (606)
T 3vq2_A          247 L----------EIFEP--SI--MEGLCD--VTIDEFRLTYTNDFSDDIVKFH---CLANVSAMSLAGVSI-KYL---E--  301 (606)
T ss_dssp             C----------SCCCG--GG--GTTGGG--SEEEEEEECCCTTCCGGGGSCG---GGTTCSEEEEESCCC-CCC---C--
T ss_pred             c----------cccCh--HH--hhhhhh--ccHhheeccccccccccccccc---cCCCCCEEEecCccc-hhh---h--
Confidence            0          00000  00  000000  1355555544444444333333   778888888887763 222   1  


Q ss_pred             ccccccccccceeccccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecccCcceeccc
Q 003328          315 VRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGP  394 (829)
Q Consensus       315 ~~~~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~  394 (829)
                       ....+++|++|++.++.- ..     +|.. .+++|++|++.++..+...+    ...+++|++|+++++. +......
T Consensus       302 -~l~~~~~L~~L~l~~n~l-~~-----lp~~-~l~~L~~L~l~~n~~~~~~~----~~~l~~L~~L~ls~n~-l~~~~~~  368 (606)
T 3vq2_A          302 -DVPKHFKWQSLSIIRCQL-KQ-----FPTL-DLPFLKSLTLTMNKGSISFK----KVALPSLSYLDLSRNA-LSFSGCC  368 (606)
T ss_dssp             -CCCTTCCCSEEEEESCCC-SS-----CCCC-CCSSCCEEEEESCSSCEECC----CCCCTTCCEEECCSSC-EEEEEEC
T ss_pred             -hccccccCCEEEcccccC-cc-----cccC-CCCccceeeccCCcCccchh----hccCCCCCEEECcCCc-cCCCcch
Confidence             234567788888888765 32     4434 77888888888886665542    2457888888888763 2222100


Q ss_pred             CCCCCCCcccccccccCCCCCCCCCCCCceeeeeeccCcchhhHHhhhcccccccccccCccceEeeccCCCcceeecCC
Q 003328          395 DREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLEN  474 (829)
Q Consensus       395 ~~~~~~~~l~~~~i~~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~~~~~  474 (829)
                                                                          +.....+++|+.|++.++. ++.++  .
T Consensus       369 ----------------------------------------------------~~~~~~~~~L~~L~L~~n~-l~~~~--~  393 (606)
T 3vq2_A          369 ----------------------------------------------------SYSDLGTNSLRHLDLSFNG-AIIMS--A  393 (606)
T ss_dssp             ----------------------------------------------------CHHHHCCSCCCEEECCSCS-EEEEC--C
T ss_pred             ----------------------------------------------------hhhhccCCcccEeECCCCc-cccch--h
Confidence                                                                0112334455555555443 33333  1


Q ss_pred             ccccCCCccEEeeccCCCcceecccccCCCCCccceee-cccccccccccCCCccchhhhhhhhccccCCcceEEeccCC
Q 003328          475 YTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVT-EKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFP  553 (829)
Q Consensus       475 ~~~~~~~L~~L~i~~C~~l~~~~~~~~~~~l~~~L~~L-i~~c~~l~~~~~~~~~~~~~~~l~~~~~~~~L~~L~l~~c~  553 (829)
                      ....+++|+.|++++|. +...+.......++. |+.| +.+|.-....+.            .+..+++|++|+++++.
T Consensus       394 ~~~~l~~L~~L~l~~n~-l~~~~~~~~~~~l~~-L~~L~l~~n~l~~~~~~------------~~~~l~~L~~L~l~~n~  459 (606)
T 3vq2_A          394 NFMGLEELQHLDFQHST-LKRVTEFSAFLSLEK-LLYLDISYTNTKIDFDG------------IFLGLTSLNTLKMAGNS  459 (606)
T ss_dssp             CCTTCTTCCEEECTTSE-EESTTTTTTTTTCTT-CCEEECTTSCCEECCTT------------TTTTCTTCCEEECTTCE
T ss_pred             hccCCCCCCeeECCCCc-cCCccChhhhhcccc-CCEEECcCCCCCccchh------------hhcCCCCCCEEECCCCc
Confidence            22245555555555542 222211001123333 5555 444432211110            11237888888888864


Q ss_pred             CceeeccCCCCCCCcCCCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCcchhhh-hccCcccccccccccccccc
Q 003328          554 RLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEV-LHLEELNADKEHIGPLFLEL  632 (829)
Q Consensus       554 ~l~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~~l-~~~~~~~~~~~~~~~~~~~L  632 (829)
                      -.....   ...+..+++|+.|++++|. ++.+.|. .+..+++|++|++++|. +..+ +...+          .+++|
T Consensus       460 l~~~~~---~~~~~~l~~L~~L~Ls~n~-l~~~~~~-~~~~l~~L~~L~Ls~N~-l~~~~~~~~~----------~l~~L  523 (606)
T 3vq2_A          460 FKDNTL---SNVFANTTNLTFLDLSKCQ-LEQISWG-VFDTLHRLQLLNMSHNN-LLFLDSSHYN----------QLYSL  523 (606)
T ss_dssp             EGGGEE---CSCCTTCTTCCEEECTTSC-CCEECTT-TTTTCTTCCEEECCSSC-CSCEEGGGTT----------TCTTC
T ss_pred             CCCcch---HHhhccCCCCCEEECCCCc-CCccChh-hhcccccCCEEECCCCc-CCCcCHHHcc----------CCCcC
Confidence            222121   1223456889999998884 4443343 44678899999999885 4443 33322          57889


Q ss_pred             ceeecCCCCCcceeccCCCccccCC-CcCeEEEeCCCC
Q 003328          633 SLLGLIDLPKLKRFCNFTGNIIEMP-VLCSLAIENCTD  669 (829)
Q Consensus       633 ~~L~l~~c~~L~~l~~~~~~~~~~~-sL~~L~i~~C~~  669 (829)
                      ++|+++++. ++.+   +..+..++ +|+.|++.+++-
T Consensus       524 ~~L~l~~N~-l~~~---p~~~~~l~~~L~~l~l~~N~~  557 (606)
T 3vq2_A          524 STLDCSFNR-IETS---KGILQHFPKSLAFFNLTNNSV  557 (606)
T ss_dssp             CEEECTTSC-CCCE---ESCGGGSCTTCCEEECCSCCC
T ss_pred             CEEECCCCc-Cccc---CHhHhhhcccCcEEEccCCCc
Confidence            999998875 7777   44466776 599999988654

>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=100.00  E-value=1.7e-30  Score=303.33  Aligned_cols=183  Identities=13%  Similarity=0.121  Sum_probs=148.1

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCC-cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-C
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPE-RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-L   85 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-l   85 (829)
                      ++...|. ..++++++|++++|.+..+++ .+ ++++||+|++++|.    +..+++..|.++++|++|++++|.++. .
T Consensus        23 ~l~~iP~-~l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~----i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~   97 (606)
T 3t6q_A           23 GLNEIPG-TLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQ----IYWIHEDTFQSQHRLDTLVLTANPLIFMA   97 (606)
T ss_dssp             CCSSCCT-TSCTTCCEEECTTCCCSEECTTTSTTCTTCSEEECTTCC----CCEECTTTTTTCTTCCEEECTTCCCSEEC
T ss_pred             CcccCcC-CCCCcCcEEEccCCccCcCChhHhccCccceEEECCCCc----cceeChhhccCccccCeeeCCCCcccccC
Confidence            3444442 346789999999999998854 44 89999999999998    556655557999999999999999987 5


Q ss_pred             chhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccch-hhhcCCCCCCEEeccCCCCCCccChhhhcCC
Q 003328           86 PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLP-LEIGQLTRLQLLDLSNCSSLVVIAPNVISKF  162 (829)
Q Consensus        86 p~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L  162 (829)
                      |..++.+++|++|++++|.++.+  ..++++++|++|++++|.++.++ ..+..+++|++|++++|. +..++...++.+
T Consensus        98 ~~~~~~l~~L~~L~L~~n~i~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l  176 (606)
T 3t6q_A           98 ETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNA-IHYLSKEDMSSL  176 (606)
T ss_dssp             TTTTSSCTTCCEEECTTSCCSCGGGSCCTTCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSC-CCEECHHHHHTT
T ss_pred             hhhhcccccccEeeccccCcccCCcchhccCCcccEEECCCCcccccCcccccCCcccCEEEcccCc-ccccChhhhhhh
Confidence            77899999999999999999987  78999999999999999998762 344559999999999987 677766558999


Q ss_pred             Cccc--EEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCC
Q 003328          163 SRLE--ELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWD  206 (829)
Q Consensus       163 ~~L~--~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~  206 (829)
                      ++|+  +|++++|.+.         ..........+|+.|++.++.
T Consensus       177 ~~L~~l~L~l~~n~l~---------~~~~~~~~~~~L~~L~l~~~~  213 (606)
T 3t6q_A          177 QQATNLSLNLNGNDIA---------GIEPGAFDSAVFQSLNFGGTQ  213 (606)
T ss_dssp             TTCCSEEEECTTCCCC---------EECTTTTTTCEEEEEECTTCS
T ss_pred             cccceeEEecCCCccC---------ccChhHhhhccccccccCCch
Confidence            9999  8999988765         111222234578999998765

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

Probab=99.97  E-value=3.5e-29  Score=290.08  Aligned_cols=147  Identities=20%  Similarity=0.228  Sum_probs=74.3

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEcc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLD  101 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~L~  101 (829)
                      ++++-++.++.++|..+ .+++++|++++|.    +..++...|.++++|++|++++|.++.++ ..+.++++||+|+++
T Consensus        10 ~~~~c~~~~l~~ip~~l-~~~l~~L~Ls~n~----l~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~   84 (570)
T 2z63_A           10 ITYQCMELNFYKIPDNL-PFSTKNLDLSFNP----LRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILT   84 (570)
T ss_dssp             TEEECCSSCCSSCCSSS-CSSCCEEECCSCC----CCEECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECT
T ss_pred             cEEEeCCCCccccCCCc-cccccEEEccCCc----cCccChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCc
Confidence            34444444555555432 1345555555555    34444333455555555555555555432 334555555555555


Q ss_pred             ccCCCCc--ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCCCCC-ccChhhhcCCCcccEEEccCCcc
Q 003328          102 WCQLEDV--AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLV-VIAPNVISKFSRLEELYMGDSFS  175 (829)
Q Consensus       102 ~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~l~-~lp~~~l~~L~~L~~L~l~~~~~  175 (829)
                      +|.++.+  ..|+++++|++|++++|.++.+|. .++++++|++|++++|.... .+|.. ++++++|++|++++|.+
T Consensus        85 ~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~-~~~l~~L~~L~l~~n~l  161 (570)
T 2z63_A           85 GNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY-FSNLTNLEHLDLSSNKI  161 (570)
T ss_dssp             TCCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGG-GGGCTTCCEEECTTSCC
T ss_pred             CCcCCccCHhhhcCccccccccccccccccCCCccccccccccEEecCCCccceecChhh-hcccCCCCEEeCcCCcc
Confidence            5555544  345555555555555555555543 35555555555555554211 23444 55555555555555544

>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=99.97  E-value=7.9e-30  Score=293.95  Aligned_cols=485  Identities=15%  Similarity=0.132  Sum_probs=236.3

Q ss_pred             EEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEcccc
Q 003328           25 ISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWC  103 (829)
Q Consensus        25 L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~L~~~  103 (829)
                      .+.++++++++|..+. ++|++|++++|.    +..++...|.++++||+|++++|+++.++ ..++.+++|++|++++|
T Consensus        10 c~~~~~~l~~ip~~~~-~~L~~L~Ls~n~----l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n   84 (549)
T 2z81_A           10 CDGRSRSFTSIPSGLT-AAMKSLDLSFNK----ITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDN   84 (549)
T ss_dssp             EECTTSCCSSCCSCCC-TTCCEEECCSSC----CCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS
T ss_pred             EECCCCccccccccCC-CCccEEECcCCc----cCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCC
Confidence            3444555555554332 455555555555    33333222455555555555555555432 34555555555555555


Q ss_pred             CCCCc--ccccCCCCCcEEEccCCCCcc--chhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcccccc
Q 003328          104 QLEDV--AAIGQLKKLEILSFRGSDIKQ--LPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDK  179 (829)
Q Consensus       104 ~l~~l--~~i~~L~~L~~L~l~~~~l~~--lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~  179 (829)
                      .+..+  ..++++++|++|++++|.++.  .|..++++++|++|++++|..++.+|...++++++|++|++++|.+.   
T Consensus        85 ~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~---  161 (549)
T 2z81_A           85 HLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLR---  161 (549)
T ss_dssp             CCCSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCC---
T ss_pred             ccCccCHHHhccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCccc---
Confidence            55544  235555555555555555542  23445555555555555554444444322555555555555555433   


Q ss_pred             ccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc--ccccccEEEEEEccccccCCCCCCCccEEEeccCCccccchhh
Q 003328          180 VEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW--VSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLEN  257 (829)
Q Consensus       180 ~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~l~~  257 (829)
                           ......++.+++|+.|+++++....++...  .+++|+.|++..+.....-....                    
T Consensus       162 -----~~~~~~l~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~--------------------  216 (549)
T 2z81_A          162 -----NYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPL--------------------  216 (549)
T ss_dssp             -----EECTTTTTTCSEEEEEEEECSBSTTHHHHHHHSTTTBSEEEEESCBCTTCCCCCC--------------------
T ss_pred             -----ccChhhhhccccCceEecccCcccccchhhHhhcccccEEEccCCcccccccccc--------------------
Confidence                 122233444455555555555443333221  23444444443222110000000                    


Q ss_pred             hhHHHhhhhheeEeeccccCccc----cccccCCCCCCCCCcEEEEeecCCceEEecc--cCcccccccccccceecccc
Q 003328          258 YGMKMLLKEAEEIHLIKLKGVQN----VVHELDDGEGFPRLKHLWVERCSEILHIVGS--VGRVRCTIFPLLESLSLWFL  331 (829)
Q Consensus       258 ~~~~~~l~~L~~L~L~~~~~~~~----~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~--~~~~~~~~~~~L~~L~L~~~  331 (829)
                       ......++++.|++.++.-...    +...+   ..+++|+.+.+.+|.-.. +.+.  ..+.....+++|+.|.+.++
T Consensus       217 -~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~~---~~~~~L~~l~l~~~~~~~-~~~~~~~~~~~~~~l~~L~~L~l~~~  291 (549)
T 2z81_A          217 -PVDEVSSPMKKLAFRGSVLTDESFNELLKLL---RYILELSEVEFDDCTLNG-LGDFNPSESDVVSELGKVETVTIRRL  291 (549)
T ss_dssp             -SSCCCCCCCCEEEEESCEEEHHHHHHHHGGG---GGCTTCCEEEEESCEEEC-CSCCCCCTTTCCCCCTTCCEEEEESC
T ss_pred             -chhhhhhcccceeccccccchhHHHHHHHHh---hhhccccccccccccccc-cccccccchhhhhhhccccccccccc
Confidence             0000012333333333211100    01111   144555566555553110 0000  00011223444444444433


Q ss_pred             ccchhhhcCCCCC-CCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecccCcceecccCCCCCCCccccccccc
Q 003328          332 SNLETICDSQLTE-DQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITA  410 (829)
Q Consensus       332 ~~l~~~~~~~l~~-~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~l~~~~i~~  410 (829)
                      .--.......++. ...+++|++|++.++. ++.+|. .+...+++|++|+++++.-...++..                
T Consensus       292 ~i~~~~~~~~l~~~~~~~~~L~~L~l~~n~-l~~ip~-~~~~~l~~L~~L~Ls~N~l~~~~~~~----------------  353 (549)
T 2z81_A          292 HIPQFYLFYDLSTVYSLLEKVKRITVENSK-VFLVPC-SFSQHLKSLEFLDLSENLMVEEYLKN----------------  353 (549)
T ss_dssp             BCSCGGGSCCCCHHHHHSTTCCEEEEESSC-CCCCCH-HHHHHCTTCCEEECCSSCCCHHHHHH----------------
T ss_pred             ccchhhhcccchhhhhhcccceEEEeccCc-cccCCH-HHHhcCccccEEEccCCccccccccc----------------
Confidence            2111000000000 0123566666666653 555442 23345666666666665322111100                


Q ss_pred             CCCCCCCCCCCCceeeeeeccCcchhhHHhhhcccccccccccCccceEeeccCCCcceeec-CCccccCCCccEEeecc
Q 003328          411 DDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCL-ENYTLEFPSLERVSLTH  489 (829)
Q Consensus       411 ~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~~~-~~~~~~~~~L~~L~i~~  489 (829)
                                                          ......+++|+.|+++++ .++.++. +.....+++|++|++++
T Consensus       354 ------------------------------------~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~~~l~~L~~L~Ls~  396 (549)
T 2z81_A          354 ------------------------------------SACKGAWPSLQTLVLSQN-HLRSMQKTGEILLTLKNLTSLDISR  396 (549)
T ss_dssp             ------------------------------------HTCTTSSTTCCEEECTTS-CCCCHHHHHHHGGGCTTCCEEECTT
T ss_pred             ------------------------------------hhhhhccccCcEEEccCC-cccccccchhhhhcCCCCCEEECCC
Confidence                                                011345677778887776 3433321 11123677888888888


Q ss_pred             CCCcceecccccCCCCCccceeecccccccccccCCCccchhhhhhhhccccCCcceEEeccCCCceeeccCCCCCCCcC
Q 003328          490 CPNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFF  569 (829)
Q Consensus       490 C~~l~~~~~~~~~~~l~~~L~~Li~~c~~l~~~~~~~~~~~~~~~l~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~l  569 (829)
                      | +++.+|..                                      +..+++|++|+++++. ++.++..      .+
T Consensus       397 N-~l~~lp~~--------------------------------------~~~~~~L~~L~Ls~N~-l~~l~~~------~~  430 (549)
T 2z81_A          397 N-TFHPMPDS--------------------------------------CQWPEKMRFLNLSSTG-IRVVKTC------IP  430 (549)
T ss_dssp             C-CCCCCCSC--------------------------------------CCCCTTCCEEECTTSC-CSCCCTT------SC
T ss_pred             C-CCccCChh--------------------------------------hcccccccEEECCCCC-cccccch------hc
Confidence            7 45544321                                      1126778888888854 5544321      13


Q ss_pred             CCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCcchhhhhccCccccccccccccccccceeecCCCCCcceeccC
Q 003328          570 NNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNF  649 (829)
Q Consensus       570 ~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~  649 (829)
                      ++|+.|++++|. ++.+ +    ..+++|++|+++++. ++.+|...           .+++|++|+++++ +++.+  .
T Consensus       431 ~~L~~L~Ls~N~-l~~~-~----~~l~~L~~L~Ls~N~-l~~ip~~~-----------~l~~L~~L~Ls~N-~l~~~--~  489 (549)
T 2z81_A          431 QTLEVLDVSNNN-LDSF-S----LFLPRLQELYISRNK-LKTLPDAS-----------LFPVLLVMKISRN-QLKSV--P  489 (549)
T ss_dssp             TTCSEEECCSSC-CSCC-C----CCCTTCCEEECCSSC-CSSCCCGG-----------GCTTCCEEECCSS-CCCCC--C
T ss_pred             CCceEEECCCCC-hhhh-c----ccCChhcEEECCCCc-cCcCCCcc-----------cCccCCEEecCCC-ccCCc--C
Confidence            688899988884 4442 2    367889999999884 66666533           5788999999886 56665  2


Q ss_pred             CCccccCCCcCeEEEeCCCC
Q 003328          650 TGNIIEMPVLCSLAIENCTD  669 (829)
Q Consensus       650 ~~~~~~~~sL~~L~i~~C~~  669 (829)
                      +..+..+++|+.|++.+++-
T Consensus       490 ~~~~~~l~~L~~L~l~~N~~  509 (549)
T 2z81_A          490 DGIFDRLTSLQKIWLHTNPW  509 (549)
T ss_dssp             TTGGGGCTTCCEEECCSSCB
T ss_pred             HHHHhcCcccCEEEecCCCc
Confidence            33478899999999988764

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

Probab=99.97  E-value=5.9e-29  Score=288.15  Aligned_cols=494  Identities=18%  Similarity=0.192  Sum_probs=293.4

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP   86 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp   86 (829)
                      ++..+|. ..++++++|++++|.+..+++. + .+++|++|++++|.    +..++...|.++++||+|++++|.++.+|
T Consensus        18 ~l~~ip~-~l~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~----i~~i~~~~~~~l~~L~~L~L~~n~l~~~~   92 (570)
T 2z63_A           18 NFYKIPD-NLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE----IQTIEDGAYQSLSHLSTLILTGNPIQSLA   92 (570)
T ss_dssp             CCSSCCS-SSCSSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCC----CCEECTTTTTTCTTCCEEECTTCCCCEEC
T ss_pred             CccccCC-CccccccEEEccCCccCccChhHhhCCCCceEEECCCCc----CCccCcccccCchhCCEEeCcCCcCCccC
Confidence            4444553 3567899999999999987643 3 89999999999998    67777777899999999999999999865


Q ss_pred             -hhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCcc--chhhhcCCCCCCEEeccCCCCCCccChhhhcC
Q 003328           87 -SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQ--LPLEIGQLTRLQLLDLSNCSSLVVIAPNVISK  161 (829)
Q Consensus        87 -~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~--lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~  161 (829)
                       ..++.+++|++|++++|.++.+  ..++++++|++|++++|.++.  +|..++++++|++|++++|. +..++...++.
T Consensus        93 ~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~  171 (570)
T 2z63_A           93 LGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRV  171 (570)
T ss_dssp             TTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSC-CCEECGGGGHH
T ss_pred             HhhhcCccccccccccccccccCCCccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCCc-cceecHHHccc
Confidence             6799999999999999999988  369999999999999999885  79999999999999999987 66666544788


Q ss_pred             CCcc----cEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCC--CcCCcc-ccccccEEEEEEccccccCC
Q 003328          162 FSRL----EELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ--ILPQDW-VSVELQRYKICIGEARRIWP  234 (829)
Q Consensus       162 L~~L----~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~--~~~~~~-~~~~L~~L~l~~~~~~~~w~  234 (829)
                      +++|    ++|+++++.+.        ......+... +|+.|++.++...  .++..+ .+.+++...+..+....   
T Consensus       172 l~~L~~~~~~L~l~~n~l~--------~~~~~~~~~~-~L~~L~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~---  239 (570)
T 2z63_A          172 LHQMPLLNLSLDLSLNPMN--------FIQPGAFKEI-RLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRN---  239 (570)
T ss_dssp             HHTCTTCCCEEECTTCCCC--------EECTTTTTTC-EEEEEEEESCCSCTTHHHHHHHTTTTCEEEEEEEEECCC---
T ss_pred             hhccchhhhhcccCCCCce--------ecCHHHhccC-cceeEecccccccccchhhhhcCccccceeeeccccccC---
Confidence            8888    89999998765        1122233333 6999999876432  111111 44555555443221100   


Q ss_pred             CCCCCccEEEeccCCccccchhhhhHHHhhh--hheeEeeccccCccc-cccccCCCCCCCCCcEEEEeecCCceEEecc
Q 003328          235 VNSETSRLVWLHGLENVSTLLENYGMKMLLK--EAEEIHLIKLKGVQN-VVHELDDGEGFPRLKHLWVERCSEILHIVGS  311 (829)
Q Consensus       235 ~~~~~~~~~~l~~~~~~~~~l~~~~~~~~l~--~L~~L~L~~~~~~~~-~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~  311 (829)
                        .  .....+..          ..+.. +.  .++.+.+.++..... ....+   +.+++|+.|.+.++.- ..+   
T Consensus       240 --~--~~l~~~~~----------~~~~~-l~~l~l~~l~l~~~~~~~~~~~~~~---~~l~~L~~L~l~~~~l-~~l---  297 (570)
T 2z63_A          240 --E--GNLEKFDK----------SALEG-LCNLTIEEFRLAYLDYYLDDIIDLF---NCLTNVSSFSLVSVTI-ERV---  297 (570)
T ss_dssp             --C--SSCEECCT----------TTTGG-GGGSEEEEEEEEETTEEESCSTTTT---GGGTTCSEEEEESCEE-CSC---
T ss_pred             --c--hhhhhcch----------hhhcc-ccccchhhhhhhcchhhhhhchhhh---cCcCcccEEEecCccc-hhh---
Confidence              0  00000000          00000 01  233444443322211 11122   2556666666665531 111   


Q ss_pred             cCcccccccccccceeccccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecccCccee
Q 003328          312 VGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMM  391 (829)
Q Consensus       312 ~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~~  391 (829)
                      +.+  ...+ +|+.|++.++.--      .+| ...+++|++|.+.++......+.    ..+++|++|+++++. +...
T Consensus       298 ~~~--~~~~-~L~~L~l~~n~~~------~l~-~~~l~~L~~L~l~~n~~~~~~~~----~~~~~L~~L~l~~n~-l~~~  362 (570)
T 2z63_A          298 KDF--SYNF-GWQHLELVNCKFG------QFP-TLKLKSLKRLTFTSNKGGNAFSE----VDLPSLEFLDLSRNG-LSFK  362 (570)
T ss_dssp             CBC--CSCC-CCSEEEEESCBCS------SCC-BCBCSSCCEEEEESCBSCCBCCC----CBCTTCCEEECCSSC-CBEE
T ss_pred             hhh--hccC-CccEEeeccCccc------ccC-cccccccCEEeCcCCcccccccc----ccCCCCCEEeCcCCc-cCcc
Confidence            111  1112 4555555444321      122 23444555555544432222211    234444444444432 1111


Q ss_pred             cccCCCCCCCcccccccccCCCCCCCCCCCCceeeeeeccCcchhhHHhhhcccccccccccCccceEeeccCCCcceee
Q 003328          392 VGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFC  471 (829)
Q Consensus       392 ~~~~~~~~~~~l~~~~i~~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~~  471 (829)
                      ..                                                    .+.....+++|+.|++.++. ++.++
T Consensus       363 ~~----------------------------------------------------~~~~~~~~~~L~~L~l~~n~-l~~~~  389 (570)
T 2z63_A          363 GC----------------------------------------------------CSQSDFGTTSLKYLDLSFNG-VITMS  389 (570)
T ss_dssp             EE----------------------------------------------------EEHHHHTCSCCCEEECCSCS-EEEEE
T ss_pred             cc----------------------------------------------------ccccccccCccCEEECCCCc-ccccc
Confidence            00                                                    01122445666666666653 33333


Q ss_pred             cCCccccCCCccEEeeccCCCcceecccccCCCCCccceeecccccccccccCCCccchhhhhhhhccccCCcceEEecc
Q 003328          472 LENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSH  551 (829)
Q Consensus       472 ~~~~~~~~~~L~~L~i~~C~~l~~~~~~~~~~~l~~~L~~Li~~c~~l~~~~~~~~~~~~~~~l~~~~~~~~L~~L~l~~  551 (829)
                      ..  ...+++|++|++++|. ++..+.   ..                                 .+..+++|++|++++
T Consensus       390 ~~--~~~l~~L~~L~l~~n~-l~~~~~---~~---------------------------------~~~~l~~L~~L~l~~  430 (570)
T 2z63_A          390 SN--FLGLEQLEHLDFQHSN-LKQMSE---FS---------------------------------VFLSLRNLIYLDISH  430 (570)
T ss_dssp             EE--EETCTTCCEEECTTSE-EESCTT---SC---------------------------------TTTTCTTCCEEECTT
T ss_pred             cc--ccccCCCCEEEccCCc-cccccc---hh---------------------------------hhhcCCCCCEEeCcC
Confidence            21  2356666666666653 222210   00                                 011277888888888


Q ss_pred             CCCceeeccCCCCCCCcCCCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCcchhhh-hccCcccccccccccccc
Q 003328          552 FPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEV-LHLEELNADKEHIGPLFL  630 (829)
Q Consensus       552 c~~l~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~~l-~~~~~~~~~~~~~~~~~~  630 (829)
                      |. +.....   ..+..+++|+.|++++|......+|.. +..+++|++|++++|. ++.+ +...+          .++
T Consensus       431 n~-l~~~~~---~~~~~l~~L~~L~l~~n~l~~~~~p~~-~~~l~~L~~L~l~~n~-l~~~~~~~~~----------~l~  494 (570)
T 2z63_A          431 TH-TRVAFN---GIFNGLSSLEVLKMAGNSFQENFLPDI-FTELRNLTFLDLSQCQ-LEQLSPTAFN----------SLS  494 (570)
T ss_dssp             SC-CEECCT---TTTTTCTTCCEEECTTCEEGGGEECSC-CTTCTTCCEEECTTSC-CCEECTTTTT----------TCT
T ss_pred             Cc-ccccch---hhhhcCCcCcEEECcCCcCccccchhh-hhcccCCCEEECCCCc-cccCChhhhh----------ccc
Confidence            65 333222   223446888888888886442224533 4578889999998886 4443 32222          478


Q ss_pred             ccceeecCCCCCcceeccCCCccccCCCcCeEEEeCCC
Q 003328          631 ELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENCT  668 (829)
Q Consensus       631 ~L~~L~l~~c~~L~~l~~~~~~~~~~~sL~~L~i~~C~  668 (829)
                      +|++|++.++ +++.+  .+.....+++|+.|++.+++
T Consensus       495 ~L~~L~l~~n-~l~~~--~~~~~~~l~~L~~L~l~~N~  529 (570)
T 2z63_A          495 SLQVLNMASN-QLKSV--PDGIFDRLTSLQKIWLHTNP  529 (570)
T ss_dssp             TCCEEECCSS-CCSCC--CTTTTTTCTTCCEEECCSSC
T ss_pred             CCCEEeCCCC-cCCCC--CHHHhhcccCCcEEEecCCc
Confidence            8999999887 46655  23336788999999998865

>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=3.9e-28  Score=292.95  Aligned_cols=338  Identities=14%  Similarity=0.127  Sum_probs=217.9

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCC-Ccc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-C
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELP-ERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-L   85 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~-~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-l   85 (829)
                      ++...|.  .++++++|++++|.+..++ ..+ ++++||+|++++|.   ....++...|.++++||+|+|++|.+.. .
T Consensus        15 ~L~~vP~--lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~---~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~   89 (844)
T 3j0a_A           15 NLTQVPQ--VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQY---TPLTIDKEAFRNLPNLRILDLGSSKIYFLH   89 (844)
T ss_dssp             CSSCCCS--SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTC---CCCEECTTTTSSCTTCCEEECTTCCCCEEC
T ss_pred             CCCCCCC--CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCC---CccccCHHHhcCCCCCCEEECCCCcCcccC
Confidence            4455554  6789999999999998764 344 89999999999996   4677755567999999999999999987 4


Q ss_pred             chhhcCCCCCcEEEccccCCCC--cc--cccCCCCCcEEEccCCCCccc--hhhhcCCCCCCEEeccCCCCCCccChhhh
Q 003328           86 PSSLGRLINLQTLCLDWCQLED--VA--AIGQLKKLEILSFRGSDIKQL--PLEIGQLTRLQLLDLSNCSSLVVIAPNVI  159 (829)
Q Consensus        86 p~~l~~l~~Lr~L~L~~~~l~~--l~--~i~~L~~L~~L~l~~~~l~~l--p~~i~~L~~L~~L~l~~~~~l~~lp~~~l  159 (829)
                      |..++.+++|++|++++|.+..  +.  .++++++|++|++++|.++.+  +..++++++|++|++++|......+.. +
T Consensus        90 p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~-l  168 (844)
T 3j0a_A           90 PDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHE-L  168 (844)
T ss_dssp             TTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGG-G
T ss_pred             HhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHH-c
Confidence            8889999999999999998875  33  389999999999999988865  357899999999999998743434444 6


Q ss_pred             cCC--CcccEEEccCCccccccccCCCccchhh----hcCCCCCcEEEeecCCCCC-cCCc----cccccccEEEEEEcc
Q 003328          160 SKF--SRLEELYMGDSFSQWDKVEGGSNASLAE----LKGLSKLTTLEIHVWDAQI-LPQD----WVSVELQRYKICIGE  228 (829)
Q Consensus       160 ~~L--~~L~~L~l~~~~~~~~~~~~~~~~~~~~----L~~l~~L~~L~l~~~~~~~-~~~~----~~~~~L~~L~l~~~~  228 (829)
                      +.+  ++|+.|++++|.+.     +.....+..    +.+ .+|+.|+++++.... .+..    +...++..+.+....
T Consensus       169 ~~l~~~~L~~L~L~~n~l~-----~~~~~~~~~~~~~~~~-~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~  242 (844)
T 3j0a_A          169 EPLQGKTLSFFSLAANSLY-----SRVSVDWGKCMNPFRN-MVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHI  242 (844)
T ss_dssp             HHHHHCSSCCCEECCSBSC-----CCCCCCCCSSSCTTTT-CCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSC
T ss_pred             ccccCCccceEECCCCccc-----cccccchhhcCCcccc-CceeEEecCCCcCchhHHHHHHhhcCcccccceeccccc
Confidence            666  88999999988765     211111111    111 248999999886532 2222    233455666543111


Q ss_pred             ccccCCCCCCCccEEEeccCCccccchhhhhHHH-hhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceE
Q 003328          229 ARRIWPVNSETSRLVWLHGLENVSTLLENYGMKM-LLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILH  307 (829)
Q Consensus       229 ~~~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~~~-~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~  307 (829)
                      ....+....       +       ..+....+.. ..++++.|+++++.-.......   ++.+++|+.|+++++.- ..
T Consensus       243 ~~~~~~~~~-------l-------~~~~~~~f~~l~~~~L~~L~Ls~n~l~~~~~~~---~~~l~~L~~L~L~~n~i-~~  304 (844)
T 3j0a_A          243 MGAGFGFHN-------I-------KDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRV---FETLKDLKVLNLAYNKI-NK  304 (844)
T ss_dssp             CBCSSSCSS-------S-------TTGGGTTTTTTTTSCCCEEECTTCCCCEECSCC---SSSCCCCCEEEEESCCC-CE
T ss_pred             ccccccccc-------c-------CCCChhhhhccccCCccEEECCCCcccccChhh---hhcCCCCCEEECCCCcC-CC
Confidence            000000000       0       0000001111 1256788888776432222222   33778888888887753 32


Q ss_pred             EecccCcccccccccccceeccccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEeccc
Q 003328          308 IVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCD  386 (829)
Q Consensus       308 i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~  386 (829)
                      +..    .....+++|+.|+++++.- ..+...   ....+++|+.|++.++ +++.+++ ..+..+++|+.|+++++.
T Consensus       305 ~~~----~~~~~l~~L~~L~Ls~N~l-~~~~~~---~~~~l~~L~~L~L~~N-~i~~~~~-~~~~~l~~L~~L~Ls~N~  373 (844)
T 3j0a_A          305 IAD----EAFYGLDNLQVLNLSYNLL-GELYSS---NFYGLPKVAYIDLQKN-HIAIIQD-QTFKFLEKLQTLDLRDNA  373 (844)
T ss_dssp             ECT----TTTTTCSSCCEEEEESCCC-SCCCSC---SCSSCTTCCEEECCSC-CCCCCCS-SCSCSCCCCCEEEEETCC
T ss_pred             CCh----HHhcCCCCCCEEECCCCCC-CccCHH---HhcCCCCCCEEECCCC-CCCccCh-hhhcCCCCCCEEECCCCC
Confidence            211    1134577888888877642 221111   1446778888888776 4555554 234557788888887763

>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=2.5e-27  Score=285.95  Aligned_cols=174  Identities=17%  Similarity=0.113  Sum_probs=140.1

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCC-CCC-chhhcCCCCCcEEEc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHF-SSL-PSSLGRLINLQTLCL  100 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i-~~l-p~~l~~l~~Lr~L~L  100 (829)
                      +..+.++++++.+|.  -.+++++|++++|.    +..++...|.++++||+|++++|.. ..+ |..+.++++||+|+|
T Consensus         7 ~~~dcs~~~L~~vP~--lp~~l~~LdLs~N~----i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~L   80 (844)
T 3j0a_A            7 RIAFYRFCNLTQVPQ--VLNTTERLLLSFNY----IRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDL   80 (844)
T ss_dssp             EEEEESCCCSSCCCS--SCTTCCEEEEESCC----CCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEEC
T ss_pred             eEEEccCCCCCCCCC--CCCCcCEEECCCCc----CCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEEC
Confidence            567888899999998  56799999999999    5666555579999999999999954 445 778999999999999


Q ss_pred             cccCCCCc--ccccCCCCCcEEEccCCCCcc-chhh--hcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcc
Q 003328          101 DWCQLEDV--AAIGQLKKLEILSFRGSDIKQ-LPLE--IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS  175 (829)
Q Consensus       101 ~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~-lp~~--i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~  175 (829)
                      ++|.+..+  ..|+++++|++|++++|.++. +|..  ++++++|++|++++|...+..+...++++++|++|++++|.+
T Consensus        81 s~N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i  160 (844)
T 3j0a_A           81 GSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQI  160 (844)
T ss_dssp             TTCCCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCC
T ss_pred             CCCcCcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcC
Confidence            99999876  789999999999999999885 5655  899999999999998843333333389999999999999877


Q ss_pred             ccccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          176 QWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       176 ~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                      .     +.....+..+.. ++|+.|+++.+.+.
T Consensus       161 ~-----~~~~~~l~~l~~-~~L~~L~L~~n~l~  187 (844)
T 3j0a_A          161 F-----LVCEHELEPLQG-KTLSFFSLAANSLY  187 (844)
T ss_dssp             C-----CCCSGGGHHHHH-CSSCCCEECCSBSC
T ss_pred             C-----eeCHHHcccccC-CccceEECCCCccc
Confidence            5     222333443322 68888999987764

>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=99.96  E-value=2.2e-27  Score=273.44  Aligned_cols=468  Identities=15%  Similarity=0.118  Sum_probs=298.7

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCC-cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPE-RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP   86 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp   86 (829)
                      ++...|. ...+++++|++++|.+..+++ .+ .+++||+|++++|.    +..++...|.++++|++|++++|.++.+|
T Consensus        16 ~l~~ip~-~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~----i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~   90 (549)
T 2z81_A           16 SFTSIPS-GLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSR----INTIEGDAFYSLGSLEHLDLSDNHLSSLS   90 (549)
T ss_dssp             CCSSCCS-CCCTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSC----CCEECTTTTTTCTTCCEEECTTSCCCSCC
T ss_pred             ccccccc-cCCCCccEEECcCCccCccChhhhhcCCcccEEECCCCC----cCccChhhccccccCCEEECCCCccCccC
Confidence            3444443 345799999999999997754 34 89999999999999    66677666799999999999999999877


Q ss_pred             hh-hcCCCCCcEEEccccCCCCc---ccccCCCCCcEEEccCCC-Cccch-hhhcCCCCCCEEeccCCCCCCccChhhhc
Q 003328           87 SS-LGRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSD-IKQLP-LEIGQLTRLQLLDLSNCSSLVVIAPNVIS  160 (829)
Q Consensus        87 ~~-l~~l~~Lr~L~L~~~~l~~l---~~i~~L~~L~~L~l~~~~-l~~lp-~~i~~L~~L~~L~l~~~~~l~~lp~~~l~  160 (829)
                      .. ++.+++|++|++++|.++.+   ..++++++|++|++++|. +..+| ..++++++|++|++++|...+..|.. ++
T Consensus        91 ~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-l~  169 (549)
T 2z81_A           91 SSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQS-LK  169 (549)
T ss_dssp             HHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTT-TT
T ss_pred             HHHhccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhh-hh
Confidence            65 99999999999999998853   679999999999999997 67776 57999999999999998844446665 89


Q ss_pred             CCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCC-----ccccccccEEEEEEccccccCCC
Q 003328          161 KFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQ-----DWVSVELQRYKICIGEARRIWPV  235 (829)
Q Consensus       161 ~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~-----~~~~~~L~~L~l~~~~~~~~w~~  235 (829)
                      ++++|++|+++++...        .......+.+++|+.|+++++.+..++.     .....+|+.|++.......    
T Consensus       170 ~l~~L~~L~l~~n~~~--------~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~----  237 (549)
T 2z81_A          170 SIRDIHHLTLHLSESA--------FLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTD----  237 (549)
T ss_dssp             TCSEEEEEEEECSBST--------THHHHHHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEH----
T ss_pred             ccccCceEecccCccc--------ccchhhHhhcccccEEEccCCccccccccccchhhhhhcccceeccccccch----
Confidence            9999999999988653        1111223568899999999998876521     1246788888876432210    


Q ss_pred             CCCCccEEEeccCCccccchh-hhhHHHhhhhheeEeeccccCcc--cccc-ccCCCCCCCCCcEEEEeecCCceEEecc
Q 003328          236 NSETSRLVWLHGLENVSTLLE-NYGMKMLLKEAEEIHLIKLKGVQ--NVVH-ELDDGEGFPRLKHLWVERCSEILHIVGS  311 (829)
Q Consensus       236 ~~~~~~~~~l~~~~~~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~--~~~~-~l~~~~~~~~L~~L~l~~~~~l~~i~~~  311 (829)
                                       .... .......+.+++.+++.+|.-..  ++.. .......+++|+.|.+.++.....    
T Consensus       238 -----------------~~~~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~i~~~----  296 (549)
T 2z81_A          238 -----------------ESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQF----  296 (549)
T ss_dssp             -----------------HHHHHHHGGGGGCTTCCEEEEESCEEECCSCCCCCTTTCCCCCTTCCEEEEESCBCSCG----
T ss_pred             -----------------hHHHHHHHHhhhhccccccccccccccccccccccchhhhhhhcccccccccccccchh----
Confidence                             0000 00111224678888888774221  1100 011134778999999987753211    


Q ss_pred             cCccc----ccccccccceeccccccchhhhcCCCCC-C-CCCCCccEEEEecCCCCccccc-hHHHHhhcccceEEEec
Q 003328          312 VGRVR----CTIFPLLESLSLWFLSNLETICDSQLTE-D-QSFSNLRIIEVKSCDKLKHLFS-FSMAKNLLRLQKVEVFF  384 (829)
Q Consensus       312 ~~~~~----~~~~~~L~~L~L~~~~~l~~~~~~~l~~-~-~~~~~L~~L~i~~C~~L~~l~~-~~~~~~l~~L~~L~i~~  384 (829)
                      ..+..    ...+++|+.|++.++. ++.     +|. . +.+++|++|+++++.--...+. ......+++|++|++++
T Consensus       297 ~~~~~l~~~~~~~~~L~~L~l~~n~-l~~-----ip~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~l~~L~~L~Ls~  370 (549)
T 2z81_A          297 YLFYDLSTVYSLLEKVKRITVENSK-VFL-----VPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQ  370 (549)
T ss_dssp             GGSCCCCHHHHHSTTCCEEEEESSC-CCC-----CCHHHHHHCTTCCEEECCSSCCCHHHHHHHTCTTSSTTCCEEECTT
T ss_pred             hhcccchhhhhhcccceEEEeccCc-ccc-----CCHHHHhcCccccEEEccCCccccccccchhhhhccccCcEEEccC
Confidence            00100    1235688999998864 332     221 1 3588999999998853322221 11134578888888888


Q ss_pred             ccCcceecccCCCCCCCcccccccccCCCCCCCCCCCCceeeeeeccCcchhhHHhhhcccccccccccCccceEeeccC
Q 003328          385 CDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYL  464 (829)
Q Consensus       385 c~~l~~~~~~~~~~~~~~l~~~~i~~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~L~~L~l~~c  464 (829)
                      +. ++.+...                                                    +.....+++|+.|+++++
T Consensus       371 N~-l~~~~~~----------------------------------------------------~~~~~~l~~L~~L~Ls~N  397 (549)
T 2z81_A          371 NH-LRSMQKT----------------------------------------------------GEILLTLKNLTSLDISRN  397 (549)
T ss_dssp             SC-CCCHHHH----------------------------------------------------HHHGGGCTTCCEEECTTC
T ss_pred             Cc-ccccccc----------------------------------------------------hhhhhcCCCCCEEECCCC
Confidence            63 3322110                                                    012355777888888877


Q ss_pred             CCcceeecCCccccCCCccEEeeccCCCcceecccccCCCCCccceee-cccccccccccCCCccchhhhhhhhccccCC
Q 003328          465 PTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPCKVQVT-EKEEGELHHWEGNNLNSTIQKCYEEMIGFRD  543 (829)
Q Consensus       465 ~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~~~~~~~~~~l~~~L~~L-i~~c~~l~~~~~~~~~~~~~~~l~~~~~~~~  543 (829)
                       .++.++.  ....+++|++|++++|. ++.++.     ..|.+|+.| +.+|.-- ...               ..+++
T Consensus       398 -~l~~lp~--~~~~~~~L~~L~Ls~N~-l~~l~~-----~~~~~L~~L~Ls~N~l~-~~~---------------~~l~~  452 (549)
T 2z81_A          398 -TFHPMPD--SCQWPEKMRFLNLSSTG-IRVVKT-----CIPQTLEVLDVSNNNLD-SFS---------------LFLPR  452 (549)
T ss_dssp             -CCCCCCS--CCCCCTTCCEEECTTSC-CSCCCT-----TSCTTCSEEECCSSCCS-CCC---------------CCCTT
T ss_pred             -CCccCCh--hhcccccccEEECCCCC-cccccc-----hhcCCceEEECCCCChh-hhc---------------ccCCh
Confidence             5555543  22367788888888874 555532     122225555 4444211 000               12556


Q ss_pred             cceEEeccCCCceeeccCCCCCCCcCCCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCc
Q 003328          544 IEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCD  607 (829)
Q Consensus       544 L~~L~l~~c~~l~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~  607 (829)
                      |++|+++++ .++.++.     ...+++|+.|+++++ .++. ++...++.+++|+.|++++++
T Consensus       453 L~~L~Ls~N-~l~~ip~-----~~~l~~L~~L~Ls~N-~l~~-~~~~~~~~l~~L~~L~l~~N~  508 (549)
T 2z81_A          453 LQELYISRN-KLKTLPD-----ASLFPVLLVMKISRN-QLKS-VPDGIFDRLTSLQKIWLHTNP  508 (549)
T ss_dssp             CCEEECCSS-CCSSCCC-----GGGCTTCCEEECCSS-CCCC-CCTTGGGGCTTCCEEECCSSC
T ss_pred             hcEEECCCC-ccCcCCC-----cccCccCCEEecCCC-ccCC-cCHHHHhcCcccCEEEecCCC
Confidence            666666664 3444322     123466666666665 3333 233334456666666665554

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.95  E-value=5e-27  Score=273.79  Aligned_cols=46  Identities=15%  Similarity=0.257  Sum_probs=38.0

Q ss_pred             cccCCc---cccCC--CCCCcEEEcCCCCCC-CCCCcc-CCCCCcEEEeecCC
Q 003328            8 ADVEKK---MEETI--RKDPIAISLPQRDIQ-ELPERL-QCPNLQLFLLITKG   53 (829)
Q Consensus         8 ~~~~~~---~~~~~--~~~l~~L~l~~~~~~-~l~~~~-~~~~Lr~L~l~~~~   53 (829)
                      .+.+.|   ++|..  ..+++.|+++++.+. .+|+.+ ++++||+|++++|.
T Consensus        64 ~~~c~w~~~~GV~C~~~~~V~~L~L~~~~l~g~lp~~l~~L~~L~~L~Ls~N~  116 (636)
T 4eco_A           64 KELDMWGAQPGVSLNSNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHG  116 (636)
T ss_dssp             SCGGGTTCCTTEEECTTCCEEEEECTTSCCEEEECGGGGGCTTCCEEESCCGG
T ss_pred             CCcccccCCCCeEEcCCCCEEEEEecCcccCCcCChHHhcCccceEEECcCCc
Confidence            467788   77743  358999999999998 677766 89999999999985

>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=99.95  E-value=7.7e-25  Score=257.10  Aligned_cols=179  Identities=18%  Similarity=0.216  Sum_probs=137.3

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEcc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLD  101 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~-~l~~l~~Lr~L~L~  101 (829)
                      ++.+-++.+++++|..+. +++++|++++|.    +..+|...|.++++||+|+|++|.|+.+|+ .|.++++|++|+|+
T Consensus        34 ~~~~c~~~~l~~vP~~lp-~~~~~LdLs~N~----i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls  108 (635)
T 4g8a_A           34 ITYQCMELNFYKIPDNLP-FSTKNLDLSFNP----LRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILT  108 (635)
T ss_dssp             TEEECTTSCCSSCCSSSC-TTCCEEECTTSC----CCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECT
T ss_pred             CEEECCCCCcCccCCCCC-cCCCEEEeeCCC----CCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEcc
Confidence            455666667888887552 478999999998    778887667999999999999999988765 57889999999999


Q ss_pred             ccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCc--cChhhhcCCCcccEEEccCCccc
Q 003328          102 WCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVV--IAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       102 ~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~--lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +|+++.+  ..|+++.+|++|++++|.++.+|.. ++++++|++|++++|. +..  +|.. ++.+++|++|++++|.+.
T Consensus       109 ~N~l~~l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~-l~~~~~~~~-~~~l~~L~~L~L~~N~l~  186 (635)
T 4g8a_A          109 GNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNL-IQSFKLPEY-FSNLTNLEHLDLSSNKIQ  186 (635)
T ss_dssp             TCCCCEECGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSC-CCCCCCCGG-GGGCTTCCEEECCSSCCC
T ss_pred             CCcCCCCCHHHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeeccccCc-cccCCCchh-hccchhhhhhcccCcccc
Confidence            9998877  5689999999999999999888764 8899999999999887 443  4554 788999999999988765


Q ss_pred             cccccCCCccchhhhcCCC-CCcEEEeecCCCCCcCCc
Q 003328          177 WDKVEGGSNASLAELKGLS-KLTTLEIHVWDAQILPQD  213 (829)
Q Consensus       177 ~~~~~~~~~~~~~~L~~l~-~L~~L~l~~~~~~~~~~~  213 (829)
                           +.....+..+.+++ ....++++.+.+..++..
T Consensus       187 -----~~~~~~l~~L~~l~~~~~~~~ls~n~l~~i~~~  219 (635)
T 4g8a_A          187 -----SIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPG  219 (635)
T ss_dssp             -----EECGGGGHHHHTCTTCCCEEECTTCCCCEECTT
T ss_pred             -----ccccccccchhhhhhhhhhhhcccCcccccCcc
Confidence                 22233445555544 234677777776655443

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.95  E-value=1.1e-25  Score=257.49  Aligned_cols=463  Identities=12%  Similarity=0.076  Sum_probs=273.3

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEcc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLD  101 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L~  101 (829)
                      +++++++++++.+|..+. ++|++|++++|.    +..++...|.++++|++|++++|.++.+ |..++.+++|++|+++
T Consensus         3 ~~l~ls~n~l~~ip~~~~-~~L~~L~Ls~n~----i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls   77 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS-QKTTILNISQNY----ISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLS   77 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC-TTCSEEECCSSC----CCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECC
T ss_pred             ceEecCCCCccccccccc-ccccEEECCCCc----ccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecC
Confidence            689999999999997665 899999999998    6677765679999999999999999886 7789999999999999


Q ss_pred             ccCCCCcccccCCCCCcEEEccCCCCcc--chhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcc--cEEEccCCcccc
Q 003328          102 WCQLEDVAAIGQLKKLEILSFRGSDIKQ--LPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRL--EELYMGDSFSQW  177 (829)
Q Consensus       102 ~~~l~~l~~i~~L~~L~~L~l~~~~l~~--lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L--~~L~l~~~~~~~  177 (829)
                      +|.++.++.. .+++|++|++++|.++.  +|..++++++|++|++++|. +...  . ++.+++|  ++|++++|.+. 
T Consensus        78 ~N~l~~lp~~-~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~-l~~~--~-~~~l~~L~L~~L~l~~n~l~-  151 (520)
T 2z7x_B           78 HNKLVKISCH-PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTH-LEKS--S-VLPIAHLNISKVLLVLGETY-  151 (520)
T ss_dssp             SSCCCEEECC-CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEESS-CCGG--G-GGGGTTSCEEEEEEEECTTT-
T ss_pred             CCceeecCcc-ccCCccEEeccCCccccccchhhhccCCcceEEEecCcc-cchh--h-ccccccceeeEEEeeccccc-
Confidence            9999888333 89999999999999885  57889999999999999877 4432  2 6677777  99999888661 


Q ss_pred             ccccCCCccchhhhcCCCC-CcEEEeecCCCCC-cCCc--cccccccEEEEEEccccccCCCCCCCccEEEeccCCcccc
Q 003328          178 DKVEGGSNASLAELKGLSK-LTTLEIHVWDAQI-LPQD--WVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVST  253 (829)
Q Consensus       178 ~~~~~~~~~~~~~L~~l~~-L~~L~l~~~~~~~-~~~~--~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~  253 (829)
                          + ....+..+..+.. .-.+++..+.... ++..  ..+++|+.++++.+....                      
T Consensus       152 ----~-~~~~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~----------------------  204 (520)
T 2z7x_B          152 ----G-EKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDN----------------------  204 (520)
T ss_dssp             ----T-SSCCTTTTTTCCEEEEEEECCSSSCCCCCCCCCCTTCSEEEECCEEECCSTT----------------------
T ss_pred             ----c-cccccccccccccceEEEEeccCcchhhhhhhhhhcccceeecccccccccc----------------------
Confidence                0 1122333444332 1123333433321 1111  123334444333221000                      


Q ss_pred             chhhhhHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceecccccc
Q 003328          254 LLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSN  333 (829)
Q Consensus       254 ~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~  333 (829)
                                          .+......++.   ++.+++|+.|.+.++.-....+  .........++|+.|+++++.-
T Consensus       205 --------------------~~~~~~~~~~~---l~~l~~L~~L~l~~~~l~~~~~--~~~~~~~~~~~L~~L~l~~n~l  259 (520)
T 2z7x_B          205 --------------------KCSYFLSILAK---LQTNPKLSNLTLNNIETTWNSF--IRILQLVWHTTVWYFSISNVKL  259 (520)
T ss_dssp             --------------------TTHHHHHHHHG---GGGCTTCCEEEEEEEEEEHHHH--HHHHHHHHTSSCSEEEEEEEEE
T ss_pred             --------------------ccceeecchhh---hccccchhhccccccccCHHHH--HHHHHHhhhCcccEEEeecccc
Confidence                                00001111222   2367778888887664111000  0000011234777787777643


Q ss_pred             chhhhcCCCC-CCCCCCCccEEEEecCCCCccccchHHHHhh--cccceEEEecccCcceecccCCCCCCCccccccccc
Q 003328          334 LETICDSQLT-EDQSFSNLRIIEVKSCDKLKHLFSFSMAKNL--LRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITA  410 (829)
Q Consensus       334 l~~~~~~~l~-~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l--~~L~~L~i~~c~~l~~~~~~~~~~~~~~l~~~~i~~  410 (829)
                      -..++...+. ..+.+++|+.+++.++.-  .+|...+...+  ++|+.|+++++.- .....                 
T Consensus       260 ~~~~p~~~~~~~~~~l~~L~~l~l~~n~~--~~p~~~~~~~~~~~~L~~L~l~~n~l-~~~~~-----------------  319 (520)
T 2z7x_B          260 QGQLDFRDFDYSGTSLKALSIHQVVSDVF--GFPQSYIYEIFSNMNIKNFTVSGTRM-VHMLC-----------------  319 (520)
T ss_dssp             ESCCCCCCCCCCSCCCCEEEEEEEEECCC--CSCTHHHHHHHHTCCCSEEEEESSCC-CCCCC-----------------
T ss_pred             cCccccchhhcccccCceeEeccccccce--ecchhhhhcccccCceeEEEcCCCcc-ccccc-----------------
Confidence            2121111000 015678888888887754  55532222222  5689999988752 21110                 


Q ss_pred             CCCCCCCCCCCCceeeeeeccCcchhhHHhhhcccccccccccCccceEeeccCCCcceeecCCccccCCCccEEeeccC
Q 003328          411 DDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHC  490 (829)
Q Consensus       411 ~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C  490 (829)
                                                             ...+++|+.|+++++.--...+.  ....+++|++|++++|
T Consensus       320 ---------------------------------------~~~l~~L~~L~Ls~n~l~~~~~~--~~~~l~~L~~L~L~~N  358 (520)
T 2z7x_B          320 ---------------------------------------PSKISPFLHLDFSNNLLTDTVFE--NCGHLTELETLILQMN  358 (520)
T ss_dssp             ---------------------------------------CSSCCCCCEEECCSSCCCTTTTT--TCCCCSSCCEEECCSS
T ss_pred             ---------------------------------------hhhCCcccEEEeECCccChhhhh--hhccCCCCCEEEccCC
Confidence                                                   12456677777766632221221  1236777888887776


Q ss_pred             CCcceecccccCCCCCccceeecccccccccccCCCccchhhhhhhhccccCCcceEEeccCCCcee-eccCCCCCCCcC
Q 003328          491 PNMKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLRE-IWHGQALPVSFF  569 (829)
Q Consensus       491 ~~l~~~~~~~~~~~l~~~L~~Li~~c~~l~~~~~~~~~~~~~~~l~~~~~~~~L~~L~l~~c~~l~~-~~~~~~~~~~~l  569 (829)
                      . ++.++.      .|.                             .+..+++|++|+++++. ++. ++...   ...+
T Consensus       359 ~-l~~l~~------~~~-----------------------------~~~~l~~L~~L~Ls~N~-l~~~l~~~~---~~~l  398 (520)
T 2z7x_B          359 Q-LKELSK------IAE-----------------------------MTTQMKSLQQLDISQNS-VSYDEKKGD---CSWT  398 (520)
T ss_dssp             C-CCBHHH------HHH-----------------------------HHTTCTTCCEEECCSSC-CBCCGGGCS---CCCC
T ss_pred             c-cCcccc------chH-----------------------------HHhhCCCCCEEECCCCc-CCcccccch---hccC
Confidence            3 332210      000                             01126667777777644 333 43221   2234


Q ss_pred             CCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCcchhhhhccCccccccccccccccccceeecCCCCCcceeccC
Q 003328          570 NNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNF  649 (829)
Q Consensus       570 ~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~  649 (829)
                      ++|+.|++++|.--.. .|..+   .++|+.|++++|. ++.+|....          .+++|++|++.++ +++.+   
T Consensus       399 ~~L~~L~Ls~N~l~~~-~~~~l---~~~L~~L~Ls~N~-l~~ip~~~~----------~l~~L~~L~L~~N-~l~~l---  459 (520)
T 2z7x_B          399 KSLLSLNMSSNILTDT-IFRCL---PPRIKVLDLHSNK-IKSIPKQVV----------KLEALQELNVASN-QLKSV---  459 (520)
T ss_dssp             TTCCEEECCSSCCCGG-GGGSC---CTTCCEEECCSSC-CCCCCGGGG----------GCTTCCEEECCSS-CCCCC---
T ss_pred             ccCCEEECcCCCCCcc-hhhhh---cccCCEEECCCCc-ccccchhhh----------cCCCCCEEECCCC-cCCcc---
Confidence            6777777777753332 33322   1577777777774 555554332          4677788888776 46666   


Q ss_pred             CCc-cccCCCcCeEEEeCCC
Q 003328          650 TGN-IIEMPVLCSLAIENCT  668 (829)
Q Consensus       650 ~~~-~~~~~sL~~L~i~~C~  668 (829)
                      +.. ...+++|++|++.+++
T Consensus       460 ~~~~~~~l~~L~~L~l~~N~  479 (520)
T 2z7x_B          460 PDGIFDRLTSLQKIWLHTNP  479 (520)
T ss_dssp             CTTTTTTCTTCCEEECCSSC
T ss_pred             CHHHhccCCcccEEECcCCC
Confidence            333 6677888888887764

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

Probab=99.94  E-value=1.1e-25  Score=266.64  Aligned_cols=185  Identities=17%  Similarity=0.214  Sum_probs=108.5

Q ss_pred             cccCC--CCCCcEEEcCCCCCC-CCCCcc-CCCCCcEEEe-ecCCCcc--------------------------------
Q 003328           14 MEETI--RKDPIAISLPQRDIQ-ELPERL-QCPNLQLFLL-ITKGIAP--------------------------------   56 (829)
Q Consensus        14 ~~~~~--~~~l~~L~l~~~~~~-~l~~~~-~~~~Lr~L~l-~~~~~~~--------------------------------   56 (829)
                      ++|..  ..+++.|+|+++++. .+|+.+ ++++||+|++ ++|....                                
T Consensus       315 ~GV~C~~~~~V~~L~Ls~~~L~G~ip~~l~~L~~L~~LdLss~N~lsG~~~~~~~~~~~~l~~~~l~~lr~~~~~~~l~~  394 (876)
T 4ecn_A          315 PGVDLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDY  394 (876)
T ss_dssp             TTEEECTTSCEEEEECTTTCCEEEECGGGGGCTTCCEEESCCTTHHHHTTCBTTBCCCSSCCHHHHHHHHTHHHHHHTCC
T ss_pred             CceEecCCCCEEEEECccCCCCCcCchHHhccccceEeeecccccccccccccccccccccchhHHHHHHHhhhhhhhcc
Confidence            77743  368999999999998 788766 9999999999 6653100                                


Q ss_pred             -----------------------------------------cccccchhhhcCCCCccEEEecCCCCCC-----------
Q 003328           57 -----------------------------------------VSMQISDLFFEGTEELKVLSLIGIHFSS-----------   84 (829)
Q Consensus        57 -----------------------------------------~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-----------   84 (829)
                                                               .+..+|.. |+++++|++|+|++|.++.           
T Consensus       395 ~~~~~~s~l~~~~l~~~~~~~~i~~~~~l~l~~l~l~~~~N~L~~IP~~-l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s  473 (876)
T 4ecn_A          395 DQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKA-IQRLTKLQIIYFANSPFTYDNIAVDWEDAN  473 (876)
T ss_dssp             CGGGGSCHHHHHHHHTCTTSCCCCCCCCCCCCTTTTTCCSCEEEEECGG-GGGCTTCCEEEEESCCCCGGGBSSSCSCTT
T ss_pred             CcchhhhHHHHHHhhhCccccccccccccchhhceeccccCcccchhHH-HhcCCCCCEEECcCCcCCCCcccccccccc
Confidence                                                     00114444 3556666666666665555           


Q ss_pred             -------Cchhhc--CCCCCcEEEccccCCC-Cc-ccccCCCCCcEEEccCCC-Ccc--chhhhcCCC-------CCCEE
Q 003328           85 -------LPSSLG--RLINLQTLCLDWCQLE-DV-AAIGQLKKLEILSFRGSD-IKQ--LPLEIGQLT-------RLQLL  143 (829)
Q Consensus        85 -------lp~~l~--~l~~Lr~L~L~~~~l~-~l-~~i~~L~~L~~L~l~~~~-l~~--lp~~i~~L~-------~L~~L  143 (829)
                             +|+.++  ++++|++|+|++|.+. .+ ..++++++|++|++++|. ++.  +|..++++.       +|++|
T Consensus       474 ~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L  553 (876)
T 4ecn_A          474 SDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIF  553 (876)
T ss_dssp             SHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEE
T ss_pred             cccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEE
Confidence                   555555  5666666666666533 33 555666666666666664 553  555554444       66666


Q ss_pred             eccCCCCCCccCh--hhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcC
Q 003328          144 DLSNCSSLVVIAP--NVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILP  211 (829)
Q Consensus       144 ~l~~~~~l~~lp~--~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~  211 (829)
                      ++++|. +..+|.  . ++++++|++|++++|.+.          .+..++.+++|+.|++++|.+..+|
T Consensus       554 ~Ls~N~-L~~ip~~~~-l~~L~~L~~L~Ls~N~l~----------~lp~~~~L~~L~~L~Ls~N~l~~lp  611 (876)
T 4ecn_A          554 YMGYNN-LEEFPASAS-LQKMVKLGLLDCVHNKVR----------HLEAFGTNVKLTDLKLDYNQIEEIP  611 (876)
T ss_dssp             ECCSSC-CCBCCCHHH-HTTCTTCCEEECTTSCCC----------BCCCCCTTSEESEEECCSSCCSCCC
T ss_pred             EeeCCc-CCccCChhh-hhcCCCCCEEECCCCCcc----------cchhhcCCCcceEEECcCCccccch
Confidence            666555 335555  3 556666666666555432          1114455555555555555554443

>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=99.94  E-value=5.1e-25  Score=258.63  Aligned_cols=162  Identities=23%  Similarity=0.248  Sum_probs=135.0

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP   86 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp   86 (829)
                      ++...|+ +.+.++++|++++|.|+.+++. + ++++||+|++++|.    +..+|+..|.++++|++|+|++|+++.+|
T Consensus        42 ~l~~vP~-~lp~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~----i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~  116 (635)
T 4g8a_A           42 NFYKIPD-NLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE----IQTIEDGAYQSLSHLSTLILTGNPIQSLA  116 (635)
T ss_dssp             CCSSCCS-SSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC----CCEECTTTTTTCTTCCEEECTTCCCCEEC
T ss_pred             CcCccCC-CCCcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCc----CCCcChhHhcCCCCCCEEEccCCcCCCCC
Confidence            4445552 4567999999999999999853 3 89999999999999    78888887899999999999999999987


Q ss_pred             h-hhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCcc--chhhhcCCCCCCEEeccCCCCCCccChhhhcC
Q 003328           87 S-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQ--LPLEIGQLTRLQLLDLSNCSSLVVIAPNVISK  161 (829)
Q Consensus        87 ~-~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~--lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~  161 (829)
                      . .|.++++|++|++++|+++.+  ..|+++++|++|++++|.++.  +|..++++++|++|++++|. +..++...+..
T Consensus       117 ~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~l~~  195 (635)
T 4g8a_A          117 LGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRV  195 (635)
T ss_dssp             GGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSC-CCEECGGGGHH
T ss_pred             HHHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCcc-ccccccccccc
Confidence            5 579999999999999999988  469999999999999999874  57889999999999999987 66665543555


Q ss_pred             CCccc----EEEccCCccc
Q 003328          162 FSRLE----ELYMGDSFSQ  176 (829)
Q Consensus       162 L~~L~----~L~l~~~~~~  176 (829)
                      +.+++    .++++.+.+.
T Consensus       196 L~~l~~~~~~~~ls~n~l~  214 (635)
T 4g8a_A          196 LHQMPLLNLSLDLSLNPMN  214 (635)
T ss_dssp             HHTCTTCCCEEECTTCCCC
T ss_pred             hhhhhhhhhhhhcccCccc
Confidence            54443    5677666543

>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=99.94  E-value=8.8e-26  Score=258.14  Aligned_cols=440  Identities=12%  Similarity=0.070  Sum_probs=266.5

Q ss_pred             cEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEE
Q 003328           45 QLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILS  121 (829)
Q Consensus        45 r~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~  121 (829)
                      ++|++++|.    +..+|..++   ++|++|++++|.++.++ ..+.++++|++|++++|+++.+  ..|+++++|++|+
T Consensus         3 ~~l~ls~n~----l~~ip~~~~---~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~   75 (520)
T 2z7x_B            3 FLVDRSKNG----LIHVPKDLS---QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLD   75 (520)
T ss_dssp             CEEECTTSC----CSSCCCSCC---TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEE
T ss_pred             ceEecCCCC----ccccccccc---ccccEEECCCCcccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEe
Confidence            689999998    678897653   89999999999999866 6799999999999999999977  6899999999999


Q ss_pred             ccCCCCccchhhhcCCCCCCEEeccCCCCCC-ccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCC--c
Q 003328          122 FRGSDIKQLPLEIGQLTRLQLLDLSNCSSLV-VIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKL--T  198 (829)
Q Consensus       122 l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~-~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L--~  198 (829)
                      +++|.++.+|..  .+++|++|++++|...+ .+|.. ++++++|++|++++|.+.        ..   .+..+++|  +
T Consensus        76 Ls~N~l~~lp~~--~l~~L~~L~L~~N~l~~~~~p~~-~~~l~~L~~L~L~~n~l~--------~~---~~~~l~~L~L~  141 (520)
T 2z7x_B           76 LSHNKLVKISCH--PTVNLKHLDLSFNAFDALPICKE-FGNMSQLKFLGLSTTHLE--------KS---SVLPIAHLNIS  141 (520)
T ss_dssp             CCSSCCCEEECC--CCCCCSEEECCSSCCSSCCCCGG-GGGCTTCCEEEEEESSCC--------GG---GGGGGTTSCEE
T ss_pred             cCCCceeecCcc--ccCCccEEeccCCccccccchhh-hccCCcceEEEecCcccc--------hh---hccccccceee
Confidence            999999999987  89999999999988333 35666 899999999999998765        12   33444555  9


Q ss_pred             EEEeecCCC--CC-cCCcccccccc--EEEEEEccccccCCCCCCCccEEEeccCCccccchhhhhHHHhhhhheeEeec
Q 003328          199 TLEIHVWDA--QI-LPQDWVSVELQ--RYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLI  273 (829)
Q Consensus       199 ~L~l~~~~~--~~-~~~~~~~~~L~--~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~l~~L~~L~L~  273 (829)
                      .|+++++.+  .. .|..  +.+++  .+++                                              ++.
T Consensus       142 ~L~l~~n~l~~~~~~~~~--l~~l~~~~l~l----------------------------------------------~l~  173 (520)
T 2z7x_B          142 KVLLVLGETYGEKEDPEG--LQDFNTESLHI----------------------------------------------VFP  173 (520)
T ss_dssp             EEEEEECTTTTSSCCTTT--TTTCCEEEEEE----------------------------------------------ECC
T ss_pred             EEEeeccccccccccccc--ccccccceEEE----------------------------------------------Eec
Confidence            999998876  22 2222  12222  2221                                              111


Q ss_pred             cccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceeccccccchhhhcCCCCCCCCCCCccE
Q 003328          274 KLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRI  353 (829)
Q Consensus       274 ~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~  353 (829)
                      +......+ .... ...+++|+.|+++++.....                       |..+...    ++..+.+++|+.
T Consensus       174 ~n~~~~~~-~~~~-~~~l~~L~~L~l~~n~~~~~-----------------------~~~~~~~----~~~l~~l~~L~~  224 (520)
T 2z7x_B          174 TNKEFHFI-LDVS-VKTVANLELSNIKCVLEDNK-----------------------CSYFLSI----LAKLQTNPKLSN  224 (520)
T ss_dssp             SSSCCCCC-CCCC-CTTCSEEEECCEEECCSTTT-----------------------THHHHHH----HHGGGGCTTCCE
T ss_pred             cCcchhhh-hhhh-hhcccceeeccccccccccc-----------------------cceeecc----hhhhccccchhh
Confidence            11111111 1111 23566777777776541100                       0001110    112345667777


Q ss_pred             EEEecCCCCccccchHHH--HhhcccceEEEecccCcceecccCCCCCCCcccccccccCCCCCCCCCCCCceeeeeecc
Q 003328          354 IEVKSCDKLKHLFSFSMA--KNLLRLQKVEVFFCDDLEMMVGPDREKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSR  431 (829)
Q Consensus       354 L~i~~C~~L~~l~~~~~~--~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~l~~~~i~~~~~~~~~~~~~~~L~~L~i~~  431 (829)
                      |++.++. +.+.......  ...++|++|++++|.--..++.....                  ...+....|+.+++++
T Consensus       225 L~l~~~~-l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~p~~~~~------------------~~~~~l~~L~~l~l~~  285 (520)
T 2z7x_B          225 LTLNNIE-TTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFD------------------YSGTSLKALSIHQVVS  285 (520)
T ss_dssp             EEEEEEE-EEHHHHHHHHHHHHTSSCSEEEEEEEEEESCCCCCCCC------------------CCSCCCCEEEEEEEEE
T ss_pred             ccccccc-cCHHHHHHHHHHhhhCcccEEEeecccccCccccchhh------------------cccccCceeEeccccc
Confidence            7776653 2211110111  12357888888776421122211000                  0001123344444444


Q ss_pred             CcchhhHHhhhccccc-cccccc---CccceEeeccCCCcceeecCCccccCCCccEEeeccCCCcceecccccCCCCCc
Q 003328          432 CDKIEEIIRHVGEEVK-ENRIAF---GKLKVLILNYLPTLTSFCLENYTLEFPSLERVSLTHCPNMKTFSHRILSIPKPC  507 (829)
Q Consensus       432 C~~L~~l~~~~~~~~~-~~~~~~---~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~~~~~~~~~~l~~  507 (829)
                      +.-  .+        + .....+   ++|+.|.+.++.- .....   ...+++|++|++++|. ++..        .|.
T Consensus       286 n~~--~~--------p~~~~~~~~~~~~L~~L~l~~n~l-~~~~~---~~~l~~L~~L~Ls~n~-l~~~--------~~~  342 (520)
T 2z7x_B          286 DVF--GF--------PQSYIYEIFSNMNIKNFTVSGTRM-VHMLC---PSKISPFLHLDFSNNL-LTDT--------VFE  342 (520)
T ss_dssp             CCC--CS--------CTHHHHHHHHTCCCSEEEEESSCC-CCCCC---CSSCCCCCEEECCSSC-CCTT--------TTT
T ss_pred             cce--ec--------chhhhhcccccCceeEEEcCCCcc-ccccc---hhhCCcccEEEeECCc-cChh--------hhh
Confidence            331  10        0 000111   3466666666532 22211   1255666666666653 2221        000


Q ss_pred             cceeecccccccccccCCCccchhhhhhhhccccCCcceEEeccCCCceeeccCCCCCCCcCCCCcEEEEecCCCCcccc
Q 003328          508 KVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQLSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAI  587 (829)
Q Consensus       508 ~L~~Li~~c~~l~~~~~~~~~~~~~~~l~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~~~  587 (829)
                                                   .+..+++|++|+++++. ++.+... ...+..+++|+.|++++|.-... +
T Consensus       343 -----------------------------~~~~l~~L~~L~L~~N~-l~~l~~~-~~~~~~l~~L~~L~Ls~N~l~~~-l  390 (520)
T 2z7x_B          343 -----------------------------NCGHLTELETLILQMNQ-LKELSKI-AEMTTQMKSLQQLDISQNSVSYD-E  390 (520)
T ss_dssp             -----------------------------TCCCCSSCCEEECCSSC-CCBHHHH-HHHHTTCTTCCEEECCSSCCBCC-G
T ss_pred             -----------------------------hhccCCCCCEEEccCCc-cCccccc-hHHHhhCCCCCEEECCCCcCCcc-c
Confidence                                         11237889999999864 4432110 01123468999999999875543 4


Q ss_pred             chhhHHhccCCcEEEEecCcchhhhhccCccccccccccccccccceeecCCCCCcceeccCCCccccCCCcCeEEEeCC
Q 003328          588 PANLLRCFNNLVLLEVRNCDSLEEVLHLEELNADKEHIGPLFLELSLLGLIDLPKLKRFCNFTGNIIEMPVLCSLAIENC  667 (829)
Q Consensus       588 p~~~~~~l~sL~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~~~~sL~~L~i~~C  667 (829)
                      |...+..+++|++|++++|.--..++..            .+++|++|+++++ +++.+   +.....+++|++|++++|
T Consensus       391 ~~~~~~~l~~L~~L~Ls~N~l~~~~~~~------------l~~~L~~L~Ls~N-~l~~i---p~~~~~l~~L~~L~L~~N  454 (520)
T 2z7x_B          391 KKGDCSWTKSLLSLNMSSNILTDTIFRC------------LPPRIKVLDLHSN-KIKSI---PKQVVKLEALQELNVASN  454 (520)
T ss_dssp             GGCSCCCCTTCCEEECCSSCCCGGGGGS------------CCTTCCEEECCSS-CCCCC---CGGGGGCTTCCEEECCSS
T ss_pred             ccchhccCccCCEEECcCCCCCcchhhh------------hcccCCEEECCCC-ccccc---chhhhcCCCCCEEECCCC
Confidence            6555567899999999998733333331            2479999999888 56766   555679999999999997


Q ss_pred             CCCccc
Q 003328          668 TDMETF  673 (829)
Q Consensus       668 ~~L~~l  673 (829)
                       .++.+
T Consensus       455 -~l~~l  459 (520)
T 2z7x_B          455 -QLKSV  459 (520)
T ss_dssp             -CCCCC
T ss_pred             -cCCcc
Confidence             56666

>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=99.93  E-value=4.3e-24  Score=240.15  Aligned_cols=185  Identities=17%  Similarity=0.226  Sum_probs=155.6

Q ss_pred             CCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEE
Q 003328           19 RKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTL   98 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L   98 (829)
                      ++++++|++.++.+..+|....+++|++|++++|.    +..++.  |.++++|++|++++|.+..++. ++++++|++|
T Consensus        45 l~~l~~L~l~~~~i~~l~~~~~l~~L~~L~Ls~n~----l~~~~~--~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L  117 (466)
T 1o6v_A           45 LDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQ----LTDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGL  117 (466)
T ss_dssp             HHTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSC----CCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEE
T ss_pred             hccccEEecCCCCCccCcchhhhcCCCEEECCCCc----cCCchh--hhccccCCEEECCCCccccChh-hcCCCCCCEE
Confidence            56899999999999999876689999999999998    667776  6899999999999999998887 9999999999


Q ss_pred             EccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccc
Q 003328           99 CLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD  178 (829)
Q Consensus        99 ~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~  178 (829)
                      ++++|.++.+..+.++++|++|++++|.+..+| .++++++|++|++.+ . +..++.  ++++++|++|++++|.+.  
T Consensus       118 ~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~l~~L~~L~l~~-~-~~~~~~--~~~l~~L~~L~l~~n~l~--  190 (466)
T 1o6v_A          118 TLFNNQITDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLSFGN-Q-VTDLKP--LANLTTLERLDISSNKVS--  190 (466)
T ss_dssp             ECCSSCCCCCGGGTTCTTCSEEEEEEEEECCCG-GGTTCTTCSEEEEEE-S-CCCCGG--GTTCTTCCEEECCSSCCC--
T ss_pred             ECCCCCCCCChHHcCCCCCCEEECCCCccCCCh-hhccCCcccEeecCC-c-ccCchh--hccCCCCCEEECcCCcCC--
Confidence            999999998866999999999999999988887 489999999999974 2 444544  889999999999998764  


Q ss_pred             cccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEE
Q 003328          179 KVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKIC  225 (829)
Q Consensus       179 ~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  225 (829)
                              .+..+..+++|+.|+++++.+..++....+++|+.|+++
T Consensus       191 --------~~~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~  229 (466)
T 1o6v_A          191 --------DISVLAKLTNLESLIATNNQISDITPLGILTNLDELSLN  229 (466)
T ss_dssp             --------CCGGGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECC
T ss_pred             --------CChhhccCCCCCEEEecCCcccccccccccCCCCEEECC
Confidence                    234577888999999999888766554456677777664

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.92  E-value=5e-24  Score=245.68  Aligned_cols=144  Identities=20%  Similarity=0.251  Sum_probs=79.2

Q ss_pred             CcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEc
Q 003328           22 PIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCL  100 (829)
Q Consensus        22 l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L  100 (829)
                      .+++++++++++.+|..+. ++|++|++++|.    +..++...|.++++||+|++++|.++.+ |..+..+++|++|++
T Consensus        33 ~~~l~ls~~~L~~ip~~~~-~~L~~L~Ls~N~----i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  107 (562)
T 3a79_B           33 ESMVDYSNRNLTHVPKDLP-PRTKALSLSQNS----ISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDV  107 (562)
T ss_dssp             CCEEECTTSCCCSCCTTSC-TTCCEEECCSSC----CCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEEC
T ss_pred             CcEEEcCCCCCccCCCCCC-CCcCEEECCCCC----ccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEEC
Confidence            3566666666666665432 566666666665    4445443456666666666666666553 445566666666666


Q ss_pred             cccCCCCcccccCCCCCcEEEccCCCCccch--hhhcCCCCCCEEeccCCCCCCccChhhhcCCCcc--cEEEccCCcc
Q 003328          101 DWCQLEDVAAIGQLKKLEILSFRGSDIKQLP--LEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRL--EELYMGDSFS  175 (829)
Q Consensus       101 ~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp--~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L--~~L~l~~~~~  175 (829)
                      ++|.++.+... .+++|++|++++|.++.+|  ..++++++|++|++++|. +....   +..+++|  ++|++++|.+
T Consensus       108 s~N~l~~lp~~-~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~-l~~~~---~~~l~~L~L~~L~L~~n~l  181 (562)
T 3a79_B          108 SHNRLQNISCC-PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAK-FRQLD---LLPVAHLHLSCILLDLVSY  181 (562)
T ss_dssp             TTSCCCEECSC-CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECSB-CCTTT---TGGGTTSCEEEEEEEESSC
T ss_pred             CCCcCCccCcc-ccccCCEEECCCCCccccCchHhhcccCcccEEecCCCc-cccCc---hhhhhhceeeEEEeecccc
Confidence            66666555222 5666666666666655442  456666666666666554 22221   2333333  5565555544

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

Probab=99.92  E-value=1.2e-24  Score=257.82  Aligned_cols=178  Identities=13%  Similarity=0.225  Sum_probs=146.5

Q ss_pred             CCCcc-CCCCCcEEEeecCCCccccc-----------------ccchhh-hcCCCCccEEEecCCCCC-CCchhhcCCCC
Q 003328           35 LPERL-QCPNLQLFLLITKGIAPVSM-----------------QISDLF-FEGTEELKVLSLIGIHFS-SLPSSLGRLIN   94 (829)
Q Consensus        35 l~~~~-~~~~Lr~L~l~~~~~~~~~~-----------------~lp~~~-~~~l~~Lr~L~L~~~~i~-~lp~~l~~l~~   94 (829)
                      +|..+ ++++|++|++++|.   ...                 .+|+.+ |.++++|++|++++|.+. .+|..++++++
T Consensus       440 IP~~l~~L~~L~~L~Ls~N~---Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~  516 (876)
T 4ecn_A          440 ISKAIQRLTKLQIIYFANSP---FTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPE  516 (876)
T ss_dssp             ECGGGGGCTTCCEEEEESCC---CCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSS
T ss_pred             hhHHHhcCCCCCEEECcCCc---CCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCC
Confidence            66655 89999999999999   333                 288875 349999999999999865 59999999999


Q ss_pred             CcEEEccccC-CCC--c-ccccCC-------CCCcEEEccCCCCccchh--hhcCCCCCCEEeccCCCCCCccChhhhcC
Q 003328           95 LQTLCLDWCQ-LED--V-AAIGQL-------KKLEILSFRGSDIKQLPL--EIGQLTRLQLLDLSNCSSLVVIAPNVISK  161 (829)
Q Consensus        95 Lr~L~L~~~~-l~~--l-~~i~~L-------~~L~~L~l~~~~l~~lp~--~i~~L~~L~~L~l~~~~~l~~lp~~~l~~  161 (829)
                      |++|++++|+ ++.  + ..++++       ++|++|++++|.++.+|.  .++++++|++|++++|. +..+| . +++
T Consensus       517 L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~-l~~lp-~-~~~  593 (876)
T 4ecn_A          517 LQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNK-VRHLE-A-FGT  593 (876)
T ss_dssp             CCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTSC-CCBCC-C-CCT
T ss_pred             CCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCCC-cccch-h-hcC
Confidence            9999999998 775  4 555555       499999999999999999  89999999999999988 66899 4 899


Q ss_pred             CCcccEEEccCCccccccccCCCccchhhhcCCCC-CcEEEeecCCCCCcCCccc---cccccEEEEEEc
Q 003328          162 FSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSK-LTTLEIHVWDAQILPQDWV---SVELQRYKICIG  227 (829)
Q Consensus       162 L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~-L~~L~l~~~~~~~~~~~~~---~~~L~~L~l~~~  227 (829)
                      +++|++|++++|.+.         .....+.++++ |+.|+++.|.+..+|..+.   ..+|+.|+++.+
T Consensus       594 L~~L~~L~Ls~N~l~---------~lp~~l~~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N  654 (876)
T 4ecn_A          594 NVKLTDLKLDYNQIE---------EIPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYN  654 (876)
T ss_dssp             TSEESEEECCSSCCS---------CCCTTSCEECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEECCSS
T ss_pred             CCcceEEECcCCccc---------cchHHHhhccccCCEEECcCCCCCcCchhhhccccCCCCEEECcCC
Confidence            999999999999764         23345777788 9999999999988876542   234777766533

>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=1e-24  Score=254.25  Aligned_cols=153  Identities=15%  Similarity=0.205  Sum_probs=84.8

Q ss_pred             cchhhhcCCCCccEEEecCCCCCC------------------Cchhhc--CCCCCcEEEccccCCC-Cc-ccccCCCCCc
Q 003328           61 ISDLFFEGTEELKVLSLIGIHFSS------------------LPSSLG--RLINLQTLCLDWCQLE-DV-AAIGQLKKLE  118 (829)
Q Consensus        61 lp~~~~~~l~~Lr~L~L~~~~i~~------------------lp~~l~--~l~~Lr~L~L~~~~l~-~l-~~i~~L~~L~  118 (829)
                      +|.. |+++++|++|++++|.++.                  +|..++  ++++|++|++++|.+. .+ ..++++++|+
T Consensus       198 ip~~-l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~  276 (636)
T 4eco_A          198 VSKA-VMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQ  276 (636)
T ss_dssp             ECGG-GGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCC
T ss_pred             CCHH-HhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCC
Confidence            5554 3566666666666666655                  666655  6666666666666543 33 5566666666


Q ss_pred             EEEccCCC-Ccc--chhhhcCC------CCCCEEeccCCCCCCccCh--hhhcCCCcccEEEccCCccccccccCCCccc
Q 003328          119 ILSFRGSD-IKQ--LPLEIGQL------TRLQLLDLSNCSSLVVIAP--NVISKFSRLEELYMGDSFSQWDKVEGGSNAS  187 (829)
Q Consensus       119 ~L~l~~~~-l~~--lp~~i~~L------~~L~~L~l~~~~~l~~lp~--~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~  187 (829)
                      +|++++|. ++.  +|..++++      ++|++|++++|. +..+|.  . ++++++|++|++++|.+.     +.    
T Consensus       277 ~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~-l~~ip~~~~-l~~l~~L~~L~L~~N~l~-----g~----  345 (636)
T 4eco_A          277 LINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNN-LKTFPVETS-LQKMKKLGMLECLYNQLE-----GK----  345 (636)
T ss_dssp             EEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSC-CSSCCCHHH-HTTCTTCCEEECCSCCCE-----EE----
T ss_pred             EEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCc-CCccCchhh-hccCCCCCEEeCcCCcCc-----cc----
Confidence            66666665 553  56555554      666666666655 345555  3 566666666666655443     11    


Q ss_pred             hhhhcCCCCCcEEEeecCCCCCcCCcc-cccc-ccEEEEE
Q 003328          188 LAELKGLSKLTTLEIHVWDAQILPQDW-VSVE-LQRYKIC  225 (829)
Q Consensus       188 ~~~L~~l~~L~~L~l~~~~~~~~~~~~-~~~~-L~~L~l~  225 (829)
                      +..++.+++|+.|++++|.+..+|..+ .+++ |+.|+++
T Consensus       346 ip~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls  385 (636)
T 4eco_A          346 LPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFA  385 (636)
T ss_dssp             CCCCEEEEEESEEECCSSEEEECCTTSEEECTTCCEEECC
T ss_pred             hhhhCCCCCCCEEECCCCccccccHhhhhhcccCcEEEcc
Confidence            113444555666666665555554433 3444 5555543

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.92  E-value=2.6e-24  Score=248.04  Aligned_cols=149  Identities=16%  Similarity=0.178  Sum_probs=124.0

Q ss_pred             cCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEccccCCCCc--ccccCCC
Q 003328           39 LQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLK  115 (829)
Q Consensus        39 ~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~  115 (829)
                      ..+...++++++++.    +..+|..+   .++|++|++++|.++.+| ..+.++++|++|++++|.++.+  ..|++++
T Consensus        28 ~~~~~~~~l~ls~~~----L~~ip~~~---~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~  100 (562)
T 3a79_B           28 FSNELESMVDYSNRN----LTHVPKDL---PPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQ  100 (562)
T ss_dssp             -----CCEEECTTSC----CCSCCTTS---CTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCT
T ss_pred             cccCCCcEEEcCCCC----CccCCCCC---CCCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCC
Confidence            356667999999998    67799765   389999999999999876 5899999999999999999977  6799999


Q ss_pred             CCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccC--hhhhcCCCcccEEEccCCccccccccCCCccchhhhcC
Q 003328          116 KLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIA--PNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKG  193 (829)
Q Consensus       116 ~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp--~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~  193 (829)
                      +|++|++++|.++.+|..  .+++|++|++++|. +..++  .. ++++++|++|+++++.+.        ...+..+..
T Consensus       101 ~L~~L~Ls~N~l~~lp~~--~l~~L~~L~Ls~N~-l~~l~~p~~-~~~l~~L~~L~L~~n~l~--------~~~~~~l~~  168 (562)
T 3a79_B          101 DLEYLDVSHNRLQNISCC--PMASLRHLDLSFND-FDVLPVCKE-FGNLTKLTFLGLSAAKFR--------QLDLLPVAH  168 (562)
T ss_dssp             TCCEEECTTSCCCEECSC--CCTTCSEEECCSSC-CSBCCCCGG-GGGCTTCCEEEEECSBCC--------TTTTGGGTT
T ss_pred             CCCEEECCCCcCCccCcc--ccccCCEEECCCCC-ccccCchHh-hcccCcccEEecCCCccc--------cCchhhhhh
Confidence            999999999999999987  89999999999988 66654  44 899999999999998775        234455555


Q ss_pred             CCCCcEEEeecCCC
Q 003328          194 LSKLTTLEIHVWDA  207 (829)
Q Consensus       194 l~~L~~L~l~~~~~  207 (829)
                      + +|+.|+++++.+
T Consensus       169 L-~L~~L~L~~n~l  181 (562)
T 3a79_B          169 L-HLSCILLDLVSY  181 (562)
T ss_dssp             S-CEEEEEEEESSC
T ss_pred             c-eeeEEEeecccc
Confidence            5 569999999877

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.91  E-value=2.7e-23  Score=224.39  Aligned_cols=171  Identities=16%  Similarity=0.202  Sum_probs=92.2

Q ss_pred             CCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcE
Q 003328           18 IRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQT   97 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~   97 (829)
                      .++++++|+++++.+..++....+++|++|++++|.    +..++.  |.++++|++|++++|.++.+| .+..+++|++
T Consensus        42 ~l~~L~~L~l~~~~i~~~~~~~~~~~L~~L~l~~n~----i~~~~~--~~~l~~L~~L~L~~n~i~~~~-~~~~l~~L~~  114 (347)
T 4fmz_A           42 ELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQ----ITDISP--LSNLVKLTNLYIGTNKITDIS-ALQNLTNLRE  114 (347)
T ss_dssp             HHTTCSEEECCSSCCCCCTTGGGCTTCCEEECCSSC----CCCCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSE
T ss_pred             hcccccEEEEeCCccccchhhhhcCCccEEEccCCc----cccchh--hhcCCcCCEEEccCCcccCch-HHcCCCcCCE
Confidence            345566666666666555543455666666666655    344444  455666666666666555554 3555666666


Q ss_pred             EEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcccc
Q 003328           98 LCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQW  177 (829)
Q Consensus        98 L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~  177 (829)
                      |++++|.+..+..+.++++|++|++++|.....+..++++++|++|++++|. +..++.  ++.+++|++|++++|.+. 
T Consensus       115 L~l~~n~i~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~-~~~~~~--~~~l~~L~~L~l~~n~l~-  190 (347)
T 4fmz_A          115 LYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESK-VKDVTP--IANLTDLYSLSLNYNQIE-  190 (347)
T ss_dssp             EECTTSCCCCCGGGTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSC-CCCCGG--GGGCTTCSEEECTTSCCC-
T ss_pred             EECcCCcccCchhhccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCC-cCCchh--hccCCCCCEEEccCCccc-
Confidence            6666665555533556666666666665333222335556666666666554 344433  455566666666555443 


Q ss_pred             ccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          178 DKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       178 ~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                               .+..+..+++|+.|+++++.+.
T Consensus       191 ---------~~~~~~~l~~L~~L~l~~n~l~  212 (347)
T 4fmz_A          191 ---------DISPLASLTSLHYFTAYVNQIT  212 (347)
T ss_dssp             ---------CCGGGGGCTTCCEEECCSSCCC
T ss_pred             ---------ccccccCCCccceeecccCCCC
Confidence                     1112444555555555554443

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.91  E-value=3e-23  Score=224.03  Aligned_cols=292  Identities=15%  Similarity=0.197  Sum_probs=197.0

Q ss_pred             CCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc
Q 003328           29 QRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV  108 (829)
Q Consensus        29 ~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l  108 (829)
                      ...+..+.....+++|++|++.++.    +..++.  +..+++|++|++++|.++.+|. +..+++|++|++++|.++.+
T Consensus        31 ~~~~~~~~~~~~l~~L~~L~l~~~~----i~~~~~--~~~~~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~L~~n~i~~~  103 (347)
T 4fmz_A           31 KASVTDVVTQEELESITKLVVAGEK----VASIQG--IEYLTNLEYLNLNGNQITDISP-LSNLVKLTNLYIGTNKITDI  103 (347)
T ss_dssp             CSCTTSEECHHHHTTCSEEECCSSC----CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCC
T ss_pred             ccccCCcccchhcccccEEEEeCCc----cccchh--hhhcCCccEEEccCCccccchh-hhcCCcCCEEEccCCcccCc
Confidence            3344444444467788888888887    566664  5788888888888888888876 88888888888888888888


Q ss_pred             ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccch
Q 003328          109 AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASL  188 (829)
Q Consensus       109 ~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~  188 (829)
                      ..+.++++|++|++++|.++.+|. +.++++|++|++++|.....++.  +..+++|++|++++|.+.          .+
T Consensus       104 ~~~~~l~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~~--~~~l~~L~~L~l~~~~~~----------~~  170 (347)
T 4fmz_A          104 SALQNLTNLRELYLNEDNISDISP-LANLTKMYSLNLGANHNLSDLSP--LSNMTGLNYLTVTESKVK----------DV  170 (347)
T ss_dssp             GGGTTCTTCSEEECTTSCCCCCGG-GTTCTTCCEEECTTCTTCCCCGG--GTTCTTCCEEECCSSCCC----------CC
T ss_pred             hHHcCCCcCCEEECcCCcccCchh-hccCCceeEEECCCCCCcccccc--hhhCCCCcEEEecCCCcC----------Cc
Confidence            778888888888888888888876 88888888888888876666554  788888888888887654          12


Q ss_pred             hhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEccccccCCCCCCCccEEEeccCCccccchhhhhHHHhhhhhe
Q 003328          189 AELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAE  268 (829)
Q Consensus       189 ~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~l~~L~  268 (829)
                      ..+..+++|+.|+++++.+..++....+++|+.+++..+....                       +..   ...+++|+
T Consensus       171 ~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~-----------------------~~~---~~~~~~L~  224 (347)
T 4fmz_A          171 TPIANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQITD-----------------------ITP---VANMTRLN  224 (347)
T ss_dssp             GGGGGCTTCSEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCC-----------------------CGG---GGGCTTCC
T ss_pred             hhhccCCCCCEEEccCCcccccccccCCCccceeecccCCCCC-----------------------Cch---hhcCCcCC
Confidence            2266778888888888888777665567788887765332211                       000   11245677


Q ss_pred             eEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceeccccccchhhhcCCCCCCCCC
Q 003328          269 EIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSF  348 (829)
Q Consensus       269 ~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~  348 (829)
                      +|++.++.- +.+..    +..+++|++|+++++. +..+      .....+++|+.|+++++. ++.+     +....+
T Consensus       225 ~L~l~~n~l-~~~~~----~~~l~~L~~L~l~~n~-l~~~------~~~~~l~~L~~L~l~~n~-l~~~-----~~~~~l  286 (347)
T 4fmz_A          225 SLKIGNNKI-TDLSP----LANLSQLTWLEIGTNQ-ISDI------NAVKDLTKLKMLNVGSNQ-ISDI-----SVLNNL  286 (347)
T ss_dssp             EEECCSSCC-CCCGG----GTTCTTCCEEECCSSC-CCCC------GGGTTCTTCCEEECCSSC-CCCC-----GGGGGC
T ss_pred             EEEccCCcc-CCCcc----hhcCCCCCEEECCCCc-cCCC------hhHhcCCCcCEEEccCCc-cCCC-----hhhcCC
Confidence            777766532 22111    3366777777777664 2221      123456677777777663 2221     224466


Q ss_pred             CCccEEEEecCCCCccccchHHHHhhcccceEEEeccc
Q 003328          349 SNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCD  386 (829)
Q Consensus       349 ~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~  386 (829)
                      ++|++|++++|. ++..++ ..+..+++|++|++++|+
T Consensus       287 ~~L~~L~L~~n~-l~~~~~-~~l~~l~~L~~L~L~~n~  322 (347)
T 4fmz_A          287 SQLNSLFLNNNQ-LGNEDM-EVIGGLTNLTTLFLSQNH  322 (347)
T ss_dssp             TTCSEEECCSSC-CCGGGH-HHHHTCTTCSEEECCSSS
T ss_pred             CCCCEEECcCCc-CCCcCh-hHhhccccCCEEEccCCc
Confidence            777777777763 444332 344567777777777765

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.91  E-value=1e-22  Score=228.87  Aligned_cols=195  Identities=19%  Similarity=0.251  Sum_probs=163.6

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS   88 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~   88 (829)
                      ++..++++..++++++|++++|.+..+++...+++|++|++++|.    +..++.  +.++++|++|++++|.++.+|. 
T Consensus        57 ~i~~l~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~l~~n~----l~~~~~--~~~l~~L~~L~L~~n~l~~~~~-  129 (466)
T 1o6v_A           57 GIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQ----IADITP--LANLTNLTGLTLFNNQITDIDP-  129 (466)
T ss_dssp             CCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSC----CCCCGG--GTTCTTCCEEECCSSCCCCCGG-
T ss_pred             CCccCcchhhhcCCCEEECCCCccCCchhhhccccCCEEECCCCc----cccChh--hcCCCCCCEEECCCCCCCCChH-
Confidence            455667777889999999999999998885589999999999998    566666  6999999999999999999876 


Q ss_pred             hcCCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEE
Q 003328           89 LGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEEL  168 (829)
Q Consensus        89 l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L  168 (829)
                      +..+++|++|++++|.+..+..++++.+|++|++++ .+..++. ++++++|++|++++|. +..++.  +.++++|++|
T Consensus       130 ~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~-~~~~~~~-~~~l~~L~~L~l~~n~-l~~~~~--l~~l~~L~~L  204 (466)
T 1o6v_A          130 LKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGN-QVTDLKP-LANLTTLERLDISSNK-VSDISV--LAKLTNLESL  204 (466)
T ss_dssp             GTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEE-SCCCCGG-GTTCTTCCEEECCSSC-CCCCGG--GGGCTTCSEE
T ss_pred             HcCCCCCCEEECCCCccCCChhhccCCcccEeecCC-cccCchh-hccCCCCCEEECcCCc-CCCChh--hccCCCCCEE
Confidence            899999999999999999887799999999999974 5555554 8999999999999987 677764  8999999999


Q ss_pred             EccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEE
Q 003328          169 YMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKIC  225 (829)
Q Consensus       169 ~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  225 (829)
                      ++++|.+.          ....++.+++|+.|+++++.+..++....+++|+.|+++
T Consensus       205 ~l~~n~l~----------~~~~~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~  251 (466)
T 1o6v_A          205 IATNNQIS----------DITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLA  251 (466)
T ss_dssp             ECCSSCCC----------CCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECC
T ss_pred             EecCCccc----------ccccccccCCCCEEECCCCCcccchhhhcCCCCCEEECC
Confidence            99998765          122266788999999999988776544456666666554

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.90  E-value=3.1e-23  Score=230.96  Aligned_cols=141  Identities=16%  Similarity=0.118  Sum_probs=61.4

Q ss_pred             CCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCc-------------cEEEecCCCCCCC
Q 003328           20 KDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEEL-------------KVLSLIGIHFSSL   85 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~L-------------r~L~L~~~~i~~l   85 (829)
                      .++++++++++.+..+|..+ ++++|++|++++|.   ..+.+|..+ +++++|             ++|+++++.++.+
T Consensus        11 ~~L~~L~l~~n~l~~iP~~i~~L~~L~~L~l~~n~---~~~~~p~~~-~~l~~L~~l~l~~c~~~~l~~L~l~~~~l~~l   86 (454)
T 1jl5_A           11 TFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSE---WERNAPPGN-GEQREMAVSRLRDCLDRQAHELELNNLGLSSL   86 (454)
T ss_dssp             -----------------------CCHHHHHHHHHH---HHHTSCTTS-CCCHHHHHHHHHHHHHHTCSEEECTTSCCSCC
T ss_pred             ccchhhhcccCchhhCChhHhcccchhhhhccCCc---ccccCCccc-ccchhcchhhhhhhhccCCCEEEecCCccccC
Confidence            45666666666666666544 56666666666665   334555543 555543             5555555555555


Q ss_pred             chhhcCCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcc
Q 003328           86 PSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRL  165 (829)
Q Consensus        86 p~~l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L  165 (829)
                      |..   .++|++|++++|.++.+..  .+.+|++|++++|.++.+|..   .++|++|++++|. +..+| . ++++++|
T Consensus        87 p~~---~~~L~~L~l~~n~l~~lp~--~~~~L~~L~l~~n~l~~l~~~---~~~L~~L~L~~n~-l~~lp-~-~~~l~~L  155 (454)
T 1jl5_A           87 PEL---PPHLESLVASCNSLTELPE--LPQSLKSLLVDNNNLKALSDL---PPLLEYLGVSNNQ-LEKLP-E-LQNSSFL  155 (454)
T ss_dssp             CSC---CTTCSEEECCSSCCSSCCC--CCTTCCEEECCSSCCSCCCSC---CTTCCEEECCSSC-CSSCC-C-CTTCTTC
T ss_pred             CCC---cCCCCEEEccCCcCCcccc--ccCCCcEEECCCCccCcccCC---CCCCCEEECcCCC-CCCCc-c-cCCCCCC
Confidence            542   2455555555555554421  124555555555555544421   1455555555554 44455 2 5555555


Q ss_pred             cEEEccCCcc
Q 003328          166 EELYMGDSFS  175 (829)
Q Consensus       166 ~~L~l~~~~~  175 (829)
                      ++|++++|.+
T Consensus       156 ~~L~l~~N~l  165 (454)
T 1jl5_A          156 KIIDVDNNSL  165 (454)
T ss_dssp             CEEECCSSCC
T ss_pred             CEEECCCCcC
Confidence            5555555543

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

Probab=99.90  E-value=5.9e-22  Score=222.40  Aligned_cols=154  Identities=23%  Similarity=0.349  Sum_probs=86.7

Q ss_pred             CCCCcEEEcCCCCCCCCC-Ccc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-CchhhcCCCCC
Q 003328           19 RKDPIAISLPQRDIQELP-ERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-LPSSLGRLINL   95 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~-~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lp~~l~~l~~L   95 (829)
                      ++++++|++++|.+..++ ..+ ++++|++|++++|.   ....++...|.++++|++|++++|.++. .|..++++++|
T Consensus        29 ~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~---~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  105 (455)
T 3v47_A           29 PAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQT---PGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANL  105 (455)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCS---TTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTC
T ss_pred             CCccCEEEecCCccCcCChhHhccCccccEEECcCCc---ccceECcccccccccCCEEeCCCCccCccChhhccCcccC
Confidence            356666666666666542 223 56666666666665   2334444445666666666666666655 35556666666


Q ss_pred             cEEEccccCCCC--ccc--ccCCCCCcEEEccCCCCccc-hhh-hcCCCCCCEEeccCCCCCCccChhhhcCC--CcccE
Q 003328           96 QTLCLDWCQLED--VAA--IGQLKKLEILSFRGSDIKQL-PLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKF--SRLEE  167 (829)
Q Consensus        96 r~L~L~~~~l~~--l~~--i~~L~~L~~L~l~~~~l~~l-p~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L--~~L~~  167 (829)
                      ++|++++|.+..  +..  ++++++|++|++++|.++.+ |.. ++++++|++|++++|. +..++...+..+  .+|+.
T Consensus       106 ~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~l~~l~~~~L~~  184 (455)
T 3v47_A          106 EVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNK-VKSICEEDLLNFQGKHFTL  184 (455)
T ss_dssp             CEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCC-BSCCCTTTSGGGTTCEEEE
T ss_pred             CEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCc-ccccChhhhhccccccccc
Confidence            666666666654  222  66666666666666666654 333 5666666666666655 333322224433  45666


Q ss_pred             EEccCCccc
Q 003328          168 LYMGDSFSQ  176 (829)
Q Consensus       168 L~l~~~~~~  176 (829)
                      |+++++.+.
T Consensus       185 L~l~~n~l~  193 (455)
T 3v47_A          185 LRLSSITLQ  193 (455)
T ss_dssp             EECTTCBCT
T ss_pred             cccccCccc
Confidence            666655443

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

Probab=99.89  E-value=1.7e-22  Score=225.30  Aligned_cols=169  Identities=14%  Similarity=0.140  Sum_probs=138.6

Q ss_pred             cCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCC
Q 003328           16 ETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINL   95 (829)
Q Consensus        16 ~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~L   95 (829)
                      +..++++++|++++|.+..+|....+++|++|++++|.    +..+|   ++.+++|++|++++|.++.+|  ++.+++|
T Consensus        38 ~~~l~~L~~L~Ls~n~l~~~~~l~~l~~L~~L~Ls~n~----l~~~~---~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L  108 (457)
T 3bz5_A           38 EEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNN----ITTLD---LSQNTNLTYLACDSNKLTNLD--VTPLTKL  108 (457)
T ss_dssp             HHHHTTCCEEECCSSCCCCCTTGGGCTTCSEEECCSSC----CSCCC---CTTCTTCSEEECCSSCCSCCC--CTTCTTC
T ss_pred             hhHcCCCCEEEccCCCcccChhhcccCCCCEEEccCCc----CCeEc---cccCCCCCEEECcCCCCceee--cCCCCcC
Confidence            34567899999999998888755588999999999988    55565   588899999999999988875  7889999


Q ss_pred             cEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcc
Q 003328           96 QTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS  175 (829)
Q Consensus        96 r~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~  175 (829)
                      ++|++++|.++.+. ++++++|++|++++|.++.+|  ++++++|++|++++|..++.++   ++.+++|++|++++|.+
T Consensus       109 ~~L~L~~N~l~~l~-~~~l~~L~~L~l~~N~l~~l~--l~~l~~L~~L~l~~n~~~~~~~---~~~l~~L~~L~ls~n~l  182 (457)
T 3bz5_A          109 TYLNCDTNKLTKLD-VSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLD---VTPQTQLTTLDCSFNKI  182 (457)
T ss_dssp             CEEECCSSCCSCCC-CTTCTTCCEEECTTSCCSCCC--CTTCTTCCEEECTTCSCCCCCC---CTTCTTCCEEECCSSCC
T ss_pred             CEEECCCCcCCeec-CCCCCcCCEEECCCCccceec--cccCCcCCEEECCCCCcccccc---cccCCcCCEEECCCCcc
Confidence            99999999888775 888999999999999888875  7889999999999987677774   67889999999988876


Q ss_pred             ccccccCCCccchhhhcCCCCCcEEEeecCCCCCc
Q 003328          176 QWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQIL  210 (829)
Q Consensus       176 ~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~  210 (829)
                      .     +     +. +..+++|+.|+++++.+..+
T Consensus       183 ~-----~-----l~-l~~l~~L~~L~l~~N~l~~~  206 (457)
T 3bz5_A          183 T-----E-----LD-VSQNKLLNRLNCDTNNITKL  206 (457)
T ss_dssp             C-----C-----CC-CTTCTTCCEEECCSSCCSCC
T ss_pred             c-----e-----ec-cccCCCCCEEECcCCcCCee
Confidence            5     1     11 66778888999888877654

>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=99.89  E-value=1.7e-22  Score=226.91  Aligned_cols=321  Identities=15%  Similarity=0.168  Sum_probs=212.4

Q ss_pred             CcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCC-CC-chhhcCCCCCcEEE
Q 003328           22 PIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFS-SL-PSSLGRLINLQTLC   99 (829)
Q Consensus        22 l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~l-p~~l~~l~~Lr~L~   99 (829)
                      -+.++.+++++..+|.  -.++|++|++++|.    +..++...|.++++|++|++++|.+. .+ |..+..+++|++|+
T Consensus        12 ~~~~~c~~~~l~~lp~--l~~~l~~L~Ls~n~----i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~   85 (455)
T 3v47_A           12 GYNAICINRGLHQVPE--LPAHVNYVDLSLNS----IAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILK   85 (455)
T ss_dssp             TTEEECCSSCCSSCCC--CCTTCCEEECCSSC----CCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEE
T ss_pred             ccccCcCCCCcccCCC--CCCccCEEEecCCc----cCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEe
Confidence            3578888889999998  33789999999999    56665555799999999999999986 34 56789999999999


Q ss_pred             ccccCCCCc--ccccCCCCCcEEEccCCCCcc-chhh--hcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCc
Q 003328          100 LDWCQLEDV--AAIGQLKKLEILSFRGSDIKQ-LPLE--IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  174 (829)
Q Consensus       100 L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~-lp~~--i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~  174 (829)
                      +++|.+..+  ..++++++|++|++++|.++. .|..  ++++++|++|++++|......|...++++++|++|++++|.
T Consensus        86 Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~  165 (455)
T 3v47_A           86 LDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNK  165 (455)
T ss_dssp             CTTCTTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCC
T ss_pred             CCCCccCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCc
Confidence            999999876  789999999999999999985 4555  89999999999999884333355447899999999999998


Q ss_pred             cccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc----------ccccccEEEEEEcccc---ccCCCCCCCcc
Q 003328          175 SQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW----------VSVELQRYKICIGEAR---RIWPVNSETSR  241 (829)
Q Consensus       175 ~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~----------~~~~L~~L~l~~~~~~---~~w~~~~~~~~  241 (829)
                      +.     +.....+..+.. .+|+.|+++.+.+..++...          ..++|+.|+++.+...   +.+....    
T Consensus       166 l~-----~~~~~~l~~l~~-~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~----  235 (455)
T 3v47_A          166 VK-----SICEEDLLNFQG-KHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDA----  235 (455)
T ss_dssp             BS-----CCCTTTSGGGTT-CEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHH----
T ss_pred             cc-----ccChhhhhcccc-ccccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhcc----
Confidence            75     222233333322 47888888888876655321          3467888877543221   0000000    


Q ss_pred             EEEeccCCccccchhhhhHHHhhhhheeEeeccccCcccccc----------ccCCCCCCCCCcEEEEeecCCceEEecc
Q 003328          242 LVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVH----------ELDDGEGFPRLKHLWVERCSEILHIVGS  311 (829)
Q Consensus       242 ~~~l~~~~~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~----------~l~~~~~~~~L~~L~l~~~~~l~~i~~~  311 (829)
                                          ....+++.|++.++........          .+. .-..++|++|+++++.-....   
T Consensus       236 --------------------~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~L~~L~l~~n~l~~~~---  291 (455)
T 3v47_A          236 --------------------IAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFK-GLEASGVKTCDLSKSKIFALL---  291 (455)
T ss_dssp             --------------------TTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTG-GGTTSCCCEEECCSSCCCEEC---
T ss_pred             --------------------ccccceeeEeeccccccccccchhhhccCcccccc-cccccCceEEEecCccccccc---
Confidence                                0013445555544422211000          000 012357777777776533321   


Q ss_pred             cCcccccccccccceeccccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecccCccee
Q 003328          312 VGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMM  391 (829)
Q Consensus       312 ~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~~  391 (829)
                      +  .....+++|+.|+++++.-- .+...   ....+++|++|+++++ +++.+++ ..+..+++|++|+++++. +..+
T Consensus       292 ~--~~~~~l~~L~~L~Ls~n~l~-~~~~~---~~~~l~~L~~L~Ls~N-~l~~~~~-~~~~~l~~L~~L~Ls~N~-l~~~  362 (455)
T 3v47_A          292 K--SVFSHFTDLEQLTLAQNEIN-KIDDN---AFWGLTHLLKLNLSQN-FLGSIDS-RMFENLDKLEVLDLSYNH-IRAL  362 (455)
T ss_dssp             T--TTTTTCTTCCEEECTTSCCC-EECTT---TTTTCTTCCEEECCSS-CCCEECG-GGGTTCTTCCEEECCSSC-CCEE
T ss_pred             h--hhcccCCCCCEEECCCCccc-ccChh---HhcCcccCCEEECCCC-ccCCcCh-hHhcCcccCCEEECCCCc-cccc
Confidence            1  11344677777877766432 11111   1346778888888876 4555543 334667888888888763 3433

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.89  E-value=3.4e-22  Score=219.31  Aligned_cols=156  Identities=13%  Similarity=0.221  Sum_probs=124.6

Q ss_pred             ccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEccccCCCCc--ccccCC
Q 003328           38 RLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQL  114 (829)
Q Consensus        38 ~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L  114 (829)
                      ...++++++|++.++.    +..+|..+|.++++|++|++++|.++.++ ..+..+++|++|++++|.+..+  ..++++
T Consensus        41 ~~~l~~l~~l~l~~~~----l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l  116 (390)
T 3o6n_A           41 DITLNNQKIVTFKNST----MRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNV  116 (390)
T ss_dssp             SGGGCCCSEEEEESCE----ESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTC
T ss_pred             ccccCCceEEEecCCc----hhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCC
Confidence            3467889999998887    77888888888999999999999888755 4788899999999999988876  568889


Q ss_pred             CCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcC
Q 003328          115 KKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKG  193 (829)
Q Consensus       115 ~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~  193 (829)
                      ++|++|++++|.++.+|.. ++++++|++|++++|. +..++...++++++|++|++++|.+.        ..   .+..
T Consensus       117 ~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~--------~~---~~~~  184 (390)
T 3o6n_A          117 PLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNN-LERIEDDTFQATTSLQNLQLSSNRLT--------HV---DLSL  184 (390)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCBCCTTTTSSCTTCCEEECCSSCCS--------BC---CGGG
T ss_pred             CCCCEEECCCCccCcCCHHHhcCCCCCcEEECCCCc-cCccChhhccCCCCCCEEECCCCcCC--------cc---cccc
Confidence            9999999999988888877 4888999999998887 56665544788899999999888764        11   2445


Q ss_pred             CCCCcEEEeecCCCCC
Q 003328          194 LSKLTTLEIHVWDAQI  209 (829)
Q Consensus       194 l~~L~~L~l~~~~~~~  209 (829)
                      +++|+.|+++++.+..
T Consensus       185 l~~L~~L~l~~n~l~~  200 (390)
T 3o6n_A          185 IPSLFHANVSYNLLST  200 (390)
T ss_dssp             CTTCSEEECCSSCCSE
T ss_pred             ccccceeecccccccc
Confidence            6778888888776543

>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=99.88  E-value=4.6e-21  Score=216.36  Aligned_cols=173  Identities=21%  Similarity=0.246  Sum_probs=138.2

Q ss_pred             CcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEc
Q 003328           22 PIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCL  100 (829)
Q Consensus        22 l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L  100 (829)
                      -+.++.+++++..+|..+ .+++++|++++|.    +..++...|.++++|++|++++|.++.+ |..+.++++|++|++
T Consensus        13 ~~~v~c~~~~l~~ip~~~-~~~l~~L~L~~n~----l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L   87 (477)
T 2id5_A           13 DRAVLCHRKRFVAVPEGI-PTETRLLDLGKNR----IKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGL   87 (477)
T ss_dssp             TTEEECCSCCCSSCCSCC-CTTCSEEECCSSC----CCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CCEEEeCCCCcCcCCCCC-CCCCcEEECCCCc----cceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEEC
Confidence            467888888888888755 3588999999998    6667655678999999999999998874 778899999999999


Q ss_pred             cccCCCCc--ccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcccc
Q 003328          101 DWCQLEDV--AAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQW  177 (829)
Q Consensus       101 ~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~  177 (829)
                      ++|.++.+  ..+.++++|++|++++|.+..+ |..+.++++|++|++++|. +..++...++.+++|++|++++|.+. 
T Consensus        88 ~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~-  165 (477)
T 2id5_A           88 RSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDND-LVYISHRAFSGLNSLEQLTLEKCNLT-  165 (477)
T ss_dssp             CSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTT-CCEECTTSSTTCTTCCEEEEESCCCS-
T ss_pred             CCCcCCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCc-cceeChhhccCCCCCCEEECCCCcCc-
Confidence            99998877  4678999999999999988865 5568899999999999877 55555444788899999999888664 


Q ss_pred             ccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          178 DKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       178 ~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                             ......+.++++|+.|++..+.+.
T Consensus       166 -------~~~~~~l~~l~~L~~L~l~~n~i~  189 (477)
T 2id5_A          166 -------SIPTEALSHLHGLIVLRLRHLNIN  189 (477)
T ss_dssp             -------SCCHHHHTTCTTCCEEEEESCCCC
T ss_pred             -------ccChhHhcccCCCcEEeCCCCcCc
Confidence                   233445677788888888876654

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.88  E-value=2e-21  Score=213.23  Aligned_cols=281  Identities=16%  Similarity=0.143  Sum_probs=209.8

Q ss_pred             CCCCCcEEEcCCCCCCCCCCcc--CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCC
Q 003328           18 IRKDPIAISLPQRDIQELPERL--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLIN   94 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~   94 (829)
                      .++++++++++++.+..+|...  .+++|++|++++|.    +..++...|.++++|++|++++|.++.+| ..++.+++
T Consensus        43 ~l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~----i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  118 (390)
T 3o6n_A           43 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ----IEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPL  118 (390)
T ss_dssp             GGCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSC----CCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             ccCCceEEEecCCchhhCChhHhcccccCcEEECCCCc----ccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCC
Confidence            3579999999999999999854  79999999999998    67777666799999999999999999865 55899999


Q ss_pred             CcEEEccccCCCCc-c-cccCCCCCcEEEccCCCCccch-hhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEcc
Q 003328           95 LQTLCLDWCQLEDV-A-AIGQLKKLEILSFRGSDIKQLP-LEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG  171 (829)
Q Consensus        95 Lr~L~L~~~~l~~l-~-~i~~L~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~  171 (829)
                      |++|++++|.++.+ . .++++++|++|++++|.++.++ ..++++++|++|++++|. +..++   ++.+++|++|+++
T Consensus       119 L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~---~~~l~~L~~L~l~  194 (390)
T 3o6n_A          119 LTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNR-LTHVD---LSLIPSLFHANVS  194 (390)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSC-CSBCC---GGGCTTCSEEECC
T ss_pred             CCEEECCCCccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCc-CCccc---cccccccceeecc
Confidence            99999999999988 3 4699999999999999999775 459999999999999987 66665   6789999999999


Q ss_pred             CCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEccccccCCCCCCCccEEEeccCCcc
Q 003328          172 DSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENV  251 (829)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~  251 (829)
                      ++.+.             .+....+|+.|+++++.+..++... ..+|+.|++                           
T Consensus       195 ~n~l~-------------~~~~~~~L~~L~l~~n~l~~~~~~~-~~~L~~L~l---------------------------  233 (390)
T 3o6n_A          195 YNLLS-------------TLAIPIAVEELDASHNSINVVRGPV-NVELTILKL---------------------------  233 (390)
T ss_dssp             SSCCS-------------EEECCSSCSEEECCSSCCCEEECCC-CSSCCEEEC---------------------------
T ss_pred             ccccc-------------ccCCCCcceEEECCCCeeeeccccc-cccccEEEC---------------------------
Confidence            88654             2234458999999998877664432 344555544                           


Q ss_pred             ccchhhhhHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceecccc
Q 003328          252 STLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFL  331 (829)
Q Consensus       252 ~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~  331 (829)
                                           .++. +++. ..   ++.+++|++|+++++.- +.+..    .....+++|+.|+++++
T Consensus       234 ---------------------~~n~-l~~~-~~---l~~l~~L~~L~Ls~n~l-~~~~~----~~~~~l~~L~~L~L~~n  282 (390)
T 3o6n_A          234 ---------------------QHNN-LTDT-AW---LLNYPGLVEVDLSYNEL-EKIMY----HPFVKMQRLERLYISNN  282 (390)
T ss_dssp             ---------------------CSSC-CCCC-GG---GGGCTTCSEEECCSSCC-CEEES----GGGTTCSSCCEEECCSS
T ss_pred             ---------------------CCCC-Cccc-HH---HcCCCCccEEECCCCcC-CCcCh----hHccccccCCEEECCCC
Confidence                                 3332 1111 12   23667777777777653 22211    11334677777777765


Q ss_pred             ccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEeccc
Q 003328          332 SNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCD  386 (829)
Q Consensus       332 ~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~  386 (829)
                      . ++.+..    ....+++|++|+++++ +++.+|.  ....+++|++|++++++
T Consensus       283 ~-l~~~~~----~~~~l~~L~~L~L~~n-~l~~~~~--~~~~l~~L~~L~L~~N~  329 (390)
T 3o6n_A          283 R-LVALNL----YGQPIPTLKVLDLSHN-HLLHVER--NQPQFDRLENLYLDHNS  329 (390)
T ss_dssp             C-CCEEEC----SSSCCTTCCEEECCSS-CCCCCGG--GHHHHTTCSEEECCSSC
T ss_pred             c-CcccCc----ccCCCCCCCEEECCCC-cceecCc--cccccCcCCEEECCCCc
Confidence            3 222211    1346788999999888 5667664  25678999999998874

>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=99.88  E-value=1e-21  Score=218.81  Aligned_cols=267  Identities=17%  Similarity=0.079  Sum_probs=155.3

Q ss_pred             ccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCC-CCchhhcCCCCC-------------cEEEcccc
Q 003328           38 RLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFS-SLPSSLGRLINL-------------QTLCLDWC  103 (829)
Q Consensus        38 ~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lp~~l~~l~~L-------------r~L~L~~~  103 (829)
                      .+..++||+|++++|.    ++.+|.++ +++++|++|++++|.+. .+|.+++.+++|             ++|++++|
T Consensus         7 ~~~~~~L~~L~l~~n~----l~~iP~~i-~~L~~L~~L~l~~n~~~~~~p~~~~~l~~L~~l~l~~c~~~~l~~L~l~~~   81 (454)
T 1jl5_A            7 NVSNTFLQEPLRHSSN----LTEMPVEA-ENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNL   81 (454)
T ss_dssp             --------------------------------CCHHHHHHHHHHHHHTSCTTSCCCHHHHHHHHHHHHHHTCSEEECTTS
T ss_pred             ccccccchhhhcccCc----hhhCChhH-hcccchhhhhccCCcccccCCcccccchhcchhhhhhhhccCCCEEEecCC
Confidence            3456788888888888    57888774 88888888888888776 588888877764             88888888


Q ss_pred             CCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCC
Q 003328          104 QLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGG  183 (829)
Q Consensus       104 ~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~  183 (829)
                      .++.+..+  ..+|++|++++|.++.+|..   +.+|++|++++|. +..++.  +  .++|++|++++|.+.     + 
T Consensus        82 ~l~~lp~~--~~~L~~L~l~~n~l~~lp~~---~~~L~~L~l~~n~-l~~l~~--~--~~~L~~L~L~~n~l~-----~-  145 (454)
T 1jl5_A           82 GLSSLPEL--PPHLESLVASCNSLTELPEL---PQSLKSLLVDNNN-LKALSD--L--PPLLEYLGVSNNQLE-----K-  145 (454)
T ss_dssp             CCSCCCSC--CTTCSEEECCSSCCSSCCCC---CTTCCEEECCSSC-CSCCCS--C--CTTCCEEECCSSCCS-----S-
T ss_pred             ccccCCCC--cCCCCEEEccCCcCCccccc---cCCCcEEECCCCc-cCcccC--C--CCCCCEEECcCCCCC-----C-
Confidence            87776332  36888888888888888753   4788888888876 555553  1  268888888888664     1 


Q ss_pred             CccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEccccccCCCCCCCccEEEeccCCccccchhhhhHHHh
Q 003328          184 SNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKML  263 (829)
Q Consensus       184 ~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~  263 (829)
                          +..++++++|++|++++|.+..+|...  .+|+.|+++.+....                       ++.   -..
T Consensus       146 ----lp~~~~l~~L~~L~l~~N~l~~lp~~~--~~L~~L~L~~n~l~~-----------------------l~~---~~~  193 (454)
T 1jl5_A          146 ----LPELQNSSFLKIIDVDNNSLKKLPDLP--PSLEFIAAGNNQLEE-----------------------LPE---LQN  193 (454)
T ss_dssp             ----CCCCTTCTTCCEEECCSSCCSCCCCCC--TTCCEEECCSSCCSS-----------------------CCC---CTT
T ss_pred             ----CcccCCCCCCCEEECCCCcCcccCCCc--ccccEEECcCCcCCc-----------------------Ccc---ccC
Confidence                224777888888888888887776543  578888775433211                       000   011


Q ss_pred             hhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceeccccccchhhhcCCCC
Q 003328          264 LKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLT  343 (829)
Q Consensus       264 l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~  343 (829)
                      +++|+.|++.++.- +.    ++  ...++|++|+++++. ++.++   .   ...+++|+.|+++++. ++.     ++
T Consensus       194 l~~L~~L~l~~N~l-~~----l~--~~~~~L~~L~l~~n~-l~~lp---~---~~~l~~L~~L~l~~N~-l~~-----l~  253 (454)
T 1jl5_A          194 LPFLTAIYADNNSL-KK----LP--DLPLSLESIVAGNNI-LEELP---E---LQNLPFLTTIYADNNL-LKT-----LP  253 (454)
T ss_dssp             CTTCCEEECCSSCC-SS----CC--CCCTTCCEEECCSSC-CSSCC---C---CTTCTTCCEEECCSSC-CSS-----CC
T ss_pred             CCCCCEEECCCCcC-Cc----CC--CCcCcccEEECcCCc-CCccc---c---cCCCCCCCEEECCCCc-CCc-----cc
Confidence            46777888776632 21    21  123578888888774 33331   1   3356777777777653 221     22


Q ss_pred             CCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecc
Q 003328          344 EDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFC  385 (829)
Q Consensus       344 ~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c  385 (829)
                        ..+++|++|++.++ +++.+|..     .++|++|+++++
T Consensus       254 --~~~~~L~~L~l~~N-~l~~l~~~-----~~~L~~L~ls~N  287 (454)
T 1jl5_A          254 --DLPPSLEALNVRDN-YLTDLPEL-----PQSLTFLDVSEN  287 (454)
T ss_dssp             --SCCTTCCEEECCSS-CCSCCCCC-----CTTCCEEECCSS
T ss_pred             --ccccccCEEECCCC-cccccCcc-----cCcCCEEECcCC
Confidence              23467777777766 35555432     366777777765

>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=99.87  E-value=3.6e-21  Score=223.08  Aligned_cols=156  Identities=13%  Similarity=0.221  Sum_probs=127.1

Q ss_pred             ccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEccccCCCCc--ccccCC
Q 003328           38 RLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQL  114 (829)
Q Consensus        38 ~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L  114 (829)
                      .+.+++++.+++.++.    +..+|..+|.++++|++|++++|.++.+| ..++.+++|++|++++|.+..+  ..++++
T Consensus        47 ~l~l~~l~~l~l~~~~----l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l  122 (597)
T 3oja_B           47 DITLNNQKIVTFKNST----MRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNV  122 (597)
T ss_dssp             SGGGCCCSEEEESSCE----ESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTC
T ss_pred             cccCCCceEEEeeCCC----CCCcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCC
Confidence            3467889999999888    78888888889999999999999988755 4788999999999999998877  567899


Q ss_pred             CCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcC
Q 003328          115 KKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKG  193 (829)
Q Consensus       115 ~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~  193 (829)
                      ++|++|++++|.++.+|.. ++++++|++|++++|. +..+++..++.+++|++|++++|.+.        ..   .++.
T Consensus       123 ~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~--------~~---~~~~  190 (597)
T 3oja_B          123 PLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNN-LERIEDDTFQATTSLQNLQLSSNRLT--------HV---DLSL  190 (597)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCBCCTTTTTTCTTCCEEECTTSCCS--------BC---CGGG
T ss_pred             CCCCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCc-CCCCChhhhhcCCcCcEEECcCCCCC--------Cc---Chhh
Confidence            9999999999999988877 4889999999999987 55665544888999999999988765        11   2445


Q ss_pred             CCCCcEEEeecCCCCC
Q 003328          194 LSKLTTLEIHVWDAQI  209 (829)
Q Consensus       194 l~~L~~L~l~~~~~~~  209 (829)
                      +++|+.|+++++.+..
T Consensus       191 l~~L~~L~l~~n~l~~  206 (597)
T 3oja_B          191 IPSLFHANVSYNLLST  206 (597)
T ss_dssp             CTTCSEEECCSSCCSE
T ss_pred             hhhhhhhhcccCcccc
Confidence            6788888888776553

>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=99.86  E-value=1.8e-20  Score=211.58  Aligned_cols=301  Identities=18%  Similarity=0.188  Sum_probs=217.5

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCC-cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPE-RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP   86 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp   86 (829)
                      ++..+|. ..++++++|++++|.+..+++ .+ ++++|++|++++|.    +..++...|.++++|++|++++|.++.+|
T Consensus        22 ~l~~ip~-~~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~----i~~~~~~~~~~l~~L~~L~L~~n~l~~~~   96 (477)
T 2id5_A           22 RFVAVPE-GIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENI----VSAVEPGAFNNLFNLRTLGLRSNRLKLIP   96 (477)
T ss_dssp             CCSSCCS-CCCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSC----CCEECTTTTTTCTTCCEEECCSSCCCSCC
T ss_pred             CcCcCCC-CCCCCCcEEECCCCccceECHhHccCCCCCCEEECCCCc----cCEeChhhhhCCccCCEEECCCCcCCccC
Confidence            4444553 456799999999999998864 34 89999999999998    56665555799999999999999999988


Q ss_pred             hh-hcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCCCCCccChhhhcCC
Q 003328           87 SS-LGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKF  162 (829)
Q Consensus        87 ~~-l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L  162 (829)
                      .. +..+++|++|++++|.+..+  ..+.++.+|++|++++|.++.+ |..++++++|++|++++|. +..++...+.++
T Consensus        97 ~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~l~~l  175 (477)
T 2id5_A           97 LGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCN-LTSIPTEALSHL  175 (477)
T ss_dssp             TTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCC-CSSCCHHHHTTC
T ss_pred             cccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCc-CcccChhHhccc
Confidence            65 68999999999999999876  6899999999999999999866 5579999999999999987 788887768999


Q ss_pred             CcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCC-CCcCCc-cccccccEEEEEEccccccCCCCCCCc
Q 003328          163 SRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDA-QILPQD-WVSVELQRYKICIGEARRIWPVNSETS  240 (829)
Q Consensus       163 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~-~~~~~~-~~~~~L~~L~l~~~~~~~~w~~~~~~~  240 (829)
                      ++|++|+++++.+.        ......+..+++|+.|+++.+.. ..++.. ....+|+.|+++               
T Consensus       176 ~~L~~L~l~~n~i~--------~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~---------------  232 (477)
T 2id5_A          176 HGLIVLRLRHLNIN--------AIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSIT---------------  232 (477)
T ss_dssp             TTCCEEEEESCCCC--------EECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEE---------------
T ss_pred             CCCcEEeCCCCcCc--------EeChhhcccCcccceeeCCCCccccccCcccccCccccEEECc---------------
Confidence            99999999998765        22334567888999999998653 333322 123355555554               


Q ss_pred             cEEEeccCCccccchhhhhHHHhhhhheeEeeccccCccccc-cccCCCCCCCCCcEEEEeecCCceEEecccCcccccc
Q 003328          241 RLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVV-HELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTI  319 (829)
Q Consensus       241 ~~~~l~~~~~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~-~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~  319 (829)
                                                       ++. ++.+. ..+   ..+++|++|+++++. +..+..    .....
T Consensus       233 ---------------------------------~n~-l~~~~~~~~---~~l~~L~~L~Ls~n~-l~~~~~----~~~~~  270 (477)
T 2id5_A          233 ---------------------------------HCN-LTAVPYLAV---RHLVYLRFLNLSYNP-ISTIEG----SMLHE  270 (477)
T ss_dssp             ---------------------------------SSC-CCSCCHHHH---TTCTTCCEEECCSSC-CCEECT----TSCTT
T ss_pred             ---------------------------------CCc-ccccCHHHh---cCccccCeeECCCCc-CCccCh----hhccc
Confidence                                             321 11111 112   256677777777665 333211    11234


Q ss_pred             cccccceeccccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEeccc
Q 003328          320 FPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCD  386 (829)
Q Consensus       320 ~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~  386 (829)
                      +++|+.|++.++.- ..+...   ....+++|+.|+++++ +++.++. ..+..+++|++|++++++
T Consensus       271 l~~L~~L~L~~n~l-~~~~~~---~~~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~~L~~L~l~~N~  331 (477)
T 2id5_A          271 LLRLQEIQLVGGQL-AVVEPY---AFRGLNYLRVLNVSGN-QLTTLEE-SVFHSVGNLETLILDSNP  331 (477)
T ss_dssp             CTTCCEEECCSSCC-SEECTT---TBTTCTTCCEEECCSS-CCSCCCG-GGBSCGGGCCEEECCSSC
T ss_pred             cccCCEEECCCCcc-ceECHH---HhcCcccCCEEECCCC-cCceeCH-hHcCCCcccCEEEccCCC
Confidence            66777777766532 222111   1346788888888887 5666654 334567888888888764

>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=99.86  E-value=1.3e-20  Score=218.46  Aligned_cols=280  Identities=16%  Similarity=0.141  Sum_probs=209.9

Q ss_pred             CCCCcEEEcCCCCCCCCCCcc--CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch-hhcCCCCC
Q 003328           19 RKDPIAISLPQRDIQELPERL--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINL   95 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~-~l~~l~~L   95 (829)
                      +.+++.++++++.+..+|+..  .+++|++|++++|.    +..++...|..+++|++|++++|.++.+|. .++.+++|
T Consensus        50 l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~----l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  125 (597)
T 3oja_B           50 LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ----IEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLL  125 (597)
T ss_dssp             GCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTSC----CCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             CCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCCC----CCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCC
Confidence            478999999999999999864  79999999999998    667776567999999999999999998765 46999999


Q ss_pred             cEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccC
Q 003328           96 QTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  172 (829)
Q Consensus        96 r~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~  172 (829)
                      ++|++++|.+..+  ..++++++|++|++++|.++.++. .++++++|++|++++|. +..++   ++.+++|++|++++
T Consensus       126 ~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~---~~~l~~L~~L~l~~  201 (597)
T 3oja_B          126 TVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNR-LTHVD---LSLIPSLFHANVSY  201 (597)
T ss_dssp             CEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSC-CSBCC---GGGCTTCSEEECCS
T ss_pred             CEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCC-CCCcC---hhhhhhhhhhhccc
Confidence            9999999999988  447999999999999999997754 69999999999999987 67776   57899999999998


Q ss_pred             CccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEccccccCCCCCCCccEEEeccCCccc
Q 003328          173 SFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVS  252 (829)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~  252 (829)
                      |.+.             .+....+|+.|+++++.+..++... ..+|+.|++                            
T Consensus       202 n~l~-------------~l~~~~~L~~L~ls~n~l~~~~~~~-~~~L~~L~L----------------------------  239 (597)
T 3oja_B          202 NLLS-------------TLAIPIAVEELDASHNSINVVRGPV-NVELTILKL----------------------------  239 (597)
T ss_dssp             SCCS-------------EEECCTTCSEEECCSSCCCEEECSC-CSCCCEEEC----------------------------
T ss_pred             Cccc-------------cccCCchhheeeccCCccccccccc-CCCCCEEEC----------------------------
Confidence            8654             2334568999999998877655432 234555444                            


Q ss_pred             cchhhhhHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceeccccc
Q 003328          253 TLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLS  332 (829)
Q Consensus       253 ~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~  332 (829)
                                          .++. ++. ...   ++.+++|++|+++++.-....+     .....+++|+.|+++++.
T Consensus       240 --------------------~~n~-l~~-~~~---l~~l~~L~~L~Ls~N~l~~~~~-----~~~~~l~~L~~L~Ls~N~  289 (597)
T 3oja_B          240 --------------------QHNN-LTD-TAW---LLNYPGLVEVDLSYNELEKIMY-----HPFVKMQRLERLYISNNR  289 (597)
T ss_dssp             --------------------CSSC-CCC-CGG---GGGCTTCSEEECCSSCCCEEES-----GGGTTCSSCCEEECTTSC
T ss_pred             --------------------CCCC-CCC-Chh---hccCCCCCEEECCCCccCCCCH-----HHhcCccCCCEEECCCCC
Confidence                                3332 111 122   2366777777777765322211     113446777777777653


Q ss_pred             cchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEeccc
Q 003328          333 NLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCD  386 (829)
Q Consensus       333 ~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~  386 (829)
                       +..+..    ..+.+++|+.|++++| .++.+|.  .+..+++|+.|+++++.
T Consensus       290 -l~~l~~----~~~~l~~L~~L~Ls~N-~l~~i~~--~~~~l~~L~~L~L~~N~  335 (597)
T 3oja_B          290 -LVALNL----YGQPIPTLKVLDLSHN-HLLHVER--NQPQFDRLENLYLDHNS  335 (597)
T ss_dssp             -CCEEEC----SSSCCTTCCEEECCSS-CCCCCGG--GHHHHTTCSEEECCSSC
T ss_pred             -CCCCCc----ccccCCCCcEEECCCC-CCCccCc--ccccCCCCCEEECCCCC
Confidence             222211    1346889999999887 4566663  35678999999999875

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

Probab=99.85  E-value=7.5e-20  Score=203.83  Aligned_cols=190  Identities=15%  Similarity=0.106  Sum_probs=161.8

Q ss_pred             cCCccccCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhh
Q 003328           10 VEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSL   89 (829)
Q Consensus        10 ~~~~~~~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l   89 (829)
                      +...+++..++++++|++++|.+..++ ...+++|++|++++|.    +..++   |+++++|++|++++|.++.+|  +
T Consensus        54 l~~~~~l~~l~~L~~L~Ls~n~l~~~~-~~~l~~L~~L~Ls~N~----l~~~~---~~~l~~L~~L~L~~N~l~~l~--~  123 (457)
T 3bz5_A           54 ITDMTGIEKLTGLTKLICTSNNITTLD-LSQNTNLTYLACDSNK----LTNLD---VTPLTKLTYLNCDTNKLTKLD--V  123 (457)
T ss_dssp             CCCCTTGGGCTTCSEEECCSSCCSCCC-CTTCTTCSEEECCSSC----CSCCC---CTTCTTCCEEECCSSCCSCCC--C
T ss_pred             cccChhhcccCCCCEEEccCCcCCeEc-cccCCCCCEEECcCCC----Cceee---cCCCCcCCEEECCCCcCCeec--C
Confidence            444556778899999999999999886 4489999999999999    55665   589999999999999999986  8


Q ss_pred             cCCCCCcEEEccccCCCCcccccCCCCCcEEEccCC-CCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEE
Q 003328           90 GRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGS-DIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEEL  168 (829)
Q Consensus        90 ~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~-~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L  168 (829)
                      +.+++|++|++++|.++.+ .++++++|++|++++| .+..+  .++.+++|++|++++|. +..+|   ++.+++|++|
T Consensus       124 ~~l~~L~~L~l~~N~l~~l-~l~~l~~L~~L~l~~n~~~~~~--~~~~l~~L~~L~ls~n~-l~~l~---l~~l~~L~~L  196 (457)
T 3bz5_A          124 SQNPLLTYLNCARNTLTEI-DVSHNTQLTELDCHLNKKITKL--DVTPQTQLTTLDCSFNK-ITELD---VSQNKLLNRL  196 (457)
T ss_dssp             TTCTTCCEEECTTSCCSCC-CCTTCTTCCEEECTTCSCCCCC--CCTTCTTCCEEECCSSC-CCCCC---CTTCTTCCEE
T ss_pred             CCCCcCCEEECCCCcccee-ccccCCcCCEEECCCCCccccc--ccccCCcCCEEECCCCc-cceec---cccCCCCCEE
Confidence            9999999999999999887 4889999999999999 56666  48899999999999987 77777   6899999999


Q ss_pred             EccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEcc
Q 003328          169 YMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGE  228 (829)
Q Consensus       169 ~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~  228 (829)
                      ++++|.+.     +     + .++.+++|+.|++++|.+..+| ...+++|+.|+++.+.
T Consensus       197 ~l~~N~l~-----~-----~-~l~~l~~L~~L~Ls~N~l~~ip-~~~l~~L~~L~l~~N~  244 (457)
T 3bz5_A          197 NCDTNNIT-----K-----L-DLNQNIQLTFLDCSSNKLTEID-VTPLTQLTYFDCSVNP  244 (457)
T ss_dssp             ECCSSCCS-----C-----C-CCTTCTTCSEEECCSSCCSCCC-CTTCTTCSEEECCSSC
T ss_pred             ECcCCcCC-----e-----e-ccccCCCCCEEECcCCcccccC-ccccCCCCEEEeeCCc
Confidence            99999775     1     1 3778899999999999998877 4477888888876443

>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=99.84  E-value=6.3e-22  Score=230.13  Aligned_cols=37  Identities=24%  Similarity=0.215  Sum_probs=19.6

Q ss_pred             CCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCc
Q 003328          570 NNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCD  607 (829)
Q Consensus       570 ~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~  607 (829)
                      ++|+.|++++|. +++.....++..+++|++|+|++|+
T Consensus       463 ~~L~~L~L~~n~-l~~~~~~~~~~~~~~L~~L~l~~n~  499 (592)
T 3ogk_B          463 PNVRWMLLGYVG-ESDEGLMEFSRGCPNLQKLEMRGCC  499 (592)
T ss_dssp             TTCCEEEECSCC-SSHHHHHHHHTCCTTCCEEEEESCC
T ss_pred             ccceEeeccCCC-CCHHHHHHHHhcCcccCeeeccCCC
Confidence            556666666554 3321122233455666666666665

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.84  E-value=2e-20  Score=198.22  Aligned_cols=256  Identities=14%  Similarity=0.138  Sum_probs=190.7

Q ss_pred             ccCC--ccccCCC-----CCCcEEEcCCCCCC---CCCCcc-CCCCCcEEEeec-CCCcccccccchhhhcCCCCccEEE
Q 003328            9 DVEK--KMEETIR-----KDPIAISLPQRDIQ---ELPERL-QCPNLQLFLLIT-KGIAPVSMQISDLFFEGTEELKVLS   76 (829)
Q Consensus         9 ~~~~--~~~~~~~-----~~l~~L~l~~~~~~---~l~~~~-~~~~Lr~L~l~~-~~~~~~~~~lp~~~~~~l~~Lr~L~   76 (829)
                      +.+.  |.++..-     .++++|+++++.+.   .+|..+ ++++|++|++++ |.   ....+|.. |.++++|++|+
T Consensus        32 ~~C~~~w~gv~C~~~~~~~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~---l~~~~p~~-l~~l~~L~~L~  107 (313)
T 1ogq_A           32 DCCNRTWLGVLCDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINN---LVGPIPPA-IAKLTQLHYLY  107 (313)
T ss_dssp             CTTTTCSTTEEECCSSSCCCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETT---EESCCCGG-GGGCTTCSEEE
T ss_pred             CCCcCCCcceEeCCCCCCceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCc---ccccCChh-HhcCCCCCEEE
Confidence            4455  8887432     68999999999988   477666 899999999995 76   35567776 48999999999


Q ss_pred             ecCCCCC-CCchhhcCCCCCcEEEccccCCC-Cc-ccccCCCCCcEEEccCCCCc-cchhhhcCCC-CCCEEeccCCCCC
Q 003328           77 LIGIHFS-SLPSSLGRLINLQTLCLDWCQLE-DV-AAIGQLKKLEILSFRGSDIK-QLPLEIGQLT-RLQLLDLSNCSSL  151 (829)
Q Consensus        77 L~~~~i~-~lp~~l~~l~~Lr~L~L~~~~l~-~l-~~i~~L~~L~~L~l~~~~l~-~lp~~i~~L~-~L~~L~l~~~~~l  151 (829)
                      +++|.++ .+|..+..+++|++|++++|.+. .+ ..++++++|++|++++|.++ .+|..++++. +|++|++++|...
T Consensus       108 Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~  187 (313)
T 1ogq_A          108 ITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLT  187 (313)
T ss_dssp             EEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEE
T ss_pred             CcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeee
Confidence            9999998 68889999999999999999988 45 78999999999999999998 8899999998 9999999998744


Q ss_pred             CccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCc-cccccccEEEEEEcccc
Q 003328          152 VVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQD-WVSVELQRYKICIGEAR  230 (829)
Q Consensus       152 ~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~  230 (829)
                      +.+|.. ++.+. |++|++++|.+.        ......+..+++|+.|++++|.+...+.. ..+              
T Consensus       188 ~~~~~~-~~~l~-L~~L~Ls~N~l~--------~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l--------------  243 (313)
T 1ogq_A          188 GKIPPT-FANLN-LAFVDLSRNMLE--------GDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLS--------------  243 (313)
T ss_dssp             EECCGG-GGGCC-CSEEECCSSEEE--------ECCGGGCCTTSCCSEEECCSSEECCBGGGCCCC--------------
T ss_pred             ccCChH-HhCCc-ccEEECcCCccc--------CcCCHHHhcCCCCCEEECCCCceeeecCccccc--------------
Confidence            467766 78887 999999998765        23445667888999999988776432221 122              


Q ss_pred             ccCCCCCCCccEEEeccCCccccchhhhhHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEec
Q 003328          231 RIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVG  310 (829)
Q Consensus       231 ~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~  310 (829)
                                                        ++|++|+++++.-...+...+.   .+++|++|+++++.-...+  
T Consensus       244 ----------------------------------~~L~~L~Ls~N~l~~~~p~~l~---~l~~L~~L~Ls~N~l~~~i--  284 (313)
T 1ogq_A          244 ----------------------------------KNLNGLDLRNNRIYGTLPQGLT---QLKFLHSLNVSFNNLCGEI--  284 (313)
T ss_dssp             ----------------------------------TTCCEEECCSSCCEECCCGGGG---GCTTCCEEECCSSEEEEEC--
T ss_pred             ----------------------------------CCCCEEECcCCcccCcCChHHh---cCcCCCEEECcCCcccccC--
Confidence                                              4455555555533223333443   7788888888877533333  


Q ss_pred             ccCcccccccccccceeccccccch
Q 003328          311 SVGRVRCTIFPLLESLSLWFLSNLE  335 (829)
Q Consensus       311 ~~~~~~~~~~~~L~~L~L~~~~~l~  335 (829)
                       +.   ...+++|+.+++.+.+.+.
T Consensus       285 -p~---~~~l~~L~~l~l~~N~~lc  305 (313)
T 1ogq_A          285 -PQ---GGNLQRFDVSAYANNKCLC  305 (313)
T ss_dssp             -CC---STTGGGSCGGGTCSSSEEE
T ss_pred             -CC---CccccccChHHhcCCCCcc
Confidence             11   2457777878777776543

>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=99.84  E-value=1.1e-21  Score=228.02  Aligned_cols=406  Identities=15%  Similarity=0.083  Sum_probs=228.2

Q ss_pred             CCCCCcEEEeecCCCccccccc-----------chhhhcCCCCccEEEecCCCCCC-CchhhcC-CC-CCcEEEccccC-
Q 003328           40 QCPNLQLFLLITKGIAPVSMQI-----------SDLFFEGTEELKVLSLIGIHFSS-LPSSLGR-LI-NLQTLCLDWCQ-  104 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~~~~~~~~l-----------p~~~~~~l~~Lr~L~L~~~~i~~-lp~~l~~-l~-~Lr~L~L~~~~-  104 (829)
                      .+++|+.|++.++........+           ...++..+++|++|+++++.++. .+..+.. ++ +|++|++++|. 
T Consensus        71 ~~~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~L~~L~L~~~~~  150 (592)
T 3ogk_B           71 RFPNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEISNNLRQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSG  150 (592)
T ss_dssp             HCTTCSEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCBCCHHHHHHHHHHHGGGCCEEEEESCEE
T ss_pred             hCCCCeEEEecCCcchhhcccccccccccchHHHHHHHhhCCCCCeEEeeccEecHHHHHHHHHhccccCcEEECcCCCC
Confidence            6778888888776521001111           12233478889999998887764 3344544 33 48999998885 


Q ss_pred             CC--Cc-ccccCCCCCcEEEccCCCCcc-----chhhhcCCCCCCEEeccCCCCCC-----ccChhhhcCCCcccEEEcc
Q 003328          105 LE--DV-AAIGQLKKLEILSFRGSDIKQ-----LPLEIGQLTRLQLLDLSNCSSLV-----VIAPNVISKFSRLEELYMG  171 (829)
Q Consensus       105 l~--~l-~~i~~L~~L~~L~l~~~~l~~-----lp~~i~~L~~L~~L~l~~~~~l~-----~lp~~~l~~L~~L~~L~l~  171 (829)
                      +.  .+ ..+.++++|++|++++|.+..     ++....++++|++|+++++. +.     .++. .+.++++|++|+++
T Consensus       151 ~~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~-~~~~~~~~l~~-~~~~~~~L~~L~L~  228 (592)
T 3ogk_B          151 FTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTE-FAKISPKDLET-IARNCRSLVSVKVG  228 (592)
T ss_dssp             EEHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCC-CSSCCHHHHHH-HHHHCTTCCEEECS
T ss_pred             cCHHHHHHHHhhCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccC-CCccCHHHHHH-HHhhCCCCcEEecc
Confidence            33  23 344578889999998886542     44455678888999888876 33     2332 25678889999988


Q ss_pred             CCccccccccCCCccchhhhcCCCCCcEEEeecCCCCC----cCC-ccccccccEEEEEEccccccCCCCCCCccEEEec
Q 003328          172 DSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQI----LPQ-DWVSVELQRYKICIGEARRIWPVNSETSRLVWLH  246 (829)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~----~~~-~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~  246 (829)
                      +|.+.         .....+.++++|+.|++.......    ... ...+.+|+.+.+                      
T Consensus       229 ~~~~~---------~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l----------------------  277 (592)
T 3ogk_B          229 DFEIL---------ELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGL----------------------  277 (592)
T ss_dssp             SCBGG---------GGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEE----------------------
T ss_pred             CccHH---------HHHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCc----------------------
Confidence            87654         234556677888888887532210    001 113334444433                      


Q ss_pred             cCCccccchhhhhHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccce
Q 003328          247 GLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESL  326 (829)
Q Consensus       247 ~~~~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L  326 (829)
                                                .++. ...+...+   ..+++|++|++++|. +..   .........+++|+.|
T Consensus       278 --------------------------~~~~-~~~l~~~~---~~~~~L~~L~Ls~~~-l~~---~~~~~~~~~~~~L~~L  323 (592)
T 3ogk_B          278 --------------------------SYMG-PNEMPILF---PFAAQIRKLDLLYAL-LET---EDHCTLIQKCPNLEVL  323 (592)
T ss_dssp             --------------------------TTCC-TTTGGGGG---GGGGGCCEEEETTCC-CCH---HHHHHHHTTCTTCCEE
T ss_pred             --------------------------cccc-hhHHHHHH---hhcCCCcEEecCCCc-CCH---HHHHHHHHhCcCCCEE
Confidence                                      2211 01111111   144556666666555 221   0000012345666666


Q ss_pred             eccccccchhhhcCCCCCCCCCCCccEEEEec----------CCCCccccchHHHHhhcccceEEEecccCcceecccCC
Q 003328          327 SLWFLSNLETICDSQLTEDQSFSNLRIIEVKS----------CDKLKHLFSFSMAKNLLRLQKVEVFFCDDLEMMVGPDR  396 (829)
Q Consensus       327 ~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~----------C~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~  396 (829)
                      ++.++..-..+..  +  ...+++|++|++.+          |..+++.........+++|++|++ .|..+....... 
T Consensus       324 ~L~~~~~~~~l~~--~--~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l-~~~~l~~~~~~~-  397 (592)
T 3ogk_B          324 ETRNVIGDRGLEV--L--AQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAV-YVSDITNESLES-  397 (592)
T ss_dssp             EEEGGGHHHHHHH--H--HHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEE-EESCCCHHHHHH-
T ss_pred             eccCccCHHHHHH--H--HHhCCCCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEe-ecCCccHHHHHH-
Confidence            6652221111100  0  13567788888885          777776544455667888888888 455554321110 


Q ss_pred             CCCCCcccccccccCCCCCCCCCCCCceeeeeeccCcchhhHHhhhcccccccccccCccceEeecc---CCCcceeecC
Q 003328          397 EKPTTSLGFNEITADDDAAPKVGIPGILVNLNVSRCDKIEEIIRHVGEEVKENRIAFGKLKVLILNY---LPTLTSFCLE  473 (829)
Q Consensus       397 ~~~~~~l~~~~i~~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~~~~~~~~~L~~L~l~~---c~~L~~~~~~  473 (829)
                                                                          -...+++|+.|++.+   |..+++.+.+
T Consensus       398 ----------------------------------------------------l~~~~~~L~~L~l~~~~~~n~l~~~p~~  425 (592)
T 3ogk_B          398 ----------------------------------------------------IGTYLKNLCDFRLVLLDREERITDLPLD  425 (592)
T ss_dssp             ----------------------------------------------------HHHHCCSCCEEEEEECSCCSCCSSCCCH
T ss_pred             ----------------------------------------------------HHhhCCCCcEEEEeecCCCccccCchHH
Confidence                                                                012366777777763   4566554221


Q ss_pred             ----CccccCCCccEEeeccCCC-cceecccccCCCCCccceeecccccccccccCCCccchhhhhhhhccccCCcceEE
Q 003328          474 ----NYTLEFPSLERVSLTHCPN-MKTFSHRILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYEEMIGFRDIEHLQ  548 (829)
Q Consensus       474 ----~~~~~~~~L~~L~i~~C~~-l~~~~~~~~~~~l~~~L~~Li~~c~~l~~~~~~~~~~~~~~~l~~~~~~~~L~~L~  548 (829)
                          .....+++|++|++++|.. +++..           +..                         ....+++|++|+
T Consensus       426 ~~~~~~~~~~~~L~~L~L~~~~~~l~~~~-----------~~~-------------------------~~~~~~~L~~L~  469 (592)
T 3ogk_B          426 NGVRSLLIGCKKLRRFAFYLRQGGLTDLG-----------LSY-------------------------IGQYSPNVRWML  469 (592)
T ss_dssp             HHHHHHHHHCTTCCEEEEECCGGGCCHHH-----------HHH-------------------------HHHSCTTCCEEE
T ss_pred             HHHHHHHHhCCCCCEEEEecCCCCccHHH-----------HHH-------------------------HHHhCccceEee
Confidence                1122578888888887764 22210           000                         001267788888


Q ss_pred             eccCCCceeeccCCCCCCCcCCCCcEEEEecCCCCccccchhhHHhccCCcEEEEecCcchhh
Q 003328          549 LSHFPRLREIWHGQALPVSFFNNLSDLVVDDCTNMSSAIPANLLRCFNNLVLLEVRNCDSLEE  611 (829)
Q Consensus       549 l~~c~~l~~~~~~~~~~~~~l~~L~~L~i~~C~~L~~~~p~~~~~~l~sL~~L~i~~C~~L~~  611 (829)
                      +++|. +++....  .....+++|+.|+|++|+ +++.......+.+++|++|++++|. ++.
T Consensus       470 L~~n~-l~~~~~~--~~~~~~~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~ls~n~-it~  527 (592)
T 3ogk_B          470 LGYVG-ESDEGLM--EFSRGCPNLQKLEMRGCC-FSERAIAAAVTKLPSLRYLWVQGYR-ASM  527 (592)
T ss_dssp             ECSCC-SSHHHHH--HHHTCCTTCCEEEEESCC-CBHHHHHHHHHHCSSCCEEEEESCB-CCT
T ss_pred             ccCCC-CCHHHHH--HHHhcCcccCeeeccCCC-CcHHHHHHHHHhcCccCeeECcCCc-CCH
Confidence            88764 3321100  001234889999999998 6654344555678999999999997 543

>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=99.83  E-value=3.8e-20  Score=197.19  Aligned_cols=174  Identities=22%  Similarity=0.373  Sum_probs=149.7

Q ss_pred             CCCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcE
Q 003328           19 RKDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQT   97 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~   97 (829)
                      ..+++.|+++++.+..+|..+ ++++|++|++++|.    +..+|..+ +++++|++|++++|.++.+|..++.+++|++
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~~l~~L~~  154 (328)
T 4fcg_A           80 QPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAG----LMELPDTM-QQFAGLETLTLARNPLRALPASIASLNRLRE  154 (328)
T ss_dssp             STTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSC----CCCCCSCG-GGGTTCSEEEEESCCCCCCCGGGGGCTTCCE
T ss_pred             ccceeEEEccCCCchhcChhhhhCCCCCEEECCCCC----ccchhHHH-hccCCCCEEECCCCccccCcHHHhcCcCCCE
Confidence            478999999999999999866 89999999999999    55888764 8999999999999999999999999999999


Q ss_pred             EEccccCC-CCc-ccc---------cCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCccc
Q 003328           98 LCLDWCQL-EDV-AAI---------GQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLE  166 (829)
Q Consensus        98 L~L~~~~l-~~l-~~i---------~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~  166 (829)
                      |++++|++ ..+ ..+         +++++|++|++++|.++.+|..++++++|++|++++|. +..+|.. ++++++|+
T Consensus       155 L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~-l~~l~~~-l~~l~~L~  232 (328)
T 4fcg_A          155 LSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSP-LSALGPA-IHHLPKLE  232 (328)
T ss_dssp             EEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSC-CCCCCGG-GGGCTTCC
T ss_pred             EECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCC-CCcCchh-hccCCCCC
Confidence            99999864 444 444         45999999999999999999999999999999999987 7778887 89999999


Q ss_pred             EEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCC
Q 003328          167 ELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDA  207 (829)
Q Consensus       167 ~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~  207 (829)
                      +|++++|...        ......++.+++|+.|+++.|..
T Consensus       233 ~L~Ls~n~~~--------~~~p~~~~~l~~L~~L~L~~n~~  265 (328)
T 4fcg_A          233 ELDLRGCTAL--------RNYPPIFGGRAPLKRLILKDCSN  265 (328)
T ss_dssp             EEECTTCTTC--------CBCCCCTTCCCCCCEEECTTCTT
T ss_pred             EEECcCCcch--------hhhHHHhcCCCCCCEEECCCCCc
Confidence            9999998765        22334567788899998887654

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

Probab=99.82  E-value=1.7e-19  Score=192.97  Aligned_cols=153  Identities=20%  Similarity=0.270  Sum_probs=103.8

Q ss_pred             CCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEccccCCCCc--ccccCCCCCcE
Q 003328           43 NLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEI  119 (829)
Q Consensus        43 ~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~  119 (829)
                      ++++++++++.    ...+|..+   .++|++|++++|.++.+ |..+.++++|++|++++|.++.+  ..++++++|++
T Consensus        34 ~l~~l~~~~~~----l~~ip~~~---~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  106 (332)
T 2ft3_A           34 HLRVVQCSDLG----LKAVPKEI---SPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQK  106 (332)
T ss_dssp             ETTEEECCSSC----CSSCCSCC---CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCE
T ss_pred             cCCEEECCCCC----ccccCCCC---CCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCE
Confidence            57777777776    56666543   35777777777777765 34677777777777777777765  56777778888


Q ss_pred             EEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcE
Q 003328          120 LSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTT  199 (829)
Q Consensus       120 L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~  199 (829)
                      |++++|.++.+|..+.  ++|++|++++|. +..++...++++++|++|++++|.+.      ........++.+ +|+.
T Consensus       107 L~L~~n~l~~l~~~~~--~~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~l~~n~l~------~~~~~~~~~~~l-~L~~  176 (332)
T 2ft3_A          107 LYISKNHLVEIPPNLP--SSLVELRIHDNR-IRKVPKGVFSGLRNMNCIEMGGNPLE------NSGFEPGAFDGL-KLNY  176 (332)
T ss_dssp             EECCSSCCCSCCSSCC--TTCCEEECCSSC-CCCCCSGGGSSCSSCCEEECCSCCCB------GGGSCTTSSCSC-CCSC
T ss_pred             EECCCCcCCccCcccc--ccCCEEECCCCc-cCccCHhHhCCCccCCEEECCCCccc------cCCCCcccccCC-ccCE
Confidence            8888777777776655  678888887766 56666655677788888887777653      011223334444 6777


Q ss_pred             EEeecCCCCCcCC
Q 003328          200 LEIHVWDAQILPQ  212 (829)
Q Consensus       200 L~l~~~~~~~~~~  212 (829)
                      |+++++.+..+|.
T Consensus       177 L~l~~n~l~~l~~  189 (332)
T 2ft3_A          177 LRISEAKLTGIPK  189 (332)
T ss_dssp             CBCCSSBCSSCCS
T ss_pred             EECcCCCCCccCc
Confidence            7777776665544

>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=99.82  E-value=2.2e-21  Score=225.64  Aligned_cols=152  Identities=16%  Similarity=0.194  Sum_probs=92.1

Q ss_pred             CCCCCcEEEeecCCCccccccc--------------chhhhcCCCCccEEEecCCCCCC-Cchhhc-CCCCCcEEEcccc
Q 003328           40 QCPNLQLFLLITKGIAPVSMQI--------------SDLFFEGTEELKVLSLIGIHFSS-LPSSLG-RLINLQTLCLDWC  103 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~~~~~~~~l--------------p~~~~~~l~~Lr~L~L~~~~i~~-lp~~l~-~l~~Lr~L~L~~~  103 (829)
                      .+++|++|.+.++.   ...++              ...++..+++|++|+++++.++. .+..+. .+++|++|++++|
T Consensus        64 ~~~~L~~L~L~~~~---~~~~~~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~  140 (594)
T 2p1m_B           64 RFPKVRSVELKGKP---HFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSC  140 (594)
T ss_dssp             HCTTCCEEEEECSC---GGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESC
T ss_pred             hCCCceEEeccCCC---chhhcccccccccchhhHHHHHHHHhCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCc
Confidence            57788888888775   22211              12234567788888888877664 334443 5778888888887


Q ss_pred             -CCCC--c-ccccCCCCCcEEEccCCCCcc-----chhhhcCCCCCCEEeccCCCCCCccChh----hhcCCCcccEEEc
Q 003328          104 -QLED--V-AAIGQLKKLEILSFRGSDIKQ-----LPLEIGQLTRLQLLDLSNCSSLVVIAPN----VISKFSRLEELYM  170 (829)
Q Consensus       104 -~l~~--l-~~i~~L~~L~~L~l~~~~l~~-----lp~~i~~L~~L~~L~l~~~~~l~~lp~~----~l~~L~~L~~L~l  170 (829)
                       .+..  + ..+.++++|++|++++|.++.     ++.....+++|++|++++|.  ..++..    .+.++++|++|++
T Consensus       141 ~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~--~~~~~~~l~~l~~~~~~L~~L~L  218 (594)
T 2p1m_B          141 EGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLA--SEVSFSALERLVTRCPNLKSLKL  218 (594)
T ss_dssp             EEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCC--SCCCHHHHHHHHHHCTTCCEEEC
T ss_pred             CCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccC--CcCCHHHHHHHHHhCCCCcEEec
Confidence             4553  4 444577888888888876542     33333466788888887765  222221    1344677888887


Q ss_pred             cCCccccccccCCCccchhhhcCCCCCcEEEeec
Q 003328          171 GDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHV  204 (829)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~  204 (829)
                      ++|...        ......+..+++|+.|++..
T Consensus       219 ~~~~~~--------~~l~~~~~~~~~L~~L~l~~  244 (594)
T 2p1m_B          219 NRAVPL--------EKLATLLQRAPQLEELGTGG  244 (594)
T ss_dssp             CTTSCH--------HHHHHHHHHCTTCSEEECSB
T ss_pred             CCCCcH--------HHHHHHHhcCCcceEccccc
Confidence            776322        11233444566677766653

>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=99.81  E-value=1.9e-19  Score=191.80  Aligned_cols=133  Identities=23%  Similarity=0.335  Sum_probs=91.6

Q ss_pred             CCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEecc
Q 003328           68 GTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLS  146 (829)
Q Consensus        68 ~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~  146 (829)
                      ...++++|+++++.++.+|..+.++++|++|++++|.+..+ ..++++.+|++|++++|.++.+|..++++++|++|+++
T Consensus        79 ~~~~l~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L~  158 (328)
T 4fcg_A           79 TQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIR  158 (328)
T ss_dssp             TSTTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEEEE
T ss_pred             cccceeEEEccCCCchhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCccccCcHHHhcCcCCCEEECC
Confidence            34677777777777777777777777777777777777766 66777777778887777777777777777788888877


Q ss_pred             CCCCCCccChhhhcC---------CCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCc
Q 003328          147 NCSSLVVIAPNVISK---------FSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQIL  210 (829)
Q Consensus       147 ~~~~l~~lp~~~l~~---------L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~  210 (829)
                      +|...+.+|.. ++.         +++|++|++++|.+.         .....++++++|+.|++++|.+..+
T Consensus       159 ~n~~~~~~p~~-~~~~~~~~~~~~l~~L~~L~L~~n~l~---------~lp~~l~~l~~L~~L~L~~N~l~~l  221 (328)
T 4fcg_A          159 ACPELTELPEP-LASTDASGEHQGLVNLQSLRLEWTGIR---------SLPASIANLQNLKSLKIRNSPLSAL  221 (328)
T ss_dssp             EETTCCCCCSC-SEEEC-CCCEEESTTCCEEEEEEECCC---------CCCGGGGGCTTCCEEEEESSCCCCC
T ss_pred             CCCCccccChh-HhhccchhhhccCCCCCEEECcCCCcC---------cchHhhcCCCCCCEEEccCCCCCcC
Confidence            77767777765 433         666666666666443         2223355556666666666655443

>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=99.81  E-value=2.3e-18  Score=184.14  Aligned_cols=122  Identities=21%  Similarity=0.348  Sum_probs=59.0

Q ss_pred             CCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEE
Q 003328           21 DPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLC   99 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~   99 (829)
                      +++.++++++.+..+|..+ .+++++|++++|.    +..++...|.++++|++|++++|.++.+ |..+..+++|++|+
T Consensus        32 ~l~~l~~~~~~l~~lp~~~-~~~l~~L~L~~n~----i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  106 (330)
T 1xku_A           32 HLRVVQCSDLGLEKVPKDL-PPDTALLDLQNNK----ITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLY  106 (330)
T ss_dssp             ETTEEECTTSCCCSCCCSC-CTTCCEEECCSSC----CCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEE
T ss_pred             CCeEEEecCCCccccCccC-CCCCeEEECCCCc----CCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEE
Confidence            4555555555555555432 2345555555555    3444443345555555555555555543 44455555555555


Q ss_pred             ccccCCCCc-ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCC
Q 003328          100 LDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCS  149 (829)
Q Consensus       100 L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~  149 (829)
                      +++|.++.+ ..+.  ++|++|++++|.++.++. .++++++|++|++++|.
T Consensus       107 Ls~n~l~~l~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~  156 (330)
T 1xku_A          107 LSKNQLKELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNP  156 (330)
T ss_dssp             CCSSCCSBCCSSCC--TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSC
T ss_pred             CCCCcCCccChhhc--ccccEEECCCCcccccCHhHhcCCccccEEECCCCc
Confidence            555554444 2222  445555555554444432 24445555555554443

>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=99.80  E-value=5.9e-21  Score=222.04  Aligned_cols=177  Identities=20%  Similarity=0.181  Sum_probs=125.3

Q ss_pred             CCCCCcEEEcCCCCC-CCC---CC------------cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCC
Q 003328           18 IRKDPIAISLPQRDI-QEL---PE------------RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGI   80 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~-~~l---~~------------~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~   80 (829)
                      ..+++++|++.++.. ..+   |.            .. .+++|++|++++|.   .....+..+...+++|++|++++|
T Consensus        64 ~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~---~~~~~~~~l~~~~~~L~~L~L~~~  140 (594)
T 2p1m_B           64 RFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMV---VTDDCLELIAKSFKNFKVLVLSSC  140 (594)
T ss_dssp             HCTTCCEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCB---CCHHHHHHHHHHCTTCCEEEEESC
T ss_pred             hCCCceEEeccCCCchhhcccccccccchhhHHHHHHHHhCCCCCeEEeeCcE---EcHHHHHHHHHhCCCCcEEeCCCc
Confidence            457899999998742 222   11            11 58899999999998   344444554347899999999999


Q ss_pred             -CCCC--CchhhcCCCCCcEEEccccCCCC-----c-ccccCCCCCcEEEccCCC--Cc--cchhhhcCCCCCCEEeccC
Q 003328           81 -HFSS--LPSSLGRLINLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRGSD--IK--QLPLEIGQLTRLQLLDLSN  147 (829)
Q Consensus        81 -~i~~--lp~~l~~l~~Lr~L~L~~~~l~~-----l-~~i~~L~~L~~L~l~~~~--l~--~lp~~i~~L~~L~~L~l~~  147 (829)
                       .++.  ++..+..+++|++|++++|.+..     + .....+++|++|++++|.  +.  .++.-+.++++|++|++.+
T Consensus       141 ~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~  220 (594)
T 2p1m_B          141 EGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNR  220 (594)
T ss_dssp             EEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCT
T ss_pred             CCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCC
Confidence             5554  66666789999999999998653     3 334477899999999986  32  3444456789999999999


Q ss_pred             CCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEE
Q 003328          148 CSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTL  200 (829)
Q Consensus       148 ~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L  200 (829)
                      |..+..++.. +.++++|++|+++.+......  .........+.++++|+.+
T Consensus       221 ~~~~~~l~~~-~~~~~~L~~L~l~~~~~~~~~--~~~~~l~~~l~~~~~L~~L  270 (594)
T 2p1m_B          221 AVPLEKLATL-LQRAPQLEELGTGGYTAEVRP--DVYSGLSVALSGCKELRCL  270 (594)
T ss_dssp             TSCHHHHHHH-HHHCTTCSEEECSBCCCCCCH--HHHHHHHHHHHTCTTCCEE
T ss_pred             CCcHHHHHHH-HhcCCcceEcccccccCccch--hhHHHHHHHHhcCCCcccc
Confidence            9767777665 889999999998765321000  0011223356677778777

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.80  E-value=8.2e-19  Score=183.39  Aligned_cols=202  Identities=22%  Similarity=0.311  Sum_probs=160.8

Q ss_pred             cCCccccCCCCCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCC-CCCC-
Q 003328           10 VEKKMEETIRKDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIH-FSSL-   85 (829)
Q Consensus        10 ~~~~~~~~~~~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~-i~~l-   85 (829)
                      +..+| ...++++++|++++|.+..++.. + .+++|++|++++|.    +..++...|.++++|++|++++|. ++.+ 
T Consensus        23 l~~ip-~~~~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~----l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~   97 (285)
T 1ozn_A           23 LQAVP-VGIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNV----LARIDAAAFTGLALLEQLDLSDNAQLRSVD   97 (285)
T ss_dssp             CSSCC-TTCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSC----CCEECTTTTTTCTTCCEEECCSCTTCCCCC
T ss_pred             cccCC-cCCCCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCc----cceeCHhhcCCccCCCEEeCCCCCCccccC
Confidence            44444 24567899999999999887753 3 78999999999988    556644456889999999999997 7776 


Q ss_pred             chhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCC
Q 003328           86 PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKF  162 (829)
Q Consensus        86 p~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L  162 (829)
                      |..+..+++|++|++++|.+..+  ..+.++++|++|++++|.++.+|.. ++++++|++|++++|. +..++...+..+
T Consensus        98 ~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l  176 (285)
T 1ozn_A           98 PATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNR-ISSVPERAFRGL  176 (285)
T ss_dssp             TTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCEECTTTTTTC
T ss_pred             HHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCc-ccccCHHHhcCc
Confidence            67788999999999999988876  6688899999999999998888755 7889999999999986 777776557889


Q ss_pred             CcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCc--cccccccEEEEE
Q 003328          163 SRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQD--WVSVELQRYKIC  225 (829)
Q Consensus       163 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~  225 (829)
                      ++|++|++++|.+.        ......+..+++|+.|++++|.+..++..  ..+++|+.+++.
T Consensus       177 ~~L~~L~l~~n~l~--------~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  233 (285)
T 1ozn_A          177 HSLDRLLLHQNRVA--------HVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLN  233 (285)
T ss_dssp             TTCCEEECCSSCCC--------EECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECC
T ss_pred             cccCEEECCCCccc--------ccCHhHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEecc
Confidence            99999999988765        23345667788999999999988877654  256777777765

>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=99.80  E-value=5.5e-18  Score=181.19  Aligned_cols=177  Identities=19%  Similarity=0.284  Sum_probs=149.7

Q ss_pred             CCCCCcEEEcCCCCCCCCCC-cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCC
Q 003328           18 IRKDPIAISLPQRDIQELPE-RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINL   95 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~L   95 (829)
                      .++++++|++++|.+..++. .+ ++++|++|++++|.    +..++...|.++++|++|++++|.++.+|..+.  ++|
T Consensus        50 ~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~----l~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~--~~L  123 (330)
T 1xku_A           50 LPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNK----ISKISPGAFAPLVKLERLYLSKNQLKELPEKMP--KTL  123 (330)
T ss_dssp             CCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSC----CCCBCTTTTTTCTTCCEEECCSSCCSBCCSSCC--TTC
T ss_pred             CCCCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCc----CCeeCHHHhcCCCCCCEEECCCCcCCccChhhc--ccc
Confidence            35789999999999998876 33 89999999999998    566644446999999999999999999988765  799


Q ss_pred             cEEEccccCCCCc--ccccCCCCCcEEEccCCCCc---cchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEc
Q 003328           96 QTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIK---QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM  170 (829)
Q Consensus        96 r~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~---~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l  170 (829)
                      ++|++++|.+..+  ..+.++.+|++|++++|.++   ..|..++++++|++|++++|. +..+|.. +  .++|++|++
T Consensus       124 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~-l~~l~~~-~--~~~L~~L~l  199 (330)
T 1xku_A          124 QELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTN-ITTIPQG-L--PPSLTELHL  199 (330)
T ss_dssp             CEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSC-CCSCCSS-C--CTTCSEEEC
T ss_pred             cEEECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCc-cccCCcc-c--cccCCEEEC
Confidence            9999999999977  67999999999999999886   446779999999999999987 7788865 3  389999999


Q ss_pred             cCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCC
Q 003328          171 GDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQ  212 (829)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~  212 (829)
                      ++|.+.        ......+..+++|+.|++++|.+..++.
T Consensus       200 ~~n~l~--------~~~~~~~~~l~~L~~L~Ls~n~l~~~~~  233 (330)
T 1xku_A          200 DGNKIT--------KVDAASLKGLNNLAKLGLSFNSISAVDN  233 (330)
T ss_dssp             TTSCCC--------EECTGGGTTCTTCCEEECCSSCCCEECT
T ss_pred             CCCcCC--------ccCHHHhcCCCCCCEEECCCCcCceeCh
Confidence            999765        2334667788999999999988765543

>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=99.79  E-value=7.7e-19  Score=189.69  Aligned_cols=195  Identities=20%  Similarity=0.232  Sum_probs=156.7

Q ss_pred             CCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEE
Q 003328           20 KDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTL   98 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L   98 (829)
                      +.....+.+++.++++|..+. ++|++|++++|.    +..++...|.++++|++|++++|.++.+ |..+..+++|++|
T Consensus        31 ~~~~~c~~~~~~l~~iP~~~~-~~L~~L~l~~n~----i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  105 (353)
T 2z80_A           31 DRNGICKGSSGSLNSIPSGLT-EAVKSLDLSNNR----ITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHL  105 (353)
T ss_dssp             CTTSEEECCSTTCSSCCTTCC-TTCCEEECTTSC----CCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEE
T ss_pred             CCCeEeeCCCCCccccccccc-ccCcEEECCCCc----CcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEE
Confidence            444568889999999987553 589999999998    6777776679999999999999999875 4568899999999


Q ss_pred             EccccCCCCc--ccccCCCCCcEEEccCCCCccchh--hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCc
Q 003328           99 CLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPL--EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  174 (829)
Q Consensus        99 ~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~--~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~  174 (829)
                      ++++|.++.+  ..++++++|++|++++|.++.+|.  .++++++|++|++++|..+..++...++++++|++|++++|.
T Consensus       106 ~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~  185 (353)
T 2z80_A          106 DLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASD  185 (353)
T ss_dssp             ECCSSCCSSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETT
T ss_pred             ECCCCcCCcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCC
Confidence            9999999887  448999999999999999998887  688999999999999866777765558889999999999887


Q ss_pred             cccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc--ccccccEEEEEEc
Q 003328          175 SQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW--VSVELQRYKICIG  227 (829)
Q Consensus       175 ~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~~~  227 (829)
                      +.        ......++.+++|++|+++++.+..++...  .+++|+.|+++.+
T Consensus       186 l~--------~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n  232 (353)
T 2z80_A          186 LQ--------SYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDT  232 (353)
T ss_dssp             CC--------EECTTTTTTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESC
T ss_pred             cC--------ccCHHHHhccccCCeecCCCCccccchhhhhhhcccccEEECCCC
Confidence            65        233456777889999999988876665543  3566777766533

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

Probab=99.79  E-value=2.3e-18  Score=184.19  Aligned_cols=184  Identities=16%  Similarity=0.260  Sum_probs=146.7

Q ss_pred             CCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEE
Q 003328           21 DPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLC   99 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~   99 (829)
                      +++.++++++.+..+|..+ .++|++|++++|.    +..++...|.++++|++|++++|.++.+ |..+..+++|++|+
T Consensus        34 ~l~~l~~~~~~l~~ip~~~-~~~l~~L~l~~n~----i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  108 (332)
T 2ft3_A           34 HLRVVQCSDLGLKAVPKEI-SPDTTLLDLQNND----ISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLY  108 (332)
T ss_dssp             ETTEEECCSSCCSSCCSCC-CTTCCEEECCSSC----CCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEE
T ss_pred             cCCEEECCCCCccccCCCC-CCCCeEEECCCCc----CCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEE
Confidence            6999999999999998765 4689999999998    6677665579999999999999999985 78899999999999


Q ss_pred             ccccCCCCc-ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCC---ccChhhhcCCCcccEEEccCCc
Q 003328          100 LDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLV---VIAPNVISKFSRLEELYMGDSF  174 (829)
Q Consensus       100 L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~---~lp~~~l~~L~~L~~L~l~~~~  174 (829)
                      +++|.++.+ ..+.  .+|++|++++|.++.+|.. ++++++|++|++++|. +.   ..+.. ++.+ +|++|++++|.
T Consensus       109 L~~n~l~~l~~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~-~~~l-~L~~L~l~~n~  183 (332)
T 2ft3_A          109 ISKNHLVEIPPNLP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNP-LENSGFEPGA-FDGL-KLNYLRISEAK  183 (332)
T ss_dssp             CCSSCCCSCCSSCC--TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCC-CBGGGSCTTS-SCSC-CCSCCBCCSSB
T ss_pred             CCCCcCCccCcccc--ccCCEEECCCCccCccCHhHhCCCccCCEEECCCCc-cccCCCCccc-ccCC-ccCEEECcCCC
Confidence            999999888 5554  8999999999999988764 8999999999999987 43   33333 6677 99999999987


Q ss_pred             cccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCc--cccccccEEEEE
Q 003328          175 SQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQD--WVSVELQRYKIC  225 (829)
Q Consensus       175 ~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~  225 (829)
                      +.     . .+   ..+  .++|+.|++++|.+..++..  ..+++|+.|+++
T Consensus       184 l~-----~-l~---~~~--~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~  225 (332)
T 2ft3_A          184 LT-----G-IP---KDL--PETLNELHLDHNKIQAIELEDLLRYSKLYRLGLG  225 (332)
T ss_dssp             CS-----S-CC---SSS--CSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCC
T ss_pred             CC-----c-cC---ccc--cCCCCEEECCCCcCCccCHHHhcCCCCCCEEECC
Confidence            65     1 11   111  15889999999988776632  245556655543

>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=99.77  E-value=2.1e-18  Score=182.34  Aligned_cols=175  Identities=22%  Similarity=0.208  Sum_probs=112.2

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC---chhhcCCCCCcEEE
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL---PSSLGRLINLQTLC   99 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l---p~~l~~l~~Lr~L~   99 (829)
                      +.++.++++++.+|..+. ++|++|++++|.    +..+|..+|.++++|++|++++|.++.+   |..+..+++|++|+
T Consensus        10 ~~l~c~~~~l~~ip~~~~-~~l~~L~L~~n~----l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~   84 (306)
T 2z66_A           10 TEIRCNSKGLTSVPTGIP-SSATRLELESNK----LQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLD   84 (306)
T ss_dssp             TEEECCSSCCSSCCSCCC-TTCCEEECCSSC----CCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEE
T ss_pred             CEEEcCCCCcccCCCCCC-CCCCEEECCCCc----cCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEE
Confidence            356666666776665432 467777777776    5566666667777777777777776643   55666677777777


Q ss_pred             ccccCCCCc-ccccCCCCCcEEEccCCCCccchh--hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328          100 LDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPL--EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       100 L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~--~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +++|.+..+ ..+.++++|++|++++|.++.++.  .+.++++|++|++++|. +...+...++.+++|++|++++|.+.
T Consensus        85 Ls~n~i~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~  163 (306)
T 2z66_A           85 LSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH-TRVAFNGIFNGLSSLEVLKMAGNSFQ  163 (306)
T ss_dssp             CCSCSEEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSC-CEECSTTTTTTCTTCCEEECTTCEEG
T ss_pred             CCCCccccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCc-CCccchhhcccCcCCCEEECCCCccc
Confidence            777776666 557777777777777777666653  56677777777777765 33333333666777777777776553


Q ss_pred             cccccCCCccchhhhcCCCCCcEEEeecCCCCCc
Q 003328          177 WDKVEGGSNASLAELKGLSKLTTLEIHVWDAQIL  210 (829)
Q Consensus       177 ~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~  210 (829)
                           +  ......+..+++|+.|++++|.+..+
T Consensus       164 -----~--~~~~~~~~~l~~L~~L~Ls~n~l~~~  190 (306)
T 2z66_A          164 -----E--NFLPDIFTELRNLTFLDLSQCQLEQL  190 (306)
T ss_dssp             -----G--GEECSCCTTCTTCCEEECTTSCCCEE
T ss_pred             -----c--ccchhHHhhCcCCCEEECCCCCcCCc
Confidence                 0  01223455666777777777666544

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.77  E-value=7.3e-18  Score=174.51  Aligned_cols=206  Identities=19%  Similarity=0.283  Sum_probs=172.6

Q ss_pred             cccCCccccC--CCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC
Q 003328            8 ADVEKKMEET--IRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL   85 (829)
Q Consensus         8 ~~~~~~~~~~--~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l   85 (829)
                      ++.+.|.+..  ...+.++++++++.+..+|..+. +++++|++++|.    +..++...|.++++|++|++++|.++.+
T Consensus         2 ~~~C~~~~~~C~c~~~~~~l~~~~~~l~~ip~~~~-~~l~~L~l~~n~----l~~~~~~~~~~l~~L~~L~l~~n~l~~i   76 (270)
T 2o6q_A            2 EALCKKDGGVCSCNNNKNSVDCSSKKLTAIPSNIP-ADTKKLDLQSNK----LSSLPSKAFHRLTKLRLLYLNDNKLQTL   76 (270)
T ss_dssp             CCCBGGGTCSBEEETTTTEEECTTSCCSSCCSCCC-TTCSEEECCSSC----CSCCCTTSSSSCTTCCEEECCSSCCSCC
T ss_pred             CccCCCCCCCCEeCCCCCEEEccCCCCCccCCCCC-CCCCEEECcCCC----CCeeCHHHhcCCCCCCEEECCCCccCee
Confidence            4677888764  34578999999999999987553 689999999998    6778776679999999999999999998


Q ss_pred             chhh-cCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcC
Q 003328           86 PSSL-GRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISK  161 (829)
Q Consensus        86 p~~l-~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~  161 (829)
                      |..+ ..+++|++|++++|.+..+  ..+.++.+|++|++++|.++.+|.. ++++++|++|++++|. +..+|...++.
T Consensus        77 ~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~  155 (270)
T 2o6q_A           77 PAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNE-LQSLPKGVFDK  155 (270)
T ss_dssp             CTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTT
T ss_pred             ChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCc-CCccCHhHccC
Confidence            8764 7899999999999999987  5789999999999999999988654 7899999999999987 77888766789


Q ss_pred             CCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc--ccccccEEEEEEc
Q 003328          162 FSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW--VSVELQRYKICIG  227 (829)
Q Consensus       162 L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~~~  227 (829)
                      +++|++|++++|.+.        ......+..+++|+.|+++.|.+..++...  .+++|+.+++.++
T Consensus       156 l~~L~~L~L~~n~l~--------~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N  215 (270)
T 2o6q_A          156 LTSLKELRLYNNQLK--------RVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQEN  215 (270)
T ss_dssp             CTTCCEEECCSSCCS--------CCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSS
T ss_pred             CcccceeEecCCcCc--------EeChhHhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEecCC
Confidence            999999999998765        122334677889999999999998887653  5788898887543

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

Probab=99.77  E-value=6.5e-18  Score=188.17  Aligned_cols=189  Identities=22%  Similarity=0.282  Sum_probs=152.8

Q ss_pred             CCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEE
Q 003328           21 DPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLC   99 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~   99 (829)
                      ..+.++.++..+..+|..+. +++++|++++|.    +..++...|.++++|++|+|++|.++.++ ..+..+++|++|+
T Consensus        44 ~~~~v~c~~~~l~~iP~~~~-~~l~~L~L~~n~----i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~  118 (440)
T 3zyj_A           44 QFSKVICVRKNLREVPDGIS-TNTRLLNLHENQ----IQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLE  118 (440)
T ss_dssp             TSCEEECCSCCCSSCCSCCC-TTCSEEECCSCC----CCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEE
T ss_pred             CCCEEEeCCCCcCcCCCCCC-CCCcEEEccCCc----CCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEE
Confidence            46788888888998887653 689999999998    66777666799999999999999988754 6788999999999


Q ss_pred             ccccCCCCc--ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328          100 LDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       100 L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +++|.++.+  ..+..+.+|++|++++|.++.+|. .+.++++|++|++++|..+..++...+.++++|++|++++|.+.
T Consensus       119 L~~n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~  198 (440)
T 3zyj_A          119 LFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLR  198 (440)
T ss_dssp             CCSSCCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCS
T ss_pred             CCCCcCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCc
Confidence            999999887  468999999999999999988765 58899999999999988888888766888999999999998764


Q ss_pred             cccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCc-c-ccccccEEEE
Q 003328          177 WDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQD-W-VSVELQRYKI  224 (829)
Q Consensus       177 ~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~-~-~~~~L~~L~l  224 (829)
                                .+..+..+++|+.|++++|.+..++.. + .+++|+.|++
T Consensus       199 ----------~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  238 (440)
T 3zyj_A          199 ----------EIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWM  238 (440)
T ss_dssp             ----------SCCCCTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEEC
T ss_pred             ----------cccccCCCcccCEEECCCCccCccChhhhccCccCCEEEC
Confidence                      223467888999999999887765432 1 4445555543

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

Probab=99.76  E-value=7.5e-18  Score=188.37  Aligned_cols=189  Identities=21%  Similarity=0.239  Sum_probs=152.9

Q ss_pred             CCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEE
Q 003328           21 DPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLC   99 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~   99 (829)
                      ..+.++.++.++..+|..+. +++++|++++|.    +..++...|.++++|++|++++|.++.++ ..+..+++|++|+
T Consensus        55 ~~~~v~c~~~~l~~iP~~~~-~~l~~L~L~~n~----i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~  129 (452)
T 3zyi_A           55 QFSKVVCTRRGLSEVPQGIP-SNTRYLNLMENN----IQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLE  129 (452)
T ss_dssp             SSCEEECCSSCCSSCCSCCC-TTCSEEECCSSC----CCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEE
T ss_pred             CCcEEEECCCCcCccCCCCC-CCccEEECcCCc----CceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEE
Confidence            45788888888888887553 689999999998    66676556799999999999999998754 6788999999999


Q ss_pred             ccccCCCCc--ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328          100 LDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       100 L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      |++|.++.+  ..+.++++|++|++++|.++.+|. .+.++++|++|++++|..++.++...+..+++|++|++++|.+.
T Consensus       130 L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~  209 (452)
T 3zyi_A          130 LFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIK  209 (452)
T ss_dssp             CCSSCCSBCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCS
T ss_pred             CCCCcCCccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccc
Confidence            999999877  568899999999999999998876 58899999999999988888888776889999999999998765


Q ss_pred             cccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCc-c-ccccccEEEE
Q 003328          177 WDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQD-W-VSVELQRYKI  224 (829)
Q Consensus       177 ~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~-~-~~~~L~~L~l  224 (829)
                                .+..+..+++|+.|++++|.+..++.. + .+++|+.|++
T Consensus       210 ----------~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  249 (452)
T 3zyi_A          210 ----------DMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWV  249 (452)
T ss_dssp             ----------SCCCCTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEEC
T ss_pred             ----------ccccccccccccEEECcCCcCcccCcccccCccCCCEEEe
Confidence                      223567788999999999888765432 1 3444444443

>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=99.76  E-value=3.3e-17  Score=187.91  Aligned_cols=256  Identities=20%  Similarity=0.151  Sum_probs=186.4

Q ss_pred             CCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEE
Q 003328           20 KDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLC   99 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~   99 (829)
                      .+++.|+++++.+..+|..+. ++|++|++++|.    +..+|.    .+++|++|++++|.++.+|.   .+++|++|+
T Consensus        40 ~~l~~L~ls~n~L~~lp~~l~-~~L~~L~L~~N~----l~~lp~----~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~  107 (622)
T 3g06_A           40 NGNAVLNVGESGLTTLPDCLP-AHITTLVIPDNN----LTSLPA----LPPELRTLEVSGNQLTSLPV---LPPGLLELS  107 (622)
T ss_dssp             HCCCEEECCSSCCSCCCSCCC-TTCSEEEECSCC----CSCCCC----CCTTCCEEEECSCCCSCCCC---CCTTCCEEE
T ss_pred             CCCcEEEecCCCcCccChhhC-CCCcEEEecCCC----CCCCCC----cCCCCCEEEcCCCcCCcCCC---CCCCCCEEE
Confidence            368999999999999998665 799999999998    667875    57899999999999999987   779999999


Q ss_pred             ccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcccccc
Q 003328          100 LDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDK  179 (829)
Q Consensus       100 L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~  179 (829)
                      +++|.++.+..  .+.+|++|++++|.++.+|..   +++|++|++++|. +..+|.    .+.+|+.|++++|.+.   
T Consensus       108 Ls~N~l~~l~~--~l~~L~~L~L~~N~l~~lp~~---l~~L~~L~Ls~N~-l~~l~~----~~~~L~~L~L~~N~l~---  174 (622)
T 3g06_A          108 IFSNPLTHLPA--LPSGLCKLWIFGNQLTSLPVL---PPGLQELSVSDNQ-LASLPA----LPSELCKLWAYNNQLT---  174 (622)
T ss_dssp             ECSCCCCCCCC--CCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSC-CSCCCC----CCTTCCEEECCSSCCS---
T ss_pred             CcCCcCCCCCC--CCCCcCEEECCCCCCCcCCCC---CCCCCEEECcCCc-CCCcCC----ccCCCCEEECCCCCCC---
Confidence            99999998844  678999999999999999874   5899999999986 777774    3578999999998775   


Q ss_pred             ccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEccccccCCCCCCCccEEEeccCCccccchhhhh
Q 003328          180 VEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYG  259 (829)
Q Consensus       180 ~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~l~~~~  259 (829)
                         .    +.  ..+++|+.|+++.|.+..++..  ..+|+.|++.                                  
T Consensus       175 ---~----l~--~~~~~L~~L~Ls~N~l~~l~~~--~~~L~~L~L~----------------------------------  209 (622)
T 3g06_A          175 ---S----LP--MLPSGLQELSVSDNQLASLPTL--PSELYKLWAY----------------------------------  209 (622)
T ss_dssp             ---C----CC--CCCTTCCEEECCSSCCSCCCCC--CTTCCEEECC----------------------------------
T ss_pred             ---C----Cc--ccCCCCcEEECCCCCCCCCCCc--cchhhEEECc----------------------------------
Confidence               1    11  4567899999999988877653  3455555443                                  


Q ss_pred             HHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceeccccccchhhhc
Q 003328          260 MKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICD  339 (829)
Q Consensus       260 ~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~  339 (829)
                                    ++. ++    .++  ..+++|+.|+++++. ++.++        ..+++|+.|+++++ .++.   
T Consensus       210 --------------~N~-l~----~l~--~~~~~L~~L~Ls~N~-L~~lp--------~~l~~L~~L~Ls~N-~L~~---  255 (622)
T 3g06_A          210 --------------NNR-LT----SLP--ALPSGLKELIVSGNR-LTSLP--------VLPSELKELMVSGN-RLTS---  255 (622)
T ss_dssp             --------------SSC-CS----SCC--CCCTTCCEEECCSSC-CSCCC--------CCCTTCCEEECCSS-CCSC---
T ss_pred             --------------CCc-cc----ccC--CCCCCCCEEEccCCc-cCcCC--------CCCCcCcEEECCCC-CCCc---
Confidence                          221 11    111  123566666666653 33221        33566777777665 2222   


Q ss_pred             CCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEeccc
Q 003328          340 SQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFCD  386 (829)
Q Consensus       340 ~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c~  386 (829)
                        +|.  .+++|+.|++++| +++.+|.  .+.++++|+.|++++++
T Consensus       256 --lp~--~~~~L~~L~Ls~N-~L~~lp~--~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          256 --LPM--LPSGLLSLSVYRN-QLTRLPE--SLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             --CCC--CCTTCCEEECCSS-CCCSCCG--GGGGSCTTCEEECCSCC
T ss_pred             --CCc--ccccCcEEeCCCC-CCCcCCH--HHhhccccCEEEecCCC
Confidence              331  5667777777776 5666653  35667777777777764

>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=99.76  E-value=1.1e-17  Score=180.60  Aligned_cols=187  Identities=20%  Similarity=0.211  Sum_probs=154.2

Q ss_pred             cCCccccCCCCCCcEEEcCCCCCCCCCC-cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch
Q 003328           10 VEKKMEETIRKDPIAISLPQRDIQELPE-RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS   87 (829)
Q Consensus        10 ~~~~~~~~~~~~l~~L~l~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~   87 (829)
                      +..+|. ...+++++|++++|.+..++. .+ ++++|++|++++|.    +..++...|.++++|++|++++|.++.+|.
T Consensus        43 l~~iP~-~~~~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~----l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~  117 (353)
T 2z80_A           43 LNSIPS-GLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNG----INTIEEDSFSSLGSLEHLDLSYNYLSNLSS  117 (353)
T ss_dssp             CSSCCT-TCCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSC----CCEECTTTTTTCTTCCEEECCSSCCSSCCH
T ss_pred             cccccc-cccccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCc----cCccCHhhcCCCCCCCEEECCCCcCCcCCH
Confidence            344442 344699999999999998886 33 89999999999998    666766557999999999999999999887


Q ss_pred             h-hcCCCCCcEEEccccCCCCc-c--cccCCCCCcEEEccCC-CCccc-hhhhcCCCCCCEEeccCCCCCCcc-Chhhhc
Q 003328           88 S-LGRLINLQTLCLDWCQLEDV-A--AIGQLKKLEILSFRGS-DIKQL-PLEIGQLTRLQLLDLSNCSSLVVI-APNVIS  160 (829)
Q Consensus        88 ~-l~~l~~Lr~L~L~~~~l~~l-~--~i~~L~~L~~L~l~~~-~l~~l-p~~i~~L~~L~~L~l~~~~~l~~l-p~~~l~  160 (829)
                      . +..+++|++|++++|.++.+ .  .++++++|++|++++| .+..+ |..++++++|++|++++|. +..+ |.. ++
T Consensus       118 ~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~-l~  195 (353)
T 2z80_A          118 SWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASD-LQSYEPKS-LK  195 (353)
T ss_dssp             HHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETT-CCEECTTT-TT
T ss_pred             hHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCC-cCccCHHH-Hh
Confidence            6 89999999999999999988 4  6899999999999999 57776 4679999999999999988 5555 554 89


Q ss_pred             CCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcC
Q 003328          161 KFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILP  211 (829)
Q Consensus       161 ~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~  211 (829)
                      ++++|++|++++|.+.        ......+..+++|+.|+++++.+..++
T Consensus       196 ~l~~L~~L~l~~n~l~--------~~~~~~~~~~~~L~~L~L~~n~l~~~~  238 (353)
T 2z80_A          196 SIQNVSHLILHMKQHI--------LLLEIFVDVTSSVECLELRDTDLDTFH  238 (353)
T ss_dssp             TCSEEEEEEEECSCST--------THHHHHHHHTTTEEEEEEESCBCTTCC
T ss_pred             ccccCCeecCCCCccc--------cchhhhhhhcccccEEECCCCcccccc
Confidence            9999999999998764        111223445789999999999887654

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.76  E-value=1.5e-18  Score=183.66  Aligned_cols=154  Identities=16%  Similarity=0.210  Sum_probs=129.8

Q ss_pred             CCCcEEEeecCCCccccc--ccchhhhcCCCCccEEEecC-CCCC-CCchhhcCCCCCcEEEccccCCC-Cc-ccccCCC
Q 003328           42 PNLQLFLLITKGIAPVSM--QISDLFFEGTEELKVLSLIG-IHFS-SLPSSLGRLINLQTLCLDWCQLE-DV-AAIGQLK  115 (829)
Q Consensus        42 ~~Lr~L~l~~~~~~~~~~--~lp~~~~~~l~~Lr~L~L~~-~~i~-~lp~~l~~l~~Lr~L~L~~~~l~-~l-~~i~~L~  115 (829)
                      .++++|+++++.   ..+  .+|.. |.++++|++|++++ +.+. .+|..++++++|++|++++|.+. .+ ..+++++
T Consensus        50 ~~l~~L~L~~~~---l~~~~~~~~~-l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~  125 (313)
T 1ogq_A           50 YRVNNLDLSGLN---LPKPYPIPSS-LANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIK  125 (313)
T ss_dssp             CCEEEEEEECCC---CSSCEECCGG-GGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCT
T ss_pred             ceEEEEECCCCC---ccCCcccChh-HhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCC
Confidence            589999999998   344  67876 58999999999995 7776 58999999999999999999998 45 7899999


Q ss_pred             CCcEEEccCCCCc-cchhhhcCCCCCCEEeccCCCCCCccChhhhcCCC-cccEEEccCCccccccccCCCccchhhhcC
Q 003328          116 KLEILSFRGSDIK-QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFS-RLEELYMGDSFSQWDKVEGGSNASLAELKG  193 (829)
Q Consensus       116 ~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~-~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~  193 (829)
                      +|++|++++|.++ .+|..++++++|++|++++|...+.+|.. ++++. +|++|++++|.+.     +   .....+..
T Consensus       126 ~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~-l~~l~~~L~~L~L~~N~l~-----~---~~~~~~~~  196 (313)
T 1ogq_A          126 TLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS-YGSFSKLFTSMTISRNRLT-----G---KIPPTFAN  196 (313)
T ss_dssp             TCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGCCCTTCCEEECCSSEEE-----E---ECCGGGGG
T ss_pred             CCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHH-HhhhhhcCcEEECcCCeee-----c---cCChHHhC
Confidence            9999999999998 78999999999999999999854578887 88998 9999999999765     1   23344455


Q ss_pred             CCCCcEEEeecCCCCC
Q 003328          194 LSKLTTLEIHVWDAQI  209 (829)
Q Consensus       194 l~~L~~L~l~~~~~~~  209 (829)
                      ++ |+.|++++|.+..
T Consensus       197 l~-L~~L~Ls~N~l~~  211 (313)
T 1ogq_A          197 LN-LAFVDLSRNMLEG  211 (313)
T ss_dssp             CC-CSEEECCSSEEEE
T ss_pred             Cc-ccEEECcCCcccC
Confidence            55 9999999877643

>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=99.76  E-value=1.4e-17  Score=175.79  Aligned_cols=191  Identities=17%  Similarity=0.211  Sum_probs=168.6

Q ss_pred             CCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCc
Q 003328           17 TIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQ   96 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr   96 (829)
                      ..++++++|+++++.+..++....+++|++|++++|.    +..++.  +.++++|++|++++|.++.++ .+..+++|+
T Consensus        38 ~~l~~L~~L~l~~~~i~~l~~~~~l~~L~~L~L~~n~----i~~~~~--~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~  110 (308)
T 1h6u_A           38 ADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQ----ITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIK  110 (308)
T ss_dssp             HHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC----CCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCC
T ss_pred             HHcCCcCEEEeeCCCccCchhhhccCCCCEEEccCCc----CCCChh--HccCCCCCEEEccCCcCCCch-hhcCCCCCC
Confidence            3467999999999999999866689999999999998    677776  699999999999999999986 689999999


Q ss_pred             EEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328           97 TLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus        97 ~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +|++++|.++.+..+.++++|++|++++|.++.++. ++++++|++|++++|. +..++.  +..+++|++|++++|.+.
T Consensus       111 ~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~-l~~~~~--l~~l~~L~~L~l~~n~l~  186 (308)
T 1h6u_A          111 TLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQ-VSDLTP--LANLSKLTTLKADDNKIS  186 (308)
T ss_dssp             EEECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCC
T ss_pred             EEECCCCCCCCchhhcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccCCc-CCCChh--hcCCCCCCEEECCCCccC
Confidence            999999999999779999999999999999998876 8999999999999987 777776  899999999999999775


Q ss_pred             cccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEcc
Q 003328          177 WDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGE  228 (829)
Q Consensus       177 ~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~  228 (829)
                                .+..+..+++|+.|++++|.+..++....+++|+.|++..+.
T Consensus       187 ----------~~~~l~~l~~L~~L~L~~N~l~~~~~l~~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          187 ----------DISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLTNQT  228 (308)
T ss_dssp             ----------CCGGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEEEEEE
T ss_pred             ----------cChhhcCCCCCCEEEccCCccCccccccCCCCCCEEEccCCe
Confidence                      122377889999999999999888765678999999997554

>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=99.75  E-value=2.1e-17  Score=172.47  Aligned_cols=196  Identities=21%  Similarity=0.221  Sum_probs=167.8

Q ss_pred             cCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCC
Q 003328           16 ETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINL   95 (829)
Q Consensus        16 ~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~L   95 (829)
                      +..+++++++++++++++.+|..+. +++++|++++|.    +..++...|.++++|++|++++|.++.++.. +.+++|
T Consensus         6 ~~~l~~l~~l~~~~~~l~~ip~~~~-~~l~~L~L~~N~----l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L   79 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRNLTALPPDLP-KDTTILHLSENL----LYTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVL   79 (290)
T ss_dssp             EECSTTCCEEECTTSCCSSCCSCCC-TTCCEEECTTSC----CSEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTC
T ss_pred             ccccCCccEEECCCCCCCcCCCCCC-CCCCEEEcCCCc----CCccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcC
Confidence            3456789999999999999997663 689999999999    5667666679999999999999999988765 889999


Q ss_pred             cEEEccccCCCCc-ccccCCCCCcEEEccCCCCccch-hhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCC
Q 003328           96 QTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLP-LEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  173 (829)
Q Consensus        96 r~L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~  173 (829)
                      ++|++++|.++.+ ..+..+++|++|++++|.++.+| ..++++++|++|++++|. +..+|.+.+..+++|++|++++|
T Consensus        80 ~~L~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N  158 (290)
T 1p9a_G           80 GTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNE-LKTLPPGLLTPTPKLEKLSLANN  158 (290)
T ss_dssp             CEEECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTS
T ss_pred             CEEECCCCcCCcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCC-CCccChhhcccccCCCEEECCCC
Confidence            9999999999988 78899999999999999999887 458999999999999987 77888876789999999999999


Q ss_pred             ccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc-ccccccEEEEEE
Q 003328          174 FSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW-VSVELQRYKICI  226 (829)
Q Consensus       174 ~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~  226 (829)
                      .+.        ......+..+++|+.|+++.|.+..+|..+ ...+|+.+.+.+
T Consensus       159 ~l~--------~l~~~~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L~~  204 (290)
T 1p9a_G          159 NLT--------ELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHG  204 (290)
T ss_dssp             CCS--------CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCS
T ss_pred             cCC--------ccCHHHhcCcCCCCEEECCCCcCCccChhhcccccCCeEEeCC
Confidence            775        122234567889999999999999888764 566788887753

>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=99.74  E-value=3.7e-17  Score=170.81  Aligned_cols=175  Identities=21%  Similarity=0.280  Sum_probs=147.7

Q ss_pred             CcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEc
Q 003328           22 PIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCL  100 (829)
Q Consensus        22 l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L  100 (829)
                      -++++.+++.+..+|... .++|++|++++|.    +..++...|.++++|++|++++|.++.+ |..+..+++|++|++
T Consensus        13 ~~~~~c~~~~l~~ip~~~-~~~l~~L~l~~n~----i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l   87 (285)
T 1ozn_A           13 KVTTSCPQQGLQAVPVGI-PAASQRIFLHGNR----ISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDL   87 (285)
T ss_dssp             SCEEECCSSCCSSCCTTC-CTTCSEEECTTSC----CCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CeEEEcCcCCcccCCcCC-CCCceEEEeeCCc----CCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeC
Confidence            378899999999998654 4689999999998    6778776679999999999999999885 778999999999999


Q ss_pred             cccC-CCCc--ccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328          101 DWCQ-LEDV--AAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       101 ~~~~-l~~l--~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      ++|. +..+  ..+.++++|++|++++|.++.+ |..++++++|++|++++|. +..++...++++++|++|++++|.+.
T Consensus        88 ~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~  166 (285)
T 1ozn_A           88 SDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGNRIS  166 (285)
T ss_dssp             CSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             CCCCCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCc-ccccCHhHhccCCCccEEECCCCccc
Confidence            9997 8876  7899999999999999999877 5668999999999999987 67777665789999999999998764


Q ss_pred             cccccCCCccchhhhcCCCCCcEEEeecCCCCCc
Q 003328          177 WDKVEGGSNASLAELKGLSKLTTLEIHVWDAQIL  210 (829)
Q Consensus       177 ~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~  210 (829)
                              ......+..+++|+.|++++|.+..+
T Consensus       167 --------~~~~~~~~~l~~L~~L~l~~n~l~~~  192 (285)
T 1ozn_A          167 --------SVPERAFRGLHSLDRLLLHQNRVAHV  192 (285)
T ss_dssp             --------EECTTTTTTCTTCCEEECCSSCCCEE
T ss_pred             --------ccCHHHhcCccccCEEECCCCccccc
Confidence                    12223466788999999998877644

>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=99.74  E-value=2e-19  Score=202.09  Aligned_cols=158  Identities=20%  Similarity=0.166  Sum_probs=91.0

Q ss_pred             CCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCC-----CCchhhcCCCCCcEEEccccCCCCc---ccccC
Q 003328           42 PNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFS-----SLPSSLGRLINLQTLCLDWCQLEDV---AAIGQ  113 (829)
Q Consensus        42 ~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-----~lp~~l~~l~~Lr~L~L~~~~l~~l---~~i~~  113 (829)
                      ++|++|+++++.   ........+|..+++|++|++++|.++     .++..+..+++|++|++++|.+...   .....
T Consensus         3 ~~l~~L~Ls~~~---l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~   79 (461)
T 1z7x_W            3 LDIQSLDIQCEE---LSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQG   79 (461)
T ss_dssp             EEEEEEEEESCC---CCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHT
T ss_pred             ccceehhhhhcc---cCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHHHHH
Confidence            356677776666   112222333566777777777777766     3566666777777777777766532   22233


Q ss_pred             CC----CCcEEEccCCCCc-----cchhhhcCCCCCCEEeccCCCCCCccChhhh-----cCCCcccEEEccCCcccccc
Q 003328          114 LK----KLEILSFRGSDIK-----QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVI-----SKFSRLEELYMGDSFSQWDK  179 (829)
Q Consensus       114 L~----~L~~L~l~~~~l~-----~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l-----~~L~~L~~L~l~~~~~~~~~  179 (829)
                      +.    +|++|++++|.++     .+|..+.++++|++|++++|. +.......+     ....+|++|++++|.+... 
T Consensus        80 l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~-  157 (461)
T 1z7x_W           80 LQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL-LGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAA-  157 (461)
T ss_dssp             TCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGG-
T ss_pred             HhhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCc-CchHHHHHHHHHHhcCCCcceEEECCCCCCCHH-
Confidence            44    5777777777666     356667777777777777766 332211111     1245677777777755400 


Q ss_pred             ccCCCccchhhhcCCCCCcEEEeecCCC
Q 003328          180 VEGGSNASLAELKGLSKLTTLEIHVWDA  207 (829)
Q Consensus       180 ~~~~~~~~~~~L~~l~~L~~L~l~~~~~  207 (829)
                         ........++.+++|+.|+++++.+
T Consensus       158 ---~~~~l~~~l~~~~~L~~L~L~~n~i  182 (461)
T 1z7x_W          158 ---SCEPLASVLRAKPDFKELTVSNNDI  182 (461)
T ss_dssp             ---GHHHHHHHHHHCTTCCEEECCSSBC
T ss_pred             ---HHHHHHHHHhhCCCCCEEECcCCCc
Confidence               0011223345566777777766554

>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=99.73  E-value=3.9e-17  Score=182.57  Aligned_cols=194  Identities=20%  Similarity=0.272  Sum_probs=162.7

Q ss_pred             CCCCCCcEEEcCCCCCCCCCC-cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh-hcCCC
Q 003328           17 TIRKDPIAISLPQRDIQELPE-RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS-LGRLI   93 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~-l~~l~   93 (829)
                      +.++++++|++++|.+..+++ .+ ++++|++|++++|.    +..++...|.++++|++|+|++|.++.+|.. +..++
T Consensus        72 ~~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~----i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~  147 (452)
T 3zyi_A           72 GIPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNS----IRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLS  147 (452)
T ss_dssp             CCCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSC----CCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCT
T ss_pred             CCCCCccEEECcCCcCceECHHHcCCCCCCCEEECCCCc----cCCcChhhccCcccCCEEECCCCcCCccChhhhcccC
Confidence            345799999999999998754 33 89999999999998    6677766689999999999999999998765 78999


Q ss_pred             CCcEEEccccCCCCc--ccccCCCCCcEEEccCC-CCccchh-hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEE
Q 003328           94 NLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGS-DIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELY  169 (829)
Q Consensus        94 ~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~-~l~~lp~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~  169 (829)
                      +|++|++++|.+..+  ..+.++++|++|+++++ .+..+|. .+.++++|++|++++|. +..+|.  +..+++|++|+
T Consensus       148 ~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~-l~~~~~--~~~l~~L~~L~  224 (452)
T 3zyi_A          148 KLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCN-IKDMPN--LTPLVGLEELE  224 (452)
T ss_dssp             TCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSC-CSSCCC--CTTCTTCCEEE
T ss_pred             CCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCc-cccccc--ccccccccEEE
Confidence            999999999999987  57999999999999995 6777766 48899999999999987 778875  89999999999


Q ss_pred             ccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc--ccccccEEEEE
Q 003328          170 MGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW--VSVELQRYKIC  225 (829)
Q Consensus       170 l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~  225 (829)
                      +++|.+.        ......+.++++|+.|++++|.+..++...  .+++|+.|+++
T Consensus       225 Ls~N~l~--------~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~  274 (452)
T 3zyi_A          225 MSGNHFP--------EIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLA  274 (452)
T ss_dssp             CTTSCCS--------EECGGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CcCCcCc--------ccCcccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECC
Confidence            9999775        234566788999999999999887664432  44556655553

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

Probab=99.73  E-value=3.5e-17  Score=182.24  Aligned_cols=193  Identities=19%  Similarity=0.283  Sum_probs=162.5

Q ss_pred             CCCCCCcEEEcCCCCCCCCCC-cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch-hhcCCC
Q 003328           17 TIRKDPIAISLPQRDIQELPE-RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLI   93 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~-~l~~l~   93 (829)
                      ..++++++|++++|.+..++. .+ ++++|++|++++|.    +..++...|.++++|++|++++|.++.+|. .+..++
T Consensus        61 ~~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~----i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~  136 (440)
T 3zyj_A           61 GISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNH----IRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLS  136 (440)
T ss_dssp             CCCTTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSC----CCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCS
T ss_pred             CCCCCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCc----CCccChhhccCCccCCEEECCCCcCCeeCHhHhhccc
Confidence            345789999999999998764 33 89999999999999    677777778999999999999999999876 589999


Q ss_pred             CCcEEEccccCCCCc--ccccCCCCCcEEEccCC-CCccchh-hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEE
Q 003328           94 NLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGS-DIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELY  169 (829)
Q Consensus        94 ~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~-~l~~lp~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~  169 (829)
                      +|++|++++|.+..+  ..+.++++|++|+++++ .+..+|. .+.++++|++|++++|. +..+|.  +..+++|++|+
T Consensus       137 ~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~-l~~~~~--~~~l~~L~~L~  213 (440)
T 3zyj_A          137 KLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCN-LREIPN--LTPLIKLDELD  213 (440)
T ss_dssp             SCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSC-CSSCCC--CTTCSSCCEEE
T ss_pred             cCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCc-Cccccc--cCCCcccCEEE
Confidence            999999999999987  57999999999999995 6777765 58999999999999987 888886  89999999999


Q ss_pred             ccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc--ccccccEEEE
Q 003328          170 MGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW--VSVELQRYKI  224 (829)
Q Consensus       170 l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l  224 (829)
                      +++|.+.        ......+.++++|+.|++++|.+..++...  .+++|+.|++
T Consensus       214 Ls~N~l~--------~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  262 (440)
T 3zyj_A          214 LSGNHLS--------AIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINL  262 (440)
T ss_dssp             CTTSCCC--------EECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEEC
T ss_pred             CCCCccC--------ccChhhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEEC
Confidence            9999765        233456778899999999999887665432  4455555544

>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=99.73  E-value=1.6e-17  Score=175.51  Aligned_cols=189  Identities=19%  Similarity=0.176  Sum_probs=156.4

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCcc--CCCCCcEEEeecCCCccccccc---chhhhcCCCCccEEEecCCCCC
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPERL--QCPNLQLFLLITKGIAPVSMQI---SDLFFEGTEELKVLSLIGIHFS   83 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~~l---p~~~~~~l~~Lr~L~L~~~~i~   83 (829)
                      ++..+|. ..++++++|++++|.+..+|...  ++++|++|++++|.    +..+   +..+ .++++|++|++++|.+.
T Consensus        18 ~l~~ip~-~~~~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~----l~~~~~~~~~~-~~~~~L~~L~Ls~n~i~   91 (306)
T 2z66_A           18 GLTSVPT-GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNG----LSFKGCCSQSD-FGTTSLKYLDLSFNGVI   91 (306)
T ss_dssp             CCSSCCS-CCCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC----CCEEEEEEHHH-HSCSCCCEEECCSCSEE
T ss_pred             CcccCCC-CCCCCCCEEECCCCccCccCHhHhhccccCCEEECCCCc----cCcccCccccc-ccccccCEEECCCCccc
Confidence            3444443 44579999999999999998753  89999999999998    3333   4554 68999999999999999


Q ss_pred             CCchhhcCCCCCcEEEccccCCCCc---ccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCCCCC-ccChhh
Q 003328           84 SLPSSLGRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLV-VIAPNV  158 (829)
Q Consensus        84 ~lp~~l~~l~~Lr~L~L~~~~l~~l---~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~l~-~lp~~~  158 (829)
                      .+|..+..+++|++|++++|.+..+   ..+.++++|++|++++|.+... |..++++++|++|++++|.... .+|.. 
T Consensus        92 ~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~-  170 (306)
T 2z66_A           92 TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDI-  170 (306)
T ss_dssp             EEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSC-
T ss_pred             cChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhH-
Confidence            9999999999999999999998866   4789999999999999998854 5668999999999999987333 35665 


Q ss_pred             hcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCC
Q 003328          159 ISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQ  212 (829)
Q Consensus       159 l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~  212 (829)
                      ++.+++|++|++++|.+.        ......+..+++|+.|++++|.+..++.
T Consensus       171 ~~~l~~L~~L~Ls~n~l~--------~~~~~~~~~l~~L~~L~L~~N~l~~~~~  216 (306)
T 2z66_A          171 FTELRNLTFLDLSQCQLE--------QLSPTAFNSLSSLQVLNMSHNNFFSLDT  216 (306)
T ss_dssp             CTTCTTCCEEECTTSCCC--------EECTTTTTTCTTCCEEECTTSCCSBCCS
T ss_pred             HhhCcCCCEEECCCCCcC--------CcCHHHhcCCCCCCEEECCCCccCccCh
Confidence            889999999999999765        2234567788899999999998876654

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.73  E-value=1.1e-16  Score=165.56  Aligned_cols=186  Identities=23%  Similarity=0.340  Sum_probs=157.7

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP   86 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp   86 (829)
                      ++..+|. ..++++++|++++|.+..++.. + .+++|++|++++|.    +..+|..+|.++++|++|++++|.++.+|
T Consensus        27 ~l~~ip~-~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~----l~~i~~~~~~~l~~L~~L~l~~n~l~~~~  101 (270)
T 2o6q_A           27 KLTAIPS-NIPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNK----LQTLPAGIFKELKNLETLWVTDNKLQALP  101 (270)
T ss_dssp             CCSSCCS-CCCTTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSC----CSCCCTTTTSSCTTCCEEECCSSCCCCCC
T ss_pred             CCCccCC-CCCCCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCc----cCeeChhhhcCCCCCCEEECCCCcCCcCC
Confidence            3444442 3457899999999999988863 3 89999999999998    67888888899999999999999999877


Q ss_pred             hh-hcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCC
Q 003328           87 SS-LGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKF  162 (829)
Q Consensus        87 ~~-l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L  162 (829)
                      .. +..+++|++|++++|.++.+  ..++++++|++|++++|.++.+|.. ++++++|++|++++|. +..++...+.++
T Consensus       102 ~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l  180 (270)
T 2o6q_A          102 IGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQ-LKRVPEGAFDKL  180 (270)
T ss_dssp             TTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTC
T ss_pred             HhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCc-CcEeChhHhccC
Confidence            54 68999999999999999977  5689999999999999999998876 7899999999999987 777877658899


Q ss_pred             CcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          163 SRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       163 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                      ++|++|++++|.+.        ......+..+++|+.|++++|...
T Consensus       181 ~~L~~L~L~~N~l~--------~~~~~~~~~l~~L~~L~l~~N~~~  218 (270)
T 2o6q_A          181 TELKTLKLDNNQLK--------RVPEGAFDSLEKLKMLQLQENPWD  218 (270)
T ss_dssp             TTCCEEECCSSCCS--------CCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             CCcCEEECCCCcCC--------cCCHHHhccccCCCEEEecCCCee
Confidence            99999999999765        122234667889999999988754

>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=99.73  E-value=3e-17  Score=166.62  Aligned_cols=202  Identities=13%  Similarity=0.197  Sum_probs=168.7

Q ss_pred             ccccCCccccCCCCCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecC-CCCC
Q 003328            7 VADVEKKMEETIRKDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIG-IHFS   83 (829)
Q Consensus         7 ~~~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~-~~i~   83 (829)
                      +.++..+|.  .++++++|++++|.++.++.. + .+++|++|++++|.   .+..++...|.++++|++|++++ |.++
T Consensus        20 c~~l~~ip~--~~~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~---~l~~i~~~~f~~l~~L~~L~l~~~n~l~   94 (239)
T 2xwt_C           20 CKDIQRIPS--LPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDV---TLQQLESHSFYNLSKVTHIEIRNTRNLT   94 (239)
T ss_dssp             ECSCSSCCC--CCTTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCS---SCCEECTTTEESCTTCCEEEEEEETTCC
T ss_pred             ccCccccCC--CCCcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCC---CcceeCHhHcCCCcCCcEEECCCCCCee
Confidence            345666776  567999999999999998873 3 89999999999996   36778876789999999999998 8999


Q ss_pred             CCc-hhhcCCCCCcEEEccccCCCCcccccCCCCCc---EEEccCC-CCccchhh-hcCCCCCC-EEeccCCCCCCccCh
Q 003328           84 SLP-SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE---ILSFRGS-DIKQLPLE-IGQLTRLQ-LLDLSNCSSLVVIAP  156 (829)
Q Consensus        84 ~lp-~~l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~---~L~l~~~-~l~~lp~~-i~~L~~L~-~L~l~~~~~l~~lp~  156 (829)
                      .+| ..+..+++|++|++++|.++.+..++.+.+|+   +|++++| .++.+|.. +.++++|+ +|++++|. +..+|.
T Consensus        95 ~i~~~~f~~l~~L~~L~l~~n~l~~lp~~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~-l~~i~~  173 (239)
T 2xwt_C           95 YIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNG-FTSVQG  173 (239)
T ss_dssp             EECTTSEECCTTCCEEEEEEECCCSCCCCTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCC-CCEECT
T ss_pred             EcCHHHhCCCCCCCEEeCCCCCCccccccccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCC-CcccCH
Confidence            876 46789999999999999999885588888888   9999999 99988765 88999999 99999987 778888


Q ss_pred             hhhcCCCcccEEEccCCc-cccccccCCCccchhhhcCC-CCCcEEEeecCCCCCcCCccccccccEEEE
Q 003328          157 NVISKFSRLEELYMGDSF-SQWDKVEGGSNASLAELKGL-SKLTTLEIHVWDAQILPQDWVSVELQRYKI  224 (829)
Q Consensus       157 ~~l~~L~~L~~L~l~~~~-~~~~~~~~~~~~~~~~L~~l-~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l  224 (829)
                      . ....++|++|++++|. +.        ......+..+ ++|+.|+++.+.+..+|.. .+++|+.|++
T Consensus       174 ~-~~~~~~L~~L~L~~n~~l~--------~i~~~~~~~l~~~L~~L~l~~N~l~~l~~~-~~~~L~~L~l  233 (239)
T 2xwt_C          174 Y-AFNGTKLDAVYLNKNKYLT--------VIDKDAFGGVYSGPSLLDVSQTSVTALPSK-GLEHLKELIA  233 (239)
T ss_dssp             T-TTTTCEEEEEECTTCTTCC--------EECTTTTTTCSBCCSEEECTTCCCCCCCCT-TCTTCSEEEC
T ss_pred             h-hcCCCCCCEEEcCCCCCcc--------cCCHHHhhccccCCcEEECCCCccccCChh-HhccCceeec
Confidence            6 4444899999999984 53        1223446677 8999999999999888876 6788888876

>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=99.72  E-value=5.2e-17  Score=168.74  Aligned_cols=196  Identities=21%  Similarity=0.218  Sum_probs=161.0

Q ss_pred             CCCCCcEEEcCCCCCCCCCC-cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCC
Q 003328           18 IRKDPIAISLPQRDIQELPE-RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLIN   94 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~   94 (829)
                      .++++++|++++|.+..++. .+ .+++|++|++++|.    +..++...|.++++|++|++++|.++.++ ..+..+++
T Consensus        26 l~~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~----l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  101 (276)
T 2z62_A           26 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE----IQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSS  101 (276)
T ss_dssp             SCTTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCC----CCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTT
T ss_pred             CCCCccEEECCCCcccccCHhHhccccCCcEEECCCCc----CCccCHHHccCCcCCCEEECCCCccCccChhhhcCCcc
Confidence            45689999999999998875 33 89999999999998    66777766799999999999999998855 67899999


Q ss_pred             CcEEEccccCCCCc--ccccCCCCCcEEEccCCCCcc--chhhhcCCCCCCEEeccCCCCCCccChhhhcCCCccc----
Q 003328           95 LQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQ--LPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLE----  166 (829)
Q Consensus        95 Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~--lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~----  166 (829)
                      |++|++++|.+..+  ..++++++|++|++++|.++.  +|..++++++|++|++++|. +..++...+..+.+|+    
T Consensus       102 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~l~l  180 (276)
T 2z62_A          102 LQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQMPLLNL  180 (276)
T ss_dssp             CCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSC-CCEECGGGGHHHHTCTTCCE
T ss_pred             ccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCC-CCcCCHHHhhhhhhccccce
Confidence            99999999999877  469999999999999999986  68899999999999999987 6777654466666666    


Q ss_pred             EEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc--ccccccEEEEEEc
Q 003328          167 ELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW--VSVELQRYKICIG  227 (829)
Q Consensus       167 ~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~~~  227 (829)
                      +|++++|.+.         ..........+|+.|++++|.+..++...  .+++|+.++++++
T Consensus       181 ~L~ls~n~l~---------~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N  234 (276)
T 2z62_A          181 SLDLSLNPMN---------FIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTN  234 (276)
T ss_dssp             EEECCSSCCC---------EECTTSSCSCCEEEEECCSSCCSCCCTTTTTTCCSCCEEECCSS
T ss_pred             eeecCCCccc---------ccCccccCCCcccEEECCCCceeecCHhHhcccccccEEEccCC
Confidence            8999988765         11122223347999999999998887753  6788999887643

>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=99.72  E-value=1.1e-16  Score=168.87  Aligned_cols=183  Identities=20%  Similarity=0.295  Sum_probs=160.2

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS   88 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~   88 (829)
                      ++..++++..+++|++|++++|.+..++....+++|++|++++|.    +..++.  +.++++|++|++++|.++.+|. 
T Consensus        52 ~i~~l~~~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~L~~n~----l~~~~~--~~~l~~L~~L~l~~n~l~~~~~-  124 (308)
T 1h6u_A           52 GVTTIEGVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNP----LKNVSA--IAGLQSIKTLDLTSTQITDVTP-  124 (308)
T ss_dssp             CCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCC----CSCCGG--GTTCTTCCEEECTTSCCCCCGG-
T ss_pred             CccCchhhhccCCCCEEEccCCcCCCChhHccCCCCCEEEccCCc----CCCchh--hcCCCCCCEEECCCCCCCCchh-
Confidence            455566777889999999999999998885589999999999999    566663  6899999999999999999875 


Q ss_pred             hcCCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEE
Q 003328           89 LGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEEL  168 (829)
Q Consensus        89 l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L  168 (829)
                      +..+++|++|++++|.+..+..++++++|++|++++|.++.++. ++++++|++|++++|. +..++.  +..+++|++|
T Consensus       125 l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~-l~~~~~--l~~l~~L~~L  200 (308)
T 1h6u_A          125 LAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADDNK-ISDISP--LASLPNLIEV  200 (308)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-CCCCGG--GGGCTTCCEE
T ss_pred             hcCCCCCCEEECCCCccCcCccccCCCCccEEEccCCcCCCChh-hcCCCCCCEEECCCCc-cCcChh--hcCCCCCCEE
Confidence            89999999999999999988669999999999999999999887 9999999999999987 777776  8999999999


Q ss_pred             EccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCC
Q 003328          169 YMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQ  212 (829)
Q Consensus       169 ~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~  212 (829)
                      ++++|.+.          .+..+..+++|+.|++++|.+...+.
T Consensus       201 ~L~~N~l~----------~~~~l~~l~~L~~L~l~~N~i~~~~~  234 (308)
T 1h6u_A          201 HLKNNQIS----------DVSPLANTSNLFIVTLTNQTITNQPV  234 (308)
T ss_dssp             ECTTSCCC----------BCGGGTTCTTCCEEEEEEEEEECCCE
T ss_pred             EccCCccC----------ccccccCCCCCCEEEccCCeeecCCe
Confidence            99999775          12247889999999999988765543

>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=99.71  E-value=5.4e-19  Score=198.61  Aligned_cols=180  Identities=19%  Similarity=0.228  Sum_probs=127.4

Q ss_pred             CCCCcEEEcCCCCCCCCC--Ccc-CCCCCcEEEeecCCCccc-ccccchhhhcCCCCccEEEecCCCCCC-Cchhh-cCC
Q 003328           19 RKDPIAISLPQRDIQELP--ERL-QCPNLQLFLLITKGIAPV-SMQISDLFFEGTEELKVLSLIGIHFSS-LPSSL-GRL   92 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~--~~~-~~~~Lr~L~l~~~~~~~~-~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lp~~l-~~l   92 (829)
                      ++++++|+++++.+...+  ..+ .+++|++|++++|..... ...++.. +..+++|++|++++|.+.. .+..+ ..+
T Consensus         2 ~~~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~-l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l   80 (461)
T 1z7x_W            2 SLDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSA-LRVNPALAELNLRSNELGDVGVHCVLQGL   80 (461)
T ss_dssp             CEEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHH-HHTCTTCCEEECTTCCCHHHHHHHHHHTT
T ss_pred             CccceehhhhhcccCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHHHH-HHhCCCcCEEeCCCCcCChHHHHHHHHHH
Confidence            457899999999887543  213 688999999999983210 0134444 5889999999999998865 22233 345


Q ss_pred             C----CCcEEEccccCCCC-----c-ccccCCCCCcEEEccCCCCccc-hh----h-hcCCCCCCEEeccCCCCCCc---
Q 003328           93 I----NLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRGSDIKQL-PL----E-IGQLTRLQLLDLSNCSSLVV---  153 (829)
Q Consensus        93 ~----~Lr~L~L~~~~l~~-----l-~~i~~L~~L~~L~l~~~~l~~l-p~----~-i~~L~~L~~L~l~~~~~l~~---  153 (829)
                      +    +|++|++++|.+..     + ..+.++++|++|++++|.++.. +.    . ....++|++|++++|. +..   
T Consensus        81 ~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~  159 (461)
T 1z7x_W           81 QTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCS-LSAASC  159 (461)
T ss_dssp             CSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CBGGGH
T ss_pred             hhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCC-CCHHHH
Confidence            5    79999999998873     4 7788999999999999987632 22    2 2236789999999986 443   


Q ss_pred             --cChhhhcCCCcccEEEccCCccccccccCCCccchhhhc-----CCCCCcEEEeecCCCCC
Q 003328          154 --IAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELK-----GLSKLTTLEIHVWDAQI  209 (829)
Q Consensus       154 --lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~-----~l~~L~~L~l~~~~~~~  209 (829)
                        ++.. +..+++|++|++++|.+.        ...+..+.     ..++|+.|+++++.+..
T Consensus       160 ~~l~~~-l~~~~~L~~L~L~~n~i~--------~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~  213 (461)
T 1z7x_W          160 EPLASV-LRAKPDFKELTVSNNDIN--------EAGVRVLCQGLKDSPCQLEALKLESCGVTS  213 (461)
T ss_dssp             HHHHHH-HHHCTTCCEEECCSSBCH--------HHHHHHHHHHHHHSCCCCCEEECTTSCCBT
T ss_pred             HHHHHH-HhhCCCCCEEECcCCCcc--------hHHHHHHHHHHhcCCCCceEEEccCCCCcH
Confidence              2333 677899999999998764        11222222     35689999999887654

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.70  E-value=3.5e-18  Score=181.41  Aligned_cols=244  Identities=14%  Similarity=0.030  Sum_probs=113.0

Q ss_pred             CCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCcccccCCCCCcEE
Q 003328           41 CPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEIL  120 (829)
Q Consensus        41 ~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L  120 (829)
                      +++|++|++++|.    +..++...|.++++|++|++++|.++..+. +..+++|++|++++|.++.+.   ..++|++|
T Consensus        33 ~~~L~~L~L~~n~----l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls~n~l~~l~---~~~~L~~L  104 (317)
T 3o53_A           33 AWNVKELDLSGNP----LSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNNYVQELL---VGPSIETL  104 (317)
T ss_dssp             GGGCSEEECTTSC----CCCCCHHHHTTCTTCCEEECTTSCCEEEEE-ETTCTTCCEEECCSSEEEEEE---ECTTCCEE
T ss_pred             CCCCCEEECcCCc----cCcCCHHHhhCCCcCCEEECCCCcCCcchh-hhhcCCCCEEECcCCcccccc---CCCCcCEE
Confidence            3345555555544    333333333455555555555555444332 444555555555555443331   12445555


Q ss_pred             EccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhh-cCCCCCcE
Q 003328          121 SFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAEL-KGLSKLTT  199 (829)
Q Consensus       121 ~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L-~~l~~L~~  199 (829)
                      ++++|.++.++..  .+++|++|++++|. +..++...++.+++|++|++++|.+.        ......+ ..+++|+.
T Consensus       105 ~l~~n~l~~~~~~--~~~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~Ls~N~l~--------~~~~~~~~~~l~~L~~  173 (317)
T 3o53_A          105 HAANNNISRVSCS--RGQGKKNIYLANNK-ITMLRDLDEGCRSRVQYLDLKLNEID--------TVNFAELAASSDTLEH  173 (317)
T ss_dssp             ECCSSCCSEEEEC--CCSSCEEEECCSSC-CCSGGGBCTGGGSSEEEEECTTSCCC--------EEEGGGGGGGTTTCCE
T ss_pred             ECCCCccCCcCcc--ccCCCCEEECCCCC-CCCccchhhhccCCCCEEECCCCCCC--------cccHHHHhhccCcCCE
Confidence            5555544444322  24445555555444 33333222444455555555544432        1111122 23444555


Q ss_pred             EEeecCCCCCcCCccccccccEEEEEEccccccCCCCCCCccEEEeccCCccccchhhhhHHHhhhhheeEeeccccCcc
Q 003328          200 LEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQ  279 (829)
Q Consensus       200 L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~  279 (829)
                      |++++|.+..++....+++|+.|+++.+...                       .++..  -..+++|+.|+++++ .++
T Consensus       174 L~L~~N~l~~~~~~~~l~~L~~L~Ls~N~l~-----------------------~l~~~--~~~l~~L~~L~L~~N-~l~  227 (317)
T 3o53_A          174 LNLQYNFIYDVKGQVVFAKLKTLDLSSNKLA-----------------------FMGPE--FQSAAGVTWISLRNN-KLV  227 (317)
T ss_dssp             EECTTSCCCEEECCCCCTTCCEEECCSSCCC-----------------------EECGG--GGGGTTCSEEECTTS-CCC
T ss_pred             EECCCCcCcccccccccccCCEEECCCCcCC-----------------------cchhh--hcccCcccEEECcCC-ccc
Confidence            5555554444433333444444444322110                       00000  011356677777665 333


Q ss_pred             ccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceeccccccchh
Q 003328          280 NVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLET  336 (829)
Q Consensus       280 ~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~  336 (829)
                      .+...+   ..+++|+.|++++++-....  .+.  ....+++|+.+++.++..++.
T Consensus       228 ~l~~~~---~~l~~L~~L~l~~N~~~~~~--~~~--~~~~~~~L~~l~l~~~~~l~~  277 (317)
T 3o53_A          228 LIEKAL---RFSQNLEHFDLRGNGFHCGT--LRD--FFSKNQRVQTVAKQTVKKLTG  277 (317)
T ss_dssp             EECTTC---CCCTTCCEEECTTCCCBHHH--HHH--HHHTCHHHHHHHHHHHHHHHS
T ss_pred             chhhHh---hcCCCCCEEEccCCCccCcC--HHH--HHhccccceEEECCCchhccC
Confidence            444443   37788999999887643110  011  134467788888877776664

>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=99.70  E-value=4.7e-16  Score=161.53  Aligned_cols=178  Identities=19%  Similarity=0.240  Sum_probs=145.0

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEcc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLD  101 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~-~l~~l~~Lr~L~L~  101 (829)
                      ..++-.+..+.++|..+. ++|++|++++|.    +..++...|.++++|++|++++|.++.++. .+..+++|++|+++
T Consensus        10 ~~~~c~~~~l~~ip~~l~-~~l~~L~ls~n~----l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~   84 (276)
T 2z62_A           10 ITYQCMELNFYKIPDNLP-FSTKNLDLSFNP----LRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILT   84 (276)
T ss_dssp             TEEECTTSCCSSCCSSSC-TTCCEEECTTCC----CCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECT
T ss_pred             ceEEecCCCccccCCCCC-CCccEEECCCCc----ccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECC
Confidence            345666777888887553 579999999998    677776567999999999999999988654 68999999999999


Q ss_pred             ccCCCCc--ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCCCCCc--cChhhhcCCCcccEEEccCCccc
Q 003328          102 WCQLEDV--AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLVV--IAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       102 ~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~l~~--lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +|.++.+  ..+.++.+|++|++++|.+..++. .++++++|++|++++|. +..  +|.. ++++++|++|++++|.+.
T Consensus        85 ~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~l~~~-~~~l~~L~~L~Ls~N~l~  162 (276)
T 2z62_A           85 GNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNL-IQSFKLPEY-FSNLTNLEHLDLSSNKIQ  162 (276)
T ss_dssp             TCCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSC-CCCCCCCGG-GGGCTTCCEEECCSSCCC
T ss_pred             CCccCccChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCc-cceecCchh-hccCCCCCEEECCCCCCC
Confidence            9999876  679999999999999999998866 58999999999999987 554  5665 899999999999999775


Q ss_pred             cccccCCCccchhhhcCCCCCc-EEEeecCCCCCcCC
Q 003328          177 WDKVEGGSNASLAELKGLSKLT-TLEIHVWDAQILPQ  212 (829)
Q Consensus       177 ~~~~~~~~~~~~~~L~~l~~L~-~L~l~~~~~~~~~~  212 (829)
                           +.....+..+..++.|. .|+++++.+..++.
T Consensus       163 -----~~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~  194 (276)
T 2z62_A          163 -----SIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQP  194 (276)
T ss_dssp             -----EECGGGGHHHHTCTTCCEEEECCSSCCCEECT
T ss_pred             -----cCCHHHhhhhhhccccceeeecCCCcccccCc
Confidence                 22234556666666666 78998888765554

>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=99.70  E-value=1.6e-16  Score=166.01  Aligned_cols=172  Identities=23%  Similarity=0.327  Sum_probs=135.8

Q ss_pred             CCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCc
Q 003328           17 TIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQ   96 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr   96 (829)
                      ..++++++|++++|.+..++....+++|++|++++|.    +..++.  +.++++|++|++++|.++.+|. +..+++|+
T Consensus        43 ~~l~~L~~L~l~~~~i~~~~~~~~l~~L~~L~L~~n~----l~~~~~--l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~  115 (291)
T 1h6t_A           43 NELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNK----LTDIKP--LANLKNLGWLFLDENKVKDLSS-LKDLKKLK  115 (291)
T ss_dssp             HHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC----CCCCGG--GTTCTTCCEEECCSSCCCCGGG-GTTCTTCC
T ss_pred             hhcCcccEEEccCCCcccChhHhcCCCCCEEEccCCc----cCCCcc--cccCCCCCEEECCCCcCCCChh-hccCCCCC
Confidence            3456888888888888888765578888888888888    556665  5888888888888888887664 78888888


Q ss_pred             EEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328           97 TLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus        97 ~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +|++++|.+..+..+..+++|++|++++|.++.+ ..++++++|++|++++|. +..++.  +..+++|++|++++|.+.
T Consensus       116 ~L~L~~n~i~~~~~l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~~N~-l~~~~~--l~~l~~L~~L~L~~N~i~  191 (291)
T 1h6t_A          116 SLSLEHNGISDINGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQ-ISDIVP--LAGLTKLQNLYLSKNHIS  191 (291)
T ss_dssp             EEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCC
T ss_pred             EEECCCCcCCCChhhcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEccCCc-cccchh--hcCCCccCEEECCCCcCC
Confidence            8888888888887788888888888888888877 468888888888888876 666665  788888888888888664


Q ss_pred             cccccCCCccchhhhcCCCCCcEEEeecCCCCC
Q 003328          177 WDKVEGGSNASLAELKGLSKLTTLEIHVWDAQI  209 (829)
Q Consensus       177 ~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~  209 (829)
                                .+..+..+++|+.|++++|.+..
T Consensus       192 ----------~l~~l~~l~~L~~L~l~~n~i~~  214 (291)
T 1h6t_A          192 ----------DLRALAGLKNLDVLELFSQECLN  214 (291)
T ss_dssp             ----------BCGGGTTCTTCSEEEEEEEEEEC
T ss_pred             ----------CChhhccCCCCCEEECcCCcccC
Confidence                      23447778888888888776544

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.69  E-value=3.1e-16  Score=162.35  Aligned_cols=178  Identities=24%  Similarity=0.290  Sum_probs=143.4

Q ss_pred             cCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh-hcCCCC
Q 003328           16 ETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS-LGRLIN   94 (829)
Q Consensus        16 ~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~-l~~l~~   94 (829)
                      ...+++++.|+++++.+..++....+++|++|++++|.    +..++ . +.++++|++|++++|.++.+|.. +..+++
T Consensus        37 ~~~l~~L~~L~l~~~~i~~~~~l~~l~~L~~L~l~~n~----l~~~~-~-l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  110 (272)
T 3rfs_A           37 QNELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNK----LHDIS-A-LKELTNLTYLILTGNQLQSLPNGVFDKLTN  110 (272)
T ss_dssp             HHHHTTCCEEECTTSCCCCCTTGGGCTTCCEEECTTSC----CCCCG-G-GTTCTTCCEEECTTSCCCCCCTTTTTTCTT
T ss_pred             cccccceeeeeeCCCCcccccccccCCCCcEEECCCCC----CCCch-h-hcCCCCCCEEECCCCccCccChhHhcCCcC
Confidence            34567899999999998888776688999999999988    45554 3 58899999999999999886654 688999


Q ss_pred             CcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEcc
Q 003328           95 LQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG  171 (829)
Q Consensus        95 Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~  171 (829)
                      |++|++++|.++.+  ..++++++|++|++++|.++.+|.. ++++++|++|++++|. +..++...++.+++|++|+++
T Consensus       111 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~L~  189 (272)
T 3rfs_A          111 LKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQ-LQSLPEGVFDKLTQLKDLRLY  189 (272)
T ss_dssp             CCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECC
T ss_pred             CCEEECCCCcCCccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCC-cCccCHHHhcCCccCCEEECC
Confidence            99999999998877  4578999999999999998888765 5889999999999987 667776656889999999999


Q ss_pred             CCccccccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          172 DSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                      +|.+.        ......+..+++|+.|++++|...
T Consensus       190 ~N~l~--------~~~~~~~~~l~~L~~L~l~~N~~~  218 (272)
T 3rfs_A          190 QNQLK--------SVPDGVFDRLTSLQYIWLHDNPWD  218 (272)
T ss_dssp             SSCCS--------CCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             CCcCC--------ccCHHHHhCCcCCCEEEccCCCcc
Confidence            88765        122234667888999999887643

>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=99.68  E-value=5.2e-16  Score=158.64  Aligned_cols=175  Identities=23%  Similarity=0.333  Sum_probs=148.3

Q ss_pred             CCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch-hhcCCCCCcEE
Q 003328           20 KDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTL   98 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~-~l~~l~~Lr~L   98 (829)
                      ++.++++++++.+..+|..+. +++++|++++|.    +..++...|.++++|++|++++|.++.++. .+..+++|++|
T Consensus        14 ~~~~~l~~~~~~l~~~p~~~~-~~l~~L~L~~n~----l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L   88 (251)
T 3m19_A           14 EGKKEVDCQGKSLDSVPSGIP-ADTEKLDLQSTG----LATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTL   88 (251)
T ss_dssp             GGGTEEECTTCCCSSCCSCCC-TTCCEEECTTSC----CCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCCeEEecCCCCccccCCCCC-CCCCEEEccCCC----cCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEE
Confidence            467889999999999997664 689999999999    666766667999999999999999998654 47899999999


Q ss_pred             EccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcc
Q 003328           99 CLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS  175 (829)
Q Consensus        99 ~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~  175 (829)
                      ++++|.++.+  ..+..+.+|++|++++|.++.+|.. ++++++|++|++++|. +..++.+.++.+++|++|++++|.+
T Consensus        89 ~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N~l  167 (251)
T 3m19_A           89 GLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQ-LQSIPAGAFDKLTNLQTLSLSTNQL  167 (251)
T ss_dssp             ECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             ECCCCcccccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCc-CCccCHHHcCcCcCCCEEECCCCcC
Confidence            9999999877  6789999999999999999988776 6889999999999987 7788875588999999999999977


Q ss_pred             ccccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          176 QWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       176 ~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                      .        ......+..+++|+.|++++|.+.
T Consensus       168 ~--------~~~~~~~~~l~~L~~L~l~~N~~~  192 (251)
T 3m19_A          168 Q--------SVPHGAFDRLGKLQTITLFGNQFD  192 (251)
T ss_dssp             S--------CCCTTTTTTCTTCCEEECCSCCBC
T ss_pred             C--------ccCHHHHhCCCCCCEEEeeCCcee
Confidence            5        222345677889999999988764

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

Probab=99.68  E-value=2.5e-17  Score=174.38  Aligned_cols=194  Identities=15%  Similarity=0.139  Sum_probs=108.0

Q ss_pred             CCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhh------cCCCCccEEEecCCCCC-CCchhh--
Q 003328           20 KDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFF------EGTEELKVLSLIGIHFS-SLPSSL--   89 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~------~~l~~Lr~L~L~~~~i~-~lp~~l--   89 (829)
                      ++++++++++|.+ .+|..+ ..  |++|++++|...  ...+|..++      .++++|++|++++|.++ .+|..+  
T Consensus        43 ~~L~~l~l~~n~l-~~p~~~~~~--L~~L~L~~n~l~--~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~  117 (312)
T 1wwl_A           43 RSLEYLLKRVDTE-ADLGQFTDI--IKSLSLKRLTVR--AARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLE  117 (312)
T ss_dssp             EECTTHHHHCCTT-CCCHHHHHH--HHHCCCCEEEEE--EEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCSSS
T ss_pred             CCceeEeeccccc-ccHHHHHHH--Hhhccccccccc--CCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHHHH
Confidence            4566677777776 566533 21  666666666510  123444321      15666777777776666 356554  


Q ss_pred             cCCCCCcEEEccccCCCCc-ccccCC-----CCCcEEEccCCCCccch-hhhcCCCCCCEEeccCCCCCCc--cChhhh-
Q 003328           90 GRLINLQTLCLDWCQLEDV-AAIGQL-----KKLEILSFRGSDIKQLP-LEIGQLTRLQLLDLSNCSSLVV--IAPNVI-  159 (829)
Q Consensus        90 ~~l~~Lr~L~L~~~~l~~l-~~i~~L-----~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~l~~--lp~~~l-  159 (829)
                      ..+++|++|++++|.++.+ ..++.+     ++|++|++++|.+..+| ..++++++|++|++++|...+.  ++.. + 
T Consensus       118 ~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~-~~  196 (312)
T 1wwl_A          118 ATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISA-LC  196 (312)
T ss_dssp             CCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHH-SC
T ss_pred             hcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEECCCCCcCcchHHHHH-HH
Confidence            6666777777777666654 444444     66777777777666554 5566677777777766653332  1222 3 


Q ss_pred             -cCCCcccEEEccCCccccccccCCCccch-hhhcCCCCCcEEEeecCCCCCcCC---ccccccccEEEEE
Q 003328          160 -SKFSRLEELYMGDSFSQWDKVEGGSNASL-AELKGLSKLTTLEIHVWDAQILPQ---DWVSVELQRYKIC  225 (829)
Q Consensus       160 -~~L~~L~~L~l~~~~~~~~~~~~~~~~~~-~~L~~l~~L~~L~l~~~~~~~~~~---~~~~~~L~~L~l~  225 (829)
                       +++++|++|++++|.+.      ..+... .-+..+++|+.|++++|.+...+.   ...+++|+.|+++
T Consensus       197 ~~~l~~L~~L~L~~N~l~------~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~Ls  261 (312)
T 1wwl_A          197 PLKFPTLQVLALRNAGME------TPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLS  261 (312)
T ss_dssp             TTSCTTCCEEECTTSCCC------CHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCCTTCCEEECT
T ss_pred             hccCCCCCEEECCCCcCc------chHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhhhcCCCCEEECC
Confidence             56667777777666543      001111 122355666777777666655331   1234566666553

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.67  E-value=8.4e-16  Score=160.36  Aligned_cols=183  Identities=19%  Similarity=0.200  Sum_probs=155.3

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCC-cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPE-RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP   86 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp   86 (829)
                      ++..+|. ..++++++|++++|.+..+++ .+ .+++|++|++++|.    +..++..  ..+++|++|++++|.++.+|
T Consensus        21 ~l~~ip~-~~~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~----l~~~~~~--~~l~~L~~L~Ls~N~l~~l~   93 (290)
T 1p9a_G           21 NLTALPP-DLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE----LTKLQVD--GTLPVLGTLDLSHNQLQSLP   93 (290)
T ss_dssp             CCSSCCS-CCCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSC----CCEEECC--SCCTTCCEEECCSSCCSSCC
T ss_pred             CCCcCCC-CCCCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCc----cCcccCC--CCCCcCCEEECCCCcCCcCc
Confidence            3444442 345799999999999997754 33 89999999999999    6667653  78999999999999999999


Q ss_pred             hhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCC
Q 003328           87 SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFS  163 (829)
Q Consensus        87 ~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~  163 (829)
                      ..+..+++|++|++++|+++.+  ..|.++.+|++|++++|.++.+|.. +.++++|++|++++|. +..+|.+.+.+++
T Consensus        94 ~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~l~~~~~~~l~  172 (290)
T 1p9a_G           94 LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNN-LTELPAGLLNGLE  172 (290)
T ss_dssp             CCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC-CSCCCTTTTTTCT
T ss_pred             hhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCCCc-CCccCHHHhcCcC
Confidence            9999999999999999999987  6799999999999999999988766 6899999999999987 8889887678899


Q ss_pred             cccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          164 RLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       164 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                      +|++|++++|.+.         .....+....+|+.+++.+|...
T Consensus       173 ~L~~L~L~~N~l~---------~ip~~~~~~~~L~~l~L~~Np~~  208 (290)
T 1p9a_G          173 NLDTLLLQENSLY---------TIPKGFFGSHLLPFAFLHGNPWL  208 (290)
T ss_dssp             TCCEEECCSSCCC---------CCCTTTTTTCCCSEEECCSCCBC
T ss_pred             CCCEEECCCCcCC---------ccChhhcccccCCeEEeCCCCcc
Confidence            9999999999875         23344556678999999988754

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.66  E-value=5.5e-17  Score=172.15  Aligned_cols=266  Identities=14%  Similarity=0.082  Sum_probs=182.3

Q ss_pred             CCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEccccCCCCcccccCCCCCcEEE
Q 003328           43 NLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILS  121 (829)
Q Consensus        43 ~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~  121 (829)
                      +++..+++.+.    ....+..++..+++|++|++++|.++.++ ..+..+++|++|++++|.+..+..+..+++|++|+
T Consensus        11 ~l~i~~ls~~~----l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~   86 (317)
T 3o53_A           11 RYKIEKVTDSS----LKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLD   86 (317)
T ss_dssp             EEEEESCCTTT----HHHHHHHHHTTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEEETTCTTCCEEE
T ss_pred             ceeEeeccccc----hhhhHHHHhccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchhhhhcCCCCEEE
Confidence            35555666666    56667777788899999999999999865 67999999999999999998875599999999999


Q ss_pred             ccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEE
Q 003328          122 FRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLE  201 (829)
Q Consensus       122 l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~  201 (829)
                      +++|.++.+|.    .++|++|++++|. +..++.   ..+++|++|++++|.+.        ......+..+++|+.|+
T Consensus        87 Ls~n~l~~l~~----~~~L~~L~l~~n~-l~~~~~---~~~~~L~~L~l~~N~l~--------~~~~~~~~~l~~L~~L~  150 (317)
T 3o53_A           87 LNNNYVQELLV----GPSIETLHAANNN-ISRVSC---SRGQGKKNIYLANNKIT--------MLRDLDEGCRSRVQYLD  150 (317)
T ss_dssp             CCSSEEEEEEE----CTTCCEEECCSSC-CSEEEE---CCCSSCEEEECCSSCCC--------SGGGBCTGGGSSEEEEE
T ss_pred             CcCCccccccC----CCCcCEEECCCCc-cCCcCc---cccCCCCEEECCCCCCC--------CccchhhhccCCCCEEE
Confidence            99999988763    4899999999987 666664   45889999999999775        12223455678899999


Q ss_pred             eecCCCCCcCCccccccccEEEEEEccccccCCCCCCCccEEEeccCCccccchhhhhHHHhhhhheeEeeccccCcccc
Q 003328          202 IHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNV  281 (829)
Q Consensus       202 l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~  281 (829)
                      +++|.+..++...-                                             ...+++|++|+++++. ++.+
T Consensus       151 Ls~N~l~~~~~~~~---------------------------------------------~~~l~~L~~L~L~~N~-l~~~  184 (317)
T 3o53_A          151 LKLNEIDTVNFAEL---------------------------------------------AASSDTLEHLNLQYNF-IYDV  184 (317)
T ss_dssp             CTTSCCCEEEGGGG---------------------------------------------GGGTTTCCEEECTTSC-CCEE
T ss_pred             CCCCCCCcccHHHH---------------------------------------------hhccCcCCEEECCCCc-Cccc
Confidence            99988765432210                                             0012445555555543 2222


Q ss_pred             ccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceeccccccchhhhcCCCCCCCCCCCccEEEEecCCC
Q 003328          282 VHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDK  361 (829)
Q Consensus       282 ~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~  361 (829)
                       +.   ...+++|++|+++++. ++.++..     ...+++|+.|+++++. ++.+..    ....+++|+.|++.+++-
T Consensus       185 -~~---~~~l~~L~~L~Ls~N~-l~~l~~~-----~~~l~~L~~L~L~~N~-l~~l~~----~~~~l~~L~~L~l~~N~~  249 (317)
T 3o53_A          185 -KG---QVVFAKLKTLDLSSNK-LAFMGPE-----FQSAAGVTWISLRNNK-LVLIEK----ALRFSQNLEHFDLRGNGF  249 (317)
T ss_dssp             -EC---CCCCTTCCEEECCSSC-CCEECGG-----GGGGTTCSEEECTTSC-CCEECT----TCCCCTTCCEEECTTCCC
T ss_pred             -cc---ccccccCCEEECCCCc-CCcchhh-----hcccCcccEEECcCCc-ccchhh----HhhcCCCCCEEEccCCCc
Confidence             11   2257788888888775 3333211     3346778888887763 333221    134677888888887754


Q ss_pred             CccccchHHHHhhcccceEEEecccCcce
Q 003328          362 LKHLFSFSMAKNLLRLQKVEVFFCDDLEM  390 (829)
Q Consensus       362 L~~l~~~~~~~~l~~L~~L~i~~c~~l~~  390 (829)
                      -... ...+...++.|+.+++.++..++.
T Consensus       250 ~~~~-~~~~~~~~~~L~~l~l~~~~~l~~  277 (317)
T 3o53_A          250 HCGT-LRDFFSKNQRVQTVAKQTVKKLTG  277 (317)
T ss_dssp             BHHH-HHHHHHTCHHHHHHHHHHHHHHHS
T ss_pred             cCcC-HHHHHhccccceEEECCCchhccC
Confidence            3121 124456667777777766655543

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.66  E-value=9.5e-16  Score=158.66  Aligned_cols=163  Identities=21%  Similarity=0.319  Sum_probs=143.7

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS   88 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~   88 (829)
                      ++..++++..+++|++|++++|.+..++....+++|++|++++|.    +..++...|.++++|++|++++|.++.+|..
T Consensus        52 ~i~~~~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n~----l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~  127 (272)
T 3rfs_A           52 DIKSVQGIQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQ----LQSLPNGVFDKLTNLKELVLVENQLQSLPDG  127 (272)
T ss_dssp             CCCCCTTGGGCTTCCEEECTTSCCCCCGGGTTCTTCCEEECTTSC----CCCCCTTTTTTCTTCCEEECTTSCCCCCCTT
T ss_pred             CcccccccccCCCCcEEECCCCCCCCchhhcCCCCCCEEECCCCc----cCccChhHhcCCcCCCEEECCCCcCCccCHH
Confidence            456677778889999999999999988766689999999999998    6778877789999999999999999987765


Q ss_pred             -hcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCc
Q 003328           89 -LGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSR  164 (829)
Q Consensus        89 -l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~  164 (829)
                       +..+++|++|++++|.++.+  ..++++++|++|++++|.++.+|.. ++++++|++|++++|. +..++...++++++
T Consensus       128 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~  206 (272)
T 3rfs_A          128 VFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQ-LKSVPDGVFDRLTS  206 (272)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTT
T ss_pred             HhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCCCc-CCccCHHHHhCCcC
Confidence             78999999999999999987  4579999999999999999988765 6899999999999987 66777665789999


Q ss_pred             ccEEEccCCccc
Q 003328          165 LEELYMGDSFSQ  176 (829)
Q Consensus       165 L~~L~l~~~~~~  176 (829)
                      |++|++++|.+.
T Consensus       207 L~~L~l~~N~~~  218 (272)
T 3rfs_A          207 LQYIWLHDNPWD  218 (272)
T ss_dssp             CCEEECCSSCBC
T ss_pred             CCEEEccCCCcc
Confidence            999999998764

>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=99.64  E-value=4.7e-15  Score=170.09  Aligned_cols=237  Identities=19%  Similarity=0.100  Sum_probs=184.6

Q ss_pred             CCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEE
Q 003328           19 RKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTL   98 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L   98 (829)
                      ++++++|++++|.+..+|.  .+++|++|++++|.    +..+|.    .+++|++|++++|.++.+|.   .+.+|++|
T Consensus        60 ~~~L~~L~L~~N~l~~lp~--~l~~L~~L~Ls~N~----l~~lp~----~l~~L~~L~Ls~N~l~~l~~---~l~~L~~L  126 (622)
T 3g06_A           60 PAHITTLVIPDNNLTSLPA--LPPELRTLEVSGNQ----LTSLPV----LPPGLLELSIFSNPLTHLPA---LPSGLCKL  126 (622)
T ss_dssp             CTTCSEEEECSCCCSCCCC--CCTTCCEEEECSCC----CSCCCC----CCTTCCEEEECSCCCCCCCC---CCTTCCEE
T ss_pred             CCCCcEEEecCCCCCCCCC--cCCCCCEEEcCCCc----CCcCCC----CCCCCCEEECcCCcCCCCCC---CCCCcCEE
Confidence            4799999999999999988  67899999999999    667875    68999999999999999987   67899999


Q ss_pred             EccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccc
Q 003328           99 CLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD  178 (829)
Q Consensus        99 ~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~  178 (829)
                      ++++|.++.+..  .+++|++|++++|.++.+|.   .+.+|+.|++++|. +..+|    ..+++|++|++++|.+.  
T Consensus       127 ~L~~N~l~~lp~--~l~~L~~L~Ls~N~l~~l~~---~~~~L~~L~L~~N~-l~~l~----~~~~~L~~L~Ls~N~l~--  194 (622)
T 3g06_A          127 WIFGNQLTSLPV--LPPGLQELSVSDNQLASLPA---LPSELCKLWAYNNQ-LTSLP----MLPSGLQELSVSDNQLA--  194 (622)
T ss_dssp             ECCSSCCSCCCC--CCTTCCEEECCSSCCSCCCC---CCTTCCEEECCSSC-CSCCC----CCCTTCCEEECCSSCCS--
T ss_pred             ECCCCCCCcCCC--CCCCCCEEECcCCcCCCcCC---ccCCCCEEECCCCC-CCCCc----ccCCCCcEEECCCCCCC--
Confidence            999999988832  24899999999999999885   35789999999987 77787    34789999999998765  


Q ss_pred             cccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEccccccCCCCCCCccEEEeccCCccccchhhh
Q 003328          179 KVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENY  258 (829)
Q Consensus       179 ~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~l~~~  258 (829)
                          ..+.      ..++|+.|+++.|.+..++..  +++|+.|+++.+....                       ++  
T Consensus       195 ----~l~~------~~~~L~~L~L~~N~l~~l~~~--~~~L~~L~Ls~N~L~~-----------------------lp--  237 (622)
T 3g06_A          195 ----SLPT------LPSELYKLWAYNNRLTSLPAL--PSGLKELIVSGNRLTS-----------------------LP--  237 (622)
T ss_dssp             ----CCCC------CCTTCCEEECCSSCCSSCCCC--CTTCCEEECCSSCCSC-----------------------CC--
T ss_pred             ----CCCC------ccchhhEEECcCCcccccCCC--CCCCCEEEccCCccCc-----------------------CC--
Confidence                1111      246899999999998888764  4789988876443211                       11  


Q ss_pred             hHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceecccccc
Q 003328          259 GMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSN  333 (829)
Q Consensus       259 ~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~  333 (829)
                         ..+++|+.|+++++. ++    .++ . .+++|+.|+++++. ++.++.     ....+++|+.|++.+++-
T Consensus       238 ---~~l~~L~~L~Ls~N~-L~----~lp-~-~~~~L~~L~Ls~N~-L~~lp~-----~l~~l~~L~~L~L~~N~l  296 (622)
T 3g06_A          238 ---VLPSELKELMVSGNR-LT----SLP-M-LPSGLLSLSVYRNQ-LTRLPE-----SLIHLSSETTVNLEGNPL  296 (622)
T ss_dssp             ---CCCTTCCEEECCSSC-CS----CCC-C-CCTTCCEEECCSSC-CCSCCG-----GGGGSCTTCEEECCSCCC
T ss_pred             ---CCCCcCcEEECCCCC-CC----cCC-c-ccccCcEEeCCCCC-CCcCCH-----HHhhccccCEEEecCCCC
Confidence               124788899988863 33    233 1 56889999999885 444421     145688999999988764

>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=99.64  E-value=3.3e-15  Score=152.60  Aligned_cols=161  Identities=22%  Similarity=0.311  Sum_probs=139.4

Q ss_pred             cCCccccCCCCCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch
Q 003328           10 VEKKMEETIRKDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS   87 (829)
Q Consensus        10 ~~~~~~~~~~~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~   87 (829)
                      +..+|. ..++++++|++++|.+..++.. + .+++|++|++++|.    +..++...|.++++|++|++++|.++.+|.
T Consensus        26 l~~~p~-~~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~----l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~  100 (251)
T 3m19_A           26 LDSVPS-GIPADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQ----LQTLSAGVFDDLTELGTLGLANNQLASLPL  100 (251)
T ss_dssp             CSSCCS-CCCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC----CCCCCTTTTTTCTTCCEEECTTSCCCCCCT
T ss_pred             ccccCC-CCCCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCc----CCccCHhHhccCCcCCEEECCCCcccccCh
Confidence            344442 3457999999999999988763 3 89999999999998    667777767999999999999999998774


Q ss_pred             -hhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCCCCCccChhhhcCCC
Q 003328           88 -SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFS  163 (829)
Q Consensus        88 -~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~  163 (829)
                       .+..+++|++|++++|.++.+  ..+.++.+|++|++++|.++.+|. .++++++|++|++++|. +..++...+..++
T Consensus       101 ~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~  179 (251)
T 3m19_A          101 GVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQ-LQSVPHGAFDRLG  179 (251)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCT
T ss_pred             hHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCc-CCccCHHHHhCCC
Confidence             568999999999999999988  457999999999999999999887 58999999999999987 7777775588999


Q ss_pred             cccEEEccCCccc
Q 003328          164 RLEELYMGDSFSQ  176 (829)
Q Consensus       164 ~L~~L~l~~~~~~  176 (829)
                      +|++|++++|.+.
T Consensus       180 ~L~~L~l~~N~~~  192 (251)
T 3m19_A          180 KLQTITLFGNQFD  192 (251)
T ss_dssp             TCCEEECCSCCBC
T ss_pred             CCCEEEeeCCcee
Confidence            9999999999775

>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=99.64  E-value=2.3e-15  Score=157.17  Aligned_cols=187  Identities=21%  Similarity=0.266  Sum_probs=159.2

Q ss_pred             CcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEcc
Q 003328           22 PIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLD  101 (829)
Q Consensus        22 l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~  101 (829)
                      +..+.+....+..+.....+++|++|++++|.    +..++.  +..+++|++|++++|.++.++. +..+++|++|+++
T Consensus        26 ~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~~~----i~~~~~--~~~l~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~   98 (291)
T 1h6t_A           26 TIKDNLKKKSVTDAVTQNELNSIDQIIANNSD----IKSVQG--IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLD   98 (291)
T ss_dssp             HHHHHTTCSCTTSEECHHHHHTCCEEECTTSC----CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECC
T ss_pred             HHHHHhcCCCcccccchhhcCcccEEEccCCC----cccChh--HhcCCCCCEEEccCCccCCCcc-cccCCCCCEEECC
Confidence            44445666666665554578899999999998    667764  5899999999999999999887 9999999999999


Q ss_pred             ccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcccccccc
Q 003328          102 WCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVE  181 (829)
Q Consensus       102 ~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~  181 (829)
                      +|.++.+..++++++|++|++++|.++.++ .++++++|++|++++|. +..++.  ++.+++|++|++++|.+.     
T Consensus        99 ~n~l~~~~~l~~l~~L~~L~L~~n~i~~~~-~l~~l~~L~~L~l~~n~-l~~~~~--l~~l~~L~~L~L~~N~l~-----  169 (291)
T 1h6t_A           99 ENKVKDLSSLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGNNK-ITDITV--LSRLTKLDTLSLEDNQIS-----  169 (291)
T ss_dssp             SSCCCCGGGGTTCTTCCEEECTTSCCCCCG-GGGGCTTCCEEECCSSC-CCCCGG--GGGCTTCSEEECCSSCCC-----
T ss_pred             CCcCCCChhhccCCCCCEEECCCCcCCCCh-hhcCCCCCCEEEccCCc-CCcchh--hccCCCCCEEEccCCccc-----
Confidence            999999977999999999999999999885 68999999999999987 677743  899999999999999775     


Q ss_pred             CCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEccc
Q 003328          182 GGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEA  229 (829)
Q Consensus       182 ~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~  229 (829)
                           .+..+..+++|+.|+++.|.+..++....+++|+.|+++++..
T Consensus       170 -----~~~~l~~l~~L~~L~L~~N~i~~l~~l~~l~~L~~L~l~~n~i  212 (291)
T 1h6t_A          170 -----DIVPLAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQEC  212 (291)
T ss_dssp             -----CCGGGTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEEEEEEEE
T ss_pred             -----cchhhcCCCccCEEECCCCcCCCChhhccCCCCCEEECcCCcc
Confidence                 1222788999999999999998887766889999999976543

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.63  E-value=1.1e-15  Score=171.84  Aligned_cols=170  Identities=19%  Similarity=0.188  Sum_probs=97.8

Q ss_pred             CCCcEEEcCCCCCCCCCC-cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcE
Q 003328           20 KDPIAISLPQRDIQELPE-RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQT   97 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~   97 (829)
                      ++|++|++++|.+..+++ .+ .+++|++|++++|.    +...++  |..+++|++|++++|.++.+|.    .++|++
T Consensus        34 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~----l~~~~~--l~~l~~L~~L~Ls~N~l~~l~~----~~~L~~  103 (487)
T 3oja_A           34 WNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNV----LYETLD--LESLSTLRTLDLNNNYVQELLV----GPSIET  103 (487)
T ss_dssp             GGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSC----CEEEEE--CTTCTTCCEEECCSSEEEEEEE----CTTCCE
T ss_pred             CCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCC----CCCCcc--cccCCCCCEEEecCCcCCCCCC----CCCcCE
Confidence            366667776666666553 22 66666666666666    333333  4666666666666666655443    256666


Q ss_pred             EEccccCCCCcccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCCCCCccChhhhc-CCCcccEEEccCCcc
Q 003328           98 LCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVIAPNVIS-KFSRLEELYMGDSFS  175 (829)
Q Consensus        98 L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~l~~lp~~~l~-~L~~L~~L~l~~~~~  175 (829)
                      |++++|.+..+.. ..+++|++|++++|.++.+ |..++++++|++|++++|...+..|.. +. .+++|++|++++|.+
T Consensus       104 L~L~~N~l~~~~~-~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~-l~~~l~~L~~L~Ls~N~l  181 (487)
T 3oja_A          104 LHAANNNISRVSC-SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAE-LAASSDTLEHLNLQYNFI  181 (487)
T ss_dssp             EECCSSCCCCEEE-CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGG-GGGGTTTCCEEECTTSCC
T ss_pred             EECcCCcCCCCCc-cccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHH-HhhhCCcccEEecCCCcc
Confidence            6666666665511 2345666666666666655 335666666666666666532223333 33 566666666666655


Q ss_pred             ccccccCCCccchhhhcCCCCCcEEEeecCCCCCcC
Q 003328          176 QWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILP  211 (829)
Q Consensus       176 ~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~  211 (829)
                      .          .+.....+++|+.|++++|.+..++
T Consensus       182 ~----------~~~~~~~l~~L~~L~Ls~N~l~~~~  207 (487)
T 3oja_A          182 Y----------DVKGQVVFAKLKTLDLSSNKLAFMG  207 (487)
T ss_dssp             C----------EEECCCCCTTCCEEECCSSCCCEEC
T ss_pred             c----------cccccccCCCCCEEECCCCCCCCCC
Confidence            3          1122234556666666666655443

>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=99.61  E-value=2.5e-15  Score=172.16  Aligned_cols=174  Identities=24%  Similarity=0.335  Sum_probs=148.2

Q ss_pred             CCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCc
Q 003328           17 TIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQ   96 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr   96 (829)
                      ..+++|+.|+++++.+..++....+++|++|++++|.    +..++.  +..+++|++|+|++|.+..+| .+..+++|+
T Consensus        40 ~~L~~L~~L~l~~n~i~~l~~l~~l~~L~~L~Ls~N~----l~~~~~--l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~  112 (605)
T 1m9s_A           40 NELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNK----LTDIKP--LTNLKNLGWLFLDENKIKDLS-SLKDLKKLK  112 (605)
T ss_dssp             HHHTTCCCCBCTTCCCCCCTTGGGCTTCCEEECTTSC----CCCCGG--GGGCTTCCEEECCSSCCCCCT-TSTTCTTCC
T ss_pred             hcCCCCCEEECcCCCCCCChHHccCCCCCEEEeeCCC----CCCChh--hccCCCCCEEECcCCCCCCCh-hhccCCCCC
Confidence            4567899999999999988876689999999999998    566665  589999999999999998876 688999999


Q ss_pred             EEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328           97 TLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus        97 ~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +|+|++|.+..+..+..+++|++|++++|.++.+ ..++++++|++|++++|. +..+++  +..+++|++|++++|.+.
T Consensus       113 ~L~Ls~N~l~~l~~l~~l~~L~~L~Ls~N~l~~l-~~l~~l~~L~~L~Ls~N~-l~~~~~--l~~l~~L~~L~Ls~N~i~  188 (605)
T 1m9s_A          113 SLSLEHNGISDINGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQ-ISDIVP--LAGLTKLQNLYLSKNHIS  188 (605)
T ss_dssp             EEECTTSCCCCCGGGGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCC
T ss_pred             EEEecCCCCCCCccccCCCccCEEECCCCccCCc-hhhcccCCCCEEECcCCc-CCCchh--hccCCCCCEEECcCCCCC
Confidence            9999999998888899999999999999999888 578899999999999987 666655  789999999999998765


Q ss_pred             cccccCCCccchhhhcCCCCCcEEEeecCCCCCcC
Q 003328          177 WDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILP  211 (829)
Q Consensus       177 ~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~  211 (829)
                                .+..+..+++|+.|+++.|.+...|
T Consensus       189 ----------~l~~l~~l~~L~~L~L~~N~l~~~p  213 (605)
T 1m9s_A          189 ----------DLRALAGLKNLDVLELFSQECLNKP  213 (605)
T ss_dssp             ----------BCGGGTTCTTCSEEECCSEEEECCC
T ss_pred             ----------CChHHccCCCCCEEEccCCcCcCCc
Confidence                      2356788899999999988765443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.61  E-value=1.1e-15  Score=161.56  Aligned_cols=184  Identities=13%  Similarity=0.075  Sum_probs=99.0

Q ss_pred             CCcEEEcCCCCCCC-----CCCccCCCCCcEEEeecCCCcccccccchhhh-cCCCCccEEEecCCCCCC-Cc----hhh
Q 003328           21 DPIAISLPQRDIQE-----LPERLQCPNLQLFLLITKGIAPVSMQISDLFF-EGTEELKVLSLIGIHFSS-LP----SSL   89 (829)
Q Consensus        21 ~l~~L~l~~~~~~~-----l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~-~~l~~Lr~L~L~~~~i~~-lp----~~l   89 (829)
                      .++.+.+.++.+..     +.....+++|++|++++|.   .....|..++ .++++|++|++++|.++. .|    ..+
T Consensus        65 ~l~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~---l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~  141 (310)
T 4glp_A           65 RVRRLTVGAAQVPAQLLVGALRVLAYSRLKELTLEDLK---ITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQ  141 (310)
T ss_dssp             CCCEEEECSCCCBHHHHHHHHHHHHHSCCCEEEEESCC---CBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHT
T ss_pred             ceeEEEEeCCcCCHHHHHHHHHhcccCceeEEEeeCCE---eccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHh
Confidence            45566665555431     1112234556666666666   2334444322 566666666666666654 22    223


Q ss_pred             cCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCcc---chhh--hcCCCCCCEEeccCCCCCCccChh---hh
Q 003328           90 GRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQ---LPLE--IGQLTRLQLLDLSNCSSLVVIAPN---VI  159 (829)
Q Consensus        90 ~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~---lp~~--i~~L~~L~~L~l~~~~~l~~lp~~---~l  159 (829)
                      ..+++|++|++++|.+..+  ..++++++|++|++++|.+..   ++..  ++++++|++|++++|. +..++..   .+
T Consensus       142 ~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~~~~~l~  220 (310)
T 4glp_A          142 WLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTG-METPTGVCAALA  220 (310)
T ss_dssp             TBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSC-CCCHHHHHHHHH
T ss_pred             hhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCC-CCchHHHHHHHH
Confidence            4566666666666666544  456666666666666666542   3222  2566666666666665 4433331   23


Q ss_pred             cCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCc
Q 003328          160 SKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQD  213 (829)
Q Consensus       160 ~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~  213 (829)
                      +.+++|++|++++|.+.     +..+..+..+..+++|++|++++|.+..+|..
T Consensus       221 ~~l~~L~~L~Ls~N~l~-----~~~p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~  269 (310)
T 4glp_A          221 AAGVQPHSLDLSHNSLR-----ATVNPSAPRCMWSSALNSLNLSFAGLEQVPKG  269 (310)
T ss_dssp             HHTCCCSSEECTTSCCC-----CCCCSCCSSCCCCTTCCCEECCSSCCCSCCSC
T ss_pred             hcCCCCCEEECCCCCCC-----ccchhhHHhccCcCcCCEEECCCCCCCchhhh
Confidence            55666666666666554     11122223333335666666666666655544

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.60  E-value=2.3e-15  Score=169.20  Aligned_cols=164  Identities=18%  Similarity=0.091  Sum_probs=114.3

Q ss_pred             CCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCcccccCCCCCcEE
Q 003328           41 CPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEIL  120 (829)
Q Consensus        41 ~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L  120 (829)
                      +++|++|++++|.    +..++...|.++++|++|++++|.++..++ ++.+++|++|++++|.++.+.   ..++|++|
T Consensus        33 ~~~L~~L~Ls~n~----l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~l~~l~---~~~~L~~L  104 (487)
T 3oja_A           33 AWNVKELDLSGNP----LSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNNYVQELL---VGPSIETL  104 (487)
T ss_dssp             GGGCCEEECCSSC----CCCCCGGGGTTCTTCCEEECTTSCCEEEEE-CTTCTTCCEEECCSSEEEEEE---ECTTCCEE
T ss_pred             CCCccEEEeeCCc----CCCCCHHHHhCCCCCCEEEeeCCCCCCCcc-cccCCCCCEEEecCCcCCCCC---CCCCcCEE
Confidence            4478888888887    555655556888888888888888876554 788888888888888776652   23788888


Q ss_pred             EccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhc-CCCCCcE
Q 003328          121 SFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELK-GLSKLTT  199 (829)
Q Consensus       121 ~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~-~l~~L~~  199 (829)
                      ++++|.++.+|..  .+++|++|++++|. +..+++..++.+++|++|++++|.+.        ...+..+. .+++|+.
T Consensus       105 ~L~~N~l~~~~~~--~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~Ls~N~l~--------~~~~~~l~~~l~~L~~  173 (487)
T 3oja_A          105 HAANNNISRVSCS--RGQGKKNIYLANNK-ITMLRDLDEGCRSRVQYLDLKLNEID--------TVNFAELAASSDTLEH  173 (487)
T ss_dssp             ECCSSCCCCEEEC--CCSSCEEEECCSSC-CCSGGGBCGGGGSSEEEEECTTSCCC--------EEEGGGGGGGTTTCCE
T ss_pred             ECcCCcCCCCCcc--ccCCCCEEECCCCC-CCCCCchhhcCCCCCCEEECCCCCCC--------CcChHHHhhhCCcccE
Confidence            8888888877653  56788888888877 55543333777888888888888665        22333443 5678888


Q ss_pred             EEeecCCCCCcCCccccccccEEE
Q 003328          200 LEIHVWDAQILPQDWVSVELQRYK  223 (829)
Q Consensus       200 L~l~~~~~~~~~~~~~~~~L~~L~  223 (829)
                      |++++|.+..++....+++|+.|+
T Consensus       174 L~Ls~N~l~~~~~~~~l~~L~~L~  197 (487)
T 3oja_A          174 LNLQYNFIYDVKGQVVFAKLKTLD  197 (487)
T ss_dssp             EECTTSCCCEEECCCCCTTCCEEE
T ss_pred             EecCCCccccccccccCCCCCEEE
Confidence            888887766554433344444443

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.60  E-value=3.5e-15  Score=151.30  Aligned_cols=174  Identities=14%  Similarity=0.100  Sum_probs=148.1

Q ss_pred             cCCCCCCcEEEcCCCC-CCCCCCc-c-CCCCCcEEEeec-CCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcC
Q 003328           16 ETIRKDPIAISLPQRD-IQELPER-L-QCPNLQLFLLIT-KGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGR   91 (829)
Q Consensus        16 ~~~~~~l~~L~l~~~~-~~~l~~~-~-~~~~Lr~L~l~~-~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~   91 (829)
                      +..+++|++|++++|. +..++.. + .+++|++|++++ |.    +..++...|.++++|++|++++|.++.+|. +..
T Consensus        51 ~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~----l~~i~~~~f~~l~~L~~L~l~~n~l~~lp~-~~~  125 (239)
T 2xwt_C           51 FSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRN----LTYIDPDALKELPLLKFLGIFNTGLKMFPD-LTK  125 (239)
T ss_dssp             TTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETT----CCEECTTSEECCTTCCEEEEEEECCCSCCC-CTT
T ss_pred             ccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCC----eeEcCHHHhCCCCCCCEEeCCCCCCccccc-ccc
Confidence            4567899999999997 9988863 3 899999999998 77    778887778999999999999999999987 888


Q ss_pred             CCCCc---EEEcccc-CCCCc--ccccCCCCCc-EEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCC-C
Q 003328           92 LINLQ---TLCLDWC-QLEDV--AAIGQLKKLE-ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKF-S  163 (829)
Q Consensus        92 l~~Lr---~L~L~~~-~l~~l--~~i~~L~~L~-~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L-~  163 (829)
                      +.+|+   +|++++| .++.+  ..+.++.+|+ +|++++|.++.+|..+...++|++|++++|..+..++...+..+ +
T Consensus       126 l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i~~~~~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~  205 (239)
T 2xwt_C          126 VYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYS  205 (239)
T ss_dssp             CCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEECTTTTTTCEEEEEECTTCTTCCEECTTTTTTCSB
T ss_pred             ccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCcccCHhhcCCCCCCEEEcCCCCCcccCCHHHhhcccc
Confidence            88888   9999999 89988  5699999999 99999999999998766669999999999865888877668889 9


Q ss_pred             cccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecC
Q 003328          164 RLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVW  205 (829)
Q Consensus       164 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~  205 (829)
                      +|++|+++++.+.      ..+   ..  .+++|+.|++..+
T Consensus       206 ~L~~L~l~~N~l~------~l~---~~--~~~~L~~L~l~~~  236 (239)
T 2xwt_C          206 GPSLLDVSQTSVT------ALP---SK--GLEHLKELIARNT  236 (239)
T ss_dssp             CCSEEECTTCCCC------CCC---CT--TCTTCSEEECTTC
T ss_pred             CCcEEECCCCccc------cCC---hh--HhccCceeeccCc
Confidence            9999999998765      111   11  5668888888754

>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=99.60  E-value=4.2e-15  Score=145.63  Aligned_cols=150  Identities=19%  Similarity=0.246  Sum_probs=94.5

Q ss_pred             CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCC--cccccCCCCC
Q 003328           40 QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLED--VAAIGQLKKL  117 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~--l~~i~~L~~L  117 (829)
                      .+++|++|++++|.    +..+| . +..+++|++|++++|.++.++ .+..+++|++|++++|.+..  +..++++++|
T Consensus        42 ~l~~L~~L~l~~n~----i~~l~-~-l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L  114 (197)
T 4ezg_A           42 QMNSLTYITLANIN----VTDLT-G-IEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSL  114 (197)
T ss_dssp             HHHTCCEEEEESSC----CSCCT-T-GGGCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTC
T ss_pred             hcCCccEEeccCCC----ccChH-H-HhcCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeECCccCcccChhhcCCCCC
Confidence            45666777777666    44555 2 466677777777776665554 56667777777777776664  2666677777


Q ss_pred             cEEEccCCCCcc-chhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCC
Q 003328          118 EILSFRGSDIKQ-LPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSK  196 (829)
Q Consensus       118 ~~L~l~~~~l~~-lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~  196 (829)
                      ++|++++|.++. .|..++++++|++|++++|..++.+|.  ++.+++|++|++++|.+.          .+..+..+++
T Consensus       115 ~~L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~~--l~~l~~L~~L~l~~n~i~----------~~~~l~~l~~  182 (197)
T 4ezg_A          115 TLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMP--LKTLPELKSLNIQFDGVH----------DYRGIEDFPK  182 (197)
T ss_dssp             CEEECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCGG--GGGCSSCCEEECTTBCCC----------CCTTGGGCSS
T ss_pred             CEEEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccHh--hcCCCCCCEEECCCCCCc----------ChHHhccCCC
Confidence            777777776663 556667777777777777654556653  667777777777766554          1224555666


Q ss_pred             CcEEEeecCCCC
Q 003328          197 LTTLEIHVWDAQ  208 (829)
Q Consensus       197 L~~L~l~~~~~~  208 (829)
                      |+.|++++|.+.
T Consensus       183 L~~L~l~~N~i~  194 (197)
T 4ezg_A          183 LNQLYAFSQTIG  194 (197)
T ss_dssp             CCEEEECBC---
T ss_pred             CCEEEeeCcccC
Confidence            777777766553

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

Probab=99.60  E-value=3.9e-15  Score=157.44  Aligned_cols=174  Identities=15%  Similarity=0.185  Sum_probs=90.9

Q ss_pred             CCCCcEEEeecCCCcccccccchhhh-cCCCCccEEEecCCCCCCCchhhcCC-----CCCcEEEccccCCCCc--cccc
Q 003328           41 CPNLQLFLLITKGIAPVSMQISDLFF-EGTEELKVLSLIGIHFSSLPSSLGRL-----INLQTLCLDWCQLEDV--AAIG  112 (829)
Q Consensus        41 ~~~Lr~L~l~~~~~~~~~~~lp~~~~-~~l~~Lr~L~L~~~~i~~lp~~l~~l-----~~Lr~L~L~~~~l~~l--~~i~  112 (829)
                      +++|++|++++|.   ....+|..+| ..+++|++|++++|.++.+|..++.+     ++|++|++++|.+..+  ..++
T Consensus        94 l~~L~~L~L~~n~---l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~  170 (312)
T 1wwl_A           94 ISGLQELTLENLE---VTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVR  170 (312)
T ss_dssp             TSCCCEEEEEEEB---CBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCC
T ss_pred             cCCccEEEccCCc---ccchhHHHHHHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhc
Confidence            5566666666665   2234444432 55666666666666665555555444     5666666666665544  4555


Q ss_pred             CCCCCcEEEccCCCCcc---chhhh--cCCCCCCEEeccCCCCCC---ccChhhhcCCCcccEEEccCCccccccccCCC
Q 003328          113 QLKKLEILSFRGSDIKQ---LPLEI--GQLTRLQLLDLSNCSSLV---VIAPNVISKFSRLEELYMGDSFSQWDKVEGGS  184 (829)
Q Consensus       113 ~L~~L~~L~l~~~~l~~---lp~~i--~~L~~L~~L~l~~~~~l~---~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~  184 (829)
                      ++++|++|++++|.+..   +|..+  +++++|++|++++|. +.   .++...+..+++|++|++++|.+.     +..
T Consensus       171 ~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~-----~~~  244 (312)
T 1wwl_A          171 VFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAG-METPSGVCSALAAARVQLQGLDLSHNSLR-----DAA  244 (312)
T ss_dssp             CCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSC-CCCHHHHHHHHHHTTCCCSEEECTTSCCC-----SSC
T ss_pred             cCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCc-CcchHHHHHHHHhcCCCCCEEECCCCcCC-----ccc
Confidence            66666666666665432   23343  556666666666654 33   222222345556666666655543     100


Q ss_pred             ccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEE
Q 003328          185 NASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICI  226 (829)
Q Consensus       185 ~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~  226 (829)
                        ....+..+++|+.|++++|.+..+|..+. ++|+.|+++.
T Consensus       245 --~~~~~~~l~~L~~L~Ls~N~l~~ip~~~~-~~L~~L~Ls~  283 (312)
T 1wwl_A          245 --GAPSCDWPSQLNSLNLSFTGLKQVPKGLP-AKLSVLDLSY  283 (312)
T ss_dssp             --CCSCCCCCTTCCEEECTTSCCSSCCSSCC-SEEEEEECCS
T ss_pred             --chhhhhhcCCCCEEECCCCccChhhhhcc-CCceEEECCC
Confidence              11223344556666666666555555444 5555555543

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.60  E-value=9.4e-15  Score=146.76  Aligned_cols=150  Identities=23%  Similarity=0.277  Sum_probs=130.8

Q ss_pred             CCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh-hcCCCCCcEEE
Q 003328           21 DPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS-LGRLINLQTLC   99 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~-l~~l~~Lr~L~   99 (829)
                      .-+.++.+++.+..+|..+. ++|++|++++|.    +..++...|.++++|++|++++|.++.+|.. +..+++|++|+
T Consensus        20 s~~~v~c~~~~l~~ip~~~~-~~L~~L~Ls~n~----i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~   94 (229)
T 3e6j_A           20 SGTTVDCRSKRHASVPAGIP-TNAQILYLHDNQ----ITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLD   94 (229)
T ss_dssp             ETTEEECTTSCCSSCCSCCC-TTCSEEECCSSC----CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             eCCEeEccCCCcCccCCCCC-CCCCEEEcCCCc----cCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEE
Confidence            35679999999999997654 789999999999    5666555679999999999999999988755 58999999999


Q ss_pred             ccccCCCCc--ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328          100 LDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       100 L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      |++|.++.+  ..+..+.+|++|++++|.++.+|..++++++|++|++++|. +..++...+..+++|++|++++|.+.
T Consensus        95 Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~~  172 (229)
T 3e6j_A           95 LGTNQLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQ-LKSIPHGAFDRLSSLTHAYLFGNPWD  172 (229)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECTTSCBC
T ss_pred             CCCCcCCccChhHhCcchhhCeEeccCCcccccCcccccCCCCCEEECCCCc-CCccCHHHHhCCCCCCEEEeeCCCcc
Confidence            999999988  45789999999999999999999999999999999999986 77887665888999999999988765

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.59  E-value=8.4e-16  Score=157.87  Aligned_cols=171  Identities=18%  Similarity=0.198  Sum_probs=133.5

Q ss_pred             CCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcE
Q 003328           18 IRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQT   97 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~   97 (829)
                      .+.++..+++.++.+.+++....+++|++|++++|.    +..++ . +..+++|++|++++|.++.+|. +..+++|++
T Consensus        17 ~l~~l~~l~l~~~~i~~~~~~~~l~~L~~L~l~~n~----i~~l~-~-l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~   89 (263)
T 1xeu_A           17 GLANAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSN----IQSLA-G-MQFFTNLKELHLSHNQISDLSP-LKDLTKLEE   89 (263)
T ss_dssp             HHHHHHHHHHTCSCTTSEECHHHHTTCSEEECTTSC----CCCCT-T-GGGCTTCCEEECCSSCCCCCGG-GTTCSSCCE
T ss_pred             HHHHHHHHHhcCCCcccccchhhcCcCcEEECcCCC----cccch-H-HhhCCCCCEEECCCCccCCChh-hccCCCCCE
Confidence            344567777888888877754478888888888887    56666 3 5788888999998888888877 888888899


Q ss_pred             EEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcccc
Q 003328           98 LCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQW  177 (829)
Q Consensus        98 L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~  177 (829)
                      |++++|+++.+..+.. .+|++|++++|.++.+| .++++++|++|++++|. +..++.  ++.+++|++|++++|.+. 
T Consensus        90 L~L~~N~l~~l~~~~~-~~L~~L~L~~N~l~~~~-~l~~l~~L~~L~Ls~N~-i~~~~~--l~~l~~L~~L~L~~N~i~-  163 (263)
T 1xeu_A           90 LSVNRNRLKNLNGIPS-ACLSRLFLDNNELRDTD-SLIHLKNLEILSIRNNK-LKSIVM--LGFLSKLEVLDLHGNEIT-  163 (263)
T ss_dssp             EECCSSCCSCCTTCCC-SSCCEEECCSSCCSBSG-GGTTCTTCCEEECTTSC-CCBCGG--GGGCTTCCEEECTTSCCC-
T ss_pred             EECCCCccCCcCcccc-CcccEEEccCCccCCCh-hhcCcccccEEECCCCc-CCCChH--HccCCCCCEEECCCCcCc-
Confidence            9998888887744444 88889999888888876 58888889999988877 677763  788888999988888765 


Q ss_pred             ccccCCCccchhhhcCCCCCcEEEeecCCCCCc
Q 003328          178 DKVEGGSNASLAELKGLSKLTTLEIHVWDAQIL  210 (829)
Q Consensus       178 ~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~  210 (829)
                               .+..+..+++|+.|++++|.+...
T Consensus       164 ---------~~~~l~~l~~L~~L~l~~N~~~~~  187 (263)
T 1xeu_A          164 ---------NTGGLTRLKKVNWIDLTGQKCVNE  187 (263)
T ss_dssp             ---------BCTTSTTCCCCCEEEEEEEEEECC
T ss_pred             ---------chHHhccCCCCCEEeCCCCcccCC
Confidence                     115567788888888888766543

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.59  E-value=1.1e-14  Score=145.14  Aligned_cols=148  Identities=20%  Similarity=0.251  Sum_probs=125.8

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEcc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLD  101 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L~  101 (829)
                      +.++.++++++++|..+. +++++|++++|.    +..++...|.++++|++|++++|.++.+ |..+..+++|++|+|+
T Consensus        14 ~~v~c~~~~l~~iP~~l~-~~l~~L~l~~n~----i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls   88 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTNLP-ETITEIRLEQNT----IKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLY   88 (220)
T ss_dssp             TEEECTTSCCSSCCSSCC-TTCCEEECCSSC----CCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECC
T ss_pred             CEEEcCCCCcCcCCCccC-cCCCEEECCCCc----CCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECC
Confidence            678889999999987653 689999999998    6777776678999999999999999875 7788999999999999


Q ss_pred             ccCCCCc--ccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328          102 WCQLEDV--AAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       102 ~~~l~~l--~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +|.++.+  ..+.++.+|++|++++|.++.+ |..+.++++|++|++++|. +..++.+.+..+++|++|++++|.+.
T Consensus        89 ~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~~~  165 (220)
T 2v9t_B           89 GNKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNK-LQTIAKGTFSPLRAIQTMHLAQNPFI  165 (220)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             CCcCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCc-CCEECHHHHhCCCCCCEEEeCCCCcC
Confidence            9999887  4578899999999999999877 5568899999999999987 77777655788889999999888764

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.58  E-value=1.1e-14  Score=144.09  Aligned_cols=164  Identities=20%  Similarity=0.270  Sum_probs=129.7

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh-hcCCCCCcEEEcc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS-LGRLINLQTLCLD  101 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~-l~~l~~Lr~L~L~  101 (829)
                      +.++.+++.+..+|... .++|++|++++|.    +..++..+|.++++|++|++++|.++.+|.. +..+++|++|+++
T Consensus        10 ~~v~c~~~~l~~~p~~~-~~~l~~L~l~~n~----l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls   84 (208)
T 2o6s_A           10 TTVECYSQGRTSVPTGI-PAQTTYLDLETNS----LKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLS   84 (208)
T ss_dssp             TEEECCSSCCSSCCSCC-CTTCSEEECCSSC----CCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CEEEecCCCccCCCCCC-CCCCcEEEcCCCc----cCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECC
Confidence            46777888888887654 4588999999988    5677777778899999999999988887765 5788999999999


Q ss_pred             ccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccc
Q 003328          102 WCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD  178 (829)
Q Consensus       102 ~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~  178 (829)
                      +|.++.+  ..++++++|++|++++|.++.+|.. ++++++|++|++++|. +..++...+.++++|++|++++|.+.  
T Consensus        85 ~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~~--  161 (208)
T 2o6s_A           85 TNQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQ-LKSVPDGVFDRLTSLQYIWLHDNPWD--  161 (208)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSCCBC--
T ss_pred             CCcCCccCHhHhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCc-cceeCHHHhccCCCccEEEecCCCee--
Confidence            9988877  4578899999999999988888765 6889999999999876 66777665788899999999888654  


Q ss_pred             cccCCCccchhhhcCCCCCcEEEeecCCC
Q 003328          179 KVEGGSNASLAELKGLSKLTTLEIHVWDA  207 (829)
Q Consensus       179 ~~~~~~~~~~~~L~~l~~L~~L~l~~~~~  207 (829)
                                   ..+++|+.|++..+..
T Consensus       162 -------------~~~~~l~~L~~~~n~~  177 (208)
T 2o6s_A          162 -------------CTCPGIRYLSEWINKH  177 (208)
T ss_dssp             -------------CCTTTTHHHHHHHHHC
T ss_pred             -------------cCCCCHHHHHHHHHhC
Confidence                         1344666666666554

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.57  E-value=1.2e-14  Score=149.15  Aligned_cols=155  Identities=21%  Similarity=0.258  Sum_probs=136.0

Q ss_pred             cCCccccCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhh
Q 003328           10 VEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSL   89 (829)
Q Consensus        10 ~~~~~~~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l   89 (829)
                      +...+.+..++++++|++++|.+..++....+++|++|++++|.    +..++.  |.++++|++|++++|+++.+|...
T Consensus        31 i~~~~~~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~L~~N~----i~~~~~--l~~l~~L~~L~L~~N~l~~l~~~~  104 (263)
T 1xeu_A           31 VTDLVSQKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQ----ISDLSP--LKDLTKLEELSVNRNRLKNLNGIP  104 (263)
T ss_dssp             TTSEECHHHHTTCSEEECTTSCCCCCTTGGGCTTCCEEECCSSC----CCCCGG--GTTCSSCCEEECCSSCCSCCTTCC
T ss_pred             cccccchhhcCcCcEEECcCCCcccchHHhhCCCCCEEECCCCc----cCCChh--hccCCCCCEEECCCCccCCcCccc
Confidence            33444455678999999999999999865589999999999999    677776  699999999999999999987644


Q ss_pred             cCCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEE
Q 003328           90 GRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELY  169 (829)
Q Consensus        90 ~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~  169 (829)
                      .  .+|++|++++|.++.+..++++++|++|++++|.++.+| .++++++|++|++++|. +..++.  +..+++|++|+
T Consensus       105 ~--~~L~~L~L~~N~l~~~~~l~~l~~L~~L~Ls~N~i~~~~-~l~~l~~L~~L~L~~N~-i~~~~~--l~~l~~L~~L~  178 (263)
T 1xeu_A          105 S--ACLSRLFLDNNELRDTDSLIHLKNLEILSIRNNKLKSIV-MLGFLSKLEVLDLHGNE-ITNTGG--LTRLKKVNWID  178 (263)
T ss_dssp             C--SSCCEEECCSSCCSBSGGGTTCTTCCEEECTTSCCCBCG-GGGGCTTCCEEECTTSC-CCBCTT--STTCCCCCEEE
T ss_pred             c--CcccEEEccCCccCCChhhcCcccccEEECCCCcCCCCh-HHccCCCCCEEECCCCc-CcchHH--hccCCCCCEEe
Confidence            4  999999999999999988999999999999999999987 68999999999999987 666643  89999999999


Q ss_pred             ccCCccc
Q 003328          170 MGDSFSQ  176 (829)
Q Consensus       170 l~~~~~~  176 (829)
                      +++|.+.
T Consensus       179 l~~N~~~  185 (263)
T 1xeu_A          179 LTGQKCV  185 (263)
T ss_dssp             EEEEEEE
T ss_pred             CCCCccc
Confidence            9998765

>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=99.57  E-value=1.9e-14  Score=140.93  Aligned_cols=149  Identities=17%  Similarity=0.227  Sum_probs=118.4

Q ss_pred             CCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-CchhhcCCCCCc
Q 003328           18 IRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-LPSSLGRLINLQ   96 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lp~~l~~l~~Lr   96 (829)
                      .++++++|++++|.+..++....+++|++|++++|.    +..++ . +..+++|++|++++|.++. .|..++.+++|+
T Consensus        42 ~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~----~~~~~-~-l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~  115 (197)
T 4ezg_A           42 QMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIH----ATNYN-P-ISGLSNLERLRIMGKDVTSDKIPNLSGLTSLT  115 (197)
T ss_dssp             HHHTCCEEEEESSCCSCCTTGGGCTTCSEEEEESCC----CSCCG-G-GTTCTTCCEEEEECTTCBGGGSCCCTTCTTCC
T ss_pred             hcCCccEEeccCCCccChHHHhcCCCCCEEEccCCC----CCcch-h-hhcCCCCCEEEeECCccCcccChhhcCCCCCC
Confidence            456888899988888888854588889999998886    45554 2 5788889999998888875 677788888899


Q ss_pred             EEEccccCCCC--cccccCCCCCcEEEccCCC-CccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCC
Q 003328           97 TLCLDWCQLED--VAAIGQLKKLEILSFRGSD-IKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  173 (829)
Q Consensus        97 ~L~L~~~~l~~--l~~i~~L~~L~~L~l~~~~-l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~  173 (829)
                      +|++++|.+..  +..++++++|++|++++|. ++.+| .++++++|++|++++|. +..++.  +..+++|++|++++|
T Consensus       116 ~L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n~-i~~~~~--l~~l~~L~~L~l~~N  191 (197)
T 4ezg_A          116 LLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFDG-VHDYRG--IEDFPKLNQLYAFSQ  191 (197)
T ss_dssp             EEECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTBC-CCCCTT--GGGCSSCCEEEECBC
T ss_pred             EEEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCCC-CcChHH--hccCCCCCEEEeeCc
Confidence            99999888875  2778888889999998887 88887 68888889999988877 666763  788888999988887


Q ss_pred             ccc
Q 003328          174 FSQ  176 (829)
Q Consensus       174 ~~~  176 (829)
                      .+.
T Consensus       192 ~i~  194 (197)
T 4ezg_A          192 TIG  194 (197)
T ss_dssp             ---
T ss_pred             ccC
Confidence            654

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

Probab=99.57  E-value=2.3e-14  Score=154.18  Aligned_cols=147  Identities=17%  Similarity=0.156  Sum_probs=89.9

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-Cch-hhcCCCCCcE-EE
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-LPS-SLGRLINLQT-LC   99 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lp~-~l~~l~~Lr~-L~   99 (829)
                      ++++-++++++++|..+ .+++++|++++|.    +..+|...|.++++|++|+|++|.+.+ +|. .+.++++++. +.
T Consensus        12 ~~v~C~~~~Lt~iP~~l-~~~l~~L~Ls~N~----i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~   86 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDL-PRNAIELRFVLTK----LRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRI   86 (350)
T ss_dssp             TEEEEESTTCCSCCTTC-CTTCSEEEEESCC----CSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEE
T ss_pred             CEEEecCCCCCccCcCc-CCCCCEEEccCCc----CCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhc
Confidence            45666777777777654 3467777777777    667776666777777777777777644 443 3566666654 44


Q ss_pred             ccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCC-CcccEEEccCCc
Q 003328          100 LDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKF-SRLEELYMGDSF  174 (829)
Q Consensus       100 L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L-~~L~~L~l~~~~  174 (829)
                      +.++++..+  ..|..+++|++|++++|.++.+|.. +....++.+|++.++..+..++...+..+ ..++.|++++|.
T Consensus        87 ~~~N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~  165 (350)
T 4ay9_X           87 EKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNG  165 (350)
T ss_dssp             EEETTCCEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSC
T ss_pred             ccCCcccccCchhhhhccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhcccccc
Confidence            445566665  5567777777777777777666542 34455566666665555555554323333 234445554443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.56  E-value=7e-15  Score=155.36  Aligned_cols=195  Identities=18%  Similarity=0.104  Sum_probs=151.4

Q ss_pred             CCCcEEEcCCCCCCC-CCCc---cCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCC
Q 003328           20 KDPIAISLPQRDIQE-LPER---LQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLIN   94 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~-l~~~---~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~   94 (829)
                      +++++|++++|.+.. .|..   ..+++|++|++++|........++...+..+++|++|++++|.+..++ ..++.+++
T Consensus        91 ~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~  170 (310)
T 4glp_A           91 SRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPA  170 (310)
T ss_dssp             SCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTT
T ss_pred             CceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCC
Confidence            569999999999884 4433   468999999999999321111122223457999999999999998855 67889999


Q ss_pred             CcEEEccccCCCC---c---ccccCCCCCcEEEccCCCCccchhh----hcCCCCCCEEeccCCCCCCcc-ChhhhcCC-
Q 003328           95 LQTLCLDWCQLED---V---AAIGQLKKLEILSFRGSDIKQLPLE----IGQLTRLQLLDLSNCSSLVVI-APNVISKF-  162 (829)
Q Consensus        95 Lr~L~L~~~~l~~---l---~~i~~L~~L~~L~l~~~~l~~lp~~----i~~L~~L~~L~l~~~~~l~~l-p~~~l~~L-  162 (829)
                      |++|++++|++..   +   ..++++++|++|++++|.++.+|..    ++++++|++|++++|. +... |.. ++.+ 
T Consensus       171 L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~-l~~~~p~~-~~~~~  248 (310)
T 4glp_A          171 LTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNS-LRATVNPS-APRCM  248 (310)
T ss_dssp             CCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSC-CCCCCCSC-CSSCC
T ss_pred             CCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCC-CCccchhh-HHhcc
Confidence            9999999998753   3   2347899999999999999877653    5789999999999998 5554 665 6666 


Q ss_pred             --CcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEc
Q 003328          163 --SRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIG  227 (829)
Q Consensus       163 --~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~  227 (829)
                        ++|++|++++|.+.      ..   ...+  .++|+.|++++|.+..+|....+++|+.|+++++
T Consensus       249 ~~~~L~~L~Ls~N~l~------~l---p~~~--~~~L~~L~Ls~N~l~~~~~~~~l~~L~~L~L~~N  304 (310)
T 4glp_A          249 WSSALNSLNLSFAGLE------QV---PKGL--PAKLRVLDLSSNRLNRAPQPDELPEVDNLTLDGN  304 (310)
T ss_dssp             CCTTCCCEECCSSCCC------SC---CSCC--CSCCSCEECCSCCCCSCCCTTSCCCCSCEECSST
T ss_pred             CcCcCCEEECCCCCCC------ch---hhhh--cCCCCEEECCCCcCCCCchhhhCCCccEEECcCC
Confidence              69999999999875      11   1222  2689999999999988876667788998887543

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.56  E-value=2.5e-14  Score=142.60  Aligned_cols=148  Identities=15%  Similarity=0.233  Sum_probs=121.5

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCccccccc-chhhhcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQI-SDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCL  100 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~l-p~~~~~~l~~Lr~L~L~~~~i~~lp~-~l~~l~~Lr~L~L  100 (829)
                      ++++++++.+.++|..+ .+.+++|++++|.    +..+ +..+|.++++|++|++++|.++.++. .+..+++|++|++
T Consensus        14 ~~l~~s~n~l~~iP~~~-~~~~~~L~L~~N~----l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~L   88 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEHI-PQYTAELRLNNNE----FTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILL   88 (220)
T ss_dssp             TEEECCSSCCSSCCSCC-CTTCSEEECCSSC----CCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CEeEeCCCCcccCccCC-CCCCCEEEcCCCc----CCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEEC
Confidence            58899999999888755 3467899999998    5555 44557899999999999999988655 6889999999999


Q ss_pred             cccCCCCc--ccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328          101 DWCQLEDV--AAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       101 ~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      ++|.++.+  ..++++++|++|++++|.++.+ |..++++++|++|++++|. +..+++..+..+++|++|++++|.+.
T Consensus        89 s~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~  166 (220)
T 2v70_A           89 TSNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQ-ITTVAPGAFDTLHSLSTLNLLANPFN  166 (220)
T ss_dssp             CSSCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSC-CCCBCTTTTTTCTTCCEEECCSCCEE
T ss_pred             CCCccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCc-CCEECHHHhcCCCCCCEEEecCcCCc
Confidence            99998877  5688999999999999998877 5678899999999999987 66664444888899999998888765

>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=99.54  E-value=1.1e-14  Score=155.79  Aligned_cols=145  Identities=17%  Similarity=0.198  Sum_probs=70.4

Q ss_pred             CCcEEEcCCCCCCCCCCcc-CC--CCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC--CchhhcCCCCC
Q 003328           21 DPIAISLPQRDIQELPERL-QC--PNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS--LPSSLGRLINL   95 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l~~~~-~~--~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~--lp~~l~~l~~L   95 (829)
                      .+++++++++.+.  +..+ .+  +++++|++.+|.    +...+..+ .++++|++|++++|.++.  +|..+..+++|
T Consensus        48 ~~~~l~l~~~~~~--~~~~~~~~~~~l~~L~l~~n~----l~~~~~~~-~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L  120 (336)
T 2ast_B           48 LWQTLDLTGKNLH--PDVTGRLLSQGVIAFRCPRSF----MDQPLAEH-FSPFRVQHMDLSNSVIEVSTLHGILSQCSKL  120 (336)
T ss_dssp             TSSEEECTTCBCC--HHHHHHHHHTTCSEEECTTCE----ECSCCCSC-CCCBCCCEEECTTCEECHHHHHHHHTTBCCC
T ss_pred             hheeeccccccCC--HHHHHhhhhccceEEEcCCcc----ccccchhh-ccCCCCCEEEccCCCcCHHHHHHHHhhCCCC
Confidence            4555555555443  1111 22  455555555554    22222222 345555555555555442  44455555555


Q ss_pred             cEEEccccCCCC-c-ccccCCCCCcEEEccCC-CCc--cchhhhcCCCCCCEEeccCCCCCCc--cChhhhcCCC-cccE
Q 003328           96 QTLCLDWCQLED-V-AAIGQLKKLEILSFRGS-DIK--QLPLEIGQLTRLQLLDLSNCSSLVV--IAPNVISKFS-RLEE  167 (829)
Q Consensus        96 r~L~L~~~~l~~-l-~~i~~L~~L~~L~l~~~-~l~--~lp~~i~~L~~L~~L~l~~~~~l~~--lp~~~l~~L~-~L~~  167 (829)
                      ++|++++|.+.. . ..++++++|++|++++| .++  .+|..+.++++|++|++++|..+..  ++.. +..++ +|++
T Consensus       121 ~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~-~~~l~~~L~~  199 (336)
T 2ast_B          121 QNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVA-VAHVSETITQ  199 (336)
T ss_dssp             SEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHH-HHHSCTTCCE
T ss_pred             CEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHH-HHhcccCCCE
Confidence            555555555442 2 44555555555555555 444  2444455555555555555522332  2222 44555 5555


Q ss_pred             EEccCC
Q 003328          168 LYMGDS  173 (829)
Q Consensus       168 L~l~~~  173 (829)
                      |++++|
T Consensus       200 L~l~~~  205 (336)
T 2ast_B          200 LNLSGY  205 (336)
T ss_dssp             EECCSC
T ss_pred             EEeCCC
Confidence            555555

>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=99.54  E-value=6.2e-14  Score=150.71  Aligned_cols=192  Identities=15%  Similarity=0.144  Sum_probs=149.4

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccE-EEecCCCCCCC
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKV-LSLIGIHFSSL   85 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~-L~L~~~~i~~l   85 (829)
                      ++..+|. +.++++++|++++|.|+.+|.. + ++++|++|++++|.   ....+|..+|.++++++. +.+.+++++.+
T Consensus        20 ~Lt~iP~-~l~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~---i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l   95 (350)
T 4ay9_X           20 KVTEIPS-DLPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQND---VLEVIEADVFSNLPKLHEIRIEKANNLLYI   95 (350)
T ss_dssp             TCCSCCT-TCCTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCT---TCCEECTTSBCSCTTCCEEEEEEETTCCEE
T ss_pred             CCCccCc-CcCCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCC---CCCccChhHhhcchhhhhhhcccCCccccc
Confidence            3444442 3467999999999999999874 3 89999999999999   346678777899988775 56677889986


Q ss_pred             -chhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCC-CCccchhh-hcCC-CCCCEEeccCCCCCCccChhhh
Q 003328           86 -PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGS-DIKQLPLE-IGQL-TRLQLLDLSNCSSLVVIAPNVI  159 (829)
Q Consensus        86 -p~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~-~l~~lp~~-i~~L-~~L~~L~l~~~~~l~~lp~~~l  159 (829)
                       |..+..+++|++|++++|++..+  ..+....++.+|++.++ .+..+|.. +..+ ..+++|++++|. ++.++.+ +
T Consensus        96 ~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~-i~~i~~~-~  173 (350)
T 4ay9_X           96 NPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNG-IQEIHNS-A  173 (350)
T ss_dssp             CTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSC-CCEECTT-S
T ss_pred             CchhhhhccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhcccccc-ccCCChh-h
Confidence             46689999999999999999877  44556677889999764 78888754 4555 478999999987 8889887 6


Q ss_pred             cCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCc
Q 003328          160 SKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQD  213 (829)
Q Consensus       160 ~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~  213 (829)
                      ....+|++|++.++...     +.  .....++++++|+.|+++.|.+..+|..
T Consensus       174 f~~~~L~~l~l~~~n~l-----~~--i~~~~f~~l~~L~~LdLs~N~l~~lp~~  220 (350)
T 4ay9_X          174 FNGTQLDELNLSDNNNL-----EE--LPNDVFHGASGPVILDISRTRIHSLPSY  220 (350)
T ss_dssp             STTEEEEEEECTTCTTC-----CC--CCTTTTTTEECCSEEECTTSCCCCCCSS
T ss_pred             ccccchhHHhhccCCcc-----cC--CCHHHhccCcccchhhcCCCCcCccChh
Confidence            77889999999864332     11  1123356788999999999998877764

>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=99.53  E-value=6.1e-14  Score=160.68  Aligned_cols=157  Identities=21%  Similarity=0.257  Sum_probs=140.8

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS   88 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~   88 (829)
                      ++...+.+..+++|++|++++|.+..+++...+++|+.|++++|.    +..+|.  +..+++|++|+|++|.+..++ .
T Consensus        54 ~i~~l~~l~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~----l~~l~~--l~~l~~L~~L~Ls~N~l~~l~-~  126 (605)
T 1m9s_A           54 DIKSVQGIQYLPNVTKLFLNGNKLTDIKPLTNLKNLGWLFLDENK----IKDLSS--LKDLKKLKSLSLEHNGISDIN-G  126 (605)
T ss_dssp             CCCCCTTGGGCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSC----CCCCTT--STTCTTCCEEECTTSCCCCCG-G
T ss_pred             CCCCChHHccCCCCCEEEeeCCCCCCChhhccCCCCCEEECcCCC----CCCChh--hccCCCCCEEEecCCCCCCCc-c
Confidence            455566777889999999999999998886699999999999998    566663  689999999999999999885 5


Q ss_pred             hcCCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEE
Q 003328           89 LGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEEL  168 (829)
Q Consensus        89 l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L  168 (829)
                      +..+++|++|+|++|.+..+..++.+.+|++|++++|.+..++. +..+++|++|++++|. +..++.  +..+++|+.|
T Consensus       127 l~~l~~L~~L~Ls~N~l~~l~~l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~-i~~l~~--l~~l~~L~~L  202 (605)
T 1m9s_A          127 LVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNH-ISDLRA--LAGLKNLDVL  202 (605)
T ss_dssp             GGGCTTCSEEECCSSCCCCCGGGGSCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-CCBCGG--GTTCTTCSEE
T ss_pred             ccCCCccCEEECCCCccCCchhhcccCCCCEEECcCCcCCCchh-hccCCCCCEEECcCCC-CCCChH--HccCCCCCEE
Confidence            89999999999999999988889999999999999999998876 9999999999999987 777764  8999999999


Q ss_pred             EccCCccc
Q 003328          169 YMGDSFSQ  176 (829)
Q Consensus       169 ~l~~~~~~  176 (829)
                      ++++|.+.
T Consensus       203 ~L~~N~l~  210 (605)
T 1m9s_A          203 ELFSQECL  210 (605)
T ss_dssp             ECCSEEEE
T ss_pred             EccCCcCc
Confidence            99998765

>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=99.53  E-value=8.4e-15  Score=160.02  Aligned_cols=83  Identities=16%  Similarity=0.167  Sum_probs=39.3

Q ss_pred             cCCCCccEEEecCCCCCC-----CchhhcCCCCCcEEEccccCCCC-----c-ccccCC---------CCCcEEEccCCC
Q 003328           67 EGTEELKVLSLIGIHFSS-----LPSSLGRLINLQTLCLDWCQLED-----V-AAIGQL---------KKLEILSFRGSD  126 (829)
Q Consensus        67 ~~l~~Lr~L~L~~~~i~~-----lp~~l~~l~~Lr~L~L~~~~l~~-----l-~~i~~L---------~~L~~L~l~~~~  126 (829)
                      ..+++|++|++++|.++.     +|..+..+++|++|++++|.+..     + ..+..+         ++|++|++++|.
T Consensus        91 ~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~  170 (386)
T 2ca6_A           91 LKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNR  170 (386)
T ss_dssp             TTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSC
T ss_pred             hhCCcccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCC
Confidence            445555555555555443     44445555555555555555431     1 122222         455555555554


Q ss_pred             Cc--cch---hhhcCCCCCCEEeccCCC
Q 003328          127 IK--QLP---LEIGQLTRLQLLDLSNCS  149 (829)
Q Consensus       127 l~--~lp---~~i~~L~~L~~L~l~~~~  149 (829)
                      ++  .+|   ..+.++++|++|++++|.
T Consensus       171 l~~~~~~~l~~~l~~~~~L~~L~L~~n~  198 (386)
T 2ca6_A          171 LENGSMKEWAKTFQSHRLLHTVKMVQNG  198 (386)
T ss_dssp             CTGGGHHHHHHHHHHCTTCCEEECCSSC
T ss_pred             CCcHHHHHHHHHHHhCCCcCEEECcCCC
Confidence            43  223   234445555555555543

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.53  E-value=4.1e-14  Score=139.97  Aligned_cols=148  Identities=20%  Similarity=0.257  Sum_probs=128.4

Q ss_pred             CCCCCCcEEEcCCCCCCCCCCcc--CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh-hcCCC
Q 003328           17 TIRKDPIAISLPQRDIQELPERL--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS-LGRLI   93 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~-l~~l~   93 (829)
                      ..++++++|++++|.+..++...  .+++|++|++++|.    +..+|...|.++++|++|++++|.++.+|.. +..++
T Consensus        25 ~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~----l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~  100 (208)
T 2o6s_A           25 GIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNK----LQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLT  100 (208)
T ss_dssp             CCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC----CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             CCCCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCc----cCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCcc
Confidence            34679999999999999888643  89999999999998    6788887789999999999999999987765 68999


Q ss_pred             CCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEc
Q 003328           94 NLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYM  170 (829)
Q Consensus        94 ~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l  170 (829)
                      +|++|++++|.++.+  ..+.++++|++|++++|.++.+|.. +.++++|++|++++|..        .+.+++|++|++
T Consensus       101 ~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~--------~~~~~~l~~L~~  172 (208)
T 2o6s_A          101 QLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPW--------DCTCPGIRYLSE  172 (208)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCB--------CCCTTTTHHHHH
T ss_pred             CCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCCe--------ecCCCCHHHHHH
Confidence            999999999999987  4589999999999999999988776 78999999999999852        355677888888


Q ss_pred             cCCccc
Q 003328          171 GDSFSQ  176 (829)
Q Consensus       171 ~~~~~~  176 (829)
                      ..+.+.
T Consensus       173 ~~n~~~  178 (208)
T 2o6s_A          173 WINKHS  178 (208)
T ss_dssp             HHHHCT
T ss_pred             HHHhCC
Confidence            777654

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.51  E-value=6.4e-14  Score=151.27  Aligned_cols=172  Identities=19%  Similarity=0.220  Sum_probs=138.8

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhc-CCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFE-GTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCL  100 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~-~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~L  100 (829)
                      ++++++++++..+|..+ .+.+++|++++|.    +..++...|. ++++|++|++++|.++.++ ..+..+++|++|+|
T Consensus        21 ~~l~c~~~~l~~iP~~~-~~~l~~L~Ls~N~----l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~L   95 (361)
T 2xot_A           21 NILSCSKQQLPNVPQSL-PSYTALLDLSHNN----LSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDL   95 (361)
T ss_dssp             TEEECCSSCCSSCCSSC-CTTCSEEECCSSC----CCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CEEEeCCCCcCccCccC-CCCCCEEECCCCC----CCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEEC
Confidence            68899999999998755 3468999999998    6777777676 8999999999999998866 46889999999999


Q ss_pred             cccCCCCc--ccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCCCCCccChhhh---cCCCcccEEEccCCc
Q 003328          101 DWCQLEDV--AAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSSLVVIAPNVI---SKFSRLEELYMGDSF  174 (829)
Q Consensus       101 ~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~l~~lp~~~l---~~L~~L~~L~l~~~~  174 (829)
                      ++|+++.+  ..|.++.+|++|++++|.++.+ |..+.++++|++|++++|. +..+|...+   ..+++|++|++++|.
T Consensus        96 s~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~-l~~l~~~~~~~~~~l~~L~~L~L~~N~  174 (361)
T 2xot_A           96 SSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQ-ISRFPVELIKDGNKLPKLMLLDLSSNK  174 (361)
T ss_dssp             CSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC-CCSCCGGGTC----CTTCCEEECCSSC
T ss_pred             CCCcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCc-CCeeCHHHhcCcccCCcCCEEECCCCC
Confidence            99999877  5689999999999999999877 5678999999999999987 788887744   579999999999987


Q ss_pred             cccccccCCCccchhhhcCCCC--CcEEEeecCCCC
Q 003328          175 SQWDKVEGGSNASLAELKGLSK--LTTLEIHVWDAQ  208 (829)
Q Consensus       175 ~~~~~~~~~~~~~~~~L~~l~~--L~~L~l~~~~~~  208 (829)
                      +.        ......+..++.  ++.|++.+|...
T Consensus       175 l~--------~l~~~~~~~l~~~~l~~l~l~~N~~~  202 (361)
T 2xot_A          175 LK--------KLPLTDLQKLPAWVKNGLYLHNNPLE  202 (361)
T ss_dssp             CC--------CCCHHHHHHSCHHHHTTEECCSSCEE
T ss_pred             CC--------ccCHHHhhhccHhhcceEEecCCCcc
Confidence            75        222344555554  477888887764

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.51  E-value=6.7e-14  Score=151.11  Aligned_cols=154  Identities=21%  Similarity=0.269  Sum_probs=80.7

Q ss_pred             cEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh-hc-CCCCCcEEEccccCCCCc--ccccCCCCCcEE
Q 003328           45 QLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS-LG-RLINLQTLCLDWCQLEDV--AAIGQLKKLEIL  120 (829)
Q Consensus        45 r~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~-l~-~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L  120 (829)
                      ++++++++.    +..+|..+   ...+++|+|++|.++.++.. +. .+++|++|+|++|.+..+  ..|.++.+|++|
T Consensus        21 ~~l~c~~~~----l~~iP~~~---~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L   93 (361)
T 2xot_A           21 NILSCSKQQ----LPNVPQSL---PSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYL   93 (361)
T ss_dssp             TEEECCSSC----CSSCCSSC---CTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEE
T ss_pred             CEEEeCCCC----cCccCccC---CCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEE
Confidence            455555555    44555432   23456666666666554433 33 566666666666666555  345666666666


Q ss_pred             EccCCCCccchh-hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcE
Q 003328          121 SFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTT  199 (829)
Q Consensus       121 ~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~  199 (829)
                      ++++|.++.+|. .+.++++|++|++++|. +..++...+..+++|++|++++|.+.     .-....+..+..+++|+.
T Consensus        94 ~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-i~~~~~~~~~~l~~L~~L~L~~N~l~-----~l~~~~~~~~~~l~~L~~  167 (361)
T 2xot_A           94 DLSSNHLHTLDEFLFSDLQALEVLLLYNNH-IVVVDRNAFEDMAQLQKLYLSQNQIS-----RFPVELIKDGNKLPKLML  167 (361)
T ss_dssp             ECCSSCCCEECTTTTTTCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSSCCC-----SCCGGGTC----CTTCCE
T ss_pred             ECCCCcCCcCCHHHhCCCcCCCEEECCCCc-ccEECHHHhCCcccCCEEECCCCcCC-----eeCHHHhcCcccCCcCCE
Confidence            666666665543 35566666666666655 44443333556666666666665543     111111111244556666


Q ss_pred             EEeecCCCCCcC
Q 003328          200 LEIHVWDAQILP  211 (829)
Q Consensus       200 L~l~~~~~~~~~  211 (829)
                      |++++|.+..++
T Consensus       168 L~L~~N~l~~l~  179 (361)
T 2xot_A          168 LDLSSNKLKKLP  179 (361)
T ss_dssp             EECCSSCCCCCC
T ss_pred             EECCCCCCCccC
Confidence            666666655554

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.50  E-value=1.3e-14  Score=157.02  Aligned_cols=185  Identities=13%  Similarity=0.181  Sum_probs=111.2

Q ss_pred             CCCCCCcEEEcCCCCCCCCCC-----cc-CCC-CCcEEEeecCCCcccccccchhhhcCC-----CCccEEEecCCCCCC
Q 003328           17 TIRKDPIAISLPQRDIQELPE-----RL-QCP-NLQLFLLITKGIAPVSMQISDLFFEGT-----EELKVLSLIGIHFSS   84 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~-----~~-~~~-~Lr~L~l~~~~~~~~~~~lp~~~~~~l-----~~Lr~L~L~~~~i~~   84 (829)
                      ..++++++|++++|.+...+.     .+ .++ +|++|++++|.    +.......|..+     ++|++|++++|.++.
T Consensus        19 ~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~----l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~   94 (362)
T 3goz_A           19 SIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNS----LGFKNSDELVQILAAIPANVTSLNLSGNFLSY   94 (362)
T ss_dssp             TSCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSC----GGGSCHHHHHHHHHTSCTTCCEEECCSSCGGG
T ss_pred             hCCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCC----CCHHHHHHHHHHHhccCCCccEEECcCCcCCh
Confidence            344568888888887776653     22 566 78888888777    333322223333     778888888887764


Q ss_pred             Cc-hh----hcCC-CCCcEEEccccCCCCc--c----cccCC-CCCcEEEccCCCCc-----cchhhhcCCC-CCCEEec
Q 003328           85 LP-SS----LGRL-INLQTLCLDWCQLEDV--A----AIGQL-KKLEILSFRGSDIK-----QLPLEIGQLT-RLQLLDL  145 (829)
Q Consensus        85 lp-~~----l~~l-~~Lr~L~L~~~~l~~l--~----~i~~L-~~L~~L~l~~~~l~-----~lp~~i~~L~-~L~~L~l  145 (829)
                      .+ ..    +..+ ++|++|++++|.++..  .    .+..+ .+|++|++++|.++     .++..+..+. +|++|++
T Consensus        95 ~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~L  174 (362)
T 3goz_A           95 KSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNL  174 (362)
T ss_dssp             SCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEEC
T ss_pred             HHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeee
Confidence            32 22    4444 6788888888876643  2    23443 57888888887766     4455566665 7888888


Q ss_pred             cCCCCCCccChhh----hcCC-CcccEEEccCCccccccccCCCccchhhhcC-CCCCcEEEeecCCCCCc
Q 003328          146 SNCSSLVVIAPNV----ISKF-SRLEELYMGDSFSQWDKVEGGSNASLAELKG-LSKLTTLEIHVWDAQIL  210 (829)
Q Consensus       146 ~~~~~l~~lp~~~----l~~L-~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~-l~~L~~L~l~~~~~~~~  210 (829)
                      ++|. ++..+...    +... ++|++|++++|.+..    .........+.. .++|+.|++++|.+...
T Consensus       175 s~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~----~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~  240 (362)
T 3goz_A          175 RGNN-LASKNCAELAKFLASIPASVTSLDLSANLLGL----KSYAELAYIFSSIPNHVVSLNLCLNCLHGP  240 (362)
T ss_dssp             TTSC-GGGSCHHHHHHHHHTSCTTCCEEECTTSCGGG----SCHHHHHHHHHHSCTTCCEEECCSSCCCCC
T ss_pred             cCCC-CchhhHHHHHHHHHhCCCCCCEEECCCCCCCh----hHHHHHHHHHhcCCCCceEEECcCCCCCcH
Confidence            8776 54444321    3344 578888887776650    000112223333 34777777777766543

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.49  E-value=2.7e-13  Score=153.51  Aligned_cols=181  Identities=17%  Similarity=0.196  Sum_probs=146.5

Q ss_pred             CCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEE
Q 003328           20 KDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLC   99 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~   99 (829)
                      .++++|++++|.+..+|..+ .++|++|++++|.    +..+|    ..+++|++|++++|.++.+|. +..  +|++|+
T Consensus        59 ~~L~~L~Ls~n~L~~lp~~l-~~~L~~L~Ls~N~----l~~ip----~~l~~L~~L~Ls~N~l~~ip~-l~~--~L~~L~  126 (571)
T 3cvr_A           59 NQFSELQLNRLNLSSLPDNL-PPQITVLEITQNA----LISLP----ELPASLEYLDACDNRLSTLPE-LPA--SLKHLD  126 (571)
T ss_dssp             TTCSEEECCSSCCSCCCSCC-CTTCSEEECCSSC----CSCCC----CCCTTCCEEECCSSCCSCCCC-CCT--TCCEEE
T ss_pred             CCccEEEeCCCCCCccCHhH-cCCCCEEECcCCC----Ccccc----cccCCCCEEEccCCCCCCcch-hhc--CCCEEE
Confidence            38999999999999998765 4789999999999    56788    357999999999999999998 665  999999


Q ss_pred             ccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcccccc
Q 003328          100 LDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDK  179 (829)
Q Consensus       100 L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~  179 (829)
                      +++|.++.+..  .+.+|++|++++|.++.+|.   .+++|++|++++|. +..+|.  +.  ++|++|++++|.+.   
T Consensus       127 Ls~N~l~~lp~--~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N~-L~~lp~--l~--~~L~~L~Ls~N~L~---  193 (571)
T 3cvr_A          127 VDNNQLTMLPE--LPALLEYINADNNQLTMLPE---LPTSLEVLSVRNNQ-LTFLPE--LP--ESLEALDVSTNLLE---  193 (571)
T ss_dssp             CCSSCCSCCCC--CCTTCCEEECCSSCCSCCCC---CCTTCCEEECCSSC-CSCCCC--CC--TTCCEEECCSSCCS---
T ss_pred             CCCCcCCCCCC--cCccccEEeCCCCccCcCCC---cCCCcCEEECCCCC-CCCcch--hh--CCCCEEECcCCCCC---
Confidence            99999998844  78999999999999999987   68999999999987 777887  55  89999999999775   


Q ss_pred             ccCCCccchhhh-cCCCCCcEEEeecCCCCCcCCcc-ccccccEEEEEEcc
Q 003328          180 VEGGSNASLAEL-KGLSKLTTLEIHVWDAQILPQDW-VSVELQRYKICIGE  228 (829)
Q Consensus       180 ~~~~~~~~~~~L-~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~  228 (829)
                         ..+.....+ .....|+.|++++|.+..+|..+ .+++|+.|+++.+.
T Consensus       194 ---~lp~~~~~L~~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~~N~  241 (571)
T 3cvr_A          194 ---SLPAVPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILEDNP  241 (571)
T ss_dssp             ---SCCCCC--------CCEEEECCSSCCCCCCGGGGGSCTTEEEECCSSS
T ss_pred             ---chhhHHHhhhcccccceEEecCCCcceecCHHHhcCCCCCEEEeeCCc
Confidence               111100011 11123399999999999998854 68889998876443

>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=99.49  E-value=2.6e-14  Score=153.01  Aligned_cols=195  Identities=18%  Similarity=0.262  Sum_probs=155.8

Q ss_pred             CCCcEEEcCCCCCCCCCCc-cCCCCCcEEEeecCCCcccccc-cchhhhcCCCCccEEEecCCCCCC-CchhhcCCCCCc
Q 003328           20 KDPIAISLPQRDIQELPER-LQCPNLQLFLLITKGIAPVSMQ-ISDLFFEGTEELKVLSLIGIHFSS-LPSSLGRLINLQ   96 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~-~~~~~Lr~L~l~~~~~~~~~~~-lp~~~~~~l~~Lr~L~L~~~~i~~-lp~~l~~l~~Lr   96 (829)
                      +++++++++++.+...+.. ..+++|++|++++|.   .... ++. ++..+++|++|++++|.++. .|..++.+++|+
T Consensus        70 ~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~---l~~~~~~~-~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~  145 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSV---IEVSTLHG-ILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLV  145 (336)
T ss_dssp             TTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCE---ECHHHHHH-HHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCS
T ss_pred             ccceEEEcCCccccccchhhccCCCCCEEEccCCC---cCHHHHHH-HHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCC
Confidence            7899999999988865544 489999999999998   2333 554 46899999999999999884 788899999999


Q ss_pred             EEEcccc-CCCC--c-ccccCCCCCcEEEccCC-CCcc--chhhhcCCC-CCCEEeccCCC-CC--CccChhhhcCCCcc
Q 003328           97 TLCLDWC-QLED--V-AAIGQLKKLEILSFRGS-DIKQ--LPLEIGQLT-RLQLLDLSNCS-SL--VVIAPNVISKFSRL  165 (829)
Q Consensus        97 ~L~L~~~-~l~~--l-~~i~~L~~L~~L~l~~~-~l~~--lp~~i~~L~-~L~~L~l~~~~-~l--~~lp~~~l~~L~~L  165 (829)
                      +|++++| .++.  + ..+.++++|++|++++| .++.  ++..+.+++ +|++|++++|. .+  ..++.. ++++++|
T Consensus       146 ~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~-~~~~~~L  224 (336)
T 2ast_B          146 RLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTL-VRRCPNL  224 (336)
T ss_dssp             EEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHH-HHHCTTC
T ss_pred             EEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHH-HhhCCCC
Confidence            9999999 6773  5 66889999999999999 8884  788899999 99999999985 23  345554 7889999


Q ss_pred             cEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCC----ccccccccEEEEEEc
Q 003328          166 EELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQ----DWVSVELQRYKICIG  227 (829)
Q Consensus       166 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~----~~~~~~L~~L~l~~~  227 (829)
                      ++|++++|...       ....+..+..+++|+.|+++++.. ..+.    ...+++|+.|++.++
T Consensus       225 ~~L~l~~~~~l-------~~~~~~~l~~l~~L~~L~l~~~~~-~~~~~~~~l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          225 VHLDLSDSVML-------KNDCFQEFFQLNYLQHLSLSRCYD-IIPETLLELGEIPTLKTLQVFGI  282 (336)
T ss_dssp             SEEECTTCTTC-------CGGGGGGGGGCTTCCEEECTTCTT-CCGGGGGGGGGCTTCCEEECTTS
T ss_pred             CEEeCCCCCcC-------CHHHHHHHhCCCCCCEeeCCCCCC-CCHHHHHHHhcCCCCCEEeccCc
Confidence            99999999732       134556777889999999998851 1111    236789999988644

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.47  E-value=1.8e-13  Score=130.16  Aligned_cols=132  Identities=20%  Similarity=0.183  Sum_probs=92.8

Q ss_pred             CCCCCcEEEcCCCCCC--CCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-CchhhcCCC
Q 003328           18 IRKDPIAISLPQRDIQ--ELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-LPSSLGRLI   93 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~--~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lp~~l~~l~   93 (829)
                      .++++++|++++|.+.  .+|..+ .+++|++|++++|.    +..+ . .|..+++|++|++++|.++. +|..+..++
T Consensus        22 ~~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~----l~~~-~-~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~   95 (168)
T 2ell_A           22 TPAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVG----LISV-S-NLPKLPKLKKLELSENRIFGGLDMLAEKLP   95 (168)
T ss_dssp             CTTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSC----CCCC-S-SCCCCSSCCEEEEESCCCCSCCCHHHHHCT
T ss_pred             CcccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCC----CCCh-h-hhccCCCCCEEECcCCcCchHHHHHHhhCC
Confidence            3467788888888777  677664 67777788887777    3444 2 25777777777777777776 666666677


Q ss_pred             CCcEEEccccCCCCc---ccccCCCCCcEEEccCCCCccchh----hhcCCCCCCEEeccCCCCCCccCh
Q 003328           94 NLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSDIKQLPL----EIGQLTRLQLLDLSNCSSLVVIAP  156 (829)
Q Consensus        94 ~Lr~L~L~~~~l~~l---~~i~~L~~L~~L~l~~~~l~~lp~----~i~~L~~L~~L~l~~~~~l~~lp~  156 (829)
                      +|++|++++|.++.+   ..+.++++|++|++++|.++.+|.    .+..+++|++|++++|. ...+|.
T Consensus        96 ~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~-~~~~~~  164 (168)
T 2ell_A           96 NLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDRE-DQEAPD  164 (168)
T ss_dssp             TCCEEECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETT-SCBCCS
T ss_pred             CCCEEeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCC-hhhccc
Confidence            777777777777654   467777777777777777776665    57777777777777765 444543

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.46  E-value=5.6e-13  Score=133.74  Aligned_cols=129  Identities=22%  Similarity=0.307  Sum_probs=116.7

Q ss_pred             CCCCCCcEEEcCCCCCCCCCC-cc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh-hcCCC
Q 003328           17 TIRKDPIAISLPQRDIQELPE-RL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS-LGRLI   93 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~-l~~l~   93 (829)
                      ..++++++|++++|.+..+++ .+ .+++|++|++++|.    +..+|...|.++++|++|++++|.++.+|.. +..++
T Consensus        37 ~~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~----l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~  112 (229)
T 3e6j_A           37 GIPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQ----LGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLV  112 (229)
T ss_dssp             CCCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC----CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             CCCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCC----CCCcChhhcccCCCcCEEECCCCcCCccChhHhCcch
Confidence            345799999999999998854 34 89999999999999    6888888789999999999999999998765 68999


Q ss_pred             CCcEEEccccCCCCc-ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCC
Q 003328           94 NLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCS  149 (829)
Q Consensus        94 ~Lr~L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~  149 (829)
                      +|++|++++|.++.+ ..+.++.+|++|++++|.++.+|. .+.++++|++|++.+|.
T Consensus       113 ~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~  170 (229)
T 3e6j_A          113 HLKELFMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNP  170 (229)
T ss_dssp             TCCEEECCSSCCCSCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             hhCeEeccCCcccccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCC
Confidence            999999999999999 889999999999999999998875 48899999999999987

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.46  E-value=4.9e-13  Score=133.21  Aligned_cols=136  Identities=21%  Similarity=0.321  Sum_probs=117.7

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP   86 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp   86 (829)
                      ++..+|. ..++++++|++++|.+..++.. + .+++|++|++++|.    +..++...|.++++|++|++++|.++.+|
T Consensus        22 ~l~~iP~-~l~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~----i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~   96 (220)
T 2v9t_B           22 GLTEIPT-NLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQ----ISELAPDAFQGLRSLNSLVLYGNKITELP   96 (220)
T ss_dssp             CCSSCCS-SCCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSC----CCEECTTTTTTCSSCCEEECCSSCCCCCC
T ss_pred             CcCcCCC-ccCcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCc----CCCcCHHHhhCCcCCCEEECCCCcCCccC
Confidence            3444442 3457999999999999988863 3 89999999999999    56665555799999999999999999988


Q ss_pred             hh-hcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCC
Q 003328           87 SS-LGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCS  149 (829)
Q Consensus        87 ~~-l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~  149 (829)
                      .. +..+++|++|+|++|.++.+  ..+.++++|++|++++|.++.+|.. +..+++|++|++++|.
T Consensus        97 ~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  163 (220)
T 2v9t_B           97 KSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNP  163 (220)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             HhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCC
Confidence            76 58899999999999999977  7899999999999999999988764 8899999999999986

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.44  E-value=7.8e-13  Score=131.73  Aligned_cols=136  Identities=20%  Similarity=0.249  Sum_probs=117.8

Q ss_pred             cCCccccCCCCCCcEEEcCCCCCCCCCC-c-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc
Q 003328           10 VEKKMEETIRKDPIAISLPQRDIQELPE-R-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP   86 (829)
Q Consensus        10 ~~~~~~~~~~~~l~~L~l~~~~~~~l~~-~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp   86 (829)
                      +..+|. ..++.+++|++++|.+..+++ . + .+++|++|++++|.    +..++...|.++++|++|++++|.++.+|
T Consensus        23 l~~iP~-~~~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~----i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~   97 (220)
T 2v70_A           23 LNKIPE-HIPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNK----ITDIEEGAFEGASGVNEILLTSNRLENVQ   97 (220)
T ss_dssp             CSSCCS-CCCTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSC----CCEECTTTTTTCTTCCEEECCSSCCCCCC
T ss_pred             cccCcc-CCCCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCc----CCEECHHHhCCCCCCCEEECCCCccCccC
Confidence            334442 345688999999999998843 2 3 89999999999999    67777766899999999999999999876


Q ss_pred             h-hhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCCC
Q 003328           87 S-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCSS  150 (829)
Q Consensus        87 ~-~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~~  150 (829)
                      . .+..+++|++|++++|.+..+  ..+.++.+|++|++++|.++.+ |..+..+++|++|++++|..
T Consensus        98 ~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l  165 (220)
T 2v70_A           98 HKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPF  165 (220)
T ss_dssp             GGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCCE
T ss_pred             HhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcCC
Confidence            5 488999999999999999977  7899999999999999999988 77899999999999999873

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.44  E-value=3.2e-13  Score=128.44  Aligned_cols=136  Identities=23%  Similarity=0.200  Sum_probs=68.5

Q ss_pred             CCccEEEecCCCCC--CCchhhcCCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCcc-chhhhcCCCCCCEEecc
Q 003328           70 EELKVLSLIGIHFS--SLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQ-LPLEIGQLTRLQLLDLS  146 (829)
Q Consensus        70 ~~Lr~L~L~~~~i~--~lp~~l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~-lp~~i~~L~~L~~L~l~  146 (829)
                      ++|++|++++|.++  .+|..+..+++|++|++++|.++.+..++.+++|++|++++|.++. +|..++++++|++|+++
T Consensus        24 ~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls  103 (168)
T 2ell_A           24 AAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLS  103 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCCSSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEECB
T ss_pred             ccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCChhhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEecc
Confidence            45555555555555  4555555555555555555555544455555555555555555554 44444455555555555


Q ss_pred             CCCCCCccCh-hhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcC
Q 003328          147 NCSSLVVIAP-NVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILP  211 (829)
Q Consensus       147 ~~~~l~~lp~-~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~  211 (829)
                      +|. +..++. ..++.+++|++|++++|.+.     .........+..+++|+.|++..+....+|
T Consensus       104 ~N~-l~~~~~~~~l~~l~~L~~L~l~~N~l~-----~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~  163 (168)
T 2ell_A          104 GNK-LKDISTLEPLKKLECLKSLDLFNCEVT-----NLNDYRESVFKLLPQLTYLDGYDREDQEAP  163 (168)
T ss_dssp             SSS-CCSSGGGGGGSSCSCCCEEECCSSGGG-----TSTTHHHHHHTTCSSCCEETTEETTSCBCC
T ss_pred             CCc-cCcchhHHHHhcCCCCCEEEeeCCcCc-----chHHHHHHHHHhCccCcEecCCCCChhhcc
Confidence            554 444331 11555555555555555443     111111123445555666655555554444

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.43  E-value=1.2e-12  Score=148.18  Aligned_cols=159  Identities=18%  Similarity=0.159  Sum_probs=134.7

Q ss_pred             CCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEE
Q 003328           19 RKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTL   98 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L   98 (829)
                      .+++++|++++|.+..+|  ..+++|++|++++|.    +..+|. + .+  +|++|++++|.++.+|.   .+++|++|
T Consensus        79 ~~~L~~L~Ls~N~l~~ip--~~l~~L~~L~Ls~N~----l~~ip~-l-~~--~L~~L~Ls~N~l~~lp~---~l~~L~~L  145 (571)
T 3cvr_A           79 PPQITVLEITQNALISLP--ELPASLEYLDACDNR----LSTLPE-L-PA--SLKHLDVDNNQLTMLPE---LPALLEYI  145 (571)
T ss_dssp             CTTCSEEECCSSCCSCCC--CCCTTCCEEECCSSC----CSCCCC-C-CT--TCCEEECCSSCCSCCCC---CCTTCCEE
T ss_pred             cCCCCEEECcCCCCcccc--cccCCCCEEEccCCC----CCCcch-h-hc--CCCEEECCCCcCCCCCC---cCccccEE
Confidence            578999999999999999  457899999999999    566887 3 44  99999999999999988   78999999


Q ss_pred             EccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcc-------cEEEcc
Q 003328           99 CLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRL-------EELYMG  171 (829)
Q Consensus        99 ~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L-------~~L~l~  171 (829)
                      ++++|.++.+..  .+++|++|++++|.++.+|. ++  ++|++|++++|. +..+|.  +..  +|       ++|+++
T Consensus       146 ~Ls~N~l~~lp~--~l~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~Ls~N~-L~~lp~--~~~--~L~~~~~~L~~L~Ls  215 (571)
T 3cvr_A          146 NADNNQLTMLPE--LPTSLEVLSVRNNQLTFLPE-LP--ESLEALDVSTNL-LESLPA--VPV--RNHHSEETEIFFRCR  215 (571)
T ss_dssp             ECCSSCCSCCCC--CCTTCCEEECCSSCCSCCCC-CC--TTCCEEECCSSC-CSSCCC--CC----------CCEEEECC
T ss_pred             eCCCCccCcCCC--cCCCcCEEECCCCCCCCcch-hh--CCCCEEECcCCC-CCchhh--HHH--hhhcccccceEEecC
Confidence            999999998844  68899999999999999998 76  999999999987 778886  443  66       999999


Q ss_pred             CCccccccccCCCccchhhhcCCCCCcEEEeecCCCCC
Q 003328          172 DSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQI  209 (829)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~  209 (829)
                      +|.+.         .....+..+++|+.|++++|.+..
T Consensus       216 ~N~l~---------~lp~~l~~l~~L~~L~L~~N~l~~  244 (571)
T 3cvr_A          216 ENRIT---------HIPENILSLDPTCTIILEDNPLSS  244 (571)
T ss_dssp             SSCCC---------CCCGGGGGSCTTEEEECCSSSCCH
T ss_pred             CCcce---------ecCHHHhcCCCCCEEEeeCCcCCC
Confidence            99875         233455668899999999998753

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.41  E-value=5e-13  Score=124.27  Aligned_cols=122  Identities=21%  Similarity=0.225  Sum_probs=77.7

Q ss_pred             CCCCcEEEcCCCCCC--CCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-CchhhcCCCC
Q 003328           19 RKDPIAISLPQRDIQ--ELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-LPSSLGRLIN   94 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~--~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lp~~l~~l~~   94 (829)
                      ++++++|++++|.+.  .+|..+ .+++|++|++++|.    +..+ . .|.++++|++|++++|.++. +|..+..+++
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~----l~~~-~-~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~   89 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVG----LTSI-A-NLPKLNKLKKLELSDNRVSGGLEVLAEKCPN   89 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSC----CCCC-T-TCCCCTTCCEEECCSSCCCSCTHHHHHHCTT
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCC----CCCc-h-hhhcCCCCCEEECCCCcccchHHHHhhhCCC
Confidence            356777777777776  566554 66677777777666    3344 2 24666777777777777666 6665566666


Q ss_pred             CcEEEccccCCCCc---ccccCCCCCcEEEccCCCCccchh----hhcCCCCCCEEecc
Q 003328           95 LQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSDIKQLPL----EIGQLTRLQLLDLS  146 (829)
Q Consensus        95 Lr~L~L~~~~l~~l---~~i~~L~~L~~L~l~~~~l~~lp~----~i~~L~~L~~L~l~  146 (829)
                      |++|++++|.++.+   ..++.+++|++|++++|.++.+|.    .++.+++|++|+++
T Consensus        90 L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           90 LTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             CCEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             CCEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCC
Confidence            77777766666653   556666666666666666665554    45666666666554

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.40  E-value=1.4e-13  Score=148.88  Aligned_cols=175  Identities=15%  Similarity=0.145  Sum_probs=121.9

Q ss_pred             EEEcCCCCCCCC-CCcc-CCCCCcEEEeecCCCcccccccch----hhhcCCC-CccEEEecCCCCCCC-chhhcCC---
Q 003328           24 AISLPQRDIQEL-PERL-QCPNLQLFLLITKGIAPVSMQISD----LFFEGTE-ELKVLSLIGIHFSSL-PSSLGRL---   92 (829)
Q Consensus        24 ~L~l~~~~~~~l-~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~----~~~~~l~-~Lr~L~L~~~~i~~l-p~~l~~l---   92 (829)
                      .+.++.+.+... |... ..++|++|++++|.    +...+.    ..|.+++ +|++|++++|.++.. +..+..+   
T Consensus         2 ~~~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n~----l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~   77 (362)
T 3goz_A            2 NYKLTLHPGSNPVEEFTSIPHGVTSLDLSLNN----LYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAA   77 (362)
T ss_dssp             EEECCCCTTCCHHHHHHTSCTTCCEEECTTSC----GGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHT
T ss_pred             ccccccccchHHHHHHHhCCCCceEEEccCCC----CChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhc
Confidence            356777777743 3334 34459999999998    556554    4568888 899999999988763 5555554   


Q ss_pred             --CCCcEEEccccCCCCc--c----cccCC-CCCcEEEccCCCCccchh-----hhcCC-CCCCEEeccCCCCCCc----
Q 003328           93 --INLQTLCLDWCQLEDV--A----AIGQL-KKLEILSFRGSDIKQLPL-----EIGQL-TRLQLLDLSNCSSLVV----  153 (829)
Q Consensus        93 --~~Lr~L~L~~~~l~~l--~----~i~~L-~~L~~L~l~~~~l~~lp~-----~i~~L-~~L~~L~l~~~~~l~~----  153 (829)
                        ++|++|++++|.++..  .    .+..+ .+|++|++++|.++..+.     .+..+ ++|++|++++|. ++.    
T Consensus        78 ~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~  156 (362)
T 3goz_A           78 IPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGND-LGIKSSD  156 (362)
T ss_dssp             SCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSC-GGGSCHH
T ss_pred             cCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCc-CCHHHHH
Confidence              8999999999988743  2    35555 899999999998885543     24443 699999999987 553    


Q ss_pred             -cChhhhcCCC-cccEEEccCCccccccccCCCccch-hhhcCC-CCCcEEEeecCCCCC
Q 003328          154 -IAPNVISKFS-RLEELYMGDSFSQWDKVEGGSNASL-AELKGL-SKLTTLEIHVWDAQI  209 (829)
Q Consensus       154 -lp~~~l~~L~-~L~~L~l~~~~~~~~~~~~~~~~~~-~~L~~l-~~L~~L~l~~~~~~~  209 (829)
                       ++.. +..+. +|++|++++|.+.     +.....+ ..+... ++|+.|++++|.+..
T Consensus       157 ~l~~~-l~~~~~~L~~L~Ls~n~l~-----~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~  210 (362)
T 3goz_A          157 ELIQI-LAAIPANVNSLNLRGNNLA-----SKNCAELAKFLASIPASVTSLDLSANLLGL  210 (362)
T ss_dssp             HHHHH-HHTSCTTCCEEECTTSCGG-----GSCHHHHHHHHHTSCTTCCEEECTTSCGGG
T ss_pred             HHHHH-HhcCCccccEeeecCCCCc-----hhhHHHHHHHHHhCCCCCCEEECCCCCCCh
Confidence             2332 45555 8999999998775     1111122 234555 489999999887654

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.39  E-value=6e-13  Score=123.75  Aligned_cols=123  Identities=25%  Similarity=0.352  Sum_probs=56.1

Q ss_pred             CCCcEEEeecCCCcccc-cccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCC-c-ccccCCCCCc
Q 003328           42 PNLQLFLLITKGIAPVS-MQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLED-V-AAIGQLKKLE  118 (829)
Q Consensus        42 ~~Lr~L~l~~~~~~~~~-~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~-l-~~i~~L~~L~  118 (829)
                      ++|++|++++|.   .. ..+|.. +..+++|++|++++|.++.+ ..++.+++|++|++++|.+.. + ..++++++|+
T Consensus        17 ~~l~~L~l~~n~---l~~~~~~~~-~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~   91 (149)
T 2je0_A           17 SDVKELVLDNSR---SNEGKLEGL-TDEFEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLT   91 (149)
T ss_dssp             GGCSEEECTTCB---CBTTBCCSC-CTTCTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCC
T ss_pred             ccCeEEEccCCc---CChhHHHHH-HhhcCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCC
Confidence            345555555554   11 134432 24455555555555554444 344445555555555554444 3 3333445555


Q ss_pred             EEEccCCCCccch--hhhcCCCCCCEEeccCCCCCCccCh---hhhcCCCcccEEEc
Q 003328          119 ILSFRGSDIKQLP--LEIGQLTRLQLLDLSNCSSLVVIAP---NVISKFSRLEELYM  170 (829)
Q Consensus       119 ~L~l~~~~l~~lp--~~i~~L~~L~~L~l~~~~~l~~lp~---~~l~~L~~L~~L~l  170 (829)
                      +|++++|.++.+|  ..++++++|++|++++|. +..++.   ..++.+++|++|++
T Consensus        92 ~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           92 HLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCE-VTNLNDYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             EEECTTSCCCSHHHHGGGGGCTTCCEEECTTCG-GGGSTTHHHHHHHHCTTCCEETT
T ss_pred             EEECCCCcCCChHHHHHHhhCCCCCEEeCcCCc-ccchHHHHHHHHHHCCCcccccC
Confidence            5555555444433  344445555555555443 333333   22444444444443

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.37  E-value=9.1e-13  Score=126.31  Aligned_cols=126  Identities=15%  Similarity=0.141  Sum_probs=73.3

Q ss_pred             CCCCCcEEEcCCCCCCCCCCccCC-CCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhh-cCCCCC
Q 003328           18 IRKDPIAISLPQRDIQELPERLQC-PNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSL-GRLINL   95 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~~~~~-~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l-~~l~~L   95 (829)
                      .+.++++|++++|.+..++....+ ++|++|++++|.    +..++ . |.++++|++|++++|.++.+|..+ ..+++|
T Consensus        17 ~~~~L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~----l~~~~-~-l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L   90 (176)
T 1a9n_A           17 NAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNE----IRKLD-G-FPLLRRLKTLLVNNNRICRIGEGLDQALPDL   90 (176)
T ss_dssp             CTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSC----CCEEC-C-CCCCSSCCEEECCSSCCCEECSCHHHHCTTC
T ss_pred             CcCCceEEEeeCCCCchhHHhhhcCCCCCEEECCCCC----CCccc-c-cccCCCCCEEECCCCcccccCcchhhcCCCC
Confidence            455666666666666666544433 366666666666    33342 2 456666666666666666655443 566666


Q ss_pred             cEEEccccCCCCc-c--cccCCCCCcEEEccCCCCccchhh----hcCCCCCCEEeccCCC
Q 003328           96 QTLCLDWCQLEDV-A--AIGQLKKLEILSFRGSDIKQLPLE----IGQLTRLQLLDLSNCS  149 (829)
Q Consensus        96 r~L~L~~~~l~~l-~--~i~~L~~L~~L~l~~~~l~~lp~~----i~~L~~L~~L~l~~~~  149 (829)
                      ++|++++|.+..+ .  .++.+++|++|++++|.+..+|..    ++.+++|++|++++|.
T Consensus        91 ~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A           91 TELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             CEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTEECC
T ss_pred             CEEECCCCcCCcchhhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCCcCC
Confidence            6666666666554 2  455666666666666666555553    5555566666555544

>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=99.37  E-value=4.2e-13  Score=146.52  Aligned_cols=206  Identities=18%  Similarity=0.237  Sum_probs=152.2

Q ss_pred             cCCCCCCcEEEcCCCCCCCC----CCc--------cCCCCCcEEEeecCCCccccc-ccchhhhcCCCCccEEEecCCCC
Q 003328           16 ETIRKDPIAISLPQRDIQEL----PER--------LQCPNLQLFLLITKGIAPVSM-QISDLFFEGTEELKVLSLIGIHF   82 (829)
Q Consensus        16 ~~~~~~l~~L~l~~~~~~~l----~~~--------~~~~~Lr~L~l~~~~~~~~~~-~lp~~~~~~l~~Lr~L~L~~~~i   82 (829)
                      +..+++|++|++++|.+..+    |..        ..+++|++|++++|....... .+|.. +.++++|++|++++|.+
T Consensus        56 l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~-l~~~~~L~~L~L~~n~l  134 (386)
T 2ca6_A           56 IASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDF-LSKHTPLEHLYLHNNGL  134 (386)
T ss_dssp             TTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTHHHHHHH-HHHCTTCCEEECCSSCC
T ss_pred             HHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHHHHHHHHHH-HHhCCCCCEEECcCCCC
Confidence            45678999999999866643    322        268999999999998321100 25555 58899999999999998


Q ss_pred             CC-----CchhhcCC---------CCCcEEEccccCCC--Cc----ccccCCCCCcEEEccCCCCc------cchhhhcC
Q 003328           83 SS-----LPSSLGRL---------INLQTLCLDWCQLE--DV----AAIGQLKKLEILSFRGSDIK------QLPLEIGQ  136 (829)
Q Consensus        83 ~~-----lp~~l~~l---------~~Lr~L~L~~~~l~--~l----~~i~~L~~L~~L~l~~~~l~------~lp~~i~~  136 (829)
                      +.     ++..+..+         ++|++|++++|++.  .+    ..+.++++|++|++++|.++      -+|..+.+
T Consensus       135 ~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~  214 (386)
T 2ca6_A          135 GPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAY  214 (386)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGG
T ss_pred             CHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhc
Confidence            63     44445555         89999999999886  22    36778999999999999887      23447889


Q ss_pred             CCCCCEEeccCCCCC----CccChhhhcCCCcccEEEccCCccccccccCCCccchhhh--cCCCCCcEEEeecCCCCC-
Q 003328          137 LTRLQLLDLSNCSSL----VVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAEL--KGLSKLTTLEIHVWDAQI-  209 (829)
Q Consensus       137 L~~L~~L~l~~~~~l----~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L--~~l~~L~~L~l~~~~~~~-  209 (829)
                      +++|++|++++|..-    ..+|.. +.++++|++|++++|.+...    ........+  +.+++|+.|++++|.+.. 
T Consensus       215 ~~~L~~L~Ls~n~l~~~g~~~l~~~-l~~~~~L~~L~L~~n~i~~~----~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~  289 (386)
T 2ca6_A          215 CQELKVLDLQDNTFTHLGSSALAIA-LKSWPNLRELGLNDCLLSAR----GAAAVVDAFSKLENIGLQTLRLQYNEIELD  289 (386)
T ss_dssp             CTTCCEEECCSSCCHHHHHHHHHHH-GGGCTTCCEEECTTCCCCHH----HHHHHHHHHHTCSSCCCCEEECCSSCCBHH
T ss_pred             CCCccEEECcCCCCCcHHHHHHHHH-HccCCCcCEEECCCCCCchh----hHHHHHHHHhhccCCCeEEEECcCCcCCHH
Confidence            999999999998831    556665 88999999999999976510    001123444  348899999999999876 


Q ss_pred             ----cCCcc--ccccccEEEEEEc
Q 003328          210 ----LPQDW--VSVELQRYKICIG  227 (829)
Q Consensus       210 ----~~~~~--~~~~L~~L~l~~~  227 (829)
                          ++..+  .+++|+.|++.++
T Consensus       290 g~~~l~~~l~~~l~~L~~L~l~~N  313 (386)
T 2ca6_A          290 AVRTLKTVIDEKMPDLLFLELNGN  313 (386)
T ss_dssp             HHHHHHHHHHHHCTTCCEEECTTS
T ss_pred             HHHHHHHHHHhcCCCceEEEccCC
Confidence                55554  3689999988643

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.35  E-value=4.1e-12  Score=123.53  Aligned_cols=104  Identities=20%  Similarity=0.332  Sum_probs=47.9

Q ss_pred             CccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccC
Q 003328           71 ELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSN  147 (829)
Q Consensus        71 ~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~  147 (829)
                      +|++|++++|.++.+|..+..+++|++|++++|.++.+  ..|.++.+|++|++++|.++.+|. .++++++|++|++++
T Consensus        32 ~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L~~  111 (193)
T 2wfh_A           32 DVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHG  111 (193)
T ss_dssp             TCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCS
T ss_pred             CCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCEeCHHHhCCCCCCCEEECCC
Confidence            34444444444444444444444444444444444433  234444444455554444444432 244455555555554


Q ss_pred             CCCCCccChhhhcCCCcccEEEccCCcc
Q 003328          148 CSSLVVIAPNVISKFSRLEELYMGDSFS  175 (829)
Q Consensus       148 ~~~l~~lp~~~l~~L~~L~~L~l~~~~~  175 (829)
                      |. +..+|.+.+..+++|++|++++|.+
T Consensus       112 N~-l~~~~~~~~~~l~~L~~L~L~~N~~  138 (193)
T 2wfh_A          112 ND-ISVVPEGAFNDLSALSHLAIGANPL  138 (193)
T ss_dssp             SC-CCBCCTTTTTTCTTCCEEECCSSCE
T ss_pred             CC-CCeeChhhhhcCccccEEEeCCCCe
Confidence            43 4444443344455555555554433

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.35  E-value=7.9e-13  Score=155.46  Aligned_cols=155  Identities=16%  Similarity=0.164  Sum_probs=100.4

Q ss_pred             CCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEE
Q 003328           20 KDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTL   98 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L   98 (829)
                      +++++|++.++.+...+... ....|+.+.+...........++...|..+++|++|+|++|.+..+|..+..+++|++|
T Consensus       173 ~~~~~l~L~~n~~~~~~~~~l~~l~Ls~~~i~~~~~~~n~~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~L  252 (727)
T 4b8c_D          173 PLTPKIELFANGKDEANQALLQHKKLSQYSIDEDDDIENRMVMPKDSKYDDQLWHALDLSNLQIFNISANIFKYDFLTRL  252 (727)
T ss_dssp             -------------------------------------------------CCCCCCEEECTTSCCSCCCGGGGGCCSCSCC
T ss_pred             CccceEEeeCCCCCcchhhHhhcCccCcccccCccccccceecChhhhccCCCCcEEECCCCCCCCCChhhcCCCCCCEE
Confidence            56899999999888766443 44444444433321111112245555789999999999999999999999999999999


Q ss_pred             EccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328           99 CLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus        99 ~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +|++|.++.+ ..|++|.+|++|+|++|.++.+|..+++|++|++|++++|. ++.+|.. ++++++|++|++++|.+.
T Consensus       253 ~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~-l~~lp~~-~~~l~~L~~L~L~~N~l~  329 (727)
T 4b8c_D          253 YLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNM-VTTLPWE-FGNLCNLQFLGVEGNPLE  329 (727)
T ss_dssp             BCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEEECCSSC-CCCCCSS-TTSCTTCCCEECTTSCCC
T ss_pred             EeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEEECCCCC-CCccChh-hhcCCCccEEeCCCCccC
Confidence            9999999988 88999999999999999999999999999999999999986 7899988 899999999999999775

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.35  E-value=4.3e-12  Score=123.38  Aligned_cols=122  Identities=20%  Similarity=0.290  Sum_probs=90.6

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccch-hhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISD-LFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCL  100 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~-~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L  100 (829)
                      ++++++++++.++|..+. +++++|++++|.    +..++. .+|.++++|++|++++|.++.+ |..+..+++|++|++
T Consensus        11 ~~l~~s~~~l~~ip~~~~-~~l~~L~l~~n~----i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L   85 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDIP-LHTTELLLNDNE----LGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQL   85 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC-TTCSEEECCSCC----CCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CEEEcCCCCcCcCccCCC-CCCCEEECCCCc----CCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEEC
Confidence            678888888888876542 378888888887    555554 3457888888888888888774 667778888888888


Q ss_pred             cccCCCCc--ccccCCCCCcEEEccCCCCccc-hhhhcCCCCCCEEeccCCC
Q 003328          101 DWCQLEDV--AAIGQLKKLEILSFRGSDIKQL-PLEIGQLTRLQLLDLSNCS  149 (829)
Q Consensus       101 ~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~l-p~~i~~L~~L~~L~l~~~~  149 (829)
                      ++|+++.+  ..+.++++|++|++++|.++.+ |..++.+++|++|++++|.
T Consensus        86 s~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  137 (192)
T 1w8a_A           86 GENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             CSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCC
T ss_pred             CCCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCC
Confidence            88887766  4577788888888888877755 5567777777777777766

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.33  E-value=1e-11  Score=120.71  Aligned_cols=121  Identities=21%  Similarity=0.344  Sum_probs=109.0

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEcc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLD  101 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~L~  101 (829)
                      ++++++++.+.++|..+ .++|++|++++|.    +..+|.. |.++++|++|++++|.++.++ ..+..+++|++|+|+
T Consensus        13 ~~l~~~~~~l~~ip~~~-~~~l~~L~L~~n~----i~~ip~~-~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls   86 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKGI-PRDVTELYLDGNQ----FTLVPKE-LSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILS   86 (193)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCCEEECCSSC----CCSCCGG-GGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CEEEcCCCCCCcCCCCC-CCCCCEEECCCCc----CchhHHH-hhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECC
Confidence            68999999999999765 3689999999999    6788855 699999999999999999876 468999999999999


Q ss_pred             ccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCC
Q 003328          102 WCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCS  149 (829)
Q Consensus       102 ~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~  149 (829)
                      +|.++.+  ..|.++++|++|++++|.++.+|.. +..+++|++|++.+|.
T Consensus        87 ~N~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A           87 YNRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANP  137 (193)
T ss_dssp             SSCCCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCccCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCC
Confidence            9999988  5799999999999999999999875 8899999999999976

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.32  E-value=3e-12  Score=122.67  Aligned_cols=127  Identities=14%  Similarity=0.102  Sum_probs=59.1

Q ss_pred             CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc-cc-ccCCCCC
Q 003328           40 QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AA-IGQLKKL  117 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l-~~-i~~L~~L  117 (829)
                      ++++|++|++++|.    +..+|. +....++|++|++++|.++.+ ..+..+++|++|++++|.++.+ .. ++.+++|
T Consensus        17 ~~~~L~~L~l~~n~----l~~i~~-~~~~~~~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L   90 (176)
T 1a9n_A           17 NAVRDRELDLRGYK----IPVIEN-LGATLDQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDL   90 (176)
T ss_dssp             CTTSCEEEECTTSC----CCSCCC-GGGGTTCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTC
T ss_pred             CcCCceEEEeeCCC----CchhHH-hhhcCCCCCEEECCCCCCCcc-cccccCCCCCEEECCCCcccccCcchhhcCCCC
Confidence            44455555555554    233332 112222555555555555444 3444555555555555555444 22 2455555


Q ss_pred             cEEEccCCCCccchh--hhcCCCCCCEEeccCCCCCCccChh---hhcCCCcccEEEccCC
Q 003328          118 EILSFRGSDIKQLPL--EIGQLTRLQLLDLSNCSSLVVIAPN---VISKFSRLEELYMGDS  173 (829)
Q Consensus       118 ~~L~l~~~~l~~lp~--~i~~L~~L~~L~l~~~~~l~~lp~~---~l~~L~~L~~L~l~~~  173 (829)
                      ++|++++|.++.+|.  .++++++|++|++++|. +..+|..   .++.+++|++|+++++
T Consensus        91 ~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~-i~~~~~~~~~~~~~l~~L~~Ld~~~n  150 (176)
T 1a9n_A           91 TELILTNNSLVELGDLDPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDFQKV  150 (176)
T ss_dssp             CEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETTEEC
T ss_pred             CEEECCCCcCCcchhhHhhhcCCCCCEEEecCCC-CCCcHhHHHHHHHHCCccceeCCCcC
Confidence            555555555554444  44455555555555544 3333332   2444444555444444

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.31  E-value=1.4e-11  Score=118.03  Aligned_cols=123  Identities=21%  Similarity=0.298  Sum_probs=83.4

Q ss_pred             CcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh-hcCCCCCcEEEc
Q 003328           22 PIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS-LGRLINLQTLCL  100 (829)
Q Consensus        22 l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~-l~~l~~Lr~L~L  100 (829)
                      .+.++++++++..+|... .++|++|++++|.    +..++...|.++++|++|++++|.++.+|.. +..+++|++|++
T Consensus         9 ~~~l~~~~~~l~~~p~~~-~~~l~~L~l~~n~----l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l   83 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVPTGI-PSSATRLELESNK----LQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYL   83 (177)
T ss_dssp             TTEEECCSSCCSSCCTTC-CTTCSEEECCSSC----CCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCEEEecCCCCccCCCCC-CCCCcEEEeCCCc----ccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEEC
Confidence            356777777777777443 3577777777777    5566665567777777777777777776544 467777777777


Q ss_pred             cccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCC
Q 003328          101 DWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCS  149 (829)
Q Consensus       101 ~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~  149 (829)
                      ++|.++.+  ..++++++|++|++++|.++.+|.. +.++++|++|++++|.
T Consensus        84 ~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~  135 (177)
T 2o6r_A           84 HENKLQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNP  135 (177)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCCCccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCC
Confidence            77776665  3456677777777777776666654 3556667777666665

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.31  E-value=5.8e-12  Score=122.50  Aligned_cols=124  Identities=19%  Similarity=0.228  Sum_probs=86.2

Q ss_pred             cEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh--hcCCCCCcEEEccccCCCCc--ccccCCCCCcEE
Q 003328           45 QLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS--LGRLINLQTLCLDWCQLEDV--AAIGQLKKLEIL  120 (829)
Q Consensus        45 r~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~--l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L  120 (829)
                      ++++++++.    +..+|..++   .+|++|++++|.++.++..  +..+++|++|++++|.++.+  ..++++.+|++|
T Consensus        11 ~~l~~s~~~----l~~ip~~~~---~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L   83 (192)
T 1w8a_A           11 TTVDCTGRG----LKEIPRDIP---LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQEL   83 (192)
T ss_dssp             TEEECTTSC----CSSCCSCCC---TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEE
T ss_pred             CEEEcCCCC----cCcCccCCC---CCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEE
Confidence            677777777    566776542   3777788887777776643  67777788888877777766  567777777777


Q ss_pred             EccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328          121 SFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       121 ~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      ++++|.++.++.. ++++++|++|++++|. +..+++..++.+++|++|++++|.+.
T Consensus        84 ~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           84 QLGENKIKEISNKMFLGLHQLKTLNLYDNQ-ISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             ECCSCCCCEECSSSSTTCTTCCEEECCSSC-CCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             ECCCCcCCccCHHHhcCCCCCCEEECCCCc-CCeeCHHHhhcCCCCCEEEeCCCCcc
Confidence            7777777766544 6777777777777776 44443333677777777777776554

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.27  E-value=3.5e-12  Score=149.98  Aligned_cols=131  Identities=24%  Similarity=0.265  Sum_probs=111.5

Q ss_pred             CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc-ccccCCCCCc
Q 003328           40 QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLE  118 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l-~~i~~L~~L~  118 (829)
                      .+++|++|++++|.    +..+|..+| ++++|++|+|++|.++.+|..++.+++|++|+|++|.++.+ ..|++|.+|+
T Consensus       222 ~l~~L~~L~Ls~n~----l~~l~~~~~-~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~  296 (727)
T 4b8c_D          222 DDQLWHALDLSNLQ----IFNISANIF-KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLK  296 (727)
T ss_dssp             CCCCCCEEECTTSC----CSCCCGGGG-GCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCS
T ss_pred             cCCCCcEEECCCCC----CCCCChhhc-CCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCC
Confidence            78999999999999    668998874 89999999999999999999999999999999999999988 8899999999


Q ss_pred             EEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCc-ccEEEccCCccc
Q 003328          119 ILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSR-LEELYMGDSFSQ  176 (829)
Q Consensus       119 ~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~-L~~L~l~~~~~~  176 (829)
                      +|+|++|.++.+|.+|++|++|++|++++|...+.+|.. ++.+.. +..+++++|.+.
T Consensus       297 ~L~L~~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~p~~-~~~~~~~~~~l~l~~N~l~  354 (727)
T 4b8c_D          297 YFYFFDNMVTTLPWEFGNLCNLQFLGVEGNPLEKQFLKI-LTEKSVTGLIFYLRDNRPE  354 (727)
T ss_dssp             EEECCSSCCCCCCSSTTSCTTCCCEECTTSCCCSHHHHH-HHHHHHHHHHHHHHHCCCC
T ss_pred             EEECCCCCCCccChhhhcCCCccEEeCCCCccCCCChHH-HhhcchhhhHHhhccCccc
Confidence            999999999999999999999999999999844444543 443321 223556666543

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.21  E-value=9.9e-11  Score=112.15  Aligned_cols=125  Identities=21%  Similarity=0.325  Sum_probs=97.6

Q ss_pred             CcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh-hcCCCCCcEEEccccCCCCc--ccccCCCCCcEE
Q 003328           44 LQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS-LGRLINLQTLCLDWCQLEDV--AAIGQLKKLEIL  120 (829)
Q Consensus        44 Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~-l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L  120 (829)
                      .+.+++.++.    +..+|..+   .++|++|++++|.++.+|.. +..+++|++|++++|.++.+  ..++++.+|++|
T Consensus         9 ~~~l~~~~~~----l~~~p~~~---~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L   81 (177)
T 2o6r_A            9 GTEIRCNSKG----LTSVPTGI---PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTIL   81 (177)
T ss_dssp             TTEEECCSSC----CSSCCTTC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCEEEecCCC----CccCCCCC---CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEE
Confidence            4677887777    66777543   46888899988888887654 57888888888888888877  447888888888


Q ss_pred             EccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328          121 SFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       121 ~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      ++++|.++.+|.. ++++++|++|++++|. +..+|...+..+++|++|++++|.+.
T Consensus        82 ~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~~  137 (177)
T 2o6r_A           82 YLHENKLQSLPNGVFDKLTQLKELALDTNQ-LKSVPDGIFDRLTSLQKIWLHTNPWD  137 (177)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             ECCCCCccccCHHHhhCCcccCEEECcCCc-ceEeCHHHhcCCcccCEEEecCCCee
Confidence            8888888877765 5788888888888876 67777764577888888888887654

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.20  E-value=5.2e-13  Score=130.77  Aligned_cols=123  Identities=20%  Similarity=0.260  Sum_probs=80.7

Q ss_pred             CCcEEEcCCC--CCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcE
Q 003328           21 DPIAISLPQR--DIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQT   97 (829)
Q Consensus        21 ~l~~L~l~~~--~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~   97 (829)
                      .++...+.+.  .++.+|..+ .+++|++|++++|.    +..+| . +.++++|++|++++|.++.+|..+..+++|++
T Consensus        24 ~l~~~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n~----l~~l~-~-~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~   97 (198)
T 1ds9_A           24 EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNN----IEKIS-S-LSGMENLRILSLGRNLIKKIENLDAVADTLEE   97 (198)
T ss_dssp             TCSEEECCBCCTTCCCCHHHHHHTTTCSEEECSEEE----ESCCC-C-HHHHTTCCEEEEEEEEECSCSSHHHHHHHCSE
T ss_pred             chheeEeccccCcHhhhhHHHhcCCCCCEEECCCCC----Ccccc-c-cccCCCCCEEECCCCCcccccchhhcCCcCCE
Confidence            4455555543  344444444 66777777777776    44565 3 46677777777777777777766666677777


Q ss_pred             EEccccCCCCcccccCCCCCcEEEccCCCCccchh--hhcCCCCCCEEeccCCC
Q 003328           98 LCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPL--EIGQLTRLQLLDLSNCS  149 (829)
Q Consensus        98 L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~--~i~~L~~L~~L~l~~~~  149 (829)
                      |++++|.++.+..++++++|++|++++|.++.+|.  .++++++|++|++++|.
T Consensus        98 L~L~~N~l~~l~~~~~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~  151 (198)
T 1ds9_A           98 LWISYNQIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             EEEEEEECCCHHHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCH
T ss_pred             EECcCCcCCcCCccccCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCc
Confidence            77777777666556677777777777777766554  56677777777777665

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.19  E-value=4.3e-11  Score=136.24  Aligned_cols=123  Identities=21%  Similarity=0.236  Sum_probs=105.2

Q ss_pred             CccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCC
Q 003328           71 ELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCS  149 (829)
Q Consensus        71 ~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~  149 (829)
                      .|++|++++|.++.+|. ++.+++|++|++++|.++.+ ..++++++|++|++++|.++.+| .++++++|++|++++|.
T Consensus       442 ~L~~L~Ls~n~l~~lp~-~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~Ls~N~  519 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNNR  519 (567)
T ss_dssp             TCSEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSC
T ss_pred             CceEEEecCCCCCCCcC-ccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEECCCCC
Confidence            59999999999999997 99999999999999999988 89999999999999999999999 89999999999999987


Q ss_pred             CCCcc--ChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEe
Q 003328          150 SLVVI--APNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEI  202 (829)
Q Consensus       150 ~l~~l--p~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l  202 (829)
                       +..+  |.. ++.+++|++|++++|.+.     +..+....-...+++|+.|++
T Consensus       520 -l~~~~~p~~-l~~l~~L~~L~L~~N~l~-----~~~~~~~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          520 -LQQSAAIQP-LVSCPRLVLLNLQGNSLC-----QEEGIQERLAEMLPSVSSILT  567 (567)
T ss_dssp             -CCSSSTTGG-GGGCTTCCEEECTTSGGG-----GSSSCTTHHHHHCTTCSEEEC
T ss_pred             -CCCCCCcHH-HhcCCCCCEEEecCCcCC-----CCccHHHHHHHHCcccCccCC
Confidence             6666  666 999999999999999875     222222223344778888764

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.18  E-value=7.6e-11  Score=134.20  Aligned_cols=194  Identities=17%  Similarity=0.181  Sum_probs=150.5

Q ss_pred             CCCCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCc----------ccccccchhhhcCCCCccEEE-ecCCCCCCC
Q 003328           18 IRKDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIA----------PVSMQISDLFFEGTEELKVLS-LIGIHFSSL   85 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~----------~~~~~lp~~~~~~l~~Lr~L~-L~~~~i~~l   85 (829)
                      ..+++++|++++|.++.+|..+ ++++|+.|++.+|...          ......|. .++++++|+.|+ ++.+.+..+
T Consensus       347 ~~~~L~~L~Ls~n~L~~Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~-~l~~l~~L~~L~~l~~n~~~~L  425 (567)
T 1dce_A          347 TDEQLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKE-TLQYFSTLKAVDPMRAAYLDDL  425 (567)
T ss_dssp             TTTTSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHH-HHHHHHHHHHHCGGGHHHHHHH
T ss_pred             cCccceeccCChhhHHhhHHHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHH-HHHHHHhcccCcchhhcccchh
Confidence            4567888888888888888776 7888988888655200          01233343 458889999998 555544333


Q ss_pred             ch------hhcC--CCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChh
Q 003328           86 PS------SLGR--LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPN  157 (829)
Q Consensus        86 p~------~l~~--l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~  157 (829)
                      +.      .+..  ...|++|++++|.++.++.++++++|++|++++|.++.+|..++++++|++|++++|. +..+| .
T Consensus       426 ~~l~l~~n~i~~l~~~~L~~L~Ls~n~l~~lp~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~-l~~lp-~  503 (567)
T 1dce_A          426 RSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNA-LENVD-G  503 (567)
T ss_dssp             HHHHHHHHHHHHHHHTTCSEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSC-CCCCG-G
T ss_pred             hhhhhhcccccccCccCceEEEecCCCCCCCcCccccccCcEeecCcccccccchhhhcCCCCCEEECCCCC-CCCCc-c
Confidence            21      1111  1359999999999999955999999999999999999999999999999999999987 77788 4


Q ss_pred             hhcCCCcccEEEccCCccccccccCCCccc-hhhhcCCCCCcEEEeecCCCCCcCCcc-----ccccccEEE
Q 003328          158 VISKFSRLEELYMGDSFSQWDKVEGGSNAS-LAELKGLSKLTTLEIHVWDAQILPQDW-----VSVELQRYK  223 (829)
Q Consensus       158 ~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~-~~~L~~l~~L~~L~l~~~~~~~~~~~~-----~~~~L~~L~  223 (829)
                       ++++++|++|++++|.+.        ... +..++.+++|+.|++++|.+..++...     .+++|+.|+
T Consensus       504 -l~~l~~L~~L~Ls~N~l~--------~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          504 -VANLPRLQELLLCNNRLQ--------QSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             -GTTCSSCCEEECCSSCCC--------SSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             -cCCCCCCcEEECCCCCCC--------CCCCcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccC
Confidence             999999999999999875        122 567888999999999999988776643     367888774

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.14  E-value=8e-13  Score=129.41  Aligned_cols=153  Identities=21%  Similarity=0.226  Sum_probs=113.0

Q ss_pred             CCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc-ccccCCCCCcEEE
Q 003328           43 NLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILS  121 (829)
Q Consensus        43 ~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l-~~i~~L~~L~~L~  121 (829)
                      .++...+.+..  +.+..+|.. |.++++|++|++++|.++.+| .+..+++|++|++++|.++.+ ..+..+++|++|+
T Consensus        24 ~l~~~~l~~~~--~~l~~l~~~-~~~l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~   99 (198)
T 1ds9_A           24 EAEKVELHGMI--PPIEKMDAT-LSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELW   99 (198)
T ss_dssp             TCSEEECCBCC--TTCCCCHHH-HHHTTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEE
T ss_pred             chheeEecccc--CcHhhhhHH-HhcCCCCCEEECCCCCCcccc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEE
Confidence            45555555542  125566665 589999999999999999888 888999999999999998888 6677788999999


Q ss_pred             ccCCCCccchhhhcCCCCCCEEeccCCCCCCccCh-hhhcCCCcccEEEccCCccccccccCC--CccchhhhcCCCCCc
Q 003328          122 FRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAP-NVISKFSRLEELYMGDSFSQWDKVEGG--SNASLAELKGLSKLT  198 (829)
Q Consensus       122 l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~-~~l~~L~~L~~L~l~~~~~~~~~~~~~--~~~~~~~L~~l~~L~  198 (829)
                      +++|.++.+| .++++++|++|++++|. +..++. ..+..+++|++|++++|.+........  .......+..+++|+
T Consensus       100 L~~N~l~~l~-~~~~l~~L~~L~l~~N~-i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~  177 (198)
T 1ds9_A          100 ISYNQIASLS-GIEKLVNLRVLYMSNNK-ITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLK  177 (198)
T ss_dssp             EEEEECCCHH-HHHHHHHSSEEEESEEE-CCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCS
T ss_pred             CcCCcCCcCC-ccccCCCCCEEECCCCc-CCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhCCCcE
Confidence            9999999887 68889999999999887 666554 237889999999999887641000000  011122356677788


Q ss_pred             EEE
Q 003328          199 TLE  201 (829)
Q Consensus       199 ~L~  201 (829)
                      .|+
T Consensus       178 ~Ld  180 (198)
T 1ds9_A          178 KLD  180 (198)
T ss_dssp             EEC
T ss_pred             EEC
Confidence            775

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.10  E-value=4.2e-10  Score=107.13  Aligned_cols=80  Identities=24%  Similarity=0.377  Sum_probs=43.3

Q ss_pred             CCccEEEecCCCCCCC-chhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEec
Q 003328           70 EELKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDL  145 (829)
Q Consensus        70 ~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l  145 (829)
                      ++|++|++++|.++.+ |..+..+++|++|+|++|+++.+  ..+.++.+|++|++++|.++.+|.. ++++++|++|++
T Consensus        33 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L  112 (174)
T 2r9u_A           33 TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSLTHIYL  112 (174)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEEC
T ss_pred             CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCccceeCHHHhccccCCCEEEe
Confidence            4455555555555543 33445555555555555555544  2245555666666666655555544 555666666666


Q ss_pred             cCCC
Q 003328          146 SNCS  149 (829)
Q Consensus       146 ~~~~  149 (829)
                      ++|.
T Consensus       113 ~~N~  116 (174)
T 2r9u_A          113 YNNP  116 (174)
T ss_dssp             CSSC
T ss_pred             CCCC
Confidence            6554

>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=99.07  E-value=7.1e-10  Score=105.19  Aligned_cols=80  Identities=29%  Similarity=0.375  Sum_probs=38.2

Q ss_pred             CCccEEEecCCCCCCC-chhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEec
Q 003328           70 EELKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDL  145 (829)
Q Consensus        70 ~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l  145 (829)
                      ++|++|++++|.++.+ |..+..+++|++|+|++|+++.+  ..+.++.+|++|++++|.++.+|.. ++++++|++|++
T Consensus        30 ~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  109 (170)
T 3g39_A           30 TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLKSIPRGAFDNLKSLTHIWL  109 (170)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCccCEeCHHHhcCCCCCCEEEe
Confidence            3444444444444443 23344444444444444444444  2244555555555555555555443 455555555555


Q ss_pred             cCCC
Q 003328          146 SNCS  149 (829)
Q Consensus       146 ~~~~  149 (829)
                      ++|.
T Consensus       110 ~~N~  113 (170)
T 3g39_A          110 LNNP  113 (170)
T ss_dssp             CSSC
T ss_pred             CCCC
Confidence            5544

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.07  E-value=5e-10  Score=106.61  Aligned_cols=102  Identities=22%  Similarity=0.375  Sum_probs=90.2

Q ss_pred             ccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCC
Q 003328           72 LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNC  148 (829)
Q Consensus        72 Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~  148 (829)
                      -++++++++.++.+|..+.  .+|++|++++|.++.+  ..|+++++|++|++++|.++.+|.. ++++++|++|++++|
T Consensus        14 ~~~l~~~~n~l~~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N   91 (174)
T 2r9u_A           14 QTLVNCQNIRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDN   91 (174)
T ss_dssp             SSEEECCSSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CcEEEeCCCCCCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCC
Confidence            4789999999999998775  8999999999999987  6789999999999999999999876 589999999999998


Q ss_pred             CCCCccChhhhcCCCcccEEEccCCccc
Q 003328          149 SSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       149 ~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      . +..+|.+.++.+++|++|++++|.+.
T Consensus        92 ~-l~~l~~~~~~~l~~L~~L~L~~N~~~  118 (174)
T 2r9u_A           92 H-LKSIPRGAFDNLKSLTHIYLYNNPWD  118 (174)
T ss_dssp             C-CCCCCTTTTTTCTTCSEEECCSSCBC
T ss_pred             c-cceeCHHHhccccCCCEEEeCCCCcc
Confidence            7 77888766788999999999988764

>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=99.06  E-value=6e-10  Score=105.67  Aligned_cols=103  Identities=19%  Similarity=0.300  Sum_probs=90.7

Q ss_pred             CccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccC
Q 003328           71 ELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSN  147 (829)
Q Consensus        71 ~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~  147 (829)
                      ..++++++++.++.+|..+.  .+|++|++++|.++.+  ..|.++.+|++|++++|.++.+|.. +.++++|++|++++
T Consensus        10 ~~~~l~~s~n~l~~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~   87 (170)
T 3g39_A           10 SGTTVDCSGKSLASVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLND   87 (170)
T ss_dssp             ETTEEECTTSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCCEEEeCCCCcCccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCC
Confidence            46789999999999998774  8999999999999987  6799999999999999999998876 58999999999999


Q ss_pred             CCCCCccChhhhcCCCcccEEEccCCccc
Q 003328          148 CSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       148 ~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      |. +..++.+.+.++++|++|++++|.+.
T Consensus        88 N~-l~~~~~~~~~~l~~L~~L~L~~N~~~  115 (170)
T 3g39_A           88 NQ-LKSIPRGAFDNLKSLTHIWLLNNPWD  115 (170)
T ss_dssp             SC-CCCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             Cc-cCEeCHHHhcCCCCCCEEEeCCCCCC
Confidence            87 77888765788999999999988764

>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=98.97  E-value=1.7e-09  Score=114.80  Aligned_cols=189  Identities=17%  Similarity=0.158  Sum_probs=131.1

Q ss_pred             CCCCcEEEcCCCCCC--------------------CCCCcc--C--------CCCCcEEEeecCCCcccccccchhhhcC
Q 003328           19 RKDPIAISLPQRDIQ--------------------ELPERL--Q--------CPNLQLFLLITKGIAPVSMQISDLFFEG   68 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~--------------------~l~~~~--~--------~~~Lr~L~l~~~~~~~~~~~lp~~~~~~   68 (829)
                      +++|++|++++|.+.                    .+|...  .        |++|+.+.+.+ .    +..+++..|.+
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~L~~l~L~~-~----i~~I~~~aF~~  122 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQTLEKVILSE-K----IKNIEDAAFKG  122 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTTCCC-CBCT-T----CCEECTTTTTT
T ss_pred             hccCeEEecCcceeEEecCccccccccccccccccccCHHHhcccccccccccCCCcEEECCc-c----ccchhHHHhhc
Confidence            678999999988877                    334322  5        78888888877 5    57788777888


Q ss_pred             CCCccEEEecCCCCCCCc-hhhcCCCCCcEEEccccCC----CCc--c--------------------------------
Q 003328           69 TEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQL----EDV--A--------------------------------  109 (829)
Q Consensus        69 l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~L~~~~l----~~l--~--------------------------------  109 (829)
                      +++|+.++++++.+..++ ..+..+.++.++.+.....    ..+  .                                
T Consensus       123 ~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~L~~~i~~~~~~~l~~~~~~~~~~~~  202 (329)
T 3sb4_A          123 CDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETTIQVGAMGKLEDEIMKAGLQPR  202 (329)
T ss_dssp             CTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCCCEEEEEECTTCCHHHHHHHTTCCGG
T ss_pred             CcccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccccccccccccccccceeEEecCCCcHHHHHhhcccCcc
Confidence            888888888888776644 3456666666666544110    000  0                                


Q ss_pred             -----------------cc-cCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCccc-EEE
Q 003328          110 -----------------AI-GQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLE-ELY  169 (829)
Q Consensus       110 -----------------~i-~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~-~L~  169 (829)
                                       .+ ..+.+|+.+++++|.++.+|.. +.++++|+.+++.++  +..++.+.+..+.+|+ .++
T Consensus       203 ~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n--i~~I~~~aF~~~~~L~~~l~  280 (329)
T 3sb4_A          203 DINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN--LKTIGQRVFSNCGRLAGTLE  280 (329)
T ss_dssp             GCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCEEEE
T ss_pred             ccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc--cceehHHHhhCChhccEEEE
Confidence                             00 1267888999988888888765 788889999988875  7778877788888888 888


Q ss_pred             ccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc--ccccccEEE
Q 003328          170 MGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW--VSVELQRYK  223 (829)
Q Consensus       170 l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~  223 (829)
                      +... +.        ......+.++++|+.+++..+.+..++...  .+.+|+.++
T Consensus       281 l~~~-l~--------~I~~~aF~~c~~L~~l~l~~n~i~~I~~~aF~~~~~L~~ly  327 (329)
T 3sb4_A          281 LPAS-VT--------AIEFGAFMGCDNLRYVLATGDKITTLGDELFGNGVPSKLIY  327 (329)
T ss_dssp             ECTT-CC--------EECTTTTTTCTTEEEEEECSSCCCEECTTTTCTTCCCCEEE
T ss_pred             Eccc-ce--------EEchhhhhCCccCCEEEeCCCccCccchhhhcCCcchhhhc
Confidence            8763 21        123345667888888888888877776653  566777653

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.81  E-value=9.4e-10  Score=118.35  Aligned_cols=153  Identities=14%  Similarity=0.044  Sum_probs=84.4

Q ss_pred             CCCcEEEcCCCCCCCC-----CCcc--CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-----Cch
Q 003328           20 KDPIAISLPQRDIQEL-----PERL--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-----LPS   87 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l-----~~~~--~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-----lp~   87 (829)
                      +++++|++++|.+...     ...+  ..++|++|++++|..   ...-...++..+++|++|+|++|.++.     +..
T Consensus        72 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l---~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~  148 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQL---DPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRD  148 (372)
T ss_dssp             TTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCC---CHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHH
T ss_pred             hhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCC---CHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHH
Confidence            4667777777766532     1111  235677777777662   121122233445567777777776653     222


Q ss_pred             hh-cCCCCCcEEEccccCCCC-----c-ccccCCCCCcEEEccCCCCcc-----chhhhcCCCCCCEEeccCCCCCCccC
Q 003328           88 SL-GRLINLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRGSDIKQ-----LPLEIGQLTRLQLLDLSNCSSLVVIA  155 (829)
Q Consensus        88 ~l-~~l~~Lr~L~L~~~~l~~-----l-~~i~~L~~L~~L~l~~~~l~~-----lp~~i~~L~~L~~L~l~~~~~l~~lp  155 (829)
                      .+ ...++|++|+|++|.++.     + ..+...++|++|++++|.+..     ++..+...++|++|++++|. ++...
T Consensus       149 ~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~-i~~~g  227 (372)
T 3un9_A          149 LLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNG-AGDTA  227 (372)
T ss_dssp             HHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSC-CCHHH
T ss_pred             HHHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCC-CCHHH
Confidence            22 235667777777776653     2 344566667777777776652     34455666677777777665 43321


Q ss_pred             hh----hhcCCCcccEEEccCCccc
Q 003328          156 PN----VISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       156 ~~----~l~~L~~L~~L~l~~~~~~  176 (829)
                      ..    .+...++|++|++++|.+.
T Consensus       228 ~~~l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          228 ALALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             HHHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             HHHHHHHHHhCCCCCEEeccCCCCC
Confidence            11    1344566777777666554

>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=98.75  E-value=2.7e-08  Score=105.58  Aligned_cols=168  Identities=13%  Similarity=0.128  Sum_probs=130.0

Q ss_pred             CCCCcEEEcCCCCCCCCCCcc--CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCC-------CC------
Q 003328           19 RKDPIAISLPQRDIQELPERL--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIH-------FS------   83 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~-------i~------   83 (829)
                      +++|+.|.+.. .+..++...  .|++|+.+.+.+|.    +..+++..|.++.++.++.+....       +.      
T Consensus       100 ~~~L~~l~L~~-~i~~I~~~aF~~~~~L~~l~l~~n~----i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~  174 (329)
T 3sb4_A          100 KQTLEKVILSE-KIKNIEDAAFKGCDNLKICQIRKKT----APNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIE  174 (329)
T ss_dssp             CTTCCC-CBCT-TCCEECTTTTTTCTTCCEEEBCCSS----CCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEE
T ss_pred             cCCCcEEECCc-cccchhHHHhhcCcccceEEcCCCC----ccccchhhhcCCCceEEecCcchhhhhcccccccccccc
Confidence            78999999999 888888643  89999999999988    667888888888878777665411       10      


Q ss_pred             --------------CCchhh----------------------------cCCCCCcEEEccccCCCCc--ccccCCCCCcE
Q 003328           84 --------------SLPSSL----------------------------GRLINLQTLCLDWCQLEDV--AAIGQLKKLEI  119 (829)
Q Consensus        84 --------------~lp~~l----------------------------~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~  119 (829)
                                    .++..+                            ..+++|+++++++|+++.+  ..|.++.+|+.
T Consensus       175 ~~~L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~  254 (329)
T 3sb4_A          175 GEPLETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPDFTFAQKKYLLK  254 (329)
T ss_dssp             SCCCEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECTTTTTTCTTCCE
T ss_pred             ccccceeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecHhhhhCCCCCCE
Confidence                          011100                            1378999999999999988  78999999999


Q ss_pred             EEccCCCCccchhh-hcCCCCCC-EEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCC
Q 003328          120 LSFRGSDIKQLPLE-IGQLTRLQ-LLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKL  197 (829)
Q Consensus       120 L~l~~~~l~~lp~~-i~~L~~L~-~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L  197 (829)
                      +++.++ ++.++.. +.++.+|+ .+++..  .+..++.+.+..+.+|+.+++..+.+.        .-....+.++++|
T Consensus       255 l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~--~l~~I~~~aF~~c~~L~~l~l~~n~i~--------~I~~~aF~~~~~L  323 (329)
T 3sb4_A          255 IKLPHN-LKTIGQRVFSNCGRLAGTLELPA--SVTAIEFGAFMGCDNLRYVLATGDKIT--------TLGDELFGNGVPS  323 (329)
T ss_dssp             EECCTT-CCEECTTTTTTCTTCCEEEEECT--TCCEECTTTTTTCTTEEEEEECSSCCC--------EECTTTTCTTCCC
T ss_pred             EECCcc-cceehHHHhhCChhccEEEEEcc--cceEEchhhhhCCccCCEEEeCCCccC--------ccchhhhcCCcch
Confidence            999997 8888654 88999999 999987  478888777899999999999777654        2233456677888


Q ss_pred             cEEEe
Q 003328          198 TTLEI  202 (829)
Q Consensus       198 ~~L~l  202 (829)
                      +.++.
T Consensus       324 ~~ly~  328 (329)
T 3sb4_A          324 KLIYK  328 (329)
T ss_dssp             CEEEC
T ss_pred             hhhcc
Confidence            87753

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.73  E-value=2.5e-09  Score=115.01  Aligned_cols=162  Identities=15%  Similarity=0.151  Sum_probs=100.4

Q ss_pred             CCCCcEEEeecCCCcccc-cccchhhhcCCCCccEEEecCCCCCC--CchhhcCCCCCcEEEccccCCCCc--ccc----
Q 003328           41 CPNLQLFLLITKGIAPVS-MQISDLFFEGTEELKVLSLIGIHFSS--LPSSLGRLINLQTLCLDWCQLEDV--AAI----  111 (829)
Q Consensus        41 ~~~Lr~L~l~~~~~~~~~-~~lp~~~~~~l~~Lr~L~L~~~~i~~--lp~~l~~l~~Lr~L~L~~~~l~~l--~~i----  111 (829)
                      .++|++|++++|...... ..+...+....++|++|+|++|.++.  +......+++|++|+|++|.+...  ..+    
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L  150 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLL  150 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHH
Confidence            457888888888722100 01111111123688888888888763  222223456788888888887632  222    


Q ss_pred             -cCCCCCcEEEccCCCCcc-----chhhhcCCCCCCEEeccCCCCCCcc-----ChhhhcCCCcccEEEccCCccccccc
Q 003328          112 -GQLKKLEILSFRGSDIKQ-----LPLEIGQLTRLQLLDLSNCSSLVVI-----APNVISKFSRLEELYMGDSFSQWDKV  180 (829)
Q Consensus       112 -~~L~~L~~L~l~~~~l~~-----lp~~i~~L~~L~~L~l~~~~~l~~l-----p~~~l~~L~~L~~L~l~~~~~~~~~~  180 (829)
                       ....+|++|++++|.++.     ++..+..+++|++|++++|. ++..     +.. +...++|++|++++|.+...  
T Consensus       151 ~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~-l~~~g~~~L~~~-L~~~~~L~~L~Ls~N~i~~~--  226 (372)
T 3un9_A          151 LHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTG-LGDEGLELLAAQ-LDRNRQLQELNVAYNGAGDT--  226 (372)
T ss_dssp             HSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSS-CHHHHHHHHHHH-GGGCSCCCEEECCSSCCCHH--
T ss_pred             HhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCC-CCcHHHHHHHHH-HhcCCCcCeEECCCCCCCHH--
Confidence             346778888888887763     45556778888888888876 4432     222 56677888888888876410  


Q ss_pred             cCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          181 EGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       181 ~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                        ...+....+...++|++|++++|.+.
T Consensus       227 --g~~~l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          227 --AALALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             --HHHHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             --HHHHHHHHHHhCCCCCEEeccCCCCC
Confidence              00122234555677888888887764

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=98.65  E-value=6.3e-08  Score=103.56  Aligned_cols=96  Identities=22%  Similarity=0.216  Sum_probs=43.5

Q ss_pred             EecCC-CCCCCchhhcCCCCCcEEEccc-cCCCCc--ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCCC
Q 003328           76 SLIGI-HFSSLPSSLGRLINLQTLCLDW-CQLEDV--AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSS  150 (829)
Q Consensus        76 ~L~~~-~i~~lp~~l~~l~~Lr~L~L~~-~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~  150 (829)
                      +.+++ +++.+|. +..+.+|++|+|++ |.++.+  ..|++|.+|++|+|++|.++.+|. .|++|++|++|+|++|. 
T Consensus        14 ~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~-   91 (347)
T 2ifg_A           14 RCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNA-   91 (347)
T ss_dssp             ECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSC-
T ss_pred             EcCCCCCCCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCc-
Confidence            44444 4444444 44444455555543 444444  334455555555555554444432 34445555555555443 


Q ss_pred             CCccChhhhcCCCcccEEEccCCc
Q 003328          151 LVVIAPNVISKFSRLEELYMGDSF  174 (829)
Q Consensus       151 l~~lp~~~l~~L~~L~~L~l~~~~  174 (829)
                      +..+|.+.+..+. |++|++.+|.
T Consensus        92 l~~~~~~~~~~~~-L~~l~l~~N~  114 (347)
T 2ifg_A           92 LESLSWKTVQGLS-LQELVLSGNP  114 (347)
T ss_dssp             CSCCCSTTTCSCC-CCEEECCSSC
T ss_pred             cceeCHHHcccCC-ceEEEeeCCC
Confidence            4444443222222 5555554443

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=98.60  E-value=1.2e-07  Score=101.30  Aligned_cols=90  Identities=24%  Similarity=0.197  Sum_probs=46.9

Q ss_pred             ccccchhhhcCCCCccEEEecC-CCCCCCc-hhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh
Q 003328           58 SMQISDLFFEGTEELKVLSLIG-IHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE  133 (829)
Q Consensus        58 ~~~lp~~~~~~l~~Lr~L~L~~-~~i~~lp-~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~  133 (829)
                      +..+|.  +..+++|++|+|++ |.++.+| ..|..+.+|++|+|++|.++.+  ..|++|.+|++|+|++|.++.+|..
T Consensus        21 l~~ip~--l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~   98 (347)
T 2ifg_A           21 LDSLHH--LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWK   98 (347)
T ss_dssp             CTTTTT--SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCCST
T ss_pred             CCccCC--CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCccceeCHH
Confidence            344444  34555555555553 5555443 3355555555555555555544  3455555666666666655555544


Q ss_pred             hcCCCCCCEEeccCCC
Q 003328          134 IGQLTRLQLLDLSNCS  149 (829)
Q Consensus       134 i~~L~~L~~L~l~~~~  149 (829)
                      +.....|++|++.+|.
T Consensus        99 ~~~~~~L~~l~l~~N~  114 (347)
T 2ifg_A           99 TVQGLSLQELVLSGNP  114 (347)
T ss_dssp             TTCSCCCCEEECCSSC
T ss_pred             HcccCCceEEEeeCCC
Confidence            3333336666665554

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.49  E-value=2.6e-06  Score=92.39  Aligned_cols=110  Identities=18%  Similarity=0.214  Sum_probs=49.9

Q ss_pred             cccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hc
Q 003328           59 MQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IG  135 (829)
Q Consensus        59 ~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~  135 (829)
                      ..++...|.++.+|+.+++.++.++.+|...-.+.+|+.+.+..+ ++.+  ..|.++.+|+.+++..+ ++.++.. +.
T Consensus       169 ~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~~-l~~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~  246 (401)
T 4fdw_A          169 EQLKEDIFYYCYNLKKADLSKTKITKLPASTFVYAGIEEVLLPVT-LKEIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFR  246 (401)
T ss_dssp             CEECSSTTTTCTTCCEEECTTSCCSEECTTTTTTCCCSEEECCTT-CCEECTTTTTTCTTCCCEECCTT-CCEECTTTTT
T ss_pred             cEehHHHhhCcccCCeeecCCCcceEechhhEeecccCEEEeCCc-hheehhhHhhCCCCCCEEecCCC-ccCccccccc
Confidence            344444445555555555555555444443333445555555422 4433  44455555555555442 3333322 22


Q ss_pred             CCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCC
Q 003328          136 QLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  173 (829)
Q Consensus       136 ~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~  173 (829)
                      + .+|+.+.+..  .+..++...+..+.+|+.+++.++
T Consensus       247 ~-~~L~~i~lp~--~i~~I~~~aF~~c~~L~~l~l~~~  281 (401)
T 4fdw_A          247 E-SGITTVKLPN--GVTNIASRAFYYCPELAEVTTYGS  281 (401)
T ss_dssp             T-CCCSEEEEET--TCCEECTTTTTTCTTCCEEEEESS
T ss_pred             c-CCccEEEeCC--CccEEChhHhhCCCCCCEEEeCCc
Confidence            2 4455555532  134444443445555555555443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.48  E-value=2.4e-06  Score=92.65  Aligned_cols=141  Identities=12%  Similarity=0.164  Sum_probs=70.4

Q ss_pred             CCcEEEcCCCCCCCCCCcc--CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCcE
Q 003328           21 DPIAISLPQRDIQELPERL--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQT   97 (829)
Q Consensus        21 ~l~~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~   97 (829)
                      +|+.+.+.. .+..++...  +|++|+.+.+.++.    +..++...|. ..+|+.+.+..+ ++.++ ..+.++++|+.
T Consensus       158 ~L~~i~lp~-~l~~I~~~aF~~c~~L~~l~l~~n~----l~~I~~~aF~-~~~L~~l~lp~~-l~~I~~~aF~~~~~L~~  230 (401)
T 4fdw_A          158 TVQEIVFPS-TLEQLKEDIFYYCYNLKKADLSKTK----ITKLPASTFV-YAGIEEVLLPVT-LKEIGSQAFLKTSQLKT  230 (401)
T ss_dssp             CCCEEECCT-TCCEECSSTTTTCTTCCEEECTTSC----CSEECTTTTT-TCCCSEEECCTT-CCEECTTTTTTCTTCCC
T ss_pred             CceEEEeCC-CccEehHHHhhCcccCCeeecCCCc----ceEechhhEe-ecccCEEEeCCc-hheehhhHhhCCCCCCE
Confidence            466666654 455554322  56677777776665    5556655554 356666666532 44433 23455666666


Q ss_pred             EEccccCCCCc--ccccCCCCCcEEEccCCCCccch-hhhcCCCCCCEEeccCCCC----CCccChhhhcCCCcccEEEc
Q 003328           98 LCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLP-LEIGQLTRLQLLDLSNCSS----LVVIAPNVISKFSRLEELYM  170 (829)
Q Consensus        98 L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~~~~~----l~~lp~~~l~~L~~L~~L~l  170 (829)
                      +.+..+ ++.+  ..|.+ .+|+.+.+.. .++.++ ..+.++++|+.+.+.++..    ...++...+..+.+|+.+++
T Consensus       231 l~l~~~-l~~I~~~aF~~-~~L~~i~lp~-~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l  307 (401)
T 4fdw_A          231 IEIPEN-VSTIGQEAFRE-SGITTVKLPN-GVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEI  307 (401)
T ss_dssp             EECCTT-CCEECTTTTTT-CCCSEEEEET-TCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECC
T ss_pred             EecCCC-ccCcccccccc-CCccEEEeCC-CccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEe
Confidence            666542 3333  33333 4555555532 344442 2345555555555544321    11244433445555555554


Q ss_pred             c
Q 003328          171 G  171 (829)
Q Consensus       171 ~  171 (829)
                      .
T Consensus       308 ~  308 (401)
T 4fdw_A          308 P  308 (401)
T ss_dssp             C
T ss_pred             C
Confidence            4

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.18  E-value=1.2e-06  Score=81.57  Aligned_cols=20  Identities=10%  Similarity=0.120  Sum_probs=12.2

Q ss_pred             cccCCCcCeEEEeCCCCCcc
Q 003328          653 IIEMPVLCSLAIENCTDMET  672 (829)
Q Consensus       653 ~~~~~sL~~L~i~~C~~L~~  672 (829)
                      +..+++|++|++++|++++.
T Consensus       135 L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          135 LHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             GGGCTTCCEEEEESCTTCCC
T ss_pred             HhcCCCCCEEECCCCCCCCc
Confidence            34456666666666666654

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.16  E-value=1.5e-06  Score=92.51  Aligned_cols=181  Identities=15%  Similarity=0.155  Sum_probs=98.9

Q ss_pred             CCCCcEEEcCCCCCCC---------CCCcc-CCCCCcEEEeecCCCcc--c----ccccchhhhcCCCCccEEEecCCCC
Q 003328           19 RKDPIAISLPQRDIQE---------LPERL-QCPNLQLFLLITKGIAP--V----SMQISDLFFEGTEELKVLSLIGIHF   82 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~---------l~~~~-~~~~Lr~L~l~~~~~~~--~----~~~lp~~~~~~l~~Lr~L~L~~~~i   82 (829)
                      +.+++.|.+....+..         +.... .+++||.|.+.......  .    ...+. .++..+++|+.|+++++.-
T Consensus       106 ~~~v~~L~lg~~~~~~~~~~~~~~~L~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~-~ll~~~P~L~~L~L~g~~~  184 (362)
T 2ra8_A          106 LPSLKQITIGXWGYEGEDCSDIADGIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLS-PVLDAMPLLNNLKIKGTNN  184 (362)
T ss_dssp             GGGCSEEEECCCCSSSCCSHHHHHHHHTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBCH-HHHHTCTTCCEEEEECCBT
T ss_pred             chhcceEEEcccccCCCcHHHHHHHHHHhhhhcchhhheeecCcchhhcccccccccCHH-HHHhcCCCCcEEEEeCCCC
Confidence            3467777777654331         11112 46788888875542100  0    01232 3457778888888877632


Q ss_pred             CCCchhhcCCCCCcEEEccccCCCC--ccccc--CCCCCcEEEccCC--------CCccchhhh--cCCCCCCEEeccCC
Q 003328           83 SSLPSSLGRLINLQTLCLDWCQLED--VAAIG--QLKKLEILSFRGS--------DIKQLPLEI--GQLTRLQLLDLSNC  148 (829)
Q Consensus        83 ~~lp~~l~~l~~Lr~L~L~~~~l~~--l~~i~--~L~~L~~L~l~~~--------~l~~lp~~i--~~L~~L~~L~l~~~  148 (829)
                      ..++. + .+++|++|++..|.+..  +..+.  ++++|++|+|+.+        .+..+...+  +.+++|++|++.+|
T Consensus       185 l~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~  262 (362)
T 2ra8_A          185 LSIGK-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDA  262 (362)
T ss_dssp             CBCCS-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESC
T ss_pred             ceecc-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCC
Confidence            23443 3 37788888888777652  23343  6788888887531        122222222  34678888888776


Q ss_pred             CCCCccChhhhc---CCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCC
Q 003328          149 SSLVVIAPNVIS---KFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDA  207 (829)
Q Consensus       149 ~~l~~lp~~~l~---~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~  207 (829)
                      ......+.. +.   .+++|++|+++.|.+...    ...+....+..+++|+.|+++.|.+
T Consensus       263 ~i~~~~~~~-la~a~~~~~L~~LdLs~n~L~d~----G~~~L~~~L~~l~~L~~L~L~~n~i  319 (362)
T 2ra8_A          263 EEQNVVVEM-FLESDILPQLETMDISAGVLTDE----GARLLLDHVDKIKHLKFINMKYNYL  319 (362)
T ss_dssp             TTHHHHHHH-HHHCSSGGGCSEEECCSSCCBHH----HHHHHHTTHHHHTTCSEEECCSBBC
T ss_pred             CCchHHHHH-HHhCccCCCCCEEECCCCCCChH----HHHHHHhhcccCCcceEEECCCCcC
Confidence            632222222 22   467788888877655400    0011122334566778888776654

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.10  E-value=2e-06  Score=80.17  Aligned_cols=82  Identities=13%  Similarity=0.208  Sum_probs=45.8

Q ss_pred             CCCcEEEccccCCCCc--ccccCCCCCcEEEccCC-CCcc-chhhhcCC----CCCCEEeccCCCCCCccChhhhcCCCc
Q 003328           93 INLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGS-DIKQ-LPLEIGQL----TRLQLLDLSNCSSLVVIAPNVISKFSR  164 (829)
Q Consensus        93 ~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~-~l~~-lp~~i~~L----~~L~~L~l~~~~~l~~lp~~~l~~L~~  164 (829)
                      ++|++||+++|.++..  ..+..+++|++|++++| .|+. --..++.+    ++|++|++++|..+++.....+.++++
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~~  140 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRN  140 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCTT
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCCC
Confidence            4566666666665532  55566666666666666 3442 12234443    256666666666555543333556666


Q ss_pred             ccEEEccCCc
Q 003328          165 LEELYMGDSF  174 (829)
Q Consensus       165 L~~L~l~~~~  174 (829)
                      |++|++++|.
T Consensus       141 L~~L~L~~c~  150 (176)
T 3e4g_A          141 LKYLFLSDLP  150 (176)
T ss_dssp             CCEEEEESCT
T ss_pred             CCEEECCCCC
Confidence            6666666664

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.07  E-value=3.9e-06  Score=89.22  Aligned_cols=150  Identities=17%  Similarity=0.190  Sum_probs=103.3

Q ss_pred             CCCCCcEEEcCCCCCC----------CCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-C
Q 003328           18 IRKDPIAISLPQRDIQ----------ELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-L   85 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~----------~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-l   85 (829)
                      .+++|+.|.+......          .+...+ .+|+|+.|.+.++.    ...++.  +. +.+|+.|++..+.+.. .
T Consensus       137 ~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~----~l~l~~--~~-~~~L~~L~L~~~~l~~~~  209 (362)
T 2ra8_A          137 KFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTN----NLSIGK--KP-RPNLKSLEIISGGLPDSV  209 (362)
T ss_dssp             HHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCB----TCBCCS--CB-CTTCSEEEEECSBCCHHH
T ss_pred             hcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCC----Cceecc--cc-CCCCcEEEEecCCCChHH
Confidence            4579999999765432          122223 67999999999885    123444  23 8899999999888753 2


Q ss_pred             chhhc--CCCCCcEEEcccc--C------CCCc-ccc--cCCCCCcEEEccCCCCcc-chhhh---cCCCCCCEEeccCC
Q 003328           86 PSSLG--RLINLQTLCLDWC--Q------LEDV-AAI--GQLKKLEILSFRGSDIKQ-LPLEI---GQLTRLQLLDLSNC  148 (829)
Q Consensus        86 p~~l~--~l~~Lr~L~L~~~--~------l~~l-~~i--~~L~~L~~L~l~~~~l~~-lp~~i---~~L~~L~~L~l~~~  148 (829)
                      ...+.  .+++|++|+|+.+  .      +..+ ..+  ..+++|++|++++|.+.. .+..+   ..+++|++|+++.|
T Consensus       210 l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n  289 (362)
T 2ra8_A          210 VEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAG  289 (362)
T ss_dssp             HHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSS
T ss_pred             HHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCC
Confidence            23333  7999999998632  1      2233 223  358899999999998762 22222   35889999999887


Q ss_pred             CCCCc-----cChhhhcCCCcccEEEccCCccc
Q 003328          149 SSLVV-----IAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       149 ~~l~~-----lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      . ++.     ++.+ +..+++|+.|+++.|.+.
T Consensus       290 ~-L~d~G~~~L~~~-L~~l~~L~~L~L~~n~i~  320 (362)
T 2ra8_A          290 V-LTDEGARLLLDH-VDKIKHLKFINMKYNYLS  320 (362)
T ss_dssp             C-CBHHHHHHHHTT-HHHHTTCSEEECCSBBCC
T ss_pred             C-CChHHHHHHHhh-cccCCcceEEECCCCcCC
Confidence            6 554     2222 456899999999998765

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.04  E-value=4e-06  Score=80.25  Aligned_cols=110  Identities=15%  Similarity=0.075  Sum_probs=67.6

Q ss_pred             hhcCCCCccEEEecCC-CCCC-----CchhhcCCCCCcEEEccccCCCC-----c-ccccCCCCCcEEEccCCCCcc---
Q 003328           65 FFEGTEELKVLSLIGI-HFSS-----LPSSLGRLINLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRGSDIKQ---  129 (829)
Q Consensus        65 ~~~~l~~Lr~L~L~~~-~i~~-----lp~~l~~l~~Lr~L~L~~~~l~~-----l-~~i~~L~~L~~L~l~~~~l~~---  129 (829)
                      ++...+.|++|+|++| .+..     +...+...++|++|+|++|.+..     + ..+....+|++|++++|.|..   
T Consensus        31 ~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~  110 (185)
T 1io0_A           31 IQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGI  110 (185)
T ss_dssp             HHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHH
T ss_pred             HHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHH
Confidence            3456667777777776 6652     44555566677777777776652     3 445555667777777776652   


Q ss_pred             --chhhhcCCCCCCEEec--cCCCCCCcc-----ChhhhcCCCcccEEEccCCccc
Q 003328          130 --LPLEIGQLTRLQLLDL--SNCSSLVVI-----APNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       130 --lp~~i~~L~~L~~L~l--~~~~~l~~l-----p~~~l~~L~~L~~L~l~~~~~~  176 (829)
                        +...+...++|++|++  ++|. ++..     ... +...++|++|++++|.+.
T Consensus       111 ~~l~~~L~~n~~L~~L~L~~~~N~-i~~~g~~~l~~~-L~~n~~L~~L~L~~n~i~  164 (185)
T 1io0_A          111 LALVEALQSNTSLIELRIDNQSQP-LGNNVEMEIANM-LEKNTTLLKFGYHFTQQG  164 (185)
T ss_dssp             HHHHHGGGGCSSCCEEECCCCSSC-CCHHHHHHHHHH-HHHCSSCCEEECCCSSHH
T ss_pred             HHHHHHHHhCCCceEEEecCCCCC-CCHHHHHHHHHH-HHhCCCcCEEeccCCCCC
Confidence              4555666677777777  5554 4332     222 455577777777777553

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.01  E-value=5.6e-06  Score=79.25  Aligned_cols=109  Identities=15%  Similarity=0.131  Sum_probs=58.0

Q ss_pred             CCCCCcEEEeecC-CCccc-ccccchhhhcCCCCccEEEecCCCCCC-----CchhhcCCCCCcEEEccccCCCC-----
Q 003328           40 QCPNLQLFLLITK-GIAPV-SMQISDLFFEGTEELKVLSLIGIHFSS-----LPSSLGRLINLQTLCLDWCQLED-----  107 (829)
Q Consensus        40 ~~~~Lr~L~l~~~-~~~~~-~~~lp~~~~~~l~~Lr~L~L~~~~i~~-----lp~~l~~l~~Lr~L~L~~~~l~~-----  107 (829)
                      ..++|++|++++| ...+. ...+... +...++|++|+|++|.+..     +...+...++|++|+|++|.+..     
T Consensus        34 ~~~~L~~L~L~~n~~i~~~g~~~l~~~-L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~  112 (185)
T 1io0_A           34 NDPDLEEVNLNNIMNIPVPTLKACAEA-LKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA  112 (185)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHH-HTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             cCCCCCEEEecCCCCCCHHHHHHHHHH-HHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHH
Confidence            3556666666666 42110 0112222 3455666666666666552     34444555566666666666552     


Q ss_pred             c-ccccCCCCCcEEEc--cCCCCcc-----chhhhcCCCCCCEEeccCCC
Q 003328          108 V-AAIGQLKKLEILSF--RGSDIKQ-----LPLEIGQLTRLQLLDLSNCS  149 (829)
Q Consensus       108 l-~~i~~L~~L~~L~l--~~~~l~~-----lp~~i~~L~~L~~L~l~~~~  149 (829)
                      + ..+...++|++|++  ++|.+..     +...+...++|++|++++|.
T Consensus       113 l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~  162 (185)
T 1io0_A          113 LVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQ  162 (185)
T ss_dssp             HHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             HHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCC
Confidence            3 45555566666666  5555542     33444555666666666654

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.93  E-value=0.00015  Score=78.68  Aligned_cols=81  Identities=19%  Similarity=0.167  Sum_probs=45.8

Q ss_pred             CCCCCcEEEEeecCCceEEecccCcccccccccccceeccccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchH
Q 003328          290 GFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFS  369 (829)
Q Consensus       290 ~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~  369 (829)
                      .+.+|+.+.+..  +++.+....    ...+.+|+++++.+  +++.+....   ...+.+|+.+.+..  +++.++. .
T Consensus       295 ~~~~L~~i~l~~--~i~~I~~~a----F~~c~~L~~i~lp~--~v~~I~~~a---F~~c~~L~~i~lp~--~l~~I~~-~  360 (394)
T 4fs7_A          295 GCSSLTEVKLLD--SVKFIGEEA----FESCTSLVSIDLPY--LVEEIGKRS---FRGCTSLSNINFPL--SLRKIGA-N  360 (394)
T ss_dssp             TCTTCCEEEECT--TCCEECTTT----TTTCTTCCEECCCT--TCCEECTTT---TTTCTTCCEECCCT--TCCEECT-T
T ss_pred             cccccccccccc--ccceechhh----hcCCCCCCEEEeCC--cccEEhHHh---ccCCCCCCEEEECc--cccEehH-H
Confidence            667787777743  355543221    23456777777742  233332222   23667788887753  3555543 3


Q ss_pred             HHHhhcccceEEEec
Q 003328          370 MAKNLLRLQKVEVFF  384 (829)
Q Consensus       370 ~~~~l~~L~~L~i~~  384 (829)
                      .+.++++|+++++..
T Consensus       361 aF~~C~~L~~i~lp~  375 (394)
T 4fs7_A          361 AFQGCINLKKVELPK  375 (394)
T ss_dssp             TBTTCTTCCEEEEEG
T ss_pred             HhhCCCCCCEEEECC
Confidence            346677888887754

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.77  E-value=0.00043  Score=74.91  Aligned_cols=34  Identities=12%  Similarity=0.137  Sum_probs=17.9

Q ss_pred             CCCCccEEEEecCCCCccccchHHHHhhcccceEEEe
Q 003328          347 SFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVF  383 (829)
Q Consensus       347 ~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~  383 (829)
                      .+.+|+.+.+.+  +++.++. ..+.++.+|+.+++.
T Consensus       295 ~~~~L~~i~l~~--~i~~I~~-~aF~~c~~L~~i~lp  328 (394)
T 4fs7_A          295 GCSSLTEVKLLD--SVKFIGE-EAFESCTSLVSIDLP  328 (394)
T ss_dssp             TCTTCCEEEECT--TCCEECT-TTTTTCTTCCEECCC
T ss_pred             cccccccccccc--ccceech-hhhcCCCCCCEEEeC
Confidence            456666666643  3444433 223445666666653

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.64  E-value=4.5e-05  Score=76.71  Aligned_cols=78  Identities=22%  Similarity=0.299  Sum_probs=34.3

Q ss_pred             CCCCCcEEEccccCCCCcc----cccCCCCCcEEEccCCCCccchhhhcCCC--CCCEEeccCCCCCCccCh------hh
Q 003328           91 RLINLQTLCLDWCQLEDVA----AIGQLKKLEILSFRGSDIKQLPLEIGQLT--RLQLLDLSNCSSLVVIAP------NV  158 (829)
Q Consensus        91 ~l~~Lr~L~L~~~~l~~l~----~i~~L~~L~~L~l~~~~l~~lp~~i~~L~--~L~~L~l~~~~~l~~lp~------~~  158 (829)
                      ++++|++|+|++|++..+.    .+.++++|++|+|++|.++.+ ..+..+.  +|++|++.+|.....+|.      ..
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~i  246 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTYISAI  246 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHHH
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccCCcCccccCcchhHHHHH
Confidence            3444555555555444331    223455555555555544443 1222232  555555555542222221      12


Q ss_pred             hcCCCcccEEE
Q 003328          159 ISKFSRLEELY  169 (829)
Q Consensus       159 l~~L~~L~~L~  169 (829)
                      +..+++|+.|+
T Consensus       247 l~~~P~L~~LD  257 (267)
T 3rw6_A          247 RERFPKLLRLD  257 (267)
T ss_dssp             HHHCTTCCEES
T ss_pred             HHHCcccCeEC
Confidence            44555555554

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.30  E-value=0.017  Score=62.18  Aligned_cols=96  Identities=10%  Similarity=0.112  Sum_probs=43.0

Q ss_pred             CcEEEeecCCCcccccccchhhhcCCCCccEEEecCCC---CCCCc-hhhcCCCCCcEEEccccCCCCc--ccccCCCCC
Q 003328           44 LQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIH---FSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKL  117 (829)
Q Consensus        44 Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~---i~~lp-~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L  117 (829)
                      |+.+.+...     +..+.+..|.++.+|+.+.+..+.   ++.+. ..+..+.+|+.+.+..+ ++.+  ..+..+.+|
T Consensus        66 L~sI~iP~s-----vt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~~aF~~c~~L  139 (394)
T 4gt6_A           66 LTSVQIPDT-----VTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS-VTEIDSEAFHHCEEL  139 (394)
T ss_dssp             CCEEEECTT-----CCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT-CSEECTTTTTTCTTC
T ss_pred             CEEEEECCC-----eeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc-cceehhhhhhhhccc
Confidence            555555321     344555555555555555554432   33322 23444555554444322 3333  344555555


Q ss_pred             cEEEccCCCCccchh-hhcCCCCCCEEecc
Q 003328          118 EILSFRGSDIKQLPL-EIGQLTRLQLLDLS  146 (829)
Q Consensus       118 ~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~  146 (829)
                      +.+.+... +..++. .+..+.+|+.+.+.
T Consensus       140 ~~i~lp~~-~~~I~~~~F~~c~~L~~i~~~  168 (394)
T 4gt6_A          140 DTVTIPEG-VTSVADGMFSYCYSLHTVTLP  168 (394)
T ss_dssp             CEEECCTT-CCEECTTTTTTCTTCCEEECC
T ss_pred             ccccccce-eeeecccceeccccccccccc
Confidence            55555432 222222 24445555555554

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.30  E-value=0.00027  Score=71.02  Aligned_cols=60  Identities=22%  Similarity=0.342  Sum_probs=28.0

Q ss_pred             CCCCCcEEEccCCCCccc---hhhhcCCCCCCEEeccCCCCCCccChhhhcCCC--cccEEEccCCcc
Q 003328          113 QLKKLEILSFRGSDIKQL---PLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFS--RLEELYMGDSFS  175 (829)
Q Consensus       113 ~L~~L~~L~l~~~~l~~l---p~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~--~L~~L~l~~~~~  175 (829)
                      ++++|++|+|++|.++.+   |..++++++|++|++++|. +..+..  +..+.  +|++|++++|.+
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~-i~~~~~--l~~l~~l~L~~L~L~~Npl  232 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNE-LKSERE--LDKIKGLKLEELWLDGNSL  232 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSC-CCSGGG--GGGGTTSCCSEEECTTSTT
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCc-cCCchh--hhhcccCCcceEEccCCcC
Confidence            445555555555544433   2334455555555555544 333311  23333  555555555543

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.22  E-value=0.026  Score=60.75  Aligned_cols=112  Identities=13%  Similarity=0.173  Sum_probs=81.2

Q ss_pred             ccccchhhhcCCC-CccEEEecCCCCCCCc-hhhcCCCCCcEEEccccC---CCCc--ccccCCCCCcEEEccCCCCccc
Q 003328           58 SMQISDLFFEGTE-ELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQ---LEDV--AAIGQLKKLEILSFRGSDIKQL  130 (829)
Q Consensus        58 ~~~lp~~~~~~l~-~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~L~~~~---l~~l--~~i~~L~~L~~L~l~~~~l~~l  130 (829)
                      +..+++..|.+++ .|+.+.+..+ ++.+. .+|.+|.+|+.+.+..+.   ++.+  ..|..+.+|+.+.+..+ ++.+
T Consensus        51 Vt~Ig~~aF~~~~~~L~sI~iP~s-vt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I  128 (394)
T 4gt6_A           51 VSKIGDRVFCNYKYVLTSVQIPDT-VTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS-VTEI  128 (394)
T ss_dssp             EEEECTTTTTTCCSCCCEEEECTT-CCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT-CSEE
T ss_pred             eeEcCHhhccCCCCcCEEEEECCC-eeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc-ccee
Confidence            5567777788885 5999999653 55543 457889999999998763   6666  67888888888777653 5555


Q ss_pred             hh-hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCC
Q 003328          131 PL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  173 (829)
Q Consensus       131 p~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~  173 (829)
                      +. .+..+.+|+.+.+...  +..++......+.+|+.+.+..+
T Consensus       129 ~~~aF~~c~~L~~i~lp~~--~~~I~~~~F~~c~~L~~i~~~~~  170 (394)
T 4gt6_A          129 DSEAFHHCEELDTVTIPEG--VTSVADGMFSYCYSLHTVTLPDS  170 (394)
T ss_dssp             CTTTTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCEEECCTT
T ss_pred             hhhhhhhhcccccccccce--eeeecccceecccccccccccce
Confidence            43 3678889999888642  56666665777888888887654

>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=95.66  E-value=0.06  Score=57.49  Aligned_cols=125  Identities=18%  Similarity=0.147  Sum_probs=87.5

Q ss_pred             CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEccccCCCCc--ccccCCCC
Q 003328           40 QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKK  116 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp-~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~  116 (829)
                      .+.+|+.+.+..+     ...++...|.++..|+.+.+..+ ++.+. ..+.++.+|+.+.+... +..+  ..|.++.+
T Consensus       215 ~~~~l~~i~~~~~-----~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~  287 (379)
T 4h09_A          215 YGKNLKKITITSG-----VTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSN  287 (379)
T ss_dssp             TCSSCSEEECCTT-----CCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTT
T ss_pred             cccccceeeeccc-----eeEEccccccCCccceEEEcCCC-ccEeCccccceeehhcccccccc-ceeccccccccccc
Confidence            5677777777543     35566666778888888888654 44433 34567788888887543 5555  66778888


Q ss_pred             CcEEEccCCCCccchh-hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCC
Q 003328          117 LEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  173 (829)
Q Consensus       117 L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~  173 (829)
                      |+.+.+.++.++.++. .+.++.+|+.+.+..  .+..++...+.++.+|+.+.+..+
T Consensus       288 L~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~--~l~~I~~~aF~~C~~L~~i~ip~~  343 (379)
T 4h09_A          288 LTKVVMDNSAIETLEPRVFMDCVKLSSVTLPT--ALKTIQVYAFKNCKALSTISYPKS  343 (379)
T ss_dssp             CCEEEECCTTCCEECTTTTTTCTTCCEEECCT--TCCEECTTTTTTCTTCCCCCCCTT
T ss_pred             cccccccccccceehhhhhcCCCCCCEEEcCc--cccEEHHHHhhCCCCCCEEEECCc
Confidence            8888888777777754 477888888888864  266676665778888888877543

>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=95.44  E-value=0.078  Score=56.55  Aligned_cols=146  Identities=13%  Similarity=0.213  Sum_probs=101.9

Q ss_pred             CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEccccCCCCc--ccccCCCC
Q 003328           40 QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKK  116 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~  116 (829)
                      .+..+..+.+....     ..+....|.....|+.+.+..+ +..+ ...+..+.+|+.+.+..+ ++.+  ..+.++.+
T Consensus       192 ~~~~~~~~~~~~~~-----~~i~~~~f~~~~~l~~i~~~~~-~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~  264 (379)
T 4h09_A          192 AAKTGTEFTIPSTV-----KTVTAYGFSYGKNLKKITITSG-VTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTA  264 (379)
T ss_dssp             TTCCCSEEECCTTC-----CEECTTTTTTCSSCSEEECCTT-CCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTT
T ss_pred             ccccccccccccce-----eEEeecccccccccceeeeccc-eeEEccccccCCccceEEEcCCC-ccEeCccccceeeh
Confidence            34555565554433     3444455678889999988654 3333 345678899999999765 6666  67888999


Q ss_pred             CcEEEccCCCCccchh-hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCC
Q 003328          117 LEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLS  195 (829)
Q Consensus       117 L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~  195 (829)
                      |+.+.+.. .++.++. .+.++.+|+.+.+.++. +..++...+.++.+|+.+.+..+...         -....+.+++
T Consensus       265 l~~i~l~~-~i~~i~~~aF~~c~~L~~i~l~~~~-i~~I~~~aF~~c~~L~~i~lp~~l~~---------I~~~aF~~C~  333 (379)
T 4h09_A          265 LKTLNFYA-KVKTVPYLLCSGCSNLTKVVMDNSA-IETLEPRVFMDCVKLSSVTLPTALKT---------IQVYAFKNCK  333 (379)
T ss_dssp             CCEEEECC-CCSEECTTTTTTCTTCCEEEECCTT-CCEECTTTTTTCTTCCEEECCTTCCE---------ECTTTTTTCT
T ss_pred             hccccccc-cceeccccccccccccccccccccc-cceehhhhhcCCCCCCEEEcCccccE---------EHHHHhhCCC
Confidence            99999975 4666654 47889999999998754 77788776889999999998654211         1223455677


Q ss_pred             CCcEEEee
Q 003328          196 KLTTLEIH  203 (829)
Q Consensus       196 ~L~~L~l~  203 (829)
                      +|+.+.+.
T Consensus       334 ~L~~i~ip  341 (379)
T 4h09_A          334 ALSTISYP  341 (379)
T ss_dssp             TCCCCCCC
T ss_pred             CCCEEEEC
Confidence            78777664

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=94.81  E-value=0.036  Score=52.43  Aligned_cols=108  Identities=13%  Similarity=0.085  Sum_probs=60.9

Q ss_pred             hcCCCCccEEEecCC-CCCC-----CchhhcCCCCCcEEEccccCCC-----Cc-ccccCCCCCcEEEccCCCCc-----
Q 003328           66 FEGTEELKVLSLIGI-HFSS-----LPSSLGRLINLQTLCLDWCQLE-----DV-AAIGQLKKLEILSFRGSDIK-----  128 (829)
Q Consensus        66 ~~~l~~Lr~L~L~~~-~i~~-----lp~~l~~l~~Lr~L~L~~~~l~-----~l-~~i~~L~~L~~L~l~~~~l~-----  128 (829)
                      ..+-+.|+.|+|+++ .|..     +-+.+..-.+|+.|+|++|.+.     .+ +.+..=+.|++|+|++|.|.     
T Consensus        37 l~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~  116 (197)
T 1pgv_A           37 REDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLA  116 (197)
T ss_dssp             HTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHH
T ss_pred             HhcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHH
Confidence            345556666666664 5541     4445555566777777777665     23 34444566777777777665     


Q ss_pred             cchhhhcCCCCCCEEeccCCC--CCCc-----cChhhhcCCCcccEEEccCCc
Q 003328          129 QLPLEIGQLTRLQLLDLSNCS--SLVV-----IAPNVISKFSRLEELYMGDSF  174 (829)
Q Consensus       129 ~lp~~i~~L~~L~~L~l~~~~--~l~~-----lp~~~l~~L~~L~~L~l~~~~  174 (829)
                      .+-+.+..=+.|++|+++++.  .++.     +.. .+..=+.|++|+++.+.
T Consensus       117 ala~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~-aL~~N~tL~~L~l~~~~  168 (197)
T 1pgv_A          117 RLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMM-AIEENESLLRVGISFAS  168 (197)
T ss_dssp             HHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHH-HHHHCSSCCEEECCCCC
T ss_pred             HHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHH-HHHhCCCcCeEeccCCC
Confidence            233445555667777776542  1222     111 14445677777776554

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.34  E-value=0.064  Score=47.17  Aligned_cols=54  Identities=11%  Similarity=0.172  Sum_probs=25.3

Q ss_pred             EEEcCCCCCC--CCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCC
Q 003328           24 AISLPQRDIQ--ELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHF   82 (829)
Q Consensus        24 ~L~l~~~~~~--~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i   82 (829)
                      +++-++++++  .+|..+ -++|++|+|++|.    +..+|..+|..+++|++|+|++|.+
T Consensus        12 ~v~Cs~~~L~~~~vP~~l-p~~l~~L~Ls~N~----l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAF-PVDTTELVLTGNN----LTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             EEECCSSCCCTTTSCSCC-CTTCSEEECTTSC----CSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             EEEeCCCCCccccCCCCC-CcCCCEEECCCCc----CCccChhhhhhccccCEEEecCCCe
Confidence            4445555554  444332 1234555555554    4444444444455555555544433

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.29  E-value=0.064  Score=47.20  Aligned_cols=51  Identities=16%  Similarity=0.230  Sum_probs=24.6

Q ss_pred             EEEecCCCCC--CCchhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCC
Q 003328           74 VLSLIGIHFS--SLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSD  126 (829)
Q Consensus        74 ~L~L~~~~i~--~lp~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~  126 (829)
                      +++-++..++  .+|..+.  .+|++|+|++|.++.+  ..|..+.+|++|+|++|.
T Consensus        12 ~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             EEECCSSCCCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             EEEeCCCCCccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCCC
Confidence            4445555554  4554322  2345555555555544  334455555555555543

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=94.15  E-value=0.086  Score=49.82  Aligned_cols=40  Identities=18%  Similarity=0.158  Sum_probs=17.6

Q ss_pred             cCCCCccEEEecCCCCC-----CCchhhcCCCCCcEEEccccCCC
Q 003328           67 EGTEELKVLSLIGIHFS-----SLPSSLGRLINLQTLCLDWCQLE  106 (829)
Q Consensus        67 ~~l~~Lr~L~L~~~~i~-----~lp~~l~~l~~Lr~L~L~~~~l~  106 (829)
                      ..-+.|+.|+|++|.+.     .+.+.+..-+.|++|+|++|.|.
T Consensus        67 ~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig  111 (197)
T 1pgv_A           67 CNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLT  111 (197)
T ss_dssp             TTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCC
T ss_pred             hhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCC
Confidence            33344455555444443     13333333344555555544443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	829
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	3e-08
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	7e-04
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	7e-06
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	7e-05
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	6e-04
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	8e-04
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	0.001
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.001
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	0.002
d1h6ta2	210	c.10.2.1 (A:31-240) Internalin B {Listeria monocyt	0.004

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 54.6 bits (130), Expect = 3e-08
 Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 2/76 (2%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLP 131
           L  L+L   + S +   +  L  LQ L     ++ DV+++  L  +  LS   + I  L 
Sbjct: 309 LTYLTLYFNNISDISP-VSSLTKLQRLFFANNKVSDVSSLANLTNINWLSAGHNQISDLT 367

Query: 132 LEIGQLTRLQLLDLSN 147
             +  LTR+  L L++
Sbjct: 368 -PLANLTRITQLGLND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 40.4 bits (93), Expect = 7e-04
 Identities = 16/93 (17%), Positives = 39/93 (41%), Gaps = 1/93 (1%)

Query: 56  PVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLK 115
                I+ +F +     K+ +++G    +   S   L  + TL  D   ++ +  +  L 
Sbjct: 7   TQDTPINQIFTDTALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSIDGVEYLN 66

Query: 116 KLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNC 148
            L  ++F  + +  +   +  LT+L  + ++N 
Sbjct: 67  NLTQINFSNNQLTDIT-PLKNLTKLVDILMNNN 98

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.3 bits (108), Expect = 7e-06
 Identities = 44/241 (18%), Positives = 82/241 (34%), Gaps = 17/241 (7%)

Query: 96  QTLCLDWCQLEDVAAIGQLKKLEILSFR--GSDIKQLPLEIGQLTRLQLLDLSNCSSLVV 153
           QTL L    L      G+L    +++FR   S + Q   E     R+Q +DLSN    V 
Sbjct: 3   QTLDLTGKNLHP-DVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVS 61

Query: 154 IAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLE-IHVWDAQILPQ 212
               ++S+ S+L+ L +     +  ++      +LA+   L +L         +  +   
Sbjct: 62  TLHGILSQCSKLQNLSL-----EGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTL 116

Query: 213 DWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHL 272
                 L    +          V    + +       N+S   +N     L         
Sbjct: 117 LSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPN 176

Query: 273 IKLKGVQNVVHELDDGE----GFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSL 328
           +    + + V   +D          L+HL + RC +I         +     P L++L +
Sbjct: 177 LVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDI----IPETLLELGEIPTLKTLQV 232

Query: 329 W 329
           +
Sbjct: 233 F 233

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 43.7 bits (101), Expect = 7e-05
 Identities = 12/71 (16%), Positives = 29/71 (40%), Gaps = 5/71 (7%)

Query: 72  LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLP 131
           L+ L++       LP+       L+ L   +  L +V  +   + L+ L    + +++ P
Sbjct: 286 LEELNVSNNKLIELPALPP---RLERLIASFNHLAEVPEL--PQNLKQLHVEYNPLREFP 340

Query: 132 LEIGQLTRLQL 142
                +  L++
Sbjct: 341 DIPESVEDLRM 351

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Length = 198

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]

 Score = 39.7 bits (91), Expect = 6e-04
 Identities = 12/54 (22%), Positives = 26/54 (48%), Gaps = 2/54 (3%)

Query: 71  ELKVLSLIGI--HFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSF 122
           E + + L G+      + ++L  L   + L L    +E ++++  ++ L ILS 
Sbjct: 24  EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSL 77

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

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]

 Score = 38.2 bits (88), Expect = 8e-04
 Identities = 23/114 (20%), Positives = 41/114 (35%), Gaps = 5/114 (4%)

Query: 60  QISDL-FFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 118
            ++ L   E    +  L L      +LP +L  L  L+ L      LE+V  +  L +L+
Sbjct: 9   DLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQ 68

Query: 119 ILSFRGSDIKQLPL--EIGQLTRLQLLDLSN--CSSLVVIAPNVISKFSRLEEL 168
            L    + ++Q      +    RL LL+L          I   +      +  +
Sbjct: 69  ELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI 122

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

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]

 Score = 37.4 bits (86), Expect = 0.001
 Identities = 30/128 (23%), Positives = 50/128 (39%), Gaps = 5/128 (3%)

Query: 73  KVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLED-VAAIGQLKKLEILSFRGSDIKQLP 131
           +VL L     + L   L +L+ +  L L   +L     A+  L+ LE+L    + ++ + 
Sbjct: 1   RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD 59

Query: 132 LEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAEL 191
             +  L RLQ L L N       A   +    RL  L +    +   + EG        L
Sbjct: 60  -GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNL--QGNSLCQEEGIQERLAEML 116

Query: 192 KGLSKLTT 199
             +S + T
Sbjct: 117 PSVSSILT 124

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

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]

 Score = 39.6 bits (90), Expect = 0.001
 Identities = 10/97 (10%), Positives = 37/97 (38%), Gaps = 12/97 (12%)

Query: 93  INLQTLCLDWCQLEDVAA---IGQLKKLEILSFRGSDI-----KQLPLEIGQLTRLQLLD 144
           +++Q+L +   +L D      +  L++ +++      +     K +   +     L  L+
Sbjct: 2   LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELN 61

Query: 145 LSNC----SSLVVIAPNVISKFSRLEELYMGDSFSQW 177
           L +       +  +   + +   ++++L + +     
Sbjct: 62  LRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTG 98

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]} Length = 162

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]

 Score = 37.5 bits (86), Expect = 0.002
 Identities = 16/90 (17%), Positives = 31/90 (34%), Gaps = 1/90 (1%)

Query: 82  FSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQ 141
              L   + +  +     LD   L     +       +L+ R S    L +    +  L 
Sbjct: 9   VEQLKLIMSKRYDGSQQALDLKGLRSDPDLVAQNIDVVLNRRSSMAATLRIIEENIPELL 68

Query: 142 LLDLSNCS-SLVVIAPNVISKFSRLEELYM 170
            L+LSN     +    +++ K   L+ L +
Sbjct: 69  SLNLSNNRLYRLDDMSSIVQKAPNLKILNL 98

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]} Length = 210

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]

 Score = 37.3 bits (85), Expect = 0.004
 Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 92  LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSN 147
           L  L TL L+  Q+ D+  +  L KL+ L    + I  L   +  L  L +L+L +
Sbjct: 155 LTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLR-ALAGLKNLDVLELFS 209

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	829
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.78
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.74
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.69
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.66
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.64
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.64
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.64
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.64
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.62
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.62
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.61
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.61
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.6
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.58
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.57
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.56
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.51
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.48
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.47
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.41
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.39
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.38
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.37
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.29
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.26
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.25
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.22
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.22
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.16
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.03
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.81
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.8
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.77
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.62
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.59
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.57
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.61
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.57
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.18
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.04
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.8
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.48

>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=99.78  E-value=9.4e-18  Score=180.92  Aligned_cols=300  Identities=18%  Similarity=0.181  Sum_probs=177.1

Q ss_pred             CCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcE
Q 003328           18 IRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQT   97 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~   97 (829)
                      .++++++|++++++|+.+.....+++|++|++++|.    +..++.  |+++++|++|++++|++..++ .++.+++|++
T Consensus        42 ~l~~l~~L~l~~~~I~~l~gl~~L~nL~~L~Ls~N~----l~~l~~--l~~L~~L~~L~L~~n~i~~i~-~l~~l~~L~~  114 (384)
T d2omza2          42 DLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQ----LTDITP--LKNLTKLVDILMNNNQIADIT-PLANLTNLTG  114 (384)
T ss_dssp             HHTTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSC----CCCCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCCE
T ss_pred             HhCCCCEEECCCCCCCCccccccCCCCCEEeCcCCc----CCCCcc--ccCCccccccccccccccccc-cccccccccc
Confidence            456899999999999888655588999999999998    677775  689999999999999998876 4889999999


Q ss_pred             EEccccCCCCcccccCCCCCcEEEccCCCCccch--------------------hhhcCCCCCCEEeccCCCCCCccChh
Q 003328           98 LCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLP--------------------LEIGQLTRLQLLDLSNCSSLVVIAPN  157 (829)
Q Consensus        98 L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp--------------------~~i~~L~~L~~L~l~~~~~l~~lp~~  157 (829)
                      |+++++.+..+........+..+....+.+..+.                    ..+.............+.  ......
T Consensus       115 L~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  192 (384)
T d2omza2         115 LTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNK--VSDISV  192 (384)
T ss_dssp             EECCSSCCCCCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSC--CCCCGG
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccc--cccccc
Confidence            9999888877755555666666665554332211                    112222333333333322  111222


Q ss_pred             hhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEccccccCCCCC
Q 003328          158 VISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNS  237 (829)
Q Consensus       158 ~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~w~~~~  237 (829)
                       ...+++++.++++++.+.          .+......++|+.|++.++.+..++....+++|+.+++..+...       
T Consensus       193 -~~~l~~~~~l~l~~n~i~----------~~~~~~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~-------  254 (384)
T d2omza2         193 -LAKLTNLESLIATNNQIS----------DITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQIS-------  254 (384)
T ss_dssp             -GGGCTTCSEEECCSSCCC----------CCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCC-------
T ss_pred             -cccccccceeeccCCccC----------CCCcccccCCCCEEECCCCCCCCcchhhcccccchhccccCccC-------
Confidence             566677777777666543          12223445667777777776666554445566666655322110       


Q ss_pred             CCccEEEeccCCccccchhhhhHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceEEecccCcccc
Q 003328          238 ETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRC  317 (829)
Q Consensus       238 ~~~~~~~l~~~~~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~  317 (829)
                                      .+..   -..+++|++|++.++. +..+ ..   +..++.++.+.+.++.- +.+      ...
T Consensus       255 ----------------~~~~---~~~~~~L~~L~l~~~~-l~~~-~~---~~~~~~l~~l~~~~n~l-~~~------~~~  303 (384)
T d2omza2         255 ----------------NLAP---LSGLTKLTELKLGANQ-ISNI-SP---LAGLTALTNLELNENQL-EDI------SPI  303 (384)
T ss_dssp             ----------------CCGG---GTTCTTCSEEECCSSC-CCCC-GG---GTTCTTCSEEECCSSCC-SCC------GGG
T ss_pred             ----------------CCCc---ccccccCCEeeccCcc-cCCC-Cc---ccccccccccccccccc-ccc------ccc
Confidence                            0000   0012455555554442 1111 11   23566666666665531 111      123


Q ss_pred             cccccccceeccccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEecc
Q 003328          318 TIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFFC  385 (829)
Q Consensus       318 ~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~c  385 (829)
                      ..+++++.|+++++ +++.     +++...+++|++|++++| ++++++.   +..+++|++|+++++
T Consensus       304 ~~~~~l~~L~ls~n-~l~~-----l~~l~~l~~L~~L~L~~n-~l~~l~~---l~~l~~L~~L~l~~N  361 (384)
T d2omza2         304 SNLKNLTYLTLYFN-NISD-----ISPVSSLTKLQRLFFANN-KVSDVSS---LANLTNINWLSAGHN  361 (384)
T ss_dssp             GGCTTCSEEECCSS-CCSC-----CGGGGGCTTCCEEECCSS-CCCCCGG---GGGCTTCCEEECCSS
T ss_pred             chhcccCeEECCCC-CCCC-----CcccccCCCCCEEECCCC-CCCCChh---HcCCCCCCEEECCCC
Confidence            44566666666655 2222     222456777777777776 5666542   355677777777665

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.74  E-value=6.6e-17  Score=174.17  Aligned_cols=307  Identities=16%  Similarity=0.195  Sum_probs=172.8

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS   88 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~   88 (829)
                      ++...++++.+++|++|++++|.++.+++..++++|++|++++|.    +..+++  ++++++|++|+++++.++.++..
T Consensus        55 ~I~~l~gl~~L~nL~~L~Ls~N~l~~l~~l~~L~~L~~L~L~~n~----i~~i~~--l~~l~~L~~L~~~~~~~~~~~~~  128 (384)
T d2omza2          55 GIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQ----IADITP--LANLTNLTGLTLFNNQITDIDPL  128 (384)
T ss_dssp             CCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSC----CCCCGG--GTTCTTCCEEECCSSCCCCCGGG
T ss_pred             CCCCccccccCCCCCEEeCcCCcCCCCccccCCcccccccccccc----cccccc--ccccccccccccccccccccccc
Confidence            455566777889999999999999999876699999999999999    566665  58999999999999988776543


Q ss_pred             hcCCCCCcEEEccccCCCCc---------------------ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccC
Q 003328           89 LGRLINLQTLCLDWCQLEDV---------------------AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSN  147 (829)
Q Consensus        89 l~~l~~Lr~L~L~~~~l~~l---------------------~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~  147 (829)
                       .....+..+....+.+..+                     ..+.............+.. ..+.....+++++.+++++
T Consensus       129 -~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~l~l~~  206 (384)
T d2omza2         129 -KNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKV-SDISVLAKLTNLESLIATN  206 (384)
T ss_dssp             -TTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCC-CCCGGGGGCTTCSEEECCS
T ss_pred             -cccccccccccccccccccccccccccccccccccccchhhhhcccccccccccccccc-ccccccccccccceeeccC
Confidence             3444555555544332211                     1111222222222222211 1122334445555555554


Q ss_pred             CCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEEEc
Q 003328          148 CSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKICIG  227 (829)
Q Consensus       148 ~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~  227 (829)
                      +. +..++.  .+...+|++|+++++.+.          .+..+..+++|+.+++..+.+..++....+++|+.+++...
T Consensus       207 n~-i~~~~~--~~~~~~L~~L~l~~n~l~----------~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~L~~L~l~~~  273 (384)
T d2omza2         207 NQ-ISDITP--LGILTNLDELSLNGNQLK----------DIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGAN  273 (384)
T ss_dssp             SC-CCCCGG--GGGCTTCCEEECCSSCCC----------CCGGGGGCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSS
T ss_pred             Cc-cCCCCc--ccccCCCCEEECCCCCCC----------CcchhhcccccchhccccCccCCCCcccccccCCEeeccCc
Confidence            43 333332  344445555555544332          12233444455555555554444443334444555444321


Q ss_pred             cccccCCCCCCCccEEEeccCCccccchhhhhHHHhhhhheeEeeccccCccccccccCCCCCCCCCcEEEEeecCCceE
Q 003328          228 EARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQNVVHELDDGEGFPRLKHLWVERCSEILH  307 (829)
Q Consensus       228 ~~~~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~~L~~L~l~~~~~l~~  307 (829)
                      ....                       +..   -..+..++.+.+..+. +.. +..+   ..+++++.|+++++. ++.
T Consensus       274 ~l~~-----------------------~~~---~~~~~~l~~l~~~~n~-l~~-~~~~---~~~~~l~~L~ls~n~-l~~  321 (384)
T d2omza2         274 QISN-----------------------ISP---LAGLTALTNLELNENQ-LED-ISPI---SNLKNLTYLTLYFNN-ISD  321 (384)
T ss_dssp             CCCC-----------------------CGG---GTTCTTCSEEECCSSC-CSC-CGGG---GGCTTCSEEECCSSC-CSC
T ss_pred             ccCC-----------------------CCc---cccccccccccccccc-ccc-cccc---chhcccCeEECCCCC-CCC
Confidence            1100                       000   0001333444443332 111 1122   367788888887764 332


Q ss_pred             EecccCcccccccccccceeccccccchhhhcCCCCCCCCCCCccEEEEecCCCCccccchHHHHhhcccceEEEec
Q 003328          308 IVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCDKLKHLFSFSMAKNLLRLQKVEVFF  384 (829)
Q Consensus       308 i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~l~~L~~L~i~~  384 (829)
                      +      .....+|+|++|+++++ .++.     ++..+.+++|++|+++++ +++++++   +.++++|+.|+|++
T Consensus       322 l------~~l~~l~~L~~L~L~~n-~l~~-----l~~l~~l~~L~~L~l~~N-~l~~l~~---l~~l~~L~~L~L~~  382 (384)
T d2omza2         322 I------SPVSSLTKLQRLFFANN-KVSD-----VSSLANLTNINWLSAGHN-QISDLTP---LANLTRITQLGLND  382 (384)
T ss_dssp             C------GGGGGCTTCCEEECCSS-CCCC-----CGGGGGCTTCCEEECCSS-CCCBCGG---GTTCTTCSEEECCC
T ss_pred             C------cccccCCCCCEEECCCC-CCCC-----ChhHcCCCCCCEEECCCC-cCCCChh---hccCCCCCEeeCCC
Confidence            2      12455788888888887 3443     222557889999999876 6788764   46788999998875

>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=99.69  E-value=1.9e-16  Score=160.84  Aligned_cols=194  Identities=22%  Similarity=0.235  Sum_probs=161.5

Q ss_pred             CCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEE
Q 003328           19 RKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTL   98 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L   98 (829)
                      ..++..++.++++++++|+.+. +++++|++++|.    +..+|...|.++++|++|++++|.++.+|. ++.+++|++|
T Consensus         9 ~~~~~~v~C~~~~L~~iP~~lp-~~l~~L~Ls~N~----i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L   82 (266)
T d1p9ag_           9 VASHLEVNCDKRNLTALPPDLP-KDTTILHLSENL----LYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTL   82 (266)
T ss_dssp             STTCCEEECTTSCCSSCCSCCC-TTCCEEECTTSC----CSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEE
T ss_pred             cCCCeEEEccCCCCCeeCcCcC-cCCCEEECcCCc----CCCcCHHHhhcccccccccccccccccccc-cccccccccc
Confidence            4466778899999999987653 579999999998    778887778999999999999999988874 5789999999


Q ss_pred             EccccCCCCc-ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328           99 CLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus        99 ~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      ++++|+++.. ..+.++++|++|+++++.+..++. .+..+.++++|++.+|. +..++...+..+++|+.+++++|.+.
T Consensus        83 ~Ls~N~l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~-l~~l~~~~~~~l~~l~~l~l~~N~l~  161 (266)
T d1p9ag_          83 DLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNE-LKTLPPGLLTPTPKLEKLSLANNNLT  161 (266)
T ss_dssp             ECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTSCCS
T ss_pred             ccccccccccccccccccccccccccccccceeeccccccccccccccccccc-cceeccccccccccchhccccccccc
Confidence            9999999887 888999999999999998887644 46788999999999986 77888776778999999999998765


Q ss_pred             cccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc-ccccccEEEEEEc
Q 003328          177 WDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW-VSVELQRYKICIG  227 (829)
Q Consensus       177 ~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~  227 (829)
                              ......+..+++|++|++++|.+..+|.++ .+.+|+.+++.++
T Consensus       162 --------~~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~~N  205 (266)
T d1p9ag_         162 --------ELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGN  205 (266)
T ss_dssp             --------CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSC
T ss_pred             --------ccCccccccccccceeecccCCCcccChhHCCCCCCCEEEecCC
Confidence                    223345677889999999999999888764 6788888877643

>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=99.66  E-value=2e-15  Score=156.77  Aligned_cols=264  Identities=19%  Similarity=0.209  Sum_probs=148.7

Q ss_pred             CcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEccccCCCCc--ccccCCCCCcEE
Q 003328           44 LQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEIL  120 (829)
Q Consensus        44 Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~-~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L  120 (829)
                      .++++.++..    ...+|..+   .+.+++|++++|+++.+|+ ++.++++|++|++++|.+..+  ..|.++++|++|
T Consensus        12 ~~~~~C~~~~----L~~lP~~l---~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L   84 (305)
T d1xkua_          12 LRVVQCSDLG----LEKVPKDL---PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERL   84 (305)
T ss_dssp             TTEEECTTSC----CCSCCCSC---CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEE
T ss_pred             CCEEEecCCC----CCccCCCC---CCCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEe
Confidence            4455554444    45555543   2456666666666666654 456666666666666666655  446666666666


Q ss_pred             EccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEE
Q 003328          121 SFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTL  200 (829)
Q Consensus       121 ~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L  200 (829)
                      ++++|.++.+|..+  ...++.|+..++. +..++...+.....++.+....+...      ........+..+++|+.+
T Consensus        85 ~l~~n~l~~l~~~~--~~~l~~L~~~~n~-l~~l~~~~~~~~~~~~~l~~~~n~~~------~~~~~~~~~~~l~~L~~l  155 (305)
T d1xkua_          85 YLSKNQLKELPEKM--PKTLQELRVHENE-ITKVRKSVFNGLNQMIVVELGTNPLK------SSGIENGAFQGMKKLSYI  155 (305)
T ss_dssp             ECCSSCCSBCCSSC--CTTCCEEECCSSC-CCBBCHHHHTTCTTCCEEECCSSCCC------GGGBCTTGGGGCTTCCEE
T ss_pred             cccCCccCcCccch--hhhhhhhhccccc-hhhhhhhhhhcccccccccccccccc------ccCCCccccccccccCcc
Confidence            66666666666543  3466666666654 55555544455666666665554322      111223345556677777


Q ss_pred             EeecCCCCCcCCccccccccEEEEEEccccccCCCCCCCccEEEeccCCccccchhhhhHHHhhhhheeEeeccccCccc
Q 003328          201 EIHVWDAQILPQDWVSVELQRYKICIGEARRIWPVNSETSRLVWLHGLENVSTLLENYGMKMLLKEAEEIHLIKLKGVQN  280 (829)
Q Consensus       201 ~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~  280 (829)
                      ++..+.+..++... +++|+.|                                                ++.++.....
T Consensus       156 ~l~~n~l~~l~~~~-~~~L~~L------------------------------------------------~l~~n~~~~~  186 (305)
T d1xkua_         156 RIADTNITTIPQGL-PPSLTEL------------------------------------------------HLDGNKITKV  186 (305)
T ss_dssp             ECCSSCCCSCCSSC-CTTCSEE------------------------------------------------ECTTSCCCEE
T ss_pred             ccccCCccccCccc-CCccCEE------------------------------------------------ECCCCcCCCC
Confidence            77766665554332 2333333                                                3333222221


Q ss_pred             cccccCCCCCCCCCcEEEEeecCCceEEecccCcccccccccccceeccccccchhhhcCCCCCCCCCCCccEEEEecCC
Q 003328          281 VVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVRCTIFPLLESLSLWFLSNLETICDSQLTEDQSFSNLRIIEVKSCD  360 (829)
Q Consensus       281 ~~~~l~~~~~~~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~~~l~~~~~~~~L~~L~i~~C~  360 (829)
                      ....+.   .++.+++|.++++. +..+...    ....+++|++|+++++ +++.++.    ....+++|++|+++++ 
T Consensus       187 ~~~~~~---~~~~l~~L~~s~n~-l~~~~~~----~~~~l~~L~~L~L~~N-~L~~lp~----~l~~l~~L~~L~Ls~N-  252 (305)
T d1xkua_         187 DAASLK---GLNNLAKLGLSFNS-ISAVDNG----SLANTPHLRELHLNNN-KLVKVPG----GLADHKYIQVVYLHNN-  252 (305)
T ss_dssp             CTGGGT---TCTTCCEEECCSSC-CCEECTT----TGGGSTTCCEEECCSS-CCSSCCT----TTTTCSSCCEEECCSS-
T ss_pred             ChhHhh---cccccccccccccc-ccccccc----cccccccceeeecccc-ccccccc----ccccccCCCEEECCCC-
Confidence            122232   66777888877764 3433211    1234678888888877 3444321    1456888888888886 


Q ss_pred             CCccccch-----HHHHhhcccceEEEeccc
Q 003328          361 KLKHLFSF-----SMAKNLLRLQKVEVFFCD  386 (829)
Q Consensus       361 ~L~~l~~~-----~~~~~l~~L~~L~i~~c~  386 (829)
                      ++++++..     ......++|+.|++++.+
T Consensus       253 ~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~  283 (305)
T d1xkua_         253 NISAIGSNDFCPPGYNTKKASYSGVSLFSNP  283 (305)
T ss_dssp             CCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             ccCccChhhccCcchhcccCCCCEEECCCCc
Confidence            57776432     123446778888888765

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=1.3e-15  Score=154.44  Aligned_cols=183  Identities=19%  Similarity=0.198  Sum_probs=155.1

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCc
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLP   86 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp   86 (829)
                      ++...|+ ..++++++|++++|.+..++.. + ++++|++|++++|.    +..+|.  ++.+++|++|++++|+++..+
T Consensus        21 ~L~~iP~-~lp~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~----l~~l~~--~~~l~~L~~L~Ls~N~l~~~~   93 (266)
T d1p9ag_          21 NLTALPP-DLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE----LTKLQV--DGTLPVLGTLDLSHNQLQSLP   93 (266)
T ss_dssp             CCSSCCS-CCCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSC----CCEEEC--CSCCTTCCEEECCSSCCSSCC
T ss_pred             CCCeeCc-CcCcCCCEEECcCCcCCCcCHHHhhcccccccccccccc----cccccc--ccccccccccccccccccccc
Confidence            3455542 3457899999999999998753 3 89999999999998    667775  578999999999999999999


Q ss_pred             hhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCC
Q 003328           87 SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFS  163 (829)
Q Consensus        87 ~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~  163 (829)
                      ..+..+++|++|+++++.+..+  ..+..+.++++|++++|.++.+|.. +..+++|+++++++|. +..++.+.++.++
T Consensus        94 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~-l~~~~~~~~~~l~  172 (266)
T d1p9ag_          94 LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNN-LTELPAGLLNGLE  172 (266)
T ss_dssp             CCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC-CSCCCTTTTTTCT
T ss_pred             cccccccccccccccccccceeeccccccccccccccccccccceeccccccccccchhccccccc-ccccCcccccccc
Confidence            9999999999999999998876  7788999999999999999988765 5779999999999987 7788776688999


Q ss_pred             cccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          164 RLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       164 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                      +|++|++++|.+.         .....+..+++|+.|++++|...
T Consensus       173 ~L~~L~Ls~N~L~---------~lp~~~~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         173 NLDTLLLQENSLY---------TIPKGFFGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             TCCEEECCSSCCC---------CCCTTTTTTCCCSEEECCSCCBC
T ss_pred             ccceeecccCCCc---------ccChhHCCCCCCCEEEecCCCCC
Confidence            9999999999875         22334556789999999988653

>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=99.64  E-value=2.3e-15  Score=146.56  Aligned_cols=165  Identities=24%  Similarity=0.356  Sum_probs=122.0

Q ss_pred             CCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEE
Q 003328           19 RKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTL   98 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L   98 (829)
                      ++++++|+++++.+..++....+++|++|++++|.    +..++.  ++++++|++|++++|+++.+| .+..+++|++|
T Consensus        45 L~~L~~L~l~~~~i~~l~~l~~l~~L~~L~L~~n~----i~~l~~--~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L  117 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNK----LTDIKP--LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSL  117 (210)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC----CCCCGG--GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEE
T ss_pred             hcCccEEECcCCCCCCchhHhhCCCCCEEeCCCcc----ccCccc--cccCccccccccccccccccc-ccccccccccc
Confidence            45788888888888777654577888888888887    555654  477888888888888887776 47778888888


Q ss_pred             EccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccc
Q 003328           99 CLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWD  178 (829)
Q Consensus        99 ~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~  178 (829)
                      ++++|.+..+..+..+.+|++++++++.++..+ .++++++|+++++++|. +..++.  ++++++|++|++++|.+.  
T Consensus       118 ~l~~~~~~~~~~l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~~l~l~~n~-l~~i~~--l~~l~~L~~L~Ls~N~i~--  191 (210)
T d1h6ta2         118 SLEHNGISDINGLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDNQ-ISDIVP--LAGLTKLQNLYLSKNHIS--  191 (210)
T ss_dssp             ECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCC--
T ss_pred             ccccccccccccccccccccccccccccccccc-ccccccccccccccccc-cccccc--ccCCCCCCEEECCCCCCC--
Confidence            888887777777777888888888888777654 46677888888888776 556654  677888888888777653  


Q ss_pred             cccCCCccchhhhcCCCCCcEEEeec
Q 003328          179 KVEGGSNASLAELKGLSKLTTLEIHV  204 (829)
Q Consensus       179 ~~~~~~~~~~~~L~~l~~L~~L~l~~  204 (829)
                              .+..+.++++|++|++++
T Consensus       192 --------~l~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         192 --------DLRALAGLKNLDVLELFS  209 (210)
T ss_dssp             --------BCGGGTTCTTCSEEEEEE
T ss_pred             --------CChhhcCCCCCCEEEccC
Confidence                    234566777788777763

>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=99.64  E-value=1.1e-14  Score=151.09  Aligned_cols=174  Identities=20%  Similarity=0.271  Sum_probs=93.0

Q ss_pred             CCCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCc
Q 003328           19 RKDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQ   96 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr   96 (829)
                      ++++++|++++|.++++|+. + ++++|++|++++|.    ...+++..|.++++|++|++++|+++.+|..+  ...++
T Consensus        30 ~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~----~~~i~~~~f~~l~~L~~L~l~~n~l~~l~~~~--~~~l~  103 (305)
T d1xkua_          30 PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNK----ISKISPGAFAPLVKLERLYLSKNQLKELPEKM--PKTLQ  103 (305)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSC----CCCBCTTTTTTCTTCCEEECCSSCCSBCCSSC--CTTCC
T ss_pred             CCCCCEEECcCCcCCCcChhHhhcccccccccccccc----ccccchhhhhCCCccCEecccCCccCcCccch--hhhhh
Confidence            45566666666666666542 2 55666666666665    34444444566666666666666666655432  24566


Q ss_pred             EEEccccCCCCc--ccccCCCCCcEEEccCCCCc---cchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEcc
Q 003328           97 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIK---QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG  171 (829)
Q Consensus        97 ~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~---~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~  171 (829)
                      .|++.++.+..+  ..+.....++.++...+...   ..+..+..+++|+++++.+|. +..+|..   -+++|++|+++
T Consensus       104 ~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~-l~~l~~~---~~~~L~~L~l~  179 (305)
T d1xkua_         104 ELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTN-ITTIPQG---LPPSLTELHLD  179 (305)
T ss_dssp             EEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSC-CCSCCSS---CCTTCSEEECT
T ss_pred             hhhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCC-ccccCcc---cCCccCEEECC
Confidence            666666655554  34445555556655554322   223345556666666666554 4445432   24556666665


Q ss_pred             CCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCc
Q 003328          172 DSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQIL  210 (829)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~  210 (829)
                      ++...        ......+..++.++.|+++++.+..+
T Consensus       180 ~n~~~--------~~~~~~~~~~~~l~~L~~s~n~l~~~  210 (305)
T d1xkua_         180 GNKIT--------KVDAASLKGLNNLAKLGLSFNSISAV  210 (305)
T ss_dssp             TSCCC--------EECTGGGTTCTTCCEEECCSSCCCEE
T ss_pred             CCcCC--------CCChhHhhcccccccccccccccccc
Confidence            55432        12223445555566666665555433

>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=99.64  E-value=3.2e-15  Score=144.24  Aligned_cols=147  Identities=18%  Similarity=0.257  Sum_probs=97.3

Q ss_pred             CCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEE
Q 003328           19 RKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTL   98 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L   98 (829)
                      ++++++|+++++.+..++....+++|++|++++|.    +..+++  ++++++|++|++++|.+..++ .+..+++|++|
T Consensus        39 l~~l~~L~l~~~~i~~l~~l~~l~nL~~L~Ls~N~----l~~~~~--l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L  111 (199)
T d2omxa2          39 LDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQ----LTDITP--LKNLTKLVDILMNNNQIADIT-PLANLTNLTGL  111 (199)
T ss_dssp             HTTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC----CCCCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSEE
T ss_pred             hcCCCEEECCCCCCCCccccccCCCcCcCcccccc----ccCccc--ccCCccccccccccccccccc-ccccccccccc
Confidence            45677777777777666554466777777777766    444543  467777777777777666665 36667777777


Q ss_pred             EccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328           99 CLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus        99 ~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +++++....+..+.++++|++|++++|.+..+| .+..+++|++|++.+|. +..++.  ++++++|++|++++|.+.
T Consensus       112 ~l~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~l~~~~~L~~L~l~~n~-l~~l~~--l~~l~~L~~L~ls~N~i~  185 (199)
T d2omxa2         112 TLFNNQITDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLNFSSNQ-VTDLKP--LANLTTLERLDISSNKVS  185 (199)
T ss_dssp             ECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCC
T ss_pred             cccccccccccccchhhhhHHhhhhhhhhcccc-ccccccccccccccccc-ccCCcc--ccCCCCCCEEECCCCCCC
Confidence            777766666655666777777777777666654 46667777777777665 555553  666777777777766543

>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=99.62  E-value=1.8e-15  Score=157.62  Aligned_cols=125  Identities=20%  Similarity=0.344  Sum_probs=58.6

Q ss_pred             CCcEEEcCCCCCC---CCCCcc-CCCCCcEEEeec-CCCcccccccchhhhcCCCCccEEEecCCCCCC-CchhhcCCCC
Q 003328           21 DPIAISLPQRDIQ---ELPERL-QCPNLQLFLLIT-KGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-LPSSLGRLIN   94 (829)
Q Consensus        21 ~l~~L~l~~~~~~---~l~~~~-~~~~Lr~L~l~~-~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lp~~l~~l~~   94 (829)
                      +++.|+++++.+.   .+|+.+ ++++||+|++++ |.   ..+.+|.++ +++++|++|++++|++.. .|..+..+.+
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~~~~~~~~~~~~~  126 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINN---LVGPIPPAI-AKLTQLHYLYITHTNVSGAIPDFLSQIKT  126 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETT---EESCCCGGG-GGCTTCSEEEEEEECCEEECCGGGGGCTT
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCccccccccccccc---ccccccccc-ccccccchhhhccccccccccccccchhh
Confidence            3555555555444   244433 455555555544 23   233444442 455555555555555443 2333444555


Q ss_pred             CcEEEccccCCC-Cc-ccccCCCCCcEEEccCCCCc-cchhhhcCCCCC-CEEeccCCC
Q 003328           95 LQTLCLDWCQLE-DV-AAIGQLKKLEILSFRGSDIK-QLPLEIGQLTRL-QLLDLSNCS  149 (829)
Q Consensus        95 Lr~L~L~~~~l~-~l-~~i~~L~~L~~L~l~~~~l~-~lp~~i~~L~~L-~~L~l~~~~  149 (829)
                      |+++++++|.+. .+ ..++++++|+++++++|.+. .+|..++.+.++ +.+++++|.
T Consensus       127 L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~  185 (313)
T d1ogqa_         127 LVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNR  185 (313)
T ss_dssp             CCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSE
T ss_pred             hcccccccccccccCchhhccCcccceeecccccccccccccccccccccccccccccc
Confidence            555555555433 22 44555555555555555444 344444444443 444444443

>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=99.62  E-value=3.3e-15  Score=144.08  Aligned_cols=178  Identities=17%  Similarity=0.246  Sum_probs=148.3

Q ss_pred             EEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEcccc
Q 003328           24 AISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWC  103 (829)
Q Consensus        24 ~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~  103 (829)
                      ...+..+.+........++++++|+++++.    +.++..  ++.+++|++|++++|+++.++. ++.+++|++|++++|
T Consensus        22 ~~~l~~~~~~~~~~~~~l~~l~~L~l~~~~----i~~l~~--l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n   94 (199)
T d2omxa2          22 KTVLGKTNVTDTVSQTDLDQVTTLQADRLG----IKSIDG--VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNN   94 (199)
T ss_dssp             HHHTTCSSTTSEECHHHHTTCCEEECTTSC----CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS
T ss_pred             HHHhCCCCCCCccCHHHhcCCCEEECCCCC----CCCccc--cccCCCcCcCccccccccCccc-ccCCccccccccccc
Confidence            344566666655444467899999999998    666653  5889999999999999999875 899999999999999


Q ss_pred             CCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCC
Q 003328          104 QLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGG  183 (829)
Q Consensus       104 ~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~  183 (829)
                      .+..+..++++++|++|+++++.+..++ .+.++++|++|++++|. +..++.  +..+++|++|++.+|.+.       
T Consensus        95 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~l~~L~~L~l~~n~-l~~~~~--l~~~~~L~~L~l~~n~l~-------  163 (199)
T d2omxa2          95 QIADITPLANLTNLTGLTLFNNQITDID-PLKNLTNLNRLELSSNT-ISDISA--LSGLTSLQQLNFSSNQVT-------  163 (199)
T ss_dssp             CCCCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSSC-CCCCGG--GTTCTTCSEEECCSSCCC-------
T ss_pred             cccccccccccccccccccccccccccc-ccchhhhhHHhhhhhhh-hccccc--cccccccccccccccccc-------
Confidence            9988878999999999999999887764 58899999999999987 666664  899999999999998765       


Q ss_pred             CccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEE
Q 003328          184 SNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRY  222 (829)
Q Consensus       184 ~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L  222 (829)
                         .+..++++++|+.|++++|++.+++....+++|+.|
T Consensus       164 ---~l~~l~~l~~L~~L~ls~N~i~~i~~l~~L~~L~~L  199 (199)
T d2omxa2         164 ---DLKPLANLTTLERLDISSNKVSDISVLAKLTNLESL  199 (199)
T ss_dssp             ---CCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEE
T ss_pred             ---CCccccCCCCCCEEECCCCCCCCCccccCCCCCCcC
Confidence               234578899999999999998887755567777764

>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=99.61  E-value=4.7e-15  Score=152.07  Aligned_cols=203  Identities=22%  Similarity=0.312  Sum_probs=166.6

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecC-CCCCCC
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIG-IHFSSL   85 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~-~~i~~l   85 (829)
                      ++..+|. ..+.++++|++++|+|+++|+. + ++++|++|+++++.    +..++...+..+..++.+.... +.++.+
T Consensus        22 ~L~~iP~-~ip~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~----l~~i~~~~~~~~~~~~~l~~~~~~~~~~l   96 (284)
T d1ozna_          22 GLQAVPV-GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNV----LARIDAAAFTGLALLEQLDLSDNAQLRSV   96 (284)
T ss_dssp             CCSSCCT-TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSC----CCEECTTTTTTCTTCCEEECCSCTTCCCC
T ss_pred             CCCccCC-CCCCCCCEEECcCCcCCCCCHHHhhcccccccccccccc----ccccccccccccccccccccccccccccc
Confidence            4555653 4567899999999999999864 3 89999999999998    6777777788899999998764 456665


Q ss_pred             -chhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCCCCCccChhhhcC
Q 003328           86 -PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISK  161 (829)
Q Consensus        86 -p~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~  161 (829)
                       |..+.++++|++|++++|.+..+  ..++...+|+.++++++.++.+|. .+..+++|++|++++|. +..++...+..
T Consensus        97 ~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~-l~~l~~~~f~~  175 (284)
T d1ozna_          97 DPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNR-ISSVPERAFRG  175 (284)
T ss_dssp             CTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCEECTTTTTT
T ss_pred             cchhhcccccCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCc-ccccchhhhcc
Confidence             55688999999999999998866  678889999999999999998865 47789999999999986 78887776889


Q ss_pred             CCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCcc--ccccccEEEEE
Q 003328          162 FSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDW--VSVELQRYKIC  225 (829)
Q Consensus       162 L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~  225 (829)
                      +++|+++++++|.+.        ......+..+++|++|+++.|.+..++...  .+.+|+.+++.
T Consensus       176 l~~L~~l~l~~N~l~--------~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~  233 (284)
T d1ozna_         176 LHSLDRLLLHQNRVA--------HVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLN  233 (284)
T ss_dssp             CTTCCEEECCSSCCC--------EECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECC
T ss_pred             ccccchhhhhhcccc--------ccChhHhhhhhhcccccccccccccccccccccccccCEEEec
Confidence            999999999998765        233455778889999999999988777543  67788888765

>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=99.61  E-value=1e-14  Score=144.08  Aligned_cols=187  Identities=18%  Similarity=0.224  Sum_probs=159.3

Q ss_pred             CCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcE
Q 003328           18 IRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQT   97 (829)
Q Consensus        18 ~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~   97 (829)
                      .+.++++|++.++++++++....+++|++|++++|.    +..++.  |.++++|++++++++.++.++ .+..+++|++
T Consensus        39 ~l~~L~~L~l~~~~i~~l~~l~~l~~L~~L~ls~n~----i~~~~~--l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~  111 (227)
T d1h6ua2          39 DLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQ----ITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKT  111 (227)
T ss_dssp             HHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC----CCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCE
T ss_pred             HcCCcCEEECCCCCCCcchhHhcCCCCcEeecCCce----eecccc--ccccccccccccccccccccc-cccccccccc
Confidence            457999999999999999765599999999999998    556654  689999999999999998886 5889999999


Q ss_pred             EEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcccc
Q 003328           98 LCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQW  177 (829)
Q Consensus        98 L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~  177 (829)
                      ++++++....+..+.....++.+.++++.+...+ .+.+.++|++|++.+|. +...+.  ++++++|++|++++|.+. 
T Consensus       112 l~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~L~~L~l~~n~-~~~~~~--l~~l~~L~~L~Ls~n~l~-  186 (227)
T d1h6ua2         112 LDLTSTQITDVTPLAGLSNLQVLYLDLNQITNIS-PLAGLTNLQYLSIGNAQ-VSDLTP--LANLSKLTTLKADDNKIS-  186 (227)
T ss_dssp             EECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCC-
T ss_pred             cccccccccccchhccccchhhhhchhhhhchhh-hhccccccccccccccc-cccchh--hcccccceecccCCCccC-
Confidence            9999998888877888999999999998887654 36788999999999987 555544  789999999999998764 


Q ss_pred             ccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEE
Q 003328          178 DKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKIC  225 (829)
Q Consensus       178 ~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  225 (829)
                               .+..++++++|++|+++.|++..++....+++|+.|+++
T Consensus       187 ---------~l~~l~~l~~L~~L~Ls~N~lt~i~~l~~l~~L~~L~ls  225 (227)
T d1h6ua2         187 ---------DISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLT  225 (227)
T ss_dssp             ---------CCGGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEEE
T ss_pred             ---------CChhhcCCCCCCEEECcCCcCCCCcccccCCCCCEEEee
Confidence                     244577889999999999999888765678899999875

>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=99.60  E-value=5.7e-15  Score=143.68  Aligned_cols=179  Identities=21%  Similarity=0.275  Sum_probs=149.7

Q ss_pred             EcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCC
Q 003328           26 SLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQL  105 (829)
Q Consensus        26 ~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l  105 (829)
                      .+..+.+........+.+|+.|++.+|.    +..++.  +..+++|++|++++|.++.++ .++.+++|++|++++|++
T Consensus        30 ~l~~~~~~~~~~~~~L~~L~~L~l~~~~----i~~l~~--l~~l~~L~~L~L~~n~i~~l~-~~~~l~~L~~L~l~~n~i  102 (210)
T d1h6ta2          30 NLKKKSVTDAVTQNELNSIDQIIANNSD----IKSVQG--IQYLPNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDENKV  102 (210)
T ss_dssp             HTTCSCTTSEECHHHHHTCCEEECTTSC----CCCCTT--GGGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSSCC
T ss_pred             HhCcCccCCccCHHHhcCccEEECcCCC----CCCchh--HhhCCCCCEEeCCCccccCcc-ccccCccccccccccccc
Confidence            4445555443332356789999999998    566654  588999999999999999987 478999999999999999


Q ss_pred             CCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCc
Q 003328          106 EDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSN  185 (829)
Q Consensus       106 ~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~  185 (829)
                      +.+..+.++++|++|+++++.+..++ .+.++++++++++.++. +...+.  ++++++|++++++++.+.         
T Consensus       103 ~~l~~l~~l~~L~~L~l~~~~~~~~~-~l~~l~~l~~l~~~~n~-l~~~~~--~~~l~~L~~l~l~~n~l~---------  169 (210)
T d1h6ta2         103 KDLSSLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGNNK-ITDITV--LSRLTKLDTLSLEDNQIS---------  169 (210)
T ss_dssp             CCGGGGTTCTTCCEEECTTSCCCCCG-GGGGCTTCCEEECCSSC-CCCCGG--GGGCTTCSEEECCSSCCC---------
T ss_pred             cccccccccccccccccccccccccc-ccccccccccccccccc-cccccc--cccccccccccccccccc---------
Confidence            99988999999999999999888775 58889999999999877 666554  789999999999998764         


Q ss_pred             cchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEEEE
Q 003328          186 ASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYKIC  225 (829)
Q Consensus       186 ~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  225 (829)
                       .+..+.++++|+.|++++|.++.++....+++|+.|+++
T Consensus       170 -~i~~l~~l~~L~~L~Ls~N~i~~l~~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         170 -DIVPLAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELF  208 (210)
T ss_dssp             -CCGGGTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEEEE
T ss_pred             -ccccccCCCCCCEEECCCCCCCCChhhcCCCCCCEEEcc
Confidence             234578899999999999999888766688999999986

>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=99.58  E-value=3.1e-13  Score=142.86  Aligned_cols=137  Identities=18%  Similarity=0.263  Sum_probs=96.1

Q ss_pred             CCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEE
Q 003328           20 KDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLC   99 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~   99 (829)
                      .++++|++++++++++|+.  .++|++|++++|.    +..+|..    +.+|+.|++++++++.++..   .+.|++|+
T Consensus        38 ~~l~~LdLs~~~L~~lp~~--~~~L~~L~Ls~N~----l~~lp~~----~~~L~~L~l~~n~l~~l~~l---p~~L~~L~  104 (353)
T d1jl5a_          38 RQAHELELNNLGLSSLPEL--PPHLESLVASCNS----LTELPEL----PQSLKSLLVDNNNLKALSDL---PPLLEYLG  104 (353)
T ss_dssp             HTCSEEECTTSCCSCCCSC--CTTCSEEECCSSC----CSSCCCC----CTTCCEEECCSSCCSCCCSC---CTTCCEEE
T ss_pred             cCCCEEEeCCCCCCCCCCC--CCCCCEEECCCCC----Ccccccc----hhhhhhhhhhhcccchhhhh---cccccccc
Confidence            3678888888888888864  4678888888887    6677742    45788888888887766532   13588888


Q ss_pred             ccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCcc
Q 003328          100 LDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFS  175 (829)
Q Consensus       100 L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~  175 (829)
                      +++|.+..+..++++++|++|+++++.+...|..   ...+..+.+..+.. .....  ++.+..++.+++.++..
T Consensus       105 L~~n~l~~lp~~~~l~~L~~L~l~~~~~~~~~~~---~~~l~~l~~~~~~~-~~~~~--l~~l~~l~~L~l~~n~~  174 (353)
T d1jl5a_         105 VSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDL---PPSLEFIAAGNNQL-EELPE--LQNLPFLTAIYADNNSL  174 (353)
T ss_dssp             CCSSCCSSCCCCTTCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCC-SSCCC--CTTCTTCCEEECCSSCC
T ss_pred             ccccccccccchhhhccceeeccccccccccccc---cccccchhhccccc-ccccc--ccccccceecccccccc
Confidence            8888888776677888888888888877766543   34566666665442 22222  56777778887776654

>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=99.57  E-value=3.5e-13  Score=142.49  Aligned_cols=140  Identities=21%  Similarity=0.245  Sum_probs=98.9

Q ss_pred             CCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCcccccCCCCCcEEE
Q 003328           42 PNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILS  121 (829)
Q Consensus        42 ~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~  121 (829)
                      .++++|+++++.    +..+|+    ..++|++|++++|+++++|+.+   .+|+.|++++|+++.+..+.  ..|++|+
T Consensus        38 ~~l~~LdLs~~~----L~~lp~----~~~~L~~L~Ls~N~l~~lp~~~---~~L~~L~l~~n~l~~l~~lp--~~L~~L~  104 (353)
T d1jl5a_          38 RQAHELELNNLG----LSSLPE----LPPHLESLVASCNSLTELPELP---QSLKSLLVDNNNLKALSDLP--PLLEYLG  104 (353)
T ss_dssp             HTCSEEECTTSC----CSCCCS----CCTTCSEEECCSSCCSSCCCCC---TTCCEEECCSSCCSCCCSCC--TTCCEEE
T ss_pred             cCCCEEEeCCCC----CCCCCC----CCCCCCEEECCCCCCcccccch---hhhhhhhhhhcccchhhhhc--ccccccc
Confidence            468889998888    667875    2568899999999998888654   57888888888887764332  4688999


Q ss_pred             ccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEE
Q 003328          122 FRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLE  201 (829)
Q Consensus       122 l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~  201 (829)
                      +++|.+..+|. ++++++|++|++.++. +...+.    ....+..+.+..+...          ....++.++.++.+.
T Consensus       105 L~~n~l~~lp~-~~~l~~L~~L~l~~~~-~~~~~~----~~~~l~~l~~~~~~~~----------~~~~l~~l~~l~~L~  168 (353)
T d1jl5a_         105 VSNNQLEKLPE-LQNSSFLKIIDVDNNS-LKKLPD----LPPSLEFIAAGNNQLE----------ELPELQNLPFLTAIY  168 (353)
T ss_dssp             CCSSCCSSCCC-CTTCTTCCEEECCSSC-CSCCCC----CCTTCCEEECCSSCCS----------SCCCCTTCTTCCEEE
T ss_pred             ccccccccccc-hhhhccceeecccccc-cccccc----ccccccchhhcccccc----------ccccccccccceecc
Confidence            99988888874 6788899999988876 444443    2455666666554332          223455666777887


Q ss_pred             eecCCCCCc
Q 003328          202 IHVWDAQIL  210 (829)
Q Consensus       202 l~~~~~~~~  210 (829)
                      +..+....+
T Consensus       169 l~~n~~~~~  177 (353)
T d1jl5a_         169 ADNNSLKKL  177 (353)
T ss_dssp             CCSSCCSSC
T ss_pred             ccccccccc
Confidence            777665433

>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=99.56  E-value=6e-14  Score=138.36  Aligned_cols=175  Identities=20%  Similarity=0.312  Sum_probs=150.8

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchh
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSS   88 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~   88 (829)
                      +++.++++..+++|++|++++|.+..+++...+++++++++.+|.    ...++.  +.++++|++++++++....++ .
T Consensus        52 ~i~~l~~l~~l~~L~~L~ls~n~i~~~~~l~~l~~l~~l~~~~n~----~~~i~~--l~~l~~L~~l~l~~~~~~~~~-~  124 (227)
T d1h6ua2          52 GVTTIEGVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNP----LKNVSA--IAGLQSIKTLDLTSTQITDVT-P  124 (227)
T ss_dssp             CCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCC----CSCCGG--GTTCTTCCEEECTTSCCCCCG-G
T ss_pred             CCCcchhHhcCCCCcEeecCCceeecccccccccccccccccccc----cccccc--ccccccccccccccccccccc-h
Confidence            566777788899999999999999988876799999999999998    566654  589999999999999887764 4


Q ss_pred             hcCCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEE
Q 003328           89 LGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEEL  168 (829)
Q Consensus        89 l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L  168 (829)
                      +...+.++++.++++.+.....+.+..+|++|++++|.+...+. ++++++|++|++++|. +..++.  ++++++|++|
T Consensus       125 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~Ls~n~-l~~l~~--l~~l~~L~~L  200 (227)
T d1h6ua2         125 LAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADDNK-ISDISP--LASLPNLIEV  200 (227)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-CCCCGG--GGGCTTCCEE
T ss_pred             hccccchhhhhchhhhhchhhhhccccccccccccccccccchh-hcccccceecccCCCc-cCCChh--hcCCCCCCEE
Confidence            67889999999999988877778899999999999998887654 8999999999999986 788876  8999999999


Q ss_pred             EccCCccccccccCCCccchhhhcCCCCCcEEEeec
Q 003328          169 YMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHV  204 (829)
Q Consensus       169 ~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~  204 (829)
                      ++++|.+.          .+..++++++|+.|+++.
T Consensus       201 ~Ls~N~lt----------~i~~l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         201 HLKNNQIS----------DVSPLANTSNLFIVTLTN  226 (227)
T ss_dssp             ECTTSCCC----------BCGGGTTCTTCCEEEEEE
T ss_pred             ECcCCcCC----------CCcccccCCCCCEEEeeC
Confidence            99999764          345688999999999873

>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=99.51  E-value=1.7e-14  Score=150.14  Aligned_cols=195  Identities=14%  Similarity=0.161  Sum_probs=157.1

Q ss_pred             ccCCCCCCcEEEcCC-CCCC-CCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCC-CCchhhc
Q 003328           15 EETIRKDPIAISLPQ-RDIQ-ELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFS-SLPSSLG   90 (829)
Q Consensus        15 ~~~~~~~l~~L~l~~-~~~~-~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-~lp~~l~   90 (829)
                      .+..+++|++|++++ |.+. .+|+.+ ++++|++|++++|.    +..++...+..+.+|+++++++|.+. .+|..++
T Consensus        71 ~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~----l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~  146 (313)
T d1ogqa_          71 SLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTN----VSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSIS  146 (313)
T ss_dssp             GGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEEC----CEEECCGGGGGCTTCCEEECCSSEEESCCCGGGG
T ss_pred             HHhcCccccccccccccccccccccccccccccchhhhcccc----ccccccccccchhhhcccccccccccccCchhhc
Confidence            567889999999997 6776 788877 89999999999999    55555555799999999999999866 4899999


Q ss_pred             CCCCCcEEEccccCCC-Cc-ccccCCCCC-cEEEccCCCCc-cchhhhcCCCCCCEEeccCCCCCCccChhhhcCCCccc
Q 003328           91 RLINLQTLCLDWCQLE-DV-AAIGQLKKL-EILSFRGSDIK-QLPLEIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLE  166 (829)
Q Consensus        91 ~l~~Lr~L~L~~~~l~-~l-~~i~~L~~L-~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~  166 (829)
                      .+++|+++++++|.+. .+ ..+..+.++ ++++++++.++ ..|..++++..+ ++++..+...+.+|.. ++.+++++
T Consensus       147 ~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~-~l~l~~~~~~~~~~~~-~~~~~~l~  224 (313)
T d1ogqa_         147 SLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLA-FVDLSRNMLEGDASVL-FGSDKNTQ  224 (313)
T ss_dssp             GCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCS-EEECCSSEEEECCGGG-CCTTSCCS
T ss_pred             cCcccceeeccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccc-cccccccc
Confidence            9999999999999887 45 778888776 89999999887 456667777555 7999888766667665 78999999


Q ss_pred             EEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCC-CcCCcc-ccccccEEEE
Q 003328          167 ELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ-ILPQDW-VSVELQRYKI  224 (829)
Q Consensus       167 ~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~-~~~~~~-~~~~L~~L~l  224 (829)
                      .+++.++.+.         ..+..+..+++|+.|+++.|++. .+|..+ .+++|+.|++
T Consensus       225 ~l~~~~~~l~---------~~~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~L  275 (313)
T d1ogqa_         225 KIHLAKNSLA---------FDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNV  275 (313)
T ss_dssp             EEECCSSEEC---------CBGGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEEC
T ss_pred             cccccccccc---------ccccccccccccccccCccCeecccCChHHhCCCCCCEEEC
Confidence            9999988664         34566778889999999999886 566543 4455555544

>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=99.48  E-value=3.4e-13  Score=137.86  Aligned_cols=181  Identities=19%  Similarity=0.172  Sum_probs=151.8

Q ss_pred             cCCCCCCcEEEcCCCCCCCCCCcc--CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCch-hhcCC
Q 003328           16 ETIRKDPIAISLPQRDIQELPERL--QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPS-SLGRL   92 (829)
Q Consensus        16 ~~~~~~l~~L~l~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~-~l~~l   92 (829)
                      +..++++++|+++++.+..++...  .+..++.+....+.   ....++...|+++++|++|+++++.+..++. .+...
T Consensus        52 f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~---~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~  128 (284)
T d1ozna_          52 FRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNA---QLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGL  128 (284)
T ss_dssp             TTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCT---TCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTC
T ss_pred             hhcccccccccccccccccccccccccccccccccccccc---ccccccchhhcccccCCEEecCCcccccccccccchh
Confidence            456789999999999999877654  67889998887655   4777877778999999999999999887554 56788


Q ss_pred             CCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEE
Q 003328           93 INLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELY  169 (829)
Q Consensus        93 ~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~  169 (829)
                      .+|+++++++|.++.+  ..+..+.+|++|++++|.++.+|. .+.++++|+++++.+|. +..+++..++.+++|++|+
T Consensus       129 ~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~-l~~i~~~~f~~l~~L~~L~  207 (284)
T d1ozna_         129 AALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNR-VAHVHPHAFRDLGRLMTLY  207 (284)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEE
T ss_pred             cccchhhhccccccccChhHhccccchhhcccccCcccccchhhhccccccchhhhhhcc-ccccChhHhhhhhhccccc
Confidence            9999999999999987  678899999999999999998854 57899999999999988 5555444489999999999


Q ss_pred             ccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          170 MGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       170 l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                      +++|.+.        ......++++++|+.|++++|...
T Consensus       208 l~~N~i~--------~~~~~~~~~~~~L~~L~l~~N~l~  238 (284)
T d1ozna_         208 LFANNLS--------ALPTEALAPLRALQYLRLNDNPWV  238 (284)
T ss_dssp             CCSSCCS--------CCCHHHHTTCTTCCEEECCSSCEE
T ss_pred             ccccccc--------cccccccccccccCEEEecCCCCC
Confidence            9999875        344566788999999999988753

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=1.1e-13  Score=141.34  Aligned_cols=103  Identities=22%  Similarity=0.270  Sum_probs=61.0

Q ss_pred             ccEEEecCCCCCCCchhhcCCCCCcEEEccccCCC--Cc-ccccCCCCCcEEEccCCCCc-cchhhhcCCCCCCEEeccC
Q 003328           72 LKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLE--DV-AAIGQLKKLEILSFRGSDIK-QLPLEIGQLTRLQLLDLSN  147 (829)
Q Consensus        72 Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~--~l-~~i~~L~~L~~L~l~~~~l~-~lp~~i~~L~~L~~L~l~~  147 (829)
                      ...+.++...+...........+|++|++++|.+.  .+ ..+.++++|++|++++|.+. ..+..++++++|++|++++
T Consensus        25 ~~~lrl~~~~~~~~~~~~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~  104 (284)
T d2astb2          25 VIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSG  104 (284)
T ss_dssp             CSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTT
T ss_pred             ceEeeccccccccchhhhccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccc
Confidence            44555554443332223334456777777777654  23 45666777777777777665 4456677777777777777


Q ss_pred             CCCCCccCh-hhhcCCCcccEEEccCCc
Q 003328          148 CSSLVVIAP-NVISKFSRLEELYMGDSF  174 (829)
Q Consensus       148 ~~~l~~lp~-~~l~~L~~L~~L~l~~~~  174 (829)
                      |..+++... .....+++|++|++++|.
T Consensus       105 c~~itd~~l~~l~~~~~~L~~L~ls~c~  132 (284)
T d2astb2         105 CSGFSEFALQTLLSSCSRLDELNLSWCF  132 (284)
T ss_dssp             CBSCCHHHHHHHHHHCTTCCEEECCCCT
T ss_pred             cccccccccchhhHHHHhcccccccccc
Confidence            765554221 113456777777777664

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.41  E-value=5e-13  Score=116.99  Aligned_cols=82  Identities=26%  Similarity=0.282  Sum_probs=37.0

Q ss_pred             cCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccch--hhhcCCCCCCEEe
Q 003328           67 EGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLP--LEIGQLTRLQLLD  144 (829)
Q Consensus        67 ~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp--~~i~~L~~L~~L~  144 (829)
                      .++++|++|++++|.++.+|+.++.+++|++|++++|.++.++.++++++|++|++++|.++.+|  ..++++++|++|+
T Consensus        17 ~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~~~~~l~~L~~L~l~~N~i~~~~~~~~l~~~~~L~~L~   96 (124)
T d1dcea3          17 EQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLN   96 (124)
T ss_dssp             GGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEE
T ss_pred             ccCCCCCEEECCCCccCcchhhhhhhhcccccccccccccccCccccccccCeEECCCCccCCCCCchhhcCCCCCCEEE
Confidence            44444444444444444444444444444444444444444433444444444444444444333  1234444444444


Q ss_pred             ccCC
Q 003328          145 LSNC  148 (829)
Q Consensus       145 l~~~  148 (829)
                      +++|
T Consensus        97 l~~N  100 (124)
T d1dcea3          97 LQGN  100 (124)
T ss_dssp             CTTS
T ss_pred             CCCC
Confidence            4443

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=3.4e-13  Score=124.34  Aligned_cols=109  Identities=17%  Similarity=0.159  Sum_probs=63.2

Q ss_pred             cCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCcccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEec
Q 003328           67 EGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDL  145 (829)
Q Consensus        67 ~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l  145 (829)
                      .+...+|.|+|++|.|+.+|..+..+.+|++|++++|.++.++.+..+++|++|++++|.++.+|.. +..+++|++|++
T Consensus        15 ~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L   94 (162)
T d1a9na_          15 TNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELIL   94 (162)
T ss_dssp             ECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEEC
T ss_pred             cCcCcCcEEECCCCCCCccCccccccccCCEEECCCCCCCccCCcccCcchhhhhcccccccCCCcccccccccccccee
Confidence            4555666666666666666554455666666666666666555566666666666666666655544 245666666666


Q ss_pred             cCCCCCCccCh-hhhcCCCcccEEEccCCccc
Q 003328          146 SNCSSLVVIAP-NVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       146 ~~~~~l~~lp~-~~l~~L~~L~~L~l~~~~~~  176 (829)
                      .+|. +..++. ..+..+++|++|++++|.+.
T Consensus        95 ~~N~-i~~~~~l~~l~~l~~L~~L~l~~N~i~  125 (162)
T d1a9na_          95 TNNS-LVELGDLDPLASLKSLTYLCILRNPVT  125 (162)
T ss_dssp             CSCC-CCCGGGGGGGGGCTTCCEEECCSSGGG
T ss_pred             cccc-ccccccccccccccccchhhcCCCccc
Confidence            6654 444332 12455666666666666543

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.38  E-value=1.2e-12  Score=114.55  Aligned_cols=101  Identities=26%  Similarity=0.293  Sum_probs=84.9

Q ss_pred             cEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc-ccccCCCCCcEEEccCCCCccchhhhcCCCCCCEEeccCCCCC
Q 003328           73 KVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQLLDLSNCSSL  151 (829)
Q Consensus        73 r~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l-~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l  151 (829)
                      |+|++++|+++.++ .+..+++|++|++++|.++.+ ..++.+++|++|++++|.++.+| +++++++|++|++++|. +
T Consensus         1 R~L~Ls~n~l~~l~-~l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l~~N~-i   77 (124)
T d1dcea3           1 RVLHLAHKDLTVLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNNR-L   77 (124)
T ss_dssp             SEEECTTSCCSSCC-CGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSC-C
T ss_pred             CEEEcCCCCCCCCc-ccccCCCCCEEECCCCccCcchhhhhhhhcccccccccccccccC-ccccccccCeEECCCCc-c
Confidence            78999999998887 488899999999999999888 77889999999999999998887 48899999999999877 6


Q ss_pred             CccCh-hhhcCCCcccEEEccCCccc
Q 003328          152 VVIAP-NVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       152 ~~lp~-~~l~~L~~L~~L~l~~~~~~  176 (829)
                      ..++. ..++.+++|++|++++|.+.
T Consensus        78 ~~~~~~~~l~~~~~L~~L~l~~N~i~  103 (124)
T d1dcea3          78 QQSAAIQPLVSCPRLVLLNLQGNSLC  103 (124)
T ss_dssp             CSSSTTGGGGGCTTCCEEECTTSGGG
T ss_pred             CCCCCchhhcCCCCCCEEECCCCcCC
Confidence            66553 23778888999999888765

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=4.5e-13  Score=123.51  Aligned_cols=120  Identities=16%  Similarity=0.159  Sum_probs=58.2

Q ss_pred             CCCCcEEEcCCCCCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhh-cCCCCCc
Q 003328           19 RKDPIAISLPQRDIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSL-GRLINLQ   96 (829)
Q Consensus        19 ~~~l~~L~l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l-~~l~~Lr   96 (829)
                      +.++|+|++++|+|+.++... .+++|++|++++|.    +..++.  |..+++|++|++++|.++.+|..+ ..+++|+
T Consensus        17 ~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~----i~~l~~--~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~   90 (162)
T d1a9na_          17 AVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNE----IRKLDG--FPLLRRLKTLLVNNNRICRIGEGLDQALPDLT   90 (162)
T ss_dssp             TTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSC----CCEECC--CCCCSSCCEEECCSSCCCEECSCHHHHCTTCC
T ss_pred             cCcCcEEECCCCCCCccCccccccccCCEEECCCCC----CCccCC--cccCcchhhhhcccccccCCCccccccccccc
Confidence            345555555555555554432 44555555555555    334432  345555555555555555544332 3455555


Q ss_pred             EEEccccCCCCc---ccccCCCCCcEEEccCCCCccchh----hhcCCCCCCEEe
Q 003328           97 TLCLDWCQLEDV---AAIGQLKKLEILSFRGSDIKQLPL----EIGQLTRLQLLD  144 (829)
Q Consensus        97 ~L~L~~~~l~~l---~~i~~L~~L~~L~l~~~~l~~lp~----~i~~L~~L~~L~  144 (829)
                      +|++++|.++.+   ..+..+++|++|++++|.++..|.    .++.+++|++||
T Consensus        91 ~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          91 ELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             EEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEET
T ss_pred             cceeccccccccccccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeC
Confidence            555555554433   234445555555555554444432    234444444443

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.29  E-value=7e-12  Score=119.53  Aligned_cols=124  Identities=19%  Similarity=0.260  Sum_probs=93.2

Q ss_pred             CcEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEc
Q 003328           22 PIAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSL-PSSLGRLINLQTLCL  100 (829)
Q Consensus        22 l~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~l-p~~l~~l~~Lr~L~L  100 (829)
                      .++++.++++++++|..+. +++++|++++|.   ....++...|.++++|++|++++|.+..+ +..+..+++|++|++
T Consensus        10 ~~~v~Cs~~~L~~iP~~lp-~~l~~L~Ls~N~---i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~L   85 (192)
T d1w8aa_          10 GTTVDCTGRGLKEIPRDIP-LHTTELLLNDNE---LGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQL   85 (192)
T ss_dssp             TTEEECTTSCCSSCCSCCC-TTCSEEECCSCC---CCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CCEEEEeCCCcCccCCCCC-CCCCEEEeCCCC---CcccccccccCCCceEeeeeccccccccccccccccccccceeee
Confidence            3577888888888887653 578888888888   22345555678888888888888888764 455677888888888


Q ss_pred             cccCCCCc--ccccCCCCCcEEEccCCCCccchhh-hcCCCCCCEEeccCCC
Q 003328          101 DWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLE-IGQLTRLQLLDLSNCS  149 (829)
Q Consensus       101 ~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~  149 (829)
                      ++|+++.+  ..|.++++|++|+|++|.++.+|.+ +..+++|++|+++++.
T Consensus        86 s~N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~  137 (192)
T d1w8aa_          86 GENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             CSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCC
T ss_pred             ccccccccCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccccccc
Confidence            88888877  5678888888888888888877554 6777888888887765

>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=99.26  E-value=3.5e-12  Score=129.87  Aligned_cols=176  Identities=18%  Similarity=0.221  Sum_probs=93.0

Q ss_pred             CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-CchhhcCCCCCcEEEcccc-CCCC--c-ccccCC
Q 003328           40 QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-LPSSLGRLINLQTLCLDWC-QLED--V-AAIGQL  114 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lp~~l~~l~~Lr~L~L~~~-~l~~--l-~~i~~L  114 (829)
                      ...+|++|++++|.   ........++..+++|++|+++++.++. .+..+..+++|++|++++| .+++  + ..+..+
T Consensus        44 ~~~~L~~LdLs~~~---i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~  120 (284)
T d2astb2          44 SPFRVQHMDLSNSV---IEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSC  120 (284)
T ss_dssp             CCBCCCEEECTTCE---ECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHC
T ss_pred             cCCCCCEEECCCCc---cCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHH
Confidence            44566777776665   2223333445666777777777666553 4455666667777777665 3542  2 233456


Q ss_pred             CCCcEEEccCC-CCc--cchhhhcC-CCCCCEEeccCCC-CCCccC-hhhhcCCCcccEEEccCCccccccccCCCccch
Q 003328          115 KKLEILSFRGS-DIK--QLPLEIGQ-LTRLQLLDLSNCS-SLVVIA-PNVISKFSRLEELYMGDSFSQWDKVEGGSNASL  188 (829)
Q Consensus       115 ~~L~~L~l~~~-~l~--~lp~~i~~-L~~L~~L~l~~~~-~l~~lp-~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~  188 (829)
                      ++|++|++++| .++  .++..+.+ .++|++|++++|. .+.... .....++++|++|++++|...       .+..+
T Consensus       121 ~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~i-------td~~~  193 (284)
T d2astb2         121 SRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVML-------KNDCF  193 (284)
T ss_dssp             TTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTC-------CGGGG
T ss_pred             HhccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCC-------Cchhh
Confidence            66777777665 333  22333333 3567777766653 122111 111345666777777665432       13345


Q ss_pred             hhhcCCCCCcEEEeecCC-CCC--cCCccccccccEEEEE
Q 003328          189 AELKGLSKLTTLEIHVWD-AQI--LPQDWVSVELQRYKIC  225 (829)
Q Consensus       189 ~~L~~l~~L~~L~l~~~~-~~~--~~~~~~~~~L~~L~l~  225 (829)
                      ..+..+++|++|+++++. +.+  +.....+++|+.|++.
T Consensus       194 ~~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~  233 (284)
T d2astb2         194 QEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVF  233 (284)
T ss_dssp             GGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECT
T ss_pred             hhhcccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeee
Confidence            555566667777776542 221  1111245666666653

>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=99.25  E-value=4.2e-11  Score=118.84  Aligned_cols=103  Identities=17%  Similarity=0.236  Sum_probs=56.5

Q ss_pred             cEEEcCCCCCCCCCCccCCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-Cc-hhhcCCCCCcEEEc
Q 003328           23 IAISLPQRDIQELPERLQCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-LP-SSLGRLINLQTLCL  100 (829)
Q Consensus        23 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-lp-~~l~~l~~Lr~L~L  100 (829)
                      +.++.++.+++++|..+. +++++|++++|.    +..+|...|.++++|++|++++|.+.. ++ ..+..+++++++.+
T Consensus        11 ~~i~c~~~~l~~iP~~l~-~~l~~L~Ls~n~----i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~   85 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDLP-RNAIELRFVLTK----LRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRI   85 (242)
T ss_dssp             SEEEEESCSCSSCCSCSC-SCCSEEEEESCC----CCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEE
T ss_pred             CEEEEeCCCCCCcCCCCC-CCCCEEECcCCc----CCccChhHhhccchhhhhhhccccccceeeccccccccccccccc
Confidence            455555666666665432 356666666666    455655555666666666666665544 22 23455666666655


Q ss_pred             ccc-CCCCc--ccccCCCCCcEEEccCCCCccc
Q 003328          101 DWC-QLEDV--AAIGQLKKLEILSFRGSDIKQL  130 (829)
Q Consensus       101 ~~~-~l~~l--~~i~~L~~L~~L~l~~~~l~~l  130 (829)
                      ..+ .+..+  ..+.++++|++|+++++.+...
T Consensus        86 ~~~n~l~~~~~~~~~~l~~L~~l~l~~~~l~~~  118 (242)
T d1xwdc1          86 EKANNLLYINPEAFQNLPNLQYLLISNTGIKHL  118 (242)
T ss_dssp             ECCTTCCEECTTSEECCTTCCEEEEESCCCCSC
T ss_pred             cccccccccccccccccccccccccchhhhccc
Confidence            443 34333  4455555566666655555443

>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=99.22  E-value=4.3e-11  Score=118.76  Aligned_cols=200  Identities=16%  Similarity=0.155  Sum_probs=146.2

Q ss_pred             ccCCccccCCCCCCcEEEcCCCCCCCCCCc-c-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecC-CCCCC-
Q 003328            9 DVEKKMEETIRKDPIAISLPQRDIQELPER-L-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIG-IHFSS-   84 (829)
Q Consensus         9 ~~~~~~~~~~~~~l~~L~l~~~~~~~l~~~-~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~-~~i~~-   84 (829)
                      ++...|+ ..++++++|++++|.+..+|.. + ++++|++|++++|.   ....++...|.++..++++.+.+ +.+.. 
T Consensus        19 ~l~~iP~-~l~~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~---~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~   94 (242)
T d1xwdc1          19 KVTEIPS-DLPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQND---VLEVIEADVFSNLPKLHEIRIEKANNLLYI   94 (242)
T ss_dssp             SCSSCCS-CSCSCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCT---TCCEECSSSEESCTTCCEEEEECCTTCCEE
T ss_pred             CCCCcCC-CCCCCCCEEECcCCcCCccChhHhhccchhhhhhhcccc---ccceeecccccccccccccccccccccccc
Confidence            3445543 3456899999999999999874 3 89999999999998   34556666679999999999875 45665 


Q ss_pred             CchhhcCCCCCcEEEccccCCCCc---ccccCCCCCcEEEccCCCCccchhh-hcCC-CCCCEEeccCCCCCCccChhhh
Q 003328           85 LPSSLGRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSDIKQLPLE-IGQL-TRLQLLDLSNCSSLVVIAPNVI  159 (829)
Q Consensus        85 lp~~l~~l~~Lr~L~L~~~~l~~l---~~i~~L~~L~~L~l~~~~l~~lp~~-i~~L-~~L~~L~l~~~~~l~~lp~~~l  159 (829)
                      .+..+..+++|++|+++++.+...   ..+..+..+..+...++.+..++.. +..+ ..++.|++.++. +..++.. .
T Consensus        95 ~~~~~~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~-l~~i~~~-~  172 (242)
T d1xwdc1          95 NPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNG-IQEIHNC-A  172 (242)
T ss_dssp             CTTSEECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSC-CCEECTT-T
T ss_pred             ccccccccccccccccchhhhcccccccccccccccccccccccccccccccccccccccceeeeccccc-ccccccc-c
Confidence            445678999999999999988766   3455566666667777778777543 4445 478899998876 7788776 5


Q ss_pred             cCCCcccEEEc-cCCccccccccCCCccchhhhcCCCCCcEEEeecCCCCCcCCccccccccEEE
Q 003328          160 SKFSRLEELYM-GDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQILPQDWVSVELQRYK  223 (829)
Q Consensus       160 ~~L~~L~~L~l-~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~  223 (829)
                      .+..+++++.. .++.+.        .-....+.++++|++|+++++++..+|.. .+.++..|.
T Consensus       173 ~~~~~l~~~~~l~~n~l~--------~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~-~~~~l~~L~  228 (242)
T d1xwdc1         173 FNGTQLDELNLSDNNNLE--------ELPNDVFHGASGPVILDISRTRIHSLPSY-GLENLKKLR  228 (242)
T ss_dssp             TTTCCEEEEECTTCTTCC--------CCCTTTTTTSCCCSEEECTTSCCCCCCSS-SCTTCCEEE
T ss_pred             ccchhhhccccccccccc--------cccHHHhcCCCCCCEEECCCCcCCccCHH-HHcCCcccc
Confidence            66777777654 444443        11223467889999999999999888764 345555553

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.22  E-value=1.7e-11  Score=116.72  Aligned_cols=125  Identities=18%  Similarity=0.197  Sum_probs=98.8

Q ss_pred             CcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCC-C-chhhcCCCCCcEEEccccCCCCc--ccccCCCCCcE
Q 003328           44 LQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSS-L-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEI  119 (829)
Q Consensus        44 Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-l-p~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~  119 (829)
                      .++++.+++.    ...+|..+   ..++++|+|++|.|+. + +..+..+++|++|++++|.+..+  ..+..+.+|++
T Consensus        10 ~~~v~Cs~~~----L~~iP~~l---p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~   82 (192)
T d1w8aa_          10 GTTVDCTGRG----LKEIPRDI---PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQE   82 (192)
T ss_dssp             TTEEECTTSC----CSSCCSCC---CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCE
T ss_pred             CCEEEEeCCC----cCccCCCC---CCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccce
Confidence            4577777777    66788754   3678889999998875 4 34567888999999988888766  77888888999


Q ss_pred             EEccCCCCccchhh-hcCCCCCCEEeccCCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328          120 LSFRGSDIKQLPLE-IGQLTRLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       120 L~l~~~~l~~lp~~-i~~L~~L~~L~l~~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      |++++|.++.+|.. +.++++|++|++++|. +..++.+.+..+++|++|+++++.+.
T Consensus        83 L~Ls~N~l~~l~~~~F~~l~~L~~L~L~~N~-l~~i~~~~f~~l~~L~~l~L~~N~~~  139 (192)
T d1w8aa_          83 LQLGENKIKEISNKMFLGLHQLKTLNLYDNQ-ISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             EECCSCCCCEECSSSSTTCTTCCEEECCSSC-CCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             eeeccccccccCHHHHhCCCcccccccCCcc-ccccCHHHhcCCcccccccccccccc
Confidence            99999888888654 7888899999998877 77887776778888888888887654

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.16  E-value=3.6e-13  Score=128.86  Aligned_cols=125  Identities=20%  Similarity=0.261  Sum_probs=86.7

Q ss_pred             CCCCcEEEcCCC--CCCCCCCcc-CCCCCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCC
Q 003328           19 RKDPIAISLPQR--DIQELPERL-QCPNLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINL   95 (829)
Q Consensus        19 ~~~l~~L~l~~~--~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~L   95 (829)
                      ....+.+.+.+.  .++.++..+ .+++|++|++++|.    +..++.  +.++++|++|++++|.++.+|.....+++|
T Consensus        22 ~~~~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n~----I~~i~~--l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L   95 (198)
T d1m9la_          22 ATEAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNN----IEKISS--LSGMENLRILSLGRNLIKKIENLDAVADTL   95 (198)
T ss_dssp             CTTCSCEECCBCCTTCCCCHHHHHHTTTCCEEECSEEE----ESCCCC--HHHHTTCCEEECCEEEECSCSSHHHHHHHC
T ss_pred             ccccceeeeecccCchhhhhhHHhcccccceeECcccC----CCCccc--ccCCccccChhhcccccccccccccccccc
Confidence            345566666654  344555444 67778888887777    556653  477777888888877777777655556677


Q ss_pred             cEEEccccCCCCcccccCCCCCcEEEccCCCCccchh--hhcCCCCCCEEeccCCC
Q 003328           96 QTLCLDWCQLEDVAAIGQLKKLEILSFRGSDIKQLPL--EIGQLTRLQLLDLSNCS  149 (829)
Q Consensus        96 r~L~L~~~~l~~l~~i~~L~~L~~L~l~~~~l~~lp~--~i~~L~~L~~L~l~~~~  149 (829)
                      ++|++++|.++.++.+.++++|++|++++|.++.++.  .+..+++|++|++++|.
T Consensus        96 ~~L~l~~N~i~~l~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~  151 (198)
T d1m9la_          96 EELWISYNQIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             CEEECSEEECCCHHHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSSH
T ss_pred             cccccccccccccccccccccccccccccchhccccccccccCCCccceeecCCCc
Confidence            7888877777777667777778888887777776653  46777777777777765

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.03  E-value=3.8e-12  Score=121.55  Aligned_cols=128  Identities=20%  Similarity=0.209  Sum_probs=84.8

Q ss_pred             CCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEccccCCCCc-ccccCCCCCcEEE
Q 003328           43 NLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILS  121 (829)
Q Consensus        43 ~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~~l~~l-~~i~~L~~L~~L~  121 (829)
                      ..+.+.+.+..  +.+..++.+ +..+++|++|++++|.|+.++ .+..+++|++|++++|.++.+ ..+..+.+|++|+
T Consensus        24 ~~~~~~l~~~~--~~i~~l~~s-l~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~   99 (198)
T d1m9la_          24 EAEKVELHGMI--PPIEKMDAT-LSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELW   99 (198)
T ss_dssp             TCSCEECCBCC--TTCCCCHHH-HHHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEE
T ss_pred             ccceeeeeccc--CchhhhhhH-HhcccccceeECcccCCCCcc-cccCCccccChhhcccccccccccccccccccccc
Confidence            34455555432  124455555 477788888888887777775 477777888888888777776 3344455677888


Q ss_pred             ccCCCCccchhhhcCCCCCCEEeccCCCCCCccCh-hhhcCCCcccEEEccCCccc
Q 003328          122 FRGSDIKQLPLEIGQLTRLQLLDLSNCSSLVVIAP-NVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       122 l~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~lp~-~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +++|.++.++ .+.++++|++|++++|. +..++. ..++.+++|++|++++|.+.
T Consensus       100 l~~N~i~~l~-~~~~l~~L~~L~L~~N~-i~~~~~~~~l~~l~~L~~L~L~~N~l~  153 (198)
T d1m9la_         100 ISYNQIASLS-GIEKLVNLRVLYMSNNK-ITNWGEIDKLAALDKLEDLLLAGNPLY  153 (198)
T ss_dssp             CSEEECCCHH-HHHHHHHSSEEEESEEE-CCCHHHHHHHTTTTTCSEEEECSSHHH
T ss_pred             cccccccccc-cccccccccccccccch-hccccccccccCCCccceeecCCCccc
Confidence            8877777764 46677778888877765 555542 22677777888877777543

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.81  E-value=1e-08  Score=93.00  Aligned_cols=83  Identities=27%  Similarity=0.213  Sum_probs=44.0

Q ss_pred             cCCCCccEEEecCC-CCCCCc-hhhcCCCCCcEEEccccCCCCc--ccccCCCCCcEEEccCCCCccchhhhcCCCCCCE
Q 003328           67 EGTEELKVLSLIGI-HFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSDIKQLPLEIGQLTRLQL  142 (829)
Q Consensus        67 ~~l~~Lr~L~L~~~-~i~~lp-~~l~~l~~Lr~L~L~~~~l~~l--~~i~~L~~L~~L~l~~~~l~~lp~~i~~L~~L~~  142 (829)
                      ..+++|+.|++.++ .++.++ ..|..+++|++|++++|+++.+  ..|..+++|++|++++|.++.+|.++....+|++
T Consensus        28 ~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~~~l~~  107 (156)
T d2ifga3          28 PGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQE  107 (156)
T ss_dssp             CSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCCSTTTCSCCCCE
T ss_pred             cCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceeccCCCCcccChhhhccccccc
Confidence            44455555555433 244433 2345555555555555555544  3455556666666666666666555444445666


Q ss_pred             EeccCCC
Q 003328          143 LDLSNCS  149 (829)
Q Consensus       143 L~l~~~~  149 (829)
                      |++++|.
T Consensus       108 L~L~~Np  114 (156)
T d2ifga3         108 LVLSGNP  114 (156)
T ss_dssp             EECCSSC
T ss_pred             cccCCCc
Confidence            6666554

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.80  E-value=7.7e-09  Score=93.84  Aligned_cols=104  Identities=18%  Similarity=0.087  Sum_probs=67.1

Q ss_pred             CccEEEecCCCCCCCchhhcCCCCCcEEEcccc-CCCCc--ccccCCCCCcEEEccCCCCccch-hhhcCCCCCCEEecc
Q 003328           71 ELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWC-QLEDV--AAIGQLKKLEILSFRGSDIKQLP-LEIGQLTRLQLLDLS  146 (829)
Q Consensus        71 ~Lr~L~L~~~~i~~lp~~l~~l~~Lr~L~L~~~-~l~~l--~~i~~L~~L~~L~l~~~~l~~lp-~~i~~L~~L~~L~l~  146 (829)
                      ....++.+++.+.+.|..+..+++|++|++.++ .++.+  ..|.++.+|++|++++|+|+.++ ..+..+++|++|+++
T Consensus         9 ~~~~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls   88 (156)
T d2ifga3           9 GSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (156)
T ss_dssp             SSSCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CCCeEEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceecc
Confidence            344556666666666666666777777777655 36665  45677777777777777777663 346677777777777


Q ss_pred             CCCCCCccChhhhcCCCcccEEEccCCccc
Q 003328          147 NCSSLVVIAPNVISKFSRLEELYMGDSFSQ  176 (829)
Q Consensus       147 ~~~~l~~lp~~~l~~L~~L~~L~l~~~~~~  176 (829)
                      +|. +..+|.+ +....+|++|++++|.+.
T Consensus        89 ~N~-l~~l~~~-~~~~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          89 FNA-LESLSWK-TVQGLSLQELVLSGNPLH  116 (156)
T ss_dssp             SSC-CSCCCST-TTCSCCCCEEECCSSCCC
T ss_pred             CCC-CcccChh-hhccccccccccCCCccc
Confidence            766 6666665 333445777777766553

>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=98.77  E-value=6.9e-10  Score=121.04  Aligned_cols=104  Identities=21%  Similarity=0.184  Sum_probs=52.2

Q ss_pred             CCcEEEeecCCCcccccccchhhhcCCCCccEEEecCCCCC-----CCchhhcCCCCCcEEEccccCCCC-----c-ccc
Q 003328           43 NLQLFLLITKGIAPVSMQISDLFFEGTEELKVLSLIGIHFS-----SLPSSLGRLINLQTLCLDWCQLED-----V-AAI  111 (829)
Q Consensus        43 ~Lr~L~l~~~~~~~~~~~lp~~~~~~l~~Lr~L~L~~~~i~-----~lp~~l~~l~~Lr~L~L~~~~l~~-----l-~~i  111 (829)
                      +|++|+++++..   ...--..++..++++|+|+|++|.++     .++..+..+++|++|+|++|.++.     + ..+
T Consensus         3 ~l~~ld~~~~~i---~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l   79 (460)
T d1z7xw1           3 DIQSLDIQCEEL---SDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGL   79 (460)
T ss_dssp             EEEEEEEESCCC---CHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTT
T ss_pred             CCCEEEeeCCcC---ChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHH
Confidence            355566655552   11111223455566666666666554     134445556666666666665542     1 122


Q ss_pred             c-CCCCCcEEEccCCCCcc-----chhhhcCCCCCCEEeccCCC
Q 003328          112 G-QLKKLEILSFRGSDIKQ-----LPLEIGQLTRLQLLDLSNCS  149 (829)
Q Consensus       112 ~-~L~~L~~L~l~~~~l~~-----lp~~i~~L~~L~~L~l~~~~  149 (829)
                      . .-.+|++|++++|.++.     ++..+..+++|++|++++|.
T Consensus        80 ~~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1          80 QTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL  123 (460)
T ss_dssp             CSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             hcCCCCCCEEECCCCCccccccccccchhhcccccccccccccc
Confidence            1 12356666666665542     34445556666666666554

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.62  E-value=1.7e-08  Score=105.29  Aligned_cols=203  Identities=17%  Similarity=0.212  Sum_probs=124.2

Q ss_pred             CCCCCCcEEEcCCCCCCCCCC-----------cc-CCCCCcEEEeecCCCccc-ccccchhhhcCCCCccEEEecCCCCC
Q 003328           17 TIRKDPIAISLPQRDIQELPE-----------RL-QCPNLQLFLLITKGIAPV-SMQISDLFFEGTEELKVLSLIGIHFS   83 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~l~~-----------~~-~~~~Lr~L~l~~~~~~~~-~~~lp~~~~~~l~~Lr~L~L~~~~i~   83 (829)
                      ...++++.++++++.......           .+ .+++|+.|++++|..... ...+.. ++...++|++|++++|.+.
T Consensus        56 ~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~-~l~~~~~L~~L~l~~n~l~  134 (344)
T d2ca6a1          56 ASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLID-FLSKHTPLEHLYLHNNGLG  134 (344)
T ss_dssp             TTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTHHHHHH-HHHHCTTCCEEECCSSCCH
T ss_pred             HhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccccccccccccccchhh-hhcccccchheeccccccc
Confidence            456788888888775543221           11 577888888888873221 112333 3466788888888888764


Q ss_pred             C-----Cch---------hhcCCCCCcEEEccccCCCC-----c-ccccCCCCCcEEEccCCCCcc------chhhhcCC
Q 003328           84 S-----LPS---------SLGRLINLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRGSDIKQ------LPLEIGQL  137 (829)
Q Consensus        84 ~-----lp~---------~l~~l~~Lr~L~L~~~~l~~-----l-~~i~~L~~L~~L~l~~~~l~~------lp~~i~~L  137 (829)
                      .     +..         .....+.|++|.++++.+..     + ..+....+|++|++++|.+..      +...+..+
T Consensus       135 ~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~  214 (344)
T d2ca6a1         135 PQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYC  214 (344)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGC
T ss_pred             ccccccccccccccccccccccCcccceeecccccccccccccccchhhhhhhhcccccccccccccccccchhhhhcch
Confidence            1     111         11346678888888887652     2 456677888888888887752      23346677


Q ss_pred             CCCCEEeccCCCCCCc-----cChhhhcCCCcccEEEccCCccccccccCCCccchhhhcC--CCCCcEEEeecCCCCCc
Q 003328          138 TRLQLLDLSNCSSLVV-----IAPNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKG--LSKLTTLEIHVWDAQIL  210 (829)
Q Consensus       138 ~~L~~L~l~~~~~l~~-----lp~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~--l~~L~~L~l~~~~~~~~  210 (829)
                      ++|++|++++|. ++.     +... +...++|++|++++|.+...    ........+..  .+.|+.|++++|.+..-
T Consensus       215 ~~L~~L~Ls~N~-i~~~g~~~L~~~-l~~~~~L~~L~Ls~n~i~~~----g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~  288 (344)
T d2ca6a1         215 QELKVLDLQDNT-FTHLGSSALAIA-LKSWPNLRELGLNDCLLSAR----GAAAVVDAFSKLENIGLQTLRLQYNEIELD  288 (344)
T ss_dssp             TTCCEEECCSSC-CHHHHHHHHHHH-GGGCTTCCEEECTTCCCCHH----HHHHHHHHHHTCSSCCCCEEECCSSCCBHH
T ss_pred             hhhccccccccc-cccccccccccc-ccccccchhhhhhcCccCch----hhHHHHHHhhhccCCCCCEEECCCCcCChH
Confidence            888888888876 332     2222 56788888888888876410    00111122322  34688888888876431


Q ss_pred             -----CCcc--ccccccEEEEEE
Q 003328          211 -----PQDW--VSVELQRYKICI  226 (829)
Q Consensus       211 -----~~~~--~~~~L~~L~l~~  226 (829)
                           ...+  ..++|+.+++.+
T Consensus       289 ~~~~l~~~l~~~~~~L~~L~l~~  311 (344)
T d2ca6a1         289 AVRTLKTVIDEKMPDLLFLELNG  311 (344)
T ss_dssp             HHHHHHHHHHHHCTTCCEEECTT
T ss_pred             HHHHHHHHHHccCCCCCEEECCC
Confidence                 1111  346788887643

>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=98.59  E-value=4.8e-09  Score=114.21  Aligned_cols=352  Identities=17%  Similarity=0.131  Sum_probs=178.3

Q ss_pred             CCCcEEEcCCCCCCCC--CCcc-CCCCCcEEEeecCCCcc-cccccchhhhcCCCCccEEEecCCCCCC-----Cchhhc
Q 003328           20 KDPIAISLPQRDIQEL--PERL-QCPNLQLFLLITKGIAP-VSMQISDLFFEGTEELKVLSLIGIHFSS-----LPSSLG   90 (829)
Q Consensus        20 ~~l~~L~l~~~~~~~l--~~~~-~~~~Lr~L~l~~~~~~~-~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-----lp~~l~   90 (829)
                      .+|+.|+++++++...  ...+ .++++|+|.+.+|.... ....+.. .+..+++|++|+|++|.++.     +...+.
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~-~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~   80 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISS-ALRVNPALAELNLRSNELGDVGVHCVLQGLQ   80 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHH-HHHTCTTCCEEECTTCCCHHHHHHHHHHTTC
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHH-HHhcCCCCCEEECcCCcCChHHHHHHHHHHh
Confidence            3678999999998742  2222 67899999999998321 1123333 35889999999999998863     333332


Q ss_pred             -CCCCCcEEEccccCCCC-----c-ccccCCCCCcEEEccCCCCcc-----chhhhcC-CCCCCEEeccCCCCCCccCh-
Q 003328           91 -RLINLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRGSDIKQ-----LPLEIGQ-LTRLQLLDLSNCSSLVVIAP-  156 (829)
Q Consensus        91 -~l~~Lr~L~L~~~~l~~-----l-~~i~~L~~L~~L~l~~~~l~~-----lp~~i~~-L~~L~~L~l~~~~~l~~lp~-  156 (829)
                       ...+|++|++++|.+++     + ..+..+++|++|++++|.+..     ++..+.. ............. ...... 
T Consensus        81 ~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~~~~~~~l~~~l~~~~~~~~~~~~~~~~-~~~~~~~  159 (460)
T d1z7xw1          81 TPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCS-LSAASCE  159 (460)
T ss_dssp             STTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CBGGGHH
T ss_pred             cCCCCCCEEECCCCCccccccccccchhhccccccccccccccchhhhhhhhhhcccccccccccccccccc-cchhhhc
Confidence             23579999999998863     3 567889999999999998763     2222222 2233333333322 111110 


Q ss_pred             ---hhhcCCCcccEEEccCCccccccccCCCccchhhhc-CCCCCcEEEeecCCCCCcCC------ccccccccEEEEEE
Q 003328          157 ---NVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELK-GLSKLTTLEIHVWDAQILPQ------DWVSVELQRYKICI  226 (829)
Q Consensus       157 ---~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~-~l~~L~~L~l~~~~~~~~~~------~~~~~~L~~L~l~~  226 (829)
                         ..+.....++.++++.+......    .......+. .......+++..+.......      ......++.+.+..
T Consensus       160 ~~~~~l~~~~~~~~~~ls~~~~~~~~----~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~  235 (460)
T d1z7xw1         160 PLASVLRAKPDFKELTVSNNDINEAG----VRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGS  235 (460)
T ss_dssp             HHHHHHHHCTTCCEEECCSSBCHHHH----HHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCS
T ss_pred             cccccccccccccccccccccccccc----ccccccccccccccccccccccccccchhhhcccccccccccccccchhh
Confidence               11345566777777665432000    000001111 11233444444443321100      01234444444422


Q ss_pred             cccc--------ccCCCCCCCccEEEeccCCccccchhhhhH---HHhhhhheeEeeccccCccc----cccccCCCCCC
Q 003328          227 GEAR--------RIWPVNSETSRLVWLHGLENVSTLLENYGM---KMLLKEAEEIHLIKLKGVQN----VVHELDDGEGF  291 (829)
Q Consensus       227 ~~~~--------~~w~~~~~~~~~~~l~~~~~~~~~l~~~~~---~~~l~~L~~L~L~~~~~~~~----~~~~l~~~~~~  291 (829)
                      ....        ............+.+.....  ........   -...+.++.+++.++.-..+    +...+.  ...
T Consensus       236 n~~~~~~~~~~~~~~~~~~~~l~~l~l~~n~i--~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~~~~l~~~l~--~~~  311 (460)
T d1z7xw1         236 NKLGDVGMAELCPGLLHPSSRLRTLWIWECGI--TAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLL--EPG  311 (460)
T ss_dssp             SBCHHHHHHHHHHHHTSTTCCCCEEECTTSCC--CHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHT--STT
T ss_pred             ccccccccchhhcccccccccccccccccccc--cccccccccccccccccccccccccccccccccchhhcccc--ccc
Confidence            1110        00011112223333332211  11111111   11245677777765532111    111121  234


Q ss_pred             CCCcEEEEeecCCceEEecccCcc-cccccccccceeccccccchhhhcCCCCC--CCCCCCccEEEEecCCCCccccch
Q 003328          292 PRLKHLWVERCSEILHIVGSVGRV-RCTIFPLLESLSLWFLSNLETICDSQLTE--DQSFSNLRIIEVKSCDKLKHLFSF  368 (829)
Q Consensus       292 ~~L~~L~l~~~~~l~~i~~~~~~~-~~~~~~~L~~L~L~~~~~l~~~~~~~l~~--~~~~~~L~~L~i~~C~~L~~l~~~  368 (829)
                      +.|+.+.+.++.-...  +..... .....++|++|+|+++. +.......+.+  ....+.|++|++.+| .+++....
T Consensus       312 ~~L~~l~l~~~~l~~~--~~~~l~~~~~~~~~L~~L~Ls~N~-i~~~g~~~l~~~l~~~~~~L~~L~Ls~n-~i~~~~~~  387 (460)
T d1z7xw1         312 CQLESLWVKSCSFTAA--CCSHFSSVLAQNRFLLELQISNNR-LEDAGVRELCQGLGQPGSVLRVLWLADC-DVSDSSCS  387 (460)
T ss_dssp             CCCCEEECTTSCCBGG--GHHHHHHHHHHCSSCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTS-CCCHHHHH
T ss_pred             cccccccccccchhhh--hhhhcccccccccchhhhheeeec-ccCcccchhhhhhhcccCCCCEEECCCC-CCChHHHH
Confidence            6789999988752110  000000 12345689999998874 33211000100  124567999999999 57663222


Q ss_pred             ---HHHHhhcccceEEEecc
Q 003328          369 ---SMAKNLLRLQKVEVFFC  385 (829)
Q Consensus       369 ---~~~~~l~~L~~L~i~~c  385 (829)
                         ..+...++|++|++++.
T Consensus       388 ~l~~~l~~~~~L~~L~Ls~N  407 (460)
T d1z7xw1         388 SLAATLLANHSLRELDLSNN  407 (460)
T ss_dssp             HHHHHHHHCCCCCEEECCSS
T ss_pred             HHHHHHhcCCCCCEEECCCC
Confidence               23455789999999876

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.57  E-value=3.1e-08  Score=103.25  Aligned_cols=187  Identities=16%  Similarity=0.088  Sum_probs=126.8

Q ss_pred             CCCCCCcEEEcCCCCCCC-----CCCcc-CCCCCcEEEeecCCCcccccccc------hhhhcCCCCccEEEecCCCCCC
Q 003328           17 TIRKDPIAISLPQRDIQE-----LPERL-QCPNLQLFLLITKGIAPVSMQIS------DLFFEGTEELKVLSLIGIHFSS   84 (829)
Q Consensus        17 ~~~~~l~~L~l~~~~~~~-----l~~~~-~~~~Lr~L~l~~~~~~~~~~~lp------~~~~~~l~~Lr~L~L~~~~i~~   84 (829)
                      ....+++.|++++|.+..     +...+ ..++|+.+.+.++.........+      ...+...++|+.|++++|.+..
T Consensus        28 ~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~  107 (344)
T d2ca6a1          28 LEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGP  107 (344)
T ss_dssp             HHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCT
T ss_pred             hhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccccccccccccc
Confidence            456789999999997752     32233 67899999998765211111111      1224678899999999998764


Q ss_pred             -----CchhhcCCCCCcEEEccccCCCC-----c-c---------cccCCCCCcEEEccCCCCc-----cchhhhcCCCC
Q 003328           85 -----LPSSLGRLINLQTLCLDWCQLED-----V-A---------AIGQLKKLEILSFRGSDIK-----QLPLEIGQLTR  139 (829)
Q Consensus        85 -----lp~~l~~l~~Lr~L~L~~~~l~~-----l-~---------~i~~L~~L~~L~l~~~~l~-----~lp~~i~~L~~  139 (829)
                           +...+..+++|++|++++|.+..     + .         .......|+.++++++.+.     .+...+....+
T Consensus       108 ~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~  187 (344)
T d2ca6a1         108 TAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRL  187 (344)
T ss_dssp             TTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTT
T ss_pred             ccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccccccccccchhhhhhh
Confidence                 45566678899999999987642     1 1         1245678999999988765     34555677889


Q ss_pred             CCEEeccCCCCCCcc-----ChhhhcCCCcccEEEccCCccccccccCCCccchhhhcCCCCCcEEEeecCCCC
Q 003328          140 LQLLDLSNCSSLVVI-----APNVISKFSRLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIHVWDAQ  208 (829)
Q Consensus       140 L~~L~l~~~~~l~~l-----p~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  208 (829)
                      |++|++++|. +...     -...+...++|++|++++|.+...    ...+....+...++|++|++++|.+.
T Consensus       188 L~~L~L~~n~-i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~----g~~~L~~~l~~~~~L~~L~Ls~n~i~  256 (344)
T d2ca6a1         188 LHTVKMVQNG-IRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHL----GSSALAIALKSWPNLRELGLNDCLLS  256 (344)
T ss_dssp             CCEEECCSSC-CCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHH----HHHHHHHHGGGCTTCCEEECTTCCCC
T ss_pred             hccccccccc-ccccccccchhhhhcchhhhccccccccccccc----ccccccccccccccchhhhhhcCccC
Confidence            9999999886 4321     111256788999999998876410    01123345677889999999988764

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.61  E-value=3.6e-06  Score=76.29  Aligned_cols=82  Identities=24%  Similarity=0.200  Sum_probs=50.0

Q ss_pred             hhhhcCCCCccEEEecCCCCCCCc---hhhcCCCCCcEEEccccCCCCcccc--cCCCCCcEEEccCCCCccch------
Q 003328           63 DLFFEGTEELKVLSLIGIHFSSLP---SSLGRLINLQTLCLDWCQLEDVAAI--GQLKKLEILSFRGSDIKQLP------  131 (829)
Q Consensus        63 ~~~~~~l~~Lr~L~L~~~~i~~lp---~~l~~l~~Lr~L~L~~~~l~~l~~i--~~L~~L~~L~l~~~~l~~lp------  131 (829)
                      ..++.++++|++|++++|+++.++   ..+..+++|++|++++|.++++..+  .+..+|+.|++++|.+....      
T Consensus        58 ~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y  137 (162)
T d1koha1          58 RIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTY  137 (162)
T ss_dssp             HHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHH
T ss_pred             HHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhH
Confidence            334567778888888888777643   3456677777777777777766221  22345677777777654321      


Q ss_pred             --hhhcCCCCCCEEe
Q 003328          132 --LEIGQLTRLQLLD  144 (829)
Q Consensus       132 --~~i~~L~~L~~L~  144 (829)
                        ..+..+++|++||
T Consensus       138 ~~~i~~~~P~L~~LD  152 (162)
T d1koha1         138 ISAIRERFPKLLRLD  152 (162)
T ss_dssp             HHHHHTTSTTCCEET
T ss_pred             HHHHHHHCCCCCEEC
Confidence              1244556666664

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.57  E-value=1.6e-06  Score=78.71  Aligned_cols=62  Identities=21%  Similarity=0.194  Sum_probs=38.5

Q ss_pred             hhcCCCCCcEEEccccCCCCc----ccccCCCCCcEEEccCCCCccchh-hhcCCCCCCEEeccCCC
Q 003328           88 SLGRLINLQTLCLDWCQLEDV----AAIGQLKKLEILSFRGSDIKQLPL-EIGQLTRLQLLDLSNCS  149 (829)
Q Consensus        88 ~l~~l~~Lr~L~L~~~~l~~l----~~i~~L~~L~~L~l~~~~l~~lp~-~i~~L~~L~~L~l~~~~  149 (829)
                      ....+++|++|++++|+++.+    ..+.++++|++|++++|.|+.++. ...+..+|++|++.+|.
T Consensus        60 ~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Np  126 (162)
T d1koha1          60 IEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNS  126 (162)
T ss_dssp             HHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTST
T ss_pred             HHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCC
Confidence            334567777777777776654    234566777777777777766654 22233456777777665

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.18  E-value=0.00023  Score=64.27  Aligned_cols=38  Identities=13%  Similarity=0.073  Sum_probs=16.9

Q ss_pred             ccCCCCCcEEEccCCCCc-----cchhhhcCCCCCCEEeccCC
Q 003328          111 IGQLKKLEILSFRGSDIK-----QLPLEIGQLTRLQLLDLSNC  148 (829)
Q Consensus       111 i~~L~~L~~L~l~~~~l~-----~lp~~i~~L~~L~~L~l~~~  148 (829)
                      +...+.|++|++++|.+.     .+-..+..-+.|++|++.++
T Consensus        68 L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n  110 (167)
T d1pgva_          68 IETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQ  110 (167)
T ss_dssp             HHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             hhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCC
Confidence            333444555555554443     12223444455555555443

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.04  E-value=0.00072  Score=60.81  Aligned_cols=107  Identities=10%  Similarity=0.042  Sum_probs=61.0

Q ss_pred             CCCCCcEEEeecCC-Ccc-cccccchhhhcCCCCccEEEecCCCCC-----CCchhhcCCCCCcEEEccccCCCC-----
Q 003328           40 QCPNLQLFLLITKG-IAP-VSMQISDLFFEGTEELKVLSLIGIHFS-----SLPSSLGRLINLQTLCLDWCQLED-----  107 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~-~~~-~~~~lp~~~~~~l~~Lr~L~L~~~~i~-----~lp~~l~~l~~Lr~L~L~~~~l~~-----  107 (829)
                      +.++|++|+++++. ... ....+-. .+...++|++|++++|.+.     .+...+...+.|++|++++|.+..     
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~-~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~   91 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIE-AACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLAR   91 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHH-HHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHH
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHH-HHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHH
Confidence            35677777777643 110 0111222 2456677777777777665     244455566777777777777652     


Q ss_pred             c-ccccCCCCCcEEEccCCCCcc--------chhhhcCCCCCCEEeccC
Q 003328          108 V-AAIGQLKKLEILSFRGSDIKQ--------LPLEIGQLTRLQLLDLSN  147 (829)
Q Consensus       108 l-~~i~~L~~L~~L~l~~~~l~~--------lp~~i~~L~~L~~L~l~~  147 (829)
                      + ..+..-+.|++|+++++.+..        +...+..-++|++|+++.
T Consensus        92 l~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~  140 (167)
T d1pgva_          92 LLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISF  140 (167)
T ss_dssp             HHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCC
T ss_pred             HHHHHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHHhCCCccEeeCcC
Confidence            3 556666777777777664432        223344445566665544

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.80  E-value=0.00068  Score=60.97  Aligned_cols=82  Identities=13%  Similarity=0.122  Sum_probs=42.6

Q ss_pred             hhcCCCCccEEEecCC-CCCC-----CchhhcCCCCCcEEEccccCCC-----Cc-ccccCCCCCcEEEccCCCCc----
Q 003328           65 FFEGTEELKVLSLIGI-HFSS-----LPSSLGRLINLQTLCLDWCQLE-----DV-AAIGQLKKLEILSFRGSDIK----  128 (829)
Q Consensus        65 ~~~~l~~Lr~L~L~~~-~i~~-----lp~~l~~l~~Lr~L~L~~~~l~-----~l-~~i~~L~~L~~L~l~~~~l~----  128 (829)
                      +..+.+.|++|+++++ .++.     +-..+...++|++|++++|.+.     .+ ..+....+++.++++++.+.    
T Consensus        12 ~~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~   91 (166)
T d1io0a_          12 IQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGI   91 (166)
T ss_dssp             HHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHH
T ss_pred             HHhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhH
Confidence            3345566666666652 3431     3334445566666666666544     22 34455556666666665443    


Q ss_pred             -cchhhhcCCCCCCEEecc
Q 003328          129 -QLPLEIGQLTRLQLLDLS  146 (829)
Q Consensus       129 -~lp~~i~~L~~L~~L~l~  146 (829)
                       .+-..+...++|+.+++.
T Consensus        92 ~~l~~~l~~~~~L~~l~L~  110 (166)
T d1io0a_          92 LALVEALQSNTSLIELRID  110 (166)
T ss_dssp             HHHHHGGGGCSSCCEEECC
T ss_pred             HHHHHHHHhCccccEEeec
Confidence             233344555555555444

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.48  E-value=0.0014  Score=58.85  Aligned_cols=108  Identities=15%  Similarity=0.118  Sum_probs=71.0

Q ss_pred             CCCCCcEEEeecCC-Ccc-cccccchhhhcCCCCccEEEecCCCCCC-----CchhhcCCCCCcEEEccccCCC-----C
Q 003328           40 QCPNLQLFLLITKG-IAP-VSMQISDLFFEGTEELKVLSLIGIHFSS-----LPSSLGRLINLQTLCLDWCQLE-----D  107 (829)
Q Consensus        40 ~~~~Lr~L~l~~~~-~~~-~~~~lp~~~~~~l~~Lr~L~L~~~~i~~-----lp~~l~~l~~Lr~L~L~~~~l~-----~  107 (829)
                      +.++|+.|.+.++. ... ....+-. .+.+.++|+.|++++|.++.     +-..+...++++.+++++|.+.     .
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~-al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~   93 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAE-ALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA   93 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHH-HHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHH-HHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHH
Confidence            45677777777633 110 1111222 24678889999999888763     4456667788999999988765     3


Q ss_pred             c-ccccCCCCCcEEEccC--CCCc-----cchhhhcCCCCCCEEeccCC
Q 003328          108 V-AAIGQLKKLEILSFRG--SDIK-----QLPLEIGQLTRLQLLDLSNC  148 (829)
Q Consensus       108 l-~~i~~L~~L~~L~l~~--~~l~-----~lp~~i~~L~~L~~L~l~~~  148 (829)
                      + ..+...++|+.+++..  +.+.     .+...+.+.++|++|++..+
T Consensus        94 l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~  142 (166)
T d1io0a_          94 LVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFT  142 (166)
T ss_dssp             HHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             HHHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCC
Confidence            4 6778888898877654  4453     34455667778888877654